Query 014080
Match_columns 431
No_of_seqs 339 out of 1725
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 01:40:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014080.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014080hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12315 DUF3633: Protein of u 100.0 8.3E-43 1.8E-47 324.2 8.5 117 311-427 1-117 (212)
2 KOG2272 Focal adhesion protein 99.9 6.7E-29 1.5E-33 234.8 -3.0 178 146-360 59-252 (332)
3 KOG1701 Focal adhesion adaptor 99.9 3.7E-24 8.1E-29 215.5 -5.6 171 156-357 271-443 (468)
4 KOG4577 Transcription factor L 99.8 6.8E-21 1.5E-25 183.4 -5.4 123 157-291 31-153 (383)
5 KOG1701 Focal adhesion adaptor 99.8 4.8E-20 1E-24 186.0 -0.3 134 146-291 321-462 (468)
6 KOG1703 Adaptor protein Enigma 99.8 6.7E-19 1.5E-23 186.2 8.1 242 157-428 132-374 (479)
7 KOG2272 Focal adhesion protein 99.7 9.7E-19 2.1E-23 166.1 -1.3 136 140-290 175-311 (332)
8 KOG1703 Adaptor protein Enigma 99.7 1.4E-17 3.1E-22 176.2 5.2 173 158-357 302-478 (479)
9 KOG1044 Actin-binding LIM Zn-f 99.6 2E-16 4.2E-21 164.7 5.9 163 157-360 14-190 (670)
10 KOG1044 Actin-binding LIM Zn-f 99.6 1E-16 2.2E-21 166.8 2.2 120 156-290 130-249 (670)
11 PF00412 LIM: LIM domain; Int 99.3 2.6E-12 5.6E-17 97.0 3.4 57 162-218 1-58 (58)
12 KOG1700 Regulatory protein MLP 98.7 3.8E-09 8.3E-14 100.1 -0.1 119 158-290 6-165 (200)
13 PF00412 LIM: LIM domain; Int 98.4 1.6E-07 3.6E-12 70.6 3.5 56 222-290 1-56 (58)
14 smart00132 LIM Zinc-binding do 98.4 3.2E-07 6.9E-12 63.0 3.0 37 161-197 1-38 (39)
15 KOG4577 Transcription factor L 97.8 3.2E-06 7E-11 82.7 -1.8 77 146-222 78-158 (383)
16 KOG1702 Nebulin repeat protein 97.4 2E-05 4.3E-10 74.0 -1.9 61 159-219 4-64 (264)
17 smart00132 LIM Zinc-binding do 97.1 0.00036 7.8E-09 47.6 2.6 37 221-268 1-37 (39)
18 KOG1700 Regulatory protein MLP 97.1 0.00013 2.9E-09 69.2 0.1 63 156-218 105-167 (200)
19 KOG0490 Transcription factor, 97.0 0.00011 2.3E-09 70.1 -1.7 114 164-290 1-118 (235)
20 smart00726 UIM Ubiquitin-inter 90.1 0.23 5.1E-06 31.9 2.0 21 40-60 1-21 (26)
21 PF02809 UIM: Ubiquitin intera 86.9 0.28 6.2E-06 28.9 0.7 16 40-55 2-17 (18)
22 PF14891 Peptidase_M91: Effect 84.4 0.58 1.2E-05 43.3 1.9 18 404-421 104-121 (174)
23 PF13699 DUF4157: Domain of un 83.9 0.59 1.3E-05 37.9 1.5 21 400-420 58-78 (79)
24 PF01431 Peptidase_M13: Peptid 80.8 0.78 1.7E-05 43.0 1.3 16 402-417 35-50 (206)
25 PF13485 Peptidase_MA_2: Pepti 78.7 2.3 5.1E-05 35.5 3.5 24 396-419 18-41 (128)
26 PF10263 SprT-like: SprT-like 78.3 1.4 2.9E-05 39.6 2.0 22 398-419 55-76 (157)
27 PF06114 DUF955: Domain of unk 76.0 2.9 6.3E-05 34.5 3.3 31 390-420 29-59 (122)
28 smart00731 SprT SprT homologue 69.9 3.1 6.6E-05 37.3 2.1 22 399-420 55-76 (146)
29 PHA02456 zinc metallopeptidase 67.8 3 6.4E-05 36.2 1.4 15 405-419 81-95 (141)
30 PF14835 zf-RING_6: zf-RING of 67.7 5 0.00011 31.5 2.5 47 187-233 8-54 (65)
31 KOG0320 Predicted E3 ubiquitin 67.6 1.8 3.8E-05 40.5 0.0 51 255-306 128-178 (187)
32 PF10367 Vps39_2: Vacuolar sor 65.7 31 0.00066 28.4 7.3 30 158-187 77-107 (109)
33 KOG2199 Signal transducing ada 64.4 3.9 8.5E-05 42.7 1.8 26 37-62 161-186 (462)
34 PTZ00415 transmission-blocking 62.2 2.7 5.7E-05 50.9 0.1 53 45-99 132-186 (2849)
35 PF04450 BSP: Peptidase of pla 61.9 4.1 9E-05 39.0 1.4 16 403-418 96-111 (205)
36 PF01421 Reprolysin: Reprolysi 61.4 7.8 0.00017 36.1 3.1 25 390-414 118-142 (199)
37 cd04270 ZnMc_TACE_like Zinc-de 60.7 5 0.00011 39.2 1.8 20 396-415 158-179 (244)
38 PRK14890 putative Zn-ribbon RN 60.2 7.1 0.00015 30.1 2.1 28 158-195 6-34 (59)
39 KOG0320 Predicted E3 ubiquitin 59.3 3.2 7E-05 38.8 0.1 49 184-232 129-180 (187)
40 PF09768 Peptidase_M76: Peptid 59.2 5 0.00011 37.5 1.4 21 400-420 68-88 (173)
41 PF10083 DUF2321: Uncharacteri 58.9 4.6 0.0001 37.0 1.1 54 207-273 28-83 (158)
42 PF10367 Vps39_2: Vacuolar sor 58.9 7 0.00015 32.3 2.1 14 219-232 78-91 (109)
43 COG2856 Predicted Zn peptidase 57.5 9.9 0.00021 36.7 3.1 31 390-420 59-89 (213)
44 PF01447 Peptidase_M4: Thermol 56.7 6.1 0.00013 35.9 1.5 13 404-416 136-148 (150)
45 PRK14873 primosome assembly pr 56.4 8.1 0.00017 43.4 2.7 38 188-228 394-431 (665)
46 cd04267 ZnMc_ADAM_like Zinc-de 55.9 7.3 0.00016 36.0 1.9 24 391-415 122-145 (192)
47 PRK14559 putative protein seri 55.8 11 0.00024 42.1 3.6 9 161-169 3-11 (645)
48 PHA03377 EBNA-3C; Provisional 53.7 9.4 0.0002 42.7 2.5 37 17-53 310-347 (1000)
49 PRK04351 hypothetical protein; 52.8 7.7 0.00017 35.3 1.5 17 404-420 62-78 (149)
50 PHA03378 EBNA-3B; Provisional 52.7 8.7 0.00019 42.8 2.1 37 16-54 303-341 (991)
51 PF04228 Zn_peptidase: Putativ 51.4 9.6 0.00021 38.5 2.0 22 400-421 167-188 (292)
52 PF12773 DZR: Double zinc ribb 51.3 16 0.00035 26.3 2.7 20 281-300 29-48 (50)
53 KOG1702 Nebulin repeat protein 51.2 4.7 0.0001 38.6 -0.2 58 220-291 5-62 (264)
54 PF04298 Zn_peptidase_2: Putat 50.0 9.1 0.0002 37.2 1.5 30 396-425 82-111 (222)
55 PF01435 Peptidase_M48: Peptid 49.3 12 0.00027 34.8 2.3 27 391-417 73-103 (226)
56 PF05572 Peptidase_M43: Pregna 47.7 11 0.00025 34.2 1.8 19 399-418 65-83 (154)
57 PF13240 zinc_ribbon_2: zinc-r 47.4 12 0.00026 23.2 1.3 9 162-170 2-10 (23)
58 smart00504 Ubox Modified RING 46.7 14 0.0003 27.6 1.8 44 187-231 2-47 (63)
59 PF13920 zf-C3HC4_3: Zinc fing 46.6 10 0.00022 27.4 1.1 44 187-231 3-49 (50)
60 PRK04860 hypothetical protein; 46.1 13 0.00029 34.2 1.9 19 401-419 61-79 (160)
61 KOG0490 Transcription factor, 46.0 4.8 0.0001 38.0 -1.0 52 253-305 18-69 (235)
62 PF14634 zf-RING_5: zinc-RING 45.1 21 0.00046 25.2 2.5 42 261-302 2-43 (44)
63 PF06677 Auto_anti-p27: Sjogre 44.9 15 0.00033 26.2 1.7 21 261-287 20-40 (41)
64 PF13688 Reprolysin_5: Metallo 44.7 14 0.00029 34.2 1.8 17 399-415 138-154 (196)
65 PF00413 Peptidase_M10: Matrix 44.2 12 0.00027 32.8 1.4 16 399-414 101-116 (154)
66 cd00203 ZnMc Zinc-dependent me 44.0 15 0.00034 32.6 2.0 16 400-415 93-108 (167)
67 COG4357 Zinc finger domain con 44.0 3.6 7.9E-05 34.7 -1.9 50 161-210 37-86 (105)
68 smart00235 ZnMc Zinc-dependent 44.0 11 0.00024 32.9 1.0 9 406-414 89-97 (140)
69 PF10235 Cript: Microtubule-as 43.8 14 0.00031 30.9 1.6 42 182-231 40-81 (90)
70 TIGR00595 priA primosomal prot 43.6 18 0.00039 39.1 2.8 38 188-228 224-262 (505)
71 PF01863 DUF45: Protein of unk 42.9 19 0.00042 33.3 2.6 27 389-415 150-176 (205)
72 KOG1813 Predicted E3 ubiquitin 42.5 13 0.00029 37.4 1.4 46 186-232 241-288 (313)
73 PF14247 DUF4344: Domain of un 42.2 17 0.00037 35.2 2.1 21 404-424 93-113 (220)
74 PF14471 DUF4428: Domain of un 41.7 10 0.00022 28.3 0.4 29 188-217 1-30 (51)
75 PF01433 Peptidase_M1: Peptida 41.1 12 0.00027 38.1 1.0 14 403-416 295-308 (390)
76 cd04268 ZnMc_MMP_like Zinc-dep 41.0 14 0.00031 32.9 1.3 12 403-414 94-105 (165)
77 PF08219 TOM13: Outer membrane 40.1 20 0.00043 29.0 1.8 22 400-422 49-70 (77)
78 PF09943 DUF2175: Uncharacteri 40.0 8 0.00017 33.0 -0.4 28 161-188 4-32 (101)
79 COG2191 Formylmethanofuran deh 39.8 14 0.0003 35.4 1.0 29 188-216 174-202 (206)
80 KOG3624 M13 family peptidase [ 39.7 14 0.0003 41.4 1.3 15 401-415 516-530 (687)
81 COG1645 Uncharacterized Zn-fin 39.7 16 0.00035 32.6 1.4 24 260-290 30-53 (131)
82 COG2738 Predicted Zn-dependent 39.4 16 0.00035 34.9 1.4 29 396-424 85-113 (226)
83 smart00504 Ubox Modified RING 39.3 16 0.00035 27.2 1.2 44 259-305 2-45 (63)
84 PRK00420 hypothetical protein; 39.1 19 0.00042 31.3 1.7 25 260-290 25-49 (112)
85 cd04269 ZnMc_adamalysin_II_lik 39.1 28 0.00061 32.2 3.0 16 400-415 128-143 (194)
86 PF14446 Prok-RING_1: Prokaryo 38.9 16 0.00034 27.8 1.0 13 159-171 5-17 (54)
87 PF12674 Zn_ribbon_2: Putative 38.9 15 0.00032 30.1 0.9 31 260-290 2-35 (81)
88 PRK04897 heat shock protein Ht 38.6 24 0.00052 35.5 2.6 18 397-414 131-148 (298)
89 COG1645 Uncharacterized Zn-fin 38.0 18 0.00039 32.3 1.4 22 188-214 30-51 (131)
90 PF06037 DUF922: Bacterial pro 37.8 68 0.0015 29.5 5.3 27 392-418 59-101 (161)
91 PRK04023 DNA polymerase II lar 37.4 41 0.00089 39.4 4.4 55 156-233 623-677 (1121)
92 COG1451 Predicted metal-depend 37.2 18 0.00038 35.1 1.3 26 389-414 161-186 (223)
93 PF13574 Reprolysin_2: Metallo 37.0 19 0.0004 33.2 1.4 13 403-415 111-123 (173)
94 PF11781 RRN7: RNA polymerase 36.5 21 0.00046 24.6 1.3 25 187-215 9-33 (36)
95 PRK14015 pepN aminopeptidase N 36.3 17 0.00038 42.1 1.3 14 403-416 296-309 (875)
96 PF00645 zf-PARP: Poly(ADP-rib 36.0 12 0.00027 29.9 0.1 17 157-173 5-21 (82)
97 cd06159 S2P-M50_PDZ_Arch Uncha 35.0 24 0.00051 35.1 1.9 27 395-422 111-138 (263)
98 cd06162 S2P-M50_PDZ_SREBP Ster 35.0 24 0.00051 35.5 1.9 18 402-419 134-151 (277)
99 PRK12495 hypothetical protein; 34.8 1E+02 0.0023 29.9 6.1 28 159-197 42-69 (226)
100 cd04279 ZnMc_MMP_like_1 Zinc-d 34.8 20 0.00043 32.0 1.2 15 400-414 101-115 (156)
101 COG5549 Predicted Zn-dependent 34.7 18 0.00038 35.0 0.9 39 388-427 172-210 (236)
102 cd00162 RING RING-finger (Real 34.5 17 0.00036 24.3 0.5 40 189-228 2-44 (45)
103 KOG3714 Meprin A metalloprotea 34.3 18 0.00039 38.2 1.0 11 405-415 161-171 (411)
104 PRK03982 heat shock protein Ht 34.1 20 0.00044 35.7 1.3 17 398-414 120-136 (288)
105 PRK03001 M48 family peptidase; 34.1 20 0.00044 35.6 1.3 17 398-414 119-135 (283)
106 PF08394 Arc_trans_TRASH: Arch 33.7 23 0.0005 24.8 1.1 29 162-193 1-30 (37)
107 KOG3931 Uncharacterized conser 32.9 25 0.00054 36.4 1.7 22 399-420 101-122 (484)
108 COG2888 Predicted Zn-ribbon RN 32.5 20 0.00043 27.8 0.7 16 260-275 11-26 (61)
109 PRK01345 heat shock protein Ht 32.4 36 0.00077 34.7 2.7 16 399-414 120-135 (317)
110 PRK14714 DNA polymerase II lar 32.1 49 0.0011 39.7 4.1 13 407-419 906-918 (1337)
111 COG1198 PriA Primosomal protei 31.3 41 0.0009 38.2 3.2 39 187-228 445-484 (730)
112 COG0501 HtpX Zn-dependent prot 31.2 26 0.00056 34.4 1.5 18 398-415 152-169 (302)
113 PHA02608 67 prohead core prote 30.9 42 0.0009 27.3 2.3 11 44-54 34-44 (80)
114 TIGR02411 leuko_A4_hydro leuko 30.9 23 0.00051 39.2 1.2 12 405-416 281-292 (601)
115 PF12156 ATPase-cat_bd: Putati 30.6 28 0.00061 28.7 1.4 12 221-232 2-13 (88)
116 PF07191 zinc-ribbons_6: zinc- 30.6 31 0.00066 27.6 1.5 25 206-230 16-41 (70)
117 PF04931 DNA_pol_phi: DNA poly 30.0 25 0.00055 40.1 1.3 11 125-135 738-748 (784)
118 cd06161 S2P-M50_SpoIVFB SpoIVF 29.4 50 0.0011 31.3 3.1 22 401-422 36-58 (208)
119 TIGR00181 pepF oligoendopeptid 29.3 29 0.00062 38.1 1.6 13 405-417 380-392 (591)
120 PRK05580 primosome assembly pr 29.3 40 0.00087 37.9 2.7 38 188-228 392-430 (679)
121 KOG0957 PHD finger protein [Ge 29.3 50 0.0011 35.8 3.2 91 207-305 170-262 (707)
122 PF04502 DUF572: Family of unk 29.3 39 0.00084 34.5 2.4 10 259-268 78-87 (324)
123 PF13834 DUF4193: Domain of un 28.8 18 0.00039 30.8 -0.1 28 259-287 71-98 (99)
124 cd04281 ZnMc_BMP1_TLD Zinc-dep 28.6 28 0.00061 33.2 1.1 11 405-415 89-99 (200)
125 PF10460 Peptidase_M30: Peptid 28.1 30 0.00065 36.1 1.4 16 402-417 138-156 (366)
126 TIGR02412 pepN_strep_liv amino 27.9 33 0.00072 39.5 1.8 13 404-416 288-300 (831)
127 PF09471 Peptidase_M64: IgA Pe 27.9 33 0.00072 34.1 1.6 19 402-420 215-233 (264)
128 PF13582 Reprolysin_3: Metallo 27.9 31 0.00067 29.2 1.2 12 404-415 108-119 (124)
129 cd04278 ZnMc_MMP Zinc-dependen 27.7 26 0.00057 31.3 0.8 18 400-418 104-121 (157)
130 TIGR02289 M3_not_pepF oligoend 27.5 36 0.00078 37.1 1.9 13 405-417 339-351 (549)
131 TIGR02414 pepN_proteo aminopep 27.3 31 0.00067 40.0 1.4 13 404-416 284-296 (863)
132 cd04272 ZnMc_salivary_gland_MP 27.3 35 0.00076 32.4 1.6 15 401-415 143-157 (220)
133 PF13583 Reprolysin_4: Metallo 27.1 31 0.00068 32.7 1.2 11 405-415 139-149 (206)
134 cd06164 S2P-M50_SpoIVFB_CBS Sp 27.1 50 0.0011 32.0 2.6 22 401-422 51-73 (227)
135 PRK05457 heat shock protein Ht 27.0 31 0.00068 34.5 1.3 18 397-414 128-145 (284)
136 KOG3854 SPRT-like metalloprote 26.8 32 0.0007 36.9 1.3 20 400-419 348-369 (505)
137 COG2191 Formylmethanofuran deh 26.8 27 0.00059 33.4 0.7 30 259-290 173-202 (206)
138 PF12725 DUF3810: Protein of u 26.6 33 0.00071 35.0 1.3 18 396-413 189-206 (318)
139 cd06160 S2P-M50_like_2 Unchara 26.5 40 0.00088 31.6 1.8 25 401-425 39-64 (183)
140 KOG4739 Uncharacterized protei 26.3 44 0.00095 32.8 2.0 34 198-231 15-49 (233)
141 PLN03208 E3 ubiquitin-protein 25.7 67 0.0015 30.6 3.1 12 220-231 69-80 (193)
142 KOG3411 40S ribosomal protein 25.6 60 0.0013 29.1 2.6 55 2-57 73-142 (143)
143 PF06689 zf-C4_ClpX: ClpX C4-t 25.5 45 0.00098 23.5 1.5 31 260-290 3-33 (41)
144 PRK03072 heat shock protein Ht 25.5 33 0.00072 34.3 1.1 18 397-414 121-138 (288)
145 cd04327 ZnMc_MMP_like_3 Zinc-d 25.3 42 0.00092 31.4 1.7 13 403-415 92-104 (198)
146 PF13923 zf-C3HC4_2: Zinc fing 25.3 37 0.0008 23.2 1.0 37 261-299 1-37 (39)
147 COG5152 Uncharacterized conser 25.3 19 0.00041 34.4 -0.6 46 186-232 196-243 (259)
148 cd04282 ZnMc_meprin Zinc-depen 25.2 34 0.00074 33.4 1.1 11 405-415 122-132 (230)
149 PRK02870 heat shock protein Ht 24.7 37 0.0008 35.0 1.3 24 391-414 157-184 (336)
150 KOG1047 Bifunctional leukotrie 24.7 34 0.00074 37.5 1.1 13 404-416 289-301 (613)
151 PF01432 Peptidase_M3: Peptida 24.6 1.6E+02 0.0034 31.1 6.1 17 404-420 243-259 (458)
152 PRK02391 heat shock protein Ht 24.5 34 0.00073 34.5 0.9 19 397-415 127-145 (296)
153 cd04283 ZnMc_hatching_enzyme Z 24.3 38 0.00083 31.8 1.2 11 405-415 79-89 (182)
154 KOG0978 E3 ubiquitin ligase in 24.1 19 0.00042 40.4 -1.0 27 207-233 663-692 (698)
155 PF13203 DUF2201_N: Putative m 23.6 51 0.0011 32.7 2.0 21 396-416 53-73 (292)
156 COG5152 Uncharacterized conser 23.5 25 0.00054 33.6 -0.2 44 259-305 197-240 (259)
157 PF12388 Peptidase_M57: Dual-a 23.1 66 0.0014 31.1 2.6 20 396-415 126-145 (211)
158 KOG2921 Intramembrane metallop 23.1 49 0.0011 34.9 1.8 25 394-418 119-146 (484)
159 PF01258 zf-dskA_traR: Prokary 23.0 9.4 0.0002 26.0 -2.4 26 189-214 6-31 (36)
160 PF14835 zf-RING_6: zf-RING of 22.8 66 0.0014 25.4 2.0 43 259-305 8-50 (65)
161 PF07754 DUF1610: Domain of un 22.7 48 0.001 21.0 1.0 10 222-231 1-10 (24)
162 KOG1818 Membrane trafficking a 22.7 53 0.0012 36.6 2.1 23 37-59 250-272 (634)
163 PF04502 DUF572: Family of unk 22.7 44 0.00095 34.1 1.4 14 218-231 76-89 (324)
164 PLN02195 cellulose synthase A 22.5 59 0.0013 38.1 2.4 53 157-230 4-59 (977)
165 PF01400 Astacin: Astacin (Pep 22.5 47 0.001 31.1 1.4 13 403-415 79-91 (191)
166 PRK14714 DNA polymerase II lar 22.2 77 0.0017 38.1 3.3 11 221-231 711-721 (1337)
167 PRK01265 heat shock protein Ht 22.2 55 0.0012 33.6 2.0 24 391-414 124-151 (324)
168 KOG1832 HIV-1 Vpr-binding prot 22.1 38 0.00081 39.3 0.8 29 62-90 1401-1429(1516)
169 PF10026 DUF2268: Predicted Zn 22.0 81 0.0017 29.6 2.9 14 402-415 64-77 (195)
170 PLN02638 cellulose synthase A 21.8 76 0.0016 37.6 3.2 34 156-197 14-47 (1079)
171 KOG2475 CDC45 (cell division c 21.5 1E+02 0.0022 33.7 3.8 12 95-106 173-184 (587)
172 COG5414 TATA-binding protein-a 21.3 1.2E+02 0.0026 30.8 4.0 9 39-47 271-279 (392)
173 PRK14559 putative protein seri 20.9 71 0.0015 35.9 2.6 19 412-430 168-188 (645)
174 PF10462 Peptidase_M66: Peptid 20.8 48 0.001 33.7 1.2 14 403-416 193-206 (305)
175 PF09943 DUF2175: Uncharacteri 20.7 30 0.00065 29.6 -0.2 31 187-217 3-34 (101)
176 TIGR02290 M3_fam_3 oligoendope 20.5 50 0.0011 36.3 1.4 12 405-416 377-388 (587)
177 PF10122 Mu-like_Com: Mu-like 20.5 32 0.00068 25.8 -0.1 27 259-288 5-31 (51)
178 cd06459 M3B_Oligoendopeptidase 20.3 51 0.0011 34.1 1.3 14 405-418 224-237 (427)
179 PRK11827 hypothetical protein; 20.2 81 0.0017 24.4 2.0 14 314-327 36-49 (60)
180 COG5148 RPN10 26S proteasome r 20.2 37 0.0008 32.4 0.2 26 42-67 207-232 (243)
181 KOG3314 Ku70-binding protein [ 20.2 56 0.0012 30.4 1.4 15 404-418 92-106 (194)
182 PF02318 FYVE_2: FYVE-type zin 20.2 2.4E+02 0.0053 24.2 5.3 12 158-169 53-64 (118)
183 KOG2661 Peptidase family M48 [ 20.1 58 0.0013 33.7 1.6 15 404-418 276-290 (424)
184 KOG1189 Global transcriptional 20.0 59 0.0013 37.0 1.8 60 64-123 897-956 (960)
No 1
>PF12315 DUF3633: Protein of unknown function (DUF3633); InterPro: IPR022087 This domain family is found in bacteria and eukaryotes, and is approximately 210 amino acids in length. The family is found in association with PF00412 from PFAM.
Probab=100.00 E-value=8.3e-43 Score=324.20 Aligned_cols=117 Identities=79% Similarity=1.236 Sum_probs=115.0
Q ss_pred hccccccccccchhhhHHHHHHHhcCCcCCccCCcccCCcccccccceeeeecccccCCCcceeeeeccceecccceEEE
Q 014080 311 GLNMKVEQQVPLLLVERQALNEAMEGEKNGHHHLPETRGLCLSEEQTVTTVLRRPRIGAGYRLIDMITEPYRLIRRCEVT 390 (431)
Q Consensus 311 ~l~~~~~~~~pl~lv~~~ALn~~~~~e~~g~~~~~e~rGl~~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ 390 (431)
+|||||++++||+||+++|||+|.++|++|++|.++|||||+||+|+++||.|+|++|+|+++++|.++|++++|+|+||
T Consensus 1 ~lnmki~q~~PllLVe~~aLN~a~~~Ek~~~~~~~~tRGLclseeq~v~sv~~~p~~~~~~~~~~~~~e~~~~~~~~eV~ 80 (212)
T PF12315_consen 1 GLNMKIEQEIPLLLVERQALNEAEEGEKIGHHHMPETRGLCLSEEQTVTSVLRRPRMGPGNQLIDMSTEPQRLTRGCEVT 80 (212)
T ss_pred CCCCcccCCCCeEEecHHHHHHHHhhccCCCCCCeeeeeeeeeeeEEEEEEEecCCcCCCCccceeeecceeeccceeEE
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEecCCChhhhhhHHHHhhhHhHhhhcCCCCCcee
Q 014080 391 AILILYGLPRLLTGSILAHEMMHAWLRLKGFICFKLI 427 (431)
Q Consensus 391 ~il~l~glprl~~g~ilaHE~~Ha~lrl~g~~~l~~~ 427 (431)
+|||||||||++||||||||||||||||+||++|++.
T Consensus 81 ~Ilvl~GLPrll~gsiLAHE~mHa~Lrl~g~~~L~~~ 117 (212)
T PF12315_consen 81 AILVLYGLPRLLTGSILAHELMHAWLRLNGFPNLSPE 117 (212)
T ss_pred EEEEECCCCHHHHhhHHHHHHHHHHhcccCCCCCChH
Confidence 9999999999999999999999999999999999974
No 2
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=99.94 E-value=6.7e-29 Score=234.83 Aligned_cols=178 Identities=26% Similarity=0.542 Sum_probs=157.5
Q ss_pred CCCcCCCCCC-CCCCCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceeecCCccccccccccc-----cC
Q 014080 146 SGNIFQPFPF-FSGYRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQ-----HH 219 (431)
Q Consensus 146 ~g~~~~p~~~-~~~~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~-----f~ 219 (431)
.|..|+.-++ ...+|.|++|++.| .|++|.+|+.+|||.||+|..|++.|.+..|+...|+.+|..|-.+. ..
