Query 006547
Match_columns 641
No_of_seqs 178 out of 835
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 00:52:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006547.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006547hhsearch_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 5E-119 1E-123 964.7 46.0 588 1-639 171-812 (887)
2 KOG1984 Vesicle coat complex C 100.0 2E-116 4E-121 945.3 46.1 575 2-623 289-914 (1007)
3 PLN00162 transport protein sec 100.0 2E-113 4E-118 979.9 58.0 594 2-638 11-686 (761)
4 COG5028 Vesicle coat complex C 100.0 8E-106 2E-110 855.7 44.3 562 2-623 152-769 (861)
5 PTZ00395 Sec24-related protein 100.0 2E-101 5E-106 862.7 47.2 569 2-623 654-1467(1560)
6 KOG1986 Vesicle coat complex C 100.0 1.5E-99 3E-104 802.7 44.0 590 2-638 11-669 (745)
7 COG5047 SEC23 Vesicle coat com 100.0 3.8E-92 8.1E-97 727.1 34.5 572 2-620 11-659 (755)
8 cd01478 Sec23-like Sec23-like: 100.0 9.1E-47 2E-51 381.4 22.2 241 119-372 1-267 (267)
9 cd01479 Sec24-like Sec24-like: 100.0 2.5E-46 5.4E-51 375.5 21.4 229 119-377 1-243 (244)
10 cd01468 trunk_domain trunk dom 100.0 5.2E-45 1.1E-49 366.4 21.4 228 119-372 1-239 (239)
11 PF04811 Sec23_trunk: Sec23/Se 100.0 1.2E-43 2.6E-48 357.9 17.5 230 119-374 1-243 (243)
12 PF04815 Sec23_helical: Sec23/ 99.7 7E-17 1.5E-21 140.1 9.4 95 464-570 9-103 (103)
13 PF04810 zf-Sec23_Sec24: Sec23 99.5 2.1E-15 4.7E-20 105.9 2.2 38 49-86 1-40 (40)
14 PF08033 Sec23_BS: Sec23/Sec24 99.5 1.6E-14 3.5E-19 123.7 7.8 79 379-461 1-88 (96)
15 PRK13685 hypothetical protein; 98.7 3.7E-07 8.1E-12 96.2 17.6 162 122-360 89-275 (326)
16 cd01453 vWA_transcription_fact 98.7 2.6E-07 5.6E-12 89.0 13.8 162 123-372 5-177 (183)
17 cd01466 vWA_C3HC4_type VWA C3H 98.7 6.8E-07 1.5E-11 83.7 15.6 150 124-358 3-154 (155)
18 cd01465 vWA_subgroup VWA subgr 98.7 1.4E-06 3.1E-11 82.5 17.8 159 124-361 3-163 (170)
19 cd01456 vWA_ywmD_type VWA ywmD 98.7 5E-07 1.1E-11 88.9 14.9 169 119-355 18-196 (206)
20 cd01451 vWA_Magnesium_chelatas 98.6 9.3E-07 2E-11 84.8 15.6 165 124-367 3-173 (178)
21 cd01463 vWA_VGCC_like VWA Volt 98.6 3.5E-06 7.7E-11 81.7 17.7 168 120-360 12-188 (190)
22 cd01467 vWA_BatA_type VWA BatA 98.5 8.5E-06 1.8E-10 78.1 17.1 155 123-360 4-176 (180)
23 TIGR00868 hCaCC calcium-activa 98.3 3.1E-05 6.6E-10 89.6 20.3 155 121-360 304-462 (863)
24 cd01452 VWA_26S_proteasome_sub 98.3 2.4E-05 5.2E-10 75.0 15.3 146 123-351 5-161 (187)
25 cd01472 vWA_collagen von Wille 98.3 3.2E-05 6.8E-10 73.1 16.2 152 124-359 3-162 (164)
26 PF13768 VWA_3: von Willebrand 98.3 1.3E-05 2.8E-10 74.9 13.2 151 124-356 3-154 (155)
27 TIGR03436 acidobact_VWFA VWFA- 98.3 3.6E-05 7.8E-10 80.2 17.6 171 120-358 52-238 (296)
28 cd01461 vWA_interalpha_trypsin 98.3 5.9E-05 1.3E-09 71.4 17.3 159 121-361 2-162 (171)
29 cd01480 vWA_collagen_alpha_1-V 98.2 2.5E-05 5.4E-10 75.5 14.8 158 123-361 4-172 (186)
30 cd01470 vWA_complement_factors 98.2 3.8E-05 8.2E-10 75.0 15.6 169 124-361 3-190 (198)
31 PF13519 VWA_2: von Willebrand 98.1 1.3E-05 2.8E-10 75.6 9.9 150 124-358 2-158 (172)
32 cd01474 vWA_ATR ATR (Anthrax T 98.1 0.00011 2.4E-09 70.9 15.4 158 123-362 6-168 (185)
33 cd01471 vWA_micronemal_protein 98.0 0.00019 4E-09 69.3 15.4 150 124-350 3-160 (186)
34 cd01469 vWA_integrins_alpha_su 97.9 0.00058 1.3E-08 65.4 16.6 159 124-362 3-172 (177)
35 cd01482 vWA_collagen_alphaI-XI 97.9 0.00067 1.5E-08 64.0 15.9 151 124-358 3-161 (164)
36 cd01475 vWA_Matrilin VWA_Matri 97.9 0.00052 1.1E-08 68.4 15.8 156 123-362 4-170 (224)
37 TIGR03788 marine_srt_targ mari 97.8 0.00097 2.1E-08 76.3 19.4 184 120-387 270-458 (596)
38 cd01450 vWFA_subfamily_ECM Von 97.8 0.00083 1.8E-08 62.5 15.7 148 124-352 3-156 (161)
39 cd01477 vWA_F09G8-8_type VWA F 97.8 0.00071 1.5E-08 65.7 15.4 47 122-168 20-77 (193)
40 TIGR02031 BchD-ChlD magnesium 97.7 0.001 2.3E-08 75.6 17.4 177 121-364 407-586 (589)
41 PRK13406 bchD magnesium chelat 97.7 0.0014 3.1E-08 73.9 18.0 175 121-370 401-579 (584)
42 PTZ00441 sporozoite surface pr 97.7 0.0015 3.2E-08 72.1 17.1 165 121-362 42-217 (576)
43 cd01481 vWA_collagen_alpha3-VI 97.7 0.0022 4.9E-08 60.6 15.9 154 124-361 3-165 (165)
44 PF00092 VWA: von Willebrand f 97.6 0.00096 2.1E-08 63.3 12.9 158 124-362 2-169 (178)
45 smart00327 VWA von Willebrand 97.5 0.009 1.9E-07 56.3 17.9 155 123-357 3-164 (177)
46 TIGR02442 Cob-chelat-sub cobal 97.5 0.0026 5.6E-08 73.2 16.0 160 121-358 465-632 (633)
47 COG1240 ChlD Mg-chelatase subu 97.3 0.0062 1.4E-07 60.2 14.8 170 122-367 79-253 (261)
48 cd01476 VWA_integrin_invertebr 97.3 0.012 2.6E-07 55.1 16.6 107 124-281 3-116 (163)
49 cd00198 vWFA Von Willebrand fa 97.3 0.0082 1.8E-07 55.1 15.2 149 123-351 2-155 (161)
50 cd01464 vWA_subfamily VWA subf 97.2 0.002 4.3E-08 61.6 10.0 45 124-168 6-58 (176)
51 PF04056 Ssl1: Ssl1-like; Int 97.1 0.0047 1E-07 59.4 11.2 164 127-375 1-174 (193)
52 cd01454 vWA_norD_type norD typ 97.0 0.028 6E-07 53.5 15.8 145 123-337 2-153 (174)
53 cd01473 vWA_CTRP CTRP for CS 96.9 0.033 7.1E-07 54.1 15.3 151 124-350 3-161 (192)
54 cd01458 vWA_ku Ku70/Ku80 N-ter 96.8 0.025 5.4E-07 56.0 13.7 158 123-337 3-173 (218)
55 cd01462 VWA_YIEM_type VWA YIEM 96.5 0.068 1.5E-06 49.4 13.9 42 124-165 3-47 (152)
56 PF00626 Gelsolin: Gelsolin re 95.3 0.013 2.8E-07 47.3 2.8 24 597-620 15-38 (76)
57 COG4245 TerY Uncharacterized p 95.3 0.038 8.3E-07 51.9 5.9 48 121-169 4-59 (207)
58 KOG2884 26S proteasome regulat 94.4 1.2 2.6E-05 43.0 13.4 134 123-340 5-150 (259)
59 cd01460 vWA_midasin VWA_Midasi 93.9 2.4 5.2E-05 43.2 15.5 45 120-166 59-110 (266)
60 smart00262 GEL Gelsolin homolo 93.0 0.1 2.2E-06 43.7 3.4 25 597-621 23-47 (90)
61 cd01457 vWA_ORF176_type VWA OR 91.8 1.7 3.8E-05 42.1 11.0 43 123-165 4-57 (199)
62 cd01455 vWA_F11C1-5a_type Von 91.5 5.8 0.00013 38.2 13.8 40 319-360 135-174 (191)
63 KOG0443 Actin regulatory prote 90.1 0.28 6.1E-06 55.7 3.9 55 567-622 615-670 (827)
64 PF03850 Tfb4: Transcription f 88.8 28 0.0006 35.8 16.9 87 246-360 116-207 (276)
65 COG5148 RPN10 26S proteasome r 86.3 26 0.00057 33.2 13.5 131 123-335 5-145 (243)
66 KOG2807 RNA polymerase II tran 83.0 14 0.00031 37.9 11.0 88 245-367 142-229 (378)
67 KOG2353 L-type voltage-depende 81.9 37 0.00079 41.5 15.8 67 100-168 203-274 (1104)
68 PF06707 DUF1194: Protein of u 81.7 54 0.0012 32.0 16.5 103 245-378 94-202 (205)
69 PRK00398 rpoP DNA-directed RNA 78.5 1.3 2.9E-05 32.0 1.6 28 50-81 3-32 (46)
70 PF10058 DUF2296: Predicted in 78.4 1.2 2.6E-05 33.5 1.3 33 48-80 20-54 (54)
71 TIGR00578 ku70 ATP-dependent D 78.3 33 0.00072 39.3 13.5 73 246-342 117-190 (584)
72 PF09967 DUF2201: VWA-like dom 78.0 5.9 0.00013 35.5 6.0 42 125-168 2-45 (126)
73 PRK10997 yieM hypothetical pro 76.6 22 0.00048 39.5 11.0 49 123-171 325-376 (487)
74 COG2425 Uncharacterized protei 74.9 18 0.00039 39.4 9.6 102 121-279 273-377 (437)
75 smart00187 INB Integrin beta s 74.3 1.4E+02 0.003 32.6 22.9 200 124-354 102-315 (423)
76 PF00362 Integrin_beta: Integr 72.6 1.5E+02 0.0033 32.4 17.0 182 124-342 105-308 (426)
77 TIGR00627 tfb4 transcription f 67.6 32 0.0007 35.3 9.1 99 246-374 119-221 (279)
78 KOG0444 Cytoskeletal regulator 66.9 6.5 0.00014 44.2 4.1 56 565-620 727-787 (1255)
79 TIGR00686 phnA alkylphosphonat 66.4 4.7 0.0001 34.6 2.3 28 50-80 2-29 (109)
80 PF11781 RRN7: RNA polymerase 65.6 4.4 9.4E-05 27.7 1.6 27 50-79 8-34 (36)
81 cd00730 rubredoxin Rubredoxin; 65.0 3.3 7.1E-05 30.6 1.0 28 52-79 3-43 (50)
82 TIGR01053 LSD1 zinc finger dom 64.6 4.4 9.6E-05 26.7 1.4 30 51-82 2-31 (31)
83 PF10122 Mu-like_Com: Mu-like 64.1 2.1 4.7E-05 31.3 -0.1 34 50-83 4-37 (51)
84 KOG0443 Actin regulatory prote 63.8 6.4 0.00014 45.2 3.5 50 570-621 253-307 (827)
85 PF00301 Rubredoxin: Rubredoxi 63.4 3.3 7.1E-05 30.1 0.8 28 52-79 3-43 (47)
86 cd00350 rubredoxin_like Rubred 63.0 4.6 0.0001 26.9 1.4 24 52-79 3-26 (33)
87 PRK10220 hypothetical protein; 57.8 8.4 0.00018 33.1 2.3 28 50-80 3-30 (111)
88 smart00661 RPOL9 RNA polymeras 57.7 6.7 0.00015 28.8 1.6 31 52-83 2-33 (52)
89 PF08274 PhnA_Zn_Ribbon: PhnA 56.2 8.5 0.00018 25.1 1.6 27 50-79 2-28 (30)
90 PF03731 Ku_N: Ku70/Ku80 N-ter 55.8 22 0.00047 35.0 5.4 43 123-165 1-54 (224)
91 PF09082 DUF1922: Domain of un 55.5 2.9 6.2E-05 32.8 -0.7 31 50-84 3-33 (68)
92 PF10138 vWA-TerF-like: vWA fo 55.4 2E+02 0.0044 28.0 11.6 43 123-165 3-51 (200)
93 PRK12380 hydrogenase nickel in 54.2 5.9 0.00013 34.8 0.9 27 50-80 70-96 (113)
94 TIGR00100 hypA hydrogenase nic 54.2 6.1 0.00013 34.8 1.0 27 50-80 70-96 (115)
95 PF13240 zinc_ribbon_2: zinc-r 53.1 6.5 0.00014 23.9 0.7 21 52-78 1-21 (23)
96 PF12760 Zn_Tnp_IS1595: Transp 52.7 13 0.00029 26.7 2.4 27 51-78 19-45 (46)
97 COG1198 PriA Primosomal protei 52.4 40 0.00086 39.5 7.4 114 51-174 436-573 (730)
98 PF05762 VWA_CoxE: VWA domain 50.8 34 0.00073 33.8 5.9 45 119-166 54-100 (222)
99 PRK03681 hypA hydrogenase nick 48.8 7.3 0.00016 34.2 0.7 27 50-80 70-97 (114)
100 COG1096 Predicted RNA-binding 48.0 11 0.00024 35.8 1.7 26 50-79 149-174 (188)
101 TIGR02605 CxxC_CxxC_SSSS putat 47.4 10 0.00022 28.0 1.2 30 51-80 6-36 (52)
102 PHA00626 hypothetical protein 46.5 16 0.00034 27.4 2.0 30 53-82 3-35 (59)
103 PRK00420 hypothetical protein; 46.1 13 0.00028 32.5 1.7 30 51-83 24-53 (112)
104 PF09723 Zn-ribbon_8: Zinc rib 45.6 11 0.00024 26.6 1.1 29 51-79 6-35 (42)
105 TIGR00416 sms DNA repair prote 45.3 11 0.00024 41.7 1.5 29 50-84 7-35 (454)
106 PF06827 zf-FPG_IleRS: Zinc fi 43.6 14 0.0003 23.9 1.2 27 52-78 3-29 (30)
107 PRK00564 hypA hydrogenase nick 43.2 9.2 0.0002 33.8 0.4 28 50-81 71-99 (117)
108 PRK11823 DNA repair protein Ra 42.9 11 0.00024 41.6 1.0 30 50-85 7-36 (446)
109 PF10571 UPF0547: Uncharacteri 42.7 13 0.00028 23.4 0.9 22 52-79 2-23 (26)
110 PRK03954 ribonuclease P protei 41.9 13 0.00028 33.0 1.1 32 52-83 66-106 (121)
111 cd01121 Sms Sms (bacterial rad 41.9 13 0.00027 40.0 1.3 27 52-84 2-28 (372)
112 PF02318 FYVE_2: FYVE-type zin 41.4 13 0.00028 32.9 1.0 32 50-81 71-105 (118)
113 PRK00432 30S ribosomal protein 40.9 17 0.00038 26.8 1.5 26 51-79 21-46 (50)
114 PRK06393 rpoE DNA-directed RNA 40.2 14 0.0003 28.7 0.9 26 51-84 6-31 (64)
115 PRK00762 hypA hydrogenase nick 39.9 12 0.00026 33.4 0.7 31 50-81 70-103 (124)
116 PF14803 Nudix_N_2: Nudix N-te 39.0 22 0.00047 24.0 1.6 28 52-79 2-31 (34)
117 PF00641 zf-RanBP: Zn-finger i 38.7 11 0.00024 24.3 0.1 15 69-83 3-17 (30)
118 PF05191 ADK_lid: Adenylate ki 38.7 16 0.00034 25.0 0.9 26 53-78 4-29 (36)
119 smart00834 CxxC_CXXC_SSSS Puta 38.5 17 0.00037 25.1 1.1 28 51-78 6-34 (41)
120 PF09779 Ima1_N: Ima1 N-termin 38.5 19 0.00042 32.5 1.7 33 51-85 1-35 (131)
121 PF07282 OrfB_Zn_ribbon: Putat 38.2 21 0.00046 27.9 1.8 29 50-80 28-56 (69)
122 PF08271 TF_Zn_Ribbon: TFIIB z 37.8 21 0.00046 25.2 1.5 25 52-79 2-28 (43)
123 COG0275 Predicted S-adenosylme 36.8 48 0.001 34.3 4.4 30 135-164 218-247 (314)
124 smart00659 RPOLCX RNA polymera 36.2 27 0.00059 25.0 1.8 26 52-80 4-29 (44)
