Query 005362
Match_columns 700
No_of_seqs 182 out of 861
Neff 8.3
Searched_HMMs 46136
Date Thu Mar 28 22:15:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005362.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005362hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1985 Vesicle coat complex C 100.0 1E-127 3E-132 1041.0 51.6 640 1-697 171-887 (887)
2 KOG1984 Vesicle coat complex C 100.0 5E-125 1E-129 1021.7 52.0 643 2-699 289-1006(1007)
3 PLN00162 transport protein sec 100.0 1E-119 3E-124 1042.7 64.0 652 2-696 11-759 (761)
4 COG5028 Vesicle coat complex C 100.0 5E-115 1E-119 935.5 50.2 628 2-697 152-861 (861)
5 PTZ00395 Sec24-related protein 100.0 1E-113 2E-118 971.9 55.4 640 2-700 654-1558(1560)
6 KOG1986 Vesicle coat complex C 100.0 1E-105 2E-110 858.3 49.1 647 2-695 11-741 (745)
7 COG5047 SEC23 Vesicle coat com 100.0 9.3E-99 2E-103 783.5 38.5 647 2-695 11-751 (755)
8 cd01478 Sec23-like Sec23-like: 100.0 5.5E-46 1.2E-50 380.1 22.2 241 119-372 1-267 (267)
9 cd01479 Sec24-like Sec24-like: 100.0 1.5E-45 3.2E-50 374.3 22.0 229 119-377 1-243 (244)
10 cd01468 trunk_domain trunk dom 100.0 2.4E-44 5.1E-49 366.1 22.1 228 119-372 1-239 (239)
11 PF04811 Sec23_trunk: Sec23/Se 100.0 6.6E-43 1.4E-47 357.0 17.8 230 119-374 1-243 (243)
12 PF04815 Sec23_helical: Sec23/ 99.7 1.2E-16 2.7E-21 140.2 9.9 95 464-570 9-103 (103)
13 PF08033 Sec23_BS: Sec23/Sec24 99.5 1E-14 2.3E-19 126.3 7.7 79 379-461 1-88 (96)
14 PF04810 zf-Sec23_Sec24: Sec23 99.5 6.6E-15 1.4E-19 104.4 2.1 38 49-86 1-40 (40)
15 PRK13685 hypothetical protein; 98.8 2.3E-07 4.9E-12 99.1 18.1 163 121-360 88-275 (326)
16 cd01453 vWA_transcription_fact 98.8 1.4E-07 3.1E-12 91.9 14.5 162 123-372 5-177 (183)
17 cd01456 vWA_ywmD_type VWA ywmD 98.8 2.3E-07 4.9E-12 92.5 15.7 169 119-355 18-196 (206)
18 cd01466 vWA_C3HC4_type VWA C3H 98.7 4.8E-07 1E-11 85.9 16.2 150 124-358 3-154 (155)
19 cd01451 vWA_Magnesium_chelatas 98.7 5E-07 1.1E-11 87.8 16.4 167 123-367 2-173 (178)
20 cd01465 vWA_subgroup VWA subgr 98.7 1.3E-06 2.8E-11 83.9 18.4 158 124-360 3-162 (170)
21 cd01463 vWA_VGCC_like VWA Volt 98.6 1.7E-06 3.8E-11 84.9 18.1 168 120-360 12-188 (190)
22 cd01467 vWA_BatA_type VWA BatA 98.5 4.6E-06 9.9E-11 81.0 17.6 155 123-360 4-176 (180)
23 cd01472 vWA_collagen von Wille 98.4 1E-05 2.3E-10 77.3 16.7 152 124-359 3-162 (164)
24 TIGR03436 acidobact_VWFA VWFA- 98.4 1.5E-05 3.2E-10 84.2 18.6 172 120-358 52-238 (296)
25 PF13768 VWA_3: von Willebrand 98.4 5.9E-06 1.3E-10 78.3 13.7 150 124-356 3-154 (155)
26 cd01452 VWA_26S_proteasome_sub 98.4 1.4E-05 3.1E-10 77.4 15.8 145 123-351 5-161 (187)
27 cd01480 vWA_collagen_alpha_1-V 98.4 1.1E-05 2.3E-10 79.0 15.3 158 123-361 4-172 (186)
28 TIGR00868 hCaCC calcium-activa 98.4 3.2E-05 6.8E-10 90.6 21.3 155 121-360 304-462 (863)
29 cd01461 vWA_interalpha_trypsin 98.3 2.7E-05 6E-10 74.7 16.3 159 121-361 2-162 (171)
30 cd01470 vWA_complement_factors 98.3 3E-05 6.5E-10 76.7 16.3 169 124-361 3-190 (198)
31 PF13519 VWA_2: von Willebrand 98.3 4.5E-06 9.7E-11 79.9 9.8 150 124-358 2-158 (172)
32 cd01471 vWA_micronemal_protein 98.2 7.1E-05 1.5E-09 73.2 16.0 150 124-350 3-160 (186)
33 cd01474 vWA_ATR ATR (Anthrax T 98.1 0.00011 2.3E-09 71.9 16.8 159 122-362 5-168 (185)
34 cd01469 vWA_integrins_alpha_su 98.0 0.00035 7.6E-09 67.7 17.5 159 124-362 3-172 (177)
35 cd01477 vWA_F09G8-8_type VWA F 98.0 0.00029 6.3E-09 69.2 15.8 153 122-353 20-187 (193)
36 TIGR03788 marine_srt_targ mari 97.9 0.00067 1.5E-08 78.7 20.3 184 120-387 270-458 (596)
37 cd01482 vWA_collagen_alphaI-XI 97.9 0.00099 2.1E-08 63.7 18.0 146 124-353 3-155 (164)
38 cd01450 vWFA_subfamily_ECM Von 97.9 0.00058 1.3E-08 64.4 16.2 148 124-352 3-156 (161)
39 cd01475 vWA_Matrilin VWA_Matri 97.9 0.00047 1E-08 69.6 16.3 156 123-362 4-170 (224)
40 TIGR02031 BchD-ChlD magnesium 97.9 0.00028 6E-09 81.2 16.3 177 121-364 407-586 (589)
41 PRK13406 bchD magnesium chelat 97.9 0.0006 1.3E-08 77.8 18.5 175 121-370 401-579 (584)
42 PTZ00441 sporozoite surface pr 97.7 0.0013 2.8E-08 73.4 18.0 165 121-362 42-217 (576)
43 smart00327 VWA von Willebrand 97.7 0.0023 5E-08 61.2 17.3 155 123-357 3-164 (177)
44 PF00092 VWA: von Willebrand f 97.7 0.00055 1.2E-08 65.8 12.9 158 124-362 2-169 (178)
45 COG1240 ChlD Mg-chelatase subu 97.7 0.00089 1.9E-08 66.8 14.1 171 121-367 78-253 (261)
46 TIGR02442 Cob-chelat-sub cobal 97.7 0.00064 1.4E-08 79.1 15.2 160 121-358 465-632 (633)
47 cd01476 VWA_integrin_invertebr 97.7 0.0031 6.7E-08 60.0 17.4 108 124-282 3-117 (163)
48 cd01481 vWA_collagen_alpha3-VI 97.6 0.0038 8.2E-08 59.8 17.4 154 124-361 3-165 (165)
49 cd00198 vWFA Von Willebrand fa 97.5 0.0036 7.7E-08 58.4 15.7 149 123-351 2-155 (161)
50 cd01464 vWA_subfamily VWA subf 97.4 0.00091 2E-08 64.7 10.5 45 124-168 6-58 (176)
51 PF04056 Ssl1: Ssl1-like; Int 97.3 0.0031 6.8E-08 61.2 11.9 97 244-375 78-174 (193)
52 PF00626 Gelsolin: Gelsolin re 97.3 0.00036 7.8E-09 57.3 4.7 59 597-661 15-74 (76)
53 cd01454 vWA_norD_type norD typ 97.2 0.013 2.7E-07 56.6 15.9 146 123-338 2-154 (174)
54 COG4245 TerY Uncharacterized p 97.2 0.0026 5.6E-08 60.1 10.2 48 121-169 4-59 (207)
55 cd01473 vWA_CTRP CTRP for CS 97.1 0.025 5.5E-07 55.5 16.5 151 124-350 3-161 (192)
56 cd01458 vWA_ku Ku70/Ku80 N-ter 97.1 0.012 2.6E-07 59.1 14.1 158 123-337 3-173 (218)
57 cd01462 VWA_YIEM_type VWA YIEM 96.8 0.03 6.6E-07 52.5 14.0 42 124-165 3-47 (152)
58 smart00262 GEL Gelsolin homolo 96.1 0.023 4.9E-07 48.3 7.2 64 597-667 23-87 (90)
59 KOG2884 26S proteasome regulat 95.1 0.73 1.6E-05 44.8 13.9 147 123-353 5-163 (259)
60 cd01460 vWA_midasin VWA_Midasi 94.9 1 2.2E-05 46.5 15.5 46 120-167 59-111 (266)
61 KOG0443 Actin regulatory prote 94.2 0.069 1.5E-06 61.1 5.7 82 567-657 615-704 (827)
62 cd01455 vWA_F11C1-5a_type Von 94.1 1.9 4.1E-05 41.9 14.7 80 248-360 93-174 (191)
63 cd01457 vWA_ORF176_type VWA OR 93.6 0.93 2E-05 44.6 11.9 43 123-165 4-57 (199)
64 PF03850 Tfb4: Transcription f 90.2 20 0.00043 37.2 17.4 96 246-371 116-216 (276)
65 KOG0443 Actin regulatory prote 89.1 1.4 3E-05 50.8 8.4 97 570-673 253-358 (827)
66 KOG2807 RNA polymerase II tran 88.2 6.7 0.00015 40.6 11.7 89 245-368 142-230 (378)
67 KOG2353 L-type voltage-depende 85.3 20 0.00043 44.3 15.6 67 100-168 203-274 (1104)
68 COG5148 RPN10 26S proteasome r 85.0 30 0.00066 33.1 13.3 131 123-335 5-145 (243)
69 TIGR00578 ku70 ATP-dependent D 81.8 21 0.00045 41.4 13.6 73 246-342 117-190 (584)
70 PF06707 DUF1194: Protein of u 81.2 59 0.0013 32.1 16.7 103 245-378 94-202 (205)
71 COG2425 Uncharacterized protei 79.7 11 0.00023 41.6 9.6 149 121-359 273-424 (437)
72 PF10058 DUF2296: Predicted in 78.6 0.98 2.1E-05 34.3 0.9 33 48-80 20-54 (54)
73 smart00187 INB Integrin beta s 76.7 1.2E+02 0.0027 33.3 23.2 273 124-430 102-390 (423)
74 PRK10997 yieM hypothetical pro 76.5 22 0.00047 40.0 11.1 49 123-171 325-376 (487)
75 PF09967 DUF2201: VWA-like dom 74.0 8.5 0.00018 34.9 6.0 42 125-168 2-45 (126)
76 PRK00398 rpoP DNA-directed RNA 72.9 2.1 4.6E-05 31.2 1.4 27 51-81 4-32 (46)
77 PF05762 VWA_CoxE: VWA domain 70.3 54 0.0012 32.8 11.4 33 244-279 128-160 (222)
78 KOG0444 Cytoskeletal regulator 66.4 17 0.00038 41.4 7.3 91 567-668 729-830 (1255)
79 PF00362 Integrin_beta: Integr 65.5 2.3E+02 0.0049 31.6 17.1 273 124-431 105-394 (426)
80 TIGR00627 tfb4 transcription f 63.1 26 0.00057 36.4 7.5 99 246-374 119-221 (279)
81 TIGR01053 LSD1 zinc finger dom 61.2 4.7 0.0001 26.8 1.1 30 51-82 2-31 (31)
82 KOG0444 Cytoskeletal regulator 60.2 17 0.00037 41.5 5.8 63 597-665 646-709 (1255)
83 PF10138 vWA-TerF-like: vWA fo 59.2 1.6E+02 0.0034 29.1 11.7 108 124-281 4-117 (200)
84 PF10122 Mu-like_Com: Mu-like 58.9 2.6 5.7E-05 31.2 -0.4 34 51-84 5-38 (51)
85 PF11781 RRN7: RNA polymerase 57.0 8.5 0.00018 26.6 1.9 27 50-79 8-34 (36)
86 COG1198 PriA Primosomal protei 56.3 29 0.00063 41.0 7.2 114 51-174 436-573 (730)
87 cd00730 rubredoxin Rubredoxin; 55.2 5.5 0.00012 29.7 0.7 28 52-79 3-43 (50)
88 TIGR00686 phnA alkylphosphonat 55.1 9.2 0.0002 33.2 2.2 28 50-80 2-29 (109)
89 PF03731 Ku_N: Ku70/Ku80 N-ter 52.8 25 0.00054 35.1 5.4 66 246-334 105-172 (224)
90 PF09082 DUF1922: Domain of un 52.5 3.4 7.5E-05 32.7 -0.7 31 50-84 3-33 (68)
91 PF00301 Rubredoxin: Rubredoxi 52.4 6.1 0.00013 29.1 0.6 28 52-79 3-43 (47)
92 cd00350 rubredoxin_like Rubred 52.1 8.6 0.00019 25.9 1.3 23 52-78 3-25 (33)
93 smart00661 RPOL9 RNA polymeras 50.9 8.6 0.00019 28.6 1.3 31 52-83 2-33 (52)
94 PF08274 PhnA_Zn_Ribbon: PhnA 48.0 14 0.0003 24.4 1.7 27 50-79 2-28 (30)
95 PRK12380 hydrogenase nickel in 47.1 8.2 0.00018 34.3 0.7 27 50-80 70-96 (113)
96 TIGR00100 hypA hydrogenase nic 46.8 8.6 0.00019 34.3 0.8 27 50-80 70-96 (115)
97 PF02318 FYVE_2: FYVE-type zin 45.0 12 0.00027 33.4 1.5 32 50-81 71-105 (118)
98 PF13240 zinc_ribbon_2: zinc-r 44.5 9.7 0.00021 23.4 0.5 11 52-62 1-11 (23)
99 PRK10220 hypothetical protein; 44.3 17 0.00036 31.7 2.1 28 50-80 3-30 (111)
100 PF12760 Zn_Tnp_IS1595: Transp 43.5 19 0.00042 26.2 2.1 26 51-78 19-45 (46)
101 PRK03681 hypA hydrogenase nick 42.0 9.7 0.00021 33.9 0.4 27 50-80 70-97 (114)
102 PRK03954 ribonuclease P protei 41.5 13 0.00028 33.4 1.1 33 52-84 66-107 (121)
103 COG1096 Predicted RNA-binding 39.9 16 0.00036 35.1 1.6 26 50-79 149-174 (188)
104 PRK00420 hypothetical protein; 39.6 17 0.00037 32.1 1.5 30 51-83 24-53 (112)
105 TIGR02605 CxxC_CxxC_SSSS putat 39.3 15 0.00032 27.4 0.9 30 51-80 6-36 (52)
106 PRK00564 hypA hydrogenase nick 39.0 11 0.00025 33.6 0.3 28 50-81 71-99 (117)
107 PF09723 Zn-ribbon_8: Zinc rib 38.4 15 0.00033 26.2 0.9 29 51-79 6-35 (42)
108 PHA00626 hypothetical protein 38.2 24 0.00052 26.8 1.8 30 53-82 3-35 (59)
109 TIGR00416 sms DNA repair prote 37.6 16 0.00034 41.0 1.2 29 50-84 7-35 (454)
110 PF06827 zf-FPG_IleRS: Zinc fi 37.6 15 0.00032 24.0 0.6 27 52-78 3-29 (30)
111 PF00641 zf-RanBP: Zn-finger i 36.9 13 0.00028 24.3 0.3 15 69-83 3-17 (30)
112 PRK00432 30S ribosomal protein 36.7 21 0.00046 26.6 1.4 26 51-79 21-46 (50)
113 PRK11823 DNA repair protein Ra 36.3 15 0.00033 41.1 0.8 30 50-85 7-36 (446)
114 PRK00762 hypA hydrogenase nick 35.4 15 0.00032 33.2 0.5 31 50-81 70-103 (124)
115 COG0275 Predicted S-adenosylme 35.2 49 0.0011 34.6 4.2 31 134-164 217-247 (314)
116 cd01121 Sms Sms (bacterial rad 34.8 17 0.00037 39.5 1.0 27 52-84 2-28 (372)
117 PF08271 TF_Zn_Ribbon: TFIIB z 32.4 23 0.00049 25.3 1.0 25 52-79 2-28 (43)
118 COG4867 Uncharacterized protei 32.2 1.9E+02 0.0041 31.5 8.0 99 245-359 532-634 (652)
119 PF09779 Ima1_N: Ima1 N-termin 31.6 25 0.00054 32.1 1.3 33 51-85 1-35 (131)
120 PF08792 A2L_zn_ribbon: A2L zi 31.6 38 0.00081 22.9 1.8 29 50-80 3-31 (33)
121 PRK06393 rpoE DNA-directed RNA 31.4 22 0.00049 27.9 0.8 26 51-84 6-31 (64)
122 PF07282 OrfB_Zn_ribbon: Putat 31.4 30 0.00064 27.4 1.6 29 50-80 28-56 (69)
123 KOG3799 Rab3 effector RIM1 and 31.3 27 0.00058 31.4 1.4 29 52-82 91-119 (169)
124 smart00659 RPOLCX RNA polymera 30.9 35 0.00076 24.7 1.7 25 52-79 4-28 (44)
125 PF11265 Med25_VWA: Mediator c 30.6 5.7E+02 0.012 25.7 15.2 88 247-357 111-204 (226)
126 smart00834 CxxC_CXXC_SSSS Puta 30.4 25 0.00054 24.5 0.9 28 51-78 6-34 (41)
127 PF13894 zf-C2H2_4: C2H2-type 29.7 27 0.00059 20.6 0.9 12 71-82 1-12 (24)
128 COG4416 Com Mu-like prophage p 29.6 8.1 0.00018 28.8 -1.7 33 50-82 4-36 (60)
129 KOG3355 Mitochondrial sulfhydr 29.0 50 0.0011 31.2 2.8 21 680-700 133-153 (177)
130 COG0266 Nei Formamidopyrimidin 28.7 31 0.00066 35.6 1.5 28 51-78 246-273 (273)
131 smart00547 ZnF_RBZ Zinc finger 28.2 24 0.00053 22.0 0.5 14 70-83 2-15 (26)
132 COG1645 Uncharacterized Zn-fin 28.2 37 0.0008 30.8 1.8 25 51-79 29-53 (131)
133 PF09788 Tmemb_55A: Transmembr 28.2 66 0.0014 32.6 3.7 36 49-84 64-99 (256)
134 PF14803 Nudix_N_2: Nudix N-te 28.1 38 0.00083 23.1 1.4 28 52-79 2-31 (34)
135 PRK12722 transcriptional activ 27.5 26 0.00056 34.0 0.7 27 49-78 133-162 (187)
136 PRK12286 rpmF 50S ribosomal pr 27.1 44 0.00094 25.7 1.7 26 49-81 26-51 (57)
137 PF05191 ADK_lid: Adenylate ki 27.0 30 0.00065 23.9 0.8 26 53-78 4-29 (36)
138 PRK03824 hypA hydrogenase nick 26.9 28 0.0006 32.0 0.8 31 50-80 70-117 (135)
139 COG2888 Predicted Zn-ribbon RN 26.7 29 0.00063 26.7 0.7 24 48-79 36-59 (61)
140 TIGR00006 S-adenosyl-methyltra 26.6 78 0.0017 33.4 4.1 30 135-164 214-243 (305)
141 PF13719 zinc_ribbon_5: zinc-r 26.2 33 0.00071 23.7 0.9 29 51-79 3-34 (37)
142 KOG3768 DEAD box RNA helicase 25.3 1.2E+02 0.0025 34.5 5.2 28 122-149 2-37 (888)
143 PF10571 UPF0547: Uncharacteri 25.0 31 0.00067 21.9 0.5 22 52-79 2-23 (26)
144 TIGR01384 TFS_arch transcripti 24.8 39 0.00084 29.3 1.3 27 52-82 2-28 (104)
145 PF01927 Mut7-C: Mut7-C RNAse 24.7 41 0.00089 31.3 1.5 31 50-80 91-134 (147)
146 COG1996 RPC10 DNA-directed RNA 24.6 35 0.00076 25.3 0.8 26 51-80 7-34 (49)
147 PF02905 EBV-NA1: Epstein Barr 24.6 1E+02 0.0022 27.5 3.7 33 135-167 110-145 (146)
148 PF05280 FlhC: Flagellar trans 24.3 30 0.00065 33.3 0.5 28 49-78 133-162 (175)
149 PRK12860 transcriptional activ 23.5 36 0.00078 33.1 0.9 26 49-77 133-161 (189)
150 KOG2487 RNA polymerase II tran 23.4 1.1E+02 0.0023 31.4 4.1 45 315-362 185-229 (314)
151 PF03604 DNA_RNApol_7kD: DNA d 22.9 51 0.0011 22.1 1.2 13 47-59 14-26 (32)
152 PF13717 zinc_ribbon_4: zinc-r 22.7 42 0.00091 23.1 0.9 29 51-79 3-34 (36)
153 PRK00050 16S rRNA m(4)C1402 me 22.6 1E+02 0.0022 32.4 4.1 30 135-164 210-239 (296)
154 PF02891 zf-MIZ: MIZ/SP-RING z 22.4 29 0.00064 25.8 0.0 10 69-78 40-49 (50)
155 cd00729 rubredoxin_SM Rubredox 22.4 41 0.00089 22.8 0.7 11 70-80 2-12 (34)
156 COG3357 Predicted transcriptio 22.0 32 0.00068 28.9 0.1 33 49-83 57-89 (97)
157 PRK08351 DNA-directed RNA poly 22.0 45 0.00097 26.0 1.0 26 52-85 5-30 (61)
158 PRK14890 putative Zn-ribbon RN 21.9 32 0.0007 26.5 0.2 22 50-79 36-57 (59)
159 COG5415 Predicted integral mem 21.4 47 0.001 32.4 1.1 35 51-85 193-229 (251)
160 KOG2846 Predicted membrane pro 21.3 42 0.00091 35.3 0.9 35 50-84 220-256 (328)
161 COG1545 Predicted nucleic-acid 21.3 1.3E+02 0.0029 27.7 4.2 25 50-80 29-53 (140)
162 PF15288 zf-CCHC_6: Zinc knuck 21.2 38 0.00081 24.0 0.4 9 51-59 2-10 (40)
163 PF12172 DUF35_N: Rubredoxin-l 21.2 63 0.0014 22.1 1.5 24 50-79 11-34 (37)
164 PF01155 HypA: Hydrogenase exp 20.5 28 0.0006 30.9 -0.5 27 50-80 70-96 (113)
165 PF12874 zf-met: Zinc-finger o 20.5 58 0.0013 19.8 1.1 13 71-83 1-13 (25)
166 PF07754 DUF1610: Domain of un 20.1 76 0.0016 19.9 1.5 23 53-77 1-23 (24)
No 1
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.4e-127 Score=1041.04 Aligned_cols=640 Identities=30% Similarity=0.506 Sum_probs=565.2
Q ss_pred CccccccCcCCCCHHHHHhcCCceeeEEccCCCCCCCCCCCcccCCCCCCCcccCcceeEecCceEec--ceEEEccCCC
Q 005362 1 MAVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGS 78 (700)
Q Consensus 1 ~~vR~T~~~~P~~~~~~~~~~lP~g~~v~Pf~~~~~~~~~p~~~~~~~~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~ 78 (700)
+++|+|+++||.+.++++|++||||++|+||++.++.+ |..+.....|+||++||+||||||.|++ ++|+||+|+.
T Consensus 171 ~y~RsTl~~iP~t~sLl~kskLPlglvv~Pf~~~~d~~--~~p~~~~~~IvRCr~CRtYiNPFV~fid~gr~WrCNlC~~ 248 (887)
T KOG1985|consen 171 SYVRSTLSAIPQTQSLLKKSKLPLGLVVHPFAHLDDID--PLPVITSTLIVRCRRCRTYINPFVEFIDQGRRWRCNLCGR 248 (887)
T ss_pred HHHHHHHHhCCccHHHHHhcCCCceEEEeecccccccC--CCCcccCCceeeehhhhhhcCCeEEecCCCceeeechhhh
Confidence 47999999999999999999999999999999876322 3334567889999999999999999985 7999999999
Q ss_pred CCCCChhhhcc-----cCCCCCCcccccccEEEEecCCCCccccCCCCcEEEEEEECCCCh---hHHHHHHHHHHHHHHh
Q 005362 79 LNGLSSQAIAR-----YTHPQSCAEMISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSE---EFLELTRSALQAALEA 150 (700)
Q Consensus 79 ~N~~p~~~~~~-----~~~~~~~pEL~~~tve~~~p~~y~~~~~~~~~p~~vFvID~s~~~---~~l~~~~~~l~~~l~~ 150 (700)
.|++|.+|..+ |.++.+|||+++++|||++|.||+.| +++|++|||+||||.++ |+|++++++|++.|+.
T Consensus 249 ~NdvP~~f~~~~~t~~~~~~~~RpEl~~s~vE~iAP~eYmlR--~P~Pavy~FliDVS~~a~ksG~L~~~~~slL~~LD~ 326 (887)
T KOG1985|consen 249 VNDVPDDFDWDPLTGAYGDPYSRPELTSSVVEFIAPSEYMLR--PPQPAVYVFLIDVSISAIKSGYLETVARSLLENLDA 326 (887)
T ss_pred hcCCcHHhhcCccccccCCcccCccccceeEEEecCcccccC--CCCCceEEEEEEeehHhhhhhHHHHHHHHHHHhhhc
Confidence 99999987543 66788999999999999999999987 57899999999999985 8999999999999999
Q ss_pred CC--CCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccc-cCcc-CcCccchHhHHHHHHHHHHhcCCCC
Q 005362 151 VP--SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED-VMPL-SQFLAPVETFKENITSALETLRPTT 226 (700)
Q Consensus 151 lp--~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~-~~p~-~~~l~~l~~~~~~i~~ll~~l~~~~ 226 (700)
|| ++++|||||||++||||++.++..++.++ ++.|+|| ++|. ++||+|+++||+.|+.+|+.|++++
T Consensus 327 lpgd~Rt~igfi~fDs~ihfy~~~~~~~qp~mm---------~vsdl~d~flp~pd~lLv~L~~ck~~i~~lL~~lp~~F 397 (887)
T KOG1985|consen 327 LPGDPRTRIGFITFDSTIHFYSVQGDLNQPQMM---------IVSDLDDPFLPMPDSLLVPLKECKDLIETLLKTLPEMF 397 (887)
T ss_pred CCCCCcceEEEEEeeceeeEEecCCCcCCCcee---------eeccccccccCCchhheeeHHHHHHHHHHHHHHHHHHH
Confidence 99 78999999999999999998887555443 4678888 4554 7899999999999999999999999
Q ss_pred CcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhc
Q 005362 227 SWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRA 306 (700)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~ 306 (700)
+|++. .++|+|+||++|.++|+++| |||++|++++|+.|.|+|+.||+.+. ++++++..
T Consensus 398 ~~~~~------------t~~alGpALkaaf~li~~~G------Gri~vf~s~lPnlG~G~L~~rEdp~~---~~s~~~~q 456 (887)
T KOG1985|consen 398 QDTRS------------TGSALGPALKAAFNLIGSTG------GRISVFQSTLPNLGAGKLKPREDPNV---RSSDEDSQ 456 (887)
T ss_pred hhccC------------cccccCHHHHHHHHHHhhcC------CeEEEEeccCCCCCcccccccccccc---ccchhhhh
Confidence 88754 35899999999999999988 79999999999999999999976544 35677888
Q ss_pred cCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEeCCCCCC------chhHHHHHHhccCcce
Q 005362 307 LLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDS------TLPQDIYRMLSRPYAF 380 (700)
Q Consensus 307 ~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~~~~~------~l~~dl~~~l~~~~~~ 380 (700)
++.+++.|||+||.+|++.||+||+|+++.+|.|+|+|+.|++.|||.+|||++|++. +|.+||.|+|+|++||
T Consensus 457 lL~~~t~FYK~~a~~cs~~qI~VDlFl~s~qY~DlAsLs~LskySgG~~y~YP~f~~s~p~~~~Kf~~el~r~Ltr~~~f 536 (887)
T KOG1985|consen 457 LLSPATDFYKDLALECSKSQICVDLFLFSEQYTDLASLSCLSKYSGGQVYYYPSFDGSNPHDVLKFARELARYLTRKIGF 536 (887)
T ss_pred ccCCCchHHHHHHHHhccCceEEEEEeecccccchhhhhccccccCceeEEccCCCCCCHHHHHHHHHHHHHHhhhhhhh
Confidence 9999999999999999999999999999999999999999999999999999999855 7899999999999999
Q ss_pred eeEEEEecCCCceeeeeeeccccCCCCCcceeeeccCCCceEEEEEEEecCCCCCCCCCCCcEEEEEEeeeeccCccccc
Q 005362 381 NCIMRLRTSSEFKPGHSYGHFFPDPQYENVQHIICCDSYATYAYDFDFANAAGFARHTSEQPMLQIAFQYTVVVPPEELS 460 (700)
Q Consensus 381 ~a~~rvR~S~gl~i~~~~G~~~~~~~~~~~~~i~~~d~~~s~~~~~e~~~~~~l~~~~~~~~~iQ~a~lYt~~~g~~~~~ 460 (700)
||+||||||+|++++.+||||+.++ .++..++.+++|+++++.+++++ ++ .....+||+|++||...|+||+|
T Consensus 537 eaVmRiR~S~gl~~~~f~GnFF~RS--tDLla~~~v~~D~sy~~qisiEe--sl---~~~~~~fQvAlLyT~~~GERRIR 609 (887)
T KOG1985|consen 537 EAVMRIRCSTGLRMSSFFGNFFVRS--TDLLALPNVNPDQSYAFQISIEE--SL---TTGFCVFQVALLYTLSKGERRIR 609 (887)
T ss_pred heeEEeeccccccccceecccccCc--HHHhcccCCCCCccceEEEEeeh--hc---CCceeEEEeeeeecccCCceeEE
Confidence 9999999999999999999999987 67888999999999999999986 34 35678899999999999999998
Q ss_pred h------------hhHHH-------------HHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCccccccc
Q 005362 461 S------------EGLGS-------------VILASLEQGVREGRMLLHDWLVILTAQYNEAFKLVQHNIGNSVTSQIDV 515 (700)
Q Consensus 461 ~------------~~~~~-------------~~~~~~~~~~~~~r~~l~~~li~~l~~yr~~~~~~~~~~~~~~~~ql~l 515 (700)
+ +++++ ++.++++.++.|+|+.|.+++++++..|++....+ +....
T Consensus 610 V~T~~lpt~~sl~evY~saD~~AI~~lla~~Av~ksl~ssL~dardal~~~~~D~l~aYk~~~~~~-----~~~~~---- 680 (887)
T KOG1985|consen 610 VHTLCLPTVSSLNEVYASADQEAIASLLAKKAVEKSLSSSLSDARDALTNAVVDILNAYKKLVSNQ-----NGQGI---- 680 (887)
T ss_pred EEEeeccccccHHHHHhhcCHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhccc-----ccCCc----
Confidence 4 23222 67788888899999999999999999999988742 11112
Q ss_pred cccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHhhccCChHHHHhhhccceEeeccCCCCC-C-------C-
Q 005362 516 EFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALEPSSLQRAVYPLLTSYSTPDKQA-F-------P- 586 (700)
Q Consensus 516 ~f~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~Der~~~~~~l~~~~~~~~~~~iyP~L~~~~~~~~~~-~-------p- 586 (700)
.+.+|.+|++||+|+++|+|+++||.+. ++++|+|+|+++.++++++..++++|||+||++|+++.++ . +
T Consensus 681 ~l~~p~~LrllPllvlALlK~~~fr~g~-~~~lD~R~~a~~~~~~lpl~~L~k~IYP~Lysl~~l~~ea~~~~~d~~~~~ 759 (887)
T KOG1985|consen 681 TLSLPASLRLLPLLVLALLKHPAFRPGT-GTRLDYRAYAMCLMSTLPLKYLMKYIYPTLYSLHDLDDEAGLPIHDQTVVL 759 (887)
T ss_pred ceecCcchhhhHHHHHHHhcCCcccCCC-CCCchHHHHHHHHhhcCCHHHHHhhhcccceeccccccccCcccccccccC
Confidence 4568999999999999999999999986 5999999999999999999999999999999999975422 1 1
Q ss_pred CCccchhhhccCCCcEEEEecCceEEEEEecCCCCCCCC---------------------CCCccHHHHHHHHHHHHhcC
Q 005362 587 RHSLSRAALITSGSPIFLLDAFTTIIVFYSSTADPTLPF---------------------PPPQDCLLRTTINKMKQERS 645 (700)
Q Consensus 587 ~~~L~~~~~~~~~~~i~LlD~~~~i~i~~g~~~~~~~~~---------------------~~~~~~~~~~~i~~l~~~R~ 645 (700)
.+.|..++..++..|+||||+|..+++|+|++++|++.+ +++.++++++||+++|++|.
T Consensus 760 p~~L~ltae~l~~~GlyL~D~g~~lfl~vg~~a~P~ll~~vfg~~~~adi~~~~~~lp~~~n~~s~r~~~fI~~lR~d~~ 839 (887)
T KOG1985|consen 760 PPPLNLTAELLSRRGLYLMDTGTTLFLWVGSNADPSLLFDVFGVSTLADIPIGKYTLPELDNEESDRVRRFIKKLRDDRT 839 (887)
T ss_pred CCccchHHHHhccCceEEEecCcEEEEEEcCCCCccccccccCcchHhhcccccccCcccccchhHHHHHHHHHhhcCCc
Confidence 134555555679999999999999999999999998751 25567899999999999999
Q ss_pred CCCeEEEEeCCCC--cHHHHHhhccCCCCCCCCCCCCCCcHHHHHHHHHHHHHH
Q 005362 646 ITPKLIFIRGGQD--DATIFENYLIEEQDVDGSGLTSVMGFVSFLEEISQSVVE 697 (700)
Q Consensus 646 ~~p~~~vv~~g~~--~~~~f~~~LvED~~~~~~~~~~~~sy~~fl~~lh~~i~~ 697 (700)
.+|.+++||+++. ...+|+++||||++.+ ..||+|||.+||++|++
T Consensus 840 ~~p~~~ivr~~~~s~~k~~f~~~lvEDrs~~------~~SY~efLq~lk~qv~~ 887 (887)
T KOG1985|consen 840 YFPNLYIVRGDDNSPLKAWFFSRLVEDRSEN------SPSYYEFLQHLKAQVSK 887 (887)
T ss_pred ccceEEEEecCCCchHHHHHHHHHHhhhhcC------cHHHHHHHHHHHHHhcC
Confidence 9999999997643 3568999999999974 79999999999999974
No 2
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.8e-125 Score=1021.71 Aligned_cols=643 Identities=24% Similarity=0.397 Sum_probs=567.2
Q ss_pred ccccccCcCCCCHHHHHhcCCceeeEEccCCCCCCCCCC-CcccCCCCCCCcccCcceeEecCceEec--ceEEEccCCC
Q 005362 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAA-PVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGS 78 (700)
Q Consensus 2 ~vR~T~~~~P~~~~~~~~~~lP~g~~v~Pf~~~~~~~~~-p~~~~~~~~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~ 78 (700)
+||+|+|++|.|.++++.++||||++|+||+...++|.+ ++++.....|+||+||+||||||++|+. ++|+||||+.
T Consensus 289 ~mr~T~Y~iP~T~Dl~~as~iPLalvIqPfa~l~p~E~~~~vVd~g~sgPvRC~RCkaYinPFmqF~~~gr~f~Cn~C~~ 368 (1007)
T KOG1984|consen 289 FMRCTMYTIPCTNDLLKASQIPLALVIQPFATLTPNEAPVPVVDLGESGPVRCNRCKAYINPFMQFIDGGRKFICNFCGS 368 (1007)
T ss_pred hheeecccCCccHhHHHhcCCcceeEecccccCCcccCCCceecCCCCCCcchhhhhhhcCcceEEecCCceEEecCCCc
Confidence 699999999999999999999999999999987665554 4444456679999999999999999985 7999999999
Q ss_pred CCCCChhhhc------ccCCCCCCcccccccEEEEecCCCCccccCCCCcEEEEEEECCCCh---hHHHHHHHHHHHHHH
Q 005362 79 LNGLSSQAIA------RYTHPQSCAEMISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSE---EFLELTRSALQAALE 149 (700)
Q Consensus 79 ~N~~p~~~~~------~~~~~~~~pEL~~~tve~~~p~~y~~~~~~~~~p~~vFvID~s~~~---~~l~~~~~~l~~~l~ 149 (700)
+|++|++|++ |+.|.++||||+.|+|||+++++|+.++..+.+|+|||+||||+.+ |...+++++|++.|+
T Consensus 369 ~n~vp~~yf~~L~~~grr~D~~erpEL~~Gt~dfvatk~Y~~~~k~p~ppafvFmIDVSy~Ai~~G~~~a~ce~ik~~l~ 448 (1007)
T KOG1984|consen 369 KNQVPDDYFNHLGPTGRRVDVEERPELCLGTVDFVATKDYCRKTKPPKPPAFVFMIDVSYNAISNGAVKAACEAIKSVLE 448 (1007)
T ss_pred cccCChhhcccCCCcccccccccCchhcccccceeeehhhhhcCCCCCCceEEEEEEeehhhhhcchHHHHHHHHHHHHh
Confidence 9999999864 4456889999999999999999998776678899999999999986 889999999999999
Q ss_pred hCC---CCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccc-cCcc-CcCccchHhHHHHHHHHHHhcCC
Q 005362 150 AVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED-VMPL-SQFLAPVETFKENITSALETLRP 224 (700)
Q Consensus 150 ~lp---~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~-~~p~-~~~l~~l~~~~~~i~~ll~~l~~ 224 (700)
.++ ++++|||||||++|||||+++++.++.+ ++++|++| ++|+ ++++++..|++..|+.+|++|+.
T Consensus 449 ~lp~~~p~~~Vgivtfd~tvhFfnl~s~L~qp~m---------liVsdv~dvfvPf~~g~~V~~~es~~~i~~lLd~Ip~ 519 (1007)
T KOG1984|consen 449 DLPREEPNIRVGIVTFDKTVHFFNLSSNLAQPQM---------LIVSDVDDVFVPFLDGLFVNPNESRKVIELLLDSIPT 519 (1007)
T ss_pred hcCccCCceEEEEEEecceeEeeccCccccCceE---------EEeecccccccccccCeeccchHHHHHHHHHHHHhhh
Confidence 887 4799999999999999999998887766 35688999 5897 78999999999999999999999
Q ss_pred CCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCC-ccccccccCcccCCCcch
Q 005362 225 TTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAG-QLDTRRYGEQYASKGEDA 303 (700)
Q Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt~GpG-~l~~~~~~~~~~~~~~~~ 303 (700)
++...+ .++.++|+||++|..+|+.+- |||+++|++.+||.|.| +++.|++...+ ++++
T Consensus 520 mf~~sk------------~pes~~g~alqaa~lalk~~~-----gGKl~vF~s~Lpt~g~g~kl~~r~D~~l~---~t~k 579 (1007)
T KOG1984|consen 520 MFQDSK------------IPESVFGSALQAAKLALKAAD-----GGKLFVFHSVLPTAGAGGKLSNRDDRRLI---GTDK 579 (1007)
T ss_pred hhccCC------------CCchhHHHHHHHHHHHHhccC-----CceEEEEecccccccCcccccccchhhhh---cccc
Confidence 986543 367899999999999999873 28999999999999976 99988887766 6789
Q ss_pred hhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEeCCCC----CCchhHHHHHHhccCcc
Q 005362 304 DRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTD----DSTLPQDIYRMLSRPYA 379 (700)
Q Consensus 304 e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~~~----~~~l~~dl~~~l~~~~~ 379 (700)
|+.++.++++.|++||++|++.|+|||+|+++..|+|+|+++.+++.|||.+|+|..|. ..+|.+||.+.++++.|
T Consensus 580 ek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~vy~Y~~F~a~~D~~rl~nDL~~~vtk~~g 659 (1007)
T KOG1984|consen 580 EKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQVYKYYPFQALTDGPRLLNDLVRNVTKKQG 659 (1007)
T ss_pred hhhccCcchhHHHHHHHHHHHhCceEEEEEcccceeeeeeecccccccCceeEEecchhhcccHHHHHHHHHHhccccee
Confidence 99999999999999999999999999999999999999999999999999999999984 56899999999999999
Q ss_pred eeeEEEEecCCCceeeeeeeccccCCCCCcceeeeccCCCceEEEEEEEecCCCCCCCCCCCcEEEEEEeeeeccCcccc
Q 005362 380 FNCIMRLRTSSEFKPGHSYGHFFPDPQYENVQHIICCDSYATYAYDFDFANAAGFARHTSEQPMLQIAFQYTVVVPPEEL 459 (700)
Q Consensus 380 ~~a~~rvR~S~gl~i~~~~G~~~~~~~~~~~~~i~~~d~~~s~~~~~e~~~~~~l~~~~~~~~~iQ~a~lYt~~~g~~~~ 459 (700)
|+|+||||||.||++.+|||||..++. .-.+++.+|.|++++++|++++ +|+ .+..++||+|++||+.+|+||+
T Consensus 660 f~a~mrvRtStGirv~~f~Gnf~~~~~--tDiela~lD~dkt~~v~fkhDd--kLq--~~s~~~fQ~AlLYTti~G~RR~ 733 (1007)
T KOG1984|consen 660 FDAVMRVRTSTGIRVQDFYGNFLMRNP--TDIELAALDCDKTLTVEFKHDD--KLQ--DGSDVHFQTALLYTTIDGQRRL 733 (1007)
T ss_pred eeeEEEEeecCceeeeeeechhhhcCC--CCccccccccCceeEEEEeccc--ccc--CCcceeEEEEEEEeccCCceeE
Confidence 999999999999999999999998752 3357899999999999888764 885 4778999999999999999999
Q ss_pred ch------------hhHHH-------------HHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCcccccc
Q 005362 460 SS------------EGLGS-------------VILASLEQGVREGRMLLHDWLVILTAQYNEAFKLVQHNIGNSVTSQID 514 (700)
Q Consensus 460 ~~------------~~~~~-------------~~~~~~~~~~~~~r~~l~~~li~~l~~yr~~~~~~~~~~~~~~~~ql~ 514 (700)
|+ +++++ |+....++.++++|+.+.++|+++|++|||.|++. ++.+||+
T Consensus 734 Rv~Nlsl~~ts~l~~lyr~~~~d~l~a~maK~a~~~i~~~~lk~vre~l~~~~~~iL~~YRk~cas~------~ssgQLI 807 (1007)
T KOG1984|consen 734 RVLNLSLAVTSQLSELYRSADTDPLIAIMAKQAAKAILDKPLKEVREQLVSQCAQILASYRKNCASP------ASSGQLI 807 (1007)
T ss_pred EEEecchhhhhhHHHHHHhcCccHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHhhcCC------CCcccEe
Confidence 84 22222 44445678899999999999999999999999853 3568886
Q ss_pred ccccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHhhccCChHHHHhhhccceEeeccCCCCC-----CCC-C
Q 005362 515 VEFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALEPSSLQRAVYPLLTSYSTPDKQA-----FPR-H 588 (700)
Q Consensus 515 l~f~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~Der~~~~~~l~~~~~~~~~~~iyP~L~~~~~~~~~~-----~p~-~ 588 (700)
|||+||+||+|+++++||.+|++ .+ ++.|+|+|.+.++.++++++++.++||||+++|+.+.+. .|. .
T Consensus 808 ----LPeslKLlPly~la~lKs~~l~~-~~-~~~DdRi~~~~~v~sl~v~~~~~~~YPrl~p~hdl~i~dtl~~~~p~~V 881 (1007)
T KOG1984|consen 808 ----LPESLKLLPLYMLALLKSSALRP-QE-IRTDDRIYQLQLVTSLSVEQLMPFFYPRLLPFHDLDIEDTLEFVLPKAV 881 (1007)
T ss_pred ----chhhhHHHHHHHHHHHHhhcccc-cc-cccchhHHHHHHhhcccHHhhhhhhccceeeeeccccccccccccccce
Confidence 79999999999999999999998 33 899999999999999999999999999999999975432 121 1
Q ss_pred ccchhhhccCCCcEEEEecCceEEEEEecCCCCCCC---------------------CCCCccHHHHHHHHHHHHhcCCC
Q 005362 589 SLSRAALITSGSPIFLLDAFTTIIVFYSSTADPTLP---------------------FPPPQDCLLRTTINKMKQERSIT 647 (700)
Q Consensus 589 ~L~~~~~~~~~~~i~LlD~~~~i~i~~g~~~~~~~~---------------------~~~~~~~~~~~~i~~l~~~R~~~ 647 (700)
.++.+ .+++++|||||+|..+|||+|+++++.++ ++++.+..+|+++..|++.|...
T Consensus 882 raS~e--~l~negiYll~nG~~~ylwvg~sv~~~llQ~lf~V~s~~~i~s~~~~Lpe~dn~lS~k~r~~i~~i~~~r~~~ 959 (1007)
T KOG1984|consen 882 RASSE--FLSNEGIYLLDNGQKIYLWVGESVDPDLLQDLFSVSSFEQIDSQSGVLPELDNPLSRKVRNVISLIRRQRSSE 959 (1007)
T ss_pred ecchh--hccCCceEEEecCcEEEEEecCCCCHHHHHHHhcCccccccccccccccccCcHHHHHHHHHHHHHHhccccc
Confidence 23333 35899999999999999999999998653 24566788999999999999999
Q ss_pred CeEEEEeCCCCcH-HHHHhhccCCCCCCCCCCCCCCcHHHHHHHHHHHHHHhh
Q 005362 648 PKLIFIRGGQDDA-TIFENYLIEEQDVDGSGLTSVMGFVSFLEEISQSVVEYM 699 (700)
Q Consensus 648 p~~~vv~~g~~~~-~~f~~~LvED~~~~~~~~~~~~sy~~fl~~lh~~i~~~~ 699 (700)
.+++++++|.+.. .+|.++|+||+..+ .+||+||||.||++|+++|
T Consensus 960 l~v~~~k~g~~~~~~~~~~~lved~~~~------~~sY~dyL~~~H~ki~~~l 1006 (1007)
T KOG1984|consen 960 LPVVLVKQGLDGSEVEFSEYLVEDRGRN------ISSYVDYLCELHKKIQQKL 1006 (1007)
T ss_pred cccEEEecCCCchhhhhhhhhhcccccC------ccccchHHHHHHHHHHhhc
Confidence 9999999998765 68899999999986 4899999999999999986
No 3
>PLN00162 transport protein sec23; Provisional
Probab=100.00 E-value=1.3e-119 Score=1042.68 Aligned_cols=652 Identities=23% Similarity=0.330 Sum_probs=552.1
Q ss_pred ccccccCcCCCCHHHHHhcCCceeeEEccCCCCCCCCCCCcccCCCCCCCcccCcceeEecCceEec--ceEEEccCCCC
Q 005362 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGSL 79 (700)
Q Consensus 2 ~vR~T~~~~P~~~~~~~~~~lP~g~~v~Pf~~~~~~~~~p~~~~~~~~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~ 79 (700)
|||+|||+||.|+.++++++|||||+|+||++.++ +|++ .+.|+||++|+|||||||+|+. ++|+||||+..