T Consensus 59 EgRkYCEhDF~~LfaPcC~kC~EFi-iGrVikamnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~ 137 (332)
T KOG2272|consen 59 EGRKYCEHDFHVLFAPCCGKCGEFI-IGRVIKAMNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGR 137 (332)
T ss_pred cCcccccccchhhhchhhcccccch-hhHHHHhhccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccce
Confidence 5677888887 78999999999999 59999999999999999999999999999999999999999998752 24
Q ss_pred cccccCCCccccCCcceEEEecccccccccCCCcccCCCCccCCCCCccCCCCceEEccCCcccCcchhhcccCCCCCCC
Q 014080 220 PKCDVCQNFIPTNSAGLIEYRAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDSAIMDTHECQ 299 (431)
Q Consensus 220 pkC~~C~~~I~~~~~~~i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~v~~~~~C~ 299 (431)
..|..|+..|... .+.+++.|| |...|+|..|++.|....+-+ .|.+||+.|+++ |..|+|.
T Consensus 138 YvC~KCh~~iD~~---~l~fr~d~y----------H~yHFkCt~C~keL~sdaRev---k~eLyClrChD~--mgipiCg 199 (332)
T KOG2272|consen 138 YVCQKCHAHIDEQ---PLTFRGDPY----------HPYHFKCTTCGKELTSDAREV---KGELYCLRCHDK--MGIPICG 199 (332)
T ss_pred eehhhhhhhcccc---cccccCCCC----------Cccceecccccccccchhhhh---ccceeccccccc--cCCcccc
Confidence 5799999999874 588999985 555599999999998887765 579999999999 9999999
Q ss_pred cccHHHHHHHhhccccccccccchhhhHHHHHHHhcC----------CcCCccCCcccCCcccccccceee
Q 014080 300 PLYLEIQEFYEGLNMKVEQQVPLLLVERQALNEAMEG----------EKNGHHHLPETRGLCLSEEQTVTT 360 (431)
Q Consensus 300 ~C~~~I~~f~~~l~~~~~~~~pl~lv~~~ALn~~~~~----------e~~g~~~~~e~rGl~~~E~~~~~~ 360 (431)
+|.+||. .++ +.|||++|+. ++.||.|| |++||+|||+||+.+
T Consensus 200 aC~rpIe-----------erv------i~amgKhWHveHFvCa~CekPFlGHrHY-EkkGlaYCe~h~~qL 252 (332)
T KOG2272|consen 200 ACRRPIE-----------ERV------IFAMGKHWHVEHFVCAKCEKPFLGHRHY-EKKGLAYCETHYHQL 252 (332)
T ss_pred cccCchH-----------HHH------HHHhccccchhheeehhcCCcccchhhh-hhcCchhHHHHHHHH
Confidence 9999885 444 7899999965 57899998 999999999999877
No 3
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=99.86 E-value=3.7e-24 Score=215.53 Aligned_cols=171 Identities=21% Similarity=0.419 Sum_probs=144.0
Q ss_pred CCCCCcCCCCCccccc-CceEeecCccccCCCcccCCCCCCCCCcceeecCCccccccccccccCcccccCCCccccCCc
Q 014080 156 FSGYRICAGCNTEIGH-GRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQHHPKCDVCQNFIPTNSA 234 (431)
Q Consensus 156 ~~~~~~C~~C~k~I~~-g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f~pkC~~C~~~I~~~~~ 234 (431)
.....+|.+|+|.|.. +..++||++.||..||+|..|++.|.++.||..++++||+.||.. ...||.+|++.|.+.
T Consensus 271 ~~~~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~-tlekC~~Cg~~I~d~-- 347 (468)
T KOG1701|consen 271 EDYFGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQD-TLEKCNKCGEPIMDR-- 347 (468)
T ss_pred hhhhhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHH-HHHHHhhhhhHHHHH--
Confidence 3445699999999953 255899999999999999999999999999999999999999986 567999999999974
Q ss_pred ceEEEecccccccccCCCcccCCCCccCCCCCccCCCCceEEccCCcccCcchhhcccCCCCCCCcccHHHHHHHhhccc
Q 014080 235 GLIEYRAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDSAIMDTHECQPLYLEIQEFYEGLNM 314 (431)
Q Consensus 235 ~~i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~v~~~~~C~~C~~~I~~f~~~l~~ 314 (431)
++.+.++. ||.+||+|.+|.+.| .|..|....++++||..||.+ +++++|+.|.++| |
T Consensus 348 -iLrA~Gka----------yHp~CF~Cv~C~r~l-dgipFtvd~~n~v~Cv~dfh~--kfAPrCs~C~~PI--------~ 405 (468)
T KOG1701|consen 348 -ILRALGKA----------YHPGCFTCVVCARCL-DGIPFTVDSQNNVYCVPDFHK--KFAPRCSVCGNPI--------L 405 (468)
T ss_pred -HHHhcccc----------cCCCceEEEEecccc-CCccccccCCCceeeehhhhh--hcCcchhhccCCc--------c
Confidence 67777775 499999999999999 789999999999999999999 9999999999999 6
Q ss_pred cccccccchhhhHHHHHHHhcCCcCCccCCcccCCcccc-cccc
Q 014080 315 KVEQQVPLLLVERQALNEAMEGEKNGHHHLPETRGLCLS-EEQT 357 (431)
Q Consensus 315 ~~~~~~pl~lv~~~ALn~~~~~e~~g~~~~~e~rGl~~~-E~~~ 357 (431)
|-+++-. .|.+.||++.+|...- + -|..||-|| |+.-
T Consensus 406 P~~G~~e--tvRvvamdr~fHv~CY---~-CEDCg~~LS~e~e~ 443 (468)
T KOG1701|consen 406 PRDGKDE--TVRVVAMDRDFHVNCY---K-CEDCGLLLSSEEEG 443 (468)
T ss_pred CCCCCcc--eEEEEEccccccccce---e-hhhcCccccccCCC
Confidence 7765431 2456688888876542 2 377888888 5543
No 4
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=99.77 E-value=6.8e-21 Score=183.45 Aligned_cols=123 Identities=26% Similarity=0.567 Sum_probs=110.7
Q ss_pred CCCCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceeecCCccccccccccccCcccccCCCccccCCcce
Q 014080 157 SGYRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQHHPKCDVCQNFIPTNSAGL 236 (431)
Q Consensus 157 ~~~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f~pkC~~C~~~I~~~~~~~ 236 (431)
...++|++|.+.|.+.-+++++++.||..|++|+.|..+|++.+|. ++|.+||+.+|.++|+++|..|+..|++..
T Consensus 31 ~eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~drCFs-R~~s~yCkedFfKrfGTKCsaC~~GIpPtq--- 106 (383)
T KOG4577|consen 31 VEIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADRCFS-REGSVYCKEDFFKRFGTKCSACQEGIPPTQ--- 106 (383)
T ss_pred cccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHHHhh-cCCceeehHHHHHHhCCcchhhcCCCChHH---
Confidence 3678999999999755667999999999999999999999998877 589999999999999999999999999853
Q ss_pred EEEecccccccccCCCcccCCCCccCCCCCccCCCCceEEccCCcccCcchhhcc
Q 014080 237 IEYRAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDSA 291 (431)
Q Consensus 237 i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~ 291 (431)
+..+...| .||..||.|..|+|.|..|+.|+.+.|++++|+..|+++
T Consensus 107 VVRkAqd~--------VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~A 153 (383)
T KOG4577|consen 107 VVRKAQDF--------VYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETA 153 (383)
T ss_pred HHHHhhcc--------eeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHH
Confidence 44555555 689999999999999999999999999999999999875
No 5
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=99.76 E-value=4.8e-20 Score=186.00 Aligned_cols=134 Identities=23% Similarity=0.474 Sum_probs=117.2
Q ss_pred CCCcCCCCCCCCCCCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceee-cCCccccccccccccCccccc
Q 014080 146 SGNIFQPFPFFSGYRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSM-SGNRPYHKHCYKEQHHPKCDV 224 (431)
Q Consensus 146 ~g~~~~p~~~~~~~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~-~dg~pyC~~CY~~~f~pkC~~ 224 (431)
.++.||...+.....+|..|+++|. .+++.|+|+.||+.||+|..|++.|.+..|.+ .++++||..||+++|+|+|+.
T Consensus 321 ~~k~~CE~cyq~tlekC~~Cg~~I~-d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~ 399 (468)
T KOG1701|consen 321 DGKPYCEGCYQDTLEKCNKCGEPIM-DRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSV 399 (468)
T ss_pred CCcccchHHHHHHHHHHhhhhhHHH-HHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhh
Confidence 4566776666777889999999994 89999999999999999999999999999986 788999999999999999999
Q ss_pred CCCccccCC----cceEEEecccccccccCCCcccCCCCccCCCCCccC---CCCceEEccCCcccCcchhhcc
Q 014080 225 CQNFIPTNS----AGLIEYRAHPFWLQKYCPSHERDGTPRCCSCERMEP---RDTKYLSLDDGRKLCLECLDSA 291 (431)
Q Consensus 225 C~~~I~~~~----~~~i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~---~g~~f~~l~dG~~yC~~C~~~~ 291 (431)
|+++|...+ ...|+.+++.| |.+|++|-.|+.+|+ .|...+.+ ||.++|+.|..+.
T Consensus 400 C~~PI~P~~G~~etvRvvamdr~f----------Hv~CY~CEDCg~~LS~e~e~qgCyPl-d~HllCk~Ch~~R 462 (468)
T KOG1701|consen 400 CGNPILPRDGKDETVRVVAMDRDF----------HVNCYKCEDCGLLLSSEEEGQGCYPL-DGHLLCKTCHLKR 462 (468)
T ss_pred ccCCccCCCCCcceEEEEEccccc----------cccceehhhcCccccccCCCCcceec-cCceeechhhhhh
Confidence 999999763 33578889986 999999999999987 35567877 8899999998764
No 6
>KOG1703 consensus Adaptor protein Enigma and related PDZ-LIM proteins [Signal transduction mechanisms; Cytoskeleton]
Probab=99.76 E-value=6.7e-19 Score=186.24 Aligned_cols=242 Identities=49% Similarity=0.831 Sum_probs=212.1
Q ss_pred CCCCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceeecCCcccccccccc-ccCcccccCCCccccCCcc
Q 014080 157 SGYRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKE-QHHPKCDVCQNFIPTNSAG 235 (431)
Q Consensus 157 ~~~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~-~f~pkC~~C~~~I~~~~~~ 235 (431)
....+|.+|.-.|..+..+ ||.|..|..++. .+...||.. ...+.|.+|...|..+..+
T Consensus 132 ~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~p~~----------~~~~~~~~~~~~~~~~~v~~~~~~~~~~~ 191 (479)
T KOG1703|consen 132 PLDSICGGCNSAIEHGRSV----------CFQCKRCSEPLS----------GFPKPSYHESGRSKNEDVEEASSPSSRAG 191 (479)
T ss_pred cccccccCCCcccccccch----------hhhhcccccccC----------Ccccccccccccccccccccccccccccc
Confidence 4567899999999777655 899999988882 223344444 3567899999999988778
Q ss_pred eEEEecccccccccCCCcccCCCCccCCCCCccCCCCceEEccCCcccCcchhhcccCCCCCCCcccHHHHHHHhhcccc
Q 014080 236 LIEYRAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDSAIMDTHECQPLYLEIQEFYEGLNMK 315 (431)
Q Consensus 236 ~i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~v~~~~~C~~C~~~I~~f~~~l~~~ 315 (431)
.+.++.++||.+.||+.|.++.+..|..|.+..+.+..++.+.+++.+|..|....+++.+.|++....+..++....|+
T Consensus 192 ~~~~~~~~~~~~~~~~~~e~~~tp~~~~~~r~e~~~~~~~~l~~~~~~~~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~ 271 (479)
T KOG1703|consen 192 LILSRSHPFWKQKYCPSHENDGTPKCCSCERLEPLDTRYVELADGRALCLECMGSASMDSPECQPLVSAPRPASEGLHMK 271 (479)
T ss_pred ccccccchhhhhcccccccCCCCCCcccccccccccccceecccchhhhhhccCCcccCCCccCcceecccccccccccc
Confidence 88999999999999999999999999999999877888999999999999999888899999999999999999999999
Q ss_pred ccccccchhhhHHHHHHHhcCCcCCccCCcccCCcccccccceeeeecccccCCCcceeeeeccceecccceEEEEEEEe
Q 014080 316 VEQQVPLLLVERQALNEAMEGEKNGHHHLPETRGLCLSEEQTVTTVLRRPRIGAGYRLIDMITEPYRLIRRCEVTAILIL 395 (431)
Q Consensus 316 ~~~~~pl~lv~~~ALn~~~~~e~~g~~~~~e~rGl~~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~il~l 395 (431)
+++..++++++..+++++-........|. .++++|.++.++++++ ..+++|.++..+....|+|++++++
T Consensus 272 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~p~c~~c~~~i~~~---------~~i~~~~~~~h~~~~~c~~~~~~~~ 341 (479)
T KOG1703|consen 272 VEKELPLLLVESEALKKLREEEKPAEYHN-VTRPLCLSCNQKIRSV---------KVIVALGKEWHPEHFSCEVCAIVIL 341 (479)
T ss_pred cccccchhhcccccccccccccccccccc-cccccccccccCcccc---------eeEeeccccccccceeecccccccc
Confidence 99999999999999999998877665443 7899999999998554 4577888899999999999999999
Q ss_pred cCCChhhhhhHHHHhhhHhHhhhcCCCCCceee
Q 014080 396 YGLPRLLTGSILAHEMMHAWLRLKGFICFKLIY 428 (431)
Q Consensus 396 ~glprl~~g~ilaHE~~Ha~lrl~g~~~l~~~~ 428 (431)
+|+|++.+|.|++||+||+|++.++++.+.+|.
T Consensus 342 ~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~ 374 (479)
T KOG1703|consen 342 DGGPRELDGKILCHECFHAPFRPNCKRCLLPIL 374 (479)
T ss_pred CCCccccCCCccHHHHHHHhhCccccccCCchH
Confidence 999999999999999999999999999988874
No 7
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=99.70 E-value=9.7e-19 Score=166.12 Aligned_cols=136 Identities=21% Similarity=0.472 Sum_probs=121.4
Q ss_pred CCCCCCCCCcCCCCCC-CCCCCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceeecCCcccccccccccc
Q 014080 140 SPPRYESGNIFQPFPF-FSGYRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQH 218 (431)
Q Consensus 140 spp~~~~g~~~~p~~~-~~~~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f 218 (431)
+.+|.-++..|++.-. ..+-++|+.|.++| .+++|.+||+.||.++|+|+.|.+|+-+...+.+.|.+||+.+|.++|
T Consensus 175 sdaRevk~eLyClrChD~mgipiCgaC~rpI-eervi~amgKhWHveHFvCa~CekPFlGHrHYEkkGlaYCe~h~~qLf 253 (332)
T KOG2272|consen 175 SDAREVKGELYCLRCHDKMGIPICGACRRPI-EERVIFAMGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHYHQLF 253 (332)
T ss_pred chhhhhccceeccccccccCCcccccccCch-HHHHHHHhccccchhheeehhcCCcccchhhhhhcCchhHHHHHHHHh
Confidence 3445557888998766 78999999999999 599999999999999999999999999999999999999999999999
Q ss_pred CcccccCCCccccCCcceEEEecccccccccCCCcccCCCCccCCCCCccCCCCceEEccCCcccCcchhhc
Q 014080 219 HPKCDVCQNFIPTNSAGLIEYRAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDS 290 (431)
Q Consensus 219 ~pkC~~C~~~I~~~~~~~i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~ 290 (431)
+..|..|+..|.|. ++.+.++.| -+.||.|+.|.+.|...++|+.+ |-+++|+.||++
T Consensus 254 G~~CF~C~~~i~G~---vv~al~Kaw----------Cv~cf~Cs~Cdkkl~~K~Kf~E~-DmkP~CKkCy~r 311 (332)
T KOG2272|consen 254 GNLCFICNRVIGGD---VVSALNKAW----------CVECFSCSTCDKKLTQKNKFYEF-DMKPVCKKCYDR 311 (332)
T ss_pred hhhheecCCccCcc---HHHHhhhhh----------ccccccccccccccccccceeee-ccchHHHHHHhh
Confidence 99999999999985 677777753 56679999999999988999986 779999999986
No 8
>KOG1703 consensus Adaptor protein Enigma and related PDZ-LIM proteins [Signal transduction mechanisms; Cytoskeleton]
Probab=99.69 E-value=1.4e-17 Score=176.16 Aligned_cols=173 Identities=17% Similarity=0.286 Sum_probs=136.4
Q ss_pred CCCcCCCCCcccccC-ceEeecCccccCCCcccCCCCCCCCCcceeecCCccccccccccccCcccccCCCccccCCcce
Q 014080 158 GYRICAGCNTEIGHG-RYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQHHPKCDVCQNFIPTNSAGL 236 (431)
Q Consensus 158 ~~~~C~~C~k~I~~g-~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f~pkC~~C~~~I~~~~~~~ 236 (431)
..+.|..|+..|. + +++.++++.||+.+|.|..|+..|....|...+|.+||..||.+.+.|+|.+|+.+|.++ .
T Consensus 302 ~~p~c~~c~~~i~-~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~~~---~ 377 (479)
T KOG1703|consen 302 TRPLCLSCNQKIR-SVKVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPILEE---G 377 (479)
T ss_pred ccccccccccCcc-cceeEeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCCchHHh---H
Confidence 4599999999995 6 999999999999999999999999998998899999999999999999999999999987 3
Q ss_pred EEEecccccccccCCCcccCCCCccCCCCCccCCCCceEEccCCcccCcchhhcccCCCCCCCcccHHHHHH---Hhhcc
Q 014080 237 IEYRAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDSAIMDTHECQPLYLEIQEF---YEGLN 313 (431)
Q Consensus 237 i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~v~~~~~C~~C~~~I~~f---~~~l~ 313 (431)
|.+.++ +||..||.|..|++.+. +..|+. .+|.+||..||.. .+++.|..|.++|..+ -+++|
T Consensus 378 v~a~~~----------~wH~~cf~C~~C~~~~~-~~~~~~-~~~~pyce~~~~~--~~~~~~~~~~~p~~~~~~~ie~~~ 443 (479)
T KOG1703|consen 378 VCALGR----------LWHPECFVCADCGKPLK-NSSFFE-SDGEPYCEDHYKK--LFTTKCDYCKKPVEFGSRQIEADG 443 (479)
T ss_pred hhhccC----------eechhceeeecccCCCC-CCcccc-cCCccchhhhHhh--hccccchhccchhHhhhhHhhccC
Confidence 556555 68999999999999884 445553 6999999999998 7788999999998633 23445
Q ss_pred ccccccccchhhhHHHHHHHhcCCcCCccCCcccCCcccccccc
Q 014080 314 MKVEQQVPLLLVERQALNEAMEGEKNGHHHLPETRGLCLSEEQT 357 (431)
Q Consensus 314 ~~~~~~~pl~lv~~~ALn~~~~~e~~g~~~~~e~rGl~~~E~~~ 357 (431)
-++.++... ....+++ .....+..+.+.+||..+.
T Consensus 444 ~~~h~~~F~----c~~c~~~-----l~~~~~~~~~~~p~c~~~~ 478 (479)
T KOG1703|consen 444 SPFHGDCFR----CANCMKK-----LTKKTFFETLDKPLCQKHF 478 (479)
T ss_pred cccccccee----hhhhhcc-----ccCCceeecCCccccccCC
Confidence 555444311 1111111 2223456788888887653
No 9
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=99.63 E-value=2e-16 Score=164.71 Aligned_cols=163 Identities=16% Similarity=0.318 Sum_probs=135.3
Q ss_pred CCCCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceeecCCccccccccccccCcccccCCCccccCCcce
Q 014080 157 SGYRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQHHPKCDVCQNFIPTNSAGL 236 (431)
Q Consensus 157 ~~~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f~pkC~~C~~~I~~~~~~~ 236 (431)
.....|..|.+.. .|+++.+.++.||..||+|..|+..|+..+|+.+++. +++++ ..|..+|.+. +
T Consensus 14 ~~~i~c~~c~~kc-~gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~--------~~ygt--~~c~~~~~ge---v 79 (670)
T KOG1044|consen 14 KQGIKCDKCRKKC-SGEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPEN--------RLYGT--DDCRAFVEGE---V 79 (670)
T ss_pred ccceehhhhCCcc-ccceeEeeccccceeeeeccccCCCcccccceecccc--------eeecc--cchhhhccce---e
Confidence 3456899999999 5999999999999999999999999999999887665 45555 7889999885 6
Q ss_pred EEEecccccccccCCCcccCCCCccCCCCCccCCCCceEEccCCcccCcchhhcccC------CCCCCCcccHHHHHHHh
Q 014080 237 IEYRAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDSAIM------DTHECQPLYLEIQEFYE 310 (431)
Q Consensus 237 i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~v~------~~~~C~~C~~~I~~f~~ 310 (431)
+...++.| |.+||.|+.|..+++.|++. .+.....+|..|-..+-. +...|++|...|.
T Consensus 80 vsa~gkty----------h~~cf~cs~ck~pf~~g~~v-t~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk---- 144 (670)
T KOG1044|consen 80 VSTLGKTY----------HPKCFSCSTCKSPFKSGDKV-TFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELK---- 144 (670)
T ss_pred Eeccccee----------ccccceecccCCCCCCCCee-eecchhhhhhhhcCcccCCcccccCCccccchhhhhh----
Confidence 88888864 99999999999999999884 455667889999765322 4568999999996
Q ss_pred hccccccccccchhhhHHHHHHHhcCC--------cCCccCCcccCCcccccccceee
Q 014080 311 GLNMKVEQQVPLLLVERQALNEAMEGE--------KNGHHHLPETRGLCLSEEQTVTT 360 (431)
Q Consensus 311 ~l~~~~~~~~pl~lv~~~ALn~~~~~e--------~~g~~~~~e~rGl~~~E~~~~~~ 360 (431)
.+|. .-||.++||.. ...++.|+.++|++|||.+|+.-
T Consensus 145 ------~gq~------llald~qwhv~cfkc~~c~~vL~gey~skdg~pyce~dy~~~ 190 (670)
T KOG1044|consen 145 ------NGQA------LLALDKQWHVSCFKCKSCSAVLNGEYMSKDGVPYCEKDYQAK 190 (670)
T ss_pred ------ccce------eeeeccceeeeeeehhhhcccccceeeccCCCcchhhhhhhh
Confidence 3676 45999999864 34678899999999999999643
No 10
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=99.62 E-value=1e-16 Score=166.81 Aligned_cols=120 Identities=26% Similarity=0.628 Sum_probs=108.0
Q ss_pred CCCCCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceeecCCccccccccccccCcccccCCCccccCCcc
Q 014080 156 FSGYRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQHHPKCDVCQNFIPTNSAG 235 (431)
Q Consensus 156 ~~~~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f~pkC~~C~~~I~~~~~~ 235 (431)
..++..|++|++.|..|+.+.++++.||..||+|..|...|.+ +|..++|.|||+.||.+.|+.+|..|.++|.+.
T Consensus 130 ~~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~g-ey~skdg~pyce~dy~~~fgvkc~~c~~fisgk--- 205 (670)
T KOG1044|consen 130 SYGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNG-EYMSKDGVPYCEKDYQAKFGVKCEECEKFISGK--- 205 (670)
T ss_pred ccCCccccchhhhhhccceeeeeccceeeeeeehhhhcccccc-eeeccCCCcchhhhhhhhcCeehHHhhhhhhhh---
Confidence 4578899999999999999999999999999999999999987 778899999999999999999999999999985
Q ss_pred eEEEecccccccccCCCcccCCCCccCCCCCccCCCCceEEccCCcccCcchhhc
Q 014080 236 LIEYRAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDS 290 (431)
Q Consensus 236 ~i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~ 290 (431)
++.+.++ |||+.|-+|..|+.+|+.|+.-+ |....+|-..|-..
T Consensus 206 vLqag~k----------h~HPtCARCsRCgqmF~eGEEMY-lQGs~iWHP~C~qa 249 (670)
T KOG1044|consen 206 VLQAGDK----------HFHPTCARCSRCGQMFGEGEEMY-LQGSEIWHPDCKQA 249 (670)
T ss_pred hhhccCc----------ccCcchhhhhhhccccccchhee-eccccccCCccccc
Confidence 6777665 78999999999999999888866 46778998888754
No 11
>PF00412 LIM: LIM domain; InterPro: IPR001781 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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=99.27 E-value=2.6e-12 Score=97.04 Aligned_cols=57 Identities=39% Similarity=0.996 Sum_probs=51.9
Q ss_pred CCCCCcccccCceE-eecCccccCCCcccCCCCCCCCCcceeecCCcccccccccccc
Q 014080 162 CAGCNTEIGHGRYL-SCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQH 218 (431)
Q Consensus 162 C~~C~k~I~~g~~v-~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f 218 (431)
|.+|+++|..+..+ .++++.||+.||+|..|+++|.+..|+..+|++||+.||.++|
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~f 58 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKRF 58 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEECHHHHhhhC
Confidence 88999999766555 7999999999999999999999988999999999999998765
No 12
>KOG1700 consensus Regulatory protein MLP and related LIM proteins [Signal transduction mechanisms; Cytoskeleton]
Probab=98.66 E-value=3.8e-09 Score=100.10 Aligned_cols=119 Identities=22% Similarity=0.430 Sum_probs=88.7
Q ss_pred CCCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceeecCCccccccccccccCcc----------------
Q 014080 158 GYRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQHHPK---------------- 221 (431)
Q Consensus 158 ~~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f~pk---------------- 221 (431)
....|..|++.++.-+.+...|..||+.||+|..|.+.|....+..+++.+||+.||-..++|+
T Consensus 6 ~~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (200)
T KOG1700|consen 6 TTDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGK 85 (200)
T ss_pred ccchhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCCc
Confidence 4568999999998777777899999999999999999999999999999999999876544443
Q ss_pred -------------------------cccCCCccccCCcceEEEecccccccccCCCcccCCCCccCCCCCccCCCCceEE
Q 014080 222 -------------------------CDVCQNFIPTNSAGLIEYRAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTKYLS 276 (431)
Q Consensus 222 -------------------------C~~C~~~I~~~~~~~i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~f~~ 276 (431)
|..|++.+...+ -+...+. -||..||+|+.|+..|..+ .|..
T Consensus 86 ~~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~E--k~~~~~~----------~~hk~cfrc~~~~~~ls~~-~~~~ 152 (200)
T KOG1700|consen 86 DGKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLE--KVTGNGL----------EFHKSCFRCTHCGKKLSPK-NYAA 152 (200)
T ss_pred ccccccccccccchhHHhhhccccccccccceeeehH--HHhhhhh----------hhhhhheeecccccccCCc-chhh
Confidence 444444444321 1222233 4699999999999999544 4554
Q ss_pred ccCCcccCcchhhc
Q 014080 277 LDDGRKLCLECLDS 290 (431)
Q Consensus 277 l~dG~~yC~~C~~~ 290 (431)
..|.+||...+..