125 PF08792 A2L_zn_ribbon: A2L zi 35.1 32 0.00069 23.0 1.9 29 49-80 2-31 (33)
126 PF01927 Mut7-C: Mut7-C RNAse 34.4 24 0.00051 32.5 1.7 31 50-80 91-134 (147)
127 PF13894 zf-C2H2_4: C2H2-type 34.1 21 0.00045 20.8 0.9 12 71-82 1-12 (24)
128 COG0266 Nei Formamidopyrimidin 33.8 24 0.00052 35.9 1.7 28 51-78 246-273 (273)
129 PRK03824 hypA hydrogenase nick 33.8 20 0.00043 32.6 1.0 31 50-80 70-117 (135)
130 PRK12722 transcriptional activ 33.4 19 0.00042 34.4 0.9 28 49-79 133-163 (187)
131 PF13719 zinc_ribbon_5: zinc-r 33.0 26 0.00057 23.9 1.3 29 51-79 3-34 (37)
132 PRK14890 putative Zn-ribbon RN 32.0 15 0.00033 28.0 -0.0 22 50-79 36-57 (59)
133 COG1645 Uncharacterized Zn-fin 31.8 31 0.00068 30.9 1.9 25 51-79 29-53 (131)
134 smart00547 ZnF_RBZ Zinc finger 31.0 22 0.00047 22.0 0.6 14 70-83 2-15 (26)
135 COG2888 Predicted Zn-ribbon RN 30.9 15 0.00032 27.9 -0.2 24 48-79 36-59 (61)
136 PRK12286 rpmF 50S ribosomal pr 30.4 38 0.00082 25.8 1.9 25 49-80 26-50 (57)
137 KOG3799 Rab3 effector RIM1 and 30.2 25 0.00054 31.3 1.0 30 51-82 90-119 (169)
138 TIGR01384 TFS_arch transcripti 30.1 30 0.00065 29.6 1.5 27 52-82 2-28 (104)
139 PF02905 EBV-NA1: Epstein Barr 29.7 74 0.0016 28.1 3.7 33 135-167 110-145 (146)
140 PRK08351 DNA-directed RNA poly 29.4 29 0.00063 26.8 1.1 26 52-85 5-30 (61)
141 PF03604 DNA_RNApol_7kD: DNA d 29.2 38 0.00083 22.5 1.5 13 47-59 14-26 (32)
142 COG4416 Com Mu-like prophage p 29.1 9.1 0.0002 28.3 -1.5 33 50-82 4-36 (60)
143 PF02891 zf-MIZ: MIZ/SP-RING z 28.9 19 0.00041 26.5 0.1 10 69-78 40-49 (50)
144 TIGR00006 S-adenosyl-methyltra 28.6 71 0.0015 33.3 4.2 30 135-164 214-243 (305)
145 KOG0444 Cytoskeletal regulator 28.0 52 0.0011 37.4 3.2 33 588-621 638-670 (1255)
146 PF13717 zinc_ribbon_4: zinc-r 27.7 36 0.00078 23.1 1.3 29 51-79 3-34 (36)
147 PF07754 DUF1610: Domain of un 27.7 49 0.0011 20.5 1.7 23 53-77 1-23 (24)
148 KOG3768 DEAD box RNA helicase 27.0 1.1E+02 0.0023 34.4 5.3 46 338-386 191-236 (888)
149 PF05280 FlhC: Flagellar trans 26.9 26 0.00056 33.3 0.6 27 49-78 133-162 (175)
150 COG1996 RPC10 DNA-directed RNA 26.6 30 0.00066 25.4 0.8 26 51-80 7-34 (49)
151 PRK12860 transcriptional activ 26.5 33 0.00071 32.9 1.2 26 49-77 133-161 (189)
152 COG1545 Predicted nucleic-acid 26.2 1.1E+02 0.0023 28.0 4.4 25 50-80 29-53 (140)
153 PF01155 HypA: Hydrogenase exp 25.2 21 0.00045 31.3 -0.4 27 50-80 70-96 (113)
154 PRK00050 16S rRNA m(4)C1402 me 24.6 93 0.002 32.3 4.2 30 135-164 210-239 (296)
155 COG2956 Predicted N-acetylgluc 24.1 40 0.00086 35.1 1.3 29 48-84 352-382 (389)
156 PF12773 DZR: Double zinc ribb 24.0 41 0.00088 24.4 1.1 31 49-82 11-41 (50)
157 PF09788 Tmemb_55A: Transmembr 23.7 83 0.0018 31.5 3.4 35 49-83 64-98 (256)
158 COG3357 Predicted transcriptio 22.8 34 0.00074 28.4 0.5 34 49-84 57-90 (97)
159 PF08273 Prim_Zn_Ribbon: Zinc- 22.6 55 0.0012 23.0 1.4 25 53-78 6-34 (40)
160 PF12172 DUF35_N: Rubredoxin-l 22.6 58 0.0013 22.0 1.6 25 50-80 11-35 (37)
161 PRK12496 hypothetical protein; 22.6 36 0.00077 32.0 0.6 25 51-79 128-152 (164)
162 COG0675 Transposase and inacti 22.5 50 0.0011 34.5 1.8 26 49-81 308-333 (364)
163 PF05129 Elf1: Transcription e 22.5 32 0.00069 28.2 0.3 15 69-83 21-35 (81)
164 cd00729 rubredoxin_SM Rubredox 22.3 47 0.001 22.3 1.0 11 70-80 2-12 (34)
165 smart00778 Prim_Zn_Ribbon Zinc 22.1 70 0.0015 22.0 1.8 25 52-78 5-33 (37)
166 PF11265 Med25_VWA: Mediator c 21.9 7.9E+02 0.017 24.4 13.8 42 312-357 163-204 (226)
167 PRK14810 formamidopyrimidine-D 21.9 52 0.0011 33.7 1.7 27 51-78 245-272 (272)
168 TIGR00354 polC DNA polymerase, 21.9 44 0.00096 39.6 1.3 25 50-82 625-649 (1095)
169 TIGR00375 conserved hypothetic 21.8 29 0.00062 37.2 -0.2 32 46-79 236-267 (374)
170 PF12874 zf-met: Zinc-finger o 21.7 52 0.0011 19.7 1.1 13 71-83 1-13 (25)
171 KOG1074 Transcriptional repres 21.4 35 0.00075 39.7 0.3 38 48-85 351-396 (958)
172 COG5415 Predicted integral mem 21.1 50 0.0011 31.9 1.3 36 50-85 192-229 (251)
173 COG0375 HybF Zn finger protein 21.0 46 0.001 29.2 1.0 28 50-81 70-97 (115)
174 COG1773 Rubredoxin [Energy pro 20.9 49 0.0011 24.9 0.9 15 64-78 28-44 (55)
175 TIGR00340 zpr1_rel ZPR1-relate 20.9 70 0.0015 30.0 2.2 13 69-81 27-39 (163)
176 PF13453 zf-TFIIB: Transcripti 20.9 61 0.0013 22.6 1.4 27 53-79 2-28 (41)
177 PF13248 zf-ribbon_3: zinc-rib 20.7 47 0.001 20.7 0.7 8 51-58 3-10 (26)
178 PF15288 zf-CCHC_6: Zinc knuck 20.5 41 0.00089 23.6 0.4 9 51-59 2-10 (40)
179 PRK09263 anaerobic ribonucleos 20.3 54 0.0012 38.5 1.6 30 49-80 640-669 (711)
180 PF04032 Rpr2: RNAse P Rpr2/Rp 20.2 78 0.0017 25.7 2.2 28 51-78 47-85 (85)
No 1
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.9e-119 Score=964.65 Aligned_cols=588 Identities=31% Similarity=0.503 Sum_probs=521.8
Q ss_pred CceecccCcCCCCHHHHHhcCCCeeeEEccCCCCCCCCCCCcccCCCCCCCCCCCCCeeeeccceeec--ceeEecCCCC
Q 006547 1 MAVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGS 78 (641)
Q Consensus 1 ~~vR~T~~~~P~t~~~~~~~~lPlg~~~~Pf~~~~~~~~~p~~~~~~~~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~ 78 (641)
+++|+|+++||.+.++++|++||||++|+||++.++ +.+........|+||++||+||||||.|++ ++|+||+|+.
T Consensus 171 ~y~RsTl~~iP~t~sLl~kskLPlglvv~Pf~~~~d--~~~~p~~~~~~IvRCr~CRtYiNPFV~fid~gr~WrCNlC~~ 248 (887)
T KOG1985|consen 171 SYVRSTLSAIPQTQSLLKKSKLPLGLVVHPFAHLDD--IDPLPVITSTLIVRCRRCRTYINPFVEFIDQGRRWRCNLCGR 248 (887)
T ss_pred HHHHHHHHhCCccHHHHHhcCCCceEEEeecccccc--cCCCCcccCCceeeehhhhhhcCCeEEecCCCceeeechhhh
Confidence 479999999999999999999999999999997763 223334567889999999999999999975 7999999999
Q ss_pred CCCCChhhhcc-----cCCCcCccccccccEEEEecCCCCccccCCCCcEEEEEEECCCCh---hHHHHHHHHHHHHHHh
Q 006547 79 LNGLSSQAIAR-----YTHPQSCAEMISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSE---EFLELTRSALQAALEA 150 (641)
Q Consensus 79 ~N~~p~~~~~~-----~~~~~~~pEL~~~tve~~~p~~y~~~~~~~~~p~~vFvID~s~~~---~~l~~~~~~l~~~l~~ 150 (641)
.|++|.++... |.++.+|||+.+++|||++|.||+.| +++|++|||+||||.++ |+|++++++|++.||.
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 99999987533 66788999999999999999999976 67899999999999975 8999999999999999
Q ss_pred CC--CCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc-ccc-cccccchHhhHHHHHHHHHhhcCCC
Q 006547 151 VP--SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV-MPL-SQFLAPVETFKENITSALETLRPTT 226 (641)
Q Consensus 151 lp--~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~-~p~-~~~l~~~~~~~~~i~~lL~~L~~~~ 226 (641)
|| +++||||||||++||||+++++..++++ +++.|+||. +|. +++|+|+++||+.|+.+|+.|+++|
T Consensus 327 lpgd~Rt~igfi~fDs~ihfy~~~~~~~qp~m---------m~vsdl~d~flp~pd~lLv~L~~ck~~i~~lL~~lp~~F 397 (887)
T KOG1985|consen 327 LPGDPRTRIGFITFDSTIHFYSVQGDLNQPQM---------MIVSDLDDPFLPMPDSLLVPLKECKDLIETLLKTLPEMF 397 (887)
T ss_pred CCCCCcceEEEEEeeceeeEEecCCCcCCCce---------eeeccccccccCCchhheeeHHHHHHHHHHHHHHHHHHH
Confidence 99 7899999999999999999988766655 346788884 555 7999999999999999999999999
Q ss_pred ccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhc
Q 006547 227 SWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRA 306 (641)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~ 306 (641)
.|++. .++|+|+||++|.++|++.| |||++|++++|+.|.|+|+.||+.+.. +++++.+
T Consensus 398 ~~~~~------------t~~alGpALkaaf~li~~~G------Gri~vf~s~lPnlG~G~L~~rEdp~~~---~s~~~~q 456 (887)
T KOG1985|consen 398 QDTRS------------TGSALGPALKAAFNLIGSTG------GRISVFQSTLPNLGAGKLKPREDPNVR---SSDEDSQ 456 (887)
T ss_pred hhccC------------cccccCHHHHHHHHHHhhcC------CeEEEEeccCCCCCccccccccccccc---cchhhhh
Confidence 88765 36899999999999999988 899999999999999999999765543 5677889
Q ss_pred cCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEEeCCCCCC------chhHHHHHHhccCccc
Q 006547 307 LLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDS------TLPQDIYRMLSRPYAF 380 (641)
Q Consensus 307 ~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~------~l~~dl~~~l~~~~~~ 380 (641)
++.++++|||+||.+|++.||+||+|+++.+|.|+|+|+.|+++|||.+|||++|++. +|.+||.|+|+|++||
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 9999999999999999999999999999999999999999999999999999999755 7899999999999999
Q ss_pred eeEEEEecCCCceeeeeeeccccCCCCCcceeeeecCCCceEEEEEEEecCCCCCCCCCCCcEEEEEEeeeecccccccc
Q 006547 381 NCIMRLRTSSEFKPGHSYGHFFPDPQYENVQHIICCDSYATYAYDFDFANAAGFARHTSEQPMLQIAFQYTVVVPPEELS 460 (641)
Q Consensus 381 ~a~~rvr~S~gl~v~~~~G~~~~~~~~~~~~~~~~~d~~~s~~~~~e~~~~~~l~~~~~~~~~iQ~a~lYt~~~g~~~~~ 460 (641)
||+||||||+|++++.+||||+.++ .|++.++++++|+++++.+++++ ++ .....+||+|++||...|+||+|
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 9999999999999999999999986 67888999999999999988875 44 36778899999999999999998
Q ss_pred h------------hhHHH-------------HHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCccccccc
Q 006547 461 S------------EGLGS-------------VILASLEQGVREGRMLLHDWLVILTAQYNEAFKLVQHNIGNSVTSQIDV 515 (641)
Q Consensus 461 ~------------~~~~~-------------~~~~~~~~~~~~~r~~l~~~lv~~l~~yr~~~~~~~~~~~~~~~~ql~~ 515 (641)
+ +++++ |+.++++.++.|+|..|.+++++++.+|++..... + +...
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-----N----GQGI 680 (887)
T ss_pred EEEeeccccccHHHHHhhcCHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhccc-----c----cCCc
Confidence 4 23332 67778888899999999999999999999987642 1 1112
Q ss_pred cccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHHHccCChhhhhhhhccceEeeccCCCCC-C-------Cc
Q 006547 516 EFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALEPSSLQRAVYPLLTSYSTPDKQA-F-------PR 587 (641)
Q Consensus 516 ~~~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~D~r~~~~~~l~~~~~~~~~~~~yP~L~~~~~~~~~~-~-------p~ 587 (641)
.+.+|.+|++||+|+++|+|+++||.+. ++++|+|+|+++.++.+++..++++|||+||++|+++.++ . +.
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 4678999999999999999999999986 5999999999999999999999999999999999874421 1 11
Q ss_pred -cccchhhhccCCCcEEEEeCCcEEEEEEcCCCCCCCCCCCCCCchhHHhhcc
Q 006547 588 -HSLSRAALITSGSPIFLLDAFTTIIVFYSSTADPTLPFPPPQDCKFSLISLG 639 (641)
Q Consensus 588 -~~L~~~~~~~~~~~iyLlD~~~~i~i~~g~~~~~~l~~~~~~~~~~~~~~~~ 639 (641)
+.|..+++.++..|+||||+|..+++|+|++++|++.+.....+.++++-.|
T Consensus 760 p~~L~ltae~l~~~GlyL~D~g~~lfl~vg~~a~P~ll~~vfg~~~~adi~~~ 812 (887)
T KOG1985|consen 760 PPPLNLTAELLSRRGLYLMDTGTTLFLWVGSNADPSLLFDVFGVSTLADIPIG 812 (887)
T ss_pred CCccchHHHHhccCceEEEecCcEEEEEEcCCCCccccccccCcchHhhcccc
Confidence 3556666668999999999999999999999999999999999988887664
No 2
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.8e-116 Score=945.34 Aligned_cols=575 Identities=24% Similarity=0.381 Sum_probs=507.5
Q ss_pred ceecccCcCCCCHHHHHhcCCCeeeEEccCCCCCCCCC-CCcccCCCCCCCCCCCCCeeeeccceeec--ceeEecCCCC
Q 006547 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGA-APVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGS 78 (641)
Q Consensus 2 ~vR~T~~~~P~t~~~~~~~~lPlg~~~~Pf~~~~~~~~-~p~~~~~~~~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~ 78 (641)
+||+|+|++|.|.++++.++||||++|+||+...+.|. +++++.+..+|+||+||+||||||++|++ ++|+||||+.