T Consensus 11 gvR~s~n~~P~t~~~~~~~~iPlg~v~tPl~~~~~---vp~v---~~~pvRC~~CraylNPf~~~d~~~~~W~C~~C~~~ 84 (761)
T PLN00162 11 GVRMSWNVWPSSKIEASKCVIPLAALYTPLKPLPE---LPVL---PYDPLRCRTCRAVLNPYCRVDFQAKIWICPFCFQR 84 (761)
T ss_pred ceEeeeecCCCCHHHHhcCCCCeEEEEecCCcCCC---CCcC---CCCCCccCCCcCEECCceEEecCCCEEEccCCCCC
Confidence 79999999999999999999999999999988654 3443 3579999999999999999984 79999999999
Q ss_pred CCCChhhhcccCCCCCCccc--ccccEEEEecCCCCccccCCCCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCCCcEE
Q 005362 80 NGLSSQAIARYTHPQSCAEM--ISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSEEFLELTRSALQAALEAVPSGALF 157 (700)
Q Consensus 80 N~~p~~~~~~~~~~~~~pEL--~~~tve~~~p~~y~~~~~~~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~lp~~~~v 157 (700)
|++|++|.. ..+.+.+||| +++||||++|+ |..+ ++.||+|+||||+|..+.+++.++++|+++|+.||++++|
T Consensus 85 N~~P~~Y~~-~~~~~~p~EL~p~~~TvEY~~p~-~~~~--~~~pp~fvFvID~s~~~~~l~~lk~sl~~~L~~LP~~a~V 160 (761)
T PLN00162 85 NHFPPHYSS-ISETNLPAELFPQYTTVEYTLPP-GSGG--APSPPVFVFVVDTCMIEEELGALKSALLQAIALLPENALV 160 (761)
T ss_pred CCCchHhcc-cCccCCChhhcCCceeEEEECCC-CCCC--CCCCcEEEEEEecchhHHHHHHHHHHHHHHHHhCCCCCEE
Confidence 999998642 2224567899 89999999997 6543 5678999999999999999999999999999999999999
Q ss_pred EEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccccc-----------------------Ccc-CcCccchHhHHH
Q 005362 158 GLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV-----------------------MPL-SQFLAPVETFKE 213 (700)
Q Consensus 158 giItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~-----------------------~p~-~~~l~~l~~~~~ 213 (700)
||||||+.||||+|+.......++|.+ +. ++...++++. .|. ++||+|++||+.
T Consensus 161 GlITF~s~V~~~~L~~~~~~~~~Vf~g-~k-~~t~~~l~~~l~l~~~~~~~~~~~~~~~~~~~~~p~~~~fLvpl~e~~~ 238 (761)
T PLN00162 161 GLITFGTHVHVHELGFSECSKSYVFRG-NK-EVSKDQILEQLGLGGKKRRPAGGGIAGARDGLSSSGVNRFLLPASECEF 238 (761)
T ss_pred EEEEECCEEEEEEcCCCCCcceEEecC-Cc-cCCHHHHHHHhccccccccccccccccccccccCCCccceeEEHHHHHH
Confidence 999999999999998766545566542 22 2222222221 233 689999999999
Q ss_pred HHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCcccccccc
Q 005362 214 NITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYG 293 (700)
Q Consensus 214 ~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt~GpG~l~~~~~~ 293 (700)
.|+++|++|+++ .|+.+++ .++.||+|+||++|..+|+..+++ .||||++|++|+||.|||+|+.++.+
T Consensus 239 ~i~~lLe~L~~~-~~~~~~~--------~rp~r~tG~AL~vA~~lL~~~~~~--~gGrI~~F~sgppT~GpG~v~~r~~~ 307 (761)
T PLN00162 239 TLNSALEELQKD-PWPVPPG--------HRPARCTGAALSVAAGLLGACVPG--TGARIMAFVGGPCTEGPGAIVSKDLS 307 (761)
T ss_pred HHHHHHHhhhcc-ccccCCC--------CCCCccHHHHHHHHHHHHhhccCC--CceEEEEEeCCCCCCCCceeeccccc
Confidence 999999999988 4655443 247899999999999999966432 26999999999999999999999999
Q ss_pred CcccCCCc--chhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEeCCCCCCchhHHHH
Q 005362 294 EQYASKGE--DADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIY 371 (700)
Q Consensus 294 ~~~~~~~~--~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~~~~~~l~~dl~ 371 (700)
+.+|++.. +.+.++++++.+||++||.+|+++||+||+|+++.+|+|++||+.|++.|||.+++|++|+.++|.++|+
T Consensus 308 ~~~rsh~di~k~~~~~~~~a~~fY~~la~~~~~~gisvDlF~~s~dqvglaem~~l~~~TGG~v~~~~sF~~~~f~~~l~ 387 (761)
T PLN00162 308 EPIRSHKDLDKDAAPYYKKAVKFYEGLAKQLVAQGHVLDVFACSLDQVGVAEMKVAVERTGGLVVLAESFGHSVFKDSLR 387 (761)
T ss_pred ccccCccccccchhhhcchHHHHHHHHHHHHHHcCceEEEEEccccccCHHHHhhhHhhcCcEEEEeCCcChHHHHHHHH
Confidence 99988653 3456899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhccC------cceeeEEEEecCCCceeeeeeeccccCCCC-------------CcceeeeccCCCceEEEEEEEecCC
Q 005362 372 RMLSRP------YAFNCIMRLRTSSEFKPGHSYGHFFPDPQY-------------ENVQHIICCDSYATYAYDFDFANAA 432 (700)
Q Consensus 372 ~~l~~~------~~~~a~~rvR~S~gl~i~~~~G~~~~~~~~-------------~~~~~i~~~d~~~s~~~~~e~~~~~ 432 (700)
|+|+|+ +||+|+||||||+||+|+++||||+...+. .+.|.++.+|+++|++|.|++++..
T Consensus 388 r~~~r~~~~~~~~gf~a~~~VrtS~glkv~g~~G~~~s~~~~~~~vsd~~iG~g~T~~w~l~~l~~~~t~av~f~~~~~~ 467 (761)
T PLN00162 388 RVFERDGEGSLGLSFNGTFEVNCSKDVKVQGAIGPCASLEKKGPSVSDTEIGEGGTTAWKLCGLDKKTSLAVFFEVANSG 467 (761)
T ss_pred HHhcccccccccccceeEEEEEecCCeEEeeeEcCcccccccCCccccccccCCCCceeeecCcCcCCEEEEEEEEcccc
Confidence 999974 799999999999999999999999752221 2458999999999999999998753
Q ss_pred ---CCCCCCCCCcEEEEEEeeeeccCccccch--------------hhHHH-------------HHHHHhhCCHHHHHHH
Q 005362 433 ---GFARHTSEQPMLQIAFQYTVVVPPEELSS--------------EGLGS-------------VILASLEQGVREGRML 482 (700)
Q Consensus 433 ---~l~~~~~~~~~iQ~a~lYt~~~g~~~~~~--------------~~~~~-------------~~~~~~~~~~~~~r~~ 482 (700)
++. ....+|||+|++||+..|+||+|+ +++++ ++.++.++.+.|+|+|
T Consensus 468 ~~~~~~--~~~~~~iQ~a~lYt~~~G~rRiRV~T~~~~~~~~~~~~~v~~~fDqeA~a~llaR~av~k~~~~~~~d~~r~ 545 (761)
T PLN00162 468 QSNPQP--PGQQFFLQFLTRYQHSNGQTRLRVTTVTRRWVEGSSSEELVAGFDQEAAAVVMARLASHKMETEEEFDATRW 545 (761)
T ss_pred ccCCCC--CCceEEEEEEEEEEcCCCCEEEEEEccccCccCCCCHHHHHHhcCHHHHHHHHHHHHHHHHhhCCHHHHHHH
Confidence 222 346799999999999999999874 12222 4445667888999999
Q ss_pred HHHHHHHHHHHHHHHhhhhcccCCCCccccccccccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHhhccCC
Q 005362 483 LHDWLVILTAQYNEAFKLVQHNIGNSVTSQIDVEFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALE 562 (700)
Q Consensus 483 l~~~li~~l~~yr~~~~~~~~~~~~~~~~ql~l~f~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~Der~~~~~~l~~~~ 562 (700)
|+++|++++..|..+.+ ++|+ +|.||++|++||+|||+|+||++|+.++ +|||||+|+|+.+++++
T Consensus 546 ld~~li~~~~~f~~Yrk----~~~~--------s~~Lp~~~~~lP~f~~~LrRS~~l~~~n--~spDera~~r~~l~~~~ 611 (761)
T PLN00162 546 LDRALIRLCSKFGDYRK----DDPS--------SFRLSPNFSLYPQFMFNLRRSQFVQVFN--NSPDETAYFRMMLNREN 611 (761)
T ss_pred HHHHHHHHHHHHhhhcc----cCCc--------cccCCHHHHHHHHHHHHHhhhhhccCCC--CCchHHHHHHHHHhcCC
Confidence 99999999988877776 3443 4679999999999999999999999876 89999999999999999
Q ss_pred hHHHHhhhccceEeeccCCCCCCCCCccchhhhccCCCcEEEEecCceEEEEEecCCCCCCC--CC-CCccHHHHHHH--
Q 005362 563 PSSLQRAVYPLLTSYSTPDKQAFPRHSLSRAALITSGSPIFLLDAFTTIIVFYSSTADPTLP--FP-PPQDCLLRTTI-- 637 (700)
Q Consensus 563 ~~~~~~~iyP~L~~~~~~~~~~~p~~~L~~~~~~~~~~~i~LlD~~~~i~i~~g~~~~~~~~--~~-~~~~~~~~~~i-- 637 (700)
+++++.||||+|+++|... .|.+++++... +.+|+|||||+|++++||+|+.+.++.. ++ +|+++.+++++
T Consensus 612 ~~~sl~mI~P~L~sy~~~~---~P~pv~Ld~~s-i~~d~ilLLD~~f~vvi~~G~~ia~w~~~~~~~~~~~~~~~~~l~~ 687 (761)
T PLN00162 612 VTNSLVMIQPTLISYSFNG---PPEPVLLDVAS-IAADRILLLDSYFSVVIFHGSTIAQWRKAGYHNQPEHEAFAQLLEA 687 (761)
T ss_pred HHHHHHhhCCeEEEecCCC---CCcceecchhh-ccCCceEEEeCCCEEEEEecCcccchhhcCCCCCcchhhHHHHHHh
Confidence 9999999999999998632 36666666655 5899999999999999999999998654 54 66777666666
Q ss_pred -----HHHHHhcCCCCeEEEEeCCCCcHHHHHhhccCCCCC------CCCCC--CCCCcHHHHHHHHHHHHH
Q 005362 638 -----NKMKQERSITPKLIFIRGGQDDATIFENYLIEEQDV------DGSGL--TSVMGFVSFLEEISQSVV 696 (700)
Q Consensus 638 -----~~l~~~R~~~p~~~vv~~g~~~~~~f~~~LvED~~~------~~~~~--~~~~sy~~fl~~lh~~i~ 696 (700)
+.|.++|+|.|++++++||++|+|+++++|.+..+. +|+.. +.+.|+..|+.||+|.+.
T Consensus 688 p~~~a~~~~~~Rfp~Pr~i~~~~~~SqaRfl~~klnPs~~~~~~~~~~~~~~~~tdd~sl~~f~~~l~~~~v 759 (761)
T PLN00162 688 PQADAQAIIKERFPVPRLVVCDQHGSQARFLLAKLNPSATYNSANAMGGSDIIFTDDVSLQVFMEHLQRLAV 759 (761)
T ss_pred HHHHHHHHHhcCCCCCeEEEeCCCCcHHHHHHHhcCCcccccCCCCCCCCCeeecCCcCHHHHHHHHHHHhc
Confidence 577889999999999999999999999999997432 12222 789999999999999775
No 4
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=100.00 E-value=4.8e-115 Score=935.47 Aligned_cols=628 Identities=22% Similarity=0.411 Sum_probs=544.2
Q ss_pred ccccccCcCCCCHHHHHhcCCceeeEEccCCCCCCCCCCCcccCCCCCCCcccCcceeEecCceEec--ceEEEccCCCC
Q 005362 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGSL 79 (700)
Q Consensus 2 ~vR~T~~~~P~~~~~~~~~~lP~g~~v~Pf~~~~~~~~~p~~~~~~~~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~ 79 (700)
+||+|+|++|.+.+++++++||||+|++||.+..+.+.+++ ...+..|+||++||+|+|||.+|+. ++|+||+|+.+
T Consensus 152 yvrsT~yaiP~t~dl~~~skiPfgLVI~Pf~~l~~e~~~vp-l~~d~~ivRCrrCrsYiNPfv~fi~~g~kw~CNiC~~k 230 (861)
T COG5028 152 YVRSTMYAIPETNDLLKKSKIPFGLVIRPFLELYPEEDPVP-LVEDGSIVRCRRCRSYINPFVQFIEQGRKWRCNICRSK 230 (861)
T ss_pred HHHHHHhhCCCchhHHHhcCCCceEEeehhhhcCccCCCCc-cCCCCcchhhhhhHhhcCceEEEecCCcEEEEeecccc
Confidence 68999999999999999999999999999999866444333 3345569999999999999999984 69999999999
Q ss_pred CCCChhhh-c-----ccCCCCCCcccccccEEEEecCCCCccccCCCCcEEEEEEECCCCh---hHHHHHHHHHHHHHHh
Q 005362 80 NGLSSQAI-A-----RYTHPQSCAEMISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSE---EFLELTRSALQAALEA 150 (700)
Q Consensus 80 N~~p~~~~-~-----~~~~~~~~pEL~~~tve~~~p~~y~~~~~~~~~p~~vFvID~s~~~---~~l~~~~~~l~~~l~~ 150 (700)
|++|.++. . ++.++++||||.+++|||++|++|+.+ .+.||+|||+||||.++ |.+.++..+|++.|+.
T Consensus 231 N~vp~~~~~~~~~~~~r~d~~~r~El~~~vvdf~ap~~Y~~~--~p~P~~yvFlIDVS~~a~~~g~~~a~~r~Il~~l~~ 308 (861)
T COG5028 231 NDVPEGFDNPSGPNDPRSDRYSRPELKSGVVDFLAPKEYSLR--QPPPPVYVFLIDVSFEAIKNGLVKAAIRAILENLDQ 308 (861)
T ss_pred ccCcccccCcCCCCCccccccccchhhceeeEEecccceeec--cCCCCEEEEEEEeehHhhhcchHHHHHHHHHhhccC
Confidence 99998764 1 233477899999999999999999876 35599999999999986 8888889999999887
Q ss_pred CC---CCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccc-cCcc--CcCccchHhHHHHHHHHHHhcCC
Q 005362 151 VP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED-VMPL--SQFLAPVETFKENITSALETLRP 224 (700)
Q Consensus 151 lp---~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~-~~p~--~~~l~~l~~~~~~i~~ll~~l~~ 224 (700)
+| +++|||||.||++||||+++.+.. ..+..+.|+|+ ++|. +.|++|+++|+..++.||+.++.
T Consensus 309 ~~~~dpr~kIaii~fD~sl~ffk~s~d~~----------~~~~~vsdld~pFlPf~s~~fv~pl~~~k~~~etLl~~~~~ 378 (861)
T COG5028 309 IPNFDPRTKIAIICFDSSLHFFKLSPDLD----------EQMLIVSDLDEPFLPFPSGLFVLPLKSCKQIIETLLDRVPR 378 (861)
T ss_pred CCCCCCcceEEEEEEcceeeEEecCCCCc----------cceeeecccccccccCCcchhcccHHHHHHHHHHHHHHhhh
Confidence 75 689999999999999999977651 11245788998 4887 47999999999999999999999
Q ss_pred CCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchh
Q 005362 225 TTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDAD 304 (700)
Q Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e 304 (700)
++.... .++.|+|+||++|..+++.+| |||++|.+++||.|.|+|..|++ +|
T Consensus 379 If~d~~------------~pk~~~G~aLk~a~~l~g~~G------Gkii~~~stlPn~G~Gkl~~r~d----------~e 430 (861)
T COG5028 379 IFQDNK------------SPKNALGPALKAAKSLIGGTG------GKIIVFLSTLPNMGIGKLQLRED----------KE 430 (861)
T ss_pred hhcccC------------CCccccCHHHHHHHHHhhccC------ceEEEEeecCCCccccccccccc----------ch
Confidence 975532 367899999999999999887 89999999999999999987764 45
Q ss_pred hccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEeCCCCCCc------hhHHHHHHhccCc
Q 005362 305 RALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDST------LPQDIYRMLSRPY 378 (700)
Q Consensus 305 ~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~~~~~~------l~~dl~~~l~~~~ 378 (700)
+.++.+.+.|||++|.+|++.||+||+|+++.+|+|++|++.|++.|||.+++|+.|+..+ |.+||.++++++.
T Consensus 431 ~~ll~c~d~fYk~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~~Yp~f~~~~~~d~~kl~~dL~~~ls~~~ 510 (861)
T COG5028 431 SSLLSCKDSFYKEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTYFYPNFSATRPNDATKLANDLVSHLSMEI 510 (861)
T ss_pred hhhccccchHHHHHHHHHHHhcceEEEEeccccccchhhhcchhhccCcceEEcCCcccCCchhHHHHHHHHHHhhhhhh
Confidence 6689999999999999999999999999999999999999999999999999999998665 9999999999999
Q ss_pred ceeeEEEEecCCCceeeeeeeccccCCCCCcceeeeccCCCceEEEEEEEecCCCCCCCCCCCcEEEEEEeeeeccCccc
Q 005362 379 AFNCIMRLRTSSEFKPGHSYGHFFPDPQYENVQHIICCDSYATYAYDFDFANAAGFARHTSEQPMLQIAFQYTVVVPPEE 458 (700)
Q Consensus 379 ~~~a~~rvR~S~gl~i~~~~G~~~~~~~~~~~~~i~~~d~~~s~~~~~e~~~~~~l~~~~~~~~~iQ~a~lYt~~~g~~~ 458 (700)
||+++||||||+|+++++||||++.++ .+++.++.+++|+|+.|+|.+++ ++. ...+|||.|++||+.+|+||
T Consensus 511 gy~~~~rvR~S~glr~s~fyGnf~~rs--~dl~~F~tm~rd~Sl~~~~sid~--~l~---~~~v~fQvAlL~T~~~GeRR 583 (861)
T COG5028 511 GYEAVMRVRCSTGLRVSSFYGNFFNRS--SDLCAFSTMPRDTSLLVEFSIDE--KLM---TSDVYFQVALLYTLNDGERR 583 (861)
T ss_pred hhheeeEeeccCceehhhhhccccccC--cccccccccCCCceEEEEEEecc--ccc---CCceEEEEEEEeeccCCceE
Confidence 999999999999999999999999987 67888999999999999999976 553 48999999999999999999
Q ss_pred cch------------hhHHH-------------HHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCccccc
Q 005362 459 LSS------------EGLGS-------------VILASLEQGVREGRMLLHDWLVILTAQYNEAFKLVQHNIGNSVTSQI 513 (700)
Q Consensus 459 ~~~------------~~~~~-------------~~~~~~~~~~~~~r~~l~~~li~~l~~yr~~~~~~~~~~~~~~~~ql 513 (700)
+|+ +++++ |+.++.+..++++|+.+...++++|+.|||.++.. + +.+|+
T Consensus 584 iRVvn~s~~~ss~~~evyasadq~aIa~~lak~a~~~~~~~s~~~~r~~i~~s~~~IL~~Ykk~~~~s--n----t~tql 657 (861)
T COG5028 584 IRVVNLSLPTSSSIREVYASADQLAIACILAKKASTKALNSSLKEARVLINKSMVDILKAYKKELVKS--N----TSTQL 657 (861)
T ss_pred EEEEEeccccchhHHHHHHhccHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhc--c----CCccc
Confidence 984 22222 44556667899999999999999999999987743 2 34555
Q ss_pred cccccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHhhccCChHHHHhhhccceEeeccCCCC-CCC------
Q 005362 514 DVEFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALEPSSLQRAVYPLLTSYSTPDKQ-AFP------ 586 (700)
Q Consensus 514 ~l~f~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~Der~~~~~~l~~~~~~~~~~~iyP~L~~~~~~~~~-~~p------ 586 (700)
+||++|++||++|++|+||.+||.+. ++.|+|++....+.++++.++++.|||+||++|++.++ +.|
T Consensus 658 ----~Lp~nL~lLPll~lal~Ks~~~rs~~--~~sD~r~~~L~~l~~~p~~~l~~~iYP~lyalHdm~~e~~l~~~~~~~ 731 (861)
T COG5028 658 ----PLPANLKLLPLLMLALLKSSAFRSGS--TPSDIRISALNRLTSLPLKQLMRNIYPTLYALHDMPIEAGLPDEGLLV 731 (861)
T ss_pred ----cchhhhHHHHHHHHHHhhhcccccCC--CccchhHHHHHHhhcCCHHHHHHhhccceeeecccccccCCCcccccc
Confidence 57999999999999999999999654 89999999999999999999999999999999987432 222
Q ss_pred --C-CccchhhhccCCCcEEEEecCceEEEEEecCCCCCCC------------------C---CCCccHHHHHHHHHHHH
Q 005362 587 --R-HSLSRAALITSGSPIFLLDAFTTIIVFYSSTADPTLP------------------F---PPPQDCLLRTTINKMKQ 642 (700)
Q Consensus 587 --~-~~L~~~~~~~~~~~i~LlD~~~~i~i~~g~~~~~~~~------------------~---~~~~~~~~~~~i~~l~~ 642 (700)
. ..++.+. ++.+|+||+|+|.++|+|+|+++.+.++ + .++.|++++++|+++|+
T Consensus 732 ~~~piNaT~s~--le~~GlYLidtg~~iflw~g~d~~p~Ll~dlf~~~~~~~I~~~k~~~p~~~n~~n~~v~~iI~~lrs 809 (861)
T COG5028 732 LPSPINATSSL--LESGGLYLIDTGQKIFLWFGKDAVPSLLQDLFGVDSLSDIPSGKFTLPPTGNEFNERVRNIIGELRS 809 (861)
T ss_pred cccchhhhHHH--HhcCCeEEEEcCCEEEEEecCCCCHHHHHHhcCcchhhhccccccccCCcCCHHHHHHHHHHHHHHh
Confidence 1 1233333 4799999999999999999999998763 1 25778999999999998
Q ss_pred -hcCCCCeEEEEeCCCCc--HHHHHhhccCCCCCCCCCCCCCCcHHHHHHHHHHHHHH
Q 005362 643 -ERSITPKLIFIRGGQDD--ATIFENYLIEEQDVDGSGLTSVMGFVSFLEEISQSVVE 697 (700)
Q Consensus 643 -~R~~~p~~~vv~~g~~~--~~~f~~~LvED~~~~~~~~~~~~sy~~fl~~lh~~i~~ 697 (700)
.+..++++++||+|.++ +-+|+++||||+..+ .+||.|||+.+|++|++
T Consensus 810 ~~~~~tl~lvlVR~~~d~s~~~~~~s~lVEDk~~n------~~SY~~yL~~lh~ki~~ 861 (861)
T COG5028 810 VNDDSTLPLVLVRGGGDPSLRLWFFSTLVEDKTLN------IPSYLDYLQILHEKIKS 861 (861)
T ss_pred hCCCCccceEEEecCCCcchhhheehheecccccC------CccHHHHHHHHHHHhcC
Confidence 67777789999998654 568999999999985 59999999999999974
No 5
>PTZ00395 Sec24-related protein; Provisional
Probab=100.00 E-value=1.1e-113 Score=971.92 Aligned_cols=640 Identities=18% Similarity=0.270 Sum_probs=531.8
Q ss_pred ccccccCcCCCCHHHHHhcCCceeeEEccCCCCCCCCCCCcccC--------CCCCCCcccCcceeEecCceEe-cceEE
Q 005362 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGS--------DGHMLPRCENCYAYFNTYCELE-QWAWT 72 (700)
Q Consensus 2 ~vR~T~~~~P~~~~~~~~~~lP~g~~v~Pf~~~~~~~~~p~~~~--------~~~~~~RC~~C~ayiNp~~~~~-~~~w~ 72 (700)
+||+|||.+|.+.++++.++||||++++||+...+.+.+|.++. .+..|+||.+|++|+|+++.++ ..+++
T Consensus 654 ~~r~tmY~iP~~~~~~~~~~iP~gi~v~Pfa~~~~~e~~~~~~~~~~~~d~~~~~~~~rc~~c~~y~~~~~~~~~~~~~~ 733 (1560)
T PTZ00395 654 FLKSTLYQIPLFSETLKLSQIPFGIIVNPFACLNEGEGIDKIDMKDIINDKEENIEILRCPKCLGYLHATILEDISSSVQ 733 (1560)
T ss_pred hhhhhhhcCcchHHHHHhcCCCceeecchhhhcCCCCCCcccchhhcccchhhccceeecchhHhhhcchheecccceEE
Confidence 68999999999999999999999999999999877666555432 2457899999999999999887 58999
Q ss_pred EccCCCCCCCChhh---hcccCC--------CC----CCcccccccEEEEecCCCCcc----------------------
Q 005362 73 CSLCGSLNGLSSQA---IARYTH--------PQ----SCAEMISSFIDLDLPLEGSEE---------------------- 115 (700)
Q Consensus 73 C~~C~~~N~~p~~~---~~~~~~--------~~----~~pEL~~~tve~~~p~~y~~~---------------------- 115 (700)
|+||+..+.+.+.. +.+|+. .. -.--|.+|+||+++|+-|..+
T Consensus 734 c~~c~~~~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 813 (1560)
T PTZ00395 734 CVFCDTDFLINENVLFDIFQYNEKIGHKESDHNEHGNSLSPLLKGSVDIIIPPIYYHNVNKFKLTYTYLNKNINQTAFMI 813 (1560)
T ss_pred EEecCCcchhhHHHHHHHHHHhhhhccccccccccccccchhhcCceeEEccchhhccCCccceeeehhhcchhhhhhhh
Confidence 99999999986541 112321 11 122466899999998644110
Q ss_pred --------------------------------------------------------------------------------
Q 005362 116 -------------------------------------------------------------------------------- 115 (700)
Q Consensus 116 -------------------------------------------------------------------------------- 115 (700)
T Consensus 814 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 893 (1560)
T PTZ00395 814 TNKIMSFTKHISNSLVANDSKGGNKATSASAFGDSGDANFLAGGGYTNYGGAGGYNTYDNQSGYNNHDVVNNRGGSGAGN 893 (1560)
T ss_pred hhhhhhhhhhhcchheecccccccccchhhhcccccccccccccccccccccccccccccccccccccccccccccCcCc
Confidence
Q ss_pred -----------------------------------------------------ccCCCCcEEEEEEECCCCh---hHHHH
Q 005362 116 -----------------------------------------------------ETMQARPVYVAAVDLSSSE---EFLEL 139 (700)
Q Consensus 116 -----------------------------------------------------~~~~~~p~~vFvID~s~~~---~~l~~ 139 (700)
-..+.||+|+||||||..+ |++.+
T Consensus 894 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~PP~YvFLIDVS~~AVkSGLl~t 973 (1560)
T PTZ00395 894 HLYGKDHDVQNFDNVMDNANFTIHDMKNLICEKNGEPDSAKIRRNSFLAKYPQVKNMLPPYFVFVVECSYNAIYNNITYT 973 (1560)
T ss_pred ccccCcccccchhhhccCCceeeecchhhhhcccCCchhhhhhccchhhccccccCCCCCEEEEEEECCHHHHhhChHHH
Confidence 0014679999999999986 99999
Q ss_pred HHHHHHHHHHhCC-CCcEEEEeeecceEEEEEccCCC-------------CceeeeeeCCCCCccccccccc-cCcc--C
Q 005362 140 TRSALQAALEAVP-SGALFGLATFSHKIGLYDVQGAI-------------PVVKNVFIPSDTEDTLSLELED-VMPL--S 202 (700)
Q Consensus 140 ~~~~l~~~l~~lp-~~~~vgiItf~~~V~~~~l~~~~-------------~~~~~~~~~~~~~~~~~~dl~~-~~p~--~ 202 (700)
++++|+++|+.++ +++||||||||++||||+|++.+ .++++ .+++||+| |+|+ +
T Consensus 974 acesIK~sLDsL~dpRTRVGIITFDSsLHFYNLks~l~~~~~~~~~~~~l~qPQM---------LVVSDLDDPFLPlP~d 1044 (1560)
T PTZ00395 974 ILEGIRYAVQNVKCPQTKIAIITFNSSIYFYHCKGGKGVSGEEGDGGGGSGNHQV---------IVMSDVDDPFLPLPLE 1044 (1560)
T ss_pred HHHHHHHHHhcCCCCCcEEEEEEecCcEEEEecCcccccccccccccccCCCceE---------EeecCCccCcCCCCcc
Confidence 9999999999986 67999999999999999997642 22333 46789999 5786 5
Q ss_pred cCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCC
Q 005362 203 QFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDH 282 (700)
Q Consensus 203 ~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt~ 282 (700)
++|+++.|+++.|+++|+.|+.++.... ..++|+|+||++|..+|+..|+ +|||++|++++|++
T Consensus 1045 dLLVnL~ESRevIe~LLDkLPemFt~t~------------~~esCLGSALqAA~~aLk~~GG----GGKIiVF~SSLPni 1108 (1560)
T PTZ00395 1045 DLFFGCVEEIDKINTLIDTIKSVSTTMQ------------SYGSCGNSALKIAMDMLKERNG----LGSICMFYTTTPNC 1108 (1560)
T ss_pred CeeechHHHHHHHHHHHHHHHHHhhccC------------CCcccHHHHHHHHHHHHHhcCC----CceEEEEEcCCCCC
Confidence 8999999999999999999998864331 2568999999999999999875 48999999999999
Q ss_pred CCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcC--hhhhhhcccccceEEEEeCC
Q 005362 283 GAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTD--LASLKFLSIESGGSLFLYSS 360 (700)
Q Consensus 283 GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~d--l~~l~~l~~~TGG~~~~y~~ 360 (700)
|||+|+.++. +.+|+.++.++++||++||.+|++++|+||+|+++..++| +++|+.|++.|||+++||+.
T Consensus 1109 GpGaLK~Re~--------~~KEk~Ll~pqd~FYK~LA~ECsk~qISVDLFLfSsqYvDVDVATLg~Lsr~TGGqlyyYPn 1180 (1560)
T PTZ00395 1109 GIGAIKELKK--------DLQENFLEVKQKIFYDSLLLDLYAFNISVDIFIISSNNVRVCVPSLQYVAQNTGGKILFVEN 1180 (1560)
T ss_pred CCCccccccc--------ccccccccccchHHHHHHHHHHHhcCCceEEEEccCcccccccccccchhcccceeEEEeCC
Confidence 9999986542 2456778899999999999999999999999999999876 79999999999999999999
Q ss_pred CCC----CchhHHHHHHhcc-CcceeeEEEEecCCCceeeeee--eccccCCCCCcceeeeccCCCceEEEEEEEecCCC
Q 005362 361 TDD----STLPQDIYRMLSR-PYAFNCIMRLRTSSEFKPGHSY--GHFFPDPQYENVQHIICCDSYATYAYDFDFANAAG 433 (700)
Q Consensus 361 ~~~----~~l~~dl~~~l~~-~~~~~a~~rvR~S~gl~i~~~~--G~~~~~~~~~~~~~i~~~d~~~s~~~~~e~~~~~~ 433 (700)
|+. .+|..||.+.|++ ++||+|+||||||+||+|+++| |+++.+....+++.+|.+++|++|+|+|++++ +
T Consensus 1181 Fna~rD~~KL~~DL~r~LTre~iGyEAVMRVRCS~GLrVs~fyG~GnnF~s~rStDLLaLP~Id~DqSfaVeLk~DE--k 1258 (1560)
T PTZ00395 1181 FLWQKDYKEIYMNIMDTLTSEDIAYCCELKLRYSHHMSVKKLFCCNNNFNSIISVDTIKIPKIRHDQTFAFLLNYSD--I 1258 (1560)
T ss_pred CcccccHHHHHHHHHHHhhccceeeEEEEEEECCCCeEEEEEeccCCccccccccccccccccCCCceEEEEEEecc--c
Confidence 964 4799999999997 6999999999999999999999 45553311246678999999999999999976 5
Q ss_pred CCCCCCCCcEEEEEEeeeeccCccccch------------hhHHH-------------HHHHHhhCCHHHHHHHHHHHHH
Q 005362 434 FARHTSEQPMLQIAFQYTVVVPPEELSS------------EGLGS-------------VILASLEQGVREGRMLLHDWLV 488 (700)
Q Consensus 434 l~~~~~~~~~iQ~a~lYt~~~g~~~~~~------------~~~~~-------------~~~~~~~~~~~~~r~~l~~~li 488 (700)
+. ....+|||+|+|||+..|+||+|+ +++++ ++.+++++ .++|+.|.++|+
T Consensus 1259 L~--~~~~AYFQaALLYTSssGERRIRVHTLALPVTSsLseVFrsADqdAIvslLAK~AV~~aLss--sdARe~L~dklV 1334 (1560)
T PTZ00395 1259 SE--SKKQIYFQCACIYTNLWGDRFVRLHTTHMNLTSSLSTVFRYTDAEALMNILIKQLCTNILHN--DNYSKIIIDNLA 1334 (1560)
T ss_pred cC--CCCcEEEEEEEeeccCCCcEEEEEEeeeecccCCHHHHHHhhcHHHHHHHHHHHHHHHhccc--HHHHHHHHHHHH
Confidence 53 356899999999999999999984 23332 33334444 489999999999
Q ss_pred HHHHHHHHHhhhhcccCCCCccccccccccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHhhccCChHHHHh
Q 005362 489 ILTAQYNEAFKLVQHNIGNSVTSQIDVEFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALEPSSLQR 568 (700)
Q Consensus 489 ~~l~~yr~~~~~~~~~~~~~~~~ql~l~f~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~Der~~~~~~l~~~~~~~~~~ 568 (700)
++|++||+.|++. ++.+||+ ||++||+||+|+++|+||++|+. + +++|+|+|.+++++++++..++.
T Consensus 1335 dILtaYRK~CAss------sssgQLI----LPESLKLLPLYILSLLKS~AfRt--~-I~sDeRVyaL~rL~SmPI~~Li~ 1401 (1560)
T PTZ00395 1335 AILFSYRINCASS------AHSGQLI----LPDTLKLLPLFTSSLLKHNVTKK--E-ILHDLKVYSLIKLLSMPIISSLL 1401 (1560)
T ss_pred HHHHHHHHHhhcc------CCCcccc----chhHHHHHHHHHHHHhccccccC--C-CCccHHHHHHHHHhCCCHHHHHh
Confidence 9999999999853 2357775 79999999999999999999984 3 88999999999999999999999
Q ss_pred hhccceEeeccCCCC----------C--CCCCccchhhhccCCCcEEEEecCceEEEEEecCCCCCCC---C--------
Q 005362 569 AVYPLLTSYSTPDKQ----------A--FPRHSLSRAALITSGSPIFLLDAFTTIIVFYSSTADPTLP---F-------- 625 (700)
Q Consensus 569 ~iyP~L~~~~~~~~~----------~--~p~~~L~~~~~~~~~~~i~LlD~~~~i~i~~g~~~~~~~~---~-------- 625 (700)
++||+||++|++... . +| +.+..+...+..+|+||||+|..+|||+|++++++++ |
T Consensus 1402 yLYPRLYpLHdL~~e~e~d~~d~d~~ivLP-p~LrLS~ErLesdGIYLLDNGe~IyLWVG~~V~PqLLqDLFGv~~~~~~ 1480 (1560)
T PTZ00395 1402 YVYPVMYVIHIKGKTNEIDSMDVDDDLFIP-KTIPSSAEKIYSNGIYLLDACTHFYLYFGFHSDANFAKEIVGDIPTEKN 1480 (1560)
T ss_pred hhcCceEEcccccccccCCccCCCCccccC-CcccchHHHhcCCcEEEEECCCEEEEEECCCCCHHHHHHHcCCCccccc
Confidence 999999999985110 1 12 1222233346899999999999999999999999763 2
Q ss_pred -------CCCccHHHHHHHHHHHHhc--CCCCeEEEEeCCCCcHHHHHhhccCCCCCCCCCCCCCCcHHHHHHHHHHHHH
Q 005362 626 -------PPPQDCLLRTTINKMKQER--SITPKLIFIRGGQDDATIFENYLIEEQDVDGSGLTSVMGFVSFLEEISQSVV 696 (700)
Q Consensus 626 -------~~~~~~~~~~~i~~l~~~R--~~~p~~~vv~~g~~~~~~f~~~LvED~~~~~~~~~~~~sy~~fl~~lh~~i~ 696 (700)
+++.+.++|+||+.||+.| ..++++++|+++++.|.+|+++||||+..+ .+||+||||+|||+|+
T Consensus 1481 ~~eLPelDT~iS~RVrnII~~LR~~r~~~~Y~pL~IVRqgDp~E~~F~s~LVEDRs~g------~~SYvDFLc~LHKqIq 1554 (1560)
T PTZ00395 1481 AHELNLTDTPNAQKVQRIIKNLSRIHHFNKYVPLVMVAPKSNEEEHLISLCVEDKADK------EYSYVNFLCFIHKLVH 1554 (1560)
T ss_pred cccccCCCCHHHHHHHHHHHHHHHhccCCCcceEEEEeCCCchHHHHHHhCeecCCCC------CCCHHHHHHHHHHHHH
Confidence 2345789999999999987 478889999999999999999999999864 5999999999999999
Q ss_pred HhhC
Q 005362 697 EYMK 700 (700)
Q Consensus 697 ~~~~ 700 (700)
++|.
T Consensus 1555 ~kld 1558 (1560)
T PTZ00395 1555 KRID 1558 (1560)
T ss_pred Hhcc
Confidence 9873
No 6
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=9.9e-106 Score=858.26 Aligned_cols=647 Identities=23% Similarity=0.342 Sum_probs=554.7
Q ss_pred ccccccCcCCCCHHHHHhcCCceeeEEccCCCCCCCCCCCcccCCCCCCCcccCcceeEecCceEec--ceEEEccCCCC
Q 005362 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGSL 79 (700)
Q Consensus 2 ~vR~T~~~~P~~~~~~~~~~lP~g~~v~Pf~~~~~~~~~p~~~~~~~~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~ 79 (700)
|||+|||+||.++....++.+|++++|+||.+.+. +|+ ..++|+||.+|+||+||||.+|- +.|.|+||...
T Consensus 11 GvR~twnvwPs~~~~~~~~vvPla~lytPl~e~~~---~~~---~~y~P~~C~~C~AvlNPyc~vd~~a~~W~CpfC~qr 84 (745)
T KOG1986|consen 11 GVRFTWNVWPSTRAEASRTVVPLACLYTPLKERPD---LPP---IQYDPLRCSKCGAVLNPYCSVDFRAKSWICPFCNQR 84 (745)
T ss_pred CcccccccCCCcccccccccccHHHhccccccCCC---CCc---cCCCCchhccchhhcCcceeecccCceEeccccccC
Confidence 79999999999999999999999999999986543 222 24789999999999999999994 68999999999
Q ss_pred CCCChhhhcccCCCCCCc-cc--ccccEEEEecCCCCccccCCCCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCCCcE
Q 005362 80 NGLSSQAIARYTHPQSCA-EM--ISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSEEFLELTRSALQAALEAVPSGAL 156 (700)
Q Consensus 80 N~~p~~~~~~~~~~~~~p-EL--~~~tve~~~p~~y~~~~~~~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~lp~~~~ 156 (700)
|.+|.+|.+-- ..+.| || +..+|||..++. ...||+|+||||++..+++|+.+|++|+.+|+.||+++.
T Consensus 85 N~~p~~Y~~is--~~n~P~el~Pq~stvEy~l~~~------~~~ppvf~fVvDtc~~eeeL~~LkssL~~~l~lLP~~al 156 (745)
T KOG1986|consen 85 NPFPPHYSGIS--ENNLPPELLPQYSTVEYTLSPG------RVSPPVFVFVVDTCMDEEELQALKSSLKQSLSLLPENAL 156 (745)
T ss_pred CCCChhhcccC--ccCCChhhcCCcceeEEecCCC------CCCCceEEEEEeeccChHHHHHHHHHHHHHHhhCCCcce
Confidence 99999843211 23455 88 689999999864 345899999999999999999999999999999999999
Q ss_pred EEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccccC--------------ccCcCccchHhHHHHHHHHHHhc
Q 005362 157 FGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVM--------------PLSQFLAPVETFKENITSALETL 222 (700)
Q Consensus 157 vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~~--------------p~~~~l~~l~~~~~~i~~ll~~l 222 (700)
||||||++.|++|+++.....+.+||.+ ++ ++....+.+.+ +.++||.|+++|...+.++|++|
T Consensus 157 vGlItfg~~v~v~el~~~~~sk~~VF~G-~k-e~s~~q~~~~L~~~~~~~~~~~~~~~~~rFL~P~~~c~~~L~~lle~L 234 (745)
T KOG1986|consen 157 VGLITFGTMVQVHELGFEECSKSYVFSG-NK-EYSAKQLLDLLGLSGGAGKGSENQSASNRFLLPAQECEFKLTNLLEEL 234 (745)
T ss_pred EEEEEecceEEEEEcCCCcccceeEEec-cc-cccHHHHHHHhcCCcccccCCcccccchhhhccHHHHHHHHHHHHHHh
Confidence 9999999999999999887778888874 22 23333333321 23579999999999999999999
Q ss_pred CCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCC-c
Q 005362 223 RPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKG-E 301 (700)
Q Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~-~ 301 (700)
.++ +|+++++. ++.||+|+||++|..||+.+.++. ++||++|++||||.|||.+.+++.++.+|++. .
T Consensus 235 ~~d-~wpV~~g~--------Rp~RcTG~Al~iA~~Ll~~c~p~~--g~rIv~f~gGPcT~GpG~vv~~el~~piRshhdi 303 (745)
T KOG1986|consen 235 QPD-PWPVPPGH--------RPLRCTGVALSIASGLLEGCFPNT--GARIVLFAGGPCTRGPGTVVSRELKEPIRSHHDI 303 (745)
T ss_pred cCC-CCCCCCCC--------CcccchhHHHHHHHHHhcccCCCC--cceEEEeccCCCCcCCceecchhhcCCCcCcccc
Confidence 998 79888764 477999999999999999876543 78999999999999999999999999999876 3
Q ss_pred ch-hhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEeCCCCCCchhHHHHHHhcc----
Q 005362 302 DA-DRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRMLSR---- 376 (700)
Q Consensus 302 ~~-e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~~~~~~l~~dl~~~l~~---- 376 (700)
++ .+.|++++.+||++||++++.+|.+||+|+++.+++|+++|++|++.|||.+...++|+.+.|+.+++|++++
T Consensus 304 ~~d~a~y~kKa~KfY~~La~r~~~~ghvlDifa~~lDQvGi~EMk~l~~~TGG~lvl~dsF~~s~Fk~sfqR~f~~d~~~ 383 (745)
T KOG1986|consen 304 EKDNAPYYKKAIKFYEKLAERLANQGHVLDIFAAALDQVGILEMKPLVESTGGVLVLGDSFNTSIFKQSFQRIFTRDGEG 383 (745)
T ss_pred cCcchHHHHHHHHHHHHHHHHHHhCCceEeeeeeeccccchHHHHHHhhcCCcEEEEecccchHHHHHHHHHHhcccccc
Confidence 33 4688999999999999999999999999999999999999999999999999999999999999999999994
Q ss_pred --CcceeeEEEEecCCCceeeeeeeccccCCCCC-------------cceeeeccCCCceEEEEEEEecCCCCCCCCCCC
Q 005362 377 --PYAFNCIMRLRTSSEFKPGHSYGHFFPDPQYE-------------NVQHIICCDSYATYAYDFDFANAAGFARHTSEQ 441 (700)
Q Consensus 377 --~~~~~a~~rvR~S~gl~i~~~~G~~~~~~~~~-------------~~~~i~~~d~~~s~~~~~e~~~~~~l~~~~~~~ 441 (700)
..||+|.|+|+||++++|++.+|++..-++++ .-|++..+++.+++++.||+.+....+ .+..
T Consensus 384 ~l~~~fn~~leV~tSkdlkI~g~IGp~~Sl~~k~~~vsdt~ig~g~t~~wkm~~ls~~t~~s~~fei~~~~~~~--~~~~ 461 (745)
T KOG1986|consen 384 DLKMGFNGTLEVKTSKDLKIQGVIGPCVSLNKKGPNVSDTEIGEGNTSAWKMCGLSPSTTLSLFFEISNQHNIP--QSGQ 461 (745)
T ss_pred chhhhcCceEEEEecCCcEEEecccccccccCCCCccccceeccccccceeeeccCCCceEEEEEEeccccCCC--CCCe
Confidence 47999999999999999999999998754422 248999999999999999998754322 3568
Q ss_pred cEEEEEEeeeeccCccccch-------------hhH-------HHH------HHHHhhCCHHHHHHHHHHHHHHHHHHHH
Q 005362 442 PMLQIAFQYTVVVPPEELSS-------------EGL-------GSV------ILASLEQGVREGRMLLHDWLVILTAQYN 495 (700)
Q Consensus 442 ~~iQ~a~lYt~~~g~~~~~~-------------~~~-------~~~------~~~~~~~~~~~~r~~l~~~li~~l~~yr 495 (700)
+||||++.|.+..|++++|+ ++. +.+ +.++.++...|+++|+++.+++++..|.