T Consensus 153 -~~g~l~~~~~~~~ 165 (200)
T KOG1700|consen 153 -LEGVLYCKHHFAQ 165 (200)
T ss_pred -cCCccccchhhhe
Confidence 4678888766544
No 13
>PF00412 LIM: LIM domain; InterPro: IPR001781 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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=98.44 E-value=1.6e-07 Score=70.64 Aligned_cols=56 Identities=18% Similarity=0.411 Sum_probs=44.6
Q ss_pred cccCCCccccCCcceEEEecccccccccCCCcccCCCCccCCCCCccCCCCceEEccCCcccCcchhhc
Q 014080 222 CDVCQNFIPTNSAGLIEYRAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDS 290 (431)
Q Consensus 222 C~~C~~~I~~~~~~~i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~ 290 (431)
|..|+++|.+.. ..+.+.++. ||..||+|..|++.|..+. |+. .+|++||..||.+
T Consensus 1 C~~C~~~I~~~~-~~~~~~~~~----------~H~~Cf~C~~C~~~l~~~~-~~~-~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 1 CARCGKPIYGTE-IVIKAMGKF----------WHPECFKCSKCGKPLNDGD-FYE-KDGKPYCKDCYQK 56 (58)
T ss_dssp BTTTSSBESSSS-EEEEETTEE----------EETTTSBETTTTCBTTTSS-EEE-ETTEEEEHHHHHH
T ss_pred CCCCCCCccCcE-EEEEeCCcE----------EEccccccCCCCCccCCCe-eEe-ECCEEECHHHHhh
Confidence 889999999764 223466664 6999999999999996554 664 5889999999976
No 14
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=98.35 E-value=3.2e-07 Score=63.01 Aligned_cols=37 Identities=43% Similarity=1.115 Sum_probs=33.4
Q ss_pred cCCCCCcccccC-ceEeecCccccCCCcccCCCCCCCC
Q 014080 161 ICAGCNTEIGHG-RYLSCMEAFWHPECFRCHSCNLPIT 197 (431)
Q Consensus 161 ~C~~C~k~I~~g-~~v~algk~wHp~CF~C~~C~~~L~ 197 (431)
+|.+|+++|..+ ..+.++++.||+.||+|..|+++|.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence 589999999755 7788999999999999999999985
No 15
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=97.76 E-value=3.2e-06 Score=82.71 Aligned_cols=77 Identities=22% Similarity=0.471 Sum_probs=65.1
Q ss_pred CCCcCCCCCC-CCCCCcCCCCCcccccCceE-eecCccccCCCcccCCCCCCCCC-ccee-ecCCccccccccccccCcc
Q 014080 146 SGNIFQPFPF-FSGYRICAGCNTEIGHGRYL-SCMEAFWHPECFRCHSCNLPITD-VEFS-MSGNRPYHKHCYKEQHHPK 221 (431)
Q Consensus 146 ~g~~~~p~~~-~~~~~~C~~C~k~I~~g~~v-~algk~wHp~CF~C~~C~~~L~~-~~F~-~~dg~pyC~~CY~~~f~pk 221 (431)
.+++||...+ ..+...|..|...|.+..+| ++.+..||..||.|..|++.|.. .+|+ +.++++.|+.+|...-..-
T Consensus 78 ~~s~yCkedFfKrfGTKCsaC~~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~ 157 (383)
T KOG4577|consen 78 EGSVYCKEDFFKRFGTKCSACQEGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQKH 157 (383)
T ss_pred CCceeehHHHHHHhCCcchhhcCCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhcc
Confidence 5789998887 88899999999999877776 68999999999999999999974 3555 5789999999998754444
Q ss_pred c
Q 014080 222 C 222 (431)
Q Consensus 222 C 222 (431)
|
T Consensus 158 ~ 158 (383)
T KOG4577|consen 158 C 158 (383)
T ss_pred c
Confidence 4
No 16
>KOG1702 consensus Nebulin repeat protein [Cytoskeleton]
Probab=97.38 E-value=2e-05 Score=74.05 Aligned_cols=61 Identities=20% Similarity=0.578 Sum_probs=54.8
Q ss_pred CCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceeecCCccccccccccccC
Q 014080 159 YRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQHH 219 (431)
Q Consensus 159 ~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f~ 219 (431)
...|..|++.+++-+-++++++.||..||+|..|+.+|....|-..+.+|||..+|.+..+
T Consensus 4 k~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~a 64 (264)
T KOG1702|consen 4 KCNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQVA 64 (264)
T ss_pred cchhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCccccccee
Confidence 3568899999988888999999999999999999999999988888999999999987543
No 17
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=97.12 E-value=0.00036 Score=47.58 Aligned_cols=37 Identities=16% Similarity=0.268 Sum_probs=29.2
Q ss_pred ccccCCCccccCCcceEEEecccccccccCCCcccCCCCccCCCCCcc
Q 014080 221 KCDVCQNFIPTNSAGLIEYRAHPFWLQKYCPSHERDGTPRCCSCERME 268 (431)
Q Consensus 221 kC~~C~~~I~~~~~~~i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l 268 (431)
+|..|+++|.+.. ..+.+.+. .||..||+|..|++.|
T Consensus 1 ~C~~C~~~i~~~~-~~~~~~~~----------~~H~~Cf~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGE-LVLRALGK----------VWHPECFKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCc-EEEEeCCc----------cccccCCCCcccCCcC
Confidence 5899999999851 24555555 4699999999999987
No 18
>KOG1700 consensus Regulatory protein MLP and related LIM proteins [Signal transduction mechanisms; Cytoskeleton]
Probab=97.08 E-value=0.00013 Score=69.25 Aligned_cols=63 Identities=19% Similarity=0.408 Sum_probs=55.6
Q ss_pred CCCCCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceeecCCcccccccccccc
Q 014080 156 FSGYRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQH 218 (431)
Q Consensus 156 ~~~~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f 218 (431)
....-.|..|.+.+++-+-+...+..||..||+|+.|+..|+...+....+.+||..++.+++
T Consensus 105 ~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~~~~ 167 (200)
T KOG1700|consen 105 AGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFAQLF 167 (200)
T ss_pred hccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccchhhheee
Confidence 445678999999998778888999999999999999999999999999999999987766543
No 19
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=96.97 E-value=0.00011 Score=70.08 Aligned_cols=114 Identities=19% Similarity=0.402 Sum_probs=86.7
Q ss_pred CCCcccccCceEeecCccccCCCcccCCCCCCCC--CcceeecCCcccccccccc--ccCcccccCCCccccCCcceEEE
Q 014080 164 GCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPIT--DVEFSMSGNRPYHKHCYKE--QHHPKCDVCQNFIPTNSAGLIEY 239 (431)
Q Consensus 164 ~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~--~~~F~~~dg~pyC~~CY~~--~f~pkC~~C~~~I~~~~~~~i~~ 239 (431)
+|+..|.+...+.+.+..||..|..|..|...+. ...|.. +|..||..+|.. .+..+|..|...|...+ .+
T Consensus 1 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql~--~l-- 75 (235)
T KOG0490|consen 1 GCGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRCARCKFTISQLD--EL-- 75 (235)
T ss_pred CCCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccccCCCCCcCHHH--HH--
Confidence 4777785445567779999999999999999998 667777 999999999998 78899999999996532 12
Q ss_pred ecccccccccCCCcccCCCCccCCCCCccCCCCceEEccCCcccCcchhhc
Q 014080 240 RAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDS 290 (431)
Q Consensus 240 ~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~ 290 (431)
.+-| ... |.-||.|..|.+.+..+..+.........|...+..
T Consensus 76 -er~f------~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~ 118 (235)
T KOG0490|consen 76 -ERAF------EKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKE 118 (235)
T ss_pred -HHhh------cCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhh
Confidence 1222 112 678999999999887777766544447778777754
No 20
>smart00726 UIM Ubiquitin-interacting motif. Present in proteasome subunit S5a and other ubiquitin-associated proteins.
Probab=90.10 E-value=0.23 Score=31.94 Aligned_cols=21 Identities=29% Similarity=0.469 Sum_probs=17.1
Q ss_pred CChhHHHHHHHhhhhhhhccC
Q 014080 40 FDNEEIDRAIALSLVEVDQKG 60 (431)
Q Consensus 40 ~~~~~~~~~~~~~~~~~~~~~ 60 (431)
.|+|+|.+||++||.|.....
T Consensus 1 ~EDe~Lq~Ai~lSl~e~e~~~ 21 (26)
T smart00726 1 DEDEDLQLALELSLQEAEESX 21 (26)
T ss_pred ChHHHHHHHHHHhHHHhhhcc
Confidence 368999999999998776544
No 21
>PF02809 UIM: Ubiquitin interaction motif; InterPro: IPR003903 The Ubiquitin Interacting Motif (UIM), or 'LALAL-motif', is a stretch of about 20 amino acid residues, which was first described in the 26S proteasome subunit PSD4/RPN-10 that is known to recognise ubiquitin [,]. In addition, the UIM is found, often in tandem or triplet arrays, in a variety of proteins either involved in ubiquitination and ubiquitin metabolism, or known to interact with ubiquitin-like modifiers. Among the UIM proteins are two different subgroups of the UBP (ubiquitin carboxy-terminal hydrolase) family of deubiquitinating enzymes, one F-box protein, one family of HECT-containing ubiquitin-ligases (E3s) from plants, and several proteins containing ubiquitin-associated UBA and/or UBX domains []. In most of these proteins, the UIM occurs in multiple copies and in association with other domains such as UBA (IPR015940 from INTERPRO), UBX (IPR001012 from INTERPRO), ENTH, EH (IPR000261 from INTERPRO), VHS (IPR002014 from INTERPRO), SH3 (IPR001452 from INTERPRO), HECT (IPR000569 from INTERPRO), VWFA (IPR002035 from INTERPRO), EF-hand calcium-binding, WD-40 (IPR001680 from INTERPRO), F-box (IPR001810 from INTERPRO), LIM (IPR001781 from INTERPRO), protein kinase (IPR000719 from INTERPRO), ankyrin (IPR002110 from INTERPRO), PX (IPR001683 from INTERPRO), phosphatidylinositol 3- and 4-kinase (IPR000403 from INTERPRO), C2 (IPR000008 from INTERPRO), OTU (IPR003323 from INTERPRO), dnaJ (IPR001623 from INTERPRO), RING-finger (IPR001841 from INTERPRO) or FYVE-finger (IPR017455 from INTERPRO). UIMs have been shown to bind ubiquitin and to serve as a specific targeting signal important for monoubiquitination. Thus, UIMs may have several functions in ubiquitin metabolism each of which may require different numbers of UIMs [, , ]. The UIM is unlikely to form an independent folding domain. Instead, based on the spacing of the conserved residues, the motif probably forms a short alpha-helix that can be embedded into different protein folds []. Some proteins known to contain an UIM are listed below: Eukaryotic PSD4/RPN-10/S5, a multi-ubiquitin binding subunit of the 26S proteasome. Vertebrate Machado-Joseph disease protein 1 (Ataxin-3), which acts as a histone-binding protein that regulates transcription; defects in Ataxin-3 cause the neurodegenerative disorder Machado-Joseph disease (MJD). Vertebrate epsin and epsin2. Vertebrate hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). Mammalian epidermal growth factor receptor substrate 15 (EPS15), which is involved in cell growth regulation. Mammalian epidermal growth factor receptor substrate EPS15R. Drosophila melanogaster (Fruit fly) liquid facets (lqf), an epsin. Yeast VPS27 vacuolar sorting protein, which is required for membrane traffic to the vacuole. ; PDB: 2KDE_A 2KDF_A 1YX6_A 1YX5_A 1YX4_A 1P9C_A 1UEL_B 1P9D_S 2KLZ_A.
Probab=86.92 E-value=0.28 Score=28.85 Aligned_cols=16 Identities=38% Similarity=0.646 Sum_probs=13.5
Q ss_pred CChhHHHHHHHhhhhh
Q 014080 40 FDNEEIDRAIALSLVE 55 (431)
Q Consensus 40 ~~~~~~~~~~~~~~~~ 55 (431)
.|+++|.+||++|+.|
T Consensus 2 ~Ed~~L~~Al~~S~~e 17 (18)
T PF02809_consen 2 DEDEDLQRALEMSLEE 17 (18)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHhhhcc
Confidence 4678999999999865
No 22
>PF14891 Peptidase_M91: Effector protein
Probab=84.41 E-value=0.58 Score=43.34 Aligned_cols=18 Identities=33% Similarity=0.525 Sum_probs=16.1
Q ss_pred hhHHHHhhhHhHhhhcCC
Q 014080 404 GSILAHEMMHAWLRLKGF 421 (431)
Q Consensus 404 g~ilaHE~~Ha~lrl~g~ 421 (431)
-.+|||||.|||=.|+|-
T Consensus 104 ~v~L~HEL~HA~~~~~Gt 121 (174)
T PF14891_consen 104 FVVLYHELIHAYDYMNGT 121 (174)
T ss_pred HHHHHHHHHHHHHHHCCC
Confidence 478999999999999983
No 23
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=83.94 E-value=0.59 Score=37.93 Aligned_cols=21 Identities=29% Similarity=0.400 Sum_probs=16.2
Q ss_pred hhhhhhHHHHhhhHhHhhhcC
Q 014080 400 RLLTGSILAHEMMHAWLRLKG 420 (431)
Q Consensus 400 rl~~g~ilaHE~~Ha~lrl~g 420 (431)
.--.-.+||||++|+++.-.|
T Consensus 58 s~~~~~llaHEl~Hv~Qq~~g 78 (79)
T PF13699_consen 58 SPEGRALLAHELAHVVQQRRG 78 (79)
T ss_pred CCCcchhHhHHHHHHHhhccC
Confidence 333457999999999987665
No 24
>PF01431 Peptidase_M13: Peptidase family M13 This is family M13 in the peptidase classification. ; InterPro: IPR018497 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M13 (neprilysin family, clan MA(E)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA and the predicted active site residues for members of this family and thermolysin occur in the motif HEXXH []. M13 peptidases are well-studied proteases found in a wide range of organisms including mammals and bacteria. In mammals they participate in processes such as cardiovascular development, blood-pressure regulation, nervous control of respiration, and regulation of the function of neuropeptides in the central nervous system. In bacteria they may be used for digestion of milk [, ]. The family includes eukaryotic and prokaryotic oligopeptidases, as well as some of the proteins responsible for the molecular basis of the blood group antigens e.g. Kell []. Neprilysin (3.4.24.11 from EC), is another member of this group, it is variously known as common acute lymphoblastic leukemia antigen (CALLA), enkephalinase (gp100) and neutral endopeptidase metalloendopeptidase (NEP). It is a plasma membrane-bound mammalian enzyme that is able to digest biologically-active peptides, including enkephalins []. The zinc ligands of neprilysin are known and are analogous to those in thermolysin, a related peptidase [, ]. Neprilysins, like thermolysin, are inhibited by phosphoramidon, which appears to selectively inhibit this family in mammals. The enzymes are all oligopeptidases, digesting oligo- and polypeptides, but not proteins []. Neprilysin consists of a short cytoplasmic domain, a membrane-spanning region and a large extracellular domain. The cytoplasmic domain contains a conformationally-restrained octapeptide, which is thought to act as a stop transfer sequence that prevents proteolysis and secretion [, ].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2QPJ_A 1R1I_A 1R1J_A 1Y8J_A 1R1H_A 1DMT_A 2YB9_A 3DWB_A 3ZUK_A.
Probab=80.81 E-value=0.78 Score=43.05 Aligned_cols=16 Identities=56% Similarity=0.673 Sum_probs=13.9
Q ss_pred hhhhHHHHhhhHhHhh
Q 014080 402 LTGSILAHEMMHAWLR 417 (431)
Q Consensus 402 ~~g~ilaHE~~Ha~lr 417 (431)
..|+||||||||++-.
T Consensus 35 ~lG~ilahel~hafd~ 50 (206)
T PF01431_consen 35 GLGFILAHELMHAFDP 50 (206)
T ss_dssp THHHHHHHHHHHCTST
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4799999999999865
No 25
>PF13485 Peptidase_MA_2: Peptidase MA superfamily
Probab=78.69 E-value=2.3 Score=35.45 Aligned_cols=24 Identities=29% Similarity=0.466 Sum_probs=17.8
Q ss_pred cCCChhhhhhHHHHhhhHhHhhhc
Q 014080 396 YGLPRLLTGSILAHEMMHAWLRLK 419 (431)
Q Consensus 396 ~glprl~~g~ilaHE~~Ha~lrl~ 419 (431)
.+-+.-....+|+||++|+|+.-.
T Consensus 18 ~~~~~~~~~~~l~HE~~H~~~~~~ 41 (128)
T PF13485_consen 18 QGSDEDWLDRVLAHELAHQWFGNY 41 (128)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHH
Confidence 344444445999999999998765
No 26
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=78.28 E-value=1.4 Score=39.56 Aligned_cols=22 Identities=32% Similarity=0.150 Sum_probs=18.8
Q ss_pred CChhhhhhHHHHhhhHhHhhhc
Q 014080 398 LPRLLTGSILAHEMMHAWLRLK 419 (431)
Q Consensus 398 lprl~~g~ilaHE~~Ha~lrl~ 419 (431)
.|.-..-.+|+|||.|+|+.+.
T Consensus 55 ~~~~~~~~tL~HEm~H~~~~~~ 76 (157)
T PF10263_consen 55 NPEEELIDTLLHEMAHAAAYVF 76 (157)
T ss_pred hHHHHHHHHHHHHHHHHHhhhc
Confidence 5666777899999999999877
No 27
>PF06114 DUF955: Domain of unknown function (DUF955); InterPro: IPR010359 This is a family of bacterial and viral proteins with undetermined function. A conserved H-E-X-X-H motif is suggestive of a catalytic active site and shows similarity to IPR001915 from INTERPRO.; PDB: 3DTE_A 3DTK_A 3DTI_A.
Probab=75.96 E-value=2.9 Score=34.54 Aligned_cols=31 Identities=29% Similarity=0.221 Sum_probs=24.8
Q ss_pred EEEEEecCCChhhhhhHHHHhhhHhHhhhcC
Q 014080 390 TAILILYGLPRLLTGSILAHEMMHAWLRLKG 420 (431)
Q Consensus 390 ~~il~l~glprl~~g~ilaHE~~Ha~lrl~g 420 (431)
.-|+|=..++.--.-.+||||++|.++.-.+
T Consensus 29 ~~I~in~~~~~~~~~f~laHELgH~~~~~~~ 59 (122)
T PF06114_consen 29 PIIFINSNLSPERQRFTLAHELGHILLHHGD 59 (122)
T ss_dssp TEEEEESSS-HHHHHHHHHHHHHHHHHHH-H
T ss_pred CEEEECCCCCHHHHHHHHHHHHHHHHhhhcc
Confidence 4578888899999999999999999986554
No 28
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=69.90 E-value=3.1 Score=37.34 Aligned_cols=22 Identities=41% Similarity=0.347 Sum_probs=16.3
Q ss_pred ChhhhhhHHHHhhhHhHhhhcC
Q 014080 399 PRLLTGSILAHEMMHAWLRLKG 420 (431)
Q Consensus 399 prl~~g~ilaHE~~Ha~lrl~g 420 (431)
|....-.||+|||.|+|+.+.|
T Consensus 55 ~~~~l~~~l~HEm~H~~~~~~g 76 (146)
T smart00731 55 GRDRLRETLLHELCHAALYLFG 76 (146)
T ss_pred cHHHHHhhHHHHHHHHHHHHhC
Confidence 3344556999999999987643
No 29
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=67.77 E-value=3 Score=36.25 Aligned_cols=15 Identities=47% Similarity=0.716 Sum_probs=12.5
Q ss_pred hHHHHhhhHhHhhhc
Q 014080 405 SILAHEMMHAWLRLK 419 (431)
Q Consensus 405 ~ilaHE~~Ha~lrl~ 419 (431)
..||||+.|+|+.-.
T Consensus 81 ~TL~HEL~H~WQ~Rs 95 (141)
T PHA02456 81 DTLAHELNHAWQFRT 95 (141)
T ss_pred HHHHHHHHHHHhhhc
Confidence 569999999998643
No 30
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=67.75 E-value=5 Score=31.50 Aligned_cols=47 Identities=15% Similarity=0.318 Sum_probs=23.2
Q ss_pred cccCCCCCCCCCcceeecCCccccccccccccCcccccCCCccccCC
Q 014080 187 FRCHSCNLPITDVEFSMSGNRPYHKHCYKEQHHPKCDVCQNFIPTNS 233 (431)
Q Consensus 187 F~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f~pkC~~C~~~I~~~~ 233 (431)
.+|+.|..-|...--...=...||..|-...++..|.+|+.|-...+
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHH
Confidence 46777776665432223345789999999888899999999876543
No 31
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.64 E-value=1.8 Score=40.53 Aligned_cols=51 Identities=22% Similarity=0.493 Sum_probs=39.5
Q ss_pred cCCCCccCCCCCccCCCCceEEccCCcccCcchhhcccCCCCCCCcccHHHH
Q 014080 255 RDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDSAIMDTHECQPLYLEIQ 306 (431)
Q Consensus 255 H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~v~~~~~C~~C~~~I~ 306 (431)
...||+|-.|--....-..+- -+=|.++|..|...++..+..|--|.+.|.
T Consensus 128 ~~~~~~CPiCl~~~sek~~vs-TkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVPVS-TKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred cccccCCCceecchhhccccc-cccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 447789999877553332332 357899999999999999999999998883
No 32
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=65.72 E-value=31 Score=28.39 Aligned_cols=30 Identities=17% Similarity=0.425 Sum_probs=20.6
Q ss_pred CCCcCCCCCcccccCceEe-ecCccccCCCc
Q 014080 158 GYRICAGCNTEIGHGRYLS-CMEAFWHPECF 187 (431)
Q Consensus 158 ~~~~C~~C~k~I~~g~~v~-algk~wHp~CF 187 (431)
....|..|+++|..+.++. ..|..+|..|+
T Consensus 77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~ 107 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSCI 107 (109)
T ss_pred CCCCccCcCCcCCCceEEEeCCCeEEecccc
Confidence 3567999999997554433 34566787775
No 33
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=64.44 E-value=3.9 Score=42.69 Aligned_cols=26 Identities=42% Similarity=0.510 Sum_probs=22.3
Q ss_pred CCCCChhHHHHHHHhhhhhhhccCCc
Q 014080 37 SSGFDNEEIDRAIALSLVEVDQKGKK 62 (431)
Q Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 62 (431)
.+..|.|||..||+|||+|..+..|+
T Consensus 161 ~~k~EeEdiaKAi~lSL~E~~~Q~k~ 186 (462)
T KOG2199|consen 161 SSKQEEEDIAKAIELSLKEQEKQKKL 186 (462)
T ss_pred cccccHHHHHHHHHhhHHHHhhchhh
Confidence 44689999999999999998887665
No 34
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=62.18 E-value=2.7 Score=50.90 Aligned_cols=53 Identities=28% Similarity=0.346 Sum_probs=28.2
Q ss_pred HHHHHHhhhhhhhccCCc--cccCCCCChhhhhccCCCCCcccccCHHHHHHhhhhH
Q 014080 45 IDRAIALSLVEVDQKGKK--VIENEYDSEDDLQCIKSDDSDEDELDEDEIRAIAQQE 99 (431)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (431)
|-|-.|+-|+|||..+.. |+++|++ ++++...+++||+++..+++.+....++
T Consensus 132 ~~~~~~r~l~eed~~~~~~~~~d~~~~--~~~~~~~~~~~~~e~~~~~~~~~~~~de 186 (2849)
T PTZ00415 132 IKRRRARHLAEEDMSPRDNFVIDDDDE--DEDEDDDDEEDDEEEEEEEEEIKGFDDE 186 (2849)
T ss_pred eehHHhhccchhhcCcccccccCCccc--cccccccccccccccccccccccCCCch
Confidence 346778999999965543 4544433 3333333334444444444455555544
No 35
>PF04450 BSP: Peptidase of plants and bacteria; InterPro: IPR007541 These basic secretory proteins (BSPs) are believed to be part of the plants defence mechanism against pathogens [].
Probab=61.88 E-value=4.1 Score=38.97 Aligned_cols=16 Identities=38% Similarity=0.609 Sum_probs=12.9
Q ss_pred hhhHHHHhhhHhHhhh
Q 014080 403 TGSILAHEMMHAWLRL 418 (431)
Q Consensus 403 ~g~ilaHE~~Ha~lrl 418 (431)
.-.||-|||||+||--
T Consensus 96 i~Gvl~HE~~H~~Q~~ 111 (205)
T PF04450_consen 96 IIGVLYHEMVHCWQWD 111 (205)
T ss_pred HHHHHHHHHHHHhhcC
Confidence 3467999999999953
No 36
>PF01421 Reprolysin: Reprolysin (M12B) family zinc metalloprotease This Prosite motif covers only the active site.; InterPro: IPR001590 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M12, subfamily M12B (adamalysin family, clan (MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA and the predicted active site residues for members of this family and thermolysin occur in the motif HEXXH []. The adamalysins are zinc dependent endopeptidases found in snake venom. There are some mammalian proteins such as P78325 from SWISSPROT, and fertilin Q28472 from SWISSPROT. Fertilin and closely related proteins appear to not have some active site residues and may not be active enzymes. CD156 (also called ADAM8 (3.4.24 from EC) or MS2 human) has been implicated in extravasation of leukocytes. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2E3X_A 2W15_A 2W14_A 2W13_A 2W12_A 1ND1_A 3K7L_A 2DW2_A 2DW0_B 2DW1_A ....
Probab=61.41 E-value=7.8 Score=36.14 Aligned_cols=25 Identities=28% Similarity=0.235 Sum_probs=19.4
Q ss_pred EEEEEecCCChhhhhhHHHHhhhHh
Q 014080 390 TAILILYGLPRLLTGSILAHEMMHA 414 (431)
Q Consensus 390 ~~il~l~glprl~~g~ilaHE~~Ha 414 (431)
-+|....+-..+.++.++|||++|.
T Consensus 118 ~~i~~~~~~~~~~~a~~~AHelGH~ 142 (199)
T PF01421_consen 118 CGIVEDHSRSGLSFAVIIAHELGHN 142 (199)
T ss_dssp EEEEE-SSSSHHHHHHHHHHHHHHH
T ss_pred CcEeeeccchhHHHHHHHHHHHHHh
Confidence 4555566678889999999999994
No 37
>cd04270 ZnMc_TACE_like Zinc-dependent metalloprotease; TACE_like subfamily. TACE, the tumor-necrosis factor-alpha converting enzyme, releases soluble TNF-alpha from transmembrane pro-TNF-alpha.