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 69999999999999999999999999999998755444 35666677889999999999999999985 7999999999
Q ss_pred CCCCChhhhc------ccCCCcCccccccccEEEEecCCCCccccCCCCcEEEEEEECCCCh---hHHHHHHHHHHHHHH
Q 006547 79 LNGLSSQAIA------RYTHPQSCAEMISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSE---EFLELTRSALQAALE 149 (641)
Q Consensus 79 ~N~~p~~~~~------~~~~~~~~pEL~~~tve~~~p~~y~~~~~~~~~p~~vFvID~s~~~---~~l~~~~~~l~~~l~ 149 (641)
+|++|++|++ |+.|.++||||+.|+|||+++++|+.++..+.||+|||+||||.++ |...+++++|++.|+
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 9999999874 5556889999999999999999999776678899999999999986 889999999999999
Q ss_pred hCC---CCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc-ccc-cccccchHhhHHHHHHHHHhhcC
Q 006547 150 AVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV-MPL-SQFLAPVETFKENITSALETLRP 224 (641)
Q Consensus 150 ~lp---~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~-~p~-~~~l~~~~~~~~~i~~lL~~L~~ 224 (641)
.++ ++++|||||||++|||||+++.+.+++| +++.|++|+ +|+ ++++++..|++..|+.+|++|+.
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 4799999999999999999999988777 357899995 898 78999999999999999999999
Q ss_pred CCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCC-ccccccccCcccCCCcch
Q 006547 225 TTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAG-QLDTRRYGEQYASKGEDA 303 (641)
Q Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg~pt~GpG-~l~~~~~~~~~~~~~~~~ 303 (641)
+++..+. ++.++|+||++|..+|+..-| ||+++|++.+||.|.| +++.|++...+ ++++
T Consensus 520 mf~~sk~------------pes~~g~alqaa~lalk~~~g-----GKl~vF~s~Lpt~g~g~kl~~r~D~~l~---~t~k 579 (1007)
T KOG1984|consen 520 MFQDSKI------------PESVFGSALQAAKLALKAADG-----GKLFVFHSVLPTAGAGGKLSNRDDRRLI---GTDK 579 (1007)
T ss_pred hhccCCC------------CchhHHHHHHHHHHHHhccCC-----ceEEEEecccccccCcccccccchhhhh---cccc
Confidence 9865543 568999999999999998842 8999999999999976 99999888776 7889
Q ss_pred hhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEEeCCCC----CCchhHHHHHHhccCcc
Q 006547 304 DRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTD----DSTLPQDIYRMLSRPYA 379 (641)
Q Consensus 304 e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~----~~~l~~dl~~~l~~~~~ 379 (641)
|++++.+++++|++||++|++.|+|||+|+++.+|+|+|+++.+++.|||.+|+|..|. ..+|.+||.+.++++.|
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 45899999999999999
Q ss_pred ceeEEEEecCCCceeeeeeeccccCCCCCcceeeeecCCCceEEEEEEEecCCCCCCCCCCCcEEEEEEeeeeccccccc
Q 006547 380 FNCIMRLRTSSEFKPGHSYGHFFPDPQYENVQHIICCDSYATYAYDFDFANAAGFARHTSEQPMLQIAFQYTVVVPPEEL 459 (641)
Q Consensus 380 ~~a~~rvr~S~gl~v~~~~G~~~~~~~~~~~~~~~~~d~~~s~~~~~e~~~~~~l~~~~~~~~~iQ~a~lYt~~~g~~~~ 459 (641)
|+|+||||||+||++.+|||||..++ ....+++.+|.|++++++|.++ ++|+ .+..+|||+|++||+.+|+||+
T Consensus 660 f~a~mrvRtStGirv~~f~Gnf~~~~--~tDiela~lD~dkt~~v~fkhD--dkLq--~~s~~~fQ~AlLYTti~G~RR~ 733 (1007)
T KOG1984|consen 660 FDAVMRVRTSTGIRVQDFYGNFLMRN--PTDIELAALDCDKTLTVEFKHD--DKLQ--DGSDVHFQTALLYTTIDGQRRL 733 (1007)
T ss_pred eeeEEEEeecCceeeeeeechhhhcC--CCCccccccccCceeEEEEecc--cccc--CCcceeEEEEEEEeccCCceeE
Confidence 99999999999999999999999875 2335789999999999888775 5886 4678999999999999999999
Q ss_pred ch------------hhHHH-------------HHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCcccccc
Q 006547 460 SS------------EGLGS-------------VILASLEQGVREGRMLLHDWLVILTAQYNEAFKLVQHNIGNSVTSQID 514 (641)
Q Consensus 460 ~~------------~~~~~-------------~~~~~~~~~~~~~r~~l~~~lv~~l~~yr~~~~~~~~~~~~~~~~ql~ 514 (641)
|+ +++++ |+....++.++++|+.++++|+++|+.|||.|++. ++.+||+
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 44445578899999999999999999999999853 3567875
Q ss_pred ccccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHHHccCChhhhhhhhccceEeeccCCCCCC---Ccc-cc
Q 006547 515 VEFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALEPSSLQRAVYPLLTSYSTPDKQAF---PRH-SL 590 (641)
Q Consensus 515 ~~~~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~D~r~~~~~~l~~~~~~~~~~~~yP~L~~~~~~~~~~~---p~~-~L 590 (641)
|||+||+||+|+++++||.+|++ .+ ++.|+|+|.+.++.++++++++.++||||+++|+.+.+.. ..+ .+
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 89999999999999999999998 33 8999999999999999999999999999999998754321 111 12
Q ss_pred chhhhccCCCcEEEEeCCcEEEEEEcCCCCCCC
Q 006547 591 SRAALITSGSPIFLLDAFTTIIVFYSSTADPTL 623 (641)
Q Consensus 591 ~~~~~~~~~~~iyLlD~~~~i~i~~g~~~~~~l 623 (641)
.-+.+.++++||||||+|.++|||+|+++++.|
T Consensus 882 raS~e~l~negiYll~nG~~~ylwvg~sv~~~l 914 (1007)
T KOG1984|consen 882 RASSEFLSNEGIYLLDNGQKIYLWVGESVDPDL 914 (1007)
T ss_pred ecchhhccCCceEEEecCcEEEEEecCCCCHHH
Confidence 222334689999999999999999999998744
No 3
>PLN00162 transport protein sec23; Provisional
Probab=100.00 E-value=1.6e-113 Score=979.87 Aligned_cols=594 Identities=23% Similarity=0.332 Sum_probs=504.3
Q ss_pred ceecccCcCCCCHHHHHhcCCCeeeEEccCCCCCCCCCCCcccCCCCCCCCCCCCCeeeeccceeec--ceeEecCCCCC
Q 006547 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGSL 79 (641)
Q Consensus 2 ~vR~T~~~~P~t~~~~~~~~lPlg~~~~Pf~~~~~~~~~p~~~~~~~~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~ 79 (641)
|||+|||+||.|+.++++++|||||+|+||++..+ +|++ +++|+||++|||||||||+++. ++|+||||++.
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 79999999999999999999999999999987643 3443 3579999999999999999984 79999999999
Q ss_pred CCCChhhhcccCCCcCcccc--ccccEEEEecCCCCccccCCCCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCCCcEE
Q 006547 80 NGLSSQAIARYTHPQSCAEM--ISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSEEFLELTRSALQAALEAVPSGALF 157 (641)
Q Consensus 80 N~~p~~~~~~~~~~~~~pEL--~~~tve~~~p~~y~~~~~~~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~lp~~~~V 157 (641)
|.+|++|.. ..+.+.+||| .++||||.+|+ |..+ ++.||+|+||||+|..+.+++.++++|+++|+.||++++|
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 999999652 2234567899 88999999997 6543 5789999999999999999999999999999999999999
Q ss_pred EEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc-----------------------ccc-cccccchHhhHH
Q 006547 158 GLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV-----------------------MPL-SQFLAPVETFKE 213 (641)
Q Consensus 158 giItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~-----------------------~p~-~~~l~~~~~~~~ 213 (641)
||||||+.||||+|+.....+.+||. +.+++...++++. +|. ++||+|++||+.
T Consensus 161 GlITF~s~V~~~~L~~~~~~~~~Vf~--g~k~~t~~~l~~~l~l~~~~~~~~~~~~~~~~~~~~~p~~~~fLvpl~e~~~ 238 (761)
T PLN00162 161 GLITFGTHVHVHELGFSECSKSYVFR--GNKEVSKDQILEQLGLGGKKRRPAGGGIAGARDGLSSSGVNRFLLPASECEF 238 (761)
T ss_pred EEEEECCEEEEEEcCCCCCcceEEec--CCccCCHHHHHHHhccccccccccccccccccccccCCCccceeEEHHHHHH
Confidence 99999999999999876654456654 2333333344332 233 689999999999
Q ss_pred HHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCcccccccc
Q 006547 214 NITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYG 293 (641)
Q Consensus 214 ~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg~pt~GpG~l~~~~~~ 293 (641)
.|+++|++|+++ .|+.+++ +++.||+|+||++|..+|+..++++ ||||++|++|+||.|||+|+.++.+
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--------HRPARCTGAALSVAAGLLGACVPGT--GARIMAFVGGPCTEGPGAIVSKDLS 307 (761)
T ss_pred HHHHHHHhhhcc-ccccCCC--------CCCCccHHHHHHHHHHHHhhccCCC--ceEEEEEeCCCCCCCCceeeccccc
Confidence 999999999987 5654432 2468999999999999998665433 5999999999999999999999999
Q ss_pred CcccCCCc--chhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEEeCCCCCCchhHHHH
Q 006547 294 EQYASKGE--DADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIY 371 (641)
Q Consensus 294 ~~~~~~~~--~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~ 371 (641)
+.+|++.. +++.++++++.+||++||.+|+++||+||+|+++.+|+|++||+.|++.|||.+++|++|+..+|.++++
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 88888653 3456799999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhccC------ccceeEEEEecCCCceeeeeeeccccCCC-------------CCcceeeeecCCCceEEEEEEEecCC
Q 006547 372 RMLSRP------YAFNCIMRLRTSSEFKPGHSYGHFFPDPQ-------------YENVQHIICCDSYATYAYDFDFANAA 432 (641)
Q Consensus 372 ~~l~~~------~~~~a~~rvr~S~gl~v~~~~G~~~~~~~-------------~~~~~~~~~~d~~~s~~~~~e~~~~~ 432 (641)
|+++|+ +||||+||||||+|++|+++|||++...+ ..+.|.++.+|+++|++|.|++++..
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 79999999999999999999999974221 12458899999999999999998753
Q ss_pred ---CCCCCCCCCcEEEEEEeeeecccccccch--------------hhHHH-------------HHHHHhhcCHHHHHHH
Q 006547 433 ---GFARHTSEQPMLQIAFQYTVVVPPEELSS--------------EGLGS-------------VILASLEQGVREGRML 482 (641)
Q Consensus 433 ---~l~~~~~~~~~iQ~a~lYt~~~g~~~~~~--------------~~~~~-------------~~~~~~~~~~~~~r~~ 482 (641)
++. ....+|||+|++||+..|++++|+ +++++ ++.++.++.+.|+|+|
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 346799999999999999998874 12222 4445667788999999
Q ss_pred HHHHHHHHHHHHHHHhhhhcccCCCCccccccccccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHHHccCC
Q 006547 483 LHDWLVILTAQYNEAFKLVQHNIGNSVTSQIDVEFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALE 562 (641)
Q Consensus 483 l~~~lv~~l~~yr~~~~~~~~~~~~~~~~ql~~~~~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~D~r~~~~~~l~~~~ 562 (641)
|+++|++++..|..+.+ ++|+ +|.||++|++||+|||+|+||++|+.++ .|||||+|+|+.+++++
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 99999999988777766 3443 4679999999999999999999999875 89999999999999999
Q ss_pred hhhhhhhhccceEeeccCCCCCCCccccchhhhccCCCcEEEEeCCcEEEEEEcCCCCC--CCCCCCC-CCchhHHhhc
Q 006547 563 PSSLQRAVYPLLTSYSTPDKQAFPRHSLSRAALITSGSPIFLLDAFTTIIVFYSSTADP--TLPFPPP-QDCKFSLISL 638 (641)
Q Consensus 563 ~~~~~~~~yP~L~~~~~~~~~~~p~~~L~~~~~~~~~~~iyLlD~~~~i~i~~g~~~~~--~l~~~~~-~~~~~~~~~~ 638 (641)
+++++.||||+|+++|... .|.++++++.+ +.+|+|||||+|++|+||+|+.+.. +..+|.. ....++++|.
T Consensus 612 ~~~sl~mI~P~L~sy~~~~---~P~pv~Ld~~s-i~~d~ilLLD~~f~vvi~~G~~ia~w~~~~~~~~~~~~~~~~~l~ 686 (761)
T PLN00162 612 VTNSLVMIQPTLISYSFNG---PPEPVLLDVAS-IAADRILLLDSYFSVVIFHGSTIAQWRKAGYHNQPEHEAFAQLLE 686 (761)
T ss_pred HHHHHHhhCCeEEEecCCC---CCcceecchhh-ccCCceEEEeCCCEEEEEecCcccchhhcCCCCCcchhhHHHHHH
Confidence 9999999999999998533 37788888877 5899999999999999999999886 6777654 4466777763
No 4
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=100.00 E-value=7.8e-106 Score=855.70 Aligned_cols=562 Identities=22% Similarity=0.416 Sum_probs=485.7
Q ss_pred ceecccCcCCCCHHHHHhcCCCeeeEEccCCCCCCCCCCCcccCCCCCCCCCCCCCeeeeccceeec--ceeEecCCCCC
Q 006547 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGSL 79 (641)
Q Consensus 2 ~vR~T~~~~P~t~~~~~~~~lPlg~~~~Pf~~~~~~~~~p~~~~~~~~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~ 79 (641)
+||+|+|++|.+.+++++++||||++|+||.+..+.+.++++ ..+..|+||++||+|+|||++|.. ++|+||+|+.+
T Consensus 152 yvrsT~yaiP~t~dl~~~skiPfgLVI~Pf~~l~~e~~~vpl-~~d~~ivRCrrCrsYiNPfv~fi~~g~kw~CNiC~~k 230 (861)
T COG5028 152 YVRSTMYAIPETNDLLKKSKIPFGLVIRPFLELYPEEDPVPL-VEDGSIVRCRRCRSYINPFVQFIEQGRKWRCNICRSK 230 (861)
T ss_pred HHHHHHhhCCCchhHHHhcCCCceEEeehhhhcCccCCCCcc-CCCCcchhhhhhHhhcCceEEEecCCcEEEEeecccc
Confidence 689999999999999999999999999999987653333333 345569999999999999999974 69999999999
Q ss_pred CCCChhhh------cccCCCcCccccccccEEEEecCCCCccccCCCCcEEEEEEECCCCh---hHHHHHHHHHHHHHHh
Q 006547 80 NGLSSQAI------ARYTHPQSCAEMISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSE---EFLELTRSALQAALEA 150 (641)
Q Consensus 80 N~~p~~~~------~~~~~~~~~pEL~~~tve~~~p~~y~~~~~~~~~p~~vFvID~s~~~---~~l~~~~~~l~~~l~~ 150 (641)
|++|..+. ..+.++++||||.+++|||++|++|+.+ .+.||+|||+||||.++ |.+.++.++|++.|+.