T Consensus 462 ~~iQFiT~Yq~s~g~~riRVtT~~r~~~d~~~~~i~~~FDqEaaAV~mAR~~~~kae~e~~~d~~rwlDr~Lirlc~kFg 541 (745)
T KOG1986|consen 462 GYIQFITQYQHSSGQKRIRVTTLARPWADSGSPEISQSFDQEAAAVLMARLALLKAETEDGPDVLRWLDRNLIRLCQKFG 541 (745)
T ss_pred eEEEEEEEEEcCCCcEEEEEEEeehhhccccchHhhhccchHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHHHHHh
Confidence 99999999999999988774 111 112 2234445567899999999999999999
Q ss_pred HHhhhhcccCCCCccccccccccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHhhccCChHHHHhhhccceE
Q 005362 496 EAFKLVQHNIGNSVTSQIDVEFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALEPSSLQRAVYPLLT 575 (700)
Q Consensus 496 ~~~~~~~~~~~~~~~~ql~l~f~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~Der~~~~~~l~~~~~~~~~~~iyP~L~ 575 (700)
.+.+ ++|+ +|.|+++|.++|+|||+||||++|+.+| .|||||+|++|+|.+.++.+++.||+|+|+
T Consensus 542 ~y~k----~dPs--------sf~l~~~fsl~PQfmfhLRRS~fLqvfN--nSPDEt~~yrhll~~e~v~~sliMIqP~L~ 607 (745)
T KOG1986|consen 542 DYRK----DDPS--------SFRLSPNFSLYPQFMFHLRRSPFLQVFN--NSPDETAYYRHLLNREDVDNSLIMIQPTLL 607 (745)
T ss_pred ccCC----CCch--------hhcCChhhhhhHHHHHhhccchhhhccC--CCcchHHHHHHHHhhccchhhhheecceee
Confidence 9998 7786 7899999999999999999999999998 799999999999999999999999999999
Q ss_pred eeccCCCCCCCCCccchhhhccCCCcEEEEecCceEEEEEecCCCCCCC--CC-CCccHHHHHHHH-------HHHHhcC
Q 005362 576 SYSTPDKQAFPRHSLSRAALITSGSPIFLLDAFTTIIVFYSSTADPTLP--FP-PPQDCLLRTTIN-------KMKQERS 645 (700)
Q Consensus 576 ~~~~~~~~~~p~~~L~~~~~~~~~~~i~LlD~~~~i~i~~g~~~~~~~~--~~-~~~~~~~~~~i~-------~l~~~R~ 645 (700)
+++... .|.++|.+..+ +..|.|+|||++++|+||.|..+.++.. ++ .|+++.++++++ +|..+|+
T Consensus 608 sySf~g---~~epvlLD~~S-i~~D~iLLlDt~f~i~i~hG~tIaqWR~~gy~~~pe~~~f~~LL~ap~~dA~el~~~RF 683 (745)
T KOG1986|consen 608 SYSFNG---PPEPVLLDVAS-ILADRILLLDTYFTIVIFHGSTIAQWRKAGYHEQPEYENFKELLEAPREDAQELLLERF 683 (745)
T ss_pred eeecCC---CCceeEecccc-cCCceEEEeecceEEEEECCchHHHHHhcccccChhhHHHHHHHHhHHHHHHHHHHhhC
Confidence 998744 25677888776 4889999999999999999999998764 43 788887777774 5668899
Q ss_pred CCCeEEEEeCCCCcHHHHHhhccCCCC-----CCCCCC---CCCCcHHHHHHHHHHHH
Q 005362 646 ITPKLIFIRGGQDDATIFENYLIEEQD-----VDGSGL---TSVMGFVSFLEEISQSV 695 (700)
Q Consensus 646 ~~p~~~vv~~g~~~~~~f~~~LvED~~-----~~~~~~---~~~~sy~~fl~~lh~~i 695 (700)
|.|++++++||++|+|++.+++++..+ ..|++. +.++|+.+|+.+|++.+
T Consensus 684 P~PR~v~~~q~GSQARFLlsklnPS~t~~~~~~~~~s~~I~TDDvSlq~fm~hLkkla 741 (745)
T KOG1986|consen 684 PMPRYVVTDQGGSQARFLLSKLNPSETHNNLTAHGGSSIILTDDVSLQVFMEHLKKLA 741 (745)
T ss_pred CCCeEEEecCCccHHHhhhhhcCcchhccchhhccCCCeeeeccccHHHHHHHHHhhc
Confidence 999999999999999999999999432 111122 67999999999998864
No 7
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=100.00 E-value=9.3e-99 Score=783.50 Aligned_cols=647 Identities=23% Similarity=0.346 Sum_probs=549.2
Q ss_pred ccccccCcCCCCHHHHHhcCCceeeEEccCCCCCCCCCCCcccCCCCCCCcccC-cceeEecCceEec--ceEEEccCCC
Q 005362 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCEN-CYAYFNTYCELEQ--WAWTCSLCGS 78 (700)
Q Consensus 2 ~vR~T~~~~P~~~~~~~~~~lP~g~~v~Pf~~~~~~~~~p~~~~~~~~~~RC~~-C~ayiNp~~~~~~--~~w~C~~C~~ 78 (700)
|||+|||+||.|+.+...+.+|++|+|+||++.+. .++ ..++|+.|.. |+||+||||.+|. +.|+|+||+.
T Consensus 11 gir~twnvfpat~~da~~~~iPia~lY~Pl~e~~~---~~v---~~yepv~C~~pC~avlnpyC~id~r~~~W~CpfCnq 84 (755)
T COG5047 11 GIRLTWNVFPATRGDATRTVIPIACLYTPLHEDDA---LTV---NYYEPVKCTAPCKAVLNPYCHIDERNQSWICPFCNQ 84 (755)
T ss_pred ceEEEEecccCCccccccccccHHHhccccccccc---cCc---ccCCCceecccchhhcCcceeeccCCceEecceecC
Confidence 79999999999999999999999999999987643 122 2478999999 9999999999995 5899999999
Q ss_pred CCCCChhhhcccCC--CCCCc-cc--ccccEEEEecCCCCccccCCCCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCC
Q 005362 79 LNGLSSQAIARYTH--PQSCA-EM--ISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSEEFLELTRSALQAALEAVPS 153 (700)
Q Consensus 79 ~N~~p~~~~~~~~~--~~~~p-EL--~~~tve~~~p~~y~~~~~~~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~lp~ 153 (700)
.|.+|+. |.+ ..+.| || ++.||||+.++. ...||+|+||||++...++|.++|++|...|..+|+
T Consensus 85 rn~lp~q----y~~iS~~~LplellpqssTiey~lskp------~~~ppvf~fvvD~~~D~e~l~~Lkdslivslsllpp 154 (755)
T COG5047 85 RNTLPPQ----YRDISNANLPLELLPQSSTIEYTLSKP------VILPPVFFFVVDACCDEEELTALKDSLIVSLSLLPP 154 (755)
T ss_pred CCCCChh----hcCCCcccCCccccCCCceEEEEccCC------ccCCceEEEEEEeecCHHHHHHHHHHHHHHHhcCCc
Confidence 9999998 544 34555 88 789999999874 456899999999999999999999999999999999
Q ss_pred CcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccccc---------------Cc------cCcCccchHhHH
Q 005362 154 GALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV---------------MP------LSQFLAPVETFK 212 (700)
Q Consensus 154 ~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~---------------~p------~~~~l~~l~~~~ 212 (700)
++.||||||++.|++|+++.....+++||.+. . ++....|++. ++ ..+|+.|+++|+
T Consensus 155 eaLvglItygt~i~v~el~ae~~~r~~VF~g~-~-eyt~~~L~~ll~~~~~~~~~~~es~is~~~~~~~~rFl~p~q~ce 232 (755)
T COG5047 155 EALVGLITYGTSIQVHELNAENHRRSYVFSGN-K-EYTKENLQELLALSKPTKSGGFESKISGIGQFASSRFLLPTQQCE 232 (755)
T ss_pred cceeeEEEecceeEEEeccccccCcceeecch-H-HHHHHHHHHHhcccCCCCcchhhhhcccccccchhhhhccHHHHH
Confidence 99999999999999999988776677888752 2 2322223221 11 124999999999
Q ss_pred HHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccc
Q 005362 213 ENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRY 292 (700)
Q Consensus 213 ~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt~GpG~l~~~~~ 292 (700)
..+.++|++|.++ .|+++++. ++.||+|+||.+|..+|+.+.++ .++||++|++||||.|||.+.+++.
T Consensus 233 ~~L~n~le~L~pd-~~~v~~~~--------Rp~RCTGsAl~ias~Ll~~~~p~--~~~~i~lF~~GPcTvGpG~Vvs~el 301 (755)
T COG5047 233 FKLLNILEQLQPD-PWPVPAGK--------RPLRCTGSALNIASSLLEQCFPN--AGCHIVLFAGGPCTVGPGTVVSTEL 301 (755)
T ss_pred HHHHHHHHHhCCC-CccCCCCC--------CCccccchhHHHHHHHHHhhccC--cceeEEEEcCCCccccCceeeehhh
Confidence 9999999999998 68877653 57899999999999999987654 4799999999999999999999999
Q ss_pred cCcccCCCc-ch-hhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEeCCCCCCchhHHH
Q 005362 293 GEQYASKGE-DA-DRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDI 370 (700)
Q Consensus 293 ~~~~~~~~~-~~-e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~~~~~~l~~dl 370 (700)
++.+|++.. +. .+++.+++.+||++||++.+.+|.++|+|+.+.+++|+.+|++|...|||.+...++|+.+.|++++
T Consensus 302 kEpmRshH~ie~d~aqh~kka~KFY~~laeR~a~~gh~~DifagcldqIGI~eM~~L~~sTgg~lvlsdsF~t~ifkqSf 381 (755)
T COG5047 302 KEPMRSHHDIESDSAQHSKKATKFYKGLAERVANQGHALDIFAGCLDQIGIMEMEPLTTSTGGALVLSDSFTTSIFKQSF 381 (755)
T ss_pred cccccccccccccchhhccchHHHHHHHHHHHhccchhHHHHHHHHHhhhhhcchhhccCCcceEEEeccccHHHHHHHH
Confidence 999998653 33 3789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhccC------cceeeEEEEecCCCceeeeeeeccccCCCCC-------------cceeeeccCCCceEEEEEEEecC
Q 005362 371 YRMLSRP------YAFNCIMRLRTSSEFKPGHSYGHFFPDPQYE-------------NVQHIICCDSYATYAYDFDFANA 431 (700)
Q Consensus 371 ~~~l~~~------~~~~a~~rvR~S~gl~i~~~~G~~~~~~~~~-------------~~~~i~~~d~~~s~~~~~e~~~~ 431 (700)
+|+|.++ .||+|.|+|.||+++++++++|+...-+++. +-|.+..+.|.+++++.||+..+
T Consensus 382 qrif~~d~~g~l~~gfNa~m~V~TsKnl~~~g~ig~a~~~~k~~~ni~~~eigi~~t~swkm~slsPk~nyal~fei~~~ 461 (755)
T COG5047 382 QRIFNRDSEGYLKMGFNANMEVKTSKNLKIKGLIGHAVSVKKKANNISDSEIGIGATNSWKMASLSPKSNYALYFEIALG 461 (755)
T ss_pred HHHhCcCcccchhhhhccceeEeeccCceeeeeecceeeecccccccccccccccccccccccccCCCcceEEEEEeccc
Confidence 9999885 6899999999999999999999988644321 24888999999999999999764
Q ss_pred CCCC-CCCCCCcEEEEEEeeeeccCccccchh-------------h-------HHHHHH------HHhhCCHHHHHHHHH
Q 005362 432 AGFA-RHTSEQPMLQIAFQYTVVVPPEELSSE-------------G-------LGSVIL------ASLEQGVREGRMLLH 484 (700)
Q Consensus 432 ~~l~-~~~~~~~~iQ~a~lYt~~~g~~~~~~~-------------~-------~~~~~~------~~~~~~~~~~r~~l~ 484 (700)
-+-. .+....+|+|+.+.|.++.|+-++|+. + ++.+++ ++..+...|..+|++
T Consensus 462 ~~~~~~~~~~~a~iQfiT~yQhss~t~riRVtTvar~f~~~~~p~i~~SFdqEaaaV~~aR~a~~K~~~ed~~Dv~rw~d 541 (755)
T COG5047 462 AASGSAQRPAEAYIQFITTYQHSSGTYRIRVTTVARMFTDGGLPKINRSFDQEAAAVFMARIAAFKAETEDIIDVFRWID 541 (755)
T ss_pred cCCCccCCcccchhhhhhhhhccCCcEEEEEeehhhhhccCCChhhhhcchhhHHHHHHHHHHHhhcccccchhHHHHHH
Confidence 3210 011357999999999999998777641 1 111222 233455778999999
Q ss_pred HHHHHHHHHHHHHhhhhcccCCCCccccccccccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHhhccCChH
Q 005362 485 DWLVILTAQYNEAFKLVQHNIGNSVTSQIDVEFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALEPS 564 (700)
Q Consensus 485 ~~li~~l~~yr~~~~~~~~~~~~~~~~ql~l~f~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~Der~~~~~~l~~~~~~ 564 (700)
+.++++++.|..+.+ ++|+ +|.|++++.++|+|||+|+|||+|+.+| .|||||++++|.+.+.+++
T Consensus 542 r~lirlcq~fa~y~k----~dps--------sfrl~~~f~lypqf~y~lrRSpfL~vfN--nSPDEt~fyrh~l~~~dv~ 607 (755)
T COG5047 542 RNLIRLCQKFADYRK----DDPS--------SFRLDPNFTLYPQFMYHLRRSPFLSVFN--NSPDETAFYRHMLNNADVN 607 (755)
T ss_pred HHHHHHHHHHHhcCC----CCch--------hhcCCcchhhhhHHHhhhhccceeeccC--CCcchHHHHHHHHhccccc
Confidence 999999999999988 7776 7899999999999999999999999998 7999999999999999999
Q ss_pred HHHhhhccceEeeccCCCCCCCCCccchhhhccCCCcEEEEecCceEEEEEecCCCCCCC--C-CCCccHHHHHHH----
Q 005362 565 SLQRAVYPLLTSYSTPDKQAFPRHSLSRAALITSGSPIFLLDAFTTIIVFYSSTADPTLP--F-PPPQDCLLRTTI---- 637 (700)
Q Consensus 565 ~~~~~iyP~L~~~~~~~~~~~p~~~L~~~~~~~~~~~i~LlD~~~~i~i~~g~~~~~~~~--~-~~~~~~~~~~~i---- 637 (700)
+++.|++|+|.+++..++ +.++|.++-+ +.+|.|+|||++++|.||.|+.+.++.. + +.+++..++.++
T Consensus 608 ~sLimiqPtL~Sys~~~~---~~pVlLDs~s-vkpdviLLlDtff~Ili~hG~~iaqwr~agyq~qpey~~lK~Ll~~p~ 683 (755)
T COG5047 608 DSLIMIQPTLQSYSFEKG---GVPVLLDSVS-VKPDVILLLDTFFHILIFHGSYIAQWRNAGYQEQPEYLNLKELLEAPR 683 (755)
T ss_pred chhhhhcchheeeeccCC---CceEEEeccc-cCCCeEEEeeceeEEEEECChHHHHHHhhhhhcCchhhhHHHHhhchh
Confidence 999999999999998663 3466777655 5899999999999999999999887543 4 367788888877
Q ss_pred ---HHHHHhcCCCCeEEEEeCCCCcHHHHHhhccCC----CCCC-CCCC--CCCCcHHHHHHHHHHHH
Q 005362 638 ---NKMKQERSITPKLIFIRGGQDDATIFENYLIEE----QDVD-GSGL--TSVMGFVSFLEEISQSV 695 (700)
Q Consensus 638 ---~~l~~~R~~~p~~~vv~~g~~~~~~f~~~LvED----~~~~-~~~~--~~~~sy~~fl~~lh~~i 695 (700)
.++..+|+|.|+++++.||++|+|++.+++++. ++.+ |++. +.+++|.+|+.++.+.+
T Consensus 684 ~ea~ell~dRfP~Prfi~teqggSQaRfLlskinPsd~~~~~~~~~s~tilTddv~lq~fm~hl~~la 751 (755)
T COG5047 684 LEAAELLQDRFPIPRFIVTEQGGSQARFLLSKINPSDITNKMSGGGSETILTDDVNLQKFMNHLRKLA 751 (755)
T ss_pred hHHHHHHHhhCCCCeEEEecCCccHHHHHHhhcCccccccccccCccceeeecccCHHHHHHHHHHHh
Confidence 356688999999999999999999999999994 2222 2222 78999999999998865
No 8
>cd01478 Sec23-like Sec23-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 23 is very similar to Sec24. The Sec23 and Sec24
Probab=100.00 E-value=5.5e-46 Score=380.14 Aligned_cols=241 Identities=27% Similarity=0.362 Sum_probs=205.1
Q ss_pred CCCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcc--------
Q 005362 119 QARPVYVAAVDLSSSEEFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDT-------- 190 (700)
Q Consensus 119 ~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~-------- 190 (700)
|.||+|+||||+|..+.++++++++|+++|+.||++++|||||||++||||+|+.....+.++|.+. .+ +
T Consensus 1 p~pp~~vFviDvs~~~~el~~l~~sl~~~L~~lP~~a~VGlITfd~~V~~~~L~~~~~~~~~vf~g~-~~-~~~~~~~~~ 78 (267)
T cd01478 1 TSPPVFLFVVDTCMDEEELDALKESLIMSLSLLPPNALVGLITFGTMVQVHELGFEECSKSYVFRGN-KD-YTAKQIQDM 78 (267)
T ss_pred CCCCEEEEEEECccCHHHHHHHHHHHHHHHHhCCCCCEEEEEEECCEEEEEEcCCCcCceeeeccCC-cc-CCHHHHHHH
Confidence 3589999999999999999999999999999999999999999999999999987655566766642 11 1
Q ss_pred -------------cccccccc-Cc--cCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHH
Q 005362 191 -------------LSLELEDV-MP--LSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMES 254 (700)
Q Consensus 191 -------------~~~dl~~~-~p--~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~ 254 (700)
+..++++. .| .++||+|++||++.|+++|++|+++ .|..+++ .++.||+|+||++
T Consensus 79 l~~~~~~~~~~~~~~~~~~~~~~p~~~~~flvpl~e~~~~i~~lLe~L~~~-~~~~~~~--------~r~~r~~G~Al~~ 149 (267)
T cd01478 79 LGLGGPAMRPSASQHPGAGNPLPSAAASRFLLPVSQCEFTLTDLLEQLQPD-PWPVPAG--------HRPLRCTGVALSI 149 (267)
T ss_pred hccccccccccccCcCCccccccccccccEEEEHHHHHHHHHHHHHhCccc-ccccCCC--------CCCCCchHHHHHH
Confidence 11234442 34 3689999999999999999999887 3554432 2478999999999
Q ss_pred HHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCC-cchh-hccCCCcchHHHHHHHHHHHcCcEEEEe
Q 005362 255 LFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKG-EDAD-RALLPEQTPFYKDLAAVAVQAGVCVDIF 332 (700)
Q Consensus 255 a~~ll~~~g~~~~~~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~-~~~e-~~~~~~~~~fY~~la~~~~~~~isvdlf 332 (700)
|..+|+...++ .||||++|++|+||.|||+|+.|+.++.+|++. ++++ .++++++++||++||.+|+++||+||+|
T Consensus 150 A~~ll~~~~~~--~gGki~~F~sg~pT~GpG~l~~r~~~~~~r~~~d~~~~~~~~~~~a~~fY~~la~~~~~~~vsvDlF 227 (267)
T cd01478 150 AVGLLEACFPN--TGARIMLFAGGPCTVGPGAVVSTELKDPIRSHHDIDKDNAKYYKKAVKFYDSLAKRLAANGHAVDIF 227 (267)
T ss_pred HHHHHHhhcCC--CCcEEEEEECCCCCCCCceeeccccccccccccccccchhhhhhhHHHHHHHHHHHHHhCCeEEEEE
Confidence 99999964321 259999999999999999999999888888754 4444 4799999999999999999999999999
Q ss_pred eecCCCcChhhhhhcccccceEEEEeCCCCCCchhHHHHH
Q 005362 333 AITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYR 372 (700)
Q Consensus 333 ~~~~~~~dl~~l~~l~~~TGG~~~~y~~~~~~~l~~dl~~ 372 (700)
+++.+|+|+++|+.|++.|||.+++|++|+.+.|+++++|
T Consensus 228 ~~s~d~vglaem~~l~~~TGG~v~~~~~f~~~~f~~s~~~ 267 (267)
T cd01478 228 AGCLDQVGLLEMKVLVNSTGGHVVLSDSFTTSIFKQSFQR 267 (267)
T ss_pred eccccccCHHHHHHHHHhcCcEEEEeCCcchHHHHHHhcC
Confidence 9999999999999999999999999999999999988864
No 9
>cd01479 Sec24-like Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 24 is very similar to Sec23. The Sec23 and Sec24
Probab=100.00 E-value=1.5e-45 Score=374.31 Aligned_cols=229 Identities=26% Similarity=0.452 Sum_probs=200.3
Q ss_pred CCCcEEEEEEECCCCh---hHHHHHHHHHHHHHHhCCCC---cEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccc
Q 005362 119 QARPVYVAAVDLSSSE---EFLELTRSALQAALEAVPSG---ALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLS 192 (700)
Q Consensus 119 ~~~p~~vFvID~s~~~---~~l~~~~~~l~~~l~~lp~~---~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~ 192 (700)
|+||+|+||||+|..+ |.+++++++|+++|+.+|++ ++|||||||+.||||+++....++++ .++
T Consensus 1 p~pp~~~FvIDvs~~a~~~g~~~~~~~si~~~L~~lp~~~~~~~VgiITfd~~v~~y~l~~~~~~~q~---------~vv 71 (244)
T cd01479 1 PQPAVYVFLIDVSYNAIKSGLLATACEALLSNLDNLPGDDPRTRVGFITFDSTLHFFNLKSSLEQPQM---------MVV 71 (244)
T ss_pred CCCCEEEEEEEccHHHHhhChHHHHHHHHHHHHHhcCCCCCCeEEEEEEECCeEEEEECCCCCCCCeE---------EEe
Confidence 4689999999999986 68999999999999999976 99999999999999999876654444 245
Q ss_pred ccccc-cCcc-CcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccc
Q 005362 193 LELED-VMPL-SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALA 270 (700)
Q Consensus 193 ~dl~~-~~p~-~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~g 270 (700)
.|++| ++|+ ++||++++|+++.|.++|++|+..+... .++.+|+|+||++|..+|+..| |
T Consensus 72 ~dl~d~f~P~~~~~lv~l~e~~~~i~~lL~~L~~~~~~~------------~~~~~c~G~Al~~A~~lL~~~G------G 133 (244)
T cd01479 72 SDLDDPFLPLPDGLLVNLKESRQVIEDLLDQIPEMFQDT------------KETESALGPALQAAFLLLKETG------G 133 (244)
T ss_pred eCcccccCCCCcceeecHHHHHHHHHHHHHHHHHHHhcC------------CCCcccHHHHHHHHHHHHHhcC------C
Confidence 67888 4777 6899999999999999999997653221 1367999999999999999766 8
Q ss_pred eEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccc
Q 005362 271 RVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (700)
Q Consensus 271 kii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~ 350 (700)
||++|++|+||+|||+++.++.++.. ++++|+++++++++||++||.+|+++||+||+|+++.+++|+++|+.||+.
T Consensus 134 kIi~f~s~~pt~GpG~l~~~~~~~~~---~~~~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~ 210 (244)
T cd01479 134 KIIVFQSSLPTLGAGKLKSREDPKLL---STDKEKQLLQPQTDFYKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRL 210 (244)
T ss_pred EEEEEeCCCCCcCCcccccCcccccc---CchhhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhh
Confidence 99999999999999999998865533 345677899999999999999999999999999999999999999999999
Q ss_pred cceEEEEeC--CCC----CCchhHHHHHHhccC
Q 005362 351 SGGSLFLYS--STD----DSTLPQDIYRMLSRP 377 (700)
Q Consensus 351 TGG~~~~y~--~~~----~~~l~~dl~~~l~~~ 377 (700)
|||.+++|+ .|+ ..+|.+||+|.++|+
T Consensus 211 TGG~v~~y~~~~~~~~~d~~kl~~dl~~~ltr~ 243 (244)
T cd01479 211 TGGQVYYYPSFNFSAPNDVEKLVNELARYLTRK 243 (244)
T ss_pred cCceEEEECCccCCchhhHHHHHHHHHHHhccc
Confidence 999999999 443 458999999999986
No 10
>cd01468 trunk_domain trunk domain. COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is known as the trunk domain and has an alpha/beta vWA fold and forms the dimer interface. Some members of this family possess a partial MIDAS motif that is a characteristic feature of most vWA domain proteins.
Probab=100.00 E-value=2.4e-44 Score=366.06 Aligned_cols=228 Identities=34% Similarity=0.568 Sum_probs=199.9
Q ss_pred CCCcEEEEEEECCCC---hhHHHHHHHHHHHHHHhCC--CCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccc
Q 005362 119 QARPVYVAAVDLSSS---EEFLELTRSALQAALEAVP--SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSL 193 (700)
Q Consensus 119 ~~~p~~vFvID~s~~---~~~l~~~~~~l~~~l~~lp--~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~ 193 (700)
|+||+|+||||+|.. ++++++++++|+++|+.+| ++++|||||||++||||++++...++++ .++.
T Consensus 1 p~pp~~vFvID~s~~ai~~~~l~~~~~sl~~~l~~lp~~~~~~igiITf~~~V~~~~~~~~~~~~~~---------~v~~ 71 (239)
T cd01468 1 PQPPVFVFVIDVSYEAIKEGLLQALKESLLASLDLLPGDPRARVGLITYDSTVHFYNLSSDLAQPKM---------YVVS 71 (239)
T ss_pred CCCCEEEEEEEcchHhccccHHHHHHHHHHHHHHhCCCCCCcEEEEEEeCCeEEEEECCCCCCCCeE---------EEeC
Confidence 468999999999998 6999999999999999999 9999999999999999999876543333 3456
Q ss_pred ccccc-Ccc-CcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccce
Q 005362 194 ELEDV-MPL-SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (700)
Q Consensus 194 dl~~~-~p~-~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gk 271 (700)
|++|+ +|. .+++++++|+++.|.++|++|++++... .+ .++.+|+|+||++|..+|+..++ |||
T Consensus 72 dl~d~f~p~~~~~l~~~~e~~~~i~~~l~~l~~~~~~~-~~---------~~~~~~~G~Al~~A~~ll~~~~~----gGk 137 (239)
T cd01468 72 DLKDVFLPLPDRFLVPLSECKKVIHDLLEQLPPMFWPV-PT---------HRPERCLGPALQAAFLLLKGTFA----GGR 137 (239)
T ss_pred CCccCcCCCcCceeeeHHHHHHHHHHHHHhhhhhcccc-CC---------CCCcccHHHHHHHHHHHHhhcCC----Cce
Confidence 78784 675 6799999999999999999999885321 01 13679999999999999998731 389
Q ss_pred EEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhccccc
Q 005362 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (700)
Q Consensus 272 ii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~T 351 (700)
|++|++|+||.|||+++.+++++.++++ +|+++++++.+||++||.+|++++|+||+|+++.+++|+++|++|++.|
T Consensus 138 I~~f~sg~pt~GpG~l~~~~~~~~~~~~---~e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~T 214 (239)
T cd01468 138 IIVFQGGLPTVGPGKLKSREDKEPIRSH---DEAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKST 214 (239)
T ss_pred EEEEECCCCCCCCCccccCcccccCCCc---cchhcccccHHHHHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcC
Confidence 9999999999999999999888777654 6789999999999999999999999999999999999999999999999
Q ss_pred ceEEEEeCCC----CCCchhHHHHH
Q 005362 352 GGSLFLYSST----DDSTLPQDIYR 372 (700)
Q Consensus 352 GG~~~~y~~~----~~~~l~~dl~~ 372 (700)
||.+++|++| +.++|.+||+|
T Consensus 215 GG~v~~y~~f~~~~~~~~~~~~l~r 239 (239)
T cd01468 215 GGQVYLYDSFQAPNDGSKFKQDLQR 239 (239)
T ss_pred CceEEEeCCCCCcccHHHHHHHhcC
Confidence 9999999999 67788888764
No 11
>PF04811 Sec23_trunk: Sec23/Sec24 trunk domain; InterPro: IPR006896 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain, an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the Sec23/24 alpha/beta trunk domain, which is formed from a single, approximately 250-residue segment plugged into the beta-barrel between strands beta-1 and beta-19. The trunk has an alpha/beta fold with a vWA topology, and it forms the dimer interface, primarily involving strand beta-14 on Sec23 and Sec24; in addition, the trunk domain of Sec23 contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_A 2NUP_A 3EG9_A 3EFO_A 3EGX_A 2NUT_A 1PD0_A 1PD1_A 1M2V_B 1PCX_A ....
Probab=100.00 E-value=6.6e-43 Score=356.98 Aligned_cols=230 Identities=29% Similarity=0.522 Sum_probs=181.1
Q ss_pred CCCcEEEEEEECCCC---hhHHHHHHHHHHHHHHhCC--CCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccc
Q 005362 119 QARPVYVAAVDLSSS---EEFLELTRSALQAALEAVP--SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSL 193 (700)
Q Consensus 119 ~~~p~~vFvID~s~~---~~~l~~~~~~l~~~l~~lp--~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~ 193 (700)
|+||+|+||||+|.. ++.+++++++|+++|+.+| ++++|||||||++||||+++.....+++ .++.
T Consensus 1 P~pp~y~FvID~s~~av~~g~~~~~~~sl~~~l~~l~~~~~~~vgiitfd~~V~~y~l~~~~~~~~~---------~v~~ 71 (243)
T PF04811_consen 1 PQPPVYVFVIDVSYEAVQSGLLQSLIESLKSALDSLPGDERTRVGIITFDSSVHFYNLSSSLSQPQM---------IVVS 71 (243)
T ss_dssp -S--EEEEEEE-SHHHHHHTHHHHHHHHHHHHGCTSSTSTT-EEEEEEESSSEEEEETTTTSSSTEE---------EEEH
T ss_pred CCCCEEEEEEECchhhhhccHHHHHHHHHHHHHHhccCCCCcEEEEEEeCCEEEEEECCCCcCCCcc---------cchH
Confidence 468999999999998 5999999999999999999 9999999999999999999876644333 3567
Q ss_pred ccccc-Ccc-CcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccce
Q 005362 194 ELEDV-MPL-SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (700)
Q Consensus 194 dl~~~-~p~-~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gk 271 (700)
|++|+ +|. ++|+++++++++.|.++|++|++.++.... +.+.+|+|+||++|..+|+..+. |||
T Consensus 72 dl~~~~~p~~~~llv~~~e~~~~i~~ll~~L~~~~~~~~~----------~~~~~c~G~Al~~A~~ll~~~~~----gGk 137 (243)
T PF04811_consen 72 DLDDPFIPLPDGLLVPLSECRDAIEELLESLPSIFPETAG----------KRPERCLGSALSAALSLLSSRNT----GGK 137 (243)
T ss_dssp HTTSHHSSTSSSSSEETTTCHHHHHHHHHHHHHHSTT-TT----------B-----HHHHHHHHHHHHHHHTS-----EE
T ss_pred HHhhcccCCcccEEEEhHHhHHHHHHHHHHhhhhcccccc----------cCccccHHHHHHHHHHHHhcccc----CCE
Confidence 88884 665 789999999999999999999875433211 23679999999999999994331 389
Q ss_pred EEEEecCCCCCCC-CccccccccCcccCCCcchh-hccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhccc
Q 005362 272 VFAFLSGPPDHGA-GQLDTRRYGEQYASKGEDAD-RALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSI 349 (700)
Q Consensus 272 ii~f~~g~pt~Gp-G~l~~~~~~~~~~~~~~~~e-~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~ 349 (700)
|++|++|+||.|| |++..++..+. .++++| ..+++++.+||++||++|+++||+||+|+++.+++|+++|+.|++
T Consensus 138 I~~F~s~~pt~G~Gg~l~~~~~~~~---~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~ 214 (243)
T PF04811_consen 138 ILVFTSGPPTYGPGGSLKKREDSSH---YDTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLAR 214 (243)
T ss_dssp EEEEESS---SSSTTSS-SBTTSCC---CCHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHH
T ss_pred EEEEeccCCCCCCCceecccccccc---cccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHH
Confidence 9999999999999 67777655432 244555 678888899999999999999999999999999999999999999
Q ss_pred ccceEEEEeCCCC----CCchhHHHHHHh
Q 005362 350 ESGGSLFLYSSTD----DSTLPQDIYRML 374 (700)
Q Consensus 350 ~TGG~~~~y~~~~----~~~l~~dl~~~l 374 (700)
.|||.+++|++|+ ..+|++||+|++
T Consensus 215 ~TGG~l~~y~~f~~~~~~~~l~~dl~r~~ 243 (243)
T PF04811_consen 215 YTGGSLYYYPNFNAERDGEKLRQDLKRLV 243 (243)
T ss_dssp CTT-EEEEETTTTCHHHHHHHHHHHHHHH
T ss_pred hCceeEEEeCCCCCchhHHHHHHHHHHhC
Confidence 9999999999998 667999998875
No 12
>PF04815 Sec23_helical: Sec23/Sec24 helical domain; InterPro: IPR006900 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region, and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the all-helical domain, which forms an approximately 105-residue segment with the C-terminal 30 residues. The linker between alpha-M and alpha-N contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_B 2NUP_B 2NUT_B 3EGX_B 3EH2_C 3EH1_A 3EFO_B 3EG9_B 2QTV_A 1M2O_C ....
Probab=99.68 E-value=1.2e-16 Score=140.18 Aligned_cols=95 Identities=28% Similarity=0.384 Sum_probs=80.9
Q ss_pred HHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCccccccccccCccccccHHHHHHHHhcCcccccCC
Q 005362 464 LGSVILASLEQGVREGRMLLHDWLVILTAQYNEAFKLVQHNIGNSVTSQIDVEFLQCPQLQRLPRLVFALLRNPLLRFHE 543 (700)
Q Consensus 464 ~~~~~~~~~~~~~~~~r~~l~~~li~~l~~yr~~~~~~~~~~~~~~~~ql~l~f~lp~~lk~lP~~~~~L~Ks~~l~~~~ 543 (700)
++.++.++.+++++++|+.++++|++++++||++|++. + ..+|++ |||+||.||+|+++|+||++|++.+
T Consensus 9 ak~ai~~~~~~~l~~~r~~l~~~~v~il~~Yr~~~~~~----~--~~~qLi----lPe~lklLPly~l~llKs~alr~~~ 78 (103)
T PF04815_consen 9 AKQAIDKALSSSLKDARESLDNRLVDILAAYRKNCASS----S--SSGQLI----LPESLKLLPLYILALLKSPALRPTN 78 (103)
T ss_dssp HHHHHHHHCCS-HHHHHHHHHHHHHHHHHHHHHHCTTE----C--CCTEEE----EEGGGTTHHHHHHHHHTSTTTSCST
T ss_pred HHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHhhccCC----C--Cchhhh----CCHHHHHHHHHHHHHHcchhhcCCC
Confidence 34477778889999999999999999999999999954 2 236664 7999999999999999999999933
Q ss_pred CCCCchHHHHHHHhhccCChHHHHhhh
Q 005362 544 EGVHPDYRIYLQCLFSALEPSSLQRAV 570 (700)
Q Consensus 544 ~~~s~Der~~~~~~l~~~~~~~~~~~i 570 (700)
+++|||+|+++++++++++.++.||
T Consensus 79 --v~~D~R~~~~~~~~~~~~~~~~~~i 103 (103)
T PF04815_consen 79 --VSPDERAYAMHLLLSMPVDSLLRMI 103 (103)
T ss_dssp --S-HHHHHHHHHHHHHS-HHHHHHHH
T ss_pred --CCCcHHHHHHHHHHCCCHHHHHhhC
Confidence 9999999999999999999999875
No 13
>PF08033 Sec23_BS: Sec23/Sec24 beta-sandwich domain; InterPro: IPR012990 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes part of the Sec23/24 beta-barrel domain, which is formed from approximately 180 residues from three segments of the polypeptide. The strands of the barrel are oriented roughly parallel to the membrane such that one end of the barrel forms part of the inner surface of the coat and the other end part of the membrane-distal surface. The barrel is constructed from two opposed sheets: a six-stranded beta sheet facing partly towards the zinc finger domain and partly towards the solvent, and a five-stranded beta sheet facing the helical domain.; PDB: 3EFO_B 3EG9_B 1PD0_A 1PD1_A 1M2V_B 1PCX_A 3EH2_C 3EGD_A 2NUP_A 3EGX_A ....
Probab=99.55 E-value=1e-14 Score=126.28 Aligned_cols=79 Identities=20% Similarity=0.380 Sum_probs=66.2
Q ss_pred ceeeEEEEecCCCceeeeeeeccccCCCC-------Ccc--eeeeccCCCceEEEEEEEecCCCCCCCCCCCcEEEEEEe
Q 005362 379 AFNCIMRLRTSSEFKPGHSYGHFFPDPQY-------ENV--QHIICCDSYATYAYDFDFANAAGFARHTSEQPMLQIAFQ 449 (700)
Q Consensus 379 ~~~a~~rvR~S~gl~i~~~~G~~~~~~~~-------~~~--~~i~~~d~~~s~~~~~e~~~~~~l~~~~~~~~~iQ~a~l 449 (700)
||+|+||||||+|++|++++||++..+.. .+. |.++.++++++++|+|+++. .+. ..+.+|||+|++
T Consensus 1 g~~~~l~vr~S~gl~v~~~~G~~~~~~~~s~~~~g~~~~~~~~~~~l~~~~s~~~~~~~~~--~~~--~~~~~~iQ~~~~ 76 (96)
T PF08033_consen 1 GFNAVLRVRCSKGLKVSGVIGPCFNRSSVSDNEIGEGDTTRWKLPSLDPDTSFAFEFEIDE--DLP--NGSQAYIQFALL 76 (96)
T ss_dssp EEEEEEEEEE-TTEEEEEEESSSEESSTBESSECSBSSCSEEEEEEEETT--EEEEEEESS--BTB--TTSEEEEEEEEE
T ss_pred CceEEEEEEECCCeEEEEEEcCccccccccceeeccCCccEEEecccCCCCEEEEEEEECC--CCC--CCCeEEEEEEEE
Confidence 79999999999999999999999987521 345 99999999999999999965 342 367999999999
Q ss_pred eeeccCccccch
Q 005362 450 YTVVVPPEELSS 461 (700)
Q Consensus 450 Yt~~~g~~~~~~ 461 (700)
||+..|+|++|+
T Consensus 77 Yt~~~G~r~iRV 88 (96)
T PF08033_consen 77 YTDSNGERRIRV 88 (96)
T ss_dssp EEETTSEEEEEE
T ss_pred EECCCCCEEEEE
Confidence 999999999885
No 14
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=99.50 E-value=6.6e-15 Score=104.38 Aligned_cols=38 Identities=34% Similarity=0.943 Sum_probs=25.9
Q ss_pred CCCcccCcceeEecCceEec--ceEEEccCCCCCCCChhh
Q 005362 49 MLPRCENCYAYFNTYCELEQ--WAWTCSLCGSLNGLSSQA 86 (700)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~N~~p~~~ 86 (700)
+|+||++|+||||||++++. ++|+|+||++.|++|++|
T Consensus 1 ~p~rC~~C~aylNp~~~~~~~~~~w~C~~C~~~N~lp~~Y 40 (40)
T PF04810_consen 1 GPVRCRRCRAYLNPFCQFDDGGKTWICNFCGTKNPLPPHY 40 (40)
T ss_dssp -S-B-TTT--BS-TTSEEETTTTEEEETTT--EEE--GGG
T ss_pred CccccCCCCCEECCcceEcCCCCEEECcCCCCcCCCCCCC
Confidence 47999999999999999995 699999999999999874
No 15
>PRK13685 hypothetical protein; Provisional
Probab=98.79 E-value=2.3e-07 Score=99.12 Aligned_cols=163 Identities=21% Similarity=0.260 Sum_probs=114.8
Q ss_pred CcEEEEEEECCCCh-------hHHHHHHHHHHHHHHhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccc
Q 005362 121 RPVYVAAVDLSSSE-------EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSL 193 (700)
Q Consensus 121 ~p~~vFvID~s~~~-------~~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~ 193 (700)
+...+||||+|.+. ..++.+|+++...++.++++.+||+|+|++..++. .
T Consensus 88 ~~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l~~~d~vglv~Fa~~a~~~-------------~---------- 144 (326)
T PRK13685 88 RAVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADELTPGINLGLIAFAGTATVL-------------V---------- 144 (326)
T ss_pred CceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhCCCCCeEEEEEEcCceeec-------------C----------
Confidence 34689999999985 36899999999999999888999999999865421 0
Q ss_pred cccccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccc----cC-CCcc
Q 005362 194 ELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE----YG-NTFA 268 (700)
Q Consensus 194 dl~~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~----g~-~~~~ 268 (700)
| +.+.++.+.+.|+.+... ..++.|.|+..|.+.+... ++ ....
T Consensus 145 ------p-------~t~d~~~l~~~l~~l~~~------------------~~T~~g~al~~A~~~l~~~~~~~~~~~~~~ 193 (326)
T PRK13685 145 ------S-------PTTNREATKNAIDKLQLA------------------DRTATGEAIFTALQAIATVGAVIGGGDTPP 193 (326)
T ss_pred ------C-------CCCCHHHHHHHHHhCCCC------------------CCcchHHHHHHHHHHHHhhhcccccccCCC
Confidence 1 122345667778877542 2357899999998887631 10 0011
Q ss_pred cceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCC-----------
Q 005362 269 LARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNE----------- 337 (700)
Q Consensus 269 ~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~----------- 337 (700)
.++|+++++|..+.|....... .. .+.++.+.+.||.|..+.++.+
T Consensus 194 ~~~IILlTDG~~~~~~~~~~~~---------------------~~--~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~ 250 (326)
T PRK13685 194 PARIVLMSDGKETVPTNPDNPR---------------------GA--YTAARTAKDQGVPISTISFGTPYGSVEINGQRQ 250 (326)
T ss_pred CCEEEEEcCCCCCCCCCCCCcc---------------------cH--HHHHHHHHHcCCeEEEEEECCCCCCcCcCCcee
Confidence 3689999999887663211000 00 1356677789999999988864
Q ss_pred --CcChhhhhhcccccceEEEEeCC
Q 005362 338 --YTDLASLKFLSIESGGSLFLYSS 360 (700)
Q Consensus 338 --~~dl~~l~~l~~~TGG~~~~y~~ 360 (700)
..|-..|..+++.|||..++..+
T Consensus 251 ~~~~d~~~L~~iA~~tgG~~~~~~~ 275 (326)
T PRK13685 251 PVPVDDESLKKIAQLSGGEFYTAAS 275 (326)
T ss_pred eecCCHHHHHHHHHhcCCEEEEcCC
Confidence 26788999999999998666643
No 16
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=98.77 E-value=1.4e-07 Score=91.91 Aligned_cols=162 Identities=13% Similarity=0.157 Sum_probs=105.3
Q ss_pred EEEEEEECCCCh-------hHHHHHHHHHHHHHHhC---CCCcEEEEeee-cceEEEEEccCCCCceeeeeeCCCCCccc
Q 005362 123 VYVAAVDLSSSE-------EFLELTRSALQAALEAV---PSGALFGLATF-SHKIGLYDVQGAIPVVKNVFIPSDTEDTL 191 (700)
Q Consensus 123 ~~vFvID~s~~~-------~~l~~~~~~l~~~l~~l---p~~~~vgiItf-~~~V~~~~l~~~~~~~~~~~~~~~~~~~~ 191 (700)
-.+|+||+|.+. ..++.+|..+...++.+ .+..+||||+| ++.-++ ..
T Consensus 5 ~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~-------------~~-------- 63 (183)
T cd01453 5 HLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEK-------------LT-------- 63 (183)
T ss_pred EEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEE-------------EE--------
Confidence 368999999985 58999999998888754 35579999999 554332 11
Q ss_pred cccccccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccce
Q 005362 192 SLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (700)
Q Consensus 192 ~~dl~~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gk 271 (700)
| +....+.+...|+.+ +. + .++++++.||..|...++...+. ..++
T Consensus 64 --------P-------lT~D~~~~~~~L~~~--~~----~-----------~G~t~l~~aL~~A~~~l~~~~~~--~~~~ 109 (183)
T cd01453 64 --------D-------LTGNPRKHIQALKTA--RE----C-----------SGEPSLQNGLEMALESLKHMPSH--GSRE 109 (183)
T ss_pred --------C-------CCCCHHHHHHHhhcc--cC----C-----------CCchhHHHHHHHHHHHHhcCCcc--CceE
Confidence 1 111112333444433 10 0 13478999999999999753211 1257
Q ss_pred EEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhccccc
Q 005362 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (700)
Q Consensus 272 ii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~T 351 (700)
|++++++..+.+|+. +.++++.+.+.+|.|++..++. +...|..+|+.|
T Consensus 110 iiil~sd~~~~~~~~----------------------------~~~~~~~l~~~~I~v~~IgiG~---~~~~L~~ia~~t 158 (183)
T cd01453 110 VLIIFSSLSTCDPGN----------------------------IYETIDKLKKENIRVSVIGLSA---EMHICKEICKAT 158 (183)
T ss_pred EEEEEcCCCcCChhh----------------------------HHHHHHHHHHcCcEEEEEEech---HHHHHHHHHHHh
Confidence 888877633222211 2457888899999999999864 467899999999
Q ss_pred ceEEEEeCCCCCCchhHHHHH
Q 005362 352 GGSLFLYSSTDDSTLPQDIYR 372 (700)
Q Consensus 352 GG~~~~y~~~~~~~l~~dl~~ 372 (700)
||+.|.-. +...|.+-+.+
T Consensus 159 gG~~~~~~--~~~~l~~~~~~ 177 (183)
T cd01453 159 NGTYKVIL--DETHLKELLLE 177 (183)
T ss_pred CCeeEeeC--CHHHHHHHHHh
Confidence 99966554 33455544443
No 17
>cd01456 vWA_ywmD_type VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.75 E-value=2.3e-07 Score=92.51 Aligned_cols=169 Identities=24% Similarity=0.346 Sum_probs=109.6
Q ss_pred CCCcEEEEEEECCCChh--------HHHHHHHHHHHHHHhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcc
Q 005362 119 QARPVYVAAVDLSSSEE--------FLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDT 190 (700)
Q Consensus 119 ~~~p~~vFvID~s~~~~--------~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~ 190 (700)
..+..++||||+|.+.. .++.+++++...++.++++.+||+++|++.++- .... .+.++..