Probab=60.70 E-value=5 Score=39.15 Aligned_cols=20 Identities=35% Similarity=0.677 Sum_probs=16.1
Q ss_pred cC--CChhhhhhHHHHhhhHhH
Q 014080 396 YG--LPRLLTGSILAHEMMHAW 415 (431)
Q Consensus 396 ~g--lprl~~g~ilaHE~~Ha~ 415 (431)
|| +|...+..++||||+|.|
T Consensus 158 ~~~~~~~~~~a~t~AHElGHnl 179 (244)
T cd04270 158 YGKRVPTKESDLVTAHELGHNF 179 (244)
T ss_pred cCCccchhHHHHHHHHHHHHhc
Confidence 55 466778899999999975
No 38
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=60.20 E-value=7.1 Score=30.10 Aligned_cols=28 Identities=25% Similarity=0.553 Sum_probs=17.0
Q ss_pred CCCcCCCCCcccccCc-eEeecCccccCCCcccCCCCCC
Q 014080 158 GYRICAGCNTEIGHGR-YLSCMEAFWHPECFRCHSCNLP 195 (431)
Q Consensus 158 ~~~~C~~C~k~I~~g~-~v~algk~wHp~CF~C~~C~~~ 195 (431)
..+.|..|+..|.... .+. |.|-.|+..
T Consensus 6 ~~~~CtSCg~~i~~~~~~~~----------F~CPnCG~~ 34 (59)
T PRK14890 6 EPPKCTSCGIEIAPREKAVK----------FLCPNCGEV 34 (59)
T ss_pred cCccccCCCCcccCCCccCE----------eeCCCCCCe
Confidence 3457888887775433 222 677777654
No 39
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.27 E-value=3.2 Score=38.84 Aligned_cols=49 Identities=18% Similarity=0.497 Sum_probs=38.3
Q ss_pred CCCcccCCCCCCCCCcc-eeecCCccccccccccc--cCcccccCCCccccC
Q 014080 184 PECFRCHSCNLPITDVE-FSMSGNRPYHKHCYKEQ--HHPKCDVCQNFIPTN 232 (431)
Q Consensus 184 p~CF~C~~C~~~L~~~~-F~~~dg~pyC~~CY~~~--f~pkC~~C~~~I~~~ 232 (431)
..||.|..|-....... +..+=|.+||+.|-+.. ...+|..|++.|...
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 35788888877776654 65678999999999875 456999999988753
No 40
>PF09768 Peptidase_M76: Peptidase M76 family; InterPro: IPR019165 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. Mitochondrial inner membrane protease ATP23 has two roles in the assembly of mitochondrial ATPase. Firstly, it acts as a protease that removes the N-terminal 10 residues of mitochondrial ATPase CF(0) subunit 6 (ATP6) at the intermembrane space side. Secondly, it is involved in the correct assembly of the membrane-embedded ATPase CF(0) particle, probably mediating association of ATP6 with the subunit 9 ring [, ].; GO: 0004222 metalloendopeptidase activity
Probab=59.21 E-value=5 Score=37.46 Aligned_cols=21 Identities=24% Similarity=0.371 Sum_probs=15.6
Q ss_pred hhhhhhHHHHhhhHhHhhhcC
Q 014080 400 RLLTGSILAHEMMHAWLRLKG 420 (431)
Q Consensus 400 rl~~g~ilaHE~~Ha~lrl~g 420 (431)
+.-...+|+|||.|||=.+..
T Consensus 68 ~~~l~~~l~HELIHayD~cr~ 88 (173)
T PF09768_consen 68 QGHLEDTLTHELIHAYDHCRA 88 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 344568999999999965553
No 41
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=58.92 E-value=4.6 Score=36.97 Aligned_cols=54 Identities=17% Similarity=0.397 Sum_probs=36.1
Q ss_pred ccccccccccccCcccccCCCccccCC--cceEEEecccccccccCCCcccCCCCccCCCCCccCCCCc
Q 014080 207 RPYHKHCYKEQHHPKCDVCQNFIPTNS--AGLIEYRAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTK 273 (431)
Q Consensus 207 ~pyC~~CY~~~f~pkC~~C~~~I~~~~--~~~i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~ 273 (431)
.-||..|-.+ .-..|..|+.+|.|.. .|++.+..+ |+.- -.|..|++++|+...
T Consensus 28 ~~fC~kCG~~-tI~~Cp~C~~~IrG~y~v~gv~~~g~~-----------~~~P-sYC~~CGkpyPWt~~ 83 (158)
T PF10083_consen 28 EKFCSKCGAK-TITSCPNCSTPIRGDYHVEGVFGLGGH-----------YEAP-SYCHNCGKPYPWTEN 83 (158)
T ss_pred HHHHHHhhHH-HHHHCcCCCCCCCCceecCCeeeeCCC-----------CCCC-hhHHhCCCCCchHHH
Confidence 5688888654 4568999999999963 345544322 2211 139999999987554
No 42
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=58.89 E-value=7 Score=32.33 Aligned_cols=14 Identities=29% Similarity=0.681 Sum_probs=9.6
Q ss_pred CcccccCCCccccC
Q 014080 219 HPKCDVCQNFIPTN 232 (431)
Q Consensus 219 ~pkC~~C~~~I~~~ 232 (431)
...|.+|+++|...
T Consensus 78 ~~~C~vC~k~l~~~ 91 (109)
T PF10367_consen 78 STKCSVCGKPLGNS 91 (109)
T ss_pred CCCccCcCCcCCCc
Confidence 34788888877653
No 43
>COG2856 Predicted Zn peptidase [Amino acid transport and metabolism]
Probab=57.52 E-value=9.9 Score=36.67 Aligned_cols=31 Identities=29% Similarity=0.128 Sum_probs=24.7
Q ss_pred EEEEEecCCChhhhhhHHHHhhhHhHhhhcC
Q 014080 390 TAILILYGLPRLLTGSILAHEMMHAWLRLKG 420 (431)
Q Consensus 390 ~~il~l~glprl~~g~ilaHE~~Ha~lrl~g 420 (431)
.-|++---++.-.---+||||++|+||--.+
T Consensus 59 ~~I~iN~n~~~~r~rFtlAHELGH~llH~~~ 89 (213)
T COG2856 59 PVIYINANNSLERKRFTLAHELGHALLHTDL 89 (213)
T ss_pred ceEEEeCCCCHHHHHHHHHHHHhHHHhcccc
Confidence 4677777778888888999999999985443
No 44
>PF01447 Peptidase_M4: Thermolysin metallopeptidase, catalytic domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification. ; InterPro: IPR013856 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases that belong to the MEROPS peptidase family M4 (thermolysin family, clan MA(E)). The protein fold of the peptidase domain of thermolysin, is the type example for members of the clan MA. The thermolysin family is composed only of secreted eubacterial endopeptidases. The zinc-binding residues are H-142, H-146 and E-166, with E-143 acting as the catalytic residue. Thermolysin also contains 4 calcium-binding sites, which contribute to its unusual thermostability. The family also includes enzymes from a number of pathogens, including Legionella and Listeria, and the protein pseudolysin, all with a substrate specificity for an aromatic residue in the P1' position. Three-dimensional structure analysis has shown that the enzymes undergo a hinge-bend motion during catalysis. Pseudolysin has a broader specificity, acting on large molecules such as elastin and collagen, possibly due to its wider active site cleft []. This entry represents a domain found in peptidase M4 family members.; GO: 0004222 metalloendopeptidase activity; PDB: 3NQX_A 3NQZ_B 3NQY_B 1BQB_A 1U4G_A 1EZM_A 3DBK_A 1ESP_A 1NPC_A 1LND_E ....
Probab=56.68 E-value=6.1 Score=35.93 Aligned_cols=13 Identities=31% Similarity=0.457 Sum_probs=10.9
Q ss_pred hhHHHHhhhHhHh
Q 014080 404 GSILAHEMMHAWL 416 (431)
Q Consensus 404 g~ilaHE~~Ha~l 416 (431)
=-|+||||+|+..
T Consensus 136 lDVvaHEltHGVt 148 (150)
T PF01447_consen 136 LDVVAHELTHGVT 148 (150)
T ss_dssp HHHHHHHHHHHHH
T ss_pred cceeeeccccccc
Confidence 4789999999864
No 45
>PRK14873 primosome assembly protein PriA; Provisional
Probab=56.44 E-value=8.1 Score=43.36 Aligned_cols=38 Identities=24% Similarity=0.628 Sum_probs=27.1
Q ss_pred ccCCCCCCCCCcceeecCCccccccccccccCcccccCCCc
Q 014080 188 RCHSCNLPITDVEFSMSGNRPYHKHCYKEQHHPKCDVCQNF 228 (431)
Q Consensus 188 ~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f~pkC~~C~~~ 228 (431)
+|..|+.+|. |....+.+.|..|-......+|..|+..
T Consensus 394 ~C~~C~~~L~---~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs~ 431 (665)
T PRK14873 394 RCRHCTGPLG---LPSAGGTPRCRWCGRAAPDWRCPRCGSD 431 (665)
T ss_pred ECCCCCCcee---EecCCCeeECCCCcCCCcCccCCCCcCC
Confidence 5666766664 4445668889999766666699999886
No 46
>cd04267 ZnMc_ADAM_like Zinc-dependent metalloprotease, ADAM_like or reprolysin_like subgroup. The adamalysin_like or ADAM family of metalloproteases contains proteolytic domains from snake venoms, proteases from the mammalian reproductive tract, and the tumor necrosis factor alpha convertase, TACE. ADAMs (A Disintegrin And Metalloprotease) are glycoproteins, which play roles in cell signaling, cell fusion, and cell-cell interactions.
Probab=55.89 E-value=7.3 Score=36.02 Aligned_cols=24 Identities=33% Similarity=0.373 Sum_probs=17.1
Q ss_pred EEEEecCCChhhhhhHHHHhhhHhH
Q 014080 391 AILILYGLPRLLTGSILAHEMMHAW 415 (431)
Q Consensus 391 ~il~l~glprl~~g~ilaHE~~Ha~ 415 (431)
+|....+ +.+..+.++|||++|.+
T Consensus 122 ~v~~~~~-~~~~~~~~~aHElGH~l 145 (192)
T cd04267 122 GVVEDTG-FTLLTALTMAHELGHNL 145 (192)
T ss_pred EEEecCC-cceeehhhhhhhHHhhc
Confidence 4444444 36788899999999964
No 47
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=55.75 E-value=11 Score=42.07 Aligned_cols=9 Identities=44% Similarity=0.947 Sum_probs=5.2
Q ss_pred cCCCCCccc
Q 014080 161 ICAGCNTEI 169 (431)
Q Consensus 161 ~C~~C~k~I 169 (431)
+|..|+..+
T Consensus 3 ~Cp~Cg~~n 11 (645)
T PRK14559 3 ICPQCQFEN 11 (645)
T ss_pred cCCCCCCcC
Confidence 466666555
No 48
>PHA03377 EBNA-3C; Provisional
Probab=53.70 E-value=9.4 Score=42.69 Aligned_cols=37 Identities=11% Similarity=0.206 Sum_probs=19.2
Q ss_pred cccCCCCCccccccccc-CCCCCCCChhHHHHHHHhhh
Q 014080 17 HARYGDDRTWDERRYSA-ADDSSGFDNEEIDRAIALSL 53 (431)
Q Consensus 17 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 53 (431)
.|++.--.-|..+++.. -++.-..-.++|+-|++..+
T Consensus 310 iGt~kp~~PWl~~P~E~Pyh~~rglt~~~i~~Af~rGq 347 (1000)
T PHA03377 310 IGNFKPYYPWNAPPNENPYHARRGIKEDVIQTAFRKAQ 347 (1000)
T ss_pred cCCCCCCCCCCCCCccCcccccccchHHHHHHHHHHHH
Confidence 45555556688655411 11112356778877665433
No 49
>PRK04351 hypothetical protein; Provisional
Probab=52.77 E-value=7.7 Score=35.30 Aligned_cols=17 Identities=41% Similarity=0.651 Sum_probs=13.9
Q ss_pred hhHHHHhhhHhHhhhcC
Q 014080 404 GSILAHEMMHAWLRLKG 420 (431)
Q Consensus 404 g~ilaHE~~Ha~lrl~g 420 (431)
-.||+|||.|.++.+.|
T Consensus 62 ~~vv~HElcH~~~~~~g 78 (149)
T PRK04351 62 IGIIKHELCHYHLHLEG 78 (149)
T ss_pred HhhHHHHHHHHHHHHHC
Confidence 57999999998777654
No 50
>PHA03378 EBNA-3B; Provisional
Probab=52.69 E-value=8.7 Score=42.76 Aligned_cols=37 Identities=27% Similarity=0.341 Sum_probs=18.5
Q ss_pred ccccCCCCCcccccc-cc-cCCCCCCCChhHHHHHHHhhhh
Q 014080 16 YHARYGDDRTWDERR-YS-AADDSSGFDNEEIDRAIALSLV 54 (431)
Q Consensus 16 ~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~ 54 (431)
-.|++.-..-|.... .. +-+ ...-.+||+-|+|..++
T Consensus 303 ~iGt~kpt~PWl~a~P~e~pYh--rpLtsedi~~AfarGqa 341 (991)
T PHA03378 303 CTGRPRPTKPWLRAHPVAVPYD--DPLTSEEIDLAYARGLA 341 (991)
T ss_pred hcCCCCCCCcccCCCCcccccc--ccchHHHHHHHHHHHHh
Confidence 345555455576222 21 111 23456788877766553
No 51
>PF04228 Zn_peptidase: Putative neutral zinc metallopeptidase; InterPro: IPR007343 Members of this family of bacterial proteins are described as hypothetical proteins or zinc metallopeptidases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=51.35 E-value=9.6 Score=38.50 Aligned_cols=22 Identities=32% Similarity=0.385 Sum_probs=18.6
Q ss_pred hhhhhhHHHHhhhHhHhhhcCC
Q 014080 400 RLLTGSILAHEMMHAWLRLKGF 421 (431)
Q Consensus 400 rl~~g~ilaHE~~Ha~lrl~g~ 421 (431)
.+.--+|||||++|.-+.|.|.
T Consensus 167 ~~a~ayVlAHEyGHHVQ~l~Gi 188 (292)
T PF04228_consen 167 DFAQAYVLAHEYGHHVQNLLGI 188 (292)
T ss_pred HHHHHHHHHHHHHHHHHHHhhh
Confidence 4566779999999999999884
No 52
>PF12773 DZR: Double zinc ribbon
Probab=51.34 E-value=16 Score=26.34 Aligned_cols=20 Identities=20% Similarity=0.507 Sum_probs=8.6
Q ss_pred cccCcchhhcccCCCCCCCc
Q 014080 281 RKLCLECLDSAIMDTHECQP 300 (431)
Q Consensus 281 ~~yC~~C~~~~v~~~~~C~~ 300 (431)
..+|..|-...-.+...|..
T Consensus 29 ~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 29 KKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred CCCCcCCcCCCcCCcCccCc
Confidence 34455555443333333433
No 53
>KOG1702 consensus Nebulin repeat protein [Cytoskeleton]
Probab=51.17 E-value=4.7 Score=38.60 Aligned_cols=58 Identities=10% Similarity=0.103 Sum_probs=37.8
Q ss_pred cccccCCCccccCCcceEEEecccccccccCCCcccCCCCccCCCCCccCCCCceEEccCCcccCcchhhcc
Q 014080 220 PKCDVCQNFIPTNSAGLIEYRAHPFWLQKYCPSHERDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDSA 291 (431)
Q Consensus 220 pkC~~C~~~I~~~~~~~i~~~~~pfw~~~yCp~h~H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~ 291 (431)
+.|..|++.+.+-+ .+..... .||..||+|..|+..+.. .+| .-.+.++||..+|...
T Consensus 5 ~n~~~cgk~vYPvE--~v~cldk----------~whk~cfkce~c~mtlnm-Kny-Kgy~kkpycn~hYpkq 62 (264)
T KOG1702|consen 5 CNREDCGKTVYPVE--EVKCLDK----------VWHKQCFKCEVCGMTLNM-KNY-KGYDKKPYCNPHYPKQ 62 (264)
T ss_pred chhhhhccccccHH--HHhhHHH----------HHHHHhheeeeccCChhh-hhc-cccccCCCcCcccccc
Confidence 45667777666422 1222232 469999999999986632 222 2347899999999764
No 54
>PF04298 Zn_peptidase_2: Putative neutral zinc metallopeptidase; InterPro: IPR007395 Members of this family of bacterial proteins are described as hypothetical proteins or zinc-dependent proteases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=49.97 E-value=9.1 Score=37.16 Aligned_cols=30 Identities=23% Similarity=0.366 Sum_probs=23.8
Q ss_pred cCCChhhhhhHHHHhhhHhHhhhcCCCCCc
Q 014080 396 YGLPRLLTGSILAHEMMHAWLRLKGFICFK 425 (431)
Q Consensus 396 ~glprl~~g~ilaHE~~Ha~lrl~g~~~l~ 425 (431)
|+=+.+..=+|.|||.+||-+.-.||.-|.
T Consensus 82 y~~~SiaAvaVAAHEvGHAiQ~a~~Y~pl~ 111 (222)
T PF04298_consen 82 YNGRSIAAVAVAAHEVGHAIQHAEGYAPLR 111 (222)
T ss_pred CCCCCHHHHHHHHHHHhHHHhccccCcHHH
Confidence 444556666899999999999999987654
No 55
>PF01435 Peptidase_M48: Peptidase family M48 This is family M48 in the peptidase classification. ; InterPro: IPR001915 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M48 (Ste24 endopeptidase family, clan M-); members of both subfamily are represented. The members of this set of proteins are mostly described as probable protease htpX homologue (3.4.24 from EC) or CAAX prenyl protease 1, which proteolytically removes the C-terminal three residues of farnesylated proteins. They are integral membrane proteins associated with the endoplasmic reticulum and Golgi, binding one zinc ion per subunit. In Saccharomyces cerevisiae (Baker's yeast) Ste24p is required for the first NH2-terminal proteolytic processing event within the a-factor precursor, which takes place after COOH-terminal CAAX modification is complete. The Ste24p contains multiple predicted membrane spans, a zinc metalloprotease motif (HEXXH), and a COOH-terminal ER retrieval signal (KKXX). The HEXXH protease motif is critical for Ste24p activity, since Ste24p fails to function when conserved residues within this motif are mutated. The Ste24p homologues occur in a diverse group of organisms, including Escherichia coli, Schizosaccharomyces pombe (Fission yeast), Haemophilus influenzae, and Homo sapiens (Human), which indicates that the gene is highly conserved throughout evolution. Ste24p and the proteins related to it define a subfamily of proteins that are likely to function as intracellular, membrane-associated zinc metalloproteases []. HtpX is a zinc-dependent endoprotease member of the membrane-localized proteolytic system in E. coli, which participates in the proteolytic quality control of membrane proteins in conjunction with FtsH, a membrane-bound and ATP-dependent protease. Biochemical characterisation revealed that HtpX undergoes self-degradation upon cell disruption or membrane solubilization. It can also degraded casein and cleaves solubilized membrane proteins, for example, SecY []. Expression of HtpX in the plasma membrane is under the control of CpxR, with the metalloproteinase active site of HtpX located on the cytosolic side of the membrane. This suggests a potential role for HtpX in the response to mis-folded proteins [].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis, 0016020 membrane; PDB: 3CQB_A 3C37_B.
Probab=49.35 E-value=12 Score=34.85 Aligned_cols=27 Identities=33% Similarity=0.407 Sum_probs=18.2
Q ss_pred EEEEecC----CChhhhhhHHHHhhhHhHhh
Q 014080 391 AILILYG----LPRLLTGSILAHEMMHAWLR 417 (431)
Q Consensus 391 ~il~l~g----lprl~~g~ilaHE~~Ha~lr 417 (431)
.|+|-.| ++..-.-+|||||++|...+
T Consensus 73 ~I~v~~~ll~~~~~~el~aVlaHElgH~~~~ 103 (226)
T PF01435_consen 73 RIVVTSGLLESLSEDELAAVLAHELGHIKHR 103 (226)
T ss_dssp EEEEEHHHHHHSSHHHHHHHHHHHHHHHHTT
T ss_pred EEEEeChhhhcccHHHHHHHHHHHHHHHHcC
Confidence 3444444 44445568999999998765
No 56
>PF05572 Peptidase_M43: Pregnancy-associated plasma protein-A; InterPro: IPR008754 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase M43 (cytophagalysin family, clan MA(M)), subfamily M43. The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. The type example of this family is the pregnancy-associated plasma protein A (PAPP-A), which cleaves insulin-like growth factor (IGF) binding protein-4 (IGFBP-4), causing a dramatic reduction in its affinity for IGF-I and -II. Through this mechanism, PAPP-A is a regulator of IGF bioactivity in several systems, including the Homo sapiens ovary and the cardiovascular system [, , , ].; PDB: 3LUN_A 3LUM_B 2J83_A 2CKI_A.
Probab=47.71 E-value=11 Score=34.20 Aligned_cols=19 Identities=42% Similarity=0.742 Sum_probs=13.4
Q ss_pred ChhhhhhHHHHhhhHhHhhh
Q 014080 399 PRLLTGSILAHEMMHAWLRL 418 (431)
Q Consensus 399 prl~~g~ilaHE~~Ha~lrl 418 (431)
+....|.+|+||++| ||=|
T Consensus 65 ~~~~~g~TltHEvGH-~LGL 83 (154)
T PF05572_consen 65 SQYNFGKTLTHEVGH-WLGL 83 (154)
T ss_dssp TTS-SSHHHHHHHHH-HTT-
T ss_pred Cccccccchhhhhhh-hhcc
Confidence 356679999999999 4544
No 57
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=47.40 E-value=12 Score=23.23 Aligned_cols=9 Identities=44% Similarity=1.165 Sum_probs=4.7
Q ss_pred CCCCCcccc
Q 014080 162 CAGCNTEIG 170 (431)
Q Consensus 162 C~~C~k~I~ 170 (431)
|..|+..|.
T Consensus 2 Cp~CG~~~~ 10 (23)
T PF13240_consen 2 CPNCGAEIE 10 (23)
T ss_pred CcccCCCCC
Confidence 555555553
No 58
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=46.65 E-value=14 Score=27.59 Aligned_cols=44 Identities=14% Similarity=0.212 Sum_probs=31.9
Q ss_pred cccCCCCCCCCCcceeecCCcccccccccccc--CcccccCCCcccc
Q 014080 187 FRCHSCNLPITDVEFSMSGNRPYHKHCYKEQH--HPKCDVCQNFIPT 231 (431)
Q Consensus 187 F~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f--~pkC~~C~~~I~~ 231 (431)
|.|..|+..+.. ......|..||+.|..+.+ ...|..|++++..
T Consensus 2 ~~Cpi~~~~~~~-Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKD-PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCC-CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 578888888776 3445678999998877543 4578888888754
No 59
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=46.65 E-value=10 Score=27.41 Aligned_cols=44 Identities=20% Similarity=0.437 Sum_probs=29.7
Q ss_pred cccCCCCCCCCCcceeecCCcc-ccccccccc--cCcccccCCCcccc
Q 014080 187 FRCHSCNLPITDVEFSMSGNRP-YHKHCYKEQ--HHPKCDVCQNFIPT 231 (431)
Q Consensus 187 F~C~~C~~~L~~~~F~~~dg~p-yC~~CY~~~--f~pkC~~C~~~I~~ 231 (431)
+.|..|........+. .=|.. +|..|+.+. ...+|..|.++|..
T Consensus 3 ~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 3 EECPICFENPRDVVLL-PCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp SB-TTTSSSBSSEEEE-TTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred CCCccCCccCCceEEe-CCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 3567777665553333 45566 999999876 46799999999863
No 60
>PRK04860 hypothetical protein; Provisional
Probab=46.13 E-value=13 Score=34.20 Aligned_cols=19 Identities=16% Similarity=0.314 Sum_probs=15.5
Q ss_pred hhhhhHHHHhhhHhHhhhc
Q 014080 401 LLTGSILAHEMMHAWLRLK 419 (431)
Q Consensus 401 l~~g~ilaHE~~Ha~lrl~ 419 (431)
...-.|++|||+|.|+-+.
T Consensus 61 ~~l~~~v~HEl~H~~~~~~ 79 (160)
T PRK04860 61 AFIDEVVPHELAHLLVYQL 79 (160)
T ss_pred HHHHhHHHHHHHHHHHHHH
Confidence 4446899999999998866
No 61
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=46.00 E-value=4.8 Score=38.04 Aligned_cols=52 Identities=15% Similarity=0.261 Sum_probs=42.4
Q ss_pred cccCCCCccCCCCCccCCCCceEEccCCcccCcchhhcccCCCCCCCcccHHH
Q 014080 253 HERDGTPRCCSCERMEPRDTKYLSLDDGRKLCLECLDSAIMDTHECQPLYLEI 305 (431)
Q Consensus 253 h~H~~CF~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~v~~~~~C~~C~~~I 305 (431)
+||..|..|..|...+..+...+.. +|..||...+........+|..|.+.|
T Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr~rt~~~~ 69 (235)
T KOG0490|consen 18 YWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRCARCKFTI 69 (235)
T ss_pred HHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccccCCCCCc
Confidence 5799999999999988544555655 999999999987445677999999877
No 62
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=45.09 E-value=21 Score=25.18 Aligned_cols=42 Identities=17% Similarity=0.313 Sum_probs=28.6
Q ss_pred cCCCCCccCCCCceEEccCCcccCcchhhcccCCCCCCCccc
Q 014080 261 CCSCERMEPRDTKYLSLDDGRKLCLECLDSAIMDTHECQPLY 302 (431)
Q Consensus 261 C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~v~~~~~C~~C~ 302 (431)
|..|.+.+.....++.+.=|..+|..|..........|.-|.
T Consensus 2 C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~ 43 (44)
T PF14634_consen 2 CNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICR 43 (44)
T ss_pred CcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCC
Confidence 667777664455677778899999999987542345565554
No 63
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=44.94 E-value=15 Score=26.17 Aligned_cols=21 Identities=29% Similarity=0.796 Sum_probs=15.0
Q ss_pred cCCCCCccCCCCceEEccCCcccCcch
Q 014080 261 CCSCERMEPRDTKYLSLDDGRKLCLEC 287 (431)
Q Consensus 261 C~~C~r~l~~g~~f~~l~dG~~yC~~C 287 (431)
|..|+.+| +...+|+.||..|
T Consensus 20 Cp~C~~PL------~~~k~g~~~Cv~C 40 (41)
T PF06677_consen 20 CPDCGTPL------MRDKDGKIYCVSC 40 (41)
T ss_pred cCCCCCee------EEecCCCEECCCC
Confidence 66677765 3346889999887
No 64
>PF13688 Reprolysin_5: Metallo-peptidase family M12; PDB: 2FV5_B 3EWJ_A 3KME_A 3L0T_B 1BKC_E 3G42_D 2I47_D 2FV9_B 3LEA_A 1ZXC_B ....