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 99998765 2333477899999999999999999976 35589999999999986 8888899999999887
Q ss_pred CC---CCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc-ccc--cccccchHhhHHHHHHHHHhhcC
Q 006547 151 VP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV-MPL--SQFLAPVETFKENITSALETLRP 224 (641)
Q Consensus 151 lp---~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~-~p~--~~~l~~~~~~~~~i~~lL~~L~~ 224 (641)
+| +++|||||.||++||||+++.+... ++ +.+.|+|++ +|. +.|++|+++|+..++.||+.+++
T Consensus 309 ~~~~dpr~kIaii~fD~sl~ffk~s~d~~~--~~--------~~vsdld~pFlPf~s~~fv~pl~~~k~~~etLl~~~~~ 378 (861)
T COG5028 309 IPNFDPRTKIAIICFDSSLHFFKLSPDLDE--QM--------LIVSDLDEPFLPFPSGLFVLPLKSCKQIIETLLDRVPR 378 (861)
T ss_pred CCCCCCcceEEEEEEcceeeEEecCCCCcc--ce--------eeecccccccccCCcchhcccHHHHHHHHHHHHHHhhh
Confidence 75 5899999999999999999876621 11 357889984 787 48999999999999999999999
Q ss_pred CCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchh
Q 006547 225 TTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDAD 304 (641)
Q Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e 304 (641)
++..++ .++.|+|.||++|..+++.+| |||++|.+++||.|.|+|..|++ +|
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 875543 357899999999999999887 89999999999999999998864 45
Q ss_pred hccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEEeCCCCCCc------hhHHHHHHhccCc
Q 006547 305 RALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDST------LPQDIYRMLSRPY 378 (641)
Q Consensus 305 ~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~------l~~dl~~~l~~~~ 378 (641)
+.++.+.+.|||+++.+|++.||+||+|+++.+|+|+||++.|++.|||.+++|+.|+..+ |.+||.++++++.
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 6689999999999999999999999999999999999999999999999999999997665 9999999999999
Q ss_pred cceeEEEEecCCCceeeeeeeccccCCCCCcceeeeecCCCceEEEEEEEecCCCCCCCCCCCcEEEEEEeeeecccccc
Q 006547 379 AFNCIMRLRTSSEFKPGHSYGHFFPDPQYENVQHIICCDSYATYAYDFDFANAAGFARHTSEQPMLQIAFQYTVVVPPEE 458 (641)
Q Consensus 379 ~~~a~~rvr~S~gl~v~~~~G~~~~~~~~~~~~~~~~~d~~~s~~~~~e~~~~~~l~~~~~~~~~iQ~a~lYt~~~g~~~ 458 (641)
||+++||||||+|+++.+||||++.++ .+++.++.++.|+|+.|+|.+++ ++. ...+|||+|++||+.+|+||
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 999999999999999999999999986 67888999999999999999875 663 58999999999999999999
Q ss_pred cch------------hhHHH-------------HHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCccccc
Q 006547 459 LSS------------EGLGS-------------VILASLEQGVREGRMLLHDWLVILTAQYNEAFKLVQHNIGNSVTSQI 513 (641)
Q Consensus 459 ~~~------------~~~~~-------------~~~~~~~~~~~~~r~~l~~~lv~~l~~yr~~~~~~~~~~~~~~~~ql 513 (641)
+|+ +++++ |+.++.+.+++++|..+.+.+++|+++||+.++.. + ..+|+
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 23332 44456667899999999999999999999977743 2 34554
Q ss_pred cccccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHHHccCChhhhhhhhccceEeeccCCCC-CCCc---cc
Q 006547 514 DVEFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALEPSSLQRAVYPLLTSYSTPDKQ-AFPR---HS 589 (641)
Q Consensus 514 ~~~~~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~D~r~~~~~~l~~~~~~~~~~~~yP~L~~~~~~~~~-~~p~---~~ 589 (641)
+||++|++||++|++|.||.+||.+. ++.|+|++...++.++++.++++.|||+||++|++-.+ ++|. .+
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 58999999999999999999999653 78999999999999999999999999999999987432 2331 12
Q ss_pred cc----hhhhccCCCcEEEEeCCcEEEEEEcCCCCCCC
Q 006547 590 LS----RAALITSGSPIFLLDAFTTIIVFYSSTADPTL 623 (641)
Q Consensus 590 L~----~~~~~~~~~~iyLlD~~~~i~i~~g~~~~~~l 623 (641)
++ -+.+.++++|+||+|+|.++|+|+|++++|.|
T Consensus 732 ~~~piNaT~s~le~~GlYLidtg~~iflw~g~d~~p~L 769 (861)
T COG5028 732 LPSPINATSSLLESGGLYLIDTGQKIFLWFGKDAVPSL 769 (861)
T ss_pred cccchhhhHHHHhcCCeEEEEcCCEEEEEecCCCCHHH
Confidence 22 12233689999999999999999999999854
No 5
>PTZ00395 Sec24-related protein; Provisional
Probab=100.00 E-value=2.4e-101 Score=862.67 Aligned_cols=569 Identities=18% Similarity=0.277 Sum_probs=470.7
Q ss_pred ceecccCcCCCCHHHHHhcCCCeeeEEccCCCCCCCCCCCcccC--------CCCCCCCCCCCCeeeeccceee-cceeE
Q 006547 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGS--------DGHMLPRCENCYAYFNTYCELE-QWAWT 72 (641)
Q Consensus 2 ~vR~T~~~~P~t~~~~~~~~lPlg~~~~Pf~~~~~~~~~p~~~~--------~~~~~~RC~~C~ayiNp~~~~~-~~~w~ 72 (641)
+||+|||.+|.+.++++.++||||++++||+...+.|.+|.++. .+..|+||.+|++|+|+++.++ ..+++
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 68999999999999999999999999999999877665555433 2457999999999999999887 58999
Q ss_pred ecCCCCCCCCChhh---hcccCC----C--------cCccccccccEEEEecCCCCcc----------------------
Q 006547 73 CSLCGSLNGLSSQA---IARYTH----P--------QSCAEMISSFIDLDLPLEGSEE---------------------- 115 (641)
Q Consensus 73 C~~C~~~N~~p~~~---~~~~~~----~--------~~~pEL~~~tve~~~p~~y~~~---------------------- 115 (641)
|+||.+.+.+.+.. +.+|+. + ...--|.+|+||+++|+-|..+
T Consensus 734 c~~c~~~~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 813 (1560)
T PTZ00395 734 CVFCDTDFLINENVLFDIFQYNEKIGHKESDHNEHGNSLSPLLKGSVDIIIPPIYYHNVNKFKLTYTYLNKNINQTAFMI 813 (1560)
T ss_pred EEecCCcchhhHHHHHHHHHHhhhhccccccccccccccchhhcCceeEEccchhhccCCccceeeehhhcchhhhhhhh
Confidence 99999999985531 112321 1 1123467899999998654210
Q ss_pred --------------------------------------------------------------------------------
Q 006547 116 -------------------------------------------------------------------------------- 115 (641)
Q Consensus 116 -------------------------------------------------------------------------------- 115 (641)
T Consensus 814 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 893 (1560)
T PTZ00395 814 TNKIMSFTKHISNSLVANDSKGGNKATSASAFGDSGDANFLAGGGYTNYGGAGGYNTYDNQSGYNNHDVVNNRGGSGAGN 893 (1560)
T ss_pred hhhhhhhhhhhcchheecccccccccchhhhcccccccccccccccccccccccccccccccccccccccccccccCcCc
Confidence
Q ss_pred -----------------------------------------------------ccCCCCcEEEEEEECCCCh---hHHHH
Q 006547 116 -----------------------------------------------------ETMQARPVYVAAVDLSSSE---EFLEL 139 (641)
Q Consensus 116 -----------------------------------------------------~~~~~~p~~vFvID~s~~~---~~l~~ 139 (641)
-..++||+|+|+||||..+ |++.+
T Consensus 894 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~PP~YvFLIDVS~~AVkSGLl~t 973 (1560)
T PTZ00395 894 HLYGKDHDVQNFDNVMDNANFTIHDMKNLICEKNGEPDSAKIRRNSFLAKYPQVKNMLPPYFVFVVECSYNAIYNNITYT 973 (1560)
T ss_pred ccccCcccccchhhhccCCceeeecchhhhhcccCCchhhhhhccchhhccccccCCCCCEEEEEEECCHHHHhhChHHH
Confidence 0014689999999999986 99999
Q ss_pred HHHHHHHHHHhCC-CCcEEEEEeecceEEEEEccCCc-------------cceeeEeeCCCCCcccchhhhc-cccc--c
Q 006547 140 TRSALQAALEAVP-SGALFGLATFSHKIGLYDVQGAI-------------PVVKNVFIPSDTEDTLSLELED-VMPL--S 202 (641)
Q Consensus 140 ~~~~l~~~l~~lp-~~~~VgiItfd~~V~~~~l~~~~-------------~~~~~v~~~~~~~~~~~~dl~d-~~p~--~ 202 (641)
++++|+++|+.++ +++||||||||+.||||+|++.+ .+++| ++++|||| |+|+ +
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 33444 46789999 4787 5
Q ss_pred ccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCC
Q 006547 203 QFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDH 282 (641)
Q Consensus 203 ~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg~pt~ 282 (641)
++||++.|+++.|+.+|+.|+.++.... ..++|+|+||++|..+|+..|+ +|||++|++++|++
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 8999999999999999999998864332 1468999999999999999875 49999999999999
Q ss_pred CCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccC--hhcccccccccceEEEEeCC
Q 006547 283 GAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTD--LASLKFLSIESGGSLFLYSS 360 (641)
Q Consensus 283 GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~--l~~l~~l~~~TGG~v~~~~~ 360 (641)
|||+|+.++. +.+|+.++.++++||++||.+|++++|+||||+++.+++| +++|+.|++.|||+++||+.
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 2356778899999999999999999999999999999876 79999999999999999999
Q ss_pred CCC----CchhHHHHHHhcc-CccceeEEEEecCCCceeeeee--eccccCCCCCcceeeeecCCCceEEEEEEEecCCC
Q 006547 361 TDD----STLPQDIYRMLSR-PYAFNCIMRLRTSSEFKPGHSY--GHFFPDPQYENVQHIICCDSYATYAYDFDFANAAG 433 (641)
Q Consensus 361 ~~~----~~l~~dl~~~l~~-~~~~~a~~rvr~S~gl~v~~~~--G~~~~~~~~~~~~~~~~~d~~~s~~~~~e~~~~~~ 433 (641)
|+. .+|..||.+.|++ ++||+|+||||||+||+|+++| |+++.+....+++.++.+++|++|+|+|++++ +
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 4799999999998 6999999999999999999999 45553211246678999999999999999875 6
Q ss_pred CCCCCCCCcEEEEEEeeeecccccccch------------hhHHH-------------HHHHHhhcCHHHHHHHHHHHHH
Q 006547 434 FARHTSEQPMLQIAFQYTVVVPPEELSS------------EGLGS-------------VILASLEQGVREGRMLLHDWLV 488 (641)
Q Consensus 434 l~~~~~~~~~iQ~a~lYt~~~g~~~~~~------------~~~~~-------------~~~~~~~~~~~~~r~~l~~~lv 488 (641)
+. ....+|||+|+|||+..|+|++|+ +++++ ++.+.+++ .++|+.|.++++
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 64 356899999999999999999985 23333 33334443 489999999999
Q ss_pred HHHHHHHHHhhhhcccCCCCccccccccccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHHHccCChhhhhh
Q 006547 489 ILTAQYNEAFKLVQHNIGNSVTSQIDVEFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALEPSSLQR 568 (641)
Q Consensus 489 ~~l~~yr~~~~~~~~~~~~~~~~ql~~~~~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~D~r~~~~~~l~~~~~~~~~~ 568 (641)
++|++||+.|++. +..+||+ ||++||+||+|+++|+||++|+. + +++|+|+|.++++++++++.++.
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 2356764 79999999999999999999984 3 78999999999999999999999
Q ss_pred hhccceEeeccCCCC----------C--CCccccchhhhccCCCcEEEEeCCcEEEEEEcCCCCCCC
Q 006547 569 AVYPLLTSYSTPDKQ----------A--FPRHSLSRAALITSGSPIFLLDAFTTIIVFYSSTADPTL 623 (641)
Q Consensus 569 ~~yP~L~~~~~~~~~----------~--~p~~~L~~~~~~~~~~~iyLlD~~~~i~i~~g~~~~~~l 623 (641)
++||+||++|++..+ . +| +.+..+...+..+|+||||+|..+|||||++++|+|
T Consensus 1402 yLYPRLYpLHdL~~e~e~d~~d~d~~ivLP-p~LrLS~ErLesdGIYLLDNGe~IyLWVG~~V~PqL 1467 (1560)
T PTZ00395 1402 YVYPVMYVIHIKGKTNEIDSMDVDDDLFIP-KTIPSSAEKIYSNGIYLLDACTHFYLYFGFHSDANF 1467 (1560)
T ss_pred hhcCceEEcccccccccCCccCCCCccccC-CcccchHHHhcCCcEEEEECCCEEEEEECCCCCHHH
Confidence 999999999985111 1 12 123333444799999999999999999999999866
No 6
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.5e-99 Score=802.74 Aligned_cols=590 Identities=24% Similarity=0.348 Sum_probs=504.7
Q ss_pred ceecccCcCCCCHHHHHhcCCCeeeEEccCCCCCCCCCCCcccCCCCCCCCCCCCCeeeeccceeec--ceeEecCCCCC
Q 006547 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGSL 79 (641)
Q Consensus 2 ~vR~T~~~~P~t~~~~~~~~lPlg~~~~Pf~~~~~~~~~p~~~~~~~~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~ 79 (641)
|||+|||+||.++....++++|++++|+||.+... +|+ ..++|+||++|+||+||||++|. +.|.|+||.++
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 34789999999999999999994 68999999999
Q ss_pred CCCChhhhcccCCCcCcc-cc--ccccEEEEecCCCCccccCCCCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCCCcE
Q 006547 80 NGLSSQAIARYTHPQSCA-EM--ISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSEEFLELTRSALQAALEAVPSGAL 156 (641)
Q Consensus 80 N~~p~~~~~~~~~~~~~p-EL--~~~tve~~~p~~y~~~~~~~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~lp~~~~ 156 (641)
|.+|++|.+-- ..+.| || .+.+|||..++. ...||+|+||||++..+++|+.+|++|+.+|+.||++++
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 99999953211 23455 88 579999999864 345899999999999999999999999999999999999
Q ss_pred EEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhccc--------------cccccccchHhhHHHHHHHHHhh
Q 006547 157 FGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVM--------------PLSQFLAPVETFKENITSALETL 222 (641)
Q Consensus 157 VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~~--------------p~~~~l~~~~~~~~~i~~lL~~L 222 (641)
||||||++.||+|+++.....+.+||.+ .+++....+.|.+ +.++||.|+.+|...+.++|++|
T Consensus 157 vGlItfg~~v~v~el~~~~~sk~~VF~G--~ke~s~~q~~~~L~~~~~~~~~~~~~~~~~rFL~P~~~c~~~L~~lle~L 234 (745)
T KOG1986|consen 157 VGLITFGTMVQVHELGFEECSKSYVFSG--NKEYSAKQLLDLLGLSGGAGKGSENQSASNRFLLPAQECEFKLTNLLEEL 234 (745)
T ss_pred EEEEEecceEEEEEcCCCcccceeEEec--cccccHHHHHHHhcCCcccccCCcccccchhhhccHHHHHHHHHHHHHHh
Confidence 9999999999999999888878899874 3334444454432 22479999999999999999999
Q ss_pred cCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCC-c
Q 006547 223 RPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKG-E 301 (641)
Q Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg~pt~GpG~l~~~~~~~~~~~~~-~ 301 (641)
.++ .|+++++. ++.||+|+||++|..+|+++.+++ ++||++|++||||.|||.++.++.++.+|++. .