T Consensus 18 ~~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l~~~~~v~lv~F~~~~~~-----~~~~--~~~~p~~---- 86 (206)
T cd01456 18 QLPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDGTRLGLWTFSGDGDN-----PLDV--RVLVPKG---- 86 (206)
T ss_pred CCCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhCCCCceEEEEEecCCCCC-----Cccc--ccccccc----
Confidence 45678999999999863 688899999999999998999999999995431 0000 0000000
Q ss_pred ccccccccCccCcCccchHhHHHHHHHHHHhcC-CCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCccc
Q 005362 191 LSLELEDVMPLSQFLAPVETFKENITSALETLR-PTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFAL 269 (700)
Q Consensus 191 ~~~dl~~~~p~~~~l~~l~~~~~~i~~ll~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~ 269 (700)
.... ++..+ ....+..+.+.|+.+. .. +++.++.||+.|...+. .+. .
T Consensus 87 --~~~~---~~~~~---~~~~~~~l~~~i~~i~~~~------------------G~T~l~~aL~~a~~~l~-~~~----~ 135 (206)
T cd01456 87 --CLTA---PVNGF---PSAQRSALDAALNSLQTPT------------------GWTPLAAALAEAAAYVD-PGR----V 135 (206)
T ss_pred --cccc---ccCCC---CcccHHHHHHHHHhhcCCC------------------CcChHHHHHHHHHHHhC-CCC----c
Confidence 0000 00111 0124566677777775 21 35789999999999986 221 2
Q ss_pred ceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHH-HHcCcEEEEeeecCCCcChhhhhhcc
Q 005362 270 ARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVA-VQAGVCVDIFAITNEYTDLASLKFLS 348 (700)
Q Consensus 270 gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~-~~~~isvdlf~~~~~~~dl~~l~~l~ 348 (700)
..|+++++|.++.|+... +.-++++... ...+|.|+++.++.+ .|...|..++
T Consensus 136 ~~iillTDG~~~~~~~~~-------------------------~~~~~~~~~~~~~~~i~i~~igiG~~-~~~~~l~~iA 189 (206)
T cd01456 136 NVVVLITDGEDTCGPDPC-------------------------EVARELAKRRTPAPPIKVNVIDFGGD-ADRAELEAIA 189 (206)
T ss_pred ceEEEEcCCCccCCCCHH-------------------------HHHHHHHHhcCCCCCceEEEEEecCc-ccHHHHHHHH
Confidence 589999999887653111 0011122110 125899999998765 6788999999
Q ss_pred cccceEE
Q 005362 349 IESGGSL 355 (700)
Q Consensus 349 ~~TGG~~ 355 (700)
+.|||..
T Consensus 190 ~~tgG~~ 196 (206)
T cd01456 190 EATGGTY 196 (206)
T ss_pred HhcCCeE
Confidence 9999986
No 18
>cd01466 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most,
Probab=98.72 E-value=4.8e-07 Score=85.85 Aligned_cols=150 Identities=23% Similarity=0.314 Sum_probs=104.6
Q ss_pred EEEEEECCCChh--HHHHHHHHHHHHHHhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccccCcc
Q 005362 124 YVAAVDLSSSEE--FLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVMPL 201 (700)
Q Consensus 124 ~vFvID~s~~~~--~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~~p~ 201 (700)
.+|+||+|.+.. .++.+++++...++.|+++.++|||+|++..+..- ++. +
T Consensus 3 v~~vlD~S~SM~~~rl~~ak~a~~~l~~~l~~~~~~~li~F~~~~~~~~-----------------------~~~---~- 55 (155)
T cd01466 3 LVAVLDVSGSMAGDKLQLVKHALRFVISSLGDADRLSIVTFSTSAKRLS-----------------------PLR---R- 55 (155)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcceEEEEEecCCccccC-----------------------CCc---c-
Confidence 579999999863 57889999998999999989999999998654310 000 0
Q ss_pred CcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCC
Q 005362 202 SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPD 281 (700)
Q Consensus 202 ~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt 281 (700)
+ -...+..+.++++.+.+. ++++++.||..|...+...+. ......|+++++|.++
T Consensus 56 --~---~~~~~~~~~~~i~~~~~~------------------g~T~~~~al~~a~~~~~~~~~-~~~~~~iillTDG~~~ 111 (155)
T cd01466 56 --M---TAKGKRSAKRVVDGLQAG------------------GGTNVVGGLKKALKVLGDRRQ-KNPVASIMLLSDGQDN 111 (155)
T ss_pred --c---CHHHHHHHHHHHHhccCC------------------CCccHHHHHHHHHHHHhhccc-CCCceEEEEEcCCCCC
Confidence 0 012345566677665432 457899999999999864321 1123689999999887
Q ss_pred CCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEe
Q 005362 282 HGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLY 358 (700)
Q Consensus 282 ~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y 358 (700)
.|+..+ ++.+.++.|..+.++. ..|..+|..++..|||+.++.
T Consensus 112 ~~~~~~---------------------------------~~~~~~v~v~~igig~-~~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 112 HGAVVL---------------------------------RADNAPIPIHTFGLGA-SHDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred cchhhh---------------------------------cccCCCceEEEEecCC-CCCHHHHHHHHhccCceEEEe
Confidence 651100 1123578888887764 468889999999999997764
No 19
>cd01451 vWA_Magnesium_chelatase Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is a three sub-unit (BchI, BchD and BchH) enzyme with a novel arrangement of domains: the C-terminal helical domain is located behind the nucleotide binding site. The BchD domain contains a AAA domain at its N-terminus and a VWA domain at its C-terminus. The VWA domain has been speculated to be involved in mediating protein-protein interactions.
Probab=98.71 E-value=5e-07 Score=87.84 Aligned_cols=167 Identities=14% Similarity=0.134 Sum_probs=111.3
Q ss_pred EEEEEEECCCChh---HHHHHHHHHHHHHH-hCCCCcEEEEeeecce-EEEEEccCCCCceeeeeeCCCCCccccccccc
Q 005362 123 VYVAAVDLSSSEE---FLELTRSALQAALE-AVPSGALFGLATFSHK-IGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (700)
Q Consensus 123 ~~vFvID~s~~~~---~l~~~~~~l~~~l~-~lp~~~~vgiItf~~~-V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~ 197 (700)
.++|+||+|.+.. .++.+++++...+. .++++.+||+|+|++. .++ .++
T Consensus 2 ~v~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~~~~~d~v~lv~F~~~~~~~-------------~~~------------- 55 (178)
T cd01451 2 LVIFVVDASGSMAARHRMAAAKGAVLSLLRDAYQRRDKVALIAFRGTEAEV-------------LLP------------- 55 (178)
T ss_pred eEEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceE-------------EeC-------------
Confidence 3679999999862 67888888887775 4567889999999864 221 110
Q ss_pred cCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEec
Q 005362 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (700)
Q Consensus 198 ~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~ 277 (700)
....+..+...|+.++.. +++.++.||..|...++...........|+++++
T Consensus 56 ----------~t~~~~~~~~~l~~l~~~------------------G~T~l~~aL~~a~~~l~~~~~~~~~~~~ivliTD 107 (178)
T cd01451 56 ----------PTRSVELAKRRLARLPTG------------------GGTPLAAGLLAAYELAAEQARDPGQRPLIVVITD 107 (178)
T ss_pred ----------CCCCHHHHHHHHHhCCCC------------------CCCcHHHHHHHHHHHHHHHhcCCCCceEEEEECC
Confidence 000112234455555321 3578999999999988211110000158999999
Q ss_pred CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEE
Q 005362 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (700)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~ 357 (700)
|.++.|..... .--.++++++.+.+|.+..+.+.....+-..|..|++.|||..++
T Consensus 108 G~~~~g~~~~~------------------------~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~~tgG~~~~ 163 (178)
T cd01451 108 GRANVGPDPTA------------------------DRALAAARKLRARGISALVIDTEGRPVRRGLAKDLARALGGQYVR 163 (178)
T ss_pred CCCCCCCCchh------------------------HHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHHHcCCeEEE
Confidence 99888643110 000457788888999887776666667888899999999999998
Q ss_pred eCCCCCCchh
Q 005362 358 YSSTDDSTLP 367 (700)
Q Consensus 358 y~~~~~~~l~ 367 (700)
.++.+...|.
T Consensus 164 ~~d~~~~~~~ 173 (178)
T cd01451 164 LPDLSADAIA 173 (178)
T ss_pred cCcCCHHHHH
Confidence 8877655444
No 20
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if n
Probab=98.69 E-value=1.3e-06 Score=83.94 Aligned_cols=158 Identities=16% Similarity=0.185 Sum_probs=110.0
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccccCcc
Q 005362 124 YVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVMPL 201 (700)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~~p~ 201 (700)
++|++|+|.+. ..++.+++++...++.++++.+||+++|++..+..- +.. +
T Consensus 3 ~~~vlD~S~SM~~~~~~~~k~a~~~~~~~l~~~~~v~li~f~~~~~~~~-----------------------~~~---~- 55 (170)
T cd01465 3 LVFVIDRSGSMDGPKLPLVKSALKLLVDQLRPDDRLAIVTYDGAAETVL-----------------------PAT---P- 55 (170)
T ss_pred EEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEecCCccEEe-----------------------cCc---c-
Confidence 78999999986 347888889998999999889999999998644310 000 0
Q ss_pred CcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCC
Q 005362 202 SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPD 281 (700)
Q Consensus 202 ~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt 281 (700)
.. .+..+...++++... +++.++.||..|...+...... ....+|++|++|.++
T Consensus 56 ------~~-~~~~l~~~l~~~~~~------------------g~T~~~~al~~a~~~~~~~~~~-~~~~~ivl~TDG~~~ 109 (170)
T cd01465 56 ------VR-DKAAILAAIDRLTAG------------------GSTAGGAGIQLGYQEAQKHFVP-GGVNRILLATDGDFN 109 (170)
T ss_pred ------cc-hHHHHHHHHHcCCCC------------------CCCCHHHHHHHHHHHHHhhcCC-CCeeEEEEEeCCCCC
Confidence 01 123444555555421 3467899999998888643210 012589999999998
Q ss_pred CCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEeCC
Q 005362 282 HGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSS 360 (700)
Q Consensus 282 ~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~ 360 (700)
.|+... +-+.+....+.+.++.|+.+.++ ...+...|..+++.++|..++.++
T Consensus 110 ~~~~~~-------------------------~~~~~~~~~~~~~~v~i~~i~~g-~~~~~~~l~~ia~~~~g~~~~~~~ 162 (170)
T cd01465 110 VGETDP-------------------------DELARLVAQKRESGITLSTLGFG-DNYNEDLMEAIADAGNGNTAYIDN 162 (170)
T ss_pred CCCCCH-------------------------HHHHHHHHHhhcCCeEEEEEEeC-CCcCHHHHHHHHhcCCceEEEeCC
Confidence 765311 11234455566789999999998 678999999999999999776654
No 21
>cd01463 vWA_VGCC_like VWA Voltage gated Calcium channel like: Voltage-gated calcium channels are a complex of five proteins: alpha 1, beta 1, gamma, alpha 2 and delta. The alpha 2 and delta subunits result from proteolytic processing of a single gene product and carries at its N-terminus the VWA and cache domains, The alpha 2 delta gene family has orthologues in D. melanogaster and C. elegans but none have been detected in aither A. thaliana or yeast. The exact biochemical function of the VWA domain is not known but the alpha 2 delta complex has been shown to regulate various functional properties of the channel complex.
Probab=98.64 E-value=1.7e-06 Score=84.95 Aligned_cols=168 Identities=18% Similarity=0.237 Sum_probs=107.6
Q ss_pred CCcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccc
Q 005362 120 ARPVYVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (700)
Q Consensus 120 ~~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~ 197 (700)
.|-..+||||+|.+. ..++.+|+++...++.++++.+||||+|++.++..--...
T Consensus 12 ~p~~vv~llD~SgSM~~~~l~~ak~~~~~ll~~l~~~d~v~lv~F~~~~~~~~~~~~----------------------- 68 (190)
T cd01463 12 SPKDIVILLDVSGSMTGQRLHLAKQTVSSILDTLSDNDFFNIITFSNEVNPVVPCFN----------------------- 68 (190)
T ss_pred CCceEEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCCCEEEEEEeCCCeeEEeeecc-----------------------
Confidence 355789999999985 5678889999999999999999999999998774310000
Q ss_pred cCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhcc---cc---CCCcccce
Q 005362 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGS---EY---GNTFALAR 271 (700)
Q Consensus 198 ~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~---~g---~~~~~~gk 271 (700)
..++....+.++.+.+.|+.|+.. +.+.++.||..|...+.. .+ ........
T Consensus 69 ----~~~~~~~~~~~~~~~~~l~~l~~~------------------G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~ 126 (190)
T cd01463 69 ----DTLVQATTSNKKVLKEALDMLEAK------------------GIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQA 126 (190)
T ss_pred ----cceEecCHHHHHHHHHHHhhCCCC------------------CcchHHHHHHHHHHHHHHhhhcccccccCCceeE
Confidence 000001122344455556555432 346799999999988875 11 01111247
Q ss_pred EEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHH-HHHHcCcEEEEeeecCCCcChhhhhhcccc
Q 005362 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAA-VAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (700)
Q Consensus 272 ii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~-~~~~~~isvdlf~~~~~~~dl~~l~~l~~~ 350 (700)
|+++++|.++.+... ...+.. .....++.|..|.++.+..|...|..|+..
T Consensus 127 iillTDG~~~~~~~~----------------------------~~~~~~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~~ 178 (190)
T cd01463 127 IMLITDGVPENYKEI----------------------------FDKYNWDKNSEIPVRVFTYLIGREVTDRREIQWMACE 178 (190)
T ss_pred EEEEeCCCCCcHhHH----------------------------HHHhcccccCCCcEEEEEEecCCccccchHHHHHHhh
Confidence 999999987632110 011100 001124666666666666688999999999
Q ss_pred cceEEEEeCC
Q 005362 351 SGGSLFLYSS 360 (700)
Q Consensus 351 TGG~~~~y~~ 360 (700)
+||..++.++
T Consensus 179 ~~G~~~~i~~ 188 (190)
T cd01463 179 NKGYYSHIQS 188 (190)
T ss_pred cCCeEEEccc
Confidence 9999887764
No 22
>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.54 E-value=4.6e-06 Score=81.04 Aligned_cols=155 Identities=19% Similarity=0.207 Sum_probs=103.2
Q ss_pred EEEEEEECCCChh--------HHHHHHHHHHHHHHhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccc
Q 005362 123 VYVAAVDLSSSEE--------FLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLE 194 (700)
Q Consensus 123 ~~vFvID~s~~~~--------~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~d 194 (700)
-++|+||+|.+.. .++.++..+...++.. ++.+||+|+|++.++.. +
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~~~-~~~~v~lv~f~~~~~~~-------------~----------- 58 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFIDRR-ENDRIGLVVFAGAAFTQ-------------A----------- 58 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHHHHHHHHHhC-CCCeEEEEEEcCCeeec-------------c-----------
Confidence 4789999999752 3566777776666654 56799999998865421 0
Q ss_pred ccccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEE
Q 005362 195 LEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFA 274 (700)
Q Consensus 195 l~~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~ 274 (700)
| +...+..+.++++.|.... . ..++.++.||..|...+....+. ...|++
T Consensus 59 -----~-------~~~~~~~~~~~l~~l~~~~--~-------------~g~T~l~~al~~a~~~l~~~~~~---~~~iil 108 (180)
T cd01467 59 -----P-------LTLDRESLKELLEDIKIGL--A-------------GQGTAIGDAIGLAIKRLKNSEAK---ERVIVL 108 (180)
T ss_pred -----C-------CCccHHHHHHHHHHhhhcc--c-------------CCCCcHHHHHHHHHHHHHhcCCC---CCEEEE
Confidence 0 0112234455566654221 0 13467899999999988654321 257999
Q ss_pred EecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCC----------CcChhhh
Q 005362 275 FLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNE----------YTDLASL 344 (700)
Q Consensus 275 f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~----------~~dl~~l 344 (700)
+++|.++.|+-. ..+.+..+.+.||.|+.+.++.. ..|...|
T Consensus 109 iTDG~~~~g~~~----------------------------~~~~~~~~~~~gi~i~~i~ig~~~~~~~~~~~~~~~~~~l 160 (180)
T cd01467 109 LTDGENNAGEID----------------------------PATAAELAKNKGVRIYTIGVGKSGSGPKPDGSTILDEDSL 160 (180)
T ss_pred EeCCCCCCCCCC----------------------------HHHHHHHHHHCCCEEEEEEecCCCCCcCCCCcccCCHHHH
Confidence 999987654210 01234455678999999988762 4678889
Q ss_pred hhcccccceEEEEeCC
Q 005362 345 KFLSIESGGSLFLYSS 360 (700)
Q Consensus 345 ~~l~~~TGG~~~~y~~ 360 (700)
..|++.|||..++..+
T Consensus 161 ~~la~~tgG~~~~~~~ 176 (180)
T cd01467 161 VEIADKTGGRIFRALD 176 (180)
T ss_pred HHHHHhcCCEEEEecC
Confidence 9999999999888753
No 23
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins. This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.
Probab=98.43 E-value=1e-05 Score=77.33 Aligned_cols=152 Identities=21% Similarity=0.212 Sum_probs=96.2
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccccc
Q 005362 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (700)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp---~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~ 198 (700)
.+|+||+|.+. ..++.++++++..++.+. ++.++|||+|++..+..- ++.
T Consensus 3 vv~vlD~SgSm~~~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~~~-----------------------~~~-- 57 (164)
T cd01472 3 IVFLVDGSESIGLSNFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRTEF-----------------------YLN-- 57 (164)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCceeEEE-----------------------ecC--
Confidence 57999999985 467788888888887764 567999999998765411 000
Q ss_pred CccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccc--cCCCcccceEEEEe
Q 005362 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE--YGNTFALARVFAFL 276 (700)
Q Consensus 199 ~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~--g~~~~~~gkii~f~ 276 (700)
. . ..+..+.+.|+.++... .++.+|.||..|.+.+... +........|++++
T Consensus 58 ----~----~-~~~~~~~~~l~~l~~~~-----------------g~T~~~~al~~a~~~l~~~~~~~~~~~~~~iiliT 111 (164)
T cd01472 58 ----T----Y-RSKDDVLEAVKNLRYIG-----------------GGTNTGKALKYVRENLFTEASGSREGVPKVLVVIT 111 (164)
T ss_pred ----C----C-CCHHHHHHHHHhCcCCC-----------------CCchHHHHHHHHHHHhCCcccCCCCCCCEEEEEEc
Confidence 0 0 12234555666665420 3468999999999988742 11111234678888
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccce-EE
Q 005362 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGG-SL 355 (700)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG-~~ 355 (700)
+|.++.+. ...+..+.+.||.+..+..+.. |...|..++..++| .+
T Consensus 112 DG~~~~~~-------------------------------~~~~~~l~~~gv~i~~ig~g~~--~~~~L~~ia~~~~~~~~ 158 (164)
T cd01472 112 DGKSQDDV-------------------------------EEPAVELKQAGIEVFAVGVKNA--DEEELKQIASDPKELYV 158 (164)
T ss_pred CCCCCchH-------------------------------HHHHHHHHHCCCEEEEEECCcC--CHHHHHHHHCCCchheE
Confidence 88543210 1123345557776665555443 99999999999987 44
Q ss_pred EEeC
Q 005362 356 FLYS 359 (700)
Q Consensus 356 ~~y~ 359 (700)
+.+.
T Consensus 159 ~~~~ 162 (164)
T cd01472 159 FNVA 162 (164)
T ss_pred Eecc
Confidence 4443
No 24
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=98.40 E-value=1.5e-05 Score=84.17 Aligned_cols=172 Identities=16% Similarity=0.135 Sum_probs=103.3
Q ss_pred CCcEEEEEEECCCCh-hHHHHHHHHHHHHHHh-CCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccc
Q 005362 120 ARPVYVAAVDLSSSE-EFLELTRSALQAALEA-VPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (700)
Q Consensus 120 ~~p~~vFvID~s~~~-~~l~~~~~~l~~~l~~-lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~ 197 (700)
.|...+|+||+|.+. +.+..+++++...++. ++++.+||||+|++.+++.. +
T Consensus 52 ~p~~vvlvlD~SgSM~~~~~~a~~a~~~~l~~~l~~~d~v~lv~f~~~~~~~~-----------------------~--- 105 (296)
T TIGR03436 52 LPLTVGLVIDTSGSMRNDLDRARAAAIRFLKTVLRPNDRVFVVTFNTRLRLLQ-----------------------D--- 105 (296)
T ss_pred CCceEEEEEECCCCchHHHHHHHHHHHHHHHhhCCCCCEEEEEEeCCceeEee-----------------------c---
Confidence 467899999999985 5677788888888876 78899999999998765421 0
Q ss_pred cCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHH-HHHhhccccCCCcccceEEEEe
Q 005362 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMES-LFNYLGSEYGNTFALARVFAFL 276 (700)
Q Consensus 198 ~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~-a~~ll~~~g~~~~~~gkii~f~ 276 (700)
....++.+...|+.+.......-.... ......++++++.||.. +..++....+.......|++|+
T Consensus 106 ----------~t~~~~~l~~~l~~l~~~~~~~~~~~~---~~~~~~g~T~l~~al~~aa~~~~~~~~~~~p~rk~iIllT 172 (296)
T TIGR03436 106 ----------FTSDPRLLEAALNRLKPPLRTDYNSSG---AFVRDGGGTALYDAITLAALEQLANALAGIPGRKALIVIS 172 (296)
T ss_pred ----------CCCCHHHHHHHHHhccCCCcccccccc---ccccCCCcchhHHHHHHHHHHHHHHhhcCCCCCeEEEEEe
Confidence 011234455566666431000000000 00000245778888754 4455543311000013477777
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCC------------cChhhh
Q 005362 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEY------------TDLASL 344 (700)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~------------~dl~~l 344 (700)
+|..+. ...-++++...+.+.+|.|..+.++... .+-..|
T Consensus 173 DG~~~~----------------------------~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L 224 (296)
T TIGR03436 173 DGGDNR----------------------------SRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEAL 224 (296)
T ss_pred cCCCcc----------------------------hHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHH
Confidence 763211 1223567788888899998888765321 245689
Q ss_pred hhcccccceEEEEe
Q 005362 345 KFLSIESGGSLFLY 358 (700)
Q Consensus 345 ~~l~~~TGG~~~~y 358 (700)
..+|+.|||..++-
T Consensus 225 ~~iA~~TGG~~~~~ 238 (296)
T TIGR03436 225 ERLAEETGGRAFYV 238 (296)
T ss_pred HHHHHHhCCeEecc
Confidence 99999999996554
No 25
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.39 E-value=5.9e-06 Score=78.26 Aligned_cols=150 Identities=25% Similarity=0.337 Sum_probs=99.3
Q ss_pred EEEEEECCCCh-hHHHHHHHHHHHHHHhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccccCccC
Q 005362 124 YVAAVDLSSSE-EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVMPLS 202 (700)
Q Consensus 124 ~vFvID~s~~~-~~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~~p~~ 202 (700)
.+|+||+|.+. +..+.+++++...++.|+++.++.||+|++.+..+.- .
T Consensus 3 vvilvD~S~Sm~g~~~~~k~al~~~l~~L~~~d~fnii~f~~~~~~~~~--~---------------------------- 52 (155)
T PF13768_consen 3 VVILVDTSGSMSGEKELVKDALRAILRSLPPGDRFNIIAFGSSVRPLFP--G---------------------------- 52 (155)
T ss_pred EEEEEeCCCCCCCcHHHHHHHHHHHHHhCCCCCEEEEEEeCCEeeEcch--h----------------------------
Confidence 68999999986 4348899999999999999999999999997664321 0
Q ss_pred cCccch-HhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCC
Q 005362 203 QFLAPV-ETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPD 281 (700)
Q Consensus 203 ~~l~~l-~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt 281 (700)
+++. .+.++...+.++.++.. .+++.++.||+.|+..+...+. .-.|+++++|.|+
T Consensus 53 --~~~~~~~~~~~a~~~I~~~~~~-----------------~G~t~l~~aL~~a~~~~~~~~~----~~~IilltDG~~~ 109 (155)
T PF13768_consen 53 --LVPATEENRQEALQWIKSLEAN-----------------SGGTDLLAALRAALALLQRPGC----VRAIILLTDGQPV 109 (155)
T ss_pred --HHHHhHHHHHHHHHHHHHhccc-----------------CCCccHHHHHHHHHHhcccCCC----ccEEEEEEeccCC
Confidence 0001 12333344455554431 1457899999999988733332 2589999998774
Q ss_pred CCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEE
Q 005362 282 HGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (700)
Q Consensus 282 ~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~ 356 (700)
.++-. .. +....+. ..+.++.|.++. ..+-..|..|++.|||...
T Consensus 110 ~~~~~---------------------------i~-~~v~~~~-~~~~i~~~~~g~-~~~~~~L~~LA~~~~G~~~ 154 (155)
T PF13768_consen 110 SGEEE---------------------------IL-DLVRRAR-GHIRIFTFGIGS-DADADFLRELARATGGSFH 154 (155)
T ss_pred CCHHH---------------------------HH-HHHHhcC-CCceEEEEEECC-hhHHHHHHHHHHcCCCEEE
Confidence 43210 11 1111211 457777777655 4567889999999999854
No 26
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=98.36 E-value=1.4e-05 Score=77.40 Aligned_cols=145 Identities=17% Similarity=0.185 Sum_probs=98.4
Q ss_pred EEEEEEECCCCh-------hHHHHHHHHHHHHH----HhCCCCcEEEEeeecc-eEEEEEccCCCCceeeeeeCCCCCcc
Q 005362 123 VYVAAVDLSSSE-------EFLELTRSALQAAL----EAVPSGALFGLATFSH-KIGLYDVQGAIPVVKNVFIPSDTEDT 190 (700)
Q Consensus 123 ~~vFvID~s~~~-------~~l~~~~~~l~~~l----~~lp~~~~vgiItf~~-~V~~~~l~~~~~~~~~~~~~~~~~~~ 190 (700)
+-+++||+|.++ ..+++.++++...+ +..|. .+||||+|.. .-++ ..
T Consensus 5 a~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~~~~f~~~np~-~~vGlv~fag~~a~v-------------~~------- 63 (187)
T cd01452 5 ATMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNPE-NNVGLMTMAGNSPEV-------------LV------- 63 (187)
T ss_pred EEEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCCC-ccEEEEEecCCceEE-------------EE-------
Confidence 468999999874 57888888887654 55554 5999999987 3221 11
Q ss_pred ccccccccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccc
Q 005362 191 LSLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALA 270 (700)
Q Consensus 191 ~~~dl~~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~g 270 (700)
|+......+...|+.+... ++..+|.||+.|...|+.... +....
T Consensus 64 ----------------plT~D~~~~~~~L~~i~~~------------------g~~~l~~AL~~A~~~L~~~~~-~~~~~ 108 (187)
T cd01452 64 ----------------TLTNDQGKILSKLHDVQPK------------------GKANFITGIQIAQLALKHRQN-KNQKQ 108 (187)
T ss_pred ----------------CCCCCHHHHHHHHHhCCCC------------------CcchHHHHHHHHHHHHhcCCC-cCCcc
Confidence 1122234556666655432 345799999999999975422 10125
Q ss_pred eEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccc
Q 005362 271 RVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (700)
Q Consensus 271 kii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~ 350 (700)
||++|.+++-+.-||. -.++++++.++||.||+..++...-+..-|..+.+.
T Consensus 109 rivi~v~S~~~~d~~~----------------------------i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~~~~~~ 160 (187)
T cd01452 109 RIVAFVGSPIEEDEKD----------------------------LVKLAKRLKKNNVSVDIINFGEIDDNTEKLTAFIDA 160 (187)
T ss_pred eEEEEEecCCcCCHHH----------------------------HHHHHHHHHHcCCeEEEEEeCCCCCCHHHHHHHHHH
Confidence 9999998864432222 136899999999999999998776666667776666
Q ss_pred c
Q 005362 351 S 351 (700)
Q Consensus 351 T 351 (700)
.
T Consensus 161 ~ 161 (187)
T cd01452 161 V 161 (187)
T ss_pred h
Confidence 5
No 27
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=98.36 E-value=1.1e-05 Score=79.03 Aligned_cols=158 Identities=12% Similarity=0.082 Sum_probs=101.7
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHHHhC---------CCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccc
Q 005362 123 VYVAAVDLSSSE--EFLELTRSALQAALEAV---------PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTL 191 (700)
Q Consensus 123 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~l---------p~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~ 191 (700)
-.+|+||.|.+. ..++.+++.++..++.+ +++.+||+|+|++..++.-
T Consensus 4 dvv~vlD~S~Sm~~~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~~~~--------------------- 62 (186)
T cd01480 4 DITFVLDSSESVGLQNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQEVEA--------------------- 62 (186)
T ss_pred eEEEEEeCCCccchhhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCceeeE---------------------
Confidence 368999999985 46677777777777766 3468999999998654310
Q ss_pred cccccccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccce
Q 005362 192 SLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (700)
Q Consensus 192 ~~dl~~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gk 271 (700)
.+. .. ...+..+.+.|+.++... +++.+|.||..|...+.. ++.......
T Consensus 63 --~l~------~~----~~~~~~l~~~i~~l~~~g-----------------g~T~~~~AL~~a~~~l~~-~~~~~~~~~ 112 (186)
T cd01480 63 --GFL------RD----IRNYTSLKEAVDNLEYIG-----------------GGTFTDCALKYATEQLLE-GSHQKENKF 112 (186)
T ss_pred --ecc------cc----cCCHHHHHHHHHhCccCC-----------------CCccHHHHHHHHHHHHhc-cCCCCCceE
Confidence 000 00 013445666777665321 347899999999998865 111112357
Q ss_pred EEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhccccc
Q 005362 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (700)
Q Consensus 272 ii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~T 351 (700)
|+++++|.++.++. .-..+.+.++.+.||.|-.+..+. .+...|..++...
T Consensus 113 iillTDG~~~~~~~---------------------------~~~~~~~~~~~~~gi~i~~vgig~--~~~~~L~~IA~~~ 163 (186)
T cd01480 113 LLVITDGHSDGSPD---------------------------GGIEKAVNEADHLGIKIFFVAVGS--QNEEPLSRIACDG 163 (186)
T ss_pred EEEEeCCCcCCCcc---------------------------hhHHHHHHHHHHCCCEEEEEecCc--cchHHHHHHHcCC
Confidence 88888887632211 011345667778899876666654 7888899999887
Q ss_pred ceEEEEeCCC
Q 005362 352 GGSLFLYSST 361 (700)
Q Consensus 352 GG~~~~y~~~ 361 (700)
+|. ++-++|
T Consensus 164 ~~~-~~~~~~ 172 (186)
T cd01480 164 KSA-LYRENF 172 (186)
T ss_pred cch-hhhcch
Confidence 776 444455
No 28
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.36 E-value=3.2e-05 Score=90.60 Aligned_cols=155 Identities=19% Similarity=0.270 Sum_probs=104.0
Q ss_pred CcEEEEEEECCCCh---hHHHHHHHHHHHHH-HhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccc
Q 005362 121 RPVYVAAVDLSSSE---EFLELTRSALQAAL-EAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (700)
Q Consensus 121 ~p~~vFvID~s~~~---~~l~~~~~~l~~~l-~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~ 196 (700)
+...++|||+|.++ ..++.++++++..+ +.++++.+||||+|++..++.. . +
T Consensus 304 ~r~VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~l~~~DrVGLVtFsssA~vl~---p--------------------L- 359 (863)
T TIGR00868 304 QRIVCLVLDKSGSMTVEDRLKRMNQAAKLFLLQTVEKGSWVGMVTFDSAAYIKN---E--------------------L- 359 (863)
T ss_pred CceEEEEEECCccccccCHHHHHHHHHHHHHHHhCCCCCEEEEEEECCceeEee---c--------------------c-
Confidence 34689999999996 35777888887765 4678889999999999765421 0 0
Q ss_pred ccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEe
Q 005362 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFL 276 (700)
Q Consensus 197 ~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~ 276 (700)
.++. + ...++.+...+ +.. + .+++++|.||..|.++|...+. ...++.|++++
T Consensus 360 --t~It----s-~~dr~aL~~~L---~~~-----A-----------~GGT~I~~GL~~Alq~L~~~~~-~~~~~~IILLT 412 (863)
T TIGR00868 360 --IQIT----S-SAERDALTANL---PTA-----A-----------SGGTSICSGLKAAFQVIKKSYQ-STDGSEIVLLT 412 (863)
T ss_pred --ccCC----c-HHHHHHHHHhh---ccc-----c-----------CCCCcHHHHHHHHHHHHHhccc-ccCCCEEEEEe
Confidence 0000 0 11223333333 211 0 1468999999999999986431 11246899998
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEE
Q 005362 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (700)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~ 356 (700)
+|.++.+ ..++..+.++||.|..+.++.+. + ..|..||+.|||..+
T Consensus 413 DGedn~~--------------------------------~~~l~~lk~~gVtI~TIg~G~da-d-~~L~~IA~~TGG~~f 458 (863)
T TIGR00868 413 DGEDNTI--------------------------------SSCFEEVKQSGAIIHTIALGPSA-A-KELEELSDMTGGLRF 458 (863)
T ss_pred CCCCCCH--------------------------------HHHHHHHHHcCCEEEEEEeCCCh-H-HHHHHHHHhcCCEEE
Confidence 8865321 12445566789999999988764 2 459999999999988
Q ss_pred EeCC
Q 005362 357 LYSS 360 (700)
Q Consensus 357 ~y~~ 360 (700)
+.++
T Consensus 459 ~asd 462 (863)
T TIGR00868 459 YASD 462 (863)
T ss_pred EeCC
Confidence 8864
No 29
>cd01461 vWA_interalpha_trypsin_inhibitor vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to the extracellular matrix by binding to hyaluronic acid. The heavy chains carry the VWA domain with a conserved MIDAS motif. Although the exact role of the VWA domains remains unknown, it has been speculated to be involved in mediating protein-protein interactions with the components of the extracellular matrix.
Probab=98.30 E-value=2.7e-05 Score=74.69 Aligned_cols=159 Identities=21% Similarity=0.253 Sum_probs=102.9
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccccc
Q 005362 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (700)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~ 198 (700)
|.-++|++|+|.+. ..++.+++++...+..++++.+|++++|++.++.+- . . . ...+
T Consensus 2 ~~~v~~vlD~S~SM~~~~~~~~~~al~~~l~~l~~~~~~~l~~Fs~~~~~~~--~-~----~----------~~~~---- 60 (171)
T cd01461 2 PKEVVFVIDTSGSMSGTKIEQTKEALLTALKDLPPGDYFNIIGFSDTVEEFS--P-S----S----------VSAT---- 60 (171)
T ss_pred CceEEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEeCCCceeec--C-c----c----------eeCC----
Confidence 34588999999986 447888999988899999888999999999765321 0 0 0 0000
Q ss_pred CccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEecC
Q 005362 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSG 278 (700)
Q Consensus 199 ~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g 278 (700)
.+....+.+.++.+.+. +++.++.||..|...+....+ ....|++|++|
T Consensus 61 ----------~~~~~~~~~~l~~~~~~------------------g~T~l~~al~~a~~~l~~~~~---~~~~iillTDG 109 (171)
T cd01461 61 ----------AENVAAAIEYVNRLQAL------------------GGTNMNDALEAALELLNSSPG---SVPQIILLTDG 109 (171)
T ss_pred ----------HHHHHHHHHHHHhcCCC------------------CCcCHHHHHHHHHHhhccCCC---CccEEEEEeCC
Confidence 11122233444444331 346799999999988874211 12588888888
Q ss_pred CCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEe
Q 005362 279 PPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLY 358 (700)
Q Consensus 279 ~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y 358 (700)
.++.+ .+.+ +.+.++.+.++.|..+.++. ..+-..|..+++.|||...+.
T Consensus 110 ~~~~~----------------------------~~~~-~~~~~~~~~~i~i~~i~~g~-~~~~~~l~~ia~~~gG~~~~~ 159 (171)
T cd01461 110 EVTNE----------------------------SQIL-KNVREALSGRIRLFTFGIGS-DVNTYLLERLAREGRGIARRI 159 (171)
T ss_pred CCCCH----------------------------HHHH-HHHHHhcCCCceEEEEEeCC-ccCHHHHHHHHHcCCCeEEEe
Confidence 63110 1122 33444444578777776653 356788999999999998888
Q ss_pred CCC
Q 005362 359 SST 361 (700)
Q Consensus 359 ~~~ 361 (700)
.+-
T Consensus 160 ~~~ 162 (171)
T cd01461 160 YET 162 (171)
T ss_pred cCh
Confidence 643
No 30
>cd01470 vWA_complement_factors Complement factors B and C2 are two critical proteases for complement activation. They both contain three CCP or Sushi domains, a trypsin-type serine protease domain and a single VWA domain with a conserved metal ion dependent adhesion site referred commonly as the MIDAS motif. Orthologues of these molecules are found from echinoderms to chordates. During complement activation, the CCP domains are cleaved off, resulting in the formation of an active protease that cleaves and activates complement C3. Complement C2 is in the classical pathway and complement B is in the alternative pathway. The interaction of C2 with C4 and of factor B with C3b are both dependent on Mg2+ binding sites within the VWA domains and the VWA domain of factor B has been shown to mediate the binding of C3. This is consistent with the common inferred function of VWA domains as magnesium-dependent protein interaction domains.
Probab=98.27 E-value=3e-05 Score=76.68 Aligned_cols=169 Identities=14% Similarity=0.209 Sum_probs=100.5
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEeeecceEEEE-EccCCCCceeeeeeCCCCCccccccccc
Q 005362 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLY-DVQGAIPVVKNVFIPSDTEDTLSLELED 197 (700)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp---~~~~vgiItf~~~V~~~-~l~~~~~~~~~~~~~~~~~~~~~~dl~~ 197 (700)
++|+||+|.+. ..++.+++++...++.|+ .+.+||+|+|++..+.. .+..
T Consensus 3 i~~vlD~SgSM~~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~~~~~~~~------------------------ 58 (198)
T cd01470 3 IYIALDASDSIGEEDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPKEIVSIRD------------------------ 58 (198)
T ss_pred EEEEEECCCCccHHHHHHHHHHHHHHHHHccccCCCceEEEEEecCCceEEEeccc------------------------
Confidence 68999999986 568889999999988875 36899999999976532 2210
Q ss_pred cCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhcccc---CCC--cccceE
Q 005362 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEY---GNT--FALARV 272 (700)
Q Consensus 198 ~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g---~~~--~~~gki 272 (700)
+ ....+..+...|+.+.... .. . ..++.++.||..|...+.... +.. ...-.|
T Consensus 59 ------~---~~~~~~~~~~~l~~~~~~~-~~--~----------~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~i 116 (198)
T cd01470 59 ------F---NSNDADDVIKRLEDFNYDD-HG--D----------KTGTNTAAALKKVYERMALEKVRNKEAFNETRHVI 116 (198)
T ss_pred ------C---CCCCHHHHHHHHHhCCccc-cc--C----------ccchhHHHHHHHHHHHHHHHHhcCccchhhcceEE
Confidence 0 0001233445565554321 00 0 135779999998887663211 000 001258
Q ss_pred EEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHH------HHHHcCcEEEEeeecCCCcChhhhhh
Q 005362 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAA------VAVQAGVCVDIFAITNEYTDLASLKF 346 (700)
Q Consensus 273 i~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~------~~~~~~isvdlf~~~~~~~dl~~l~~ 346 (700)
+++++|.++.|..... +.+.++++.. .+...+|.|..+.++. .+|-.+|..
T Consensus 117 illTDG~~~~g~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~v~i~~iGvG~-~~~~~~L~~ 173 (198)
T cd01470 117 ILFTDGKSNMGGSPLP----------------------TVDKIKNLVYKNNKSDNPREDYLDVYVFGVGD-DVNKEELND 173 (198)
T ss_pred EEEcCCCcCCCCChhH----------------------HHHHHHHHHhcccccccchhcceeEEEEecCc-ccCHHHHHH
Confidence 9999999987632110 0111122211 1133466666665543 478999999
Q ss_pred cccccceE--EEEeCCC
Q 005362 347 LSIESGGS--LFLYSST 361 (700)
Q Consensus 347 l~~~TGG~--~~~y~~~ 361 (700)
|+..|||. +|...++
T Consensus 174 iA~~~~g~~~~f~~~~~ 190 (198)
T cd01470 174 LASKKDNERHFFKLKDY 190 (198)
T ss_pred HhcCCCCCceEEEeCCH
Confidence 99999994 5555544
No 31
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=98.26 E-value=4.5e-06 Score=79.88 Aligned_cols=150 Identities=23% Similarity=0.281 Sum_probs=98.5
Q ss_pred EEEEEECCCCh-h------HHHHHHHHHHHHHHhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccc
Q 005362 124 YVAAVDLSSSE-E------FLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (700)
Q Consensus 124 ~vFvID~s~~~-~------~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~ 196 (700)
++||||+|.+. + .++.++.++...++.+| +.+|||++|++..+. . .++
T Consensus 2 vv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~l~~f~~~~~~-------------~----------~~~- 56 (172)
T PF13519_consen 2 VVFVLDNSGSMNGYDGNRTRIDQAKDALNELLANLP-GDRVGLVSFSDSSRT-------------L----------SPL- 56 (172)
T ss_dssp EEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHHHT-TSEEEEEEESTSCEE-------------E----------EEE-
T ss_pred EEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHHCC-CCEEEEEEecccccc-------------c----------ccc-
Confidence 68999999986 2 47889999999998887 449999999985321 0 001
Q ss_pred ccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEe
Q 005362 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFL 276 (700)
Q Consensus 197 ~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~ 276 (700)
...+..+.+.++++.... .+ ....+++.|+..|.+++..... ....|++|+
T Consensus 57 ------------t~~~~~~~~~l~~~~~~~---~~-----------~~~t~~~~al~~a~~~~~~~~~---~~~~iv~iT 107 (172)
T PF13519_consen 57 ------------TSDKDELKNALNKLSPQG---MP-----------GGGTNLYDALQEAAKMLASSDN---RRRAIVLIT 107 (172)
T ss_dssp ------------ESSHHHHHHHHHTHHHHG----------------SSS--HHHHHHHHHHHHHC-SS---EEEEEEEEE
T ss_pred ------------cccHHHHHHHhhcccccc---cC-----------ccCCcHHHHHHHHHHHHHhCCC---CceEEEEec
Confidence 112334445555553210 00 1347899999999999986531 125778888
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEE
Q 005362 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (700)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~ 356 (700)
+|.++ .+ ..+.+..+.+.+|.|.++.++.+...-..|..+++.|||..+
T Consensus 108 DG~~~--------~~-----------------------~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~ 156 (172)
T PF13519_consen 108 DGEDN--------SS-----------------------DIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGRYF 156 (172)
T ss_dssp S-TTH--------CH-----------------------HHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEEEE
T ss_pred CCCCC--------cc-----------------------hhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCEEE
Confidence 87543 00 012666778899999999998887666789999999999977
Q ss_pred Ee
Q 005362 357 LY 358 (700)
Q Consensus 357 ~y 358 (700)
..
T Consensus 157 ~~ 158 (172)
T PF13519_consen 157 HV 158 (172)
T ss_dssp EE
T ss_pred Ee
Confidence 76
No 32
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell. In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners.
Probab=98.16 E-value=7.1e-05 Score=73.18 Aligned_cols=150 Identities=17% Similarity=0.060 Sum_probs=92.9
Q ss_pred EEEEEECCCCh--hH-HHHHHHHHHHHHHhCC---CCcEEEEeeecceEEE-EEccCCCCceeeeeeCCCCCcccccccc
Q 005362 124 YVAAVDLSSSE--EF-LELTRSALQAALEAVP---SGALFGLATFSHKIGL-YDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (700)
Q Consensus 124 ~vFvID~s~~~--~~-l~~~~~~l~~~l~~lp---~~~~vgiItf~~~V~~-~~l~~~~~~~~~~~~~~~~~~~~~~dl~ 196 (700)
++|+||+|.+. .. ++.+++.+...++.++ ++.+||+|+|++..+. +++...
T Consensus 3 v~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~~~l~~~---------------------- 60 (186)
T cd01471 3 LYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELIRLSSP---------------------- 60 (186)
T ss_pred EEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEEEECCCc----------------------
Confidence 68999999985 34 7788988888888774 5789999999987653 222110
Q ss_pred ccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccc-cCCCcccceEEEE
Q 005362 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE-YGNTFALARVFAF 275 (700)
Q Consensus 197 ~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~-g~~~~~~gkii~f 275 (700)
....+..+.++++.+.... . . .+++.++.||..|.+.+... +........|+++
T Consensus 61 -----------~~~~~~~~~~~i~~l~~~~-~--~-----------~G~T~l~~aL~~a~~~l~~~~~~r~~~~~~vill 115 (186)
T cd01471 61 -----------NSTNKDLALNAIRALLSLY-Y--P-----------NGSTNTTSALLVVEKHLFDTRGNRENAPQLVIIM 115 (186)
T ss_pred -----------cccchHHHHHHHHHHHhCc-C--C-----------CCCccHHHHHHHHHHHhhccCCCcccCceEEEEE
Confidence 0011222233444433221 0 0 14578999999999998752 2111122478888
Q ss_pred ecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccc
Q 005362 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (700)
Q Consensus 276 ~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~ 350 (700)
++|.++.++.. .+.++++.+.|+.|-++.++ ...|...|..|+..
T Consensus 116 TDG~~~~~~~~-----------------------------~~~a~~l~~~gv~v~~igiG-~~~d~~~l~~ia~~ 160 (186)
T cd01471 116 TDGIPDSKFRT-----------------------------LKEARKLRERGVIIAVLGVG-QGVNHEENRSLVGC 160 (186)
T ss_pred ccCCCCCCcch-----------------------------hHHHHHHHHCCCEEEEEEee-hhhCHHHHHHhcCC
Confidence 98987532110 12456667778877766664 35777777777654
No 33
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax. ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells.