Probab=44.66 E-value=14 Score=34.21 Aligned_cols=17 Identities=29% Similarity=0.382 Sum_probs=13.5
Q ss_pred ChhhhhhHHHHhhhHhH
Q 014080 399 PRLLTGSILAHEMMHAW 415 (431)
Q Consensus 399 prl~~g~ilaHE~~Ha~ 415 (431)
|......++|||++|.+
T Consensus 138 ~~~~~~~~~AHEiGH~l 154 (196)
T PF13688_consen 138 PTYNGAITFAHEIGHNL 154 (196)
T ss_dssp -HHHHHHHHHHHHHHHT
T ss_pred CCCceehhhHHhHHHhc
Confidence 45677788999999975
No 65
>PF00413 Peptidase_M10: Matrixin This Prosite motif covers only the active site.; InterPro: IPR001818 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M10 (clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Sequences having this domain are extracellular metalloproteases, such as collagenase and stromelysin, which degrade the extracellular matrix, are known as matrixins. They are zinc-dependent, calcium-activated proteases synthesised as inactive precursors (zymogens), which are proteolytically cleaved to yield the active enzyme [, ]. All matrixins and related proteins possess 2 domains: an N-terminal domain, and a zinc-binding active site domain. The N-terminal domain peptide, cleaved during the activation step, includes a conserved PRCGVPDV octapeptide, known as the cysteine switch, whose Cys residue chelates the active site zinc atom, rendering the enzyme inactive [, ]. The active enzyme degrades components of the extracellular matrix, playing a role in the initial steps of tissue remodelling during morphogenesis, wound healing, angiogenesis and tumour invasion [, ].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0031012 extracellular matrix; PDB: 1Q3A_C 3V96_B 1HV5_D 1CXV_A 1SRP_A 1FBL_A 1ZVX_A 1JH1_A 1I76_A 2OY4_A ....
Probab=44.17 E-value=12 Score=32.81 Aligned_cols=16 Identities=31% Similarity=0.218 Sum_probs=12.3
Q ss_pred ChhhhhhHHHHhhhHh
Q 014080 399 PRLLTGSILAHEMMHA 414 (431)
Q Consensus 399 prl~~g~ilaHE~~Ha 414 (431)
+..-..+|+.||++||
T Consensus 101 ~~~~~~~v~~HEiGHa 116 (154)
T PF00413_consen 101 SGNDLQSVAIHEIGHA 116 (154)
T ss_dssp SSEEHHHHHHHHHHHH
T ss_pred hhhhhhhhhhhccccc
Confidence 3344568999999998
No 66
>cd00203 ZnMc Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which are involved in vertebrate development and disease.
Probab=44.05 E-value=15 Score=32.60 Aligned_cols=16 Identities=31% Similarity=0.329 Sum_probs=13.1
Q ss_pred hhhhhhHHHHhhhHhH
Q 014080 400 RLLTGSILAHEMMHAW 415 (431)
Q Consensus 400 rl~~g~ilaHE~~Ha~ 415 (431)
...+..++|||++|+.
T Consensus 93 ~~~~~~~~~HElGH~L 108 (167)
T cd00203 93 TKEGAQTIAHELGHAL 108 (167)
T ss_pred cccchhhHHHHHHHHh
Confidence 3467899999999974
No 67
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=44.03 E-value=3.6 Score=34.71 Aligned_cols=50 Identities=24% Similarity=0.547 Sum_probs=29.5
Q ss_pred cCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceeecCCcccc
Q 014080 161 ICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYH 210 (431)
Q Consensus 161 ~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC 210 (431)
-|..|...+..-.+....-..+++.+..|..|.+.|.-.+|.....=|||
T Consensus 37 aCy~CHdel~~Hpf~p~~~~~~~~~~iiCGvC~~~LT~~EY~~~~~Cp~C 86 (105)
T COG4357 37 ACYHCHDELEDHPFEPWGLQEFNPKAIICGVCRKLLTRAEYGMCGSCPYC 86 (105)
T ss_pred hHHHHHhHHhcCCCccCChhhcCCccEEhhhhhhhhhHHHHhhcCCCCCc
Confidence 35555555543344444446677778888888777776555544433333
No 68
>smart00235 ZnMc Zinc-dependent metalloprotease. Neutral zinc metallopeptidases. This alignment represents a subset of known subfamilies. Highest similarity occurs in the HExxH zinc-binding site/ active site.
Probab=44.00 E-value=11 Score=32.94 Aligned_cols=9 Identities=56% Similarity=0.800 Sum_probs=8.7
Q ss_pred HHHHhhhHh
Q 014080 406 ILAHEMMHA 414 (431)
Q Consensus 406 ilaHE~~Ha 414 (431)
+++||+|||
T Consensus 89 ~~~HEigHa 97 (140)
T smart00235 89 VAAHELGHA 97 (140)
T ss_pred cHHHHHHHH
Confidence 899999998
No 69
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=43.84 E-value=14 Score=30.90 Aligned_cols=42 Identities=19% Similarity=0.522 Sum_probs=29.1
Q ss_pred ccCCCcccCCCCCCCCCcceeecCCccccccccccccCcccccCCCcccc
Q 014080 182 WHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQHHPKCDVCQNFIPT 231 (431)
Q Consensus 182 wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f~pkC~~C~~~I~~ 231 (431)
|-+.=-.|..|+..+.. .|.-||..|..+ .-.|+-|++.|.+
T Consensus 40 y~~~~~~C~~CK~~v~q------~g~~YCq~CAYk--kGiCamCGKki~d 81 (90)
T PF10235_consen 40 YAPYSSKCKICKTKVHQ------PGAKYCQTCAYK--KGICAMCGKKILD 81 (90)
T ss_pred ccccCcccccccccccc------CCCccChhhhcc--cCcccccCCeecc
Confidence 33333467778776643 467899999654 3489999999975
No 70
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=43.60 E-value=18 Score=39.14 Aligned_cols=38 Identities=13% Similarity=0.426 Sum_probs=25.9
Q ss_pred ccCCCCCCCCCcceeecCCccccccccccc-cCcccccCCCc
Q 014080 188 RCHSCNLPITDVEFSMSGNRPYHKHCYKEQ-HHPKCDVCQNF 228 (431)
Q Consensus 188 ~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~-f~pkC~~C~~~ 228 (431)
+|..|+.+| .|....+.+.|..|-... ....|..|+..
T Consensus 224 ~C~~C~~~l---~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 224 CCPNCDVSL---TYHKKEGKLRCHYCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred CCCCCCCce---EEecCCCeEEcCCCcCcCCCCCCCCCCCCC
Confidence 455565555 345567788899886654 45689999874
No 71
>PF01863 DUF45: Protein of unknown function DUF45; InterPro: IPR002725 Members of this family are found in some archaebacteria, as well as Helicobacter pylori. The proteins are 190-240 amino acids long, with the C terminus being the most conserved region, containing three conserved histidines.
Probab=42.94 E-value=19 Score=33.34 Aligned_cols=27 Identities=22% Similarity=0.245 Sum_probs=21.5
Q ss_pred EEEEEEecCCChhhhhhHHHHhhhHhH
Q 014080 389 VTAILILYGLPRLLTGSILAHEMMHAW 415 (431)
Q Consensus 389 v~~il~l~glprl~~g~ilaHE~~Ha~ 415 (431)
++-=+-|.-+|.-+--+|++||++|-.
T Consensus 150 I~ln~~L~~~P~~~idYVvvHEL~Hl~ 176 (205)
T PF01863_consen 150 ITLNWRLVMAPPEVIDYVVVHELCHLR 176 (205)
T ss_pred EEeecccccCCccHHHHHHHHHHHHhc
Confidence 333355677999999999999999963
No 72
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.49 E-value=13 Score=37.43 Aligned_cols=46 Identities=17% Similarity=0.325 Sum_probs=32.9
Q ss_pred CcccCCCCCCCCCcceeecCCcccccccccccc--CcccccCCCccccC
Q 014080 186 CFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQH--HPKCDVCQNFIPTN 232 (431)
Q Consensus 186 CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f--~pkC~~C~~~I~~~ 232 (431)
=|.|..|.+..... ....-+..+|+.|....+ +++|..|++.+.+.
T Consensus 241 Pf~c~icr~~f~~p-Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~ 288 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP-VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGS 288 (313)
T ss_pred Cccccccccccccc-hhhcCCceeehhhhccccccCCcceecccccccc
Confidence 47788887766542 233466788999987654 46899999998874
No 73
>PF14247 DUF4344: Domain of unknown function (DUF4344)
Probab=42.21 E-value=17 Score=35.23 Aligned_cols=21 Identities=24% Similarity=0.137 Sum_probs=18.2
Q ss_pred hhHHHHhhhHhHhhhcCCCCC
Q 014080 404 GSILAHEMMHAWLRLKGFICF 424 (431)
Q Consensus 404 g~ilaHE~~Ha~lrl~g~~~l 424 (431)
-.||-||++||.+-+.+.|-|
T Consensus 93 ~~~l~HE~GHAlI~~~~lPv~ 113 (220)
T PF14247_consen 93 LFTLYHELGHALIDDLDLPVL 113 (220)
T ss_pred HHHHHHHHHHHHHHHhcCCcc
Confidence 367999999999999988766
No 74
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=41.68 E-value=10 Score=28.26 Aligned_cols=29 Identities=24% Similarity=0.507 Sum_probs=21.8
Q ss_pred ccCCCCCCCCCcc-eeecCCccccccccccc
Q 014080 188 RCHSCNLPITDVE-FSMSGNRPYHKHCYKEQ 217 (431)
Q Consensus 188 ~C~~C~~~L~~~~-F~~~dg~pyC~~CY~~~ 217 (431)
.|..|+..++... |-..|| ..|..|+.+.
T Consensus 1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKL 30 (51)
T ss_pred CCCccccccccccceeccCc-cchHHHHHHh
Confidence 4888998887543 666777 6899998764
No 75
>PF01433 Peptidase_M1: Peptidase family M1 This is family M1 in the peptidase classification.; InterPro: IPR014782 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M1 (clan MA(E)), the type example being aminopeptidase N from Homo sapiens (Human). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Membrane alanine aminopeptidase (3.4.11.2 from EC) is part of the HEXXH+E group; it consists entirely of aminopeptidases, spread across a wide variety of species []. Functional studies show that CD13/APN catalyzes the removal of single amino acids from the amino terminus of small peptides and probably plays a role in their final digestion; one family member (leukotriene-A4 hydrolase) is known to hydrolyse the epoxide leukotriene-A4 to form an inflammatory mediator []. This hydrolase has been shown to have aminopeptidase activity [], and the zinc ligands of the M1 family were identified by site-directed mutagenesis on this enzyme [] CD13 participates in trimming peptides bound to MHC class II molecules [] and cleaves MIP-1 chemokine, which alters target cell specificity from basophils to eosinophils []. CD13 acts as a receptor for specific strains of RNA viruses (coronaviruses) which cause a relatively large percentage of upper respiratory trace infections. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding; PDB: 2XQ0_A 2XPY_A 2XPZ_A 3SE6_B 3EBH_A 3EBG_A 3T8V_A 3Q44_A 3Q43_A 3EBI_A ....
Probab=41.09 E-value=12 Score=38.06 Aligned_cols=14 Identities=43% Similarity=1.042 Sum_probs=11.9
Q ss_pred hhhHHHHhhhHhHh
Q 014080 403 TGSILAHEMMHAWL 416 (431)
Q Consensus 403 ~g~ilaHE~~Ha~l 416 (431)
...++|||++|.|.
T Consensus 295 ~~~~iahElahqWf 308 (390)
T PF01433_consen 295 IASLIAHELAHQWF 308 (390)
T ss_dssp HHHHHHHHHHTTTB
T ss_pred hHHHHHHHHHHHHh
Confidence 35789999999996
No 76
>cd04268 ZnMc_MMP_like Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases.
Probab=41.04 E-value=14 Score=32.88 Aligned_cols=12 Identities=33% Similarity=0.393 Sum_probs=10.4
Q ss_pred hhhHHHHhhhHh
Q 014080 403 TGSILAHEMMHA 414 (431)
Q Consensus 403 ~g~ilaHE~~Ha 414 (431)
.-.+++||++||
T Consensus 94 ~~~~~~HEiGHa 105 (165)
T cd04268 94 LRNTAEHELGHA 105 (165)
T ss_pred HHHHHHHHHHHH
Confidence 457899999998
No 77
>PF08219 TOM13: Outer membrane protein TOM13; InterPro: IPR013262 The TOM13 family of proteins are mitochondrial outer membrane proteins that mediate the assembly of beta-barrel proteins [].; GO: 0005741 mitochondrial outer membrane
Probab=40.06 E-value=20 Score=29.04 Aligned_cols=22 Identities=27% Similarity=0.311 Sum_probs=16.0
Q ss_pred hhhhhhHHHHhhhHhHhhhcCCC
Q 014080 400 RLLTGSILAHEMMHAWLRLKGFI 422 (431)
Q Consensus 400 rl~~g~ilaHE~~Ha~lrl~g~~ 422 (431)
.|=||-|+|||+++-| --.|++
T Consensus 49 MLGFGEl~AhE~~fr~-gW~g~k 70 (77)
T PF08219_consen 49 MLGFGELFAHEIAFRL-GWSGTK 70 (77)
T ss_pred hHhHHHHHHHHHHHHh-ccCcce
Confidence 5789999999998844 225544
No 78
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=40.01 E-value=8 Score=32.99 Aligned_cols=28 Identities=32% Similarity=0.593 Sum_probs=13.2
Q ss_pred cCCCCCcccccCceEeecC-ccccCCCcc
Q 014080 161 ICAGCNTEIGHGRYLSCME-AFWHPECFR 188 (431)
Q Consensus 161 ~C~~C~k~I~~g~~v~alg-k~wHp~CF~ 188 (431)
.|..|+++|..|+.+++.. ..-|-.||+
T Consensus 4 kC~iCg~~I~~gqlFTF~~kG~VH~~C~~ 32 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKKGPVHYECFR 32 (101)
T ss_pred EEEecCCeeeecceEEEecCCcEeHHHHH
Confidence 3555555555555444322 334444443
No 79
>COG2191 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]
Probab=39.85 E-value=14 Score=35.41 Aligned_cols=29 Identities=21% Similarity=0.499 Sum_probs=16.8
Q ss_pred ccCCCCCCCCCcceeecCCcccccccccc
Q 014080 188 RCHSCNLPITDVEFSMSGNRPYHKHCYKE 216 (431)
Q Consensus 188 ~C~~C~~~L~~~~F~~~dg~pyC~~CY~~ 216 (431)
+|..|+.......-...+|++.|+.||..
T Consensus 174 ~C~kCGE~~~e~~~~~~ng~~vC~~C~~~ 202 (206)
T COG2191 174 RCSKCGELFMEPRAVVLNGKPVCKPCAEK 202 (206)
T ss_pred eccccCcccccchhhhcCCceeccccccc
Confidence 34444443333333346888888888875
No 80
>KOG3624 consensus M13 family peptidase [Amino acid transport and metabolism]
Probab=39.73 E-value=14 Score=41.36 Aligned_cols=15 Identities=27% Similarity=0.505 Sum_probs=12.9
Q ss_pred hhhhhHHHHhhhHhH
Q 014080 401 LLTGSILAHEMMHAW 415 (431)
Q Consensus 401 l~~g~ilaHE~~Ha~ 415 (431)
-..|.|||||++|++
T Consensus 516 g~iG~vigHEl~H~F 530 (687)
T KOG3624|consen 516 GGIGFVIGHELTHGF 530 (687)
T ss_pred HHHHHHHHHHHhhcc
Confidence 357999999999986
No 81
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=39.69 E-value=16 Score=32.61 Aligned_cols=24 Identities=25% Similarity=0.557 Sum_probs=19.2
Q ss_pred ccCCCCCccCCCCceEEccCCcccCcchhhc
Q 014080 260 RCCSCERMEPRDTKYLSLDDGRKLCLECLDS 290 (431)
Q Consensus 260 ~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~ 290 (431)
.|..|+.+| |. +||..||+.|-.+
T Consensus 30 hCp~Cg~PL------F~-KdG~v~CPvC~~~ 53 (131)
T COG1645 30 HCPKCGTPL------FR-KDGEVFCPVCGYR 53 (131)
T ss_pred hCcccCCcc------ee-eCCeEECCCCCce
Confidence 388899877 33 7999999999854
No 82
>COG2738 Predicted Zn-dependent protease [General function prediction only]
Probab=39.37 E-value=16 Score=34.87 Aligned_cols=29 Identities=24% Similarity=0.317 Sum_probs=24.1
Q ss_pred cCCChhhhhhHHHHhhhHhHhhhcCCCCC
Q 014080 396 YGLPRLLTGSILAHEMMHAWLRLKGFICF 424 (431)
Q Consensus 396 ~glprl~~g~ilaHE~~Ha~lrl~g~~~l 424 (431)
|+=|....-+|.|||.+||.+--.+|+-|
T Consensus 85 y~g~Sia~~aVAAHEVGHAiQd~~~Y~~L 113 (226)
T COG2738 85 YYGPSIAAIAVAAHEVGHAIQDQEDYAFL 113 (226)
T ss_pred cCCccHHHHHHHHHHhhHHHhhhcccHHH
Confidence 66677888899999999999888887654
No 83
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=39.32 E-value=16 Score=27.23 Aligned_cols=44 Identities=7% Similarity=0.030 Sum_probs=31.8
Q ss_pred CccCCCCCccCCCCceEEccCCcccCcchhhcccCCCCCCCcccHHH
Q 014080 259 PRCCSCERMEPRDTKYLSLDDGRKLCLECLDSAIMDTHECQPLYLEI 305 (431)
Q Consensus 259 F~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~v~~~~~C~~C~~~I 305 (431)
|.|..|+..+ ..+.+ ...|..||..|....+.....|--|..++
T Consensus 2 ~~Cpi~~~~~--~~Pv~-~~~G~v~~~~~i~~~~~~~~~cP~~~~~~ 45 (63)
T smart00504 2 FLCPISLEVM--KDPVI-LPSGQTYERRAIEKWLLSHGTDPVTGQPL 45 (63)
T ss_pred cCCcCCCCcC--CCCEE-CCCCCEEeHHHHHHHHHHCCCCCCCcCCC
Confidence 6799999977 34544 57899999999987655555666666544
No 84
>PRK00420 hypothetical protein; Validated
Probab=39.12 E-value=19 Score=31.29 Aligned_cols=25 Identities=24% Similarity=0.413 Sum_probs=18.8
Q ss_pred ccCCCCCccCCCCceEEccCCcccCcchhhc
Q 014080 260 RCCSCERMEPRDTKYLSLDDGRKLCLECLDS 290 (431)
Q Consensus 260 ~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~ 290 (431)
.|..|+.+| +.+.+|..||+.|-..
T Consensus 25 ~CP~Cg~pL------f~lk~g~~~Cp~Cg~~ 49 (112)
T PRK00420 25 HCPVCGLPL------FELKDGEVVCPVHGKV 49 (112)
T ss_pred CCCCCCCcc------eecCCCceECCCCCCe
Confidence 477788765 4457899999999764
No 85
>cd04269 ZnMc_adamalysin_II_like Zinc-dependent metalloprotease; adamalysin_II_like subfamily. Adamalysin II is a snake venom zinc endopeptidase. This subfamily contains other snake venom metalloproteinases, as well as membrane-anchored metalloproteases belonging to the ADAM family. ADAMs (A Disintegrin And Metalloprotease) are glycoproteins, which play roles in cell signaling, cell fusion, and cell-cell interactions.
Probab=39.05 E-value=28 Score=32.18 Aligned_cols=16 Identities=38% Similarity=0.451 Sum_probs=13.4
Q ss_pred hhhhhhHHHHhhhHhH
Q 014080 400 RLLTGSILAHEMMHAW 415 (431)
Q Consensus 400 rl~~g~ilaHE~~Ha~ 415 (431)
.+.+..++|||++|.+
T Consensus 128 ~~~~a~~~AHElGH~l 143 (194)
T cd04269 128 LLLFAVTMAHELGHNL 143 (194)
T ss_pred hHHHHHHHHHHHHhhc
Confidence 4677899999999964
No 86
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=38.94 E-value=16 Score=27.76 Aligned_cols=13 Identities=15% Similarity=0.353 Sum_probs=10.0
Q ss_pred CCcCCCCCccccc
Q 014080 159 YRICAGCNTEIGH 171 (431)
Q Consensus 159 ~~~C~~C~k~I~~ 171 (431)
..+|..|+++|.+
T Consensus 5 ~~~C~~Cg~~~~~ 17 (54)
T PF14446_consen 5 GCKCPVCGKKFKD 17 (54)
T ss_pred CccChhhCCcccC
Confidence 4678889988853
No 87
>PF12674 Zn_ribbon_2: Putative zinc ribbon domain
Probab=38.90 E-value=15 Score=30.06 Aligned_cols=31 Identities=26% Similarity=0.553 Sum_probs=21.1
Q ss_pred ccCCCCCccCCCCceEEccCC---cccCcchhhc
Q 014080 260 RCCSCERMEPRDTKYLSLDDG---RKLCLECLDS 290 (431)
Q Consensus 260 ~C~~C~r~l~~g~~f~~l~dG---~~yC~~C~~~ 290 (431)
.|.+|+.++.....+.+..|| .-||.-||..
T Consensus 2 ~CQSCGMPl~~~~~~Gte~dGs~s~~YC~yCy~~ 35 (81)
T PF12674_consen 2 FCQSCGMPLSKDEDFGTEADGSKSEDYCSYCYQN 35 (81)
T ss_pred cCCcCcCccCCccccccccCCCCchhHHHHHhcC
Confidence 488899988655434444444 4599999976
No 88
>PRK04897 heat shock protein HtpX; Provisional
Probab=38.57 E-value=24 Score=35.48 Aligned_cols=18 Identities=22% Similarity=0.318 Sum_probs=14.1
Q ss_pred CCChhhhhhHHHHhhhHh
Q 014080 397 GLPRLLTGSILAHEMMHA 414 (431)
Q Consensus 397 glprl~~g~ilaHE~~Ha 414 (431)
.|++.-.-+|||||++|-
T Consensus 131 ~l~~~El~aVlAHElgHi 148 (298)
T PRK04897 131 IMNREELEGVIGHEISHI 148 (298)
T ss_pred hCCHHHHHHHHHHHHHHH
Confidence 456666678999999993
No 89
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=37.99 E-value=18 Score=32.30 Aligned_cols=22 Identities=18% Similarity=0.548 Sum_probs=15.7
Q ss_pred ccCCCCCCCCCcceeecCCcccccccc
Q 014080 188 RCHSCNLPITDVEFSMSGNRPYHKHCY 214 (431)
Q Consensus 188 ~C~~C~~~L~~~~F~~~dg~pyC~~CY 214 (431)
.|..|+.||- .++|.+||..|-
T Consensus 30 hCp~Cg~PLF-----~KdG~v~CPvC~ 51 (131)
T COG1645 30 HCPKCGTPLF-----RKDGEVFCPVCG 51 (131)
T ss_pred hCcccCCcce-----eeCCeEECCCCC
Confidence 3677777763 278888887764
No 90
>PF06037 DUF922: Bacterial protein of unknown function (DUF922); InterPro: IPR010321 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=37.77 E-value=68 Score=29.46 Aligned_cols=27 Identities=30% Similarity=0.473 Sum_probs=19.0
Q ss_pred EEEecCCChhh----------------hhhHHHHhhhHhHhhh
Q 014080 392 ILILYGLPRLL----------------TGSILAHEMMHAWLRL 418 (431)
Q Consensus 392 il~l~glprl~----------------~g~ilaHE~~Ha~lrl 418 (431)
+-|-|=||++. ...|.+||.+|+=+-+
T Consensus 59 l~itytlPr~~~~~~~~~~~~~~W~~~~a~l~~HE~~H~~ia~ 101 (161)
T PF06037_consen 59 LDITYTLPRWSRRAKAPPELRQRWDRFSAGLRRHEEVHGRIAR 101 (161)
T ss_pred EEEEEECCCccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556677773 5678999999975543
No 91
>PRK04023 DNA polymerase II large subunit; Validated
Probab=37.44 E-value=41 Score=39.40 Aligned_cols=55 Identities=24% Similarity=0.365 Sum_probs=36.1
Q ss_pred CCCCCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceeecCCccccccccccccCcccccCCCccccCC
Q 014080 156 FSGYRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQHHPKCDVCQNFIPTNS 233 (431)
Q Consensus 156 ~~~~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f~pkC~~C~~~I~~~~ 233 (431)
+.+.+.|..|+.... =|+|..|+.. .....+|..|-.......|..|+..+....
T Consensus 623 EVg~RfCpsCG~~t~---------------~frCP~CG~~--------Te~i~fCP~CG~~~~~y~CPKCG~El~~~s 677 (1121)
T PRK04023 623 EIGRRKCPSCGKETF---------------YRRCPFCGTH--------TEPVYRCPRCGIEVEEDECEKCGREPTPYS 677 (1121)
T ss_pred cccCccCCCCCCcCC---------------cccCCCCCCC--------CCcceeCccccCcCCCCcCCCCCCCCCccc
Confidence 455667777776531 1677778765 133456888866666677888888887653
No 92
>COG1451 Predicted metal-dependent hydrolase [General function prediction only]
Probab=37.21 E-value=18 Score=35.12 Aligned_cols=26 Identities=19% Similarity=0.245 Sum_probs=21.3
Q ss_pred EEEEEEecCCChhhhhhHHHHhhhHh
Q 014080 389 VTAILILYGLPRLLTGSILAHEMMHA 414 (431)
Q Consensus 389 v~~il~l~glprl~~g~ilaHE~~Ha 414 (431)
++==+.|-.+|.-+..+|++||++|-
T Consensus 161 i~~~~~l~~~p~~~i~YVvvHELaHL 186 (223)
T COG1451 161 IRFNWRLVMAPEEVIDYVVVHELAHL 186 (223)
T ss_pred EEeehhhhcCCHHHHHHHHHHHHHHH
Confidence 33345677899999999999999993
No 93
>PF13574 Reprolysin_2: Metallo-peptidase family M12B Reprolysin-like; PDB: 1KAP_P 1JIW_P 1AKL_A 1OM7_A 1OM8_A 1O0T_A 1OM6_A 1H71_P 1O0Q_A 1OMJ_A ....
Probab=36.96 E-value=19 Score=33.21 Aligned_cols=13 Identities=31% Similarity=0.327 Sum_probs=10.7
Q ss_pred hhhHHHHhhhHhH
Q 014080 403 TGSILAHEMMHAW 415 (431)
Q Consensus 403 ~g~ilaHE~~Ha~ 415 (431)
.-.++|||++|.+
T Consensus 111 ~~~~~aHElGH~l 123 (173)
T PF13574_consen 111 GIDTFAHELGHQL 123 (173)
T ss_dssp HHHHHHHHHHHHH
T ss_pred eeeeehhhhHhhc
Confidence 4567999999976
No 94
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=36.55 E-value=21 Score=24.65 Aligned_cols=25 Identities=20% Similarity=0.312 Sum_probs=17.7
Q ss_pred cccCCCCCCCCCcceeecCCccccccccc
Q 014080 187 FRCHSCNLPITDVEFSMSGNRPYHKHCYK 215 (431)
Q Consensus 187 F~C~~C~~~L~~~~F~~~dg~pyC~~CY~ 215 (431)
+.|..|+.. .|...+|..||..|-+
T Consensus 9 ~~C~~C~~~----~~~~~dG~~yC~~cG~ 33 (36)
T PF11781_consen 9 EPCPVCGSR----WFYSDDGFYYCDRCGH 33 (36)
T ss_pred CcCCCCCCe----EeEccCCEEEhhhCce
Confidence 347777643 5667899999987754
No 95
>PRK14015 pepN aminopeptidase N; Provisional
Probab=36.34 E-value=17 Score=42.08 Aligned_cols=14 Identities=43% Similarity=0.921 Sum_probs=11.9
Q ss_pred hhhHHHHhhhHhHh
Q 014080 403 TGSILAHEMMHAWL 416 (431)
Q Consensus 403 ~g~ilaHE~~Ha~l 416 (431)
..+|+|||+.|.|.