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 987 78877653 467999999999999999988765 68999999999999999999999999999876 3
Q ss_pred c-hhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEEeCCCCCCchhHHHHHHhcc----
Q 006547 302 D-ADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRMLSR---- 376 (641)
Q Consensus 302 ~-~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~~~l~~---- 376 (641)
+ ..+.+++++.+||++||++++++|++||+|+++.+++|+++|++|++.|||.+...++|+.+.|+++++|+++|
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 3 34678999999999999999999999999999999999999999999999999999999999999999999995
Q ss_pred --CccceeEEEEecCCCceeeeeeeccccCCCCC-------------cceeeeecCCCceEEEEEEEecCCCCCCCCCCC
Q 006547 377 --PYAFNCIMRLRTSSEFKPGHSYGHFFPDPQYE-------------NVQHIICCDSYATYAYDFDFANAAGFARHTSEQ 441 (641)
Q Consensus 377 --~~~~~a~~rvr~S~gl~v~~~~G~~~~~~~~~-------------~~~~~~~~d~~~s~~~~~e~~~~~~l~~~~~~~ 441 (641)
..||+|+|+|+||++++|++.+|++..-++++ .-|.+..+++.+++++.||+.+....+ .+..
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 47999999999999999999999998644321 248889999999999999998754322 3568
Q ss_pred cEEEEEEeeeecccccccch-------------hhH-------HH------HHHHHhhcCHHHHHHHHHHHHHHHHHHHH
Q 006547 442 PMLQIAFQYTVVVPPEELSS-------------EGL-------GS------VILASLEQGVREGRMLLHDWLVILTAQYN 495 (641)
Q Consensus 442 ~~iQ~a~lYt~~~g~~~~~~-------------~~~-------~~------~~~~~~~~~~~~~r~~l~~~lv~~l~~yr 495 (641)
+||||++.|.+..|++++|+ ++. +. ++.++.++...|+++|+++.+++++..|.
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 99999999999999888774 111 11 22234455667899999999999999999
Q ss_pred HHhhhhcccCCCCccccccccccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHHHccCChhhhhhhhccceE
Q 006547 496 EAFKLVQHNIGNSVTSQIDVEFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALEPSSLQRAVYPLLT 575 (641)
Q Consensus 496 ~~~~~~~~~~~~~~~~ql~~~~~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~D~r~~~~~~l~~~~~~~~~~~~yP~L~ 575 (641)
.+.+ ++|+ +|.|+++|.++|+|||+||||++|+.+| .|||||+|++|+|.+.++.+++.|+.|+|+
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 9988 6776 7899999999999999999999999998 699999999999999999999999999999
Q ss_pred eeccCCCCCCCccccchhhhccCCCcEEEEeCCcEEEEEEcCCCCC--CCCC-CCCCCchhHHhhc
Q 006547 576 SYSTPDKQAFPRHSLSRAALITSGSPIFLLDAFTTIIVFYSSTADP--TLPF-PPPQDCKFSLISL 638 (641)
Q Consensus 576 ~~~~~~~~~~p~~~L~~~~~~~~~~~iyLlD~~~~i~i~~g~~~~~--~l~~-~~~~~~~~~~~~~ 638 (641)
+++...+ |.++|.++.+ +..|.|+|||++|+|+||.|..+.. ...+ .-|.-+++++||.
T Consensus 608 sySf~g~---~epvlLD~~S-i~~D~iLLlDt~f~i~i~hG~tIaqWR~~gy~~~pe~~~f~~LL~ 669 (745)
T KOG1986|consen 608 SYSFNGP---PEPVLLDVAS-ILADRILLLDTYFTIVIFHGSTIAQWRKAGYHEQPEYENFKELLE 669 (745)
T ss_pred eeecCCC---CceeEecccc-cCCceEEEeecceEEEEECCchHHHHHhcccccChhhHHHHHHHH
Confidence 9987543 5688999888 5899999999999999999998665 2233 2344455555553
No 7
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=100.00 E-value=3.8e-92 Score=727.12 Aligned_cols=572 Identities=23% Similarity=0.355 Sum_probs=490.0
Q ss_pred ceecccCcCCCCHHHHHhcCCCeeeEEccCCCCCCCCCCCcccCCCCCCCCCCC-CCeeeeccceeec--ceeEecCCCC
Q 006547 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCEN-CYAYFNTYCELEQ--WAWTCSLCGS 78 (641)
Q Consensus 2 ~vR~T~~~~P~t~~~~~~~~lPlg~~~~Pf~~~~~~~~~p~~~~~~~~~~RC~~-C~ayiNp~~~~~~--~~w~C~~C~~ 78 (641)
|||+|||+||.|+....++.+|++|+|+||++.+. .++ ..++|+.|.. |+||+||||.+|. +.|+|+||++
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 79999999999999999999999999999987543 122 3478999999 9999999999995 5899999999
Q ss_pred CCCCChhhhcccCC--CcCcc-cc--ccccEEEEecCCCCccccCCCCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCC
Q 006547 79 LNGLSSQAIARYTH--PQSCA-EM--ISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSEEFLELTRSALQAALEAVPS 153 (641)
Q Consensus 79 ~N~~p~~~~~~~~~--~~~~p-EL--~~~tve~~~p~~y~~~~~~~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~lp~ 153 (641)
+|.+|++ |++ ..+.| || .+.||||..++. ...||+|+||||++...++|.++|++|+..|+.+|+
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 9999999 544 34454 98 689999999874 457899999999999999999999999999999999
Q ss_pred CcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc--c-------------c------ccccccchHhhH
Q 006547 154 GALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV--M-------------P------LSQFLAPVETFK 212 (641)
Q Consensus 154 ~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~--~-------------p------~~~~l~~~~~~~ 212 (641)
++.||||||++.|++|+++.....+++||.+ .+++....|++. . + ..+|+.|+++|+
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 EALVGLITYGTSIQVHELNAENHRRSYVFSG--NKEYTKENLQELLALSKPTKSGGFESKISGIGQFASSRFLLPTQQCE 232 (755)
T ss_pred cceeeEEEecceeEEEeccccccCcceeecc--hHHHHHHHHHHHhcccCCCCcchhhhhcccccccchhhhhccHHHHH
Confidence 9999999999999999999887777889874 333444444432 1 1 124899999999
Q ss_pred HHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccc
Q 006547 213 ENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRY 292 (641)
Q Consensus 213 ~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg~pt~GpG~l~~~~~ 292 (641)
..+.++|++|.++ +|++.++ +++.||+|+||..|..+|+.+.++. ++||++|++||||.|||.|++++.
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-PWPVPAG--------KRPLRCTGSALNIASSLLEQCFPNA--GCHIVLFAGGPCTVGPGTVVSTEL 301 (755)
T ss_pred HHHHHHHHHhCCC-CccCCCC--------CCCccccchhHHHHHHHHHhhccCc--ceeEEEEcCCCccccCceeeehhh
Confidence 9999999999987 6877654 3578999999999999999887654 699999999999999999999999
Q ss_pred cCcccCCCc-ch-hhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEEeCCCCCCchhHHH
Q 006547 293 GEQYASKGE-DA-DRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDI 370 (641)
Q Consensus 293 ~~~~~~~~~-~~-e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl 370 (641)
++.+|++.. +. ..++.+++.+||++||++.+.+|+++|+|+.+.+++|+.+|++|...|||.+...++|+.+.|+++.
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 999998663 22 3689999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhccC------ccceeEEEEecCCCceeeeeeeccccCCCCC-------------cceeeeecCCCceEEEEEEEecC
Q 006547 371 YRMLSRP------YAFNCIMRLRTSSEFKPGHSYGHFFPDPQYE-------------NVQHIICCDSYATYAYDFDFANA 431 (641)
Q Consensus 371 ~~~l~~~------~~~~a~~rvr~S~gl~v~~~~G~~~~~~~~~-------------~~~~~~~~d~~~s~~~~~e~~~~ 431 (641)
+|++.++ .||||.|+|.||+++++++++|+...-++.. +.|....+.|.+++++.||+..+
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 6999999999999999999999987643311 24778889999999999999764
Q ss_pred CCCC-CCCCCCcEEEEEEeeeecccccccchh-------------hHH-------HHH------HHHhhcCHHHHHHHHH
Q 006547 432 AGFA-RHTSEQPMLQIAFQYTVVVPPEELSSE-------------GLG-------SVI------LASLEQGVREGRMLLH 484 (641)
Q Consensus 432 ~~l~-~~~~~~~~iQ~a~lYt~~~g~~~~~~~-------------~~~-------~~~------~~~~~~~~~~~r~~l~ 484 (641)
.+-. .+....+|+|+.++|....|.-++|+. +.+ .++ .++..+...|..+|++
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 3221 112357999999999999887666641 111 122 2233455778999999
Q ss_pred HHHHHHHHHHHHHhhhhcccCCCCccccccccccCccccccHHHHHHHHhcCcccccCCCCCCchHHHHHHHHHccCChh
Q 006547 485 DWLVILTAQYNEAFKLVQHNIGNSVTSQIDVEFLQCPQLQRLPRLVFALLRNPLLRFHEEGVHPDYRIYLQCLFSALEPS 564 (641)
Q Consensus 485 ~~lv~~l~~yr~~~~~~~~~~~~~~~~ql~~~~~lp~~lk~lP~~~~~L~Ks~~l~~~~~~~s~D~r~~~~~~l~~~~~~ 564 (641)
+.++++++.|..+.+ ++|+ +|.|++++.++|+|||+|+|||+|+.+| .|||||+|++|.+.+.++.
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 999999999999987 6776 7889999999999999999999999998 6999999999999999999
Q ss_pred hhhhhhccceEeeccCCCCCCCccccchhhhccCCCcEEEEeCCcEEEEEEcCCCC
Q 006547 565 SLQRAVYPLLTSYSTPDKQAFPRHSLSRAALITSGSPIFLLDAFTTIIVFYSSTAD 620 (641)
Q Consensus 565 ~~~~~~yP~L~~~~~~~~~~~p~~~L~~~~~~~~~~~iyLlD~~~~i~i~~g~~~~ 620 (641)
+++.|+.|+|.+++..++ ..++++++-+ +.+|.|+|||++++|.||.|+.+.
T Consensus 608 ~sLimiqPtL~Sys~~~~---~~pVlLDs~s-vkpdviLLlDtff~Ili~hG~~ia 659 (755)
T COG5047 608 DSLIMIQPTLQSYSFEKG---GVPVLLDSVS-VKPDVILLLDTFFHILIFHGSYIA 659 (755)
T ss_pred chhhhhcchheeeeccCC---CceEEEeccc-cCCCeEEEeeceeEEEEECChHHH
Confidence 999999999999998663 3578999877 699999999999999999998743
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=9.1e-47 Score=381.40 Aligned_cols=241 Identities=28% Similarity=0.367 Sum_probs=204.8
Q ss_pred CCCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcc--------
Q 006547 119 QARPVYVAAVDLSSSEEFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDT-------- 190 (641)
Q Consensus 119 ~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~-------- 190 (641)
|.||+|+||||+|..+.++++++++|+++|+.||++++|||||||++||||+|+.....+.+||.+. . ++
T Consensus 1 p~pp~~vFviDvs~~~~el~~l~~sl~~~L~~lP~~a~VGlITfd~~V~~~~L~~~~~~~~~vf~g~-~-~~~~~~~~~~ 78 (267)
T cd01478 1 TSPPVFLFVVDTCMDEEELDALKESLIMSLSLLPPNALVGLITFGTMVQVHELGFEECSKSYVFRGN-K-DYTAKQIQDM 78 (267)
T ss_pred CCCCEEEEEEECccCHHHHHHHHHHHHHHHHhCCCCCEEEEEEECCEEEEEEcCCCcCceeeeccCC-c-cCCHHHHHHH
Confidence 4589999999999999999999999999999999999999999999999999987665566777642 1 11
Q ss_pred -------------cchhhhcc-cc--ccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHH
Q 006547 191 -------------LSLELEDV-MP--LSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMES 254 (641)
Q Consensus 191 -------------~~~dl~d~-~p--~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~ 254 (641)
+..++++. .| .++||+|++||++.|+++|++|+++ .|+.++. +++.||+|+||++
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 11223442 34 3689999999999999999999886 4554332 2468999999999
Q ss_pred HHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCC-cchh-hccCCCcchHHHHHHHHHHHcCcEEEEe
Q 006547 255 LFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKG-EDAD-RALLPEQTPFYKDLAAVAVQAGVCVDIF 332 (641)
Q Consensus 255 a~~~l~~~~~~~~~~GkIi~F~sg~pt~GpG~l~~~~~~~~~~~~~-~~~e-~~~~~~~~~fY~~la~~~~~~~isvdlf 332 (641)
|..+|+..+++. ||||++|++|+||+|||+|+.|+.++.+|++. ++++ .++++++.+||++||.+|+++||+||+|
T Consensus 150 A~~ll~~~~~~~--gGki~~F~sg~pT~GpG~l~~r~~~~~~r~~~d~~~~~~~~~~~a~~fY~~la~~~~~~~vsvDlF 227 (267)
T cd01478 150 AVGLLEACFPNT--GARIMLFAGGPCTVGPGAVVSTELKDPIRSHHDIDKDNAKYYKKAVKFYDSLAKRLAANGHAVDIF 227 (267)
T ss_pred HHHHHHhhcCCC--CcEEEEEECCCCCCCCceeeccccccccccccccccchhhhhhhHHHHHHHHHHHHHhCCeEEEEE
Confidence 999998653222 49999999999999999999999888888754 4444 4699999999999999999999999999
Q ss_pred eecCCccChhcccccccccceEEEEeCCCCCCchhHHHHH
Q 006547 333 AITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYR 372 (641)
Q Consensus 333 ~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~~ 372 (641)
+++.+|+|++||+.|++.|||.+++|++|+.+.|+++++|
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=2.5e-46 Score=375.47 Aligned_cols=229 Identities=26% Similarity=0.453 Sum_probs=200.9
Q ss_pred CCCcEEEEEEECCCCh---hHHHHHHHHHHHHHHhCCCC---cEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccc
Q 006547 119 QARPVYVAAVDLSSSE---EFLELTRSALQAALEAVPSG---ALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLS 192 (641)
Q Consensus 119 ~~~p~~vFvID~s~~~---~~l~~~~~~l~~~l~~lp~~---~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~ 192 (641)
|+||+|+|+||+|..+ |++++++++|+++|+.+|++ ++|||||||+.||||+++....++++. ++
T Consensus 1 p~pp~~~FvIDvs~~a~~~g~~~~~~~si~~~L~~lp~~~~~~~VgiITfd~~v~~y~l~~~~~~~q~~---------vv 71 (244)
T cd01479 1 PQPAVYVFLIDVSYNAIKSGLLATACEALLSNLDNLPGDDPRTRVGFITFDSTLHFFNLKSSLEQPQMM---------VV 71 (244)
T ss_pred CCCCEEEEEEEccHHHHhhChHHHHHHHHHHHHHhcCCCCCCeEEEEEEECCeEEEEECCCCCCCCeEE---------Ee
Confidence 4689999999999986 68999999999999999976 999999999999999998776555553 35
Q ss_pred hhhhcc-ccc-cccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccc
Q 006547 193 LELEDV-MPL-SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALA 270 (641)
Q Consensus 193 ~dl~d~-~p~-~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~G 270 (641)
.|++|. +|+ ++++++++|+++.|.++|++|+..+... +++.+|+|+||++|..+|+..| |
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 688884 787 6899999999999999999997653221 1257999999999999999766 8
Q ss_pred eEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccc
Q 006547 271 RVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (641)
Q Consensus 271 kIi~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~ 350 (641)
||++|++|+||+|||+++.|+.++.. ++++|+++++++++||++||.+|+++||+||+|+++.+++|+++|+.|++.
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 006547 351 SGGSLFLYS--STD----DSTLPQDIYRMLSRP 377 (641)
Q Consensus 351 TGG~v~~~~--~~~----~~~l~~dl~~~l~~~ 377 (641)
|||.+++|+ .|+ ..+|.+||+|+++|+
T Consensus 211 TGG~v~~y~~~~~~~~~d~~kl~~dl~~~ltr~ 243 (244)
T cd01479 211 TGGQVYYYPSFNFSAPNDVEKLVNELARYLTRK 243 (244)
T ss_pred cCceEEEECCccCCchhhHHHHHHHHHHHhccc
Confidence 999999999 453 358999999999986
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=5.2e-45 Score=366.39 Aligned_cols=228 Identities=34% Similarity=0.568 Sum_probs=199.9
Q ss_pred CCCcEEEEEEECCCC---hhHHHHHHHHHHHHHHhCC--CCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccch
Q 006547 119 QARPVYVAAVDLSSS---EEFLELTRSALQAALEAVP--SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSL 193 (641)
Q Consensus 119 ~~~p~~vFvID~s~~---~~~l~~~~~~l~~~l~~lp--~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~ 193 (641)
|+||+|+|+||+|.. +++++.++++|+++|+.|| ++++|||||||++||||++++...++++ +++.