Probab=98.14 E-value=0.00011 Score=71.94 Aligned_cols=159 Identities=16% Similarity=0.097 Sum_probs=90.7
Q ss_pred cEEEEEEECCCChh-HHHHHHHHHHHHHHhC-CCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccccC
Q 005362 122 PVYVAAVDLSSSEE-FLELTRSALQAALEAV-PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVM 199 (700)
Q Consensus 122 p~~vFvID~s~~~~-~l~~~~~~l~~~l~~l-p~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~~ 199 (700)
--.+|+||+|.+.+ ......+.++..++.+ .++.+||+|+|++..+..- ++
T Consensus 5 ~Dvv~llD~SgSm~~~~~~~~~~~~~l~~~~~~~~~rvglv~Fs~~~~~~~-----------------------~l---- 57 (185)
T cd01474 5 FDLYFVLDKSGSVAANWIEIYDFVEQLVDRFNSPGLRFSFITFSTRATKIL-----------------------PL---- 57 (185)
T ss_pred eeEEEEEeCcCchhhhHHHHHHHHHHHHHHcCCCCcEEEEEEecCCceEEE-----------------------ec----
Confidence 34789999999862 2223334455555543 3569999999998654310 01
Q ss_pred ccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhc--cccCCCcccceEEEEec
Q 005362 200 PLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLG--SEYGNTFALARVFAFLS 277 (700)
Q Consensus 200 p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~--~~g~~~~~~gkii~f~~ 277 (700)
.. ....+.+.++.|..... .+++++|.||+.|...+. ..|+.. ....|+++++
T Consensus 58 --~~-------~~~~~~~~l~~l~~~~~---------------~g~T~~~~aL~~a~~~l~~~~~~~r~-~~~~villTD 112 (185)
T cd01474 58 --TD-------DSSAIIKGLEVLKKVTP---------------SGQTYIHEGLENANEQIFNRNGGGRE-TVSVIIALTD 112 (185)
T ss_pred --cc-------cHHHHHHHHHHHhccCC---------------CCCCcHHHHHHHHHHHHHhhccCCCC-CCeEEEEEcC
Confidence 00 01123344444443311 145789999999998773 222211 0135888888
Q ss_pred CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEE-
Q 005362 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF- 356 (700)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~- 356 (700)
|.++-..+.-. ...+..+.+.|+.|..+.. ...+..+|..++..++ .+|
T Consensus 113 G~~~~~~~~~~---------------------------~~~a~~l~~~gv~i~~vgv--~~~~~~~L~~iA~~~~-~~f~ 162 (185)
T cd01474 113 GQLLLNGHKYP---------------------------EHEAKLSRKLGAIVYCVGV--TDFLKSQLINIADSKE-YVFP 162 (185)
T ss_pred CCcCCCCCcch---------------------------HHHHHHHHHcCCEEEEEee--chhhHHHHHHHhCCCC-eeEe
Confidence 97742111000 1234566678886666655 5678899999998775 444
Q ss_pred EeCCCC
Q 005362 357 LYSSTD 362 (700)
Q Consensus 357 ~y~~~~ 362 (700)
...+|+
T Consensus 163 ~~~~~~ 168 (185)
T cd01474 163 VTSGFQ 168 (185)
T ss_pred cCccHH
Confidence 233443
No 34
>cd01469 vWA_integrins_alpha_subunit Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration. Integrins consist of an alpha and a beta sub-unit. Each sub-unit has a large extracellular portion, a single transmembrane segment and a short cytoplasmic domain. The N-terminal domains of the alpha and beta subunits associate to form the integrin headpiece, which contains the ligand binding site, whereas the C-terminal segments traverse the plasma membrane and mediate interaction with the cytoskeleton and with signalling proteins.The VWA domains present in the alpha subunits of integrins seem to be a chordate specific radiation of the gene family being found only in vertebrates. They mediate protein-protein interactions.
Probab=98.02 E-value=0.00035 Score=67.74 Aligned_cols=159 Identities=16% Similarity=0.174 Sum_probs=100.2
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccccc
Q 005362 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (700)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp---~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~ 198 (700)
.+|+||.|.+. ..++.+++.+...++.+. +++|||+|+|++..++.- ++.+
T Consensus 3 i~fvlD~S~S~~~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~~~~-----------------------~l~~- 58 (177)
T cd01469 3 IVFVLDGSGSIYPDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFRTEF-----------------------TLNE- 58 (177)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCceeEEE-----------------------ecCc-
Confidence 58999999985 467888888888888764 478999999999765320 1111
Q ss_pred CccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhc--cccCCCcccceEEEEe
Q 005362 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLG--SEYGNTFALARVFAFL 276 (700)
Q Consensus 199 ~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~--~~g~~~~~~gkii~f~ 276 (700)
+ . ....+.++++.++... +.+.+|.||..|.+.+- ..|.......-+++++
T Consensus 59 -----~----~-~~~~~~~~i~~~~~~~-----------------g~T~~~~AL~~a~~~l~~~~~g~R~~~~kv~illT 111 (177)
T cd01469 59 -----Y----R-TKEEPLSLVKHISQLL-----------------GLTNTATAIQYVVTELFSESNGARKDATKVLVVIT 111 (177)
T ss_pred -----c----C-CHHHHHHHHHhCccCC-----------------CCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEe
Confidence 0 0 1122344555554321 23789999999988762 2221111124578888
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCC---cChhhhhhcccccce
Q 005362 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEY---TDLASLKFLSIESGG 353 (700)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~---~dl~~l~~l~~~TGG 353 (700)
+|.++.|+-. ++.+..+.+.||.|-.+...... .+..+|..++..+++
T Consensus 112 DG~~~~~~~~-----------------------------~~~~~~~k~~gv~v~~Vgvg~~~~~~~~~~~L~~ias~p~~ 162 (177)
T cd01469 112 DGESHDDPLL-----------------------------KDVIPQAEREGIIRYAIGVGGHFQRENSREELKTIASKPPE 162 (177)
T ss_pred CCCCCCcccc-----------------------------HHHHHHHHHCCcEEEEEEecccccccccHHHHHHHhcCCcH
Confidence 8876543210 23555666788877777666542 347889999988764
Q ss_pred -EEEEeCCCC
Q 005362 354 -SLFLYSSTD 362 (700)
Q Consensus 354 -~~~~y~~~~ 362 (700)
++|..++|+
T Consensus 163 ~h~f~~~~~~ 172 (177)
T cd01469 163 EHFFNVTDFA 172 (177)
T ss_pred HhEEEecCHH
Confidence 555556653
No 35
>cd01477 vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of mo
Probab=97.96 E-value=0.00029 Score=69.20 Aligned_cols=153 Identities=18% Similarity=0.202 Sum_probs=89.3
Q ss_pred cEEEEEEECCCCh--hHHHHHHHHHHHHHHhC---------CCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcc
Q 005362 122 PVYVAAVDLSSSE--EFLELTRSALQAALEAV---------PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDT 190 (700)
Q Consensus 122 p~~vFvID~s~~~--~~l~~~~~~l~~~l~~l---------p~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~ 190 (700)
-=.||+||.|.+. ..++.+++.+...+..+ |+.+|||+|+|++..++.-
T Consensus 20 ~DivfvlD~S~Sm~~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~~~-------------------- 79 (193)
T cd01477 20 LDIVFVVDNSKGMTQGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATVVA-------------------- 79 (193)
T ss_pred eeEEEEEeCCCCcchhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEEEE--------------------
Confidence 3489999999985 56788888887766533 4468999999999766421
Q ss_pred ccccccccCccCcCccchHhHHHHHHHHHHh-cCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccc--cCCCc
Q 005362 191 LSLELEDVMPLSQFLAPVETFKENITSALET-LRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE--YGNTF 267 (700)
Q Consensus 191 ~~~dl~~~~p~~~~l~~l~~~~~~i~~ll~~-l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~--g~~~~ 267 (700)
+|.+. . ....+.+.++. +..... ..++.+|.||..|.+++... ++...
T Consensus 80 ---~L~d~----------~-~~~~~~~ai~~~~~~~~~---------------~ggT~ig~aL~~A~~~l~~~~~~~R~~ 130 (193)
T cd01477 80 ---DLNDL----------Q-SFDDLYSQIQGSLTDVSS---------------TNASYLDTGLQAAEQMLAAGKRTSREN 130 (193)
T ss_pred ---ecccc----------c-CHHHHHHHHHHHhhcccc---------------CCcchHHHHHHHHHHHHHhhhccccCC
Confidence 11110 0 11222333332 111100 13478999999999999743 21100
Q ss_pred ccce-EEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhh
Q 005362 268 ALAR-VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKF 346 (700)
Q Consensus 268 ~~gk-ii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~ 346 (700)
..| +|++++|..+.|.+. ..+.|+++.+.||.|..+..+. ..|-..|..
T Consensus 131 -v~kvvIllTDg~~~~~~~~----------------------------~~~~a~~l~~~GI~i~tVGiG~-~~d~~~~~~ 180 (193)
T cd01477 131 -YKKVVIVFASDYNDEGSND----------------------------PRPIAARLKSTGIAIITVAFTQ-DESSNLLDK 180 (193)
T ss_pred -CCeEEEEEecCccCCCCCC----------------------------HHHHHHHHHHCCCEEEEEEeCC-CCCHHHHHH
Confidence 135 666666632211110 1357888899999998888765 344334455
Q ss_pred cccccce
Q 005362 347 LSIESGG 353 (700)
Q Consensus 347 l~~~TGG 353 (700)
|++..++
T Consensus 181 L~~ias~ 187 (193)
T cd01477 181 LGKIASP 187 (193)
T ss_pred HHHhcCC
Confidence 5544433
No 36
>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein. Members of this protein family are restricted to the Proteobacteria. Each contains a C-terminal sortase-recognition motif, transmembrane domain, and basic residues cluster at the the C-terminus, and is encoded adjacent to a sortase gene. This protein is frequently the only sortase target in its genome, which is as unusual its occurrence in Gram-negative rather than Gram-positive genomes. Many bacteria with this system are marine. In addition to the LPXTG signal, members carry a vault protein inter-alpha-trypsin inhibitor domain (pfam08487) and a von Willebrand factor type A domain (pfam00092).
Probab=97.91 E-value=0.00067 Score=78.67 Aligned_cols=184 Identities=18% Similarity=0.235 Sum_probs=113.7
Q ss_pred CCcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccc
Q 005362 120 ARPVYVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (700)
Q Consensus 120 ~~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~ 197 (700)
.+.-++||||+|.++ ..++.+++++..+|..|+++.+++||+|++.++.+.- .. . ..
T Consensus 270 ~p~~vvfvlD~SgSM~g~~i~~ak~al~~~l~~L~~~d~~~ii~F~~~~~~~~~---~~--------------~--~~-- 328 (596)
T TIGR03788 270 LPRELVFVIDTSGSMAGESIEQAKSALLLALDQLRPGDRFNIIQFDSDVTLLFP---VP--------------V--PA-- 328 (596)
T ss_pred CCceEEEEEECCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEECCcceEecc---cc--------------c--cC--
Confidence 345699999999986 4577889999999999999999999999998765310 00 0 00
Q ss_pred cCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEec
Q 005362 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (700)
Q Consensus 198 ~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~ 277 (700)
-.+....+...++.|... +++.+..||..|+......+.. ....|+++++
T Consensus 329 ----------~~~~~~~a~~~i~~l~a~------------------GgT~l~~aL~~a~~~~~~~~~~--~~~~iillTD 378 (596)
T TIGR03788 329 ----------TAHNLARARQFVAGLQAD------------------GGTEMAGALSAALRDDGPESSG--ALRQVVFLTD 378 (596)
T ss_pred ----------CHHHHHHHHHHHhhCCCC------------------CCccHHHHHHHHHHhhcccCCC--ceeEEEEEeC
Confidence 011223344455555432 3567999999998775332211 1247999999
Q ss_pred CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEE
Q 005362 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (700)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~ 357 (700)
|..+- + ....+.+. ....++.+..|.++.+ .|-..|..|++.+||..++
T Consensus 379 G~~~~--------~--------------------~~~~~~~~--~~~~~~ri~tvGiG~~-~n~~lL~~lA~~g~G~~~~ 427 (596)
T TIGR03788 379 GAVGN--------E--------------------DALFQLIR--TKLGDSRLFTVGIGSA-PNSYFMRKAAQFGRGSFTF 427 (596)
T ss_pred CCCCC--------H--------------------HHHHHHHH--HhcCCceEEEEEeCCC-cCHHHHHHHHHcCCCEEEE
Confidence 85310 0 01112221 1224567777776654 6778899999999998666
Q ss_pred eCCCCCCchhH---HHHHHhccCcceeeEEEEe
Q 005362 358 YSSTDDSTLPQ---DIYRMLSRPYAFNCIMRLR 387 (700)
Q Consensus 358 y~~~~~~~l~~---dl~~~l~~~~~~~a~~rvR 387 (700)
..+- ..+.. ++...+..+..-+..+++.
T Consensus 428 i~~~--~~~~~~~~~~l~~~~~p~l~~v~v~~~ 458 (596)
T TIGR03788 428 IGST--DEVQRKMSQLFAKLEQPALTDIALTFD 458 (596)
T ss_pred CCCH--HHHHHHHHHHHHhhcCeEEEEEEEEEc
Confidence 5432 23332 3333345565666666664
No 37
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=97.89 E-value=0.00099 Score=63.67 Aligned_cols=146 Identities=23% Similarity=0.231 Sum_probs=90.2
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhC---CCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccccc
Q 005362 124 YVAAVDLSSSE--EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (700)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~l---p~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~ 198 (700)
.+|++|.|.+. ..++.+++.++..++.+ +++.+||+|+|++..+..- ++.+
T Consensus 3 v~~vlD~S~Sm~~~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~~~~-----------------------~l~~- 58 (164)
T cd01482 3 IVFLVDGSWSIGRSNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPRTEF-----------------------DLNA- 58 (164)
T ss_pred EEEEEeCCCCcChhhHHHHHHHHHHHHhheeeCCCceEEEEEEECCCeeEEE-----------------------ecCC-
Confidence 68999999986 45777888888777765 4679999999999754310 0110
Q ss_pred CccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHh-hccc-cCCCcccceEEEEe
Q 005362 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNY-LGSE-YGNTFALARVFAFL 276 (700)
Q Consensus 199 ~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~l-l~~~-g~~~~~~gkii~f~ 276 (700)
+ . .++.+.+.|++++.. .+++.+|.||..|... +... |........|++|+
T Consensus 59 -----~----~-~~~~l~~~l~~~~~~-----------------~g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~iillT 111 (164)
T cd01482 59 -----Y----T-SKEDVLAAIKNLPYK-----------------GGNTRTGKALTHVREKNFTPDAGARPGVPKVVILIT 111 (164)
T ss_pred -----C----C-CHHHHHHHHHhCcCC-----------------CCCChHHHHHHHHHHHhcccccCCCCCCCEEEEEEc
Confidence 0 1 123344455555322 1346799999977754 4321 11111124688888
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccce
Q 005362 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGG 353 (700)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG 353 (700)
+|.++.. .++.+.++.+.||.+-.+.. ...+...|..++..+.+
T Consensus 112 DG~~~~~-------------------------------~~~~a~~lk~~gi~i~~ig~--g~~~~~~L~~ia~~~~~ 155 (164)
T cd01482 112 DGKSQDD-------------------------------VELPARVLRNLGVNVFAVGV--KDADESELKMIASKPSE 155 (164)
T ss_pred CCCCCch-------------------------------HHHHHHHHHHCCCEEEEEec--CcCCHHHHHHHhCCCch
Confidence 8865310 13467777778875555544 44568889999988654
No 38
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=97.89 E-value=0.00058 Score=64.44 Aligned_cols=148 Identities=22% Similarity=0.273 Sum_probs=98.7
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccccc
Q 005362 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (700)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp---~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~ 198 (700)
.+|++|+|.+. ..++.+++.+...+..+. ++.++|+++|++.....- ++.+
T Consensus 3 i~~llD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~~~-----------------------~~~~- 58 (161)
T cd01450 3 IVFLLDGSESVGPENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEF-----------------------SLND- 58 (161)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceEEE-----------------------ECCC-
Confidence 57999999986 257778888888877664 488999999998543210 0000
Q ss_pred CccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccC-CCcccceEEEEec
Q 005362 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYG-NTFALARVFAFLS 277 (700)
Q Consensus 199 ~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~-~~~~~gkii~f~~ 277 (700)
. . .++.+.+.++.+..... +.+.++.||..|...+....+ .......|++|++
T Consensus 59 -----~----~-~~~~~~~~i~~~~~~~~----------------~~t~~~~al~~a~~~~~~~~~~~~~~~~~iiliTD 112 (161)
T cd01450 59 -----Y----K-SKDDLLKAVKNLKYLGG----------------GGTNTGKALQYALEQLFSESNARENVPKVIIVLTD 112 (161)
T ss_pred -----C----C-CHHHHHHHHHhcccCCC----------------CCccHHHHHHHHHHHhcccccccCCCCeEEEEECC
Confidence 0 0 12344555555543210 247899999999999875421 0112357999999
Q ss_pred CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccc
Q 005362 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESG 352 (700)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TG 352 (700)
|.++.++ + ..++.+.+.+.++.|..+..+. .+...|..|+..||
T Consensus 113 G~~~~~~------~-----------------------~~~~~~~~~~~~v~v~~i~~g~--~~~~~l~~la~~~~ 156 (161)
T cd01450 113 GRSDDGG------D-----------------------PKEAAAKLKDEGIKVFVVGVGP--ADEEELREIASCPS 156 (161)
T ss_pred CCCCCCc------c-----------------------hHHHHHHHHHCCCEEEEEeccc--cCHHHHHHHhCCCC
Confidence 9877653 0 1356667777899888887766 78888999998883
No 39
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=97.88 E-value=0.00047 Score=69.61 Aligned_cols=156 Identities=20% Similarity=0.218 Sum_probs=98.9
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHHHhC---CCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccc
Q 005362 123 VYVAAVDLSSSE--EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (700)
Q Consensus 123 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~l---p~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~ 197 (700)
-.+|+||.|.+. ..++.+++.+...++.+ |+.++||+|+|++.+++.- ++.+
T Consensus 4 DlvfllD~S~Sm~~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~~~~-----------------------~l~~ 60 (224)
T cd01475 4 DLVFLIDSSRSVRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQEF-----------------------PLGR 60 (224)
T ss_pred cEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcccCCCccEEEEEEecCceeEEe-----------------------cccc
Confidence 478999999985 46888999999888876 3578999999999765410 1110
Q ss_pred cCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhh-ccc-cCCCcc---cceE
Q 005362 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYL-GSE-YGNTFA---LARV 272 (700)
Q Consensus 198 ~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll-~~~-g~~~~~---~gki 272 (700)
+ . .+..+.+.|+.++... +++.+|.||..|...+ ... |..... ...|
T Consensus 61 ------~----~-~~~~l~~~i~~i~~~~-----------------~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvv 112 (224)
T cd01475 61 ------F----K-SKADLKRAVRRMEYLE-----------------TGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVG 112 (224)
T ss_pred ------c----C-CHHHHHHHHHhCcCCC-----------------CCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEE
Confidence 0 0 2334556666665431 2457899999888653 221 111000 1246
Q ss_pred EEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccc
Q 005362 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESG 352 (700)
Q Consensus 273 i~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TG 352 (700)
+++++|.++- -..+.+.++.+.||.|-.+.. ...|..+|..++..++
T Consensus 113 illTDG~s~~-------------------------------~~~~~a~~lk~~gv~i~~Vgv--G~~~~~~L~~ias~~~ 159 (224)
T cd01475 113 IVVTDGRPQD-------------------------------DVSEVAAKARALGIEMFAVGV--GRADEEELREIASEPL 159 (224)
T ss_pred EEEcCCCCcc-------------------------------cHHHHHHHHHHCCcEEEEEeC--CcCCHHHHHHHhCCCc
Confidence 7888875421 023567777788876555544 3468899999998765
Q ss_pred e-EEEEeCCCC
Q 005362 353 G-SLFLYSSTD 362 (700)
Q Consensus 353 G-~~~~y~~~~ 362 (700)
+ .++.-.+|+
T Consensus 160 ~~~~f~~~~~~ 170 (224)
T cd01475 160 ADHVFYVEDFS 170 (224)
T ss_pred HhcEEEeCCHH
Confidence 4 666666664
No 40
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=97.88 E-value=0.00028 Score=81.19 Aligned_cols=177 Identities=13% Similarity=0.112 Sum_probs=114.5
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHh-CCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccc
Q 005362 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEA-VPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (700)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~-lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~ 197 (700)
.-.++|+||+|.++ ..++.+|.++...+.. +.++.+||+|+|++...-+ .+
T Consensus 407 ~~~v~fvvD~SGSM~~~rl~~aK~av~~Ll~~~~~~~D~v~Li~F~~~~a~~------------~l-------------- 460 (589)
T TIGR02031 407 GRLLIFVVDASGSAAVARMSEAKGAVELLLGEAYVHRDQVSLIAFRGTAAEV------------LL-------------- 460 (589)
T ss_pred CceEEEEEECCCCCChHHHHHHHHHHHHHHHhhccCCCEEEEEEECCCCceE------------EC--------------
Confidence 44688999999987 3578888888887764 4566799999998643111 11
Q ss_pred cCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEec
Q 005362 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (700)
Q Consensus 198 ~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~ 277 (700)
|. ......+...|+.|+.. +++.++.||..|...+....... .--.|+++++
T Consensus 461 --p~-------t~~~~~~~~~L~~l~~g------------------GgTpL~~gL~~A~~~~~~~~~~~-~~~~ivllTD 512 (589)
T TIGR02031 461 --PP-------SRSVEQAKRRLDVLPGG------------------GGTPLAAGLAAAFQTALQARSSG-GTPTIVLITD 512 (589)
T ss_pred --CC-------CCCHHHHHHHHhcCCCC------------------CCCcHHHHHHHHHHHHHHhcccC-CceEEEEECC
Confidence 00 00112233456655432 35779999999999886432110 0137999999
Q ss_pred CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEE
Q 005362 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (700)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~ 357 (700)
|.+|.|-+.....+.. + ..+..+-...++..+.+.||.+-++-+...+.+..-+..|++..||..++
T Consensus 513 G~~nv~~~~~~~~~~~--------~-----~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~y~~ 579 (589)
T TIGR02031 513 GRGNIPLDGDPESIKA--------D-----REQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAHYIY 579 (589)
T ss_pred CCCCCCCCcccccccc--------c-----chhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCcEEe
Confidence 9999875321100000 0 01122233567888889998877777777777777789999999999998
Q ss_pred eCCCCCC
Q 005362 358 YSSTDDS 364 (700)
Q Consensus 358 y~~~~~~ 364 (700)
.++-+..
T Consensus 580 l~~~~a~ 586 (589)
T TIGR02031 580 LPNATAA 586 (589)
T ss_pred CCCCChh
Confidence 8876543
No 41
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=97.87 E-value=0.0006 Score=77.83 Aligned_cols=175 Identities=15% Similarity=0.135 Sum_probs=113.2
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHh-CCCCcEEEEeeecce-EEEEEccCCCCceeeeeeCCCCCcccccccc
Q 005362 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEA-VPSGALFGLATFSHK-IGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (700)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~-lp~~~~vgiItf~~~-V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~ 196 (700)
+-.++||||+|.++ ..+..+|.++...|.. +.++.+||+|+|++. ..+ .+
T Consensus 401 ~~~vvfvvD~SGSM~~~rl~~aK~a~~~ll~~ay~~rD~v~lI~F~g~~a~~-------------~l------------- 454 (584)
T PRK13406 401 ETTTIFVVDASGSAALHRLAEAKGAVELLLAEAYVRRDQVALVAFRGRGAEL-------------LL------------- 454 (584)
T ss_pred CccEEEEEECCCCCcHhHHHHHHHHHHHHHHhhcCCCCEEEEEEECCCceeE-------------Ec-------------
Confidence 45799999999986 5778888888887754 567789999999764 321 11
Q ss_pred ccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEe
Q 005362 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFL 276 (700)
Q Consensus 197 ~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~ 276 (700)
| ...+...+...|+.|+.. +++.++.||..|..++....... ..-.|++++
T Consensus 455 ---p-------pT~~~~~~~~~L~~l~~g------------------GgTpL~~gL~~A~~~l~~~~~~~-~~~~iVLlT 505 (584)
T PRK13406 455 ---P-------PTRSLVRAKRSLAGLPGG------------------GGTPLAAGLDAAAALALQVRRKG-MTPTVVLLT 505 (584)
T ss_pred ---C-------CCcCHHHHHHHHhcCCCC------------------CCChHHHHHHHHHHHHHHhccCC-CceEEEEEe
Confidence 1 000112233445555432 45789999999998876432100 125899999
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEE
Q 005362 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (700)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~ 356 (700)
+|.+|.|.+.-..++.. ..+ =..++..+.+.+|.+-++-+.... ...+..|++.+||..|
T Consensus 506 DG~~n~~~~~~~~~~~~-----------------~~~-~~~~a~~~~~~gi~~~vId~g~~~--~~~~~~LA~~~gg~y~ 565 (584)
T PRK13406 506 DGRANIARDGTAGRAQA-----------------EED-ALAAARALRAAGLPALVIDTSPRP--QPQARALAEAMGARYL 565 (584)
T ss_pred CCCCCCCccccccccch-----------------hhH-HHHHHHHHHhcCCeEEEEecCCCC--cHHHHHHHHhcCCeEE
Confidence 99999875422111100 000 034677788888876666665443 3457999999999999
Q ss_pred EeCCCCCCchhHHH
Q 005362 357 LYSSTDDSTLPQDI 370 (700)
Q Consensus 357 ~y~~~~~~~l~~dl 370 (700)
..+.-+...+.+-.
T Consensus 566 ~l~~~~a~~~~~~v 579 (584)
T PRK13406 566 PLPRADAGRLSQAV 579 (584)
T ss_pred ECCCCCHHHHHHHH
Confidence 99888766655433
No 42
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=97.75 E-value=0.0013 Score=73.44 Aligned_cols=165 Identities=14% Similarity=0.091 Sum_probs=96.6
Q ss_pred CcEEEEEEECCCChh---HHHHHHHHHHHHHHhC---CCCcEEEEeeecceEEE-EEccCCCCceeeeeeCCCCCccccc
Q 005362 121 RPVYVAAVDLSSSEE---FLELTRSALQAALEAV---PSGALFGLATFSHKIGL-YDVQGAIPVVKNVFIPSDTEDTLSL 193 (700)
Q Consensus 121 ~p~~vFvID~s~~~~---~l~~~~~~l~~~l~~l---p~~~~vgiItf~~~V~~-~~l~~~~~~~~~~~~~~~~~~~~~~ 193 (700)
.--.+|+||+|.+.+ .++.++..+...+..+ +++.+||+++|++..+. +.+....
T Consensus 42 ~lDIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r~vfpL~s~~------------------ 103 (576)
T PTZ00441 42 EVDLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTTELIRLGSGA------------------ 103 (576)
T ss_pred CceEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCceEEEecCCCc------------------
Confidence 346889999999863 3466777777777766 35689999999987542 2221100
Q ss_pred cccccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEE
Q 005362 194 ELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVF 273 (700)
Q Consensus 194 dl~~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii 273 (700)
...+..+...|..|..... + .+++.+|.||..|...+...+......+.||
T Consensus 104 ---------------s~Dk~~aL~~I~sL~~~~~---p-----------gGgTnig~AL~~Aae~L~sr~~R~nvpKVVI 154 (576)
T PTZ00441 104 ---------------SKDKEQALIIVKSLRKTYL---P-----------YGKTNMTDALLEVRKHLNDRVNRENAIQLVI 154 (576)
T ss_pred ---------------cccHHHHHHHHHHHHhhcc---C-----------CCCccHHHHHHHHHHHHhhcccccCCceEEE
Confidence 0011222333333322100 0 1357899999998888865432112236899
Q ss_pred EEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcc----c
Q 005362 274 AFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLS----I 349 (700)
Q Consensus 274 ~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~----~ 349 (700)
+|++|.++.+.. - .+.+..+.+.||.|-+|..+. ..+...+..|+ .
T Consensus 155 LLTDG~sns~~d----------------------------v-leaAq~LR~~GVeI~vIGVG~-g~n~e~LrlIAgC~p~ 204 (576)
T PTZ00441 155 LMTDGIPNSKYR----------------------------A-LEESRKLKDRNVKLAVIGIGQ-GINHQFNRLLAGCRPR 204 (576)
T ss_pred EEecCCCCCccc----------------------------H-HHHHHHHHHCCCEEEEEEeCC-CcCHHHHHHHhccCCC
Confidence 999987542100 0 134566777888776666643 46655555555 3
Q ss_pred ccceEEEEeCCCC
Q 005362 350 ESGGSLFLYSSTD 362 (700)
Q Consensus 350 ~TGG~~~~y~~~~ 362 (700)
.++|.+|...+|+
T Consensus 205 ~g~c~~Y~vadf~ 217 (576)
T PTZ00441 205 EGKCKFYSDADWE 217 (576)
T ss_pred CCCCceEEeCCHH
Confidence 3456767776774
No 43
>smart00327 VWA von Willebrand factor (vWF) type A domain. VWA domains in extracellular eukaryotic proteins mediate adhesion via metal ion-dependent adhesion sites (MIDAS). Intracellular VWA domains and homologues in prokaryotes have recently been identified. The proposed VWA domains in integrin beta subunits have recently been substantiated using sequence-based methods.
Probab=97.70 E-value=0.0023 Score=61.23 Aligned_cols=155 Identities=23% Similarity=0.211 Sum_probs=103.3
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHHHhCCC---CcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccc
Q 005362 123 VYVAAVDLSSSE--EFLELTRSALQAALEAVPS---GALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (700)
Q Consensus 123 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~---~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~ 197 (700)
-++|+||+|.+. ..++.+++.+...+..+.. +.+||+++|++..+.+.- ..
T Consensus 3 ~v~l~vD~S~SM~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~~~~--------------------~~---- 58 (177)
T smart00327 3 DVVFLLDGSGSMGPNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATVLFP--------------------LN---- 58 (177)
T ss_pred cEEEEEeCCCccchHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceEEEc--------------------cc----
Confidence 478999999986 5677888888888877765 889999999994432110 00
Q ss_pred cCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhcccc--CCCcccceEEEE
Q 005362 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEY--GNTFALARVFAF 275 (700)
Q Consensus 198 ~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g--~~~~~~gkii~f 275 (700)
.....+.+...++.+... . .....++.|+..|...+.... ......-.|++|
T Consensus 59 ----------~~~~~~~~~~~i~~~~~~--~--------------~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~ivii 112 (177)
T smart00327 59 ----------DSRSKDALLEALASLSYK--L--------------GGGTNLGAALQYALENLFSKSAGSRRGAPKVLILI 112 (177)
T ss_pred ----------ccCCHHHHHHHHHhcCCC--C--------------CCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEE
Confidence 011223455566665531 0 133578999999998885221 100001368888
Q ss_pred ecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEE
Q 005362 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSL 355 (700)
Q Consensus 276 ~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~ 355 (700)
++|.++.+ ..+.+...++.+.+|.+..+.++... +...+..++..++|..
T Consensus 113 tDg~~~~~-----------------------------~~~~~~~~~~~~~~i~i~~i~~~~~~-~~~~l~~~~~~~~~~~ 162 (177)
T smart00327 113 TDGESNDG-----------------------------GDLLKAAKELKRSGVKVFVVGVGNDV-DEEELKKLASAPGGVY 162 (177)
T ss_pred cCCCCCCC-----------------------------ccHHHHHHHHHHCCCEEEEEEccCcc-CHHHHHHHhCCCcceE
Confidence 88877644 12356777888888888888877554 7788999999999886
Q ss_pred EE
Q 005362 356 FL 357 (700)
Q Consensus 356 ~~ 357 (700)
.+
T Consensus 163 ~~ 164 (177)
T smart00327 163 VF 164 (177)
T ss_pred Ee
Confidence 55
No 44
>PF00092 VWA: von Willebrand factor type A domain; InterPro: IPR002035 The von Willebrand factor is a large multimeric glycoprotein found in blood plasma. Mutant forms are involved in the aetiology of bleeding disorders []. In von Willebrand factor, the type A domain (vWF) is the prototype for a protein superfamily. The vWF domain is found in various plasma proteins: complement factors B, C2, CR3 and CR4; the integrins (I-domains); collagen types VI, VII, XII and XIV; and other extracellular proteins [, , ]. Although the majority of VWA-containing proteins are extracellular, the most ancient ones present in all eukaryotes are all intracellular proteins involved in functions such as transcription, DNA repair, ribosomal and membrane transport and the proteasome. A common feature appears to be involvement in multiprotein complexes. Proteins that incorporate vWF domains participate in numerous biological events (e.g. cell adhesion, migration, homing, pattern formation, and signal transduction), involving interaction with a large array of ligands []. A number of human diseases arise from mutations in VWA domains. Secondary structure prediction from 75 aligned vWF sequences has revealed a largely alternating sequence of alpha-helices and beta-strands []. Fold recognition algorithms were used to score sequence compatibility with a library of known structures: the vWF domain fold was predicted to be a doubly-wound, open, twisted beta-sheet flanked by alpha-helices []. 3D structures have been determined for the I-domains of integrins CD11b (with bound magnesium) [] and CD11a (with bound manganese) []. The domain adopts a classic alpha/beta Rossmann fold and contains an unusual metal ion coordination site at its surface. It has been suggested that this site represents a general metal ion-dependent adhesion site (MIDAS) for binding protein ligands []. The residues constituting the MIDAS motif in the CD11b and CD11a I-domains are completely conserved, but the manner in which the metal ion is coordinated differs slightly [].; GO: 0005515 protein binding; PDB: 2XGG_B 3ZQK_B 3GXB_A 3PPV_A 3PPX_A 3PPW_A 3PPY_A 1CQP_B 3TCX_B 2ICA_A ....
Probab=97.70 E-value=0.00055 Score=65.82 Aligned_cols=158 Identities=21% Similarity=0.269 Sum_probs=95.4
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhC---CCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccccc
Q 005362 124 YVAAVDLSSSE--EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (700)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~l---p~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~ 198 (700)
.+|+||.|.+. ..++.+++.+...++.+ +++.|||+|+|++..+.+- ++.+
T Consensus 2 ivflvD~S~sm~~~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~~~~-----------------------~~~~- 57 (178)
T PF00092_consen 2 IVFLVDTSGSMSGDNFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSARVLF-----------------------SLTD- 57 (178)
T ss_dssp EEEEEE-STTSCHHHHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEEEEE-----------------------ETTS-
T ss_pred EEEEEeCCCCCchHHHHHHHHHHHHHHHhhhccccccccceeeeeccccccc-----------------------cccc-
Confidence 58999999986 35888999999988855 5689999999999876321 0100
Q ss_pred CccCcCccchHhHHHHHHHHH-HhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccc--cCCCcccceEEEE
Q 005362 199 MPLSQFLAPVETFKENITSAL-ETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE--YGNTFALARVFAF 275 (700)
Q Consensus 199 ~p~~~~l~~l~~~~~~i~~ll-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~--g~~~~~~gkii~f 275 (700)
.. ....+.+.+ ..++.. .+.+.+|.||..|...+... |+......-++++
T Consensus 58 ---------~~-~~~~~~~~i~~~~~~~-----------------~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~iili 110 (178)
T PF00092_consen 58 ---------YQ-SKNDLLNAINDSIPSS-----------------GGGTNLGAALKFAREQLFSSNNGGRPNSPKVIILI 110 (178)
T ss_dssp ---------HS-SHHHHHHHHHTTGGCC-----------------BSSB-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEE
T ss_pred ---------cc-cccccccccccccccc-----------------chhhhHHHHHhhhhhcccccccccccccccceEEE
Confidence 00 112222222 333221 14577999999999998654 2111123457888
Q ss_pred ecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccc--cce
Q 005362 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE--SGG 353 (700)
Q Consensus 276 ~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~--TGG 353 (700)
++|.++.++-.. ..+..+.+. ..|.+|+.+.+..+..+|..|+.. .+|
T Consensus 111 TDG~~~~~~~~~-----------------------------~~~~~~~~~-~~i~~~~ig~~~~~~~~l~~la~~~~~~~ 160 (178)
T PF00092_consen 111 TDGNSNDSDSPS-----------------------------EEAANLKKS-NGIKVIAIGIDNADNEELRELASCPTSEG 160 (178)
T ss_dssp ESSSSSSHSGHH-----------------------------HHHHHHHHH-CTEEEEEEEESCCHHHHHHHHSHSSTCHH
T ss_pred EeecccCCcchH-----------------------------HHHHHHHHh-cCcEEEEEecCcCCHHHHHHHhCCCCCCC
Confidence 888765432111 111122221 455677666677888999999955 446
Q ss_pred EEEEeCCCC
Q 005362 354 SLFLYSSTD 362 (700)
Q Consensus 354 ~~~~y~~~~ 362 (700)
.+++..+++
T Consensus 161 ~~~~~~~~~ 169 (178)
T PF00092_consen 161 HVFYLADFS 169 (178)
T ss_dssp HEEEESSHH
T ss_pred cEEEcCCHH
Confidence 777776653
No 45
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.69 E-value=0.00089 Score=66.81 Aligned_cols=171 Identities=16% Similarity=0.138 Sum_probs=113.8
Q ss_pred CcEEEEEEECCCCh---hHHHHHHHHHHHHHH-hCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccc
Q 005362 121 RPVYVAAVDLSSSE---EFLELTRSALQAALE-AVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (700)
Q Consensus 121 ~p~~vFvID~s~~~---~~l~~~~~~l~~~l~-~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~ 196 (700)
..-+|||||.|.+. ..++++|-++.+.|. .-..+.+|++|+|...= ..++
T Consensus 78 g~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq~RdkvavI~F~G~~------------A~ll-------------- 131 (261)
T COG1240 78 GNLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQRRDKVAVIAFRGEK------------AELL-------------- 131 (261)
T ss_pred CCcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHHccceEEEEEecCCc------------ceEE--------------
Confidence 34699999999996 357777877777665 44567899999997520 0111
Q ss_pred ccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCC-CcccceEEEE
Q 005362 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGN-TFALARVFAF 275 (700)
Q Consensus 197 ~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~-~~~~gkii~f 275 (700)
+|...+-+.+.+.|+.|+.- +.+=+..||..|..++...... ...--.+++.
T Consensus 132 ---------l~pT~sv~~~~~~L~~l~~G------------------G~TPL~~aL~~a~ev~~r~~r~~p~~~~~~vvi 184 (261)
T COG1240 132 ---------LPPTSSVELAERALERLPTG------------------GKTPLADALRQAYEVLAREKRRGPDRRPVMVVI 184 (261)
T ss_pred ---------eCCcccHHHHHHHHHhCCCC------------------CCCchHHHHHHHHHHHHHhhccCCCcceEEEEE
Confidence 12222334556677777653 2345899999999999765411 1112489999
Q ss_pred ecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEE
Q 005362 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSL 355 (700)
Q Consensus 276 ~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~ 355 (700)
++|.||.+.+.=...+ -.+.+.++...|+-+=+.-+-..++.+.-...||+..||.+
T Consensus 185 TDGr~n~~~~~~~~~e-----------------------~~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~ 241 (261)
T COG1240 185 TDGRANVPIPLGPKAE-----------------------TLEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEY 241 (261)
T ss_pred eCCccCCCCCCchHHH-----------------------HHHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeE
Confidence 9999988765321110 02356666667776556656666777777799999999999
Q ss_pred EEeCCCCCCchh
Q 005362 356 FLYSSTDDSTLP 367 (700)
Q Consensus 356 ~~y~~~~~~~l~ 367 (700)
++.+......+.
T Consensus 242 ~~L~~l~~~~i~ 253 (261)
T COG1240 242 YHLDDLSDDSIV 253 (261)
T ss_pred EecccccchHHH
Confidence 999877665554
No 46
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=97.68 E-value=0.00064 Score=79.11 Aligned_cols=160 Identities=16% Similarity=0.173 Sum_probs=104.7
Q ss_pred CcEEEEEEECCCCh---hHHHHHHHHHHHHHH-hCCCCcEEEEeeecce-EEEEEccCCCCceeeeeeCCCCCccccccc
Q 005362 121 RPVYVAAVDLSSSE---EFLELTRSALQAALE-AVPSGALFGLATFSHK-IGLYDVQGAIPVVKNVFIPSDTEDTLSLEL 195 (700)
Q Consensus 121 ~p~~vFvID~s~~~---~~l~~~~~~l~~~l~-~lp~~~~vgiItf~~~-V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl 195 (700)
...++|+||+|.++ ..++.++.++...+. ....+.+||+|+|+.. ..+ .+
T Consensus 465 ~~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~a~~~~D~v~lI~F~g~~a~~-------------~~------------ 519 (633)
T TIGR02442 465 GNLVIFVVDASGSMAARGRMAAAKGAVLSLLRDAYQKRDKVALITFRGEEAEV-------------LL------------ 519 (633)
T ss_pred CceEEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceE-------------Ec------------
Confidence 44788999999986 356777877777664 4566789999999753 221 11
Q ss_pred cccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhcc---ccCCCcccceE
Q 005362 196 EDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGS---EYGNTFALARV 272 (700)
Q Consensus 196 ~~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~---~g~~~~~~gki 272 (700)
| .......+...|+.|+.. +++.++.||..|..++.. .++ ...+.|
T Consensus 520 ----p-------~t~~~~~~~~~L~~l~~g------------------G~Tpl~~aL~~A~~~l~~~~~~~~--~~~~~v 568 (633)
T TIGR02442 520 ----P-------PTSSVELAARRLEELPTG------------------GRTPLAAGLLKAAEVLSNELLRDD--DGRPLL 568 (633)
T ss_pred ----C-------CCCCHHHHHHHHHhCCCC------------------CCCCHHHHHHHHHHHHHHhhccCC--CCceEE
Confidence 1 111223334456655432 346799999999988873 111 013689
Q ss_pred EEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccc
Q 005362 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESG 352 (700)
Q Consensus 273 i~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TG 352 (700)
+++++|.+|.|.+. .+ +..+ -..++..+.+.+|.+.++-+....++..-+..||+.+|
T Consensus 569 vliTDG~~n~~~~~---~~------------------~~~~-~~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~g 626 (633)
T TIGR02442 569 VVITDGRANVADGG---EP------------------PTDD-ARTIAAKLAARGILFVVIDTESGFVRLGLAEDLARALG 626 (633)
T ss_pred EEECCCCCCCCCCC---CC------------------hHHH-HHHHHHHHHhcCCeEEEEeCCCCCcchhHHHHHHHhhC
Confidence 99999999986211 00 0001 13567777778887776666666777888999999999
Q ss_pred eEEEEe
Q 005362 353 GSLFLY 358 (700)
Q Consensus 353 G~~~~y 358 (700)
|..+..
T Consensus 627 g~y~~l 632 (633)
T TIGR02442 627 GEYVRL 632 (633)
T ss_pred CeEEec
Confidence 997653
No 47
>cd01476 VWA_integrin_invertebrates VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions. Because of their involvement in many biologically important adhesion processes, integrins are conserved across a wide range of multicellular animals. Integrins from invertebrates have been identified from six phyla. There are no data to date to suggest any immunological functions for the invertebrate integrins. The members of this sub-group have the conserved MIDAS motif that is charateristic of this domain suggesting the involvement of the integrins in the recognition and binding of multi-ligands.
Probab=97.67 E-value=0.0031 Score=60.02 Aligned_cols=108 Identities=18% Similarity=0.163 Sum_probs=66.8
Q ss_pred EEEEEECCCCh-hHHHHHHHHHHHHHHhCC---CCcEEEEeeecce--EEEEEccCCCCceeeeeeCCCCCccccccccc
Q 005362 124 YVAAVDLSSSE-EFLELTRSALQAALEAVP---SGALFGLATFSHK--IGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (700)
Q Consensus 124 ~vFvID~s~~~-~~l~~~~~~l~~~l~~lp---~~~~vgiItf~~~--V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~ 197 (700)
++|++|+|.+. +.++..++.+++.++.+. +..+||+|+|++. .++.- .+.+
T Consensus 3 v~~llD~S~Sm~~~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~~~~~-----------------------~l~~ 59 (163)
T cd01476 3 LLFVLDSSGSVRGKFEKYKKYIERIVEGLEIGPTATRVALITYSGRGRQRVRF-----------------------NLPK 59 (163)
T ss_pred EEEEEeCCcchhhhHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCceEEEe-----------------------cCCC
Confidence 68999999985 445667777888877664 4789999999883 33210 0000
Q ss_pred cCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccc-cCCCcccceEEEEe
Q 005362 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE-YGNTFALARVFAFL 276 (700)
Q Consensus 198 ~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~-g~~~~~~gkii~f~ 276 (700)
...++.+...++.|+.. .+.+.+|.||..|...+... +........|++++
T Consensus 60 -----------~~~~~~l~~~i~~l~~~-----------------gg~T~l~~aL~~a~~~l~~~~~~r~~~~~~villT 111 (163)
T cd01476 60 -----------HNDGEELLEKVDNLRFI-----------------GGTTATGAAIEVALQQLDPSEGRREGIPKVVVVLT 111 (163)
T ss_pred -----------CCCHHHHHHHHHhCccC-----------------CCCccHHHHHHHHHHHhccccCCCCCCCeEEEEEC
Confidence 00223445556655422 03468999999999998522 11111124688888
Q ss_pred cCCCCC
Q 005362 277 SGPPDH 282 (700)
Q Consensus 277 ~g~pt~ 282 (700)
+|.++.
T Consensus 112 DG~~~~ 117 (163)
T cd01476 112 DGRSHD 117 (163)
T ss_pred CCCCCC
Confidence 887653
No 48
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=97.64 E-value=0.0038 Score=59.77 Aligned_cols=154 Identities=19% Similarity=0.198 Sum_probs=93.7
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccccc
Q 005362 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (700)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp---~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~ 198 (700)
.+|+||.|.+- ..++.+++.++..++.++ +.+|||+|+|++..+.. + ++.+
T Consensus 3 ivfllD~S~Si~~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~~~------------~-----------~l~~- 58 (165)
T cd01481 3 IVFLIDGSDNVGSGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPRPE------------F-----------YLNT- 58 (165)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCeeEE------------E-----------eccc-
Confidence 58999999874 578888888888888774 57899999999865431 0 1111
Q ss_pred CccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhh-ccccCCCcc---cceEEE
Q 005362 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYL-GSEYGNTFA---LARVFA 274 (700)
Q Consensus 199 ~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll-~~~g~~~~~---~gkii~ 274 (700)
+ . .+..+.+.++.++... ...+.+|.||..+...+ ...+|...+ .-.+++
T Consensus 59 -----~----~-~~~~l~~~i~~i~~~~----------------g~~t~t~~AL~~~~~~~f~~~~g~R~~~~~~kv~vv 112 (165)
T cd01481 59 -----H----S-TKADVLGAVRRLRLRG----------------GSQLNTGSALDYVVKNLFTKSAGSRIEEGVPQFLVL 112 (165)
T ss_pred -----c----C-CHHHHHHHHHhcccCC----------------CCcccHHHHHHHHHHhhcCccccCCccCCCCeEEEE
Confidence 0 0 2233455566664321 01356899999876544 433221100 113567
Q ss_pred EecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceE
Q 005362 275 FLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGS 354 (700)
Q Consensus 275 f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~ 354 (700)
+++|.++- -..+-|..+.+.|| .+|..+....|..+|..++..- -.