T Consensus 296 i~~vIaHElaHqWF 309 (875)
T PRK14015 296 IESVIAHEYFHNWT 309 (875)
T ss_pred HHHHHHHHHHHHHH
Confidence 35799999999994
No 96
>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 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 PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....
Probab=36.01 E-value=12 Score=29.88 Aligned_cols=17 Identities=41% Similarity=0.935 Sum_probs=12.6
Q ss_pred CCCCcCCCCCcccccCc
Q 014080 157 SGYRICAGCNTEIGHGR 173 (431)
Q Consensus 157 ~~~~~C~~C~k~I~~g~ 173 (431)
.+...|.+|++.|..|.
T Consensus 5 s~Ra~Ck~C~~~I~kg~ 21 (82)
T PF00645_consen 5 SGRAKCKGCKKKIAKGE 21 (82)
T ss_dssp SSTEBETTTSCBE-TTS
T ss_pred CCCccCcccCCcCCCCC
Confidence 35678999999997664
No 97
>cd06159 S2P-M50_PDZ_Arch Uncharacterized Archaeal homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group appears to be limited to Archaeal S2P/M50s homologs with additional putative N-terminal transmembrane spanning regions, relative to the core protein, and either one or two PDZ domains present.
Probab=35.02 E-value=24 Score=35.13 Aligned_cols=27 Identities=30% Similarity=0.505 Sum_probs=18.1
Q ss_pred ecCCChhhhhhHHHHhhhHhHhhh-cCCC
Q 014080 395 LYGLPRLLTGSILAHEMMHAWLRL-KGFI 422 (431)
Q Consensus 395 l~glprl~~g~ilaHE~~Ha~lrl-~g~~ 422 (431)
+|++. .+.-+++.||++||+.-. .|.+
T Consensus 111 ~~~~i-aL~isv~iHElgHa~~Ar~~G~~ 138 (263)
T cd06159 111 PYGII-ALVVGVVVHELSHGILARVEGIK 138 (263)
T ss_pred HHHHH-HHHHHHHHHHHHHHHHHHHcCCE
Confidence 34442 356688999999998744 3543
No 98
>cd06162 S2P-M50_PDZ_SREBP Sterol regulatory element-binding protein (SREBP) Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50A), regulates intramembrane proteolysis (RIP) of SREBP and is part of a signal transduction mechanism involved in sterol and lipid metabolism. In sterol-depleted mammalian cells, a two-step proteolytic process releases the N-terminal domains of SREBPs from membranes of the endoplasmic reticulum (ER). These domains translocate into the nucleus, where they activate genes of cholesterol and fatty acid biosynthesis. The first cleavage occurs at Site-1 within the ER lumen to generate an intermediate that is subsequently released from the membrane by cleavage at Site-2, which lies within the first transmembrane domain. It is the second proteolytic step that is carried out by the SREBP Site-2 protease (S2P) which is present in this CD family. This group appears to be limited to eumetazoan proteins and contains one PDZ domain.
Probab=34.97 E-value=24 Score=35.47 Aligned_cols=18 Identities=33% Similarity=0.276 Sum_probs=14.6
Q ss_pred hhhhHHHHhhhHhHhhhc
Q 014080 402 LTGSILAHEMMHAWLRLK 419 (431)
Q Consensus 402 ~~g~ilaHE~~Ha~lrl~ 419 (431)
+.-+++.||++||+.-..
T Consensus 134 l~isvvvHElgHal~A~~ 151 (277)
T cd06162 134 LLISGVVHEMGHGVAAVR 151 (277)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 467889999999997553
No 99
>PRK12495 hypothetical protein; Provisional
Probab=34.85 E-value=1e+02 Score=29.94 Aligned_cols=28 Identities=29% Similarity=0.542 Sum_probs=19.6
Q ss_pred CCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCC
Q 014080 159 YRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPIT 197 (431)
Q Consensus 159 ~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~ 197 (431)
...|..|+.+|. =++.+-.|..|+....
T Consensus 42 a~hC~~CG~PIp-----------a~pG~~~Cp~CQ~~~~ 69 (226)
T PRK12495 42 NAHCDECGDPIF-----------RHDGQEFCPTCQQPVT 69 (226)
T ss_pred hhhcccccCccc-----------CCCCeeECCCCCCccc
Confidence 467999999994 1266777888875543
No 100
>cd04279 ZnMc_MMP_like_1 Zinc-dependent metalloprotease; MMP_like sub-family 1. A group of bacterial, archaeal, and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin.
Probab=34.80 E-value=20 Score=32.03 Aligned_cols=15 Identities=33% Similarity=0.253 Sum_probs=12.1
Q ss_pred hhhhhhHHHHhhhHh
Q 014080 400 RLLTGSILAHEMMHA 414 (431)
Q Consensus 400 rl~~g~ilaHE~~Ha 414 (431)
..-.-+|+.||++|+
T Consensus 101 ~~~~~~~~~HEiGHa 115 (156)
T cd04279 101 AENLQAIALHELGHA 115 (156)
T ss_pred chHHHHHHHHHhhhh
Confidence 345568999999997
No 101
>COG5549 Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=34.67 E-value=18 Score=34.98 Aligned_cols=39 Identities=26% Similarity=0.135 Sum_probs=32.6
Q ss_pred EEEEEEEecCCChhhhhhHHHHhhhHhHhhhcCCCCCcee
Q 014080 388 EVTAILILYGLPRLLTGSILAHEMMHAWLRLKGFICFKLI 427 (431)
Q Consensus 388 ~v~~il~l~glprl~~g~ilaHE~~Ha~lrl~g~~~l~~~ 427 (431)
+=-.|+.-+|+-++-.-.++-||++|| |++-|+..|+-.
T Consensus 172 hr~~i~~~pg~~~e~L~~tarhElGha-Lgi~ghsd~ks~ 210 (236)
T COG5549 172 HRGDIMYPPGELRENLNPTARHELGHA-LGIWGHSDLKSD 210 (236)
T ss_pred ccccccCCcccchhhhhHHHHHhhcch-heecccccchhh
Confidence 335688999999999999999999999 788888777643
No 102
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=34.51 E-value=17 Score=24.35 Aligned_cols=40 Identities=13% Similarity=0.404 Sum_probs=17.8
Q ss_pred cCCCCCCCCCcceeecCCcccccccccccc---CcccccCCCc
Q 014080 189 CHSCNLPITDVEFSMSGNRPYHKHCYKEQH---HPKCDVCQNF 228 (431)
Q Consensus 189 C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f---~pkC~~C~~~ 228 (431)
|..|...+........=|..||..|....+ ..+|..|+..
T Consensus 2 C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 2 CPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 444554442212222244556666654322 2356666543
No 103
>KOG3714 consensus Meprin A metalloprotease [Posttranslational modification, protein turnover, chaperones]
Probab=34.32 E-value=18 Score=38.19 Aligned_cols=11 Identities=45% Similarity=0.821 Sum_probs=8.8
Q ss_pred hHHHHhhhHhH
Q 014080 405 SILAHEMMHAW 415 (431)
Q Consensus 405 ~ilaHE~~Ha~ 415 (431)
.|.+||+|||=
T Consensus 161 G~i~HEl~HaL 171 (411)
T KOG3714|consen 161 GTIVHELMHAL 171 (411)
T ss_pred chhHHHHHHHh
Confidence 46799999973
No 104
>PRK03982 heat shock protein HtpX; Provisional
Probab=34.14 E-value=20 Score=35.73 Aligned_cols=17 Identities=29% Similarity=0.399 Sum_probs=12.9
Q ss_pred CChhhhhhHHHHhhhHh
Q 014080 398 LPRLLTGSILAHEMMHA 414 (431)
Q Consensus 398 lprl~~g~ilaHE~~Ha 414 (431)
|+..=--+|||||++|.
T Consensus 120 l~~~El~AVlAHElgHi 136 (288)
T PRK03982 120 LNEDELEGVIAHELTHI 136 (288)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34555668999999994
No 105
>PRK03001 M48 family peptidase; Provisional
Probab=34.07 E-value=20 Score=35.62 Aligned_cols=17 Identities=29% Similarity=0.485 Sum_probs=12.6
Q ss_pred CChhhhhhHHHHhhhHh
Q 014080 398 LPRLLTGSILAHEMMHA 414 (431)
Q Consensus 398 lprl~~g~ilaHE~~Ha 414 (431)
|...=.-+|||||++|.
T Consensus 119 l~~~El~aVlAHElgHi 135 (283)
T PRK03001 119 LSEREIRGVMAHELAHV 135 (283)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 34445568999999995
No 106
>PF08394 Arc_trans_TRASH: Archaeal TRASH domain; InterPro: IPR013603 This region is found in the C terminus of a number of archaeal transcriptional regulators. It is thought to function as a metal-sensing regulatory module [].
Probab=33.67 E-value=23 Score=24.77 Aligned_cols=29 Identities=24% Similarity=0.504 Sum_probs=18.6
Q ss_pred CCCCCcccccC-ceEeecCccccCCCcccCCCC
Q 014080 162 CAGCNTEIGHG-RYLSCMEAFWHPECFRCHSCN 193 (431)
Q Consensus 162 C~~C~k~I~~g-~~v~algk~wHp~CF~C~~C~ 193 (431)
|.-|+.+|... .+++..++.|| |.|..|.
T Consensus 1 Cd~CG~~I~~eP~~~k~~~~~y~---fCC~tC~ 30 (37)
T PF08394_consen 1 CDYCGGEITGEPIVVKIGNKVYY---FCCPTCL 30 (37)
T ss_pred CCccCCcccCCEEEEEECCeEEE---EECHHHH
Confidence 67788888422 44567788887 4445553
No 107
>KOG3931 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.86 E-value=25 Score=36.37 Aligned_cols=22 Identities=41% Similarity=0.546 Sum_probs=16.8
Q ss_pred ChhhhhhHHHHhhhHhHhhhcC
Q 014080 399 PRLLTGSILAHEMMHAWLRLKG 420 (431)
Q Consensus 399 prl~~g~ilaHE~~Ha~lrl~g 420 (431)
||-=.=..|-|||.||||++..
T Consensus 101 PRkDLVETLLHEMIHAYlFV~n 122 (484)
T KOG3931|consen 101 PRKDLVETLLHEMIHAYLFVTN 122 (484)
T ss_pred chHHHHHHHHHHHHHHheeEec
Confidence 5544446788999999999864
No 108
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=32.47 E-value=20 Score=27.77 Aligned_cols=16 Identities=25% Similarity=0.439 Sum_probs=7.9
Q ss_pred ccCCCCCccCCCCceE
Q 014080 260 RCCSCERMEPRDTKYL 275 (431)
Q Consensus 260 ~C~~C~r~l~~g~~f~ 275 (431)
+|.+|+..|..+..++
T Consensus 11 ~CtSCg~~i~p~e~~v 26 (61)
T COG2888 11 VCTSCGREIAPGETAV 26 (61)
T ss_pred eeccCCCEeccCCcee
Confidence 4555555554444443
No 109
>PRK01345 heat shock protein HtpX; Provisional
Probab=32.44 E-value=36 Score=34.68 Aligned_cols=16 Identities=25% Similarity=0.437 Sum_probs=12.2
Q ss_pred ChhhhhhHHHHhhhHh
Q 014080 399 PRLLTGSILAHEMMHA 414 (431)
Q Consensus 399 prl~~g~ilaHE~~Ha 414 (431)
...=--+|||||++|.
T Consensus 120 ~~dEL~aVlAHElgHi 135 (317)
T PRK01345 120 SPEEVAGVMAHELAHV 135 (317)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 4444568999999995
No 110
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=32.13 E-value=49 Score=39.65 Aligned_cols=13 Identities=38% Similarity=0.393 Sum_probs=8.1
Q ss_pred HHHhhhHhHhhhc
Q 014080 407 LAHEMMHAWLRLK 419 (431)
Q Consensus 407 laHE~~Ha~lrl~ 419 (431)
.||=+-||=.|=|
T Consensus 906 YAHPyFHAAKRRN 918 (1337)
T PRK14714 906 YAHPYFHAAKRRN 918 (1337)
T ss_pred cccchhhhHhhcC
Confidence 4777777555544
No 111
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=31.35 E-value=41 Score=38.23 Aligned_cols=39 Identities=18% Similarity=0.437 Sum_probs=24.9
Q ss_pred cccCCCCCCCCCcceeecCCccccccccccc-cCcccccCCCc
Q 014080 187 FRCHSCNLPITDVEFSMSGNRPYHKHCYKEQ-HHPKCDVCQNF 228 (431)
Q Consensus 187 F~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~-f~pkC~~C~~~ 228 (431)
++|..|+.+|. |....+.+.|..|-.+. ....|..|+..
T Consensus 445 ~~Cp~Cd~~lt---~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 445 AECPNCDSPLT---LHKATGQLRCHYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred ccCCCCCcceE---EecCCCeeEeCCCCCCCCCCCCCCCCCCC
Confidence 45666766653 44456778888776653 33477777776
No 112
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=31.19 E-value=26 Score=34.42 Aligned_cols=18 Identities=33% Similarity=0.281 Sum_probs=13.0
Q ss_pred CChhhhhhHHHHhhhHhH
Q 014080 398 LPRLLTGSILAHEMMHAW 415 (431)
Q Consensus 398 lprl~~g~ilaHE~~Ha~ 415 (431)
|.+.=--+|||||++|.-
T Consensus 152 l~~dEl~aVlaHElgHi~ 169 (302)
T COG0501 152 LNDDELEAVLAHELGHIK 169 (302)
T ss_pred CCHHHHHHHHHHHHHHHh
Confidence 444445589999999953
No 113
>PHA02608 67 prohead core protein; Provisional
Probab=30.94 E-value=42 Score=27.33 Aligned_cols=11 Identities=36% Similarity=0.280 Sum_probs=6.2
Q ss_pred HHHHHHHhhhh
Q 014080 44 EIDRAIALSLV 54 (431)
Q Consensus 44 ~~~~~~~~~~~ 54 (431)
+.--+||.|+.
T Consensus 34 e~k~eIA~sv~ 44 (80)
T PHA02608 34 EEKVEIARSVM 44 (80)
T ss_pred HHHHHHHHHHh
Confidence 33446777764
No 114
>TIGR02411 leuko_A4_hydro leukotriene A-4 hydrolase/aminopeptidase. Members of this family represent a distinctive subset within the zinc metallopeptidase family M1 (pfam01433). The majority of the members of pfam01433 are aminopeptidases, but the sequences in this family for which the function is known are leukotriene A-4 hydrolase. A dual epoxide hydrolase and aminopeptidase activity at the same active site is indicated. The physiological substrate for aminopeptidase activity is not known.
Probab=30.86 E-value=23 Score=39.21 Aligned_cols=12 Identities=42% Similarity=1.102 Sum_probs=11.1
Q ss_pred hHHHHhhhHhHh
Q 014080 405 SILAHEMMHAWL 416 (431)
Q Consensus 405 ~ilaHE~~Ha~l 416 (431)
.|+|||++|.|.
T Consensus 281 ~viaHElAHqWf 292 (601)
T TIGR02411 281 DVIAHELAHSWS 292 (601)
T ss_pred hhHHHHHHhhcc
Confidence 699999999996
No 115
>PF12156 ATPase-cat_bd: Putative metal-binding domain of cation transport ATPase; InterPro: IPR021993 This domain is found in bacteria, and is approximately 90 amino acids in length. It is found associated with PF00403 from PFAM, PF00122 from PFAM, PF00702 from PFAM. The cysteine-rich nature and composition suggest this might be a cation-binding domain; most members are annotated as being cation transport ATPases.
Probab=30.62 E-value=28 Score=28.70 Aligned_cols=12 Identities=33% Similarity=0.683 Sum_probs=8.1
Q ss_pred ccccCCCccccC
Q 014080 221 KCDVCQNFIPTN 232 (431)
Q Consensus 221 kC~~C~~~I~~~ 232 (431)
.|..|+.+|+..
T Consensus 2 ~C~HCg~~~p~~ 13 (88)
T PF12156_consen 2 KCYHCGLPVPEG 13 (88)
T ss_pred CCCCCCCCCCCC
Confidence 477777777643
No 116
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=30.61 E-value=31 Score=27.60 Aligned_cols=25 Identities=16% Similarity=0.327 Sum_probs=10.4
Q ss_pred Cccccccccccc-cCcccccCCCccc
Q 014080 206 NRPYHKHCYKEQ-HHPKCDVCQNFIP 230 (431)
Q Consensus 206 g~pyC~~CY~~~-f~pkC~~C~~~I~ 230 (431)
+..+|..|-... ..+.|.-|++++.
T Consensus 16 ~~~~C~~C~~~~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 16 GHYHCEACQKDYKKEAFCPDCGQPLE 41 (70)
T ss_dssp TEEEETTT--EEEEEEE-TTT-SB-E
T ss_pred CEEECccccccceecccCCCcccHHH
Confidence 445555554331 2346777777765
No 117
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=29.96 E-value=25 Score=40.13 Aligned_cols=11 Identities=45% Similarity=0.643 Sum_probs=6.0
Q ss_pred hHHHHHHHhhc
Q 014080 125 DEQLAKAIQDS 135 (431)
Q Consensus 125 de~Laralqes 135 (431)
|++|+.++.+-
T Consensus 738 D~~La~~Fk~r 748 (784)
T PF04931_consen 738 DEQLAAIFKER 748 (784)
T ss_pred HHHHHHHHHHH
Confidence 45666665543
No 118
>cd06161 S2P-M50_SpoIVFB SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) is one of 4 proteins involved in endospore formation; the others are SpoIVFA (sporulation protein, stage IV cell wall formation, F locus, promoter-proximal A), BofA (bypass-of-forespore A), and SpoIVB (sporulation protein, stage IV cell wall formation, B locus). SpoIVFB is negatively regulated by SpoIVFA and BofA and activated by SpoIVB. It is thought that SpoIVFB, SpoIVFA, and BofA are located in the mother-cell membrane that surrounds the forespore and that SpoIVB is secreted from the forespore into the space between the two where it activates SpoIVFB.
Probab=29.40 E-value=50 Score=31.31 Aligned_cols=22 Identities=45% Similarity=0.508 Sum_probs=16.7
Q ss_pred hhhhhHHHHhhhHhHh-hhcCCC
Q 014080 401 LLTGSILAHEMMHAWL-RLKGFI 422 (431)
Q Consensus 401 l~~g~ilaHE~~Ha~l-rl~g~~ 422 (431)
.++.+++.||++|++. |..|.+
T Consensus 36 ~l~~~v~iHElgH~~~A~~~G~~ 58 (208)
T cd06161 36 LLFLSVLLHELGHALVARRYGIR 58 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCC
Confidence 5788999999999775 344654
No 119
>TIGR00181 pepF oligoendopeptidase F. This family represents the oligoendopeptidase F clade of the family of larger M3 or thimet (for thiol-dependent metallopeptidase) oligopeptidase family. Lactococcus lactis PepF hydrolyzed peptides of 7 and 17 amino acids with fairly broad specificity. The homolog of lactococcal PepF in group B Streptococcus was named PepB (PubMed:8757883), with the name difference reflecting a difference in species of origin rather activity; substrate profiles were quite similar. Differences in substrate specificity should be expected in other species. The gene is duplicated in Lactococcus lactis on the plasmid that bears it. A shortened second copy is found in Bacillus subtilis.
Probab=29.34 E-value=29 Score=38.08 Aligned_cols=13 Identities=38% Similarity=0.409 Sum_probs=10.4
Q ss_pred hHHHHhhhHhHhh
Q 014080 405 SILAHEMMHAWLR 417 (431)
Q Consensus 405 ~ilaHE~~Ha~lr 417 (431)
.+||||++||+--
T Consensus 380 ~TLaHElGHa~H~ 392 (591)
T TIGR00181 380 FTLAHELGHSMHS 392 (591)
T ss_pred HHHHHHhhhHHHH
Confidence 5699999998733
No 120
>PRK05580 primosome assembly protein PriA; Validated
Probab=29.34 E-value=40 Score=37.91 Aligned_cols=38 Identities=18% Similarity=0.451 Sum_probs=24.0
Q ss_pred ccCCCCCCCCCcceeecCCccccccccccc-cCcccccCCCc
Q 014080 188 RCHSCNLPITDVEFSMSGNRPYHKHCYKEQ-HHPKCDVCQNF 228 (431)
Q Consensus 188 ~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~-f~pkC~~C~~~ 228 (431)
+|..|+.+| .|....+.+.|..|-... ...+|..|+..
T Consensus 392 ~C~~C~~~l---~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 392 ECPHCDASL---TLHRFQRRLRCHHCGYQEPIPKACPECGST 430 (679)
T ss_pred CCCCCCCce---eEECCCCeEECCCCcCCCCCCCCCCCCcCC
Confidence 344444444 344456778888886653 45589999775
No 121
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=29.34 E-value=50 Score=35.81 Aligned_cols=91 Identities=18% Similarity=0.305 Sum_probs=47.5
Q ss_pred ccccccccccccCcccccCCCccccCCcceEEEecccccccccCCCcccCCCCc--cCCCCCccCCCCceEEccCCcccC
Q 014080 207 RPYHKHCYKEQHHPKCDVCQNFIPTNSAGLIEYRAHPFWLQKYCPSHERDGTPR--CCSCERMEPRDTKYLSLDDGRKLC 284 (431)
Q Consensus 207 ~pyC~~CY~~~f~pkC~~C~~~I~~~~~~~i~~~~~pfw~~~yCp~h~H~~CF~--C~~C~r~l~~g~~f~~l~dG~~yC 284 (431)
--||..|-.....|.|.-|-...-. ..-..-.-|.+..|..+-|---|- =..|+..+. .-.|. +-|...|
T Consensus 170 pWfCeaC~~Gvs~P~CElCPn~~Gi-----fKetDigrWvH~iCALYvpGVafg~~~~l~~Vtl~-em~ys--k~Gak~C 241 (707)
T KOG0957|consen 170 PWFCEACLYGVSLPHCELCPNRFGI-----FKETDIGRWVHAICALYVPGVAFGQTHTLCGVTLE-EMDYS--KFGAKTC 241 (707)
T ss_pred chhhhhHhcCCCCCccccCCCcCCc-----ccccchhhHHHHHHHhhcCccccccccccccccHH-Hhhhh--hhccchh
Confidence 4589999777666888888653221 111111125555554333221221 123333331 11232 3467778
Q ss_pred cchhhcccCCCCCCCcccHHH
Q 014080 285 LECLDSAIMDTHECQPLYLEI 305 (431)
Q Consensus 285 ~~C~~~~v~~~~~C~~C~~~I 305 (431)
..|-+....-+..|-.|..-+
T Consensus 242 s~Ced~~fARtGvci~CdaGM 262 (707)
T KOG0957|consen 242 SACEDKIFARTGVCIRCDAGM 262 (707)
T ss_pred ccccchhhhhcceeeeccchh
Confidence 888777555567777776655
No 122
>PF04502 DUF572: Family of unknown function (DUF572) ; InterPro: IPR007590 This entry represents eukaryotic proteins with undetermined function belonging to the CWC16 family.
Probab=29.33 E-value=39 Score=34.54 Aligned_cols=10 Identities=20% Similarity=0.521 Sum_probs=5.8
Q ss_pred CccCCCCCcc
Q 014080 259 PRCCSCERME 268 (431)
Q Consensus 259 F~C~~C~r~l 268 (431)
++|..|...|
T Consensus 78 ~kC~~C~~~i 87 (324)
T PF04502_consen 78 IKCPRCSNEI 87 (324)
T ss_pred EEcCCCCCEE
Confidence 4566666554
No 123
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=28.76 E-value=18 Score=30.76 Aligned_cols=28 Identities=25% Similarity=0.638 Sum_probs=19.0
Q ss_pred CccCCCCCccCCCCceEEccCCcccCcch
Q 014080 259 PRCCSCERMEPRDTKYLSLDDGRKLCLEC 287 (431)
Q Consensus 259 F~C~~C~r~l~~g~~f~~l~dG~~yC~~C 287 (431)
|+|++|--+-- ..+-..-.+|.++|..|
T Consensus 71 FTCssCFLV~H-RSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 71 FTCSSCFLVHH-RSQLAREKDGQPICRDC 98 (99)
T ss_pred eeeeeeeeEec-hhhhccccCCCEecccc
Confidence 89999976542 22333345799999988
No 124
>cd04281 ZnMc_BMP1_TLD Zinc-dependent metalloprotease; BMP1/TLD-like subfamily. BMP1 (Bone morphogenetic protein 1) and TLD (tolloid)-like metalloproteases play vital roles in extracellular matrix formation, by cleaving precursor proteins such as enzymes, structural proteins, and proteins involved in the mineralization of the extracellular matrix. The drosophila protein tolloid and its Xenopus homologue xolloid cleave and inactivate Sog and chordin, respectively, which are inhibitors of Dpp (the Drosophila decapentaplegic gene product) and its homologue BMP4, involved in dorso-ventral patterning.
Probab=28.58 E-value=28 Score=33.18 Aligned_cols=11 Identities=36% Similarity=0.591 Sum_probs=9.0
Q ss_pred hHHHHhhhHhH
Q 014080 405 SILAHEMMHAW 415 (431)
Q Consensus 405 ~ilaHE~~Ha~ 415 (431)
.+++||+|||-
T Consensus 89 Gti~HEl~HaL 99 (200)
T cd04281 89 GIVVHELGHVI 99 (200)
T ss_pred chHHHHHHHHh
Confidence 37899999983
No 125
>PF10460 Peptidase_M30: Peptidase M30; InterPro: IPR019501 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This family contains metallopeptidases belonging to MEROPS peptidase family M30 (hyicolysin family, clan MA). Hyicolysin has a zinc ion which is liganded by two histidine and one glutamate residue.
Probab=28.13 E-value=30 Score=36.08 Aligned_cols=16 Identities=44% Similarity=0.497 Sum_probs=12.1
Q ss_pred hhhhHHHHhhhH---hHhh
Q 014080 402 LTGSILAHEMMH---AWLR 417 (431)
Q Consensus 402 ~~g~ilaHE~~H---a~lr 417 (431)
.+=++||||++| .+.|
T Consensus 138 ~~~sTlAHEfQHmInfy~~ 156 (366)
T PF10460_consen 138 TVYSTLAHEFQHMINFYQR 156 (366)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 355889999999 4554
No 126
>TIGR02412 pepN_strep_liv aminopeptidase N, Streptomyces lividans type. This family is a subset of the members of the zinc metallopeptidase family M1 (pfam01433), with a single member characterized in Streptomyces lividans 66 and designated aminopeptidase N. The spectrum of activity may differ somewhat from the aminopeptidase N clade of E. coli and most other Proteobacteria, well separated phylogenetically within the M1 family. The M1 family also includes leukotriene A-4 hydrolase/aminopeptidase (with a bifunctional active site).