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 9999999999999999999876643444 2457
Q ss_pred hhhcc-ccc-cccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccce
Q 006547 194 ELEDV-MPL-SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (641)
Q Consensus 194 dl~d~-~p~-~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~Gk 271 (641)
|++|. +|. .+++++++|+++.|.++|++|++++... .+ +++.+|+|+||++|..+|+..+. |||
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 78884 676 6899999999999999999999875321 01 13679999999999999998731 389
Q ss_pred EEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhccccccccc
Q 006547 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (641)
Q Consensus 272 Ii~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~T 351 (641)
|++|++|+||+|||+++.|++++.++++ +|+.+++++.+||++||.+|+++||+||+|+++.+++|+++|++|++.|
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 006547 352 GGSLFLYSST----DDSTLPQDIYR 372 (641)
Q Consensus 352 GG~v~~~~~~----~~~~l~~dl~~ 372 (641)
||.+++|++| +.++|.+||+|
T Consensus 215 GG~v~~y~~f~~~~~~~~~~~~l~r 239 (239)
T cd01468 215 GGQVYLYDSFQAPNDGSKFKQDLQR 239 (239)
T ss_pred CceEEEeCCCCCcccHHHHHHHhcC
Confidence 9999999999 66778888764
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=1.2e-43 Score=357.90 Aligned_cols=230 Identities=29% Similarity=0.522 Sum_probs=181.9
Q ss_pred CCCcEEEEEEECCCC---hhHHHHHHHHHHHHHHhCC--CCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccch
Q 006547 119 QARPVYVAAVDLSSS---EEFLELTRSALQAALEAVP--SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSL 193 (641)
Q Consensus 119 ~~~p~~vFvID~s~~---~~~l~~~~~~l~~~l~~lp--~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~ 193 (641)
|+||+|+|+||+|.+ ++++++++++|+++|+.+| +++||||||||++||||+++.+...+++ .++.
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 9999999999999999999886654444 3468
Q ss_pred hhhcc-ccc-cccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccce
Q 006547 194 ELEDV-MPL-SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (641)
Q Consensus 194 dl~d~-~p~-~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~Gk 271 (641)
|++|+ +|. +++++++.++++.|.++|++|++.++.... +++.+|+|+||++|..+|+..+. |||
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 89984 665 799999999999999999999875433211 23679999999999999994332 399
Q ss_pred EEEEecCCCCCCC-CccccccccCcccCCCcchh-hccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhccccccc
Q 006547 272 VFAFLSGPPDHGA-GQLDTRRYGEQYASKGEDAD-RALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSI 349 (641)
Q Consensus 272 Ii~F~sg~pt~Gp-G~l~~~~~~~~~~~~~~~~e-~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~ 349 (641)
|++|++|+||+|| |++..+++.+. .++++| ..+++++.+||++||++|+++||+||+|+++.+++|+++|+.|++
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 77777665432 244555 567888899999999999999999999999999999999999999
Q ss_pred ccceEEEEeCCCC----CCchhHHHHHHh
Q 006547 350 ESGGSLFLYSSTD----DSTLPQDIYRML 374 (641)
Q Consensus 350 ~TGG~v~~~~~~~----~~~l~~dl~~~l 374 (641)
.|||.+++|++|+ ..+|++||+|++
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 567999998875
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=99.69 E-value=7e-17 Score=140.14 Aligned_cols=95 Identities=28% Similarity=0.406 Sum_probs=80.6
Q ss_pred HHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCccccccccccCccccccHHHHHHHHhcCcccccCC
Q 006547 464 LGSVILASLEQGVREGRMLLHDWLVILTAQYNEAFKLVQHNIGNSVTSQIDVEFLQCPQLQRLPRLVFALLRNPLLRFHE 543 (641)
Q Consensus 464 ~~~~~~~~~~~~~~~~r~~l~~~lv~~l~~yr~~~~~~~~~~~~~~~~ql~~~~~lp~~lk~lP~~~~~L~Ks~~l~~~~ 543 (641)
++.++.++.+++++++|+.++++|++++++||++|++. + ..+|+ .+||+||.||+|+++|+||++|++.
T Consensus 9 ak~ai~~~~~~~l~~~r~~l~~~~v~il~~Yr~~~~~~----~--~~~qL----ilPe~lklLPly~l~llKs~alr~~- 77 (103)
T PF04815_consen 9 AKQAIDKALSSSLKDARESLDNRLVDILAAYRKNCASS----S--SSGQL----ILPESLKLLPLYILALLKSPALRPT- 77 (103)
T ss_dssp HHHHHHHHCCS-HHHHHHHHHHHHHHHHHHHHHHCTTE----C--CCTEE----EEEGGGTTHHHHHHHHHTSTTTSCS-
T ss_pred HHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHhhccCC----C--Cchhh----hCCHHHHHHHHHHHHHHcchhhcCC-
Confidence 34477778888999999999999999999999999854 1 23565 4899999999999999999999993
Q ss_pred CCCCchHHHHHHHHHccCChhhhhhhh
Q 006547 544 EGVHPDYRIYLQCLFSALEPSSLQRAV 570 (641)
Q Consensus 544 ~~~s~D~r~~~~~~l~~~~~~~~~~~~ 570 (641)
++++|||+|++++++++++++++.||
T Consensus 78 -~v~~D~R~~~~~~~~~~~~~~~~~~i 103 (103)
T PF04815_consen 78 -NVSPDERAYAMHLLLSMPVDSLLRMI 103 (103)
T ss_dssp -TS-HHHHHHHHHHHHHS-HHHHHHHH
T ss_pred -CCCCcHHHHHHHHHHCCCHHHHHhhC
Confidence 39999999999999999999998875
No 13
>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=99.54 E-value=2.1e-15 Score=105.86 Aligned_cols=38 Identities=34% Similarity=0.943 Sum_probs=25.9
Q ss_pred CCCCCCCCCeeeeccceeec--ceeEecCCCCCCCCChhh
Q 006547 49 MLPRCENCYAYFNTYCELEQ--WAWTCSLCGSLNGLSSQA 86 (641)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~N~~p~~~ 86 (641)
+|+||++|+||||||++++. ++|+|+||++.|++|++|
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 14
>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=99.54 E-value=1.6e-14 Score=123.72 Aligned_cols=79 Identities=20% Similarity=0.380 Sum_probs=65.9
Q ss_pred cceeEEEEecCCCceeeeeeeccccCCCC-------Ccc--eeeeecCCCceEEEEEEEecCCCCCCCCCCCcEEEEEEe
Q 006547 379 AFNCIMRLRTSSEFKPGHSYGHFFPDPQY-------ENV--QHIICCDSYATYAYDFDFANAAGFARHTSEQPMLQIAFQ 449 (641)
Q Consensus 379 ~~~a~~rvr~S~gl~v~~~~G~~~~~~~~-------~~~--~~~~~~d~~~s~~~~~e~~~~~~l~~~~~~~~~iQ~a~l 449 (641)
||+|+||||||+|++|++++||++..+.. .+. |.++.++++++++++|+++. ++. ..+.+|||+|++
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 89999999999999999965 342 367899999999
Q ss_pred eeecccccccch
Q 006547 450 YTVVVPPEELSS 461 (641)
Q Consensus 450 Yt~~~g~~~~~~ 461 (641)
||+..|++++|+
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 15
>PRK13685 hypothetical protein; Provisional
Probab=98.74 E-value=3.7e-07 Score=96.23 Aligned_cols=162 Identities=21% Similarity=0.252 Sum_probs=113.5
Q ss_pred cEEEEEEECCCCh-------hHHHHHHHHHHHHHHhCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchh
Q 006547 122 PVYVAAVDLSSSE-------EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLE 194 (641)
Q Consensus 122 p~~vFvID~s~~~-------~~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~d 194 (641)
...+|+||+|.++ ..++.+|++++..++.++++.+||+|+|++..++. .
T Consensus 89 ~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l~~~d~vglv~Fa~~a~~~-------------~----------- 144 (326)
T PRK13685 89 AVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADELTPGINLGLIAFAGTATVL-------------V----------- 144 (326)
T ss_pred ceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhCCCCCeEEEEEEcCceeec-------------C-----------
Confidence 3689999999986 36899999999999999888999999999865421 0
Q ss_pred hhccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccc----cC-CCccc
Q 006547 195 LEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE----YG-NTFAL 269 (641)
Q Consensus 195 l~d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~----~~-~~~~~ 269 (641)
| +...++.+.+.|+.+... ..++.|.|+..|.+.+... ++ .....
T Consensus 145 -----p-------~t~d~~~l~~~l~~l~~~------------------~~T~~g~al~~A~~~l~~~~~~~~~~~~~~~ 194 (326)
T PRK13685 145 -----S-------PTTNREATKNAIDKLQLA------------------DRTATGEAIFTALQAIATVGAVIGGGDTPPP 194 (326)
T ss_pred -----C-------CCCCHHHHHHHHHhCCCC------------------CCcchHHHHHHHHHHHHhhhcccccccCCCC
Confidence 1 122456677778777532 2356888998888877531 10 00012
Q ss_pred ceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCC------------
Q 006547 270 ARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNE------------ 337 (641)
Q Consensus 270 GkIi~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~------------ 337 (641)
++|++++.|..+.|....... .. .+.++.+.+.||.|..+.++.+
T Consensus 195 ~~IILlTDG~~~~~~~~~~~~---------------------~~--~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~ 251 (326)
T PRK13685 195 ARIVLMSDGKETVPTNPDNPR---------------------GA--YTAARTAKDQGVPISTISFGTPYGSVEINGQRQP 251 (326)
T ss_pred CEEEEEcCCCCCCCCCCCCcc---------------------cH--HHHHHHHHHcCCeEEEEEECCCCCCcCcCCceee
Confidence 689999999877653211000 00 1356677788999999988764
Q ss_pred -ccChhcccccccccceEEEEeCC
Q 006547 338 -YTDLASLKFLSIESGGSLFLYSS 360 (641)
Q Consensus 338 -~~~l~~l~~l~~~TGG~v~~~~~ 360 (641)
..|-..|..+++.|||..++..+
T Consensus 252 ~~~d~~~L~~iA~~tgG~~~~~~~ 275 (326)
T PRK13685 252 VPVDDESLKKIAQLSGGEFYTAAS 275 (326)
T ss_pred ecCCHHHHHHHHHhcCCEEEEcCC
Confidence 25778999999999998766654
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=98.70 E-value=2.6e-07 Score=89.02 Aligned_cols=162 Identities=13% Similarity=0.145 Sum_probs=104.7
Q ss_pred EEEEEEECCCCh-------hHHHHHHHHHHHHHHhC---CCCcEEEEEee-cceEEEEEccCCccceeeEeeCCCCCccc
Q 006547 123 VYVAAVDLSSSE-------EFLELTRSALQAALEAV---PSGALFGLATF-SHKIGLYDVQGAIPVVKNVFIPSDTEDTL 191 (641)
Q Consensus 123 ~~vFvID~s~~~-------~~l~~~~~~l~~~l~~l---p~~~~VgiItf-d~~V~~~~l~~~~~~~~~v~~~~~~~~~~ 191 (641)
-.+++||+|.+. ..++.+|..+...++.+ .+..+||||+| +..-++ ..
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 34579999999 553322 11
Q ss_pred chhhhccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccce
Q 006547 192 SLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (641)
Q Consensus 192 ~~dl~d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~Gk 271 (641)
|+ ....+.+...|+.+ +. . .++..++.||+.|...++..... ..++
T Consensus 64 --------Pl-------T~D~~~~~~~L~~~--~~----~-----------~G~t~l~~aL~~A~~~l~~~~~~--~~~~ 109 (183)
T cd01453 64 --------DL-------TGNPRKHIQALKTA--RE----C-----------SGEPSLQNGLEMALESLKHMPSH--GSRE 109 (183)
T ss_pred --------CC-------CCCHHHHHHHhhcc--cC----C-----------CCchhHHHHHHHHHHHHhcCCcc--CceE
Confidence 11 11112333444443 10 0 13478999999999999753211 0257
Q ss_pred EEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhccccccccc
Q 006547 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (641)
Q Consensus 272 Ii~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~T 351 (641)
|++++++.-+.+|+ -+.++++.+.+.+|.|++..++. +...|..+|+.|
T Consensus 110 iiil~sd~~~~~~~----------------------------~~~~~~~~l~~~~I~v~~IgiG~---~~~~L~~ia~~t 158 (183)
T cd01453 110 VLIIFSSLSTCDPG----------------------------NIYETIDKLKKENIRVSVIGLSA---EMHICKEICKAT 158 (183)
T ss_pred EEEEEcCCCcCChh----------------------------hHHHHHHHHHHcCcEEEEEEech---HHHHHHHHHHHh
Confidence 88888763222221 12457888889999999998864 467899999999
Q ss_pred ceEEEEeCCCCCCchhHHHHH
Q 006547 352 GGSLFLYSSTDDSTLPQDIYR 372 (641)
Q Consensus 352 GG~v~~~~~~~~~~l~~dl~~ 372 (641)
||+.|...+ ...|.+-+.+
T Consensus 159 gG~~~~~~~--~~~l~~~~~~ 177 (183)
T cd01453 159 NGTYKVILD--ETHLKELLLE 177 (183)
T ss_pred CCeeEeeCC--HHHHHHHHHh
Confidence 999766543 3345544433
No 17
>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=98.68 E-value=6.8e-07 Score=83.74 Aligned_cols=150 Identities=22% Similarity=0.314 Sum_probs=103.1
Q ss_pred EEEEEECCCChh--HHHHHHHHHHHHHHhCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhccccc
Q 006547 124 YVAAVDLSSSEE--FLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVMPL 201 (641)
Q Consensus 124 ~vFvID~s~~~~--~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~~p~ 201 (641)
.+|+||+|.+.. .++.+++++...++.|+++.+||||+|++..+... .+. +.
T Consensus 3 v~~vlD~S~SM~~~rl~~ak~a~~~l~~~l~~~~~~~li~F~~~~~~~~-----------------------~~~---~~ 56 (155)
T cd01466 3 LVAVLDVSGSMAGDKLQLVKHALRFVISSLGDADRLSIVTFSTSAKRLS-----------------------PLR---RM 56 (155)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcceEEEEEecCCccccC-----------------------CCc---cc
Confidence 579999999863 57889999999999999989999999998754320 000 00
Q ss_pred cccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCC
Q 006547 202 SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPD 281 (641)
Q Consensus 202 ~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg~pt 281 (641)
-...++.+.++++.+... ++++++.|+..|.+.+...+... ....|++++.|.++
T Consensus 57 ------~~~~~~~~~~~i~~~~~~------------------g~T~~~~al~~a~~~~~~~~~~~-~~~~iillTDG~~~ 111 (155)
T cd01466 57 ------TAKGKRSAKRVVDGLQAG------------------GGTNVVGGLKKALKVLGDRRQKN-PVASIMLLSDGQDN 111 (155)
T ss_pred ------CHHHHHHHHHHHHhccCC------------------CCccHHHHHHHHHHHHhhcccCC-CceEEEEEcCCCCC
Confidence 012345566666665421 35789999999999986432110 12689999999887
Q ss_pred CCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEEe
Q 006547 282 HGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLY 358 (641)
Q Consensus 282 ~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~ 358 (641)
.|+.. .++.+.++.|..+.++. ..|..+|..++..|||+.++.