T Consensus 113 iTdG~s~d-------------------------------~~~~~a~~lr~~gv--~i~~vG~~~~~~~eL~~ias~p-~~ 158 (165)
T cd01481 113 ITGGKSQD-------------------------------DVERPAVALKRAGI--VPFAIGARNADLAELQQIAFDP-SF 158 (165)
T ss_pred EeCCCCcc-------------------------------hHHHHHHHHHHCCc--EEEEEeCCcCCHHHHHHHhCCC-cc
Confidence 77774320 12356777777786 5676666668888998888655 35
Q ss_pred EEEeCCC
Q 005362 355 LFLYSST 361 (700)
Q Consensus 355 ~~~y~~~ 361 (700)
++..++|
T Consensus 159 vf~v~~f 165 (165)
T cd01481 159 VFQVSDF 165 (165)
T ss_pred EEEecCC
Confidence 5554443
No 49
>cd00198 vWFA Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains.
Probab=97.54 E-value=0.0036 Score=58.35 Aligned_cols=149 Identities=23% Similarity=0.297 Sum_probs=97.3
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHHHhCCC---CcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccc
Q 005362 123 VYVAAVDLSSSE--EFLELTRSALQAALEAVPS---GALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (700)
Q Consensus 123 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~---~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~ 197 (700)
.++|+||+|.+. ..++.+++.+...+..++. ..++|++.|+...+.+- .+.+
T Consensus 2 ~v~~viD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~~~-----------------------~~~~ 58 (161)
T cd00198 2 DIVFLLDVSGSMGGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVVL-----------------------PLTT 58 (161)
T ss_pred cEEEEEeCCCCcCcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccceee-----------------------cccc
Confidence 378999999985 6788889999888888875 78999999998433210 0000
Q ss_pred cCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEec
Q 005362 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (700)
Q Consensus 198 ~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~ 277 (700)
. ...+.+...++.+... . .+...+..|+..|...+..... ......+++|++
T Consensus 59 ------~-----~~~~~~~~~~~~~~~~--~--------------~~~t~~~~al~~~~~~~~~~~~-~~~~~~lvvitD 110 (161)
T cd00198 59 ------D-----TDKADLLEAIDALKKG--L--------------GGGTNIGAALRLALELLKSAKR-PNARRVIILLTD 110 (161)
T ss_pred ------c-----CCHHHHHHHHHhcccC--C--------------CCCccHHHHHHHHHHHhcccCC-CCCceEEEEEeC
Confidence 0 0223344555555430 0 1346789999999999875310 011357888888
Q ss_pred CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhccccc
Q 005362 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (700)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~T 351 (700)
|.++.++- -..+....+.+.++.+.++.++. ..+-..+..++..|
T Consensus 111 g~~~~~~~----------------------------~~~~~~~~~~~~~v~v~~v~~g~-~~~~~~l~~l~~~~ 155 (161)
T cd00198 111 GEPNDGPE----------------------------LLAEAARELRKLGITVYTIGIGD-DANEDELKEIADKT 155 (161)
T ss_pred CCCCCCcc----------------------------hhHHHHHHHHHcCCEEEEEEcCC-CCCHHHHHHHhccc
Confidence 87655440 01245666777799998888776 45566788888887
No 50
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=97.45 E-value=0.00091 Score=64.73 Aligned_cols=45 Identities=20% Similarity=0.169 Sum_probs=35.9
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC------CCcEEEEeeecceEEE
Q 005362 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP------SGALFGLATFSHKIGL 168 (700)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp------~~~~vgiItf~~~V~~ 168 (700)
.+|+||+|.+. ..++.+++++...++.+. ++.+||||+|++..+.
T Consensus 6 v~~llD~SgSM~~~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~~ 58 (176)
T cd01464 6 IYLLLDTSGSMAGEPIEALNQGLQMLQSELRQDPYALESVEISVITFDSAARV 58 (176)
T ss_pred EEEEEECCCCCCChHHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCceE
Confidence 57999999985 567788888888887764 3579999999997653
No 51
>PF04056 Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like proteins are 40 kDa subunits of the transcription factor II H complex. This domain is often found associated with the C2H2 type Zn-finger (IPR007087 from INTERPRO).; GO: 0008270 zinc ion binding, 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent
Probab=97.29 E-value=0.0031 Score=61.23 Aligned_cols=97 Identities=10% Similarity=0.182 Sum_probs=71.0
Q ss_pred CCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHH
Q 005362 244 GGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAV 323 (700)
Q Consensus 244 ~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~ 323 (700)
+...+-.||+.|...|+...+.+ .=.|+++.++.-|..||.+ .+..+.+.
T Consensus 78 G~~SLqN~Le~A~~~L~~~p~~~--srEIlvi~gSl~t~Dp~di----------------------------~~ti~~l~ 127 (193)
T PF04056_consen 78 GEPSLQNGLEMARSSLKHMPSHG--SREILVIFGSLTTCDPGDI----------------------------HETIESLK 127 (193)
T ss_pred CChhHHHHHHHHHHHHhhCcccc--ceEEEEEEeecccCCchhH----------------------------HHHHHHHH
Confidence 45789999999999998653211 1277787888877877744 26788999
Q ss_pred HcCcEEEEeeecCCCcChhhhhhcccccceEEEEeCCCCCCchhHHHHHHhc
Q 005362 324 QAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRMLS 375 (700)
Q Consensus 324 ~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~~~~~~l~~dl~~~l~ 375 (700)
+.+|-|++..++. .+...+.+|+.|||..... -|...|++-|..+..
T Consensus 128 ~~~IrvsvI~laa---Ev~I~k~i~~~T~G~y~V~--lde~H~~~lL~~~~~ 174 (193)
T PF04056_consen 128 KENIRVSVISLAA---EVYICKKICKETGGTYGVI--LDEDHFKELLMEHVP 174 (193)
T ss_pred HcCCEEEEEEEhH---HHHHHHHHHHhhCCEEEEe--cCHHHHHHHHHhhCC
Confidence 9999999998875 5667899999999953322 455567765555544
No 52
>PF00626 Gelsolin: Gelsolin repeat; InterPro: IPR007123 Gelsolin is a cytoplasmic, calcium-regulated, actin-modulating protein that binds to the barbed ends of actin filaments, preventing monomer exchange (end-blocking or capping) []. It can promote nucleation (the assembly of monomers into filaments), as well as sever existing filaments. In addition, this protein binds with high affinity to fibronectin. Plasma gelsolin and cytoplasmic gelsolin are derived from a single gene by alternate initiation sites and differential splicing. Sequence comparisons indicate an evolutionary relationship between gelsolin, villin, fragmin and severin []. Six large repeating segments occur in gelsolin and villin, and 3 similar segments in severin and fragmin. While the multiple repeats have yet to be related to any known function of the actin-severing proteins, the superfamily appears to have evolved from an ancestral sequence of 120 to 130 amino acid residues [].; PDB: 3FG6_F 1RGI_G 2FGH_A 1D0N_B 3EGD_B 2NUP_B 2NUT_B 3EGX_B 1JHW_A 1J72_A ....
Probab=97.28 E-value=0.00036 Score=57.29 Aligned_cols=59 Identities=19% Similarity=0.370 Sum_probs=44.3
Q ss_pred cCCCcEEEEecCceEEEEEecCCCCCCCCCCCccHHHHHHHHHHH-HhcCCCCeEEEEeCCCCcHH
Q 005362 597 TSGSPIFLLDAFTTIIVFYSSTADPTLPFPPPQDCLLRTTINKMK-QERSITPKLIFIRGGQDDAT 661 (700)
Q Consensus 597 ~~~~~i~LlD~~~~i~i~~g~~~~~~~~~~~~~~~~~~~~i~~l~-~~R~~~p~~~vv~~g~~~~~ 661 (700)
++++++||||++..+|+|+|++.+. .+...-..+...+. ..|...+++.++.+|...++
T Consensus 15 L~s~~~yIld~~~~i~vW~G~~~~~------~e~~~a~~~a~~~~~~~~~~~~~~~~~~eg~E~~~ 74 (76)
T PF00626_consen 15 LNSDDCYILDCGYEIFVWVGKKSSP------EEKAFAAQLAQELLSEERPPLPEVIRVEEGKEPAE 74 (76)
T ss_dssp EETTSEEEEEESSEEEEEEHTTSHH------HHHHHHHHHHHHHHHHHTTTTSEEEEEETTHHHHH
T ss_pred cCCCCEEEEEeCCCcEEEEeccCCH------HHHHHHHHHHHHhhhhcCCCCCEEEEecCCCCChH
Confidence 4789999999999999999997321 11122345666777 88999999999999864443
No 53
>cd01454 vWA_norD_type norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial denitrification has been established as NO3- ------ NO2- ------ NO ------- N2O --------- N2. This reaction generally occurs under oxygen limiting conditions. Genetic and biochemical studies have shown that the first srep of the biochemical pathway is catalyzed by periplasmic nitrate reductases. This family is widely present in proteobacteria and firmicutes. This version of the domain is also present in some archaeal members. The function of the vWA domain in this sub-group is not known. Members of this subgroup have a conserved MIDAS motif.
Probab=97.25 E-value=0.013 Score=56.60 Aligned_cols=146 Identities=18% Similarity=0.162 Sum_probs=86.5
Q ss_pred EEEEEEECCCCh-h--HHHHHHHHHHHHHHhCCC-CcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccccccccc
Q 005362 123 VYVAAVDLSSSE-E--FLELTRSALQAALEAVPS-GALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (700)
Q Consensus 123 ~~vFvID~s~~~-~--~l~~~~~~l~~~l~~lp~-~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~ 198 (700)
.++|+||+|.+. + .++.+++++...++.+.+ +.++|+++|++... ..... ..+. ..+.++
T Consensus 2 ~v~~llD~SgSM~~~~kl~~ak~a~~~l~~~l~~~~d~~~l~~F~~~~~------~~~~~-~~~~--------~~~~~~- 65 (174)
T cd01454 2 AVTLLLDLSGSMRSDRRIDVAKKAAVLLAEALEACGVPHAILGFTTDAG------GRERV-RWIK--------IKDFDE- 65 (174)
T ss_pred EEEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHHcCCcEEEEEecCCCC------Cccce-EEEE--------ecCccc-
Confidence 478999999986 3 678888888777776664 78999999988630 00000 0000 001110
Q ss_pred CccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEecC
Q 005362 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSG 278 (700)
Q Consensus 199 ~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g 278 (700)
. . ...+...|..+.+. +.+.+|.||..|...+...... ...|+++++|
T Consensus 66 -----~---~---~~~~~~~l~~~~~~------------------g~T~~~~al~~a~~~l~~~~~~---~~~iiliTDG 113 (174)
T cd01454 66 -----S---L---HERARKRLAALSPG------------------GNTRDGAAIRHAAERLLARPEK---RKILLVISDG 113 (174)
T ss_pred -----c---c---chhHHHHHHccCCC------------------CCCcHHHHHHHHHHHHhcCCCc---CcEEEEEeCC
Confidence 0 0 01223334444321 3468999999999888743221 2578999999
Q ss_pred CCCCCCCccccccccCcccCCCcchhhccCCCcchHHHH---HHHHHHHcCcEEEEeeecCCC
Q 005362 279 PPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKD---LAAVAVQAGVCVDIFAITNEY 338 (700)
Q Consensus 279 ~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~---la~~~~~~~isvdlf~~~~~~ 338 (700)
.|+.+...-.. ....++ .+.++.+.||.+..+.++.+.
T Consensus 114 ~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~gi~v~~igig~~~ 154 (174)
T cd01454 114 EPNDLDYYEGN----------------------VFATEDALRAVIEARKLGIEVFGITIDRDA 154 (174)
T ss_pred CcCcccccCcc----------------------hhHHHHHHHHHHHHHhCCcEEEEEEecCcc
Confidence 99876421100 001122 377788889998877776554
No 54
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=97.23 E-value=0.0026 Score=60.11 Aligned_cols=48 Identities=23% Similarity=0.321 Sum_probs=39.5
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCC------CCcEEEEeeecceEEEE
Q 005362 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEAVP------SGALFGLATFSHKIGLY 169 (700)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp------~~~~vgiItf~~~V~~~ 169 (700)
-|+| |++|+|.+. +.++++..+|+..++.|. +.+.++|||||+.+++|
T Consensus 4 lP~~-lllDtSgSM~Ge~IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~~a~~~ 59 (207)
T COG4245 4 LPCY-LLLDTSGSMIGEPIEALNAGLQMMIDTLKQDPYALERVELSIVTFGGPARVI 59 (207)
T ss_pred CCEE-EEEecCcccccccHHHHHHHHHHHHHHHHhChhhhheeEEEEEEecCcceEE
Confidence 4666 789999986 778999999999998774 35799999999976654
No 55
>cd01473 vWA_CTRP CTRP for CS protein-TRAP-related protein: Adhesion of Plasmodium to host cells is an important phenomenon in parasite invasion and in malaria associated pathology.CTRP encodes a protein containing a putative signal sequence followed by a long extracellular region of 1990 amino acids, a transmembrane domain, and a short cytoplasmic segment. The extracellular region of CTRP contains two separated adhesive domains. The first domain contains six 210-amino acid-long homologous VWA domain repeats. The second domain contains seven repeats of 87-60 amino acids in length, which share similarities with the thrombospondin type 1 domain found in a variety of adhesive molecules. Finally, CTRP also contains consensus motifs found in the superfamily of haematopoietin receptors. The VWA domains in these proteins likely mediate protein-protein interactions.
Probab=97.10 E-value=0.025 Score=55.54 Aligned_cols=151 Identities=12% Similarity=0.037 Sum_probs=91.5
Q ss_pred EEEEEECCCChh--HHH-HHHHHHHHHHHhC---CCCcEEEEeeecceEEEE-EccCCCCceeeeeeCCCCCcccccccc
Q 005362 124 YVAAVDLSSSEE--FLE-LTRSALQAALEAV---PSGALFGLATFSHKIGLY-DVQGAIPVVKNVFIPSDTEDTLSLELE 196 (700)
Q Consensus 124 ~vFvID~s~~~~--~l~-~~~~~l~~~l~~l---p~~~~vgiItf~~~V~~~-~l~~~~~~~~~~~~~~~~~~~~~~dl~ 196 (700)
.+|+||.|.+.+ ..+ .+++.++..++.+ +.++|||+|+|++..+++ .+...
T Consensus 3 i~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~~~~~~~~~---------------------- 60 (192)
T cd01473 3 LTLILDESASIGYSNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNRDVVPFSDE---------------------- 60 (192)
T ss_pred EEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCceeEEecCcc----------------------
Confidence 589999999863 244 4677777777766 457999999999976532 11100
Q ss_pred ccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCC-CcccceEEEE
Q 005362 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGN-TFALARVFAF 275 (700)
Q Consensus 197 ~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~-~~~~gkii~f 275 (700)
....+..+.+.++.+...+.. .+++.+|.||+.|.+.+...++. ....--++++
T Consensus 61 -----------~~~~~~~l~~~i~~l~~~~~~--------------~g~T~~~~AL~~a~~~~~~~~~~r~~~~kv~Ill 115 (192)
T cd01473 61 -----------ERYDKNELLKKINDLKNSYRS--------------GGETYIVEALKYGLKNYTKHGNRRKDAPKVTMLF 115 (192)
T ss_pred -----------cccCHHHHHHHHHHHHhccCC--------------CCcCcHHHHHHHHHHHhccCCCCcccCCeEEEEE
Confidence 011234455566666532110 13578999999998887543221 1011236777
Q ss_pred ecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccc
Q 005362 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (700)
Q Consensus 276 ~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~ 350 (700)
|+|..+.+-- .--.+.++.+.+.||.+-.+..+. .+..++..++..
T Consensus 116 TDG~s~~~~~---------------------------~~~~~~a~~lk~~gV~i~~vGiG~--~~~~el~~ia~~ 161 (192)
T cd01473 116 TDGNDTSASK---------------------------KELQDISLLYKEENVKLLVVGVGA--ASENKLKLLAGC 161 (192)
T ss_pred ecCCCCCcch---------------------------hhHHHHHHHHHHCCCEEEEEEecc--ccHHHHHHhcCC
Confidence 7775432100 001356778888999887777664 356778888764
No 56
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or non-homologues end joining and facilitate repair by the non-homologous end-joining pathway (NHEJ). The Ku heterodimer is required for accurate process that tends to preserve the sequence at the junction. Ku78 is found in all three kingdoms of life. However, only the eukaryotic proteins have a vWA domain fused to them at their N-termini. The vWA domain is not involved in DNA binding but may very likey mediate Ku78's interactions with other proteins. Members of this subgroup lack the conserved MIDAS motif.
Probab=97.07 E-value=0.012 Score=59.10 Aligned_cols=158 Identities=16% Similarity=0.250 Sum_probs=87.3
Q ss_pred EEEEEEECCCCh---------hHHHHHHHHHHHHHHhC---CCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcc
Q 005362 123 VYVAAVDLSSSE---------EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDT 190 (700)
Q Consensus 123 ~~vFvID~s~~~---------~~l~~~~~~l~~~l~~l---p~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~ 190 (700)
..+|+||+|.+. ..++.+++.+...+... .++.+||+|.|++.-+--. .. ...++
T Consensus 3 ~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~----~~-~~~i~-------- 69 (218)
T cd01458 3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNP----VG-YENIY-------- 69 (218)
T ss_pred EEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCc----CC-CCceE--------
Confidence 478999998853 45777888888887752 4567999999988532100 00 00111
Q ss_pred ccccccccCccCcCccchHhHHHHHHHHHHhcCCCCC-cccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCccc
Q 005362 191 LSLELEDVMPLSQFLAPVETFKENITSALETLRPTTS-WERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFAL 269 (700)
Q Consensus 191 ~~~dl~~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~ 269 (700)
++.++.. + ..+.+..+++.+..... .....+ ...+..++.||.+|..++..... ....
T Consensus 70 v~~~l~~---------~---~~~~l~~l~~~~~~~~~~~~~~~~--------~~~~~~l~~aL~~a~~~~~~~~~-~~~~ 128 (218)
T cd01458 70 VLLDLDT---------P---GAERVEDLKELIEPGGLSFAGQVG--------DSGQVSLSDALWVCLDLFSKGKK-KKSH 128 (218)
T ss_pred EeecCCC---------C---CHHHHHHHHHHhhcchhhhcccCC--------CCCCccHHHHHHHHHHHHHhccc-cccc
Confidence 0111100 0 11233333333322100 000000 01457899999999999986211 1123
Q ss_pred ceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCC
Q 005362 270 ARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNE 337 (700)
Q Consensus 270 gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~ 337 (700)
-+|++||+|--..|..... ..-..+++.++.+.||.+.+|.....
T Consensus 129 k~IvL~TDg~~p~~~~~~~-----------------------~~~~~~~a~~l~~~gI~i~~i~i~~~ 173 (218)
T cd01458 129 KRIFLFTNNDDPHGGDSIK-----------------------DSQAAVKAEDLKDKGIELELFPLSSP 173 (218)
T ss_pred cEEEEECCCCCCCCCCHHH-----------------------HHHHHHHHHHHHhCCcEEEEEecCCC
Confidence 5899999986544411100 11234688888888999999876544
No 57
>cd01462 VWA_YIEM_type VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=96.83 E-value=0.03 Score=52.49 Aligned_cols=42 Identities=21% Similarity=0.078 Sum_probs=30.5
Q ss_pred EEEEEECCCChh--HHHHHHHHHHHHHHhCC-CCcEEEEeeecce
Q 005362 124 YVAAVDLSSSEE--FLELTRSALQAALEAVP-SGALFGLATFSHK 165 (700)
Q Consensus 124 ~vFvID~s~~~~--~l~~~~~~l~~~l~~lp-~~~~vgiItf~~~ 165 (700)
++|+||+|.+.. .++..+..+...+..+. ++.+|++|+|++.
T Consensus 3 v~illD~SgSM~~~k~~~a~~~~~~l~~~~~~~~~~v~li~F~~~ 47 (152)
T cd01462 3 VILLVDQSGSMYGAPEEVAKAVALALLRIALAENRDTYLILFDSE 47 (152)
T ss_pred EEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHcCCcEEEEEeCCC
Confidence 689999999863 24555665555555444 4779999999987
No 58
>smart00262 GEL Gelsolin homology domain. Gelsolin/severin/villin homology domain. Calcium-binding and actin-binding. Both intra- and extracellular domains.
Probab=96.08 E-value=0.023 Score=48.32 Aligned_cols=64 Identities=9% Similarity=0.116 Sum_probs=43.1
Q ss_pred cCCCcEEEEecCceEEEEEecCCCCCCCCCCCccHHHHHHHHHHHH-hcCCCCeEEEEeCCCCcHHHHHhhc
Q 005362 597 TSGSPIFLLDAFTTIIVFYSSTADPTLPFPPPQDCLLRTTINKMKQ-ERSITPKLIFIRGGQDDATIFENYL 667 (700)
Q Consensus 597 ~~~~~i~LlD~~~~i~i~~g~~~~~~~~~~~~~~~~~~~~i~~l~~-~R~~~p~~~vv~~g~~~~~~f~~~L 667 (700)
++++.+||||++..||+|+|+.+++.. -.....+...+.+ .+.+..++.+++||.... .|...+
T Consensus 23 L~s~d~fild~~~~iyvW~G~~as~~e------k~~A~~~a~~~~~~~~~~~~~i~~v~eg~E~~-~F~~~f 87 (90)
T smart00262 23 LNSGDCYILDTGSEIYVWVGKKSSQDE------KKKAAELAVELDDTLGPGPVQVRVVDEGKEPP-EFWSLF 87 (90)
T ss_pred CCCCCEEEEECCCEEEEEECCCCCHHH------HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCH-HHHHHh
Confidence 588999999999999999999877421 1222333344433 445567888999987543 455543
No 59
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=95.07 E-value=0.73 Score=44.81 Aligned_cols=147 Identities=16% Similarity=0.231 Sum_probs=88.8
Q ss_pred EEEEEEECCCCh-------hHHHHHHHHHHHHHH----hCCCCcEEEEeeecc-eEEEEEccCCCCceeeeeeCCCCCcc
Q 005362 123 VYVAAVDLSSSE-------EFLELTRSALQAALE----AVPSGALFGLATFSH-KIGLYDVQGAIPVVKNVFIPSDTEDT 190 (700)
Q Consensus 123 ~~vFvID~s~~~-------~~l~~~~~~l~~~l~----~lp~~~~vgiItf~~-~V~~~~l~~~~~~~~~~~~~~~~~~~ 190 (700)
+-+.+||-|-.+ ..+++=++++..... +-|+ ..|||||... .+.+..
T Consensus 5 atmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpE-ntvGiitla~a~~~vLs-------------------- 63 (259)
T KOG2884|consen 5 ATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPE-NTVGIITLANASVQVLS-------------------- 63 (259)
T ss_pred eEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCcc-cceeeEeccCCCceeee--------------------
Confidence 456788876543 556666666554332 3344 4799999765 333311
Q ss_pred ccccccccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccc
Q 005362 191 LSLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALA 270 (700)
Q Consensus 191 ~~~dl~~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~g 270 (700)
. +...+..|...+..++.. ++.-++.+|+.|..+|+..-+ +..--
T Consensus 64 ---T-------------~T~d~gkils~lh~i~~~------------------g~~~~~~~i~iA~lalkhRqn-k~~~~ 108 (259)
T KOG2884|consen 64 ---T-------------LTSDRGKILSKLHGIQPH------------------GKANFMTGIQIAQLALKHRQN-KNQKQ 108 (259)
T ss_pred ---e-------------ccccchHHHHHhcCCCcC------------------CcccHHHHHHHHHHHHHhhcC-CCcce
Confidence 0 111224455566655543 345799999999999986532 11125
Q ss_pred eEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccc
Q 005362 271 RVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (700)
Q Consensus 271 kii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~ 350 (700)
||++|.++|-. +.|+. .-++|+++-+++|+||++.|+-..-+-.-+......
T Consensus 109 riVvFvGSpi~--------------------e~eke--------Lv~~akrlkk~~Vaidii~FGE~~~~~e~l~~fida 160 (259)
T KOG2884|consen 109 RIVVFVGSPIE--------------------ESEKE--------LVKLAKRLKKNKVAIDIINFGEAENNTEKLFEFIDA 160 (259)
T ss_pred EEEEEecCcch--------------------hhHHH--------HHHHHHHHHhcCeeEEEEEeccccccHHHHHHHHHH
Confidence 99999998631 11222 247899999999999999998665553333333333
Q ss_pred cce
Q 005362 351 SGG 353 (700)
Q Consensus 351 TGG 353 (700)
++|
T Consensus 161 ~N~ 163 (259)
T KOG2884|consen 161 LNG 163 (259)
T ss_pred hcC
Confidence 333
No 60
>cd01460 vWA_midasin VWA_Midasin: Midasin is a member of the AAA ATPase family. The proteins of this family are unified by their common archetectural organization that is based upon a conserved ATPase domain. The AAA domain of midasin contains six tandem AAA protomers. The AAA domains in midasin is followed by a D/E rich domain that is following by a VWA domain. The members of this subgroup have a conserved MIDAS motif. The function of this domain is not exactly known although it has been speculated to play a crucial role in midasin function.
Probab=94.87 E-value=1 Score=46.46 Aligned_cols=46 Identities=22% Similarity=0.240 Sum_probs=33.5
Q ss_pred CCcEEEEEEECCCCh-------hHHHHHHHHHHHHHHhCCCCcEEEEeeecceEE
Q 005362 120 ARPVYVAAVDLSSSE-------EFLELTRSALQAALEAVPSGALFGLATFSHKIG 167 (700)
Q Consensus 120 ~~p~~vFvID~s~~~-------~~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~ 167 (700)
...-.+++||.|.+. ..++ .+..|..++..++. -+||++.|++.+.
T Consensus 59 r~~qIvlaID~S~SM~~~~~~~~ale-ak~lIs~al~~Le~-g~vgVv~Fg~~~~ 111 (266)
T cd01460 59 RDYQILIAIDDSKSMSENNSKKLALE-SLCLVSKALTLLEV-GQLGVCSFGEDVQ 111 (266)
T ss_pred cCceEEEEEecchhcccccccccHHH-HHHHHHHHHHhCcC-CcEEEEEeCCCce
Confidence 356799999999985 2345 34456667777754 5999999998654
No 61
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=94.21 E-value=0.069 Score=61.06 Aligned_cols=82 Identities=16% Similarity=0.249 Sum_probs=51.0
Q ss_pred HhhhccceEeeccCCCC----CCCCCccchhhhccCCCcEEEEecCceEEEEEecCCCCCCCCCCCccHHHH---HHHHH
Q 005362 567 QRAVYPLLTSYSTPDKQ----AFPRHSLSRAALITSGSPIFLLDAFTTIIVFYSSTADPTLPFPPPQDCLLR---TTINK 639 (700)
Q Consensus 567 ~~~iyP~L~~~~~~~~~----~~p~~~L~~~~~~~~~~~i~LlD~~~~i~i~~g~~~~~~~~~~~~~~~~~~---~~i~~ 639 (700)
..-..|+||.-+...+. +++ .+.-. -+..+.|||||++..+|||+|.+++++-. .+.+. ..++.
T Consensus 615 ~~~~~PrLF~Cs~~~g~f~~~EI~--~F~Qd--DL~tdDi~lLDt~~evfvWvG~~a~~~eK-----~~Al~~~~~yl~~ 685 (827)
T KOG0443|consen 615 KPERDPRLFSCSNKTGSFVVEEIY--NFTQD--DLMTDDIMLLDTWSEVFVWVGQEANEKEK-----EEALTIGQKYLET 685 (827)
T ss_pred cCCCCCcEEEEEecCCcEEEEEec--Ccchh--hccccceEEEecCceEEEEecCCCChhHH-----HHHHHHHHHHHhc
Confidence 34567999988874331 111 12222 24678899999999999999998876431 11221 22211
Q ss_pred -HHHhcCCCCeEEEEeCCC
Q 005362 640 -MKQERSITPKLIFIRGGQ 657 (700)
Q Consensus 640 -l~~~R~~~p~~~vv~~g~ 657 (700)
+-..|.+.-+++||+||.
T Consensus 686 ~~p~gr~~~TPI~vV~qG~ 704 (827)
T KOG0443|consen 686 DLPEGRDPRTPIYVVKQGH 704 (827)
T ss_pred cCcccCCCCCceEEecCCC
Confidence 234455666788999996
No 62
>cd01455 vWA_F11C1-5a_type Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=94.14 E-value=1.9 Score=41.95 Aligned_cols=80 Identities=18% Similarity=0.052 Sum_probs=51.9
Q ss_pred hHHHHHHHHHhhc-cccCCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHH-HHHHHHc
Q 005362 248 FGLAMESLFNYLG-SEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDL-AAVAVQA 325 (700)
Q Consensus 248 ~G~Al~~a~~ll~-~~g~~~~~~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~l-a~~~~~~ 325 (700)
+..||..|++-|. ..-. . .--||+++.|--|.| .+.+ .+. ++.+.+.
T Consensus 93 TadAi~~av~rl~~~~~a-~--~kvvILLTDG~n~~~--~i~P--------------------------~~aAa~lA~~~ 141 (191)
T cd01455 93 TVEATEFAIKELAAKEDF-D--EAIVIVLSDANLERY--GIQP--------------------------KKLADALAREP 141 (191)
T ss_pred HHHHHHHHHHHHHhcCcC-C--CcEEEEEeCCCcCCC--CCCh--------------------------HHHHHHHHHhC
Confidence 3388988888885 3221 1 135667777754432 1221 234 4566678
Q ss_pred CcEEEEeeecCCCcChhhhhhcccccceEEEEeCC
Q 005362 326 GVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSS 360 (700)
Q Consensus 326 ~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~ 360 (700)
||-|..+..+.. |-.++..+++.|||+-|.-.+
T Consensus 142 gV~iytIgiG~~--d~~~l~~iA~~tgG~~F~A~d 174 (191)
T cd01455 142 NVNAFVIFIGSL--SDEADQLQRELPAGKAFVCMD 174 (191)
T ss_pred CCEEEEEEecCC--CHHHHHHHHhCCCCcEEEeCC
Confidence 998888777653 677899999999999666643
No 63
>cd01457 vWA_ORF176_type VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most
Probab=93.56 E-value=0.93 Score=44.64 Aligned_cols=43 Identities=19% Similarity=0.108 Sum_probs=30.4
Q ss_pred EEEEEEECCCChh---------HHHHHHHHHHHHHHhCC--CCcEEEEeeecce
Q 005362 123 VYVAAVDLSSSEE---------FLELTRSALQAALEAVP--SGALFGLATFSHK 165 (700)
Q Consensus 123 ~~vFvID~s~~~~---------~l~~~~~~l~~~l~~lp--~~~~vgiItf~~~ 165 (700)
-++|+||.|.+.+ .++.+++++...+..+. +..++++++|++.
T Consensus 4 dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~ 57 (199)
T cd01457 4 DYTLLIDKSGSMAEADEAKERSRWEEAQESTRALARKCEEYDSDGITVYLFSGD 57 (199)
T ss_pred CEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHHHHHhcCCCCeEEEEecCC
Confidence 4789999999863 35777877777666443 3456888888654
No 64
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
Probab=90.20 E-value=20 Score=37.24 Aligned_cols=96 Identities=21% Similarity=0.188 Sum_probs=60.8
Q ss_pred cchHHHHHHHHHhhccccC-----CCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHH
Q 005362 246 RGFGLAMESLFNYLGSEYG-----NTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAA 320 (700)
Q Consensus 246 ~~~G~Al~~a~~ll~~~g~-----~~~~~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~ 320 (700)
+.+..||..|+-.+..... +....+||+++.++-+.. . .+.-=+-+..-
T Consensus 116 s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~d~----------~----------------~QYi~~MN~iF 169 (276)
T PF03850_consen 116 SLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSPDS----------S----------------SQYIPLMNCIF 169 (276)
T ss_pred hhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCCCc----------c----------------HHHHHHHHHHH
Confidence 6788899888877654311 011247999964432211 0 11112345677
Q ss_pred HHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEeCCCCCCchhHHHH
Q 005362 321 VAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIY 371 (700)
Q Consensus 321 ~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~~~~~~l~~dl~ 371 (700)
.|.+.+|.||++..+. -|-.-|.+.+..|||.-...+.. +.|.+-|.
T Consensus 170 aAqk~~v~IDv~~L~~--~~s~fLqQa~d~T~G~y~~~~~~--~~l~q~L~ 216 (276)
T PF03850_consen 170 AAQKQKVPIDVCKLGG--KDSTFLQQASDITGGIYLKVSKP--EGLLQYLL 216 (276)
T ss_pred HHhcCCceeEEEEecC--CchHHHHHHHHHhCceeeccCcc--ccHHHHHH
Confidence 8889999999999876 45666899999999996666543 23444443
No 65
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=89.08 E-value=1.4 Score=50.84 Aligned_cols=97 Identities=14% Similarity=0.227 Sum_probs=60.7
Q ss_pred hccceEeeccCCCC-CCC---CCccchhhhccCCCcEEEEecC-ceEEEEEecCCCCCCCCCCCccHHHHHHHHHHHH-h
Q 005362 570 VYPLLTSYSTPDKQ-AFP---RHSLSRAALITSGSPIFLLDAF-TTIIVFYSSTADPTLPFPPPQDCLLRTTINKMKQ-E 643 (700)
Q Consensus 570 iyP~L~~~~~~~~~-~~p---~~~L~~~~~~~~~~~i~LlD~~-~~i~i~~g~~~~~~~~~~~~~~~~~~~~i~~l~~-~ 643 (700)
=-++||.+++.... ..+ ..+|..+. ++.+..||||+| ..||||+|+.++.+ +....+....+-|+. .
T Consensus 253 ~~~kLYkVsd~~g~l~v~~va~~~l~qdl--Ld~~dCYILD~g~~~IfVW~Gr~as~~-----ERkaAm~~AeeFlk~k~ 325 (827)
T KOG0443|consen 253 AAAKLYKVSDASGGLKVPVVADGPLTKDL--LDTEDCYILDCGGGEIFVWKGRQASLD-----ERKAAMSSAEEFLKKKK 325 (827)
T ss_pred cccEEEEEeccCCCccccccccchhhHHh--hccCCeEEEecCCceEEEEeCCCCCHH-----HHHHHHHHHHHHHHhcc
Confidence 35789999863221 111 11244433 478899999999 99999999986641 111223333344544 4
Q ss_pred cCCCCeEEEEeCCCCcH---HHHHhhccCCCCC
Q 005362 644 RSITPKLIFIRGGQDDA---TIFENYLIEEQDV 673 (700)
Q Consensus 644 R~~~p~~~vv~~g~~~~---~~f~~~LvED~~~ 673 (700)
|++.-.+.+|.+|.... .+|.+...+|+.+
T Consensus 326 yP~~TqV~rv~EG~Esa~FKq~F~~W~~~~~t~ 358 (827)
T KOG0443|consen 326 YPPNTQVVRVLEGAESAPFKQLFDSWPDKDQTN 358 (827)
T ss_pred CCCCceEEEecCCCcchhHHHHHhhCccccccc
Confidence 55666788888887544 3577777777775
No 66
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=88.24 E-value=6.7 Score=40.63 Aligned_cols=89 Identities=17% Similarity=0.211 Sum_probs=62.0
Q ss_pred CcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHH
Q 005362 245 GRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQ 324 (700)
Q Consensus 245 ~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~ 324 (700)
...+-.||+.|...|+..-+.. .-.|++..++..|.-||.+ | +..+.+.+
T Consensus 142 ~fSLqNaLe~a~~~Lk~~p~H~--sREVLii~sslsT~DPgdi---------------------------~-~tI~~lk~ 191 (378)
T KOG2807|consen 142 DFSLQNALELAREVLKHMPGHV--SREVLIIFSSLSTCDPGDI---------------------------Y-ETIDKLKA 191 (378)
T ss_pred ChHHHHHHHHHHHHhcCCCccc--ceEEEEEEeeecccCcccH---------------------------H-HHHHHHHh
Confidence 4578899999999998763211 1257777788888888855 2 35557778
Q ss_pred cCcEEEEeeecCCCcChhhhhhcccccceEEEEeCCCCCCchhH
Q 005362 325 AGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQ 368 (700)
Q Consensus 325 ~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~~~~~~l~~ 368 (700)
..|-|.++..+. .+..-+.||+.|||. |+=..|...|++
T Consensus 192 ~kIRvsvIgLsa---Ev~icK~l~kaT~G~--Y~V~lDe~Hlke 230 (378)
T KOG2807|consen 192 YKIRVSVIGLSA---EVFICKELCKATGGR--YSVALDEGHLKE 230 (378)
T ss_pred hCeEEEEEeech---hHHHHHHHHHhhCCe--EEEEeCHHHHHH
Confidence 899999987764 355568899999993 333355545553
No 67
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=85.34 E-value=20 Score=44.27 Aligned_cols=67 Identities=18% Similarity=0.181 Sum_probs=49.8
Q ss_pred ccccEEEEecC---CCCccccCCCCcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEeeecceEEE
Q 005362 100 ISSFIDLDLPL---EGSEEETMQARPVYVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGL 168 (700)
Q Consensus 100 ~~~tve~~~p~---~y~~~~~~~~~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~ 168 (700)
...++|+-... -|.. ....|--.+|++|+|++. ..+..+|..+.++|+.|.++..|-++||++.++.
T Consensus 203 ~~~~idl~D~R~r~Wyi~--aAt~pKdiviLlD~SgSm~g~~~~lak~tv~~iLdtLs~~Dfvni~tf~~~~~~ 274 (1104)
T KOG2353|consen 203 TDNSIDLYDCRNRSWYIQ--AATSPKDIVILLDVSGSMSGLRLDLAKQTVNEILDTLSDNDFVNILTFNSEVNP 274 (1104)
T ss_pred CCCcceeeeccccccccc--ccCCccceEEEEeccccccchhhHHHHHHHHHHHHhcccCCeEEEEeeccccCc
Confidence 44555555443 2332 123455789999999985 6678889999999999999999999999997764
No 68
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=85.00 E-value=30 Score=33.10 Aligned_cols=131 Identities=21% Similarity=0.231 Sum_probs=79.0
Q ss_pred EEEEEEECCCCh-------hHHHHHHHHHHHHHHh-CC--CCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCcccc
Q 005362 123 VYVAAVDLSSSE-------EFLELTRSALQAALEA-VP--SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLS 192 (700)
Q Consensus 123 ~~vFvID~s~~~-------~~l~~~~~~l~~~l~~-lp--~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~ 192 (700)
+.|.+||-|..+ ..+++=++++...++. +. +...||||+-... .+ .+ .
T Consensus 5 atvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a---------~p---~v----------l 62 (243)
T COG5148 5 ATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQA---------QP---NV----------L 62 (243)
T ss_pred eEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccC---------Cc---ch----------h
Confidence 567889977654 4566677777665542 22 2347888875331 00 10 0
Q ss_pred ccccccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceE
Q 005362 193 LELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARV 272 (700)
Q Consensus 193 ~dl~~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gki 272 (700)
+. +..-+..|...|..++-. ++--++.+|+.|..+++..- ++..--||
T Consensus 63 sT-------------~T~~~gkilt~lhd~~~~------------------g~a~~~~~lqiaql~lkhR~-nk~q~qri 110 (243)
T COG5148 63 ST-------------PTKQRGKILTFLHDIRLH------------------GGADIMRCLQIAQLILKHRD-NKGQRQRI 110 (243)
T ss_pred cc-------------chhhhhHHHHHhcccccc------------------CcchHHHHHHHHHHHHhccc-CCccceEE
Confidence 00 122345666666655432 23458899999999998653 22122599
Q ss_pred EEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeec
Q 005362 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAIT 335 (700)
Q Consensus 273 i~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~ 335 (700)
++|.++|-.. +..+. -.+|+.+.+++|+||+.-++
T Consensus 111 VaFvgSpi~e--------sedeL--------------------irlak~lkknnVAidii~fG 145 (243)
T COG5148 111 VAFVGSPIQE--------SEDEL--------------------IRLAKQLKKNNVAIDIIFFG 145 (243)
T ss_pred EEEecCcccc--------cHHHH--------------------HHHHHHHHhcCeeEEEEehh
Confidence 9999986311 11111 25899999999999998775
No 69
>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70). Proteins in this family are involved in non-homologous end joining, a process used for the repair of double stranded DNA breaks. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Cutoff does not detect the putative ku70 homologs in yeast.
Probab=81.85 E-value=21 Score=41.42 Aligned_cols=73 Identities=12% Similarity=0.136 Sum_probs=44.3
Q ss_pred cchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHc
Q 005362 246 RGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQA 325 (700)
Q Consensus 246 ~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~ 325 (700)
..+..||.+|..++...++ ....=||++||+--.-.|..+ +++. ==...|.++...
T Consensus 117 ~~l~daL~~~~~~f~~~~~-k~~~kRI~lfTd~D~P~~~~~---------------~~~~--------~a~~~a~dl~~~ 172 (584)
T TIGR00578 117 YSLSEVLWVCANLFSDVQF-RMSHKRIMLFTNEDNPHGNDS---------------AKAS--------RARTKAGDLRDT 172 (584)
T ss_pred CcHHHHHHHHHHHHHhcch-hhcCcEEEEECCCCCCCCCch---------------hHHH--------HHHHHHHHHHhc
Confidence 4789999999999985432 112248999997533222110 0000 002357888899
Q ss_pred CcEEEEeeec-CCCcChh
Q 005362 326 GVCVDIFAIT-NEYTDLA 342 (700)
Q Consensus 326 ~isvdlf~~~-~~~~dl~ 342 (700)
||.+++|..+ .+.+|..
T Consensus 173 gi~ielf~l~~~~~Fd~s 190 (584)
T TIGR00578 173 GIFLDLMHLKKPGGFDIS 190 (584)
T ss_pred CeEEEEEecCCCCCCChh
Confidence 9999998654 2335554
No 70
>PF06707 DUF1194: Protein of unknown function (DUF1194); InterPro: IPR010607 This family consists of several hypothetical Rhizobiales specific proteins of around 270 residues in length. The function of this family is unknown.
Probab=81.15 E-value=59 Score=32.07 Aligned_cols=103 Identities=21% Similarity=0.248 Sum_probs=61.6
Q ss_pred CcchHHHHHHHHHhhccccCCCcccceEEEEec--CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHH
Q 005362 245 GRGFGLAMESLFNYLGSEYGNTFALARVFAFLS--GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVA 322 (700)
Q Consensus 245 ~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~--g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~ 322 (700)
.++.|.||..+..++...+. .+.|-++=.| |+.|.|+... +..-..+
T Consensus 94 ~Taig~Al~~a~~ll~~~~~---~~~RrVIDvSGDG~~N~G~~p~----------------------------~~ard~~ 142 (205)
T PF06707_consen 94 RTAIGSALDFAAALLAQNPF---ECWRRVIDVSGDGPNNQGPRPV----------------------------TSARDAA 142 (205)
T ss_pred CchHHHHHHHHHHHHHhCCC---CCceEEEEECCCCCCCCCCCcc----------------------------HHHHHHH
Confidence 48999999999999986542 1234444443 5555554322 1122345
Q ss_pred HHcCcEEEEeeecCCCc----ChhhhhhcccccceEEEEeCCCCCCchhHHHHHHhccCc
Q 005362 323 VQAGVCVDIFAITNEYT----DLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRMLSRPY 378 (700)
Q Consensus 323 ~~~~isvdlf~~~~~~~----dl~~l~~l~~~TGG~~~~y~~~~~~~l~~dl~~~l~~~~ 378 (700)
...||+||=+....... ++...-.=+-.+|---|..+..+.+.|.+-++|-|.++.
T Consensus 143 ~~~GitINgL~I~~~~~~~~~~L~~yy~~~VIgGpgAFV~~a~~~~df~~AirrKL~rEi 202 (205)
T PF06707_consen 143 VAAGITINGLAILDDDPFGGADLDAYYRRCVIGGPGAFVETARGFEDFAEAIRRKLIREI 202 (205)
T ss_pred HHCCeEEeeeEecCCCCCccccHHHHHhhhcccCCCceEEEcCCHHHHHHHHHHHHHHHh
Confidence 56899999988776544 555444333333333344444445567778877777663
No 71
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=79.65 E-value=11 Score=41.65 Aligned_cols=149 Identities=18% Similarity=0.153 Sum_probs=87.2
Q ss_pred CcEEEEEEECCCCh-hHHHHHHHHHHHHHH--hCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccc
Q 005362 121 RPVYVAAVDLSSSE-EFLELTRSALQAALE--AVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (700)
Q Consensus 121 ~p~~vFvID~s~~~-~~l~~~~~~l~~~l~--~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~ 197 (700)
.| ++.+||.|.+. |.-+....++..+|- ++-+|.++.++.||+.++=+.+.+..
T Consensus 273 Gp-villlD~SGSM~G~~e~~AKAvalAl~~~alaenR~~~~~lF~s~~~~~el~~k~---------------------- 329 (437)
T COG2425 273 GP-VILLLDKSGSMSGFKEQWAKAVALALMRIALAENRDCYVILFDSEVIEYELYEKK---------------------- 329 (437)
T ss_pred CC-EEEEEeCCCCcCCcHHHHHHHHHHHHHHHHHHhccceEEEEecccceeeeecCCc----------------------
Confidence 45 55799999996 555555555555553 56788899999999943323221110
Q ss_pred cCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEec
Q 005362 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (700)
Q Consensus 198 ~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~ 277 (700)
. .+.++++.|...++ +++-+-.||..|+..++...- ..+.+++.|+
T Consensus 330 -----------~----~~~e~i~fL~~~f~----------------GGTD~~~~l~~al~~~k~~~~---~~adiv~ITD 375 (437)
T COG2425 330 -----------I----DIEELIEFLSYVFG----------------GGTDITKALRSALEDLKSREL---FKADIVVITD 375 (437)
T ss_pred -----------c----CHHHHHHHHhhhcC----------------CCCChHHHHHHHHHHhhcccc---cCCCEEEEec
Confidence 0 12334554444321 346788999999999985432 2378999988
Q ss_pred CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEE
Q 005362 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (700)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~ 357 (700)
|-.-. . .+|-.+..+...+...=+.-.+.+... -+++..++..+ ++.