Probab=27.91 E-value=33 Score=39.47 Aligned_cols=13 Identities=38% Similarity=1.032 Sum_probs=11.5
Q ss_pred hhHHHHhhhHhHh
Q 014080 404 GSILAHEMMHAWL 416 (431)
Q Consensus 404 g~ilaHE~~Ha~l 416 (431)
-.|+|||++|.|.
T Consensus 288 ~~viaHElAHqWF 300 (831)
T TIGR02412 288 AGVILHEMAHMWF 300 (831)
T ss_pred HHHHHHHHHHHHh
Confidence 4699999999995
No 127
>PF09471 Peptidase_M64: IgA Peptidase M64; InterPro: IPR019026 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This is a family of highly selective metallo-endopeptidases belonging to the MEROPS peptidase family M64 (IgA peptidase, clan MA). The primary structure of the Clostridium ramosum IgA peptidase shows no significant overall similarity to any other known metallo-endopeptidase []. ; PDB: 3P1V_A 4DF9_D.
Probab=27.87 E-value=33 Score=34.10 Aligned_cols=19 Identities=21% Similarity=0.291 Sum_probs=14.3
Q ss_pred hhhhHHHHhhhHhHhhhcC
Q 014080 402 LTGSILAHEMMHAWLRLKG 420 (431)
Q Consensus 402 ~~g~ilaHE~~Ha~lrl~g 420 (431)
.+..|+.||++|.+..|..
T Consensus 215 ~~~~v~vHE~GHsf~~LaD 233 (264)
T PF09471_consen 215 SFKQVVVHEFGHSFGGLAD 233 (264)
T ss_dssp THHHHHHHHHHHHTT----
T ss_pred cccceeeeecccccccccc
Confidence 7899999999999999975
No 128
>PF13582 Reprolysin_3: Metallo-peptidase family M12B Reprolysin-like; PDB: 3P24_C.
Probab=27.86 E-value=31 Score=29.21 Aligned_cols=12 Identities=33% Similarity=0.407 Sum_probs=10.2
Q ss_pred hhHHHHhhhHhH
Q 014080 404 GSILAHEMMHAW 415 (431)
Q Consensus 404 g~ilaHE~~Ha~ 415 (431)
..++|||++|.+
T Consensus 108 ~~~~~HEiGH~l 119 (124)
T PF13582_consen 108 VDTFAHEIGHNL 119 (124)
T ss_dssp TTHHHHHHHHHT
T ss_pred ceEeeehhhHhc
Confidence 389999999964
No 129
>cd04278 ZnMc_MMP Zinc-dependent metalloprotease, matrix metalloproteinase (MMP) sub-family. MMPs are responsible for a great deal of pericellular proteolysis of extracellular matrix and cell surface molecules, playing crucial roles in morphogenesis, cell fate specification, cell migration, tissue repair, tumorigenesis, gain or loss of tissue-specific functions, and apoptosis. In many instances, they are anchored to cell membranes via trans-membrane domains, and their activity is controlled via TIMPs (tissue inhibitors of metalloproteinases).
Probab=27.73 E-value=26 Score=31.35 Aligned_cols=18 Identities=44% Similarity=0.329 Sum_probs=13.4
Q ss_pred hhhhhhHHHHhhhHhHhhh
Q 014080 400 RLLTGSILAHEMMHAWLRL 418 (431)
Q Consensus 400 rl~~g~ilaHE~~Ha~lrl 418 (431)
..-.-.|+.||++|| |-|
T Consensus 104 ~~~~~~~~~HEiGHa-LGL 121 (157)
T cd04278 104 GTDLFSVAAHEIGHA-LGL 121 (157)
T ss_pred cchHHHHHHHHhccc-ccc
Confidence 345668999999998 444
No 130
>TIGR02289 M3_not_pepF oligoendopeptidase, M3 family. This family consists of probable oligoendopeptidases in the M3 family, related to lactococcal PepF and group B streptococcal PepB (TIGR00181) but in a distinct clade with considerable sequence differences. The likely substrate is small peptides and not whole proteins, as with PepF, but members are not characterized and the activity profile may differ. Several bacteria have both a member of this family and a member of the PepF family.
Probab=27.48 E-value=36 Score=37.14 Aligned_cols=13 Identities=38% Similarity=0.557 Sum_probs=10.5
Q ss_pred hHHHHhhhHhHhh
Q 014080 405 SILAHEMMHAWLR 417 (431)
Q Consensus 405 ~ilaHE~~Ha~lr 417 (431)
.+||||++||+--
T Consensus 339 ~TL~HElGHa~H~ 351 (549)
T TIGR02289 339 DVLTHEAGHAFHV 351 (549)
T ss_pred HHHHHHhhHHHHH
Confidence 4699999999744
No 131
>TIGR02414 pepN_proteo aminopeptidase N, Escherichia coli type. The M1 family of zinc metallopeptidases contains a number of distinct, well-separated clades of proteins with aminopeptidase activity. Several are designated aminopeptidase N, EC 3.4.11.2, after the Escherichia coli enzyme, suggesting a similar activity profile. This family consists of all aminopeptidases closely related to E. coli PepN and presumed to have similar (not identical) function. Nearly all are found in Proteobacteria, but members are found also in Cyanobacteria, plants, and apicomplexan parasites. This family differs greatly in sequence from the family of aminopeptidases typified by Streptomyces lividans PepN (TIGR02412), from the membrane bound aminopeptidase N family in animals, etc.
Probab=27.28 E-value=31 Score=39.99 Aligned_cols=13 Identities=46% Similarity=1.007 Sum_probs=11.5
Q ss_pred hhHHHHhhhHhHh
Q 014080 404 GSILAHEMMHAWL 416 (431)
Q Consensus 404 g~ilaHE~~Ha~l 416 (431)
.+|+|||+.|.|.
T Consensus 284 ~~VIaHElaHqWf 296 (863)
T TIGR02414 284 ESVIAHEYFHNWT 296 (863)
T ss_pred HHHHHHHHHHHHh
Confidence 4799999999994
No 132
>cd04272 ZnMc_salivary_gland_MPs Zinc-dependent metalloprotease, salivary_gland_MPs. Metalloproteases secreted by the salivary glands of arthropods.
Probab=27.27 E-value=35 Score=32.41 Aligned_cols=15 Identities=20% Similarity=0.275 Sum_probs=12.0
Q ss_pred hhhhhHHHHhhhHhH
Q 014080 401 LLTGSILAHEMMHAW 415 (431)
Q Consensus 401 l~~g~ilaHE~~Ha~ 415 (431)
+....++|||++|..
T Consensus 143 ~~~~~~~AHElGH~l 157 (220)
T cd04272 143 YYGVYTMTHELAHLL 157 (220)
T ss_pred cccHHHHHHHHHHHh
Confidence 455789999999954
No 133
>PF13583 Reprolysin_4: Metallo-peptidase family M12B Reprolysin-like
Probab=27.12 E-value=31 Score=32.72 Aligned_cols=11 Identities=36% Similarity=0.534 Sum_probs=9.5
Q ss_pred hHHHHhhhHhH
Q 014080 405 SILAHEMMHAW 415 (431)
Q Consensus 405 ~ilaHE~~Ha~ 415 (431)
.++|||++|++
T Consensus 139 ~~~aHEiGH~l 149 (206)
T PF13583_consen 139 QTFAHEIGHNL 149 (206)
T ss_pred hHHHHHHHHHh
Confidence 67999999975
No 134
>cd06164 S2P-M50_SpoIVFB_CBS SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain. SpoIVFB is one of 4 proteins involved in endospore formation; the others are SpoIVFA (sporulation protein, stage IV cell wall formation, F locus, promoter-proximal A), BofA (bypass-of-forespore A), and SpoIVB (sporulation protein, stage IV cell wall formation, B locus). SpoIVFB is negatively regulated by SpoIVFA and BofA and activated by SpoIVB. It is thought that SpoIVFB, SpoIVFA, and BofA are located in the mother-cell membrane that surrounds the forespore and that SpoIVB is secreted from the forespore into the space between the two where it activates SpoIVFB. It has been proposed tha
Probab=27.09 E-value=50 Score=31.95 Aligned_cols=22 Identities=41% Similarity=0.560 Sum_probs=16.8
Q ss_pred hhhhhHHHHhhhHhHh-hhcCCC
Q 014080 401 LLTGSILAHEMMHAWL-RLKGFI 422 (431)
Q Consensus 401 l~~g~ilaHE~~Ha~l-rl~g~~ 422 (431)
+++.+|+.||++|++. |..|++
T Consensus 51 ~l~~~v~iHElgH~~~A~~~G~~ 73 (227)
T cd06164 51 LLFASVLLHELGHSLVARRYGIP 73 (227)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCe
Confidence 5788999999999664 444654
No 135
>PRK05457 heat shock protein HtpX; Provisional
Probab=27.01 E-value=31 Score=34.49 Aligned_cols=18 Identities=33% Similarity=0.505 Sum_probs=15.0
Q ss_pred CCChhhhhhHHHHhhhHh
Q 014080 397 GLPRLLTGSILAHEMMHA 414 (431)
Q Consensus 397 glprl~~g~ilaHE~~Ha 414 (431)
-|++.---+|+|||++|.
T Consensus 128 ~L~~~El~aVlAHElgHi 145 (284)
T PRK05457 128 NMSRDEVEAVLAHEISHI 145 (284)
T ss_pred hCCHHHHHHHHHHHHHHH
Confidence 467777789999999995
No 136
>KOG3854 consensus SPRT-like metalloprotease [Function unknown]
Probab=26.85 E-value=32 Score=36.86 Aligned_cols=20 Identities=35% Similarity=0.481 Sum_probs=14.2
Q ss_pred hhhhhhHHHHhhhH--hHhhhc
Q 014080 400 RLLTGSILAHEMMH--AWLRLK 419 (431)
Q Consensus 400 rl~~g~ilaHE~~H--a~lrl~ 419 (431)
..+-.-.|+|||.| ||+.=.
T Consensus 348 AERir~TLiHEmCHaAaWv~dr 369 (505)
T KOG3854|consen 348 AERIRDTLIHEMCHAAAWVFDR 369 (505)
T ss_pred HHHHHHHHHHHHHHHHHhhccc
Confidence 33444569999999 788643
No 137
>COG2191 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]
Probab=26.79 E-value=27 Score=33.43 Aligned_cols=30 Identities=20% Similarity=0.561 Sum_probs=23.0
Q ss_pred CccCCCCCccCCCCceEEccCCcccCcchhhc
Q 014080 259 PRCCSCERMEPRDTKYLSLDDGRKLCLECLDS 290 (431)
Q Consensus 259 F~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~ 290 (431)
-+|..|+-++... ...+.+|+++|..|+..
T Consensus 173 v~C~kCGE~~~e~--~~~~~ng~~vC~~C~~~ 202 (206)
T COG2191 173 VRCSKCGELFMEP--RAVVLNGKPVCKPCAEK 202 (206)
T ss_pred eeccccCcccccc--hhhhcCCceeccccccc
Confidence 4899999987432 23456999999999975
No 138
>PF12725 DUF3810: Protein of unknown function (DUF3810); InterPro: IPR024294 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 333 and 377 amino acids in length and contain a conserved HEXXH sequence motif that is characteristic of metallopeptidases. This family may therefore belong to an as yet uncharacterised family of peptidase enzymes.
Probab=26.64 E-value=33 Score=35.02 Aligned_cols=18 Identities=28% Similarity=0.399 Sum_probs=15.7
Q ss_pred cCCChhhhhhHHHHhhhH
Q 014080 396 YGLPRLLTGSILAHEMMH 413 (431)
Q Consensus 396 ~glprl~~g~ilaHE~~H 413 (431)
.-||.+....++||||+|
T Consensus 189 ~~~p~~~~P~T~~HElAH 206 (318)
T PF12725_consen 189 TDLPPYSLPFTICHELAH 206 (318)
T ss_pred CCCCcccccHHHHHHHHH
Confidence 357888888999999999
No 139
>cd06160 S2P-M50_like_2 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group includes bacterial, eukaryotic, and Archaeal S2P/M50s homologs with additional putative N- and C-terminal transmembrane spanning regions, relative to the core protein, and no PDZ domains.
Probab=26.49 E-value=40 Score=31.57 Aligned_cols=25 Identities=28% Similarity=0.181 Sum_probs=17.6
Q ss_pred hhhhhHHHHhhhHhHh-hhcCCCCCc
Q 014080 401 LLTGSILAHEMMHAWL-RLKGFICFK 425 (431)
Q Consensus 401 l~~g~ilaHE~~Ha~l-rl~g~~~l~ 425 (431)
.+.-+++.||++|+|. |..|++.-.
T Consensus 39 ~l~~~l~iHElgH~~~A~~~G~~~~~ 64 (183)
T cd06160 39 ALLAILGIHEMGHYLAARRHGVKASL 64 (183)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCccc
Confidence 3456789999999776 445766444
No 140
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=26.34 E-value=44 Score=32.76 Aligned_cols=34 Identities=18% Similarity=0.431 Sum_probs=27.0
Q ss_pred Ccceee-cCCccccccccccccCcccccCCCcccc
Q 014080 198 DVEFSM-SGNRPYHKHCYKEQHHPKCDVCQNFIPT 231 (431)
Q Consensus 198 ~~~F~~-~dg~pyC~~CY~~~f~pkC~~C~~~I~~ 231 (431)
...|+. .=..++|..|...-..+.|.-|+++|..
T Consensus 15 ~~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 15 QDPFFLTACRHVFCEPCLKASSPDVCPLCKKSIRI 49 (233)
T ss_pred CCceeeeechhhhhhhhcccCCccccccccceeee
Confidence 445544 5568999999998888899999999875
No 141
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=25.67 E-value=67 Score=30.59 Aligned_cols=12 Identities=42% Similarity=1.049 Sum_probs=7.3
Q ss_pred cccccCCCcccc
Q 014080 220 PKCDVCQNFIPT 231 (431)
Q Consensus 220 pkC~~C~~~I~~ 231 (431)
++|..|+..|..
T Consensus 69 ~~CPvCR~~Is~ 80 (193)
T PLN03208 69 PKCPVCKSDVSE 80 (193)
T ss_pred CcCCCCCCcCCh
Confidence 456666666654
No 142
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=25.64 E-value=60 Score=29.08 Aligned_cols=55 Identities=31% Similarity=0.396 Sum_probs=35.6
Q ss_pred cchhhhhcCCCCC-----cccccCC----------CCCcccccccccCCCCCCCChhHHHHHHHhhhhhhh
Q 014080 2 GWLTKILKGSSRR-----HYHARYG----------DDRTWDERRYSAADDSSGFDNEEIDRAIALSLVEVD 57 (431)
Q Consensus 2 ~~~~~~~~~~~~~-----~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 57 (431)
+-|+|++-|+.+| +|-+.++ |++.|-+.+.---...+.+-.-|||| ||-++.|++
T Consensus 73 g~~~KiYGg~krrGvrPsh~~~as~~i~rkvlQ~Le~~~~ve~hp~gGR~lt~~Gqrdldr-Ia~~i~~~~ 142 (143)
T KOG3411|consen 73 GALTKIYGGSKRRGVRPSHFCDASGGIARKVLQALEKMGIVEKHPKGGRRLTEQGQRDLDR-IAGQIREEQ 142 (143)
T ss_pred hHHHHHhcccccCCCCChhhhccccHHHHHHHHHHHhCCceeeCCCCcceeCcccchhHHH-HHHHHHhcc
Confidence 4588999888776 3444333 56777776642211478888889998 555666554
No 143
>PF06689 zf-C4_ClpX: ClpX C4-type zinc finger; InterPro: IPR010603 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 ClpX heat shock protein of Escherichia coli is a member of the universally conserved Hsp100 family of proteins, and possesses a putative zinc finger motif of the C4 type []. This presumed zinc binding domain (ZBD) is found at the N terminus of the ClpX protein. ClpX is an ATPase which functions both as a substrate specificity component of the ClpXP protease and as a molecular chaperone. ZBD is a member of the treble clef zinc finger family, a motif known to facilitate protein-ligand, protein-DNA, and protein-protein interactions and forms a constitutive dimer that is essential for the degradation of some, but not all, ClpX substrates []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0016887 ATPase activity, 0046983 protein dimerization activity, 0006200 ATP catabolic process, 0019538 protein metabolic process; PDB: 2DS8_B 2DS6_B 2DS5_A 1OVX_A 2DS7_A.
Probab=25.52 E-value=45 Score=23.53 Aligned_cols=31 Identities=32% Similarity=0.706 Sum_probs=20.2
Q ss_pred ccCCCCCccCCCCceEEccCCcccCcchhhc
Q 014080 260 RCCSCERMEPRDTKYLSLDDGRKLCLECLDS 290 (431)
Q Consensus 260 ~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~ 290 (431)
+|+-|++......+.+...++-..|..|...
T Consensus 3 ~CSFCgr~~~~v~~li~g~~~~~IC~~Cv~~ 33 (41)
T PF06689_consen 3 RCSFCGRPESEVGRLISGPNGAYICDECVEQ 33 (41)
T ss_dssp B-TTT--BTTTSSSEEEES-SEEEEHHHHHH
T ss_pred CccCCCCCHHHHhceecCCCCcEECHHHHHH
Confidence 6899999876666766655577889998765
No 144
>PRK03072 heat shock protein HtpX; Provisional
Probab=25.50 E-value=33 Score=34.32 Aligned_cols=18 Identities=28% Similarity=0.313 Sum_probs=13.1
Q ss_pred CCChhhhhhHHHHhhhHh
Q 014080 397 GLPRLLTGSILAHEMMHA 414 (431)
Q Consensus 397 glprl~~g~ilaHE~~Ha 414 (431)
-|++.=.-+|||||++|-
T Consensus 121 ~l~~~El~aVlAHElgHi 138 (288)
T PRK03072 121 ILNERELRGVLGHELSHV 138 (288)
T ss_pred hCCHHHHHHHHHHHHHHH
Confidence 345555568999999984
No 145
>cd04327 ZnMc_MMP_like_3 Zinc-dependent metalloprotease; MMP_like sub-family 3. A group of bacterial and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin.
Probab=25.34 E-value=42 Score=31.43 Aligned_cols=13 Identities=31% Similarity=0.440 Sum_probs=10.1
Q ss_pred hhhHHHHhhhHhH
Q 014080 403 TGSILAHEMMHAW 415 (431)
Q Consensus 403 ~g~ilaHE~~Ha~ 415 (431)
+..++.||+|||-
T Consensus 92 ~~~~i~HElgHaL 104 (198)
T cd04327 92 FSRVVLHEFGHAL 104 (198)
T ss_pred HHHHHHHHHHHHh
Confidence 3358889999984
No 146
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=25.31 E-value=37 Score=23.16 Aligned_cols=37 Identities=19% Similarity=0.489 Sum_probs=23.4
Q ss_pred cCCCCCccCCCCceEEccCCcccCcchhhcccCCCCCCC
Q 014080 261 CCSCERMEPRDTKYLSLDDGRKLCLECLDSAIMDTHECQ 299 (431)
Q Consensus 261 C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~v~~~~~C~ 299 (431)
|..|...+ .+..+.+.=|..||.+|..+.+.....|.
T Consensus 1 C~iC~~~~--~~~~~~~~CGH~fC~~C~~~~~~~~~~CP 37 (39)
T PF13923_consen 1 CPICLDEL--RDPVVVTPCGHSFCKECIEKYLEKNPKCP 37 (39)
T ss_dssp ETTTTSB---SSEEEECTTSEEEEHHHHHHHHHCTSB-T
T ss_pred CCCCCCcc--cCcCEECCCCCchhHHHHHHHHHCcCCCc
Confidence 55676654 33555678899999999877544444443
No 147
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=25.25 E-value=19 Score=34.41 Aligned_cols=46 Identities=15% Similarity=0.322 Sum_probs=32.2
Q ss_pred CcccCCCCCCCCCcceeecCCcccccccccccc--CcccccCCCccccC
Q 014080 186 CFRCHSCNLPITDVEFSMSGNRPYHKHCYKEQH--HPKCDVCQNFIPTN 232 (431)
Q Consensus 186 CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~~~f--~pkC~~C~~~I~~~ 232 (431)
=|.|..|++-..+ ..+..=|..||..|+...+ ++.|.+|++...|.
T Consensus 196 PF~C~iCKkdy~s-pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~ 243 (259)
T COG5152 196 PFLCGICKKDYES-PVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGR 243 (259)
T ss_pred ceeehhchhhccc-hhhhhcchhHHHHHHHHHhccCCcceecchhhccc
Confidence 4888888876554 2233457788888887654 57888888877663
No 148
>cd04282 ZnMc_meprin Zinc-dependent metalloprotease, meprin_like subfamily. Meprins are membrane-bound or secreted extracellular proteases, which cleave a variety of targets, including peptides such as parathyroid hormone, gastrin, and cholecystokinin, cytokines such as osteopontin, and proteins such as collagen IV, fibronectin, casein and gelatin. Meprins may also be able to release proteins from the cell surface. Closely related meprin alpha- and beta-subunits form homo- and hetero-oligomers; these complexes are found on epithelial cells of the intestine, for example, and are also expressed in certain cancer cells.
Probab=25.20 E-value=34 Score=33.37 Aligned_cols=11 Identities=36% Similarity=0.727 Sum_probs=9.1
Q ss_pred hHHHHhhhHhH
Q 014080 405 SILAHEMMHAW 415 (431)
Q Consensus 405 ~ilaHE~~Ha~ 415 (431)
.+.+||+|||-
T Consensus 122 Gti~HEl~Hal 132 (230)
T cd04282 122 ATVEHEFLHAL 132 (230)
T ss_pred chHHHHHHHHh
Confidence 46889999983
No 149
>PRK02870 heat shock protein HtpX; Provisional
Probab=24.74 E-value=37 Score=34.97 Aligned_cols=24 Identities=33% Similarity=0.439 Sum_probs=16.4
Q ss_pred EEEEecCCC----hhhhhhHHHHhhhHh
Q 014080 391 AILILYGLP----RLLTGSILAHEMMHA 414 (431)
Q Consensus 391 ~il~l~glp----rl~~g~ilaHE~~Ha 414 (431)
.|.|-.||= +.=..+|||||++|.
T Consensus 157 ~Ivvt~GLL~~L~~dEL~aVlAHELgHi 184 (336)
T PRK02870 157 MVAITTGLLEKLDRDELQAVMAHELSHI 184 (336)
T ss_pred EEEEehHHhhhCCHHHHHHHHHHHHHHH
Confidence 355555544 444568999999996
No 150
>KOG1047 consensus Bifunctional leukotriene A4 hydrolase/aminopeptidase LTA4H [Lipid transport and metabolism; Posttranslational modification, protein turnover, chaperones; Defense mechanisms; Amino acid transport and metabolism]
Probab=24.72 E-value=34 Score=37.48 Aligned_cols=13 Identities=38% Similarity=0.946 Sum_probs=11.5
Q ss_pred hhHHHHhhhHhHh
Q 014080 404 GSILAHEMMHAWL 416 (431)
Q Consensus 404 g~ilaHE~~Ha~l 416 (431)
+.++|||++|.|-
T Consensus 289 ~~vIaHEIAHSWt 301 (613)
T KOG1047|consen 289 VDVIAHEIAHSWT 301 (613)
T ss_pred hhHHHHHhhhhhc
Confidence 4789999999995
No 151
>PF01432 Peptidase_M3: Peptidase family M3 This Prosite motif covers only the active site. This family belongs to family M3 of the peptidase classification.; InterPro: IPR001567 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M3 (clan MA(E)), subfamilies M3A and M3B. The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. The Thimet oligopeptidase family, is a large family of archaeal, bacterial and eukaryotic oligopeptidases that cleave medium sized peptides. The group contains: mitochondrial intermediate peptidase (3.4.24.59 from EC) Neurolysin, mitochondrial precursor, (3.4.24.16 from EC) Thimet oligopeptidase (3.4.24.15 from EC) Dipeptidyl carboxypeptidase (3.4.15.5 from EC) Oligopeptidase A (3.4.24.70 from EC) Oligoendopeptidase F ; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2QR4_B 3CE2_A 1Y79_1 2H1J_A 2H1N_A 2O36_A 1S4B_P 2O3E_A 1I1I_P.
Probab=24.59 E-value=1.6e+02 Score=31.09 Aligned_cols=17 Identities=35% Similarity=0.262 Sum_probs=13.4
Q ss_pred hhHHHHhhhHhHhhhcC
Q 014080 404 GSILAHEMMHAWLRLKG 420 (431)
Q Consensus 404 g~ilaHE~~Ha~lrl~g 420 (431)
=..|+||++||+--+-.
T Consensus 243 v~tLfHE~GHa~H~~ls 259 (458)
T PF01432_consen 243 VETLFHEFGHAMHSLLS 259 (458)
T ss_dssp HHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHhHHHHHHHh
Confidence 35699999998876654
No 152
>PRK02391 heat shock protein HtpX; Provisional
Probab=24.48 E-value=34 Score=34.52 Aligned_cols=19 Identities=32% Similarity=0.295 Sum_probs=13.9
Q ss_pred CCChhhhhhHHHHhhhHhH
Q 014080 397 GLPRLLTGSILAHEMMHAW 415 (431)
Q Consensus 397 glprl~~g~ilaHE~~Ha~ 415 (431)
.|...=.-+|||||++|.-
T Consensus 127 ~L~~~El~aVlaHElgHi~ 145 (296)
T PRK02391 127 RLDPDELEAVLAHELSHVK 145 (296)
T ss_pred hCCHHHHHHHHHHHHHHHH
Confidence 3455555789999999953
No 153
>cd04283 ZnMc_hatching_enzyme Zinc-dependent metalloprotease, hatching enzyme-like subfamily. Hatching enzymes are secreted by teleost embryos to digest the egg envelope or chorion. In some teleosts, the hatching enzyme may be a system consisting of two evolutionary related metalloproteases, high choriolytic enzyme and low choriolytic enzyme (HCE and LCE), which may have different substrate specificities and cooperatively digest the chorion.
Probab=24.33 E-value=38 Score=31.81 Aligned_cols=11 Identities=45% Similarity=0.906 Sum_probs=9.0
Q ss_pred hHHHHhhhHhH
Q 014080 405 SILAHEMMHAW 415 (431)
Q Consensus 405 ~ilaHE~~Ha~ 415 (431)
.+++||+|||-
T Consensus 79 G~i~HEl~HaL 89 (182)
T cd04283 79 GIIQHELLHAL 89 (182)
T ss_pred chHHHHHHHHh
Confidence 47889999973
No 154
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=24.05 E-value=19 Score=40.45 Aligned_cols=27 Identities=19% Similarity=0.507 Sum_probs=17.9
Q ss_pred ccccccccccccC---cccccCCCccccCC
Q 014080 207 RPYHKHCYKEQHH---PKCDVCQNFIPTNS 233 (431)
Q Consensus 207 ~pyC~~CY~~~f~---pkC~~C~~~I~~~~ 233 (431)
+.||..|-..++. -+|..|+.+...++
T Consensus 663 H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 663 HVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred hHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 4566666655443 37888888887764
No 155
>PF13203 DUF2201_N: Putative metallopeptidase domain
Probab=23.63 E-value=51 Score=32.67 Aligned_cols=21 Identities=29% Similarity=0.349 Sum_probs=16.1
Q ss_pred cCCChhhhhhHHHHhhhHhHh
Q 014080 396 YGLPRLLTGSILAHEMMHAWL 416 (431)
Q Consensus 396 ~glprl~~g~ilaHE~~Ha~l 416 (431)
.+|+.--...+|+||++|.-+
T Consensus 53 ~~l~~~~~~~~l~HevlH~~~ 73 (292)
T PF13203_consen 53 ESLSPEERVGLLLHEVLHCLL 73 (292)
T ss_pred hcCCHHHHHHHHHHHHHHHHc
Confidence 566666677889999999544
No 156
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=23.46 E-value=25 Score=33.64 Aligned_cols=44 Identities=16% Similarity=0.310 Sum_probs=36.0
Q ss_pred CccCCCCCccCCCCceEEccCCcccCcchhhcccCCCCCCCcccHHH
Q 014080 259 PRCCSCERMEPRDTKYLSLDDGRKLCLECLDSAIMDTHECQPLYLEI 305 (431)
Q Consensus 259 F~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~v~~~~~C~~C~~~I 305 (431)
|.|..|++-. ..+.++ .=|..+|..|+.+....++.|.-|.++.