T Consensus 112 ~~~~~---------------------------------~~~~~~~v~v~~igig~-~~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 112 HGAVV---------------------------------LRADNAPIPIHTFGLGA-SHDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred cchhh---------------------------------hcccCCCceEEEEecCC-CCCHHHHHHHHhccCceEEEe
Confidence 65100 00123578888777753 468889999999999997764
No 18
>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=98.67 E-value=1.4e-06 Score=82.52 Aligned_cols=159 Identities=15% Similarity=0.177 Sum_probs=109.6
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhccccc
Q 006547 124 YVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVMPL 201 (641)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~~p~ 201 (641)
++|++|+|.+. ..++.+++++...++.++++.+||+++|++..+..- +.. +
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 68999999986 347888999999999998889999999998644310 000 0
Q ss_pred cccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCC
Q 006547 202 SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPD 281 (641)
Q Consensus 202 ~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg~pt 281 (641)
...++.+.+.++++... +++.++.|+..|...+....... ...+|++|+.|.++
T Consensus 56 -------~~~~~~l~~~l~~~~~~------------------g~T~~~~al~~a~~~~~~~~~~~-~~~~ivl~TDG~~~ 109 (170)
T cd01465 56 -------VRDKAAILAAIDRLTAG------------------GSTAGGAGIQLGYQEAQKHFVPG-GVNRILLATDGDFN 109 (170)
T ss_pred -------cchHHHHHHHHHcCCCC------------------CCCCHHHHHHHHHHHHHhhcCCC-CeeEEEEEeCCCCC
Confidence 01223344455554321 23568999999988876432110 02579999999988
Q ss_pred CCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEEeCCC
Q 006547 282 HGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSST 361 (641)
Q Consensus 282 ~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~ 361 (641)
.|+... +-+.+....+.+.++.|+.+.++ +..+...|..+++.++|..++.++.
T Consensus 110 ~~~~~~-------------------------~~~~~~~~~~~~~~v~i~~i~~g-~~~~~~~l~~ia~~~~g~~~~~~~~ 163 (170)
T cd01465 110 VGETDP-------------------------DELARLVAQKRESGITLSTLGFG-DNYNEDLMEAIADAGNGNTAYIDNL 163 (170)
T ss_pred CCCCCH-------------------------HHHHHHHHHhhcCCeEEEEEEeC-CCcCHHHHHHHHhcCCceEEEeCCH
Confidence 764311 11234555566789999999987 6788999999999999997776543
No 19
>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=98.66 E-value=5e-07 Score=88.86 Aligned_cols=169 Identities=24% Similarity=0.349 Sum_probs=108.8
Q ss_pred CCCcEEEEEEECCCChh--------HHHHHHHHHHHHHHhCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcc
Q 006547 119 QARPVYVAAVDLSSSEE--------FLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDT 190 (641)
Q Consensus 119 ~~~p~~vFvID~s~~~~--------~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~ 190 (641)
..+..++|+||+|.++. .++.++.++...++.++++.+||+++|++.++- .... .+.++
T Consensus 18 ~~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l~~~~~v~lv~F~~~~~~-----~~~~--~~~~p------ 84 (206)
T cd01456 18 QLPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDGTRLGLWTFSGDGDN-----PLDV--RVLVP------ 84 (206)
T ss_pred CCCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhCCCCceEEEEEecCCCCC-----Cccc--ccccc------
Confidence 45678999999999864 688899999999999998999999999995421 0000 00000
Q ss_pred cchhhhccccccccccchHhhHHHHHHHHHhhc-CCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccc
Q 006547 191 LSLELEDVMPLSQFLAPVETFKENITSALETLR-PTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFAL 269 (641)
Q Consensus 191 ~~~dl~d~~p~~~~l~~~~~~~~~i~~lL~~L~-~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~ 269 (641)
...+.. +...+ ....++.+.+.|+.+. .. .++.++.||+.|.+.+. .+. .
T Consensus 85 -~~~~~~--~~~~~---~~~~~~~l~~~i~~i~~~~------------------G~T~l~~aL~~a~~~l~-~~~----~ 135 (206)
T cd01456 85 -KGCLTA--PVNGF---PSAQRSALDAALNSLQTPT------------------GWTPLAAALAEAAAYVD-PGR----V 135 (206)
T ss_pred -cccccc--ccCCC---CcccHHHHHHHHHhhcCCC------------------CcChHHHHHHHHHHHhC-CCC----c
Confidence 000000 00011 0124566677777775 21 35689999999999886 221 1
Q ss_pred ceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHH-HHcCcEEEEeeecCCccChhcccccc
Q 006547 270 ARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVA-VQAGVCVDIFAITNEYTDLASLKFLS 348 (641)
Q Consensus 270 GkIi~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~-~~~~isvdlf~~~~~~~~l~~l~~l~ 348 (641)
..|++++.|.++.|+... +..+++.... ...+|.|+.+.++.+ .|...|..++
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 589999999877653110 0011122110 125899999988765 6788999999
Q ss_pred cccceEE
Q 006547 349 IESGGSL 355 (641)
Q Consensus 349 ~~TGG~v 355 (641)
+.|||..
T Consensus 190 ~~tgG~~ 196 (206)
T cd01456 190 EATGGTY 196 (206)
T ss_pred HhcCCeE
Confidence 9999986
No 20
>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=98.64 E-value=9.3e-07 Score=84.85 Aligned_cols=165 Identities=14% Similarity=0.126 Sum_probs=109.5
Q ss_pred EEEEEECCCChh---HHHHHHHHHHHHHH-hCCCCcEEEEEeecce-EEEEEccCCccceeeEeeCCCCCcccchhhhcc
Q 006547 124 YVAAVDLSSSEE---FLELTRSALQAALE-AVPSGALFGLATFSHK-IGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (641)
Q Consensus 124 ~vFvID~s~~~~---~l~~~~~~l~~~l~-~lp~~~~VgiItfd~~-V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~ 198 (641)
++|+||+|.+.. .++.++.++...+. .++++.+||+|+|++. .++. +
T Consensus 3 v~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~~~~~d~v~lv~F~~~~~~~~-------------~--------------- 54 (178)
T cd01451 3 VIFVVDASGSMAARHRMAAAKGAVLSLLRDAYQRRDKVALIAFRGTEAEVL-------------L--------------- 54 (178)
T ss_pred EEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceEE-------------e---------------
Confidence 679999999862 67888888888775 4567889999999864 2211 0
Q ss_pred ccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecC
Q 006547 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSG 278 (641)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg 278 (641)
|. ...+..+...|+.++.. +++.++.||..|...++...........|++++.|
T Consensus 55 -~~-------t~~~~~~~~~l~~l~~~------------------G~T~l~~aL~~a~~~l~~~~~~~~~~~~ivliTDG 108 (178)
T cd01451 55 -PP-------TRSVELAKRRLARLPTG------------------GGTPLAAGLLAAYELAAEQARDPGQRPLIVVITDG 108 (178)
T ss_pred -CC-------CCCHHHHHHHHHhCCCC------------------CCCcHHHHHHHHHHHHHHHhcCCCCceEEEEECCC
Confidence 00 00122334455555321 34679999999998882111100001479999999
Q ss_pred CCCCCCCccccccccCcccCCCcchhhccCCCcchHH-HHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEE
Q 006547 279 PPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFY-KDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (641)
Q Consensus 279 ~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY-~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~ 357 (641)
.++.|..... .- .+++.++.+.||.+..+.+.....+-..|..|++.|||+.++
T Consensus 109 ~~~~g~~~~~-------------------------~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~~tgG~~~~ 163 (178)
T cd01451 109 RANVGPDPTA-------------------------DRALAAARKLRARGISALVIDTEGRPVRRGLAKDLARALGGQYVR 163 (178)
T ss_pred CCCCCCCchh-------------------------HHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHHHcCCeEEE
Confidence 9887642110 01 457788888898887766655566778899999999999998
Q ss_pred eCCCCCCchh
Q 006547 358 YSSTDDSTLP 367 (641)
Q Consensus 358 ~~~~~~~~l~ 367 (641)
.++.+...|.
T Consensus 164 ~~d~~~~~~~ 173 (178)
T cd01451 164 LPDLSADAIA 173 (178)
T ss_pred cCcCCHHHHH
Confidence 8877654443
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=98.57 E-value=3.5e-06 Score=81.70 Aligned_cols=168 Identities=18% Similarity=0.235 Sum_probs=105.1
Q ss_pred CCcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhc
Q 006547 120 ARPVYVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (641)
Q Consensus 120 ~~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d 197 (641)
.|-..+|+||+|.+. ..++.+|+++...++.++++.+||||+|++.++..---...
T Consensus 12 ~p~~vv~llD~SgSM~~~~l~~ak~~~~~ll~~l~~~d~v~lv~F~~~~~~~~~~~~~---------------------- 69 (190)
T cd01463 12 SPKDIVILLDVSGSMTGQRLHLAKQTVSSILDTLSDNDFFNIITFSNEVNPVVPCFND---------------------- 69 (190)
T ss_pred CCceEEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCCCEEEEEEeCCCeeEEeeeccc----------------------
Confidence 345689999999986 56788999999999999999999999999987643110000
Q ss_pred cccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccc---c---CCCcccce
Q 006547 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE---Y---GNTFALAR 271 (641)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~---~---~~~~~~Gk 271 (641)
.+.....+.++.+.+.|+.|+.. +.+.++.||..|...+... + ........
T Consensus 70 -----~~~~~~~~~~~~~~~~l~~l~~~------------------G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~ 126 (190)
T cd01463 70 -----TLVQATTSNKKVLKEALDMLEAK------------------GIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQA 126 (190)
T ss_pred -----ceEecCHHHHHHHHHHHhhCCCC------------------CcchHHHHHHHHHHHHHHhhhcccccccCCceeE
Confidence 00000122344455555555432 2467999999999888751 1 00001247
Q ss_pred EEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHH-HHHHcCcEEEEeeecCCccChhcccccccc
Q 006547 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAA-VAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (641)
Q Consensus 272 Ii~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~-~~~~~~isvdlf~~~~~~~~l~~l~~l~~~ 350 (641)
|++++.|.++.+.. ...++.. .....++.|..|.++.+..|...|..|+..
T Consensus 127 iillTDG~~~~~~~----------------------------~~~~~~~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~~ 178 (190)
T cd01463 127 IMLITDGVPENYKE----------------------------IFDKYNWDKNSEIPVRVFTYLIGREVTDRREIQWMACE 178 (190)
T ss_pred EEEEeCCCCCcHhH----------------------------HHHHhcccccCCCcEEEEEEecCCccccchHHHHHHhh
Confidence 88999998753100 0011100 000124555555566665688999999999
Q ss_pred cceEEEEeCC
Q 006547 351 SGGSLFLYSS 360 (641)
Q Consensus 351 TGG~v~~~~~ 360 (641)
+||..++.++
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=98.46 E-value=8.5e-06 Score=78.11 Aligned_cols=155 Identities=19% Similarity=0.207 Sum_probs=102.2
Q ss_pred EEEEEEECCCChh--------HHHHHHHHHHHHHHhCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchh
Q 006547 123 VYVAAVDLSSSEE--------FLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLE 194 (641)
Q Consensus 123 ~~vFvID~s~~~~--------~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~d 194 (641)
-++|+||+|.+.. .++.++..+...++.. ++.+||+|+|++.++.. +
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 3567777777666654 46799999998865421 0
Q ss_pred hhccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEE
Q 006547 195 LEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFA 274 (641)
Q Consensus 195 l~d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~ 274 (641)
| +...+..+.++++.|.... . ..++.++.||..|...+....+. ...|++
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 0112334455666665221 0 12467899999999888654321 257888
Q ss_pred EecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCC----------ccChhcc
Q 006547 275 FLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNE----------YTDLASL 344 (641)
Q Consensus 275 F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~----------~~~l~~l 344 (641)
++.|.++.|+-. ..+.+..+.+.||.|+.+.++.. ..|...|
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 888887654210 01234455568999998887762 4678889
Q ss_pred cccccccceEEEEeCC
Q 006547 345 KFLSIESGGSLFLYSS 360 (641)
Q Consensus 345 ~~l~~~TGG~v~~~~~ 360 (641)
..|++.|||..++..+
T Consensus 161 ~~la~~tgG~~~~~~~ 176 (180)
T cd01467 161 VEIADKTGGRIFRALD 176 (180)
T ss_pred HHHHHhcCCEEEEecC
Confidence 9999999999888753
No 23
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.33 E-value=3.1e-05 Score=89.65 Aligned_cols=155 Identities=19% Similarity=0.266 Sum_probs=102.9
Q ss_pred CcEEEEEEECCCCh---hHHHHHHHHHHHHHH-hCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhh
Q 006547 121 RPVYVAAVDLSSSE---EFLELTRSALQAALE-AVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (641)
Q Consensus 121 ~p~~vFvID~s~~~---~~l~~~~~~l~~~l~-~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~ 196 (641)
+...++|||+|.++ ..++.++++++..+. .++++.+||||+|++..++.. ++
T Consensus 304 ~r~VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~l~~~DrVGLVtFsssA~vl~-----------------------pL- 359 (863)
T TIGR00868 304 QRIVCLVLDKSGSMTVEDRLKRMNQAAKLFLLQTVEKGSWVGMVTFDSAAYIKN-----------------------EL- 359 (863)
T ss_pred CceEEEEEECCccccccCHHHHHHHHHHHHHHHhCCCCCEEEEEEECCceeEee-----------------------cc-
Confidence 34689999999996 357888888887664 578889999999999765421 00
Q ss_pred ccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEe
Q 006547 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFL 276 (641)
Q Consensus 197 d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~ 276 (641)
.++. + ...++.+...+ +.. + .++++++.||..|++.|...+.. ..++.|++++
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---------------SGGTSICSGLKAAFQVIKKSYQS-TDGSEIVLLT 412 (863)
T ss_pred --ccCC----c-HHHHHHHHHhh---ccc-c---------------CCCCcHHHHHHHHHHHHHhcccc-cCCCEEEEEe
Confidence 0000 0 11233333333 211 0 14679999999999999864321 1136888888
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEE
Q 006547 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (641)
Q Consensus 277 sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~ 356 (641)
.|.++.+ .++...+.++||.|..+.++.+. -..|..||+.|||..|
T Consensus 413 DGedn~~--------------------------------~~~l~~lk~~gVtI~TIg~G~da--d~~L~~IA~~TGG~~f 458 (863)
T TIGR00868 413 DGEDNTI--------------------------------SSCFEEVKQSGAIIHTIALGPSA--AKELEELSDMTGGLRF 458 (863)
T ss_pred CCCCCCH--------------------------------HHHHHHHHHcCCEEEEEEeCCCh--HHHHHHHHHhcCCEEE
Confidence 8764321 12444566789999999887653 2458999999999988
Q ss_pred EeCC
Q 006547 357 LYSS 360 (641)
Q Consensus 357 ~~~~ 360 (641)
+.++
T Consensus 459 ~asd 462 (863)
T TIGR00868 459 YASD 462 (863)
T ss_pred EeCC
Confidence 8864
No 24
>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=98.29 E-value=2.4e-05 Score=75.01 Aligned_cols=146 Identities=18% Similarity=0.201 Sum_probs=96.7
Q ss_pred EEEEEEECCCCh-------hHHHHHHHHHHHHH----HhCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCccc
Q 006547 123 VYVAAVDLSSSE-------EFLELTRSALQAAL----EAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTL 191 (641)
Q Consensus 123 ~~vFvID~s~~~-------~~l~~~~~~l~~~l----~~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~ 191 (641)
+-+++||+|.++ .++++.++++...+ +..|. .+||||+|....- ++.+
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-NNVGLMTMAGNSP------------EVLV-------- 63 (187)
T ss_pred EEEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCCC-ccEEEEEecCCce------------EEEE--------
Confidence 468999999974 57888888887664 55554 4999999987321 1111
Q ss_pred chhhhccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccce
Q 006547 192 SLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (641)
Q Consensus 192 ~~dl~d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~Gk 271 (641)
|+......+...|+.+... ++..+|.||+.|...|+.....+ ...|
T Consensus 64 ---------------plT~D~~~~~~~L~~i~~~------------------g~~~l~~AL~~A~~~L~~~~~~~-~~~r 109 (187)
T cd01452 64 ---------------TLTNDQGKILSKLHDVQPK------------------GKANFITGIQIAQLALKHRQNKN-QKQR 109 (187)
T ss_pred ---------------CCCCCHHHHHHHHHhCCCC------------------CcchHHHHHHHHHHHHhcCCCcC-Ccce
Confidence 1122345556666655421 23569999999999997543211 0159
Q ss_pred EEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhccccccccc
Q 006547 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (641)
Q Consensus 272 Ii~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~T 351 (641)
|++|.+++-+.-||. ..++++++.++||.||+..++...-+..-+..+.+..