T Consensus 376 g~~~~---------------------------~-~~~~~~v~e~~k~~~~rl~aV~I~~~~--~~~l~~Isd~~---i~~ 422 (437)
T COG2425 376 GEDER---------------------------L-DDFLRKVKELKKRRNARLHAVLIGGYG--KPGLMRISDHI---IYR 422 (437)
T ss_pred cHhhh---------------------------h-hHHHHHHHHHHHHhhceEEEEEecCCC--Ccccceeeeee---EEe
Confidence 74211 1 345555665555566666666655443 23344444443 555
Q ss_pred eC
Q 005362 358 YS 359 (700)
Q Consensus 358 y~ 359 (700)
++
T Consensus 423 ~~ 424 (437)
T COG2425 423 VE 424 (437)
T ss_pred eC
Confidence 54
No 72
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=78.63 E-value=0.98 Score=34.31 Aligned_cols=33 Identities=24% Similarity=0.632 Sum_probs=23.3
Q ss_pred CCCCcccCcceeEecCce--EecceEEEccCCCCC
Q 005362 48 HMLPRCENCYAYFNTYCE--LEQWAWTCSLCGSLN 80 (700)
Q Consensus 48 ~~~~RC~~C~ayiNp~~~--~~~~~w~C~~C~~~N 80 (700)
..+.-|++|++--.-+-+ +..-+|+|+.|+..|
T Consensus 20 r~aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 20 RYALICSKCFSHNGLAPKEEFEEIQYRCPYCGALN 54 (54)
T ss_pred ceeEECcccchhhcccccccCCceEEEcCCCCCcC
Confidence 346779999985443323 233699999999887
No 73
>smart00187 INB Integrin beta subunits (N-terminal portion of extracellular region). Portion of beta integrins that lies N-terminal to their EGF-like repeats. Integrins are cell adhesion molecules that mediate cell-extracellular matrix and cell-cell interactions. They contain both alpha and beta subunits. Beta integrins are proposed to have a von Willebrand factor type-A "insert" or "I" -like domain (although this remains to be confirmed).
Probab=76.67 E-value=1.2e+02 Score=33.25 Aligned_cols=273 Identities=15% Similarity=0.101 Sum_probs=126.4
Q ss_pred EEEEEECCCCh----hHHHHHHHHHHHHHHhCCCCcEEEEeee-cceEEEEEccCCC--CceeeeeeCCCCCcccccccc
Q 005362 124 YVAAVDLSSSE----EFLELTRSALQAALEAVPSGALFGLATF-SHKIGLYDVQGAI--PVVKNVFIPSDTEDTLSLELE 196 (700)
Q Consensus 124 ~vFvID~s~~~----~~l~~~~~~l~~~l~~lp~~~~vgiItf-~~~V~~~~l~~~~--~~~~~~~~~~~~~~~~~~dl~ 196 (700)
..|+.|+|.+. ..++.+-+.|...|..+-.+.|+||=+| |+.|.=|-...+. ..++. +. ....+
T Consensus 102 LYyLMDlS~SM~ddl~~lk~lg~~L~~~m~~it~n~rlGfGsFVDK~v~P~~~t~p~~l~~PC~-----~~----~~~c~ 172 (423)
T smart00187 102 LYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTRPEKLENPCP-----NY----NLTCE 172 (423)
T ss_pred eEEEEeCCccHHHHHHHHHHHHHHHHHHHHhcccCceeeEEEeecCccCCcccCCHHHhcCCCc-----CC----CCCcC
Confidence 56899999997 3344555566667778888999999888 4444322211000 00000 00 00000
Q ss_pred ccCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEe
Q 005362 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFL 276 (700)
Q Consensus 197 ~~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~ 276 (700)
-+..+ +-..++.+....+.+.+....-. .+. + .|...+-+-+++|. .-+..|=. ...-|+++|+
T Consensus 173 p~f~f-~~~L~LT~~~~~F~~~V~~~~iS--gN~--------D---~PEgG~DAimQaaV-C~~~IGWR-~~a~rllv~~ 236 (423)
T smart00187 173 PPYGF-KHVLSLTDDTDEFNEEVKKQRIS--GNL--------D---APEGGFDAIMQAAV-CTEQIGWR-EDARRLLVFS 236 (423)
T ss_pred CCcce-eeeccCCCCHHHHHHHHhhceee--cCC--------c---CCcccHHHHHHHHh-hccccccC-CCceEEEEEE
Confidence 00111 11244555445555555554322 111 1 14456666677773 11222210 0124899998
Q ss_pred cCCCC--CCCCccccccccCcccCCCcchhhccCCC---cchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhccccc
Q 005362 277 SGPPD--HGAGQLDTRRYGEQYASKGEDADRALLPE---QTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (700)
Q Consensus 277 ~g~pt--~GpG~l~~~~~~~~~~~~~~~~e~~~~~~---~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~T 351 (700)
+-.+- .|-|+|..--.++.-..|- +..-.|... ...--.+|++++.+++|-+ ||+....+.++. ..|+.+-
T Consensus 237 TDa~fH~AGDGkLaGIv~PNDg~CHL-~~~g~Yt~s~~~DYPSi~ql~~kL~e~nI~~-IFAVT~~~~~~Y--~~Ls~li 312 (423)
T smart00187 237 TDAGFHFAGDGKLAGIVQPNDGQCHL-DNNGEYTMSTTQDYPSIGQLNQKLAENNINP-IFAVTKKQVSLY--KELSALI 312 (423)
T ss_pred cCCCccccCCcceeeEecCCCCccee-CCCCCcCccCcCCCCCHHHHHHHHHhcCceE-EEEEcccchhHH--HHHHHhc
Confidence 87775 3778765422211111111 000011111 1122357888888888854 788888777665 4444444
Q ss_pred ceEEEEeCCCCCC---chhHHHHHHhccCcceeeEEEEec-CCCceeeeeeeccccCCCCCcceeeeccCCCceEEEEEE
Q 005362 352 GGSLFLYSSTDDS---TLPQDIYRMLSRPYAFNCIMRLRT-SSEFKPGHSYGHFFPDPQYENVQHIICCDSYATYAYDFD 427 (700)
Q Consensus 352 GG~~~~y~~~~~~---~l~~dl~~~l~~~~~~~a~~rvR~-S~gl~i~~~~G~~~~~~~~~~~~~i~~~d~~~s~~~~~e 427 (700)
.|...=-=+-|.. .|..+-++.+ .-...|+... +.|++++-. ..|-........-....+.....+.|.++
T Consensus 313 pgs~vg~Ls~DSsNIv~LI~~aY~~i----~S~V~l~~~~~p~~v~~~y~-s~C~~g~~~~~~~~C~~v~iG~~V~F~v~ 387 (423)
T smart00187 313 PGSSVGVLSEDSSNVVELIKDAYNKI----SSRVELEDNSLPEGVSVTYT-SSCPGGVVGPGTRKCEGVKIGDTVSFEVT 387 (423)
T ss_pred CcceeeecccCcchHHHHHHHHHHhh----ceEEEEecCCCCCcEEEEEE-eeCCCCCcccCCcccCCcccCCEEEEEEE
Confidence 4433211112222 2333333333 3345555553 557766533 23322111000001223344566666666
Q ss_pred Eec
Q 005362 428 FAN 430 (700)
Q Consensus 428 ~~~ 430 (700)
++.
T Consensus 388 vta 390 (423)
T smart00187 388 VTA 390 (423)
T ss_pred EEe
Confidence 654
No 74
>PRK10997 yieM hypothetical protein; Provisional
Probab=76.55 E-value=22 Score=39.99 Aligned_cols=49 Identities=27% Similarity=0.309 Sum_probs=32.6
Q ss_pred EEEEEEECCCChh-HHHHHHHHHHHHHH--hCCCCcEEEEeeecceEEEEEc
Q 005362 123 VYVAAVDLSSSEE-FLELTRSALQAALE--AVPSGALFGLATFSHKIGLYDV 171 (700)
Q Consensus 123 ~~vFvID~s~~~~-~l~~~~~~l~~~l~--~lp~~~~vgiItf~~~V~~~~l 171 (700)
-++++||+|.+.. .-+....++..+|- .+.++-++++|.|++.+.-|.+
T Consensus 325 piII~VDtSGSM~G~ke~~AkalAaAL~~iAl~q~dr~~li~Fs~~i~~~~l 376 (487)
T PRK10997 325 PFIVCVDTSGSMGGFNEQCAKAFCLALMRIALAENRRCYIMLFSTEVVTYEL 376 (487)
T ss_pred cEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEEecCCceeecc
Confidence 4789999999862 32223334444433 4567889999999997765543
No 75
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=74.03 E-value=8.5 Score=34.89 Aligned_cols=42 Identities=26% Similarity=0.185 Sum_probs=31.6
Q ss_pred EEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEeeecceEEE
Q 005362 125 VAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGL 168 (700)
Q Consensus 125 vFvID~s~~~--~~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~ 168 (700)
+++||+|.+. +.|+.+.+.+...++.. +.+|-+|.||..|+-
T Consensus 2 ~vaiDtSGSis~~~l~~fl~ev~~i~~~~--~~~v~vi~~D~~v~~ 45 (126)
T PF09967_consen 2 VVAIDTSGSISDEELRRFLSEVAGILRRF--PAEVHVIQFDAEVQD 45 (126)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHHhC--CCCEEEEEECCEeee
Confidence 6899999985 56666666666666666 457999999998873
No 76
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=72.88 E-value=2.1 Score=31.23 Aligned_cols=27 Identities=19% Similarity=0.404 Sum_probs=19.4
Q ss_pred CcccCcceeEecCceEec--ceEEEccCCCCCC
Q 005362 51 PRCENCYAYFNTYCELEQ--WAWTCSLCGSLNG 81 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~N~ 81 (700)
.+|.+|++-+-- +. ..++|+.||..-.
T Consensus 4 y~C~~CG~~~~~----~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 4 YKCARCGREVEL----DEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EECCCCCCEEEE----CCCCCceECCCCCCeEE
Confidence 689999995322 22 2799999997654
No 77
>PF05762 VWA_CoxE: VWA domain containing CoxE-like protein; InterPro: IPR008912 This group of proteins contains a VWA type domain and the function of this family is unknown. It is found as part of a CO oxidising (Cox) system operon in several bacteria [].
Probab=70.28 E-value=54 Score=32.80 Aligned_cols=33 Identities=18% Similarity=0.282 Sum_probs=22.3
Q ss_pred CCcchHHHHHHHHHhhccccCCCcccceEEEEecCC
Q 005362 244 GGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGP 279 (700)
Q Consensus 244 ~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~ 279 (700)
+++.+|.||..+...+.... .....|+++.+|.
T Consensus 128 GgTdi~~aL~~~~~~~~~~~---~~~t~vvIiSDg~ 160 (222)
T PF05762_consen 128 GGTDIGQALREFLRQYARPD---LRRTTVVIISDGW 160 (222)
T ss_pred CccHHHHHHHHHHHHhhccc---ccCcEEEEEeccc
Confidence 46789999999988876321 0124778887764
No 78
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=66.42 E-value=17 Score=41.40 Aligned_cols=91 Identities=13% Similarity=0.243 Sum_probs=52.5
Q ss_pred HhhhccceEeeccCCC-CCCCCCcc-chh---hhccCCCcEEEEecCceEEEEEecCCCCCCCCCCCccHHHHHHH----
Q 005362 567 QRAVYPLLTSYSTPDK-QAFPRHSL-SRA---ALITSGSPIFLLDAFTTIIVFYSSTADPTLPFPPPQDCLLRTTI---- 637 (700)
Q Consensus 567 ~~~iyP~L~~~~~~~~-~~~p~~~L-~~~---~~~~~~~~i~LlD~~~~i~i~~g~~~~~~~~~~~~~~~~~~~~i---- 637 (700)
-.--+|+||.+.-.-+ -+.|+..| +.. ...+...++|+||+...+++|+|+..+ ..+|...
T Consensus 729 f~p~qpkLYkV~lGmGyLELPQvel~P~~~l~q~lL~sk~VyiLDc~sDiF~W~GkKs~----------RLvraAa~KL~ 798 (1255)
T KOG0444|consen 729 FVPEQPKLYKVNLGMGYLELPQVELLPKGILKQDLLGSKGVYILDCNSDIFLWIGKKSN----------RLVRAAAQKLV 798 (1255)
T ss_pred cCCCCcceEEEccccceeecchhhhchhhHHHHHhhcCCeEEEEecCCceEEEecccch----------HHHHHHHHHHH
Confidence 3456899998854211 12343323 222 223588899999999999999998633 3344322
Q ss_pred HHHH--HhcCCCCeEEEEeCCCCcHHHHHhhcc
Q 005362 638 NKMK--QERSITPKLIFIRGGQDDATIFENYLI 668 (700)
Q Consensus 638 ~~l~--~~R~~~p~~~vv~~g~~~~~~f~~~Lv 668 (700)
.++- -.|+-|..+.-+.+|. ....|.+...
T Consensus 799 ~EL~~M~dRPdyA~V~R~~EG~-E~q~FrsKFa 830 (1255)
T KOG0444|consen 799 VELHQMIDRPDYAQVYRETEGE-ESQMFRSKFA 830 (1255)
T ss_pred HHHHhhhcCcchhheeeccCcc-HHHHHHHhhC
Confidence 2222 2566666665555554 3345666553
No 79
>PF00362 Integrin_beta: Integrin, beta chain; InterPro: IPR002369 Integrins are the major metazoan receptors for cell adhesion to extracellular matrix proteins and, in vertebrates, also play important roles in certain cell-cell adhesions, make transmembrane connections to the cytoskeleton and activate many intracellular signalling pathways [, ]. The integrin receptors are composed of alpha and beta subunit heterodimers. Each subunit crosses the membrane once, with most of the polypeptide residing in the extracellular space, and has two short cytoplasmic domains. Some members of this family have EGF repeats at the C terminus and also have a vWA domain inserted within the integrin domain at the N terminus. Most integrins recognise relatively short peptide motifs, and in general require an acidic amino acid to be present. Ligand specificity depends upon both the alpha and beta subunits []. There are at least 18 types of alpha and 8 types of beta subunits recognised in humans []. Each alpha subunit tends to associate only with one type of beta subunit, but there are exceptions to this rule []. Each association of alpha and beta subunits has its own binding specificity and signalling properties. Many integrins require activation on the cell surface before they can bind ligands. Integrins frequently intercommunicate, and binding at one integrin receptor activate or inhibit another. The structure of unliganded alphaV beta3 showed the molecule to be folded, with the head bent over towards the C termini of the legs which would normally be inserted into the membrane []. The head comprises a beta propeller domain at the end terminus of the alphaV subunit and an I/A domain inserted into a loop on the top of the hybrid domain in the beta subunit. The I/A domain consists of a Rossman fold with a core of beta parallel sheets surrounded by amphipathic alpha helices. Integrins are important therapeutic targets in conditions such as atherosclerosis, thrombosis, cancer and asthma []. At the N terminus of the beta subunit is a cysteine-containing domain reminiscent of that found in presenillins and semaphorins, which has hence been termed the PSI domain. C-terminal to the PSI domain is an A-domain, which has been predicted to adopt a Rossmann fold similar to that of the alpha subunit, but with additional loops between the second and third beta strands []. The murine gene Pactolus shares significant similarity with the beta subunit [], but lacks either one or both of the inserted loops. The C-terminal portion of the beta subunit extracellular domain contains an internally disulphide-bonded cysteine-rich region, while the intracellular tail contains putative sites of interaction with a variety of intracellular signalling and cytoskeletal proteins, such as focal adhesion kinase and alpha-actinin respectively []. Integrin cytoplasmic domains are normally less than 50 amino acids in length, with the beta-subunit sequences exhibiting greater homology to each other than the alpha-subunit sequences. This is consistent with current evidence that the beta subunit is the principal site for binding of cytoskeletal and signalling molecules, whereas the alpha subunit has a regulatory role. The first 20 amino acids of the beta-subunit cytoplasmic domain are also alpha helical, but the final 25 residues are disordered and, apart from a turn that follows a conserved NPxY motif, appear to lack defined structure, suggesting that this is adopted on effector binding. The two membrane-proximal helices mediate the link between the subunits via a series of hydrophobic and electrostatic contacts. This entry represents the N-terminal portion of the extracellular region of integrin beta subunits.; GO: 0005488 binding, 0007155 cell adhesion, 0007160 cell-matrix adhesion; PDB: 3VI4_B 3VI3_B 2VDQ_B 3IJE_B 1M1X_B 2VDR_B 3NIF_B 3NID_D 1TYE_F 2Q6W_F ....
Probab=65.46 E-value=2.3e+02 Score=31.55 Aligned_cols=273 Identities=14% Similarity=0.120 Sum_probs=117.0
Q ss_pred EEEEEECCCCh----hHHHHHHHHHHHHHHhCCCCcEEEEeeec-ceEEEEEccCCCCceeeeeeCCCCCcccccccccc
Q 005362 124 YVAAVDLSSSE----EFLELTRSALQAALEAVPSGALFGLATFS-HKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (700)
Q Consensus 124 ~vFvID~s~~~----~~l~~~~~~l~~~l~~lp~~~~vgiItf~-~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~~ 198 (700)
.-|++|+|.+. ..++.+...|...|..+-.+.|+||=+|= +.|.=|- ... +.. ..-+-.. .....+..
T Consensus 105 LYyLmDlS~Sm~ddl~~l~~lg~~l~~~~~~it~~~~~GfGsfvdK~~~P~~--~~~--p~~-l~~pc~~--~~~~c~~~ 177 (426)
T PF00362_consen 105 LYYLMDLSYSMKDDLENLKSLGQDLAEEMRNITSNFRLGFGSFVDKPVMPFV--STT--PEK-LKNPCPS--KNPNCQPP 177 (426)
T ss_dssp EEEEEE-SGGGHHHHHHHCCCCHHHHHHHHTT-SSEEEEEEEESSSSSTTTS--T-S--SHC-HHSTSCC--TTS--B--
T ss_pred EEEEeechhhhhhhHHHHHHHHHHHHHHHHhcCccceEechhhcccccCCcc--cCC--hhh-hcCcccc--cCCCCCCC
Confidence 56899999986 33444566788888889899999999884 4332110 000 000 0000000 00000000
Q ss_pred CccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHH--hhccccCCCcccceEEEEe
Q 005362 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFN--YLGSEYGNTFALARVFAFL 276 (700)
Q Consensus 199 ~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~--ll~~~g~~~~~~gkii~f~ 276 (700)
..+ .-..+|.+....+...+.... . .++.. .|...+=+-+++|.- .+.=... .-|+++|+
T Consensus 178 ~~f-~~~l~Lt~~~~~F~~~v~~~~-i-s~n~D-----------~PEgg~dal~Qa~vC~~~igWr~~----a~~llv~~ 239 (426)
T PF00362_consen 178 FSF-RHVLSLTDDITEFNEEVNKQK-I-SGNLD-----------APEGGLDALMQAAVCQEEIGWRNE----ARRLLVFS 239 (426)
T ss_dssp -SE-EEEEEEES-HHHHHHHHHTS----B--SS-----------SSBSHHHHHHHHHH-HHHHT--ST----SEEEEEEE
T ss_pred eee-EEeecccchHHHHHHhhhhcc-c-cCCCC-----------CCccccchheeeeecccccCcccC----ceEEEEEE
Confidence 111 112345555555566666542 1 12211 144556666776642 2221111 24899988
Q ss_pred cCCCC--CCCCccccccccCcccCCCcchhhccC---CCcchHHHHHHHHHHHcCcEEEEeeecCCCcChhhhhhccccc
Q 005362 277 SGPPD--HGAGQLDTRRYGEQYASKGEDADRALL---PEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (700)
Q Consensus 277 ~g~pt--~GpG~l~~~~~~~~~~~~~~~~e~~~~---~~~~~fY~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~T 351 (700)
+-.+- .|-|++...-.++....|-.+. ..|. .....-..+|.+.+.+++|.+ ||+......++. ..|+..-
T Consensus 240 TD~~fH~agDg~l~gi~~pnd~~Chl~~~-~~y~~~~~~DYPSv~ql~~~l~e~~i~~-IFAVt~~~~~~Y--~~L~~~i 315 (426)
T PF00362_consen 240 TDAGFHFAGDGKLAGIVKPNDGKCHLDDN-GMYTASTEQDYPSVGQLVRKLSENNINP-IFAVTKDVYSIY--EELSNLI 315 (426)
T ss_dssp ESS-B--TTGGGGGT--S---SS--BSTT-SBBGGGGCS----HHHHHHHHHHTTEEE-EEEEEGGGHHHH--HHHHHHS
T ss_pred cCCccccccccccceeeecCCCceEECCC-CcccccccccCCCHHHHHHHHHHcCCEE-EEEEchhhhhHH--HHHhhcC
Confidence 86663 5778776543332222111111 1111 122345567788888888754 787777765544 3333333
Q ss_pred -ceEEEEeCCCCCC---chhHHHHHHhccCcceeeEEEEec-CCCceeeeeeeccccCCCCCcceeeeccCCCceEEEEE
Q 005362 352 -GGSLFLYSSTDDS---TLPQDIYRMLSRPYAFNCIMRLRT-SSEFKPGHSYGHFFPDPQYENVQHIICCDSYATYAYDF 426 (700)
Q Consensus 352 -GG~~~~y~~~~~~---~l~~dl~~~l~~~~~~~a~~rvR~-S~gl~i~~~~G~~~~~~~~~~~~~i~~~d~~~s~~~~~ 426 (700)
|+.+-...+ +.. .+..+-++.+. -...++... ++++++ .+..+|.........-....+....++.|.+
T Consensus 316 ~~s~vg~L~~-dSsNIv~LI~~aY~~i~----s~V~L~~~~~p~~v~v-~y~s~C~~~~~~~~~~~C~~V~iG~~V~F~V 389 (426)
T PF00362_consen 316 PGSSVGELSS-DSSNIVQLIKEAYNKIS----SKVELKHDNAPDGVKV-SYTSNCPNGSTVPGTNECSNVKIGDTVTFNV 389 (426)
T ss_dssp TTEEEEEEST-TSHTHHHHHHHHHHHHC----TEEEEEECS--TTEEE-EEEEEESSSEEEECCEEECSE-TT-EEEEEE
T ss_pred CCceeccccc-CchhHHHHHHHHHHHHh----heEEEEecCCCCcEEE-EEEEEccCCcccCcCccccCEecCCEEEEEE
Confidence 333333332 222 23334444442 334444333 335655 3444444321100111122344456666666
Q ss_pred EEecC
Q 005362 427 DFANA 431 (700)
Q Consensus 427 e~~~~ 431 (700)
.++..
T Consensus 390 tVta~ 394 (426)
T PF00362_consen 390 TVTAK 394 (426)
T ss_dssp EEEES
T ss_pred EEEEe
Confidence 66543
No 80
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=63.06 E-value=26 Score=36.38 Aligned_cols=99 Identities=14% Similarity=0.123 Sum_probs=62.3
Q ss_pred cchHHHHHHHHHhhcccc----CCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHH
Q 005362 246 RGFGLAMESLFNYLGSEY----GNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAV 321 (700)
Q Consensus 246 ~~~G~Al~~a~~ll~~~g----~~~~~~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~ 321 (700)
..+..||..|+-.+.... .+...-+||+++..++ +.. .+..=+-+....
T Consensus 119 s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s~-----------~~~----------------~qYi~~mn~Ifa 171 (279)
T TIGR00627 119 TVLAGALSDALGYINRSEQSETASEKLKSRILVISITP-----------DMA----------------LQYIPLMNCIFS 171 (279)
T ss_pred ccchhHHHhhhhhhcccccccccCcCCcceEEEEECCC-----------Cch----------------HHHHHHHHHHHH
Confidence 557888888887775321 0111237999998752 111 111123477888
Q ss_pred HHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEeCCCCCCchhHHHHHHh
Q 005362 322 AVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRML 374 (700)
Q Consensus 322 ~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~~~~~~l~~dl~~~l 374 (700)
|.+.+|.||++..+.+ -+..-++++|+.|||.-...+ +...|.+-|...+
T Consensus 172 aqk~~I~Idv~~L~~e-~~~~~lqQa~~~TgG~Y~~~~--~~~~L~q~L~~~~ 221 (279)
T TIGR00627 172 AQKQNIPIDVVSIGGD-FTSGFLQQAADITGGSYLHVK--KPQGLLQYLMTNM 221 (279)
T ss_pred HHHcCceEEEEEeCCc-cccHHHHHHHHHhCCEEeccC--CHhHHHHHHHHhc
Confidence 9999999999988643 457789999999999633333 3334555554444
No 81
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=61.20 E-value=4.7 Score=26.81 Aligned_cols=30 Identities=20% Similarity=0.399 Sum_probs=19.6
Q ss_pred CcccCcceeEecCceEecceEEEccCCCCCCC
Q 005362 51 PRCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~ 82 (700)
+.|..|++-+--- -...+++|..|+..|.+
T Consensus 2 ~~C~~C~t~L~yP--~gA~~vrCs~C~~vt~v 31 (31)
T TIGR01053 2 VVCGGCRTLLMYP--RGASSVRCALCQTVNLV 31 (31)
T ss_pred cCcCCCCcEeecC--CCCCeEECCCCCeEecC
Confidence 5788888854210 01268999999887753
No 82
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=60.23 E-value=17 Score=41.46 Aligned_cols=63 Identities=22% Similarity=0.261 Sum_probs=46.3
Q ss_pred cCCCcEEEEecCceEEEEEecCCCCCCCCCCCccHHHHHHHHHHH-HhcCCCCeEEEEeCCCCcHHHHHh
Q 005362 597 TSGSPIFLLDAFTTIIVFYSSTADPTLPFPPPQDCLLRTTINKMK-QERSITPKLIFIRGGQDDATIFEN 665 (700)
Q Consensus 597 ~~~~~i~LlD~~~~i~i~~g~~~~~~~~~~~~~~~~~~~~i~~l~-~~R~~~p~~~vv~~g~~~~~~f~~ 665 (700)
+++--.||||.|.+||||-|....-. -+.+.|-+.+.|. .+|.---.+..++||....++...
T Consensus 646 LDPRf~FlLD~G~~IyiW~G~~s~~t------~~~KARLfAEkinK~eRKgK~EI~l~rQg~e~pEFWqa 709 (1255)
T KOG0444|consen 646 LDPRFCFLLDAGETIYIWSGYKSRIT------VSNKARLFAEKINKRERKGKSEIELCRQGREPPEFWQA 709 (1255)
T ss_pred cCcceEEEEeCCceEEEEeccchhcc------cchHHHHHHHHhhhhhccCceeeehhhhcCCCHHHHHH
Confidence 47888999999999999999864432 2456666777774 466777788899998755554443
No 83
>PF10138 vWA-TerF-like: vWA found in TerF C terminus ; InterPro: IPR019303 This entry represents the N-terminal domain of a family of proteins that confer resistance to the metalloid element tellurium and its salts.
Probab=59.23 E-value=1.6e+02 Score=29.06 Aligned_cols=108 Identities=17% Similarity=0.198 Sum_probs=61.0
Q ss_pred EEEEEECCCCh------hHHHHHHHHHHHHHHhCCCCcEEEEeeecceEEEEEccCCCCceeeeeeCCCCCccccccccc
Q 005362 124 YVAAVDLSSSE------EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (700)
Q Consensus 124 ~vFvID~s~~~------~~l~~~~~~l~~~l~~lp~~~~vgiItf~~~V~~~~l~~~~~~~~~~~~~~~~~~~~~~dl~~ 197 (700)
..+|||.|.+. |..+.+.+.+...-..+.++..|=+.+|++..+= + .++
T Consensus 4 V~LVLD~SGSM~~~yk~G~vQ~~~Er~lalA~~~DdDG~i~v~~Fs~~~~~--~---------------------~~v-- 58 (200)
T PF10138_consen 4 VYLVLDISGSMRPLYKDGTVQRVVERILALAAQFDDDGEIDVWFFSTEFDR--L---------------------PDV-- 58 (200)
T ss_pred EEEEEeCCCCCchhhhCccHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCc--C---------------------CCc--
Confidence 56899999986 5566666666554456777766666666663221 0 111
Q ss_pred cCccCcCccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCccCCCcchHHHHHHHHHhhccccCCCcccceEEEEec
Q 005362 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (700)
Q Consensus 198 ~~p~~~~l~~l~~~~~~i~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~ 277 (700)
.+.+..+.|..+...+.... +.+.+...+|++.++.--...++.. .+.-|+.+|.
T Consensus 59 ---------t~~~~~~~v~~~~~~~~~~~---------------~~G~t~y~~vm~~v~~~y~~~~~~~-~P~~VlFiTD 113 (200)
T PF10138_consen 59 ---------TLDNYEGYVDELHAGLPDWG---------------RMGGTNYAPVMEDVLDHYFKREPSD-APALVLFITD 113 (200)
T ss_pred ---------CHHHHHHHHHHHhccccccC---------------CCCCcchHHHHHHHHHHHhhcCCCC-CCeEEEEEec
Confidence 12333344444443332221 1244778999999887776433211 1356777788
Q ss_pred CCCC
Q 005362 278 GPPD 281 (700)
Q Consensus 278 g~pt 281 (700)
|.|+
T Consensus 114 G~~~ 117 (200)
T PF10138_consen 114 GGPD 117 (200)
T ss_pred CCcc
Confidence 7653
No 84
>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=58.88 E-value=2.6 Score=31.21 Aligned_cols=34 Identities=21% Similarity=0.518 Sum_probs=24.1
Q ss_pred CcccCcceeEecCceEecceEEEccCCCCCCCCh
Q 005362 51 PRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~ 84 (700)
+||.+|+=.+----.+..-.-+|+=|++.|.+-.
T Consensus 5 iRC~~CnklLa~~g~~~~leIKCpRC~tiN~~~a 38 (51)
T PF10122_consen 5 IRCGHCNKLLAKAGEVIELEIKCPRCKTINHVRA 38 (51)
T ss_pred eeccchhHHHhhhcCccEEEEECCCCCccceEec
Confidence 7999998655432223334689999999998753
No 85
>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=57.03 E-value=8.5 Score=26.56 Aligned_cols=27 Identities=19% Similarity=0.437 Sum_probs=22.4
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (700)
..+|..|++. +...+++.|+|.=||+.
T Consensus 8 ~~~C~~C~~~---~~~~~dG~~yC~~cG~~ 34 (36)
T PF11781_consen 8 NEPCPVCGSR---WFYSDDGFYYCDRCGHQ 34 (36)
T ss_pred CCcCCCCCCe---EeEccCCEEEhhhCceE
Confidence 3579999998 66667799999999975
No 86
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=56.33 E-value=29 Score=41.03 Aligned_cols=114 Identities=18% Similarity=0.272 Sum_probs=67.3
Q ss_pred CcccCcceeE-ecCceEe------cceEEEccCCCCCCCChhhhcccCCCCCCcccccccEEEEec-CCCCc---cccCC
Q 005362 51 PRCENCYAYF-NTYCELE------QWAWTCSLCGSLNGLSSQAIARYTHPQSCAEMISSFIDLDLP-LEGSE---EETMQ 119 (700)
Q Consensus 51 ~RC~~C~ayi-Np~~~~~------~~~w~C~~C~~~N~~p~~~~~~~~~~~~~pEL~~~tve~~~p-~~y~~---~~~~~ 119 (700)
+.|++|+-.. +|.|..- .+.-.|..||+.-.+|.. -|+..+...-+.-+ .+... ..--|
T Consensus 436 l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~----------Cp~Cgs~~L~~~G~GterieeeL~~~FP 505 (730)
T COG1198 436 LLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQS----------CPECGSEHLRAVGPGTERIEEELKRLFP 505 (730)
T ss_pred eecccCCCcccCCCCCcceEEecCCCeeEeCCCCCCCCCCCC----------CCCCCCCeeEEecccHHHHHHHHHHHCC
Confidence 4666666543 3455431 278999999999777754 56654443333322 11100 00125
Q ss_pred CCcEEEEEEECCCChhHHHHHHHHHHH----------HHH---hCCCCcEEEEeeecceEEEEEccCC
Q 005362 120 ARPVYVAAVDLSSSEEFLELTRSALQA----------ALE---AVPSGALFGLATFSHKIGLYDVQGA 174 (700)
Q Consensus 120 ~~p~~vFvID~s~~~~~l~~~~~~l~~----------~l~---~lp~~~~vgiItf~~~V~~~~l~~~ 174 (700)
..+++.|--|++...+.++.+-..+.. +|. .+|+-+.||++--|..++.-|+.+.
T Consensus 506 ~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfRA~ 573 (730)
T COG1198 506 GARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRAS 573 (730)
T ss_pred CCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhhcCCCcccceEEEEEechhhhcCCCcchH
Confidence 678888888888877655554444332 111 2455678888888887777776553
No 87
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=55.15 E-value=5.5 Score=29.74 Aligned_cols=28 Identities=25% Similarity=0.738 Sum_probs=18.5
Q ss_pred cccCcceeEecC-----------ceEec--ceEEEccCCCC
Q 005362 52 RCENCYAYFNTY-----------CELEQ--WAWTCSLCGSL 79 (700)
Q Consensus 52 RC~~C~ayiNp~-----------~~~~~--~~w~C~~C~~~ 79 (700)
+|..|+-..+|- +.|++ ..|+|+.|+..
T Consensus 3 ~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a~ 43 (50)
T cd00730 3 ECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAG 43 (50)
T ss_pred CCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCCc
Confidence 677888666654 23332 57999999853
No 88
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=55.11 E-value=9.2 Score=33.19 Aligned_cols=28 Identities=25% Similarity=0.496 Sum_probs=21.3
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (700)
.|.|.+|.+ -|+--++..|+|+.|++.-
T Consensus 2 lp~CP~C~s---eytY~dg~~~iCpeC~~EW 29 (109)
T TIGR00686 2 LPPCPKCNS---EYTYHDGTQLICPSCLYEW 29 (109)
T ss_pred CCcCCcCCC---cceEecCCeeECccccccc
Confidence 467888886 3555566789999999863
No 89
>PF03731 Ku_N: Ku70/Ku80 N-terminal alpha/beta domain; InterPro: IPR005161 The Ku heterodimer (composed of Ku70 P12956 from SWISSPROT and Ku80 P13010 from SWISSPROT) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the N-terminal alpha/beta domain. This domain only makes a small contribution to the dimer interface. The domain comprises a six stranded beta sheet of the Rossman fold [].; PDB: 1JEQ_A 1JEY_A.
Probab=52.84 E-value=25 Score=35.07 Aligned_cols=66 Identities=12% Similarity=0.153 Sum_probs=37.5
Q ss_pred cchHHHHHHHHHhhccc-cCCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHH-HHHHHH
Q 005362 246 RGFGLAMESLFNYLGSE-YGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKD-LAAVAV 323 (700)
Q Consensus 246 ~~~G~Al~~a~~ll~~~-g~~~~~~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~-la~~~~ 323 (700)
..+..||.+|..++... +..+...-||++||+.--..+ ..+. .+ .-.++ .+.++.
T Consensus 105 ~~l~~al~v~~~~~~~~~~~~k~~~krI~l~Td~d~p~~-----~~~~----------~~--------~~~~~l~~~Dl~ 161 (224)
T PF03731_consen 105 GDLSDALWVASDMFRERTCKKKKNKKRIFLFTDNDGPHE-----DDDE----------LE--------RIIQKLKAKDLQ 161 (224)
T ss_dssp --HHHHHHHHHHHHHCHCTTS-ECEEEEEEEES-SSTTT------CCC----------HH--------HHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHHHHHHhhcccCCCcEEEEEeCCCCCCC-----CHHH----------HH--------HHHHhhccccch
Confidence 56899999999999752 222223358888887532111 1000 00 01111 267788
Q ss_pred HcCcEEEEeee
Q 005362 324 QAGVCVDIFAI 334 (700)
Q Consensus 324 ~~~isvdlf~~ 334 (700)
..+|.+++|..
T Consensus 162 ~~~i~~~~~~l 172 (224)
T PF03731_consen 162 DNGIEIELFFL 172 (224)
T ss_dssp HHTEEEEEEEC
T ss_pred hcCcceeEeec
Confidence 99999999976
No 90
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=52.47 E-value=3.4 Score=32.66 Aligned_cols=31 Identities=26% Similarity=0.664 Sum_probs=18.9
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCCCCCCh
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~ 84 (700)
+.|| +|+.|+ |.+-..+.-+| .||....+..
T Consensus 3 ifrC-~Cgr~l--ya~e~~kTkkC-~CG~~l~vk~ 33 (68)
T PF09082_consen 3 IFRC-DCGRYL--YAKEGAKTKKC-VCGKTLKVKE 33 (68)
T ss_dssp EEEE-TTS--E--EEETT-SEEEE-TTTEEEE--S
T ss_pred EEEe-cCCCEE--EecCCcceeEe-cCCCeeeeee
Confidence 5799 799974 33333478899 9998877643
No 91
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=52.38 E-value=6.1 Score=29.07 Aligned_cols=28 Identities=25% Similarity=0.731 Sum_probs=16.4
Q ss_pred cccCcceeEecCce-----------Eec--ceEEEccCCCC
Q 005362 52 RCENCYAYFNTYCE-----------LEQ--WAWTCSLCGSL 79 (700)
Q Consensus 52 RC~~C~ayiNp~~~-----------~~~--~~w~C~~C~~~ 79 (700)
+|..|+-..+|--. |++ ..|+|+.|+..
T Consensus 3 ~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 3 QCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCGAP 43 (47)
T ss_dssp EETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTSSB
T ss_pred CCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCCCc
Confidence 57777766665442 332 57999999864
No 92
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=52.08 E-value=8.6 Score=25.86 Aligned_cols=23 Identities=26% Similarity=0.875 Sum_probs=13.6
Q ss_pred cccCcceeEecCceEecceEEEccCCC
Q 005362 52 RCENCYAYFNTYCELEQWAWTCSLCGS 78 (700)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~ 78 (700)
+|..|+=...+- ..-|+|+.|+.
T Consensus 3 ~C~~CGy~y~~~----~~~~~CP~Cg~ 25 (33)
T cd00350 3 VCPVCGYIYDGE----EAPWVCPVCGA 25 (33)
T ss_pred ECCCCCCEECCC----cCCCcCcCCCC
Confidence 566676432321 15688888876
No 93
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=50.87 E-value=8.6 Score=28.59 Aligned_cols=31 Identities=19% Similarity=0.444 Sum_probs=21.0
Q ss_pred cccCcceeEecCceEec-ceEEEccCCCCCCCC
Q 005362 52 RCENCYAYFNTYCELEQ-WAWTCSLCGSLNGLS 83 (700)
Q Consensus 52 RC~~C~ayiNp~~~~~~-~~w~C~~C~~~N~~p 83 (700)
.|..|+..+-+- ...+ ..|+|+-|+..-.+.
T Consensus 2 FCp~Cg~~l~~~-~~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPK-EGKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCccccc-cCCCCCEEECCcCCCeEECC
Confidence 488999966322 1222 489999999876554
No 94
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=47.97 E-value=14 Score=24.42 Aligned_cols=27 Identities=30% Similarity=0.646 Sum_probs=14.3
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (700)
.+.|..|++ .|.-.|+..++|+-|++.
T Consensus 2 ~p~Cp~C~s---e~~y~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 2 LPKCPLCGS---EYTYEDGELLVCPECGHE 28 (30)
T ss_dssp S---TTT--------EE-SSSEEETTTTEE
T ss_pred CCCCCCCCC---cceeccCCEEeCCccccc
Confidence 367888887 333377789999999863
No 95
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=47.09 E-value=8.2 Score=34.27 Aligned_cols=27 Identities=19% Similarity=0.433 Sum_probs=19.0
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (700)
-.||..|+.... .....|.||-||..+
T Consensus 70 ~~~C~~Cg~~~~----~~~~~~~CP~Cgs~~ 96 (113)
T PRK12380 70 QAWCWDCSQVVE----IHQHDAQCPHCHGER 96 (113)
T ss_pred EEEcccCCCEEe----cCCcCccCcCCCCCC
Confidence 369999995422 223567899999765
No 96
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=46.81 E-value=8.6 Score=34.28 Aligned_cols=27 Identities=22% Similarity=0.493 Sum_probs=19.7
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (700)
-.||++|+....+ ....|.||-||..+
T Consensus 70 ~~~C~~Cg~~~~~----~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 70 ECECEDCSEEVSP----EIDLYRCPKCHGIM 96 (115)
T ss_pred EEEcccCCCEEec----CCcCccCcCCcCCC
Confidence 3799999965332 23468999999876
No 97
>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=44.97 E-value=12 Score=33.39 Aligned_cols=32 Identities=19% Similarity=0.486 Sum_probs=26.1
Q ss_pred CCcccCcceeEecCceEec---ceEEEccCCCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQ---WAWTCSLCGSLNG 81 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~---~~w~C~~C~~~N~ 81 (700)
...|..|+-.+..-|.+.. ..|.|++|.....
T Consensus 71 ~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~re 105 (118)
T PF02318_consen 71 GRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQRE 105 (118)
T ss_dssp CEEETTTTEEEETTSEEETSSSCCEEEHHHHHHHH
T ss_pred CCcCCcCCccccCccCCcCCCCCCEEChhhHHHHH
Confidence 3789999999999998863 6899999976443
No 98
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=44.54 E-value=9.7 Score=23.41 Aligned_cols=11 Identities=36% Similarity=0.670 Sum_probs=5.8
Q ss_pred cccCcceeEec
Q 005362 52 RCENCYAYFNT 62 (700)
Q Consensus 52 RC~~C~ayiNp 62 (700)
+|.+|++-+.+
T Consensus 1 ~Cp~CG~~~~~ 11 (23)
T PF13240_consen 1 YCPNCGAEIED 11 (23)
T ss_pred CCcccCCCCCC
Confidence 36666664443
No 99
>PRK10220 hypothetical protein; Provisional
Probab=44.26 E-value=17 Score=31.65 Aligned_cols=28 Identities=25% Similarity=0.638 Sum_probs=20.7
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (700)
.|.|.+|.+ -|+--++..|+|+.|++.-
T Consensus 3 lP~CP~C~s---eytY~d~~~~vCpeC~hEW 30 (111)
T PRK10220 3 LPHCPKCNS---EYTYEDNGMYICPECAHEW 30 (111)
T ss_pred CCcCCCCCC---cceEcCCCeEECCcccCcC
Confidence 367888876 3444556789999999864
No 100
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=43.48 E-value=19 Score=26.18 Aligned_cols=26 Identities=19% Similarity=0.487 Sum_probs=19.3
Q ss_pred CcccCcceeEecCceEe-cceEEEccCCC
Q 005362 51 PRCENCYAYFNTYCELE-QWAWTCSLCGS 78 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~-~~~w~C~~C~~ 78 (700)
+.|.+|++- -+..+. ...|.|.-|++
T Consensus 19 ~~CP~Cg~~--~~~~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST--KHYRLKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCe--eeEEeCCCCeEECCCCCC
Confidence 669999986 333333 48999999985
No 101
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=42.02 E-value=9.7 Score=33.87 Aligned_cols=27 Identities=26% Similarity=0.478 Sum_probs=18.6
Q ss_pred CCcccCcceeEecCceEec-ceEEEccCCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQ-WAWTCSLCGSLN 80 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~-~~w~C~~C~~~N 80 (700)
-.||.+|+.+.. ... ..|.||-||..+
T Consensus 70 ~~~C~~Cg~~~~----~~~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 70 ECWCETCQQYVT----LLTQRVRRCPQCHGDM 97 (114)
T ss_pred EEEcccCCCeee----cCCccCCcCcCcCCCC
Confidence 368999996422 222 348899999775
No 102
>PRK03954 ribonuclease P protein component 4; Validated
Probab=41.50 E-value=13 Score=33.36 Aligned_cols=33 Identities=21% Similarity=0.489 Sum_probs=24.5
Q ss_pred cccCcceeEecC--ceE--ecc-----eEEEccCCCCCCCCh
Q 005362 52 RCENCYAYFNTY--CEL--EQW-----AWTCSLCGSLNGLSS 84 (700)
Q Consensus 52 RC~~C~ayiNp~--~~~--~~~-----~w~C~~C~~~N~~p~ 84 (700)
-|++|.+|+=|- +.+ .++ .++|..||+....|-
T Consensus 66 ~CK~C~t~LiPG~n~~vRi~~~~~~~vvitCl~CG~~kR~P~ 107 (121)
T PRK03954 66 YCKRCHSFLVPGVNARVRLRQKRMPHVVITCLECGHIMRYPY 107 (121)
T ss_pred HhhcCCCeeecCCceEEEEecCCcceEEEECccCCCEEeecc
Confidence 499999999874 333 332 359999999988773
No 103
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=39.94 E-value=16 Score=35.06 Aligned_cols=26 Identities=27% Similarity=0.613 Sum_probs=20.7
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (700)
-.||.+|++-|=. ..++.+|+-|+..
T Consensus 149 ~A~CsrC~~~L~~----~~~~l~Cp~Cg~t 174 (188)
T COG1096 149 YARCSRCRAPLVK----KGNMLKCPNCGNT 174 (188)
T ss_pred EEEccCCCcceEE----cCcEEECCCCCCE
Confidence 3699999996543 6689999999964
No 104
>PRK00420 hypothetical protein; Validated
Probab=39.58 E-value=17 Score=32.08 Aligned_cols=30 Identities=20% Similarity=0.383 Sum_probs=24.8
Q ss_pred CcccCcceeEecCceEecceEEEccCCCCCCCC
Q 005362 51 PRCENCYAYFNTYCELEQWAWTCSLCGSLNGLS 83 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p 83 (700)
-.|..|++ |+.++.++.-.|+.||..-.+.
T Consensus 24 ~~CP~Cg~---pLf~lk~g~~~Cp~Cg~~~~v~ 53 (112)
T PRK00420 24 KHCPVCGL---PLFELKDGEVVCPVHGKVYIVK 53 (112)
T ss_pred CCCCCCCC---cceecCCCceECCCCCCeeeec
Confidence 57999995 8888878899999999966554
No 105
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=39.30 E-value=15 Score=27.42 Aligned_cols=30 Identities=27% Similarity=0.517 Sum_probs=20.7
Q ss_pred CcccCcceeEecCceEe-cceEEEccCCCCC
Q 005362 51 PRCENCYAYFNTYCELE-QWAWTCSLCGSLN 80 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~-~~~w~C~~C~~~N 80 (700)
-||.+|+....-+..+. .....|+-|+..+
T Consensus 6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~ 36 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMSDDPLATCPECGGEK 36 (52)
T ss_pred EEeCCCCCEeEEEEecCCCCCCCCCCCCCCc
Confidence 48999998655544333 3567899999853
No 106
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=38.96 E-value=11 Score=33.60 Aligned_cols=28 Identities=25% Similarity=0.452 Sum_probs=18.3
Q ss_pred CCcccCcceeEecCceEecc-eEEEccCCCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQW-AWTCSLCGSLNG 81 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~-~w~C~~C~~~N~ 81 (700)
..||.+|+.+. ..+.. .+.||-||..+.