T Consensus 197 F~C~iCKkdy--~spvvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDY--ESPVVT-ECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhc--cchhhh-hcchhHHHHHHHHHhccCCcceecchhh
Confidence 7999999854 344443 5689999999998888899999999866
No 157
>PF12388 Peptidase_M57: Dual-action HEIGH metallo-peptidase; InterPro: IPR024653 This entry represents the metallopeptidases M10, M27 and M57. The catalytic triad for proteases in this entry is HE-H-H, which in many members is in the sequence motif HEIGH [].
Probab=23.12 E-value=66 Score=31.06 Aligned_cols=20 Identities=15% Similarity=0.233 Sum_probs=14.6
Q ss_pred cCCChhhhhhHHHHhhhHhH
Q 014080 396 YGLPRLLTGSILAHEMMHAW 415 (431)
Q Consensus 396 ~glprl~~g~ilaHE~~Ha~ 415 (431)
...+..+-..|++||++|+-
T Consensus 126 ~~~~~~~~~hvi~HEiGH~I 145 (211)
T PF12388_consen 126 SNYSVNVIEHVITHEIGHCI 145 (211)
T ss_pred CCCchhHHHHHHHHHhhhhc
Confidence 33455566789999999973
No 158
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=23.11 E-value=49 Score=34.94 Aligned_cols=25 Identities=32% Similarity=0.438 Sum_probs=18.5
Q ss_pred EecCCChhhhhhH---HHHhhhHhHhhh
Q 014080 394 ILYGLPRLLTGSI---LAHEMMHAWLRL 418 (431)
Q Consensus 394 ~l~glprl~~g~i---laHE~~Ha~lrl 418 (431)
=|-|+|..+|--| .-|||+|||--.
T Consensus 119 pl~~I~yf~t~lvi~~vvHElGHalAA~ 146 (484)
T KOG2921|consen 119 PLSGIAYFLTSLVITVVVHELGHALAAA 146 (484)
T ss_pred ccccchhhhhhHHHHHHHHHhhHHHHHH
Confidence 3567777777766 469999999543
No 159
>PF01258 zf-dskA_traR: Prokaryotic dksA/traR C4-type zinc finger; InterPro: IPR000962 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 domains identified in zinc finger-containing members of the DksA/TraR family. DksA is a critical component of the rRNA transcription initiation machinery that potentiates the regulation of rRNA promoters by ppGpp and the initiating NTP. In delta-dksA mutants, rRNA promoters are unresponsive to changes in amino acid availability, growth rate, or growth phase. In vitro, DksA binds to RNAP, reduces open complex lifetime, inhibits rRNA promoter activity, and amplifies effects of ppGpp and the initiating NTP on rRNA transcription [, ]. The dksA gene product suppresses the temperature-sensitive growth and filamentation of a dnaK deletion mutant of Escherichia coli. Gene knockout [] and deletion [] experiments have shown the gene to be non-essential, mutations causing a mild sensitivity to UV light, but not affecting DNA recombination []. In Pseudomonas aeruginosa, dksA is a novel regulator involved in the post-transcriptional control of extracellular virulence factor production []. The proteins contain a C-terminal region thought to fold into a 4-cysteine zinc finger. Other proteins found to contain a similar zinc finger domain include: the traR gene products encoded on the E. coli F and R100 plasmids [, ] the traR gene products encoded on Salmonella spp. plasmids pED208 and pSLT the dnaK suppressor hypothetical proteins from bacteria and bacteriophage FHL4, LIM proteins from Homo sapiens (Human) and Mus musculus (Mouse) [] More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2GVI_A 2KQ9_A 2KGO_A 1TJL_I.
Probab=23.00 E-value=9.4 Score=26.01 Aligned_cols=26 Identities=19% Similarity=0.503 Sum_probs=10.1
Q ss_pred cCCCCCCCCCcceeecCCcccccccc
Q 014080 189 CHSCNLPITDVEFSMSGNRPYHKHCY 214 (431)
Q Consensus 189 C~~C~~~L~~~~F~~~dg~pyC~~CY 214 (431)
|..|+.+|.........+..+|..|+
T Consensus 6 C~~CGe~I~~~Rl~~~p~~~~C~~C~ 31 (36)
T PF01258_consen 6 CEDCGEPIPEERLVAVPGATLCVECQ 31 (36)
T ss_dssp -TTTSSBEEHHHHHHCTTECS-HHHH
T ss_pred ccccCChHHHHHHHhCCCcEECHHHh
Confidence 44444444333333334444555443
No 160
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=22.83 E-value=66 Score=25.36 Aligned_cols=43 Identities=16% Similarity=0.245 Sum_probs=18.4
Q ss_pred CccCCCCCccCCCCceEEccCCcccCcchhhcccCCCCCCCcccHHH
Q 014080 259 PRCCSCERMEPRDTKYLSLDDGRKLCLECLDSAIMDTHECQPLYLEI 305 (431)
Q Consensus 259 F~C~~C~r~l~~g~~f~~l~dG~~yC~~C~~~~v~~~~~C~~C~~~I 305 (431)
.+|+.|...+ ..+..+..=...+|..|... .....|.-|+.|-
T Consensus 8 LrCs~C~~~l--~~pv~l~~CeH~fCs~Ci~~--~~~~~CPvC~~Pa 50 (65)
T PF14835_consen 8 LRCSICFDIL--KEPVCLGGCEHIFCSSCIRD--CIGSECPVCHTPA 50 (65)
T ss_dssp TS-SSS-S----SS-B---SSS--B-TTTGGG--GTTTB-SSS--B-
T ss_pred cCCcHHHHHh--cCCceeccCccHHHHHHhHH--hcCCCCCCcCChH
Confidence 4788888766 33433334457888888876 4456688888554
No 161
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=22.75 E-value=48 Score=21.02 Aligned_cols=10 Identities=30% Similarity=0.730 Sum_probs=4.9
Q ss_pred cccCCCcccc
Q 014080 222 CDVCQNFIPT 231 (431)
Q Consensus 222 C~~C~~~I~~ 231 (431)
|..|+..|.+
T Consensus 1 C~sC~~~i~~ 10 (24)
T PF07754_consen 1 CTSCGRPIAP 10 (24)
T ss_pred CccCCCcccC
Confidence 4455555543
No 162
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=22.69 E-value=53 Score=36.62 Aligned_cols=23 Identities=30% Similarity=0.338 Sum_probs=20.3
Q ss_pred CCCCChhHHHHHHHhhhhhhhcc
Q 014080 37 SSGFDNEEIDRAIALSLVEVDQK 59 (431)
Q Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~ 59 (431)
...++.|||+.||+||++|..++
T Consensus 250 ~~~keeed~~lAi~lSq~E~~~~ 272 (634)
T KOG1818|consen 250 LEEKEEEDLSLAIALSQSEAEAA 272 (634)
T ss_pred ccchhhHHHHHHHHHhHHHHHHh
Confidence 45678889999999999999887
No 163
>PF04502 DUF572: Family of unknown function (DUF572) ; InterPro: IPR007590 This entry represents eukaryotic proteins with undetermined function belonging to the CWC16 family.
Probab=22.66 E-value=44 Score=34.14 Aligned_cols=14 Identities=36% Similarity=0.477 Sum_probs=10.2
Q ss_pred cCcccccCCCcccc
Q 014080 218 HHPKCDVCQNFIPT 231 (431)
Q Consensus 218 f~pkC~~C~~~I~~ 231 (431)
|.-+|..|...|.-
T Consensus 76 F~~kC~~C~~~i~~ 89 (324)
T PF04502_consen 76 FYIKCPRCSNEIEF 89 (324)
T ss_pred EEEEcCCCCCEEee
Confidence 55578888888764
No 164
>PLN02195 cellulose synthase A
Probab=22.52 E-value=59 Score=38.05 Aligned_cols=53 Identities=30% Similarity=0.694 Sum_probs=34.4
Q ss_pred CCCCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCCCcceeecCCccccccccc---cccCcccccCCCccc
Q 014080 157 SGYRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPITDVEFSMSGNRPYHKHCYK---EQHHPKCDVCQNFIP 230 (431)
Q Consensus 157 ~~~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~~~~F~~~dg~pyC~~CY~---~~f~pkC~~C~~~I~ 230 (431)
.+..+|.-|+..|. +..+|..| -.|..|+- |.|+.||. +-....|..|+..-.
T Consensus 4 ~~~~~c~~cgd~~~----~~~~g~~f----vaC~eC~~-------------pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVG----VDSNGEAF----VACHECSY-------------PLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccC----cCCCCCeE----EEeccCCC-------------ccccchhhhhhhcCCccCCccCCccc
Confidence 35678999999885 44556655 45666653 55777774 123346778887666
No 165
>PF01400 Astacin: Astacin (Peptidase family M12A) This Prosite motif covers only the active site.; InterPro: IPR001506 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M12, subfamily M12A (astacin family, clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA and the predicted active site residues for members of this family and thermolysin occur in the motif HEXXH []. The astacin () family of metalloendopeptidases encompasses a range of proteins found in hydra to humans, in mature and developmental systems []. Their functions include activation of growth factors, degradation of polypeptides, and processing of extracellular proteins []. The proteins are synthesised with N-terminal signal and pro-enzyme sequences, and many contain multiple domains C-terminal to the protease domain. They are either secreted from cells, or are associated with the plasma membrane. The astacin molecule adopts a kidney shape, with a deep active-site cleft between its N- and C-terminal domains []. The zinc ion, which lies at the bottom of the cleft, exhibits a unique penta-coordinated mode of binding, involving 3 histidine residues, a tyrosine and a water molecule (which is also bound to the carboxylate side chain of Glu93) []. The N-terminal domain comprises 2 alpha-helices and a 5-stranded beta-sheet. The overall topology of this domain is shared by the archetypal zinc-endopeptidase thermolysin. Astacin protease domains also share common features with serralysins, matrix metalloendopeptidases, and snake venom proteases; they cleave peptide bonds in polypeptides such as insulin B chain and bradykinin, and in proteins such as casein and gelatin; and they have arylamidase activity [].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 3LQB_A 3EDH_A 3EDG_A 3EDI_A 1IAE_A 1IAB_A 1IAA_A 1AST_A 1IAC_A 1QJJ_A ....
Probab=22.48 E-value=47 Score=31.10 Aligned_cols=13 Identities=31% Similarity=0.417 Sum_probs=10.2
Q ss_pred hhhHHHHhhhHhH
Q 014080 403 TGSILAHEMMHAW 415 (431)
Q Consensus 403 ~g~ilaHE~~Ha~ 415 (431)
.-.+++||+|||-
T Consensus 79 ~~~~i~HEl~HaL 91 (191)
T PF01400_consen 79 SVGTILHELGHAL 91 (191)
T ss_dssp SHHHHHHHHHHHH
T ss_pred CccchHHHHHHHH
Confidence 3457899999983
No 166
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=22.23 E-value=77 Score=38.13 Aligned_cols=11 Identities=18% Similarity=0.585 Sum_probs=6.8
Q ss_pred ccccCCCcccc
Q 014080 221 KCDVCQNFIPT 231 (431)
Q Consensus 221 kC~~C~~~I~~ 231 (431)
.|..|+.+...
T Consensus 711 ~CP~CGtplv~ 721 (1337)
T PRK14714 711 ECPRCDVELTP 721 (1337)
T ss_pred cCCCCCCcccc
Confidence 56666666554
No 167
>PRK01265 heat shock protein HtpX; Provisional
Probab=22.22 E-value=55 Score=33.56 Aligned_cols=24 Identities=25% Similarity=0.229 Sum_probs=16.8
Q ss_pred EEEEecCCCh----hhhhhHHHHhhhHh
Q 014080 391 AILILYGLPR----LLTGSILAHEMMHA 414 (431)
Q Consensus 391 ~il~l~glpr----l~~g~ilaHE~~Ha 414 (431)
.|+|-.||=+ .=..+|||||++|-
T Consensus 124 ~Ivvt~gLl~~l~~~El~aVlAHElgHi 151 (324)
T PRK01265 124 RIAITLPLLKILNRDEIKAVAGHELGHL 151 (324)
T ss_pred EEEEehHHHhhCCHHHHHHHHHHHHHHH
Confidence 4666666544 44568999999993
No 168
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=22.15 E-value=38 Score=39.30 Aligned_cols=29 Identities=28% Similarity=0.476 Sum_probs=0.0
Q ss_pred ccccCCCCChhhhhccCCCCCcccccCHH
Q 014080 62 KVIENEYDSEDDLQCIKSDDSDEDELDED 90 (431)
Q Consensus 62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (431)
+-.++|++.|+|++.+.-++||++|.|+|
T Consensus 1401 r~~~dd~DeeeD~e~Ed~dEddd~edd~D 1429 (1516)
T KOG1832|consen 1401 RPTDDDSDEEEDDETEDEDEDDDEEDDLD 1429 (1516)
T ss_pred CCCccccCccccchhhccccccccccccc
No 169
>PF10026 DUF2268: Predicted Zn-dependent protease (DUF2268); InterPro: IPR018728 This domain, found in various hypothetical bacterial proteins, as well as predicted zinc dependent proteases, has no known function.
Probab=22.04 E-value=81 Score=29.60 Aligned_cols=14 Identities=29% Similarity=0.387 Sum_probs=11.5
Q ss_pred hhhhHHHHhhhHhH
Q 014080 402 LTGSILAHEMMHAW 415 (431)
Q Consensus 402 ~~g~ilaHE~~Ha~ 415 (431)
-.-+++|||+-|++
T Consensus 64 ~l~~~iaHE~hH~~ 77 (195)
T PF10026_consen 64 ELPALIAHEYHHNC 77 (195)
T ss_pred HHHHHHHHHHHHHH
Confidence 44688999999975
No 170
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=21.85 E-value=76 Score=37.58 Aligned_cols=34 Identities=21% Similarity=0.647 Sum_probs=23.2
Q ss_pred CCCCCcCCCCCcccccCceEeecCccccCCCcccCCCCCCCC
Q 014080 156 FSGYRICAGCNTEIGHGRYLSCMEAFWHPECFRCHSCNLPIT 197 (431)
Q Consensus 156 ~~~~~~C~~C~k~I~~g~~v~algk~wHp~CF~C~~C~~~L~ 197 (431)
.....+|.-|+..|. +.+.|..| -.|..|+-|+.
T Consensus 14 ~~~~qiCqICGD~vg----~~~~Ge~F----VAC~eC~FPVC 47 (1079)
T PLN02638 14 HGGGQVCQICGDNVG----KTVDGEPF----VACDVCAFPVC 47 (1079)
T ss_pred ccCCceeeecccccC----cCCCCCEE----EEeccCCCccc
Confidence 445679999999885 44666666 45677765544
No 171
>KOG2475 consensus CDC45 (cell division cycle 45)-like protein [Replication, recombination and repair]
Probab=21.55 E-value=1e+02 Score=33.75 Aligned_cols=12 Identities=33% Similarity=0.432 Sum_probs=4.6
Q ss_pred hhhhHHHHHHHH
Q 014080 95 IAQQEEDERRAK 106 (431)
Q Consensus 95 ~~~~~e~~~~~~ 106 (431)
....+.+++.++
T Consensus 173 R~e~~~~~r~~k 184 (587)
T KOG2475|consen 173 RLEEEIDQRASK 184 (587)
T ss_pred hhhhhhhhHHHH
Confidence 333343333333
No 172
>COG5414 TATA-binding protein-associated factor [Transcription]
Probab=21.30 E-value=1.2e+02 Score=30.81 Aligned_cols=9 Identities=33% Similarity=0.793 Sum_probs=5.1
Q ss_pred CCChhHHHH
Q 014080 39 GFDNEEIDR 47 (431)
Q Consensus 39 ~~~~~~~~~ 47 (431)
+-+.||||-
T Consensus 271 GM~eeDLd~ 279 (392)
T COG5414 271 GMSEEDLDV 279 (392)
T ss_pred ccchhhhhh
Confidence 335578853
No 173
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=20.91 E-value=71 Score=35.89 Aligned_cols=19 Identities=16% Similarity=0.030 Sum_probs=13.6
Q ss_pred hHhHhhhcCCC--CCceeeee
Q 014080 412 MHAWLRLKGFI--CFKLIYFV 430 (431)
Q Consensus 412 ~Ha~lrl~g~~--~l~~~~~~ 430 (431)
.-+||||.-++ ++|-||=.
T Consensus 168 ~~~Yl~L~~~~~~~iP~v~~~ 188 (645)
T PRK14559 168 AIPYLALQDQFPTEIPKIHDA 188 (645)
T ss_pred hhhHHhccccccccCcchhee
Confidence 45899998763 48888753
No 174
>PF10462 Peptidase_M66: Peptidase M66; InterPro: IPR019503 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This is a family of metallopeptidases belonging to MEROPS peptidase family M66 (StcE peptidase, clan MA). The StcE peptidase is a virulence factor found in Shiga toxigenic Escherichia coli strains. StcE peptidase cleaves C1 esterase inhibitor []. The SwissProt proteins in this entry have been name "Dictomallein". ; GO: 0004222 metalloendopeptidase activity; PDB: 3UJZ_A.
Probab=20.81 E-value=48 Score=33.74 Aligned_cols=14 Identities=29% Similarity=0.472 Sum_probs=12.4
Q ss_pred hhhHHHHhhhHhHh
Q 014080 403 TGSILAHEMMHAWL 416 (431)
Q Consensus 403 ~g~ilaHE~~Ha~l 416 (431)
.|.+++||++|+|=
T Consensus 193 ~~~~f~HE~GH~~G 206 (305)
T PF10462_consen 193 YGNEFSHELGHNFG 206 (305)
T ss_dssp SHHHHHHHHHHTTT
T ss_pred ccceeehhhhhhcC
Confidence 58999999999983
No 175
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=20.74 E-value=30 Score=29.56 Aligned_cols=31 Identities=29% Similarity=0.802 Sum_probs=24.1
Q ss_pred cccCCCCCCCC-CcceeecCCccccccccccc
Q 014080 187 FRCHSCNLPIT-DVEFSMSGNRPYHKHCYKEQ 217 (431)
Q Consensus 187 F~C~~C~~~L~-~~~F~~~dg~pyC~~CY~~~ 217 (431)
++|..|+.++- ++.|....+-|.|-.|+.+.
T Consensus 3 WkC~iCg~~I~~gqlFTF~~kG~VH~~C~~~~ 34 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKKGPVHYECFREK 34 (101)
T ss_pred eEEEecCCeeeecceEEEecCCcEeHHHHHHH
Confidence 58999999986 45676666688899998764
No 176
>TIGR02290 M3_fam_3 oligoendopeptidase, pepF/M3 family. The M3 family of metallopeptidases contains several distinct clades. Oligoendopeptidase F as characterized in Lactococcus, the functionally equivalent oligoendopeptidase B of group B Streptococcus, and closely related sequences are described by TIGR00181. The present family is quite similar but forms a distinct clade, and a number of species have one member of each. A greater sequence difference separates members of TIGR02289, probable oligoendopeptidases of the M3 family that probably should not be designated PepF.
Probab=20.50 E-value=50 Score=36.27 Aligned_cols=12 Identities=58% Similarity=0.764 Sum_probs=9.8
Q ss_pred hHHHHhhhHhHh
Q 014080 405 SILAHEMMHAWL 416 (431)
Q Consensus 405 ~ilaHE~~Ha~l 416 (431)
..||||++||+-
T Consensus 377 ~TL~HE~GHa~H 388 (587)
T TIGR02290 377 STLAHELGHAYH 388 (587)
T ss_pred HHHHHHhhHHHH
Confidence 459999999873
No 177
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=20.48 E-value=32 Score=25.83 Aligned_cols=27 Identities=19% Similarity=0.519 Sum_probs=17.3
Q ss_pred CccCCCCCccCCCCceEEccCCcccCcchh
Q 014080 259 PRCCSCERMEPRDTKYLSLDDGRKLCLECL 288 (431)
Q Consensus 259 F~C~~C~r~l~~g~~f~~l~dG~~yC~~C~ 288 (431)
++|..|++.|-....|.. ..+-|..|-
T Consensus 5 iRC~~CnklLa~~g~~~~---leIKCpRC~ 31 (51)
T PF10122_consen 5 IRCGHCNKLLAKAGEVIE---LEIKCPRCK 31 (51)
T ss_pred eeccchhHHHhhhcCccE---EEEECCCCC
Confidence 678888888865444442 356677664
No 178
>cd06459 M3B_Oligoendopeptidase_F Peptidase family M3B Oligopeptidase F (PepF; Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and includes oligoendopeptidase F from Lactococcus lactis. This enzyme hydrolyzes peptides containing between 7 and 17 amino acids with fairly broad specificity. The PepF gene is duplicated in L. lactis on the plasmid that bears it, while a shortened second copy is found in Bacillus subtilis. Most bacterial PepFs are cytoplasmic endopeptidases; however, the PepF Bacillus amyloliquefaciens oligopeptidase is a secreted protein and may facilitate the process of sporulation. Specifically, the yjbG gene encoding the homolog of the PepF1 and PepF2 oligoendopeptidases of Lactococcus lactis has been identified in Bacillus subtilis as an inhibitor of sporulation initiation when over expressed from a multicopy plasmid.
Probab=20.35 E-value=51 Score=34.05 Aligned_cols=14 Identities=43% Similarity=0.520 Sum_probs=10.5
Q ss_pred hHHHHhhhHhHhhh
Q 014080 405 SILAHEMMHAWLRL 418 (431)
Q Consensus 405 ~ilaHE~~Ha~lrl 418 (431)
..|+||++||+--+
T Consensus 224 ~tl~HE~GHa~h~~ 237 (427)
T cd06459 224 FTLAHELGHAFHSY 237 (427)
T ss_pred HHHHHHhhHHHHHH
Confidence 45999999976433
No 179
>PRK11827 hypothetical protein; Provisional
Probab=20.23 E-value=81 Score=24.44 Aligned_cols=14 Identities=21% Similarity=0.525 Sum_probs=11.2
Q ss_pred ccccccccchhhhH
Q 014080 314 MKVEQQVPLLLVER 327 (431)
Q Consensus 314 ~~~~~~~pl~lv~~ 327 (431)
.||...+|++|++.
T Consensus 36 YPI~dgIPVlL~de 49 (60)
T PRK11827 36 FPLRDGIPVLLETE 49 (60)
T ss_pred ccccCCccccCHHH
Confidence 56778999999875
No 180
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=20.21 E-value=37 Score=32.38 Aligned_cols=26 Identities=19% Similarity=0.345 Sum_probs=18.4
Q ss_pred hhHHHHHHHhhhhhhhccCCccccCC
Q 014080 42 NEEIDRAIALSLVEVDQKGKKVIENE 67 (431)
Q Consensus 42 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 (431)
+-||.-||.||+.|+-|+.+-..-..
T Consensus 207 DpELA~AlrLSmeEek~rQe~~~qk~ 232 (243)
T COG5148 207 DPELAEALRLSMEEEKKRQEVAAQKS 232 (243)
T ss_pred CHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence 55788899999977776665555433
No 181
>KOG3314 consensus Ku70-binding protein [Replication, recombination and repair]
Probab=20.19 E-value=56 Score=30.45 Aligned_cols=15 Identities=27% Similarity=0.574 Sum_probs=11.8
Q ss_pred hhHHHHhhhHhHhhh
Q 014080 404 GSILAHEMMHAWLRL 418 (431)
Q Consensus 404 g~ilaHE~~Ha~lrl 418 (431)
.-+++|||.|||=-+
T Consensus 92 n~vv~HElIH~fDd~ 106 (194)
T KOG3314|consen 92 NQVVIHELIHAFDDC 106 (194)
T ss_pred HHHHHHHHHHHHHhh
Confidence 468999999997433
No 182
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=20.17 E-value=2.4e+02 Score=24.21 Aligned_cols=12 Identities=42% Similarity=0.883 Sum_probs=7.3
Q ss_pred CCCcCCCCCccc
Q 014080 158 GYRICAGCNTEI 169 (431)
Q Consensus 158 ~~~~C~~C~k~I 169 (431)
+...|..|+.+.
T Consensus 53 ~~~~C~~C~~~f 64 (118)
T PF02318_consen 53 GERHCARCGKPF 64 (118)
T ss_dssp CCSB-TTTS-BC
T ss_pred CCcchhhhCCcc
Confidence 456899998875
No 183
>KOG2661 consensus Peptidase family M48 [Posttranslational modification, protein turnover, chaperones]
Probab=20.13 E-value=58 Score=33.69 Aligned_cols=15 Identities=40% Similarity=0.632 Sum_probs=12.7
Q ss_pred hhHHHHhhhHhHhhh
Q 014080 404 GSILAHEMMHAWLRL 418 (431)
Q Consensus 404 g~ilaHE~~Ha~lrl 418 (431)
.++||||.+||-.|=
T Consensus 276 AtvLgHE~aHaVarH 290 (424)
T KOG2661|consen 276 ATVLGHEIAHAVARH 290 (424)
T ss_pred HHHHHHHHHHHHHHH
Confidence 478999999998774
No 184
>KOG1189 consensus Global transcriptional regulator, cell division control protein [Amino acid transport and metabolism]
Probab=20.04 E-value=59 Score=36.98 Aligned_cols=60 Identities=18% Similarity=0.230 Sum_probs=0.0
Q ss_pred ccCCCCChhhhhccCCCCCcccccCHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhhhhch
Q 014080 64 IENEYDSEDDLQCIKSDDSDEDELDEDEIRAIAQQEEDERRAKAQQEEDERRARARAQLE 123 (431)
Q Consensus 64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~q~~e~~~~~ra~~~~~ 123 (431)
.+.+++|++|+.+..+.++|+++..+.+.--....+=|++..++.++.+++-++++.+..
T Consensus 897 ~~v~~eS~ed~e~sE~s~~de~~de~~~sdEE~gkdwdele~ea~~~dr~~~~~~e~~s~ 956 (960)
T KOG1189|consen 897 DDVSDESDEDEEESEESEEDEEDDEDLESDEESGKDWDELEREARNADREHGAEEERESE 956 (960)
T ss_pred cCccccccccccccccccccccccccccchhhhccchhhhHHHHhhcchhhchhhhcchh
Done!