T Consensus 71 ~~~C~~Cg~~~----~~~~~~~~~CP~Cgs~~~ 99 (117)
T PRK00564 71 ELECKDCSHVF----KPNALDYGVCEKCHSKNV 99 (117)
T ss_pred EEEhhhCCCcc----ccCCccCCcCcCCCCCce
Confidence 47999999432 22233 345999998763
No 107
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=38.44 E-value=15 Score=26.19 Aligned_cols=29 Identities=31% Similarity=0.606 Sum_probs=22.1
Q ss_pred CcccCcceeEecCceEec-ceEEEccCCCC
Q 005362 51 PRCENCYAYFNTYCELEQ-WAWTCSLCGSL 79 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~-~~w~C~~C~~~ 79 (700)
-||..|+....-...+.+ ....|+-||..
T Consensus 6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~ 35 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSISEDDPVPCPECGST 35 (42)
T ss_pred EEeCCCCCEEEEEEEcCCCCCCcCCCCCCC
Confidence 589999987666666554 68999999873
No 108
>PHA00626 hypothetical protein
Probab=38.17 E-value=24 Score=26.77 Aligned_cols=30 Identities=17% Similarity=0.278 Sum_probs=18.4
Q ss_pred ccCcce---eEecCceEecceEEEccCCCCCCC
Q 005362 53 CENCYA---YFNTYCELEQWAWTCSLCGSLNGL 82 (700)
Q Consensus 53 C~~C~a---yiNp~~~~~~~~w~C~~C~~~N~~ 82 (700)
|.+|++ +-|..|.-....|+|+-||..-.-
T Consensus 3 CP~CGS~~Ivrcg~cr~~snrYkCkdCGY~ft~ 35 (59)
T PHA00626 3 CPKCGSGNIAKEKTMRGWSDDYVCCDCGYNDSK 35 (59)
T ss_pred CCCCCCceeeeeceecccCcceEcCCCCCeech
Confidence 556655 223333333478999999987653
No 109
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=37.64 E-value=16 Score=41.02 Aligned_cols=29 Identities=24% Similarity=0.587 Sum_probs=21.9
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCCCCCCh
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~ 84 (700)
.-+|++|+.- .-...|+|+-|+..|.+.+
T Consensus 7 ~y~C~~Cg~~------~~~~~g~Cp~C~~w~t~~~ 35 (454)
T TIGR00416 7 KFVCQHCGAD------SPKWQGKCPACHAWNTITE 35 (454)
T ss_pred eEECCcCCCC------CccccEECcCCCCccccch
Confidence 3689998851 1235799999999999865
No 110
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=37.60 E-value=15 Score=24.01 Aligned_cols=27 Identities=19% Similarity=0.639 Sum_probs=14.5
Q ss_pred cccCcceeEecCceEecceEEEccCCC
Q 005362 52 RCENCYAYFNTYCELEQWAWTCSLCGS 78 (700)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~ 78 (700)
.|.+|+.++-.-..-....+.|+-|..
T Consensus 3 ~C~rC~~~~~~~~~~~r~~~~C~rCq~ 29 (30)
T PF06827_consen 3 KCPRCWNYIEDIGINGRSTYLCPRCQK 29 (30)
T ss_dssp B-TTT--BBEEEEETTEEEEE-TTTCC
T ss_pred cCccCCCcceEeEecCCCCeECcCCcC
Confidence 699999985433322236899999864
No 111
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 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 the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=36.91 E-value=13 Score=24.26 Aligned_cols=15 Identities=33% Similarity=0.742 Sum_probs=12.6
Q ss_pred ceEEEccCCCCCCCC
Q 005362 69 WAWTCSLCGSLNGLS 83 (700)
Q Consensus 69 ~~w~C~~C~~~N~~p 83 (700)
+.|.|+.|...|...
T Consensus 3 g~W~C~~C~~~N~~~ 17 (30)
T PF00641_consen 3 GDWKCPSCTFMNPAS 17 (30)
T ss_dssp SSEEETTTTEEEESS
T ss_pred cCccCCCCcCCchHH
Confidence 579999999999753
No 112
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=36.73 E-value=21 Score=26.60 Aligned_cols=26 Identities=23% Similarity=0.635 Sum_probs=19.2
Q ss_pred CcccCcceeEecCceEecceEEEccCCCC
Q 005362 51 PRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (700)
..|.+|++ . |+.....+|.|.-|+..
T Consensus 21 ~fCP~Cg~--~-~m~~~~~r~~C~~Cgyt 46 (50)
T PRK00432 21 KFCPRCGS--G-FMAEHLDRWHCGKCGYT 46 (50)
T ss_pred CcCcCCCc--c-hheccCCcEECCCcCCE
Confidence 47999997 2 44445589999999864
No 113
>PRK11823 DNA repair protein RadA; Provisional
Probab=36.27 E-value=15 Score=41.07 Aligned_cols=30 Identities=30% Similarity=0.644 Sum_probs=22.2
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCCCCCChh
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSSQ 85 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~~ 85 (700)
.-+|++|+.= .-...|+|+-|+..|.+.++
T Consensus 7 ~y~C~~Cg~~------~~~~~g~Cp~C~~w~t~~e~ 36 (446)
T PRK11823 7 AYVCQECGAE------SPKWLGRCPECGAWNTLVEE 36 (446)
T ss_pred eEECCcCCCC------CcccCeeCcCCCCccceeee
Confidence 3689999861 12357999999999998653
No 114
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=35.40 E-value=15 Score=33.23 Aligned_cols=31 Identities=19% Similarity=0.438 Sum_probs=19.7
Q ss_pred CCcccCcceeEecC-ceEecc--eEEEccCCCCCC
Q 005362 50 LPRCENCYAYFNTY-CELEQW--AWTCSLCGSLNG 81 (700)
Q Consensus 50 ~~RC~~C~ayiNp~-~~~~~~--~w~C~~C~~~N~ 81 (700)
-.|| .|+.+..+- ...+.. .|.||-||..+.
T Consensus 70 ~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~ 103 (124)
T PRK00762 70 EIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRA 103 (124)
T ss_pred eEEe-eCcCcccccccchhccccCCcCcCCCCCCC
Confidence 4799 999764432 122222 378999997663
No 115
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=35.22 E-value=49 Score=34.58 Aligned_cols=31 Identities=29% Similarity=0.434 Sum_probs=27.7
Q ss_pred hhHHHHHHHHHHHHHHhCCCCcEEEEeeecc
Q 005362 134 EEFLELTRSALQAALEAVPSGALFGLATFSH 164 (700)
Q Consensus 134 ~~~l~~~~~~l~~~l~~lp~~~~vgiItf~~ 164 (700)
..+|+.++++|.++++.|.++.|+++|||-+
T Consensus 217 NdEL~~L~~~L~~a~~~L~~gGRl~VIsFHS 247 (314)
T COG0275 217 NDELEELEEALEAALDLLKPGGRLAVISFHS 247 (314)
T ss_pred hhHHHHHHHHHHHHHHhhCCCcEEEEEEecc
Confidence 3678899999999999999999999999854
No 116
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=34.78 E-value=17 Score=39.52 Aligned_cols=27 Identities=30% Similarity=0.684 Sum_probs=20.7
Q ss_pred cccCcceeEecCceEecceEEEccCCCCCCCCh
Q 005362 52 RCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (700)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~ 84 (700)
+|++|+.- .-...|+|+-|+..|.+.+
T Consensus 2 ~c~~cg~~------~~~~~g~cp~c~~w~~~~e 28 (372)
T cd01121 2 VCSECGYV------SPKWLGKCPECGEWNTLVE 28 (372)
T ss_pred CCCCCCCC------CCCccEECcCCCCceeeee
Confidence 69999861 1135799999999999865
No 117
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=32.37 E-value=23 Score=25.35 Aligned_cols=25 Identities=24% Similarity=0.604 Sum_probs=17.4
Q ss_pred cccCcceeEecCceEe--cceEEEccCCCC
Q 005362 52 RCENCYAYFNTYCELE--QWAWTCSLCGSL 79 (700)
Q Consensus 52 RC~~C~ayiNp~~~~~--~~~w~C~~C~~~ 79 (700)
+|..|++-- ..+| .+.++|.-||..
T Consensus 2 ~Cp~Cg~~~---~~~D~~~g~~vC~~CG~V 28 (43)
T PF08271_consen 2 KCPNCGSKE---IVFDPERGELVCPNCGLV 28 (43)
T ss_dssp SBTTTSSSE---EEEETTTTEEEETTT-BB
T ss_pred CCcCCcCCc---eEEcCCCCeEECCCCCCE
Confidence 689999832 3455 368999999965
No 118
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=32.19 E-value=1.9e+02 Score=31.53 Aligned_cols=99 Identities=16% Similarity=0.184 Sum_probs=65.6
Q ss_pred CcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCC----CCCccccccccCcccCCCcchhhccCCCcchHHHHHHH
Q 005362 245 GRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDH----GAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAA 320 (700)
Q Consensus 245 ~~~~G~Al~~a~~ll~~~g~~~~~~gkii~f~~g~pt~----GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~ 320 (700)
++.+--||..|-.+++...+.. -.|++.+.|-||- |-|.+...+.+ +|-+. + -.--+++ .
T Consensus 532 gTNlhhaL~LA~r~l~Rh~~~~---~~il~vTDGePtAhle~~DG~~~~f~yp-------~DP~t-~----~~Tvr~~-d 595 (652)
T COG4867 532 GTNLHHALALAGRHLRRHAGAQ---PVVLVVTDGEPTAHLEDGDGTSVFFDYP-------PDPRT-I----AHTVRGF-D 595 (652)
T ss_pred ccchHHHHHHHHHHHHhCcccC---ceEEEEeCCCccccccCCCCceEecCCC-------CChhH-H----HHHHHHH-H
Confidence 4567888999999998665432 5899999999974 44544333221 11100 0 0011222 3
Q ss_pred HHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEeC
Q 005362 321 VAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYS 359 (700)
Q Consensus 321 ~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~ 359 (700)
.|.+.|+-+.+|....+.-=..=+..+++.++|.++.-.
T Consensus 596 ~~~r~G~q~t~FrLg~DpgL~~Fv~qva~rv~G~vv~pd 634 (652)
T COG4867 596 DMARLGAQVTIFRLGSDPGLARFIDQVARRVQGRVVVPD 634 (652)
T ss_pred HHHhccceeeEEeecCCHhHHHHHHHHHHHhCCeEEecC
Confidence 678899999999998886545557899999999987653
No 119
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=31.57 E-value=25 Score=32.12 Aligned_cols=33 Identities=24% Similarity=0.595 Sum_probs=22.7
Q ss_pred CcccCcceeEecCceEec--ceEEEccCCCCCCCChh
Q 005362 51 PRCENCYAYFNTYCELEQ--WAWTCSLCGSLNGLSSQ 85 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~N~~p~~ 85 (700)
++|.-|+.. .-...+. ..|.|+-|+..|.+..+
T Consensus 1 v~C~fC~~~--s~~~~~~~~~~w~C~~C~q~N~f~e~ 35 (131)
T PF09779_consen 1 VNCWFCGQN--SKVPYDNRNSNWTCPHCEQYNGFDED 35 (131)
T ss_pred CeeccCCCC--CCCCCCCCCCeeECCCCCCccCcccc
Confidence 467778764 2222333 45999999999998765
No 120
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=31.55 E-value=38 Score=22.91 Aligned_cols=29 Identities=28% Similarity=0.435 Sum_probs=19.6
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (700)
+.+|..|++-. -..-++...+|.+|+...
T Consensus 3 ~~~C~~C~~~~--i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 3 LKKCSKCGGNG--IVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred ceEcCCCCCCe--EEEecCCeEEcccCCcEe
Confidence 56899998843 111234689999999764
No 121
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=31.41 E-value=22 Score=27.90 Aligned_cols=26 Identities=19% Similarity=0.452 Sum_probs=18.4
Q ss_pred CcccCcceeEecCceEecceEEEccCCCCCCCCh
Q 005362 51 PRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~ 84 (700)
.-|++|+...+ .. +|+.||..+..++
T Consensus 6 ~AC~~C~~i~~------~~--~Cp~Cgs~~~S~~ 31 (64)
T PRK06393 6 RACKKCKRLTP------EK--TCPVHGDEKTTTE 31 (64)
T ss_pred hhHhhCCcccC------CC--cCCCCCCCcCCcC
Confidence 45999998662 12 9999999764443
No 122
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=31.39 E-value=30 Score=27.43 Aligned_cols=29 Identities=21% Similarity=0.377 Sum_probs=21.8
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (700)
--.|..|+...-- ....+.|+|+-||..-
T Consensus 28 Sq~C~~CG~~~~~--~~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 28 SQTCPRCGHRNKK--RRSGRVFTCPNCGFEM 56 (69)
T ss_pred ccCccCccccccc--ccccceEEcCCCCCEE
Confidence 3569999986555 3445899999999863
No 123
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.26 E-value=27 Score=31.41 Aligned_cols=29 Identities=21% Similarity=0.623 Sum_probs=17.5
Q ss_pred cccCcceeEecCceEecceEEEccCCCCCCC
Q 005362 52 RCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (700)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~ 82 (700)
-|.||++-+..-+ ..-.|+||+|...-.+
T Consensus 91 ~CARCGGrv~lrs--NKv~wvcnlc~k~q~i 119 (169)
T KOG3799|consen 91 FCARCGGRVSLRS--NKVMWVCNLCRKQQEI 119 (169)
T ss_pred HHHhcCCeeeecc--CceEEeccCCcHHHHH
Confidence 3667776432210 1247999999876553
No 124
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=30.90 E-value=35 Score=24.70 Aligned_cols=25 Identities=20% Similarity=0.332 Sum_probs=12.9
Q ss_pred cccCcceeEecCceEecceEEEccCCCC
Q 005362 52 RCENCYAYFNTYCELEQWAWTCSLCGSL 79 (700)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (700)
+|.+|++-+..- ....-+|+-||+.
T Consensus 4 ~C~~Cg~~~~~~---~~~~irC~~CG~r 28 (44)
T smart00659 4 ICGECGRENEIK---SKDVVRCRECGYR 28 (44)
T ss_pred ECCCCCCEeecC---CCCceECCCCCce
Confidence 466666643321 1245666666654
No 125
>PF11265 Med25_VWA: Mediator complex subunit 25 von Willebrand factor type A; InterPro: IPR021419 The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain which is this one, an SD2 domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This VWA or von Willebrand factor type A domain when bound to RAR and the histone acetyltransferase CBP is responsible for recruiting Med1 to the rest of the Mediator complex [].
Probab=30.59 E-value=5.7e+02 Score=25.71 Aligned_cols=88 Identities=13% Similarity=0.093 Sum_probs=54.6
Q ss_pred chHHHHHHHHHhhcccc------CCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHH
Q 005362 247 GFGLAMESLFNYLGSEY------GNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAA 320 (700)
Q Consensus 247 ~~G~Al~~a~~ll~~~g------~~~~~~gkii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~ 320 (700)
+..-+|.+|+.++.... ++...--+.|+.+.++|..=|= .+. ..-....++++|.
T Consensus 111 ~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nSpP~~~p~----~~~---------------~~~~~~~~d~la~ 171 (226)
T PF11265_consen 111 AIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNSPPYRLPV----NEC---------------PQYSGKTCDQLAV 171 (226)
T ss_pred hHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCCCCccccc----cCC---------------CcccCCCHHHHHH
Confidence 36777888888877321 1100113567777777743221 110 0112345788999
Q ss_pred HHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEE
Q 005362 321 VAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (700)
Q Consensus 321 ~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~ 357 (700)
.+.+++|.+.+++- . -++.+..|-+..+|....
T Consensus 172 ~~~~~~I~LSiisP--r--klP~l~~Lfeka~~~~~~ 204 (226)
T PF11265_consen 172 LISERNISLSIISP--R--KLPSLRSLFEKAKGNPRA 204 (226)
T ss_pred HHHhcCceEEEEcC--c--cCHHHHHHHHhcCCCccc
Confidence 99999999999853 2 457788888888887655
No 126
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=30.37 E-value=25 Score=24.50 Aligned_cols=28 Identities=32% Similarity=0.650 Sum_probs=18.9
Q ss_pred CcccCcceeEecCceEe-cceEEEccCCC
Q 005362 51 PRCENCYAYFNTYCELE-QWAWTCSLCGS 78 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~-~~~w~C~~C~~ 78 (700)
.||..|+.......... .....|+-||.
T Consensus 6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKISDDPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecCCCCCCCCCCCCC
Confidence 47888888655544443 45677888887
No 127
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=29.65 E-value=27 Score=20.58 Aligned_cols=12 Identities=25% Similarity=0.783 Sum_probs=7.3
Q ss_pred EEEccCCCCCCC
Q 005362 71 WTCSLCGSLNGL 82 (700)
Q Consensus 71 w~C~~C~~~N~~ 82 (700)
|.|++|+....-
T Consensus 1 ~~C~~C~~~~~~ 12 (24)
T PF13894_consen 1 FQCPICGKSFRS 12 (24)
T ss_dssp EE-SSTS-EESS
T ss_pred CCCcCCCCcCCc
Confidence 789999876543
No 128
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=29.58 E-value=8.1 Score=28.81 Aligned_cols=33 Identities=18% Similarity=0.386 Sum_probs=20.2
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~ 82 (700)
-+||..|.-.+----..---.-+|+-|+..|.+
T Consensus 4 tiRC~~CnKlLa~a~~~~yle~KCPrCK~vN~~ 36 (60)
T COG4416 4 TIRCAKCNKLLAEAEGQAYLEKKCPRCKEVNEF 36 (60)
T ss_pred eeehHHHhHHHHhcccceeeeecCCccceeeee
Confidence 378998875432111111135789999999975
No 129
>KOG3355 consensus Mitochondrial sulfhydryl oxidase involved in the biogenesis of cytosolic Fe/S proteins [Posttranslational modification, protein turnover, chaperones]
Probab=28.97 E-value=50 Score=31.25 Aligned_cols=21 Identities=24% Similarity=0.303 Sum_probs=18.3
Q ss_pred CCCcHHHHHHHHHHHHHHhhC
Q 005362 680 SVMGFVSFLEEISQSVVEYMK 700 (700)
Q Consensus 680 ~~~sy~~fl~~lh~~i~~~~~ 700 (700)
....+..|+|++|.+|+++|+
T Consensus 133 SRe~~~~W~C~vHN~VNekLg 153 (177)
T KOG3355|consen 133 SREAFTQWLCHVHNKVNEKLG 153 (177)
T ss_pred hHHHHHHHHHHHHHHHHHHcC
Confidence 367899999999999999874
No 130
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]
Probab=28.74 E-value=31 Score=35.62 Aligned_cols=28 Identities=14% Similarity=0.371 Sum_probs=18.5
Q ss_pred CcccCcceeEecCceEecceEEEccCCC
Q 005362 51 PRCENCYAYFNTYCELEQWAWTCSLCGS 78 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~ 78 (700)
--|++|++-|---..-....|.|+-|..
T Consensus 246 epC~~CGt~I~k~~~~gR~t~~CP~CQ~ 273 (273)
T COG0266 246 EPCRRCGTPIEKIKLGGRSTFYCPVCQK 273 (273)
T ss_pred CCCCccCCEeEEEEEcCCcCEeCCCCCC
Confidence 4589999965322211236999999974
No 131
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=28.24 E-value=24 Score=21.97 Aligned_cols=14 Identities=43% Similarity=0.850 Sum_probs=11.7
Q ss_pred eEEEccCCCCCCCC
Q 005362 70 AWTCSLCGSLNGLS 83 (700)
Q Consensus 70 ~w~C~~C~~~N~~p 83 (700)
.|.|..|...|...
T Consensus 2 ~W~C~~C~~~N~~~ 15 (26)
T smart00547 2 DWECPACTFLNFAS 15 (26)
T ss_pred cccCCCCCCcChhh
Confidence 69999999998653
No 132
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=28.23 E-value=37 Score=30.80 Aligned_cols=25 Identities=20% Similarity=0.542 Sum_probs=19.8
Q ss_pred CcccCcceeEecCceEecceEEEccCCCC
Q 005362 51 PRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (700)
.-|..|++ |..+ -++.-.|+.|++.
T Consensus 29 ~hCp~Cg~---PLF~-KdG~v~CPvC~~~ 53 (131)
T COG1645 29 KHCPKCGT---PLFR-KDGEVFCPVCGYR 53 (131)
T ss_pred hhCcccCC---ccee-eCCeEECCCCCce
Confidence 46999998 6666 4589999999953
No 133
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=28.18 E-value=66 Score=32.59 Aligned_cols=36 Identities=17% Similarity=0.451 Sum_probs=31.3
Q ss_pred CCCcccCcceeEecCceEecceEEEccCCCCCCCCh
Q 005362 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (700)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~ 84 (700)
..+.|+-|++-||---+..+...+|+-|+..+++-.
T Consensus 64 p~v~CrVCq~~I~i~gk~~QhVVkC~~CnEATPIr~ 99 (256)
T PF09788_consen 64 PVVTCRVCQSLIDIEGKMHQHVVKCSVCNEATPIRN 99 (256)
T ss_pred ceEEeecCCceecccCccceeeEECCCCCccccccC
Confidence 467999999999988888889999999999887643
No 134
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=28.12 E-value=38 Score=23.05 Aligned_cols=28 Identities=18% Similarity=0.438 Sum_probs=13.3
Q ss_pred cccCcceeEecCceE-ec-ceEEEccCCCC
Q 005362 52 RCENCYAYFNTYCEL-EQ-WAWTCSLCGSL 79 (700)
Q Consensus 52 RC~~C~ayiNp~~~~-~~-~~w~C~~C~~~ 79 (700)
-|..|++=+.--.-- |+ .+|+|+-|+..
T Consensus 2 fC~~CG~~l~~~ip~gd~r~R~vC~~Cg~I 31 (34)
T PF14803_consen 2 FCPQCGGPLERRIPEGDDRERLVCPACGFI 31 (34)
T ss_dssp B-TTT--B-EEE--TT-SS-EEEETTTTEE
T ss_pred ccccccChhhhhcCCCCCccceECCCCCCE
Confidence 388888854322211 22 58999999864
No 135
>PRK12722 transcriptional activator FlhC; Provisional
Probab=27.49 E-value=26 Score=33.99 Aligned_cols=27 Identities=22% Similarity=0.658 Sum_probs=19.5
Q ss_pred CCCcccCcceeEecCceE--e-cceEEEccCCC
Q 005362 49 MLPRCENCYAYFNTYCEL--E-QWAWTCSLCGS 78 (700)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~--~-~~~w~C~~C~~ 78 (700)
...+|+.|++ .|+.- + ...++|++|+-
T Consensus 133 ~l~~C~~Cgg---~fv~~~~e~~~~f~CplC~~ 162 (187)
T PRK12722 133 QLSSCNCCGG---HFVTHAHDPVGSFVCGLCQP 162 (187)
T ss_pred eeccCCCCCC---CeeccccccCCCCcCCCCCC
Confidence 4678999998 33321 2 36899999987
No 136
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=27.06 E-value=44 Score=25.73 Aligned_cols=26 Identities=31% Similarity=0.553 Sum_probs=19.7
Q ss_pred CCCcccCcceeEecCceEecceEEEccCCCCCC
Q 005362 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLNG 81 (700)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~ 81 (700)
.+..|..|+.+.=| .-.|+.||..+.
T Consensus 26 ~l~~C~~CG~~~~~-------H~vC~~CG~Y~g 51 (57)
T PRK12286 26 GLVECPNCGEPKLP-------HRVCPSCGYYKG 51 (57)
T ss_pred cceECCCCCCccCC-------eEECCCCCcCCC
Confidence 56789999997544 678999997653
No 137
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=27.03 E-value=30 Score=23.88 Aligned_cols=26 Identities=19% Similarity=0.522 Sum_probs=10.9
Q ss_pred ccCcceeEecCceEecceEEEccCCC
Q 005362 53 CENCYAYFNTYCELEQWAWTCSLCGS 78 (700)
Q Consensus 53 C~~C~ayiNp~~~~~~~~w~C~~C~~ 78 (700)
|..|++..|-...--....+|..||.
T Consensus 4 C~~Cg~~Yh~~~~pP~~~~~Cd~cg~ 29 (36)
T PF05191_consen 4 CPKCGRIYHIEFNPPKVEGVCDNCGG 29 (36)
T ss_dssp ETTTTEEEETTTB--SSTTBCTTTTE
T ss_pred cCCCCCccccccCCCCCCCccCCCCC
Confidence 45555554443332223444554443
No 138
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=26.92 E-value=28 Score=31.98 Aligned_cols=31 Identities=23% Similarity=0.493 Sum_probs=20.0
Q ss_pred CCcccCcceeEecCc-------------eE----ecceEEEccCCCCC
Q 005362 50 LPRCENCYAYFNTYC-------------EL----EQWAWTCSLCGSLN 80 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~-------------~~----~~~~w~C~~C~~~N 80 (700)
..+|..|+.....-- .+ ....|.|+-||..+
T Consensus 70 ~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~ 117 (135)
T PRK03824 70 VLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRD 117 (135)
T ss_pred EEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCC
Confidence 468999996554421 00 03468899999775
No 139
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=26.71 E-value=29 Score=26.71 Aligned_cols=24 Identities=25% Similarity=0.552 Sum_probs=12.0
Q ss_pred CCCCcccCcceeEecCceEecceEEEccCCCC
Q 005362 48 HMLPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (700)
Q Consensus 48 ~~~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (700)
..|.||.+||-.= ..|+|+-||..
T Consensus 36 ~~I~Rc~~CRk~g--------~~Y~Cp~CGF~ 59 (61)
T COG2888 36 VEIYRCAKCRKLG--------NPYRCPKCGFE 59 (61)
T ss_pred eeeehhhhHHHcC--------CceECCCcCcc
Confidence 3455555555432 23556666643
No 140
>TIGR00006 S-adenosyl-methyltransferase MraW. Genetics paper in 1972 links mra cluster to peptidoglycan biosynthesis in E. coli. Seems to be common in proteobacteria.wn.
Probab=26.59 E-value=78 Score=33.39 Aligned_cols=30 Identities=27% Similarity=0.328 Sum_probs=26.8
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEeeecc
Q 005362 135 EFLELTRSALQAALEAVPSGALFGLATFSH 164 (700)
Q Consensus 135 ~~l~~~~~~l~~~l~~lp~~~~vgiItf~~ 164 (700)
.+|+.+..+|.++.+.|.++-++++|||.+
T Consensus 214 ~EL~~L~~~L~~~~~~L~~gGrl~VISfHS 243 (305)
T TIGR00006 214 DELEELEEALQFAPNLLAPGGRLSIISFHS 243 (305)
T ss_pred HhHHHHHHHHHHHHHHhcCCCEEEEEecCc
Confidence 678889999999999999999999999864
No 141
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=26.24 E-value=33 Score=23.73 Aligned_cols=29 Identities=28% Similarity=0.575 Sum_probs=16.4
Q ss_pred CcccCcceeEecC-ceEe--cceEEEccCCCC
Q 005362 51 PRCENCYAYFNTY-CELE--QWAWTCSLCGSL 79 (700)
Q Consensus 51 ~RC~~C~ayiNp~-~~~~--~~~w~C~~C~~~ 79 (700)
++|.+|++-.+-= .++. +++.+|+-|++.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~ 34 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHV 34 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcE
Confidence 5677777754422 2222 256777777764
No 142
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=25.33 E-value=1.2e+02 Score=34.52 Aligned_cols=28 Identities=25% Similarity=0.592 Sum_probs=23.6
Q ss_pred cEEEEEEECCCCh--------hHHHHHHHHHHHHHH
Q 005362 122 PVYVAAVDLSSSE--------EFLELTRSALQAALE 149 (700)
Q Consensus 122 p~~vFvID~s~~~--------~~l~~~~~~l~~~l~ 149 (700)
|+|+|+||+|.+. .+|+.+|.++...++
T Consensus 2 pi~lFllDTS~SM~qrah~~~tylD~AKgaVEtFiK 37 (888)
T KOG3768|consen 2 PIFLFLLDTSGSMSQRAHPQFTYLDLAKGAVETFIK 37 (888)
T ss_pred ceEEEEEecccchhhhccCCchhhHHHHHHHHHHHH
Confidence 6899999999975 678888888887765
No 143
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=25.01 E-value=31 Score=21.93 Aligned_cols=22 Identities=32% Similarity=0.510 Sum_probs=13.3
Q ss_pred cccCcceeEecCceEecceEEEccCCCC
Q 005362 52 RCENCYAYFNTYCELEQWAWTCSLCGSL 79 (700)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (700)
+|..|++-|+- ..-.|+.||+.
T Consensus 2 ~CP~C~~~V~~------~~~~Cp~CG~~ 23 (26)
T PF10571_consen 2 TCPECGAEVPE------SAKFCPHCGYD 23 (26)
T ss_pred cCCCCcCCchh------hcCcCCCCCCC
Confidence 46777775522 34467777765
No 144
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=24.82 E-value=39 Score=29.32 Aligned_cols=27 Identities=19% Similarity=0.486 Sum_probs=21.5
Q ss_pred cccCcceeEecCceEecceEEEccCCCCCCC
Q 005362 52 RCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (700)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~ 82 (700)
.|.+|++.|.|- ...|.|+-|+.....
T Consensus 2 fC~~Cg~~l~~~----~~~~~C~~C~~~~~~ 28 (104)
T TIGR01384 2 FCPKCGSLMTPK----NGVYVCPSCGYEKEK 28 (104)
T ss_pred CCcccCcccccC----CCeEECcCCCCcccc
Confidence 599999999652 368999999987554
No 145
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=24.75 E-value=41 Score=31.32 Aligned_cols=31 Identities=26% Similarity=0.701 Sum_probs=21.5
Q ss_pred CCcccCcceeEecCceEe-------------cceEEEccCCCCC
Q 005362 50 LPRCENCYAYFNTYCELE-------------QWAWTCSLCGSLN 80 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~-------------~~~w~C~~C~~~N 80 (700)
..||..|.+-+-+-.+-+ +.-|+|+-|++.-
T Consensus 91 ~sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~~C~kiy 134 (147)
T PF01927_consen 91 FSRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCPGCGKIY 134 (147)
T ss_pred CCccCCCCcEeeechhhccccccCccccccCCeEEECCCCCCEe
Confidence 479999999654432210 1379999999863
No 146
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=24.63 E-value=35 Score=25.34 Aligned_cols=26 Identities=35% Similarity=0.677 Sum_probs=16.1
Q ss_pred CcccCcceeEecCceEec--ceEEEccCCCCC
Q 005362 51 PRCENCYAYFNTYCELEQ--WAWTCSLCGSLN 80 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~N 80 (700)
-+|.+|++-+ ..+. ..-.|+-||+.-
T Consensus 7 Y~C~~Cg~~~----~~~~~~~~irCp~Cg~rI 34 (49)
T COG1996 7 YKCARCGREV----ELDQETRGIRCPYCGSRI 34 (49)
T ss_pred EEhhhcCCee----ehhhccCceeCCCCCcEE
Confidence 4677777755 3222 467777777653
No 147
>PF02905 EBV-NA1: Epstein Barr virus nuclear antigen-1, DNA-binding domain; InterPro: IPR004186 The Epstein-Barr virus (strain GD1) nuclear antigen 1 (EBNA1) binds to and activates DNA replication from the latent origin of replication. The crystal structure of the DNA-binding and dimerization domains were solved [], and it was found that EBNA1 appears to bind DNA via two independent regions, the core and the flanking DNA-binding domains. This DNA-binding domain has a ferredoxin-like fold.; GO: 0003677 DNA binding, 0003688 DNA replication origin binding, 0006260 DNA replication, 0006275 regulation of DNA replication, 0045893 positive regulation of transcription, DNA-dependent, 0042025 host cell nucleus; PDB: 1B3T_B 1VHI_B.
Probab=24.58 E-value=1e+02 Score=27.50 Aligned_cols=33 Identities=15% Similarity=0.287 Sum_probs=24.3
Q ss_pred hHHHHHHHHHHHHHHhCCC---CcEEEEeeecceEE
Q 005362 135 EFLELTRSALQAALEAVPS---GALFGLATFSHKIG 167 (700)
Q Consensus 135 ~~l~~~~~~l~~~l~~lp~---~~~vgiItf~~~V~ 167 (700)
-+.+.++++|++-+..-|. +++|-+++||+.|-
T Consensus 110 ~fAe~vkDAi~Dyi~T~P~PT~~~~Vt~~~Fd~~V~ 145 (146)
T PF02905_consen 110 LFAECVKDAIRDYIMTRPQPTCNTQVTVCSFDDGVM 145 (146)
T ss_dssp HHHHHHHHHHHHHHCTS-TTGGGEEEEEEEEEEEE-
T ss_pred HHHHHHHHHHHHHhcCCCCCCcceEEEEEeCCCCCc
Confidence 3456788888887766553 67999999998774
No 148
>PF05280 FlhC: Flagellar transcriptional activator (FlhC); InterPro: IPR007944 This family consists of several bacterial flagellar transcriptional activator (FlhC) proteins. FlhC combines with FlhD to form a regulatory complex in Escherichia coli, this complex has been shown to be a global regulator involved in many cellular processes as well as a flagellar transcriptional activator [].; GO: 0003677 DNA binding, 0030092 regulation of flagellum assembly, 0045893 positive regulation of transcription, DNA-dependent; PDB: 2AVU_E.
Probab=24.26 E-value=30 Score=33.30 Aligned_cols=28 Identities=18% Similarity=0.676 Sum_probs=10.2
Q ss_pred CCCcccCcce-eEecCceEe-cceEEEccCCC
Q 005362 49 MLPRCENCYA-YFNTYCELE-QWAWTCSLCGS 78 (700)
Q Consensus 49 ~~~RC~~C~a-yiNp~~~~~-~~~w~C~~C~~ 78 (700)
...+|.+|++ |+... -+ ...++|++|+-
T Consensus 133 ~l~~C~~C~~~fv~~~--~~~~~~~~Cp~C~~ 162 (175)
T PF05280_consen 133 QLAPCRRCGGHFVTHA--HDPRHSFVCPFCQP 162 (175)
T ss_dssp EEEE-TTT--EEEEES--S--SS----TT---
T ss_pred cccCCCCCCCCeECcC--CCCCcCcCCCCCCC
Confidence 3568999998 44321 12 36899999993
No 149
>PRK12860 transcriptional activator FlhC; Provisional
Probab=23.53 E-value=36 Score=33.05 Aligned_cols=26 Identities=27% Similarity=0.783 Sum_probs=19.0
Q ss_pred CCCcccCcceeEecCceE--e-cceEEEccCC
Q 005362 49 MLPRCENCYAYFNTYCEL--E-QWAWTCSLCG 77 (700)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~--~-~~~w~C~~C~ 77 (700)
...+|..|++ .|+.- + ...++|++|.
T Consensus 133 ~l~~C~~Cgg---~fv~~~~e~~~~f~CplC~ 161 (189)
T PRK12860 133 QLARCCRCGG---KFVTHAHDLRHNFVCGLCQ 161 (189)
T ss_pred eeccCCCCCC---CeeccccccCCCCcCCCCC
Confidence 4679999998 33321 2 3699999999
No 150
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=23.35 E-value=1.1e+02 Score=31.36 Aligned_cols=45 Identities=16% Similarity=0.252 Sum_probs=35.9
Q ss_pred HHHHHHHHHHcCcEEEEeeecCCCcChhhhhhcccccceEEEEeCCCC
Q 005362 315 YKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTD 362 (700)
Q Consensus 315 Y~~la~~~~~~~isvdlf~~~~~~~dl~~l~~l~~~TGG~~~~y~~~~ 362 (700)
|-+.--.|.+++|.||++....+ -..|.+.|..|||.....++-+
T Consensus 185 ~MNciFaAqKq~I~Idv~~l~~~---s~~LqQa~D~TGG~YL~v~~~~ 229 (314)
T KOG2487|consen 185 YMNCIFAAQKQNIPIDVVSLGGD---SGFLQQACDITGGDYLHVEKPD 229 (314)
T ss_pred HHHHHHHHHhcCceeEEEEecCC---chHHHHHHhhcCCeeEecCCcc
Confidence 44566778899999999998876 3458999999999977776543
No 151
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=22.91 E-value=51 Score=22.11 Aligned_cols=13 Identities=23% Similarity=0.273 Sum_probs=9.6
Q ss_pred CCCCCcccCccee
Q 005362 47 GHMLPRCENCYAY 59 (700)
Q Consensus 47 ~~~~~RC~~C~ay 59 (700)
..+++||..|+.-
T Consensus 14 ~~~~irC~~CG~R 26 (32)
T PF03604_consen 14 PGDPIRCPECGHR 26 (32)
T ss_dssp TSSTSSBSSSS-S
T ss_pred CCCcEECCcCCCe
Confidence 4578999999864
No 152
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=22.68 E-value=42 Score=23.08 Aligned_cols=29 Identities=28% Similarity=0.581 Sum_probs=13.9
Q ss_pred CcccCcceeEecCc-eEe--cceEEEccCCCC
Q 005362 51 PRCENCYAYFNTYC-ELE--QWAWTCSLCGSL 79 (700)
Q Consensus 51 ~RC~~C~ayiNp~~-~~~--~~~w~C~~C~~~ 79 (700)
++|.+|++-.+-=- ++- .++.+|.-|++.
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~ 34 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHV 34 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCE
Confidence 45666666433211 111 145666666653
No 153
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=22.58 E-value=1e+02 Score=32.37 Aligned_cols=30 Identities=30% Similarity=0.434 Sum_probs=26.6
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEeeecc
Q 005362 135 EFLELTRSALQAALEAVPSGALFGLATFSH 164 (700)
Q Consensus 135 ~~l~~~~~~l~~~l~~lp~~~~vgiItf~~ 164 (700)
.+|+.+..+|.++.+.|.++.++++|||.+
T Consensus 210 ~El~~L~~~L~~~~~~L~~gGrl~visfHS 239 (296)
T PRK00050 210 DELEELERALEAALDLLKPGGRLAVISFHS 239 (296)
T ss_pred hhHHHHHHHHHHHHHHhcCCCEEEEEecCc
Confidence 678889999999999999999999999965
No 154
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 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 MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=22.39 E-value=29 Score=25.81 Aligned_cols=10 Identities=30% Similarity=1.185 Sum_probs=4.0
Q ss_pred ceEEEccCCC
Q 005362 69 WAWTCSLCGS 78 (700)
Q Consensus 69 ~~w~C~~C~~ 78 (700)
..|.|++|++
T Consensus 40 ~~W~CPiC~~ 49 (50)
T PF02891_consen 40 PKWKCPICNK 49 (50)
T ss_dssp ---B-TTT--
T ss_pred CCeECcCCcC
Confidence 5799999986
No 155
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=22.37 E-value=41 Score=22.81 Aligned_cols=11 Identities=36% Similarity=1.458 Sum_probs=9.4
Q ss_pred eEEEccCCCCC
Q 005362 70 AWTCSLCGSLN 80 (700)
Q Consensus 70 ~w~C~~C~~~N 80 (700)
.|+|..||..-
T Consensus 2 ~~~C~~CG~i~ 12 (34)
T cd00729 2 VWVCPVCGYIH 12 (34)
T ss_pred eEECCCCCCEe
Confidence 69999999873
No 156
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=21.97 E-value=32 Score=28.90 Aligned_cols=33 Identities=21% Similarity=0.263 Sum_probs=20.7
Q ss_pred CCCcccCcceeEecCceEecceEEEccCCCCCCCC
Q 005362 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLS 83 (700)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p 83 (700)
.|+||++||--.++ .-...--+|+-|+..-.-+
T Consensus 57 ~Pa~CkkCGfef~~--~~ik~pSRCP~CKSE~Ie~ 89 (97)
T COG3357 57 RPARCKKCGFEFRD--DKIKKPSRCPKCKSEWIEE 89 (97)
T ss_pred cChhhcccCccccc--cccCCcccCCcchhhcccC
Confidence 58899999865443 0011356899998765433
No 157
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=21.97 E-value=45 Score=26.04 Aligned_cols=26 Identities=23% Similarity=0.501 Sum_probs=18.0
Q ss_pred cccCcceeEecCceEecceEEEccCCCCCCCChh
Q 005362 52 RCENCYAYFNTYCELEQWAWTCSLCGSLNGLSSQ 85 (700)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~~ 85 (700)
-|++|+.... .. +|+.|+...-..++
T Consensus 5 AC~~C~~i~~------~~--~CP~Cgs~~~T~~W 30 (61)
T PRK08351 5 ACRHCHYITT------ED--RCPVCGSRDLSDEW 30 (61)
T ss_pred hhhhCCcccC------CC--cCCCCcCCcccccc
Confidence 5999998662 12 69999997744433
No 158
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=21.93 E-value=32 Score=26.50 Aligned_cols=22 Identities=36% Similarity=0.768 Sum_probs=12.6
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (700)
|.||.+||-.- ..|+|+-||..
T Consensus 36 I~RC~~CRk~~--------~~Y~CP~CGF~ 57 (59)
T PRK14890 36 IYRCEKCRKQS--------NPYTCPKCGFE 57 (59)
T ss_pred EeechhHHhcC--------CceECCCCCCc
Confidence 55666665433 34567777654
No 159
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=21.43 E-value=47 Score=32.40 Aligned_cols=35 Identities=20% Similarity=0.338 Sum_probs=23.1
Q ss_pred CcccCcceeEecCceEe--cceEEEccCCCCCCCChh
Q 005362 51 PRCENCYAYFNTYCELE--QWAWTCSLCGSLNGLSSQ 85 (700)
Q Consensus 51 ~RC~~C~ayiNp~~~~~--~~~w~C~~C~~~N~~p~~ 85 (700)
..|++|.--=+-+.--. -..|+|++|++.|..+.+
T Consensus 193 lIC~~C~hhngl~~~~ek~~~efiC~~Cn~~n~~~~~ 229 (251)
T COG5415 193 LICPQCHHHNGLYRLAEKPIIEFICPHCNHKNDEVKE 229 (251)
T ss_pred hccccccccccccccccccchheecccchhhcCcccc
Confidence 56888765433332222 147999999999987754
No 160
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=21.31 E-value=42 Score=35.25 Aligned_cols=35 Identities=20% Similarity=0.362 Sum_probs=25.8
Q ss_pred CCcccCcceeEecCce--EecceEEEccCCCCCCCCh
Q 005362 50 LPRCENCYAYFNTYCE--LEQWAWTCSLCGSLNGLSS 84 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~--~~~~~w~C~~C~~~N~~p~ 84 (700)
-..|++|+.-=+.+-. +..-.|+|.+|++.|+-+.
T Consensus 220 ALIC~~C~~HNGla~~ee~~yi~F~C~~Cn~LN~~~k 256 (328)
T KOG2846|consen 220 ALICSQCHHHNGLARKEEYEYITFRCPHCNALNPAKK 256 (328)
T ss_pred hhcchhhccccCcCChhhcCceEEECccccccCCCcC
Confidence 4679999986554443 3346899999999998653
No 161
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=21.31 E-value=1.3e+02 Score=27.68 Aligned_cols=25 Identities=24% Similarity=0.487 Sum_probs=19.6
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (700)
-.||.+|+.+.=| -+-.|+-|+...
T Consensus 29 g~kC~~CG~v~~P------Pr~~Cp~C~~~~ 53 (140)
T COG1545 29 GTKCKKCGRVYFP------PRAYCPKCGSET 53 (140)
T ss_pred EEEcCCCCeEEcC------CcccCCCCCCCC
Confidence 4799999997433 566799999986
No 162
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=21.25 E-value=38 Score=24.00 Aligned_cols=9 Identities=44% Similarity=1.198 Sum_probs=7.3
Q ss_pred CcccCccee
Q 005362 51 PRCENCYAY 59 (700)
Q Consensus 51 ~RC~~C~ay 59 (700)
+||.+|++|
T Consensus 2 ~kC~~CG~~ 10 (40)
T PF15288_consen 2 VKCKNCGAF 10 (40)
T ss_pred ccccccccc
Confidence 588888886
No 163
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=21.17 E-value=63 Score=22.13 Aligned_cols=24 Identities=29% Similarity=0.415 Sum_probs=12.1
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (700)
.-||..|+.+.= .-+-.|+-|+..
T Consensus 11 ~~rC~~Cg~~~~------pPr~~Cp~C~s~ 34 (37)
T PF12172_consen 11 GQRCRDCGRVQF------PPRPVCPHCGSD 34 (37)
T ss_dssp EEE-TTT--EEE------S--SEETTTT--
T ss_pred EEEcCCCCCEec------CCCcCCCCcCcc
Confidence 468999999722 234778888754
No 164
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=20.49 E-value=28 Score=30.91 Aligned_cols=27 Identities=30% Similarity=0.883 Sum_probs=16.8
Q ss_pred CCcccCcceeEecCceEecceEEEccCCCCC
Q 005362 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (700)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (700)
-.||..|+.-..+ +...+.||.|+..+
T Consensus 70 ~~~C~~Cg~~~~~----~~~~~~CP~Cgs~~ 96 (113)
T PF01155_consen 70 RARCRDCGHEFEP----DEFDFSCPRCGSPD 96 (113)
T ss_dssp EEEETTTS-EEEC----HHCCHH-SSSSSS-
T ss_pred cEECCCCCCEEec----CCCCCCCcCCcCCC
Confidence 3689999986433 12347799999886
No 165
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=20.46 E-value=58 Score=19.78 Aligned_cols=13 Identities=15% Similarity=0.560 Sum_probs=9.0
Q ss_pred EEEccCCCCCCCC
Q 005362 71 WTCSLCGSLNGLS 83 (700)
Q Consensus 71 w~C~~C~~~N~~p 83 (700)
|.|.+|+..-.-+
T Consensus 1 ~~C~~C~~~f~s~ 13 (25)
T PF12874_consen 1 FYCDICNKSFSSE 13 (25)
T ss_dssp EEETTTTEEESSH
T ss_pred CCCCCCCCCcCCH
Confidence 7888888654443
No 166
>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=20.11 E-value=76 Score=19.85 Aligned_cols=23 Identities=22% Similarity=0.609 Sum_probs=11.0
Q ss_pred ccCcceeEecCceEecceEEEccCC
Q 005362 53 CENCYAYFNTYCELEQWAWTCSLCG 77 (700)
Q Consensus 53 C~~C~ayiNp~~~~~~~~w~C~~C~ 77 (700)
|.+|+.-|-|--+ ...|.|+-||
T Consensus 1 C~sC~~~i~~r~~--~v~f~CPnCG 23 (24)
T PF07754_consen 1 CTSCGRPIAPREQ--AVPFPCPNCG 23 (24)
T ss_pred CccCCCcccCccc--CceEeCCCCC
Confidence 4555554433211 1356676666
Done!