T Consensus 110 ivi~v~S~~~~d~~~----------------------------i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~~~~~~~ 161 (187)
T cd01452 110 IVAFVGSPIEEDEKD----------------------------LVKLAKRLKKNNVSVDIINFGEIDDNTEKLTAFIDAV 161 (187)
T ss_pred EEEEEecCCcCCHHH----------------------------HHHHHHHHHHcCCeEEEEEeCCCCCCHHHHHHHHHHh
Confidence 999998864322221 2368999999999999999987766666666665554
No 25
>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=98.29 E-value=3.2e-05 Score=73.05 Aligned_cols=152 Identities=20% Similarity=0.201 Sum_probs=94.5
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc
Q 006547 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (641)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp---~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~ 198 (641)
.+|+||+|.+. ..++.++++++..++.+. ++.++|||+|++..+..- .+.
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 467888888888888774 567999999998765421 000
Q ss_pred ccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccc--cCCCcccceEEEEe
Q 006547 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE--YGNTFALARVFAFL 276 (641)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~--~~~~~~~GkIi~F~ 276 (641)
. ...++.+.+.|+.++... ..+.+|.||..|.+.+... +........|++++
T Consensus 58 ----~-----~~~~~~~~~~l~~l~~~~-----------------g~T~~~~al~~a~~~l~~~~~~~~~~~~~~iiliT 111 (164)
T cd01472 58 ----T-----YRSKDDVLEAVKNLRYIG-----------------GGTNTGKALKYVRENLFTEASGSREGVPKVLVVIT 111 (164)
T ss_pred ----C-----CCCHHHHHHHHHhCcCCC-----------------CCchHHHHHHHHHHHhCCcccCCCCCCCEEEEEEc
Confidence 0 012344555666665320 2467999999999988742 11000124567777
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccce-EE
Q 006547 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGG-SL 355 (641)
Q Consensus 277 sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG-~v 355 (641)
.|.++.+. ...+..+.+.||.+-.+.. ...|...|..++..++| .+
T Consensus 112 DG~~~~~~-------------------------------~~~~~~l~~~gv~i~~ig~--g~~~~~~L~~ia~~~~~~~~ 158 (164)
T cd01472 112 DGKSQDDV-------------------------------EEPAVELKQAGIEVFAVGV--KNADEEELKQIASDPKELYV 158 (164)
T ss_pred CCCCCchH-------------------------------HHHHHHHHHCCCEEEEEEC--CcCCHHHHHHHHCCCchheE
Confidence 77433110 1123344556775555544 33499999999999987 45
Q ss_pred EEeC
Q 006547 356 FLYS 359 (641)
Q Consensus 356 ~~~~ 359 (641)
+.+.
T Consensus 159 ~~~~ 162 (164)
T cd01472 159 FNVA 162 (164)
T ss_pred Eecc
Confidence 5443
No 26
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.28 E-value=1.3e-05 Score=74.94 Aligned_cols=151 Identities=23% Similarity=0.307 Sum_probs=97.6
Q ss_pred EEEEEECCCCh-hHHHHHHHHHHHHHHhCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcccccc
Q 006547 124 YVAAVDLSSSE-EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVMPLS 202 (641)
Q Consensus 124 ~vFvID~s~~~-~~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~~p~~ 202 (641)
.+|+||+|.++ +..+.++++++.+++.|+++.++.||+|++.+..+.-. . ...+
T Consensus 3 vvilvD~S~Sm~g~~~~~k~al~~~l~~L~~~d~fnii~f~~~~~~~~~~--~-----------------~~~~------ 57 (155)
T PF13768_consen 3 VVILVDTSGSMSGEKELVKDALRAILRSLPPGDRFNIIAFGSSVRPLFPG--L-----------------VPAT------ 57 (155)
T ss_pred EEEEEeCCCCCCCcHHHHHHHHHHHHHhCCCCCEEEEEEeCCEeeEcchh--H-----------------HHHh------
Confidence 68999999986 33488999999999999999999999999976643210 0 0000
Q ss_pred ccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCC
Q 006547 203 QFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDH 282 (641)
Q Consensus 203 ~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg~pt~ 282 (641)
.+.++...+.++.++.. .+++.++.||+.|+..+...+. .-.|++++.|.|+.
T Consensus 58 ------~~~~~~a~~~I~~~~~~-----------------~G~t~l~~aL~~a~~~~~~~~~----~~~IilltDG~~~~ 110 (155)
T PF13768_consen 58 ------EENRQEALQWIKSLEAN-----------------SGGTDLLAALRAALALLQRPGC----VRAIILLTDGQPVS 110 (155)
T ss_pred ------HHHHHHHHHHHHHhccc-----------------CCCccHHHHHHHHHHhcccCCC----ccEEEEEEeccCCC
Confidence 11233334444444431 1356799999999987633222 25889999887643
Q ss_pred CCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEE
Q 006547 283 GAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (641)
Q Consensus 283 GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~ 356 (641)
++- ... +....+. ..+.+..|.++. ..+-..|..|++.|||..+
T Consensus 111 ~~~---------------------------~i~-~~v~~~~-~~~~i~~~~~g~-~~~~~~L~~LA~~~~G~~~ 154 (155)
T PF13768_consen 111 GEE---------------------------EIL-DLVRRAR-GHIRIFTFGIGS-DADADFLRELARATGGSFH 154 (155)
T ss_pred CHH---------------------------HHH-HHHHhcC-CCceEEEEEECC-hhHHHHHHHHHHcCCCEEE
Confidence 220 011 1111211 456667776654 4667889999999999854
No 27
>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=98.27 E-value=3.6e-05 Score=80.15 Aligned_cols=171 Identities=16% Similarity=0.156 Sum_probs=101.6
Q ss_pred CCcEEEEEEECCCCh-hHHHHHHHHHHHHHHh-CCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhc
Q 006547 120 ARPVYVAAVDLSSSE-EFLELTRSALQAALEA-VPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (641)
Q Consensus 120 ~~p~~vFvID~s~~~-~~l~~~~~~l~~~l~~-lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d 197 (641)
.|...+|+||+|.+. +.++.+++++...++. ++++.+||||+|++.++... ++
T Consensus 52 ~p~~vvlvlD~SgSM~~~~~~a~~a~~~~l~~~l~~~d~v~lv~f~~~~~~~~-----------------------~~-- 106 (296)
T TIGR03436 52 LPLTVGLVIDTSGSMRNDLDRARAAAIRFLKTVLRPNDRVFVVTFNTRLRLLQ-----------------------DF-- 106 (296)
T ss_pred CCceEEEEEECCCCchHHHHHHHHHHHHHHHhhCCCCCEEEEEEeCCceeEee-----------------------cC--
Confidence 467899999999985 5577788888888876 78889999999998765421 00
Q ss_pred cccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHH-HHHhhccccCCCccc-ceEEEE
Q 006547 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMES-LFNYLGSEYGNTFAL-ARVFAF 275 (641)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~-a~~~l~~~~~~~~~~-GkIi~F 275 (641)
...++.+.+.|+.+.......-.... ... ...++.+++.||.. +.+++....+. .++ ..|++|
T Consensus 107 -----------t~~~~~l~~~l~~l~~~~~~~~~~~~-~~~--~~~g~T~l~~al~~aa~~~~~~~~~~-~p~rk~iIll 171 (296)
T TIGR03436 107 -----------TSDPRLLEAALNRLKPPLRTDYNSSG-AFV--RDGGGTALYDAITLAALEQLANALAG-IPGRKALIVI 171 (296)
T ss_pred -----------CCCHHHHHHHHHhccCCCcccccccc-ccc--cCCCcchhHHHHHHHHHHHHHHhhcC-CCCCeEEEEE
Confidence 11234455666666431000000000 000 00135678888643 34555433210 001 246666
Q ss_pred ecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCc------------cChhc
Q 006547 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEY------------TDLAS 343 (641)
Q Consensus 276 ~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~------------~~l~~ 343 (641)
+.|..+. ...-++++...+.+++|.|..+.++... .+-..
T Consensus 172 TDG~~~~----------------------------~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~ 223 (296)
T TIGR03436 172 SDGGDNR----------------------------SRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEA 223 (296)
T ss_pred ecCCCcc----------------------------hHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHH
Confidence 6663211 1224567788888899988877664210 24568
Q ss_pred ccccccccceEEEEe
Q 006547 344 LKFLSIESGGSLFLY 358 (641)
Q Consensus 344 l~~l~~~TGG~v~~~ 358 (641)
|..+|+.|||..++.
T Consensus 224 L~~iA~~TGG~~~~~ 238 (296)
T TIGR03436 224 LERLAEETGGRAFYV 238 (296)
T ss_pred HHHHHHHhCCeEecc
Confidence 999999999997665
No 28
>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=98.25 E-value=5.9e-05 Score=71.38 Aligned_cols=159 Identities=21% Similarity=0.258 Sum_probs=100.9
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc
Q 006547 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (641)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~ 198 (641)
|.-++|++|+|.+. ..++.+++++...+..++++.+|++++|++.++.+- . . . ...+
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 447888999998899999888999999999765331 0 0 0 0000
Q ss_pred ccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecC
Q 006547 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSG 278 (641)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg 278 (641)
.+....+.+.++.+... +++.++.||..|...+....+. ...|++|+.|
T Consensus 61 ----------~~~~~~~~~~l~~~~~~------------------g~T~l~~al~~a~~~l~~~~~~---~~~iillTDG 109 (171)
T cd01461 61 ----------AENVAAAIEYVNRLQAL------------------GGTNMNDALEAALELLNSSPGS---VPQIILLTDG 109 (171)
T ss_pred ----------HHHHHHHHHHHHhcCCC------------------CCcCHHHHHHHHHHhhccCCCC---ccEEEEEeCC
Confidence 11112223344443321 3467899999999888642111 2578888887
Q ss_pred CCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEEe
Q 006547 279 PPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLY 358 (641)
Q Consensus 279 ~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~ 358 (641)
.++. ....+ +...++.+.++.|..+.++. ..+-..|..+++.|||..++.
T Consensus 110 ~~~~----------------------------~~~~~-~~~~~~~~~~i~i~~i~~g~-~~~~~~l~~ia~~~gG~~~~~ 159 (171)
T cd01461 110 EVTN----------------------------ESQIL-KNVREALSGRIRLFTFGIGS-DVNTYLLERLAREGRGIARRI 159 (171)
T ss_pred CCCC----------------------------HHHHH-HHHHHhcCCCceEEEEEeCC-ccCHHHHHHHHHcCCCeEEEe
Confidence 5211 01122 34444444577777766653 356778999999999998888
Q ss_pred CCC
Q 006547 359 SST 361 (641)
Q Consensus 359 ~~~ 361 (641)
.+-
T Consensus 160 ~~~ 162 (171)
T cd01461 160 YET 162 (171)
T ss_pred cCh
Confidence 643
No 29
>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=98.25 E-value=2.5e-05 Score=75.47 Aligned_cols=158 Identities=12% Similarity=0.082 Sum_probs=99.8
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHHHhC---------CCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCccc
Q 006547 123 VYVAAVDLSSSE--EFLELTRSALQAALEAV---------PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTL 191 (641)
Q Consensus 123 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~l---------p~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~ 191 (641)
-.+|+||.|.+. ..++.+++.++..++.+ +++.+||+|+|++..++.-
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 46777788787777766 3468999999998654310
Q ss_pred chhhhccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccce
Q 006547 192 SLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (641)
Q Consensus 192 ~~dl~d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~Gk 271 (641)
|+... ...+..+.+.|+.++... +++.+|.||..|.+.+.. +........
T Consensus 63 --------~l~~~----~~~~~~l~~~i~~l~~~g-----------------g~T~~~~AL~~a~~~l~~-~~~~~~~~~ 112 (186)
T cd01480 63 --------GFLRD----IRNYTSLKEAVDNLEYIG-----------------GGTFTDCALKYATEQLLE-GSHQKENKF 112 (186)
T ss_pred --------ecccc----cCCHHHHHHHHHhCccCC-----------------CCccHHHHHHHHHHHHhc-cCCCCCceE
Confidence 00000 113455666777765321 346899999999988864 111111257
Q ss_pred EEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhccccccccc
Q 006547 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (641)
Q Consensus 272 Ii~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~T 351 (641)
|++++.|.++.++. .-..+.+.++.+.||.+-.+..+. .+...|..++...
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 77788786532110 011345666778888765555543 7888899999887
Q ss_pred ceEEEEeCCC
Q 006547 352 GGSLFLYSST 361 (641)
Q Consensus 352 GG~v~~~~~~ 361 (641)
+|. ++.++|
T Consensus 164 ~~~-~~~~~~ 172 (186)
T cd01480 164 KSA-LYRENF 172 (186)
T ss_pred cch-hhhcch
Confidence 776 555555
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=98.22 E-value=3.8e-05 Score=75.00 Aligned_cols=169 Identities=14% Similarity=0.203 Sum_probs=98.9
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEEeecceEEEE-EccCCccceeeEeeCCCCCcccchhhhc
Q 006547 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLY-DVQGAIPVVKNVFIPSDTEDTLSLELED 197 (641)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp---~~~~VgiItfd~~V~~~-~l~~~~~~~~~v~~~~~~~~~~~~dl~d 197 (641)
++|+||+|.+. ..++.+++++...++.|+ .+.+||+|+|++..+.. .+..
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 568889999999998875 36799999999976532 1110
Q ss_pred cccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhcccc---CC--CcccceE
Q 006547 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEY---GN--TFALARV 272 (641)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~---~~--~~~~GkI 272 (641)
+. ...+..+...|+.+...... . ..++.++.||..|.+.+.... +. ....-.|
T Consensus 59 ------~~---~~~~~~~~~~l~~~~~~~~~---~----------~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~i 116 (198)
T cd01470 59 ------FN---SNDADDVIKRLEDFNYDDHG---D----------KTGTNTAAALKKVYERMALEKVRNKEAFNETRHVI 116 (198)
T ss_pred ------CC---CCCHHHHHHHHHhCCccccc---C----------ccchhHHHHHHHHHHHHHHHHhcCccchhhcceEE
Confidence 00 11223344455555422100 0 134678999998887663211 00 0001247
Q ss_pred EEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHH------HHHHcCcEEEEeeecCCccChhcccc
Q 006547 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAA------VAVQAGVCVDIFAITNEYTDLASLKF 346 (641)
Q Consensus 273 i~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~------~~~~~~isvdlf~~~~~~~~l~~l~~ 346 (641)
++++.|.++.|..... +.+.++++.. .+.+.+|.|..+..+ +.+|-.+|..
T Consensus 117 illTDG~~~~g~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~v~i~~iGvG-~~~~~~~L~~ 173 (198)
T cd01470 117 ILFTDGKSNMGGSPLP----------------------TVDKIKNLVYKNNKSDNPREDYLDVYVFGVG-DDVNKEELND 173 (198)
T ss_pred EEEcCCCcCCCCChhH----------------------HHHHHHHHHhcccccccchhcceeEEEEecC-cccCHHHHHH
Confidence 8999999987632110 0111122111 112345555555443 3478999999
Q ss_pred cccccceE--EEEeCCC
Q 006547 347 LSIESGGS--LFLYSST 361 (641)
Q Consensus 347 l~~~TGG~--v~~~~~~ 361 (641)
|+..|||. +|...++
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=98.13 E-value=1.3e-05 Score=75.62 Aligned_cols=150 Identities=22% Similarity=0.253 Sum_probs=97.7
Q ss_pred EEEEEECCCChh-------HHHHHHHHHHHHHHhCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhh
Q 006547 124 YVAAVDLSSSEE-------FLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (641)
Q Consensus 124 ~vFvID~s~~~~-------~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~ 196 (641)
++|+||+|.+.. .++.++.++...++.+|+. +|||++|++..+.. . ++
T Consensus 2 vv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~~~~~-~v~l~~f~~~~~~~-------------~----------~~- 56 (172)
T PF13519_consen 2 VVFVLDNSGSMNGYDGNRTRIDQAKDALNELLANLPGD-RVGLVSFSDSSRTL-------------S----------PL- 56 (172)
T ss_dssp EEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHHHTTS-EEEEEEESTSCEEE-------------E----------EE-
T ss_pred EEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHHCCCC-EEEEEEeccccccc-------------c----------cc-
Confidence 589999999862 4788999999999888744 99999999853210 0 00
Q ss_pred ccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEe
Q 006547 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFL 276 (641)
Q Consensus 197 d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~ 276 (641)
...++.+.+.++++...... ....+++.|+..|.+++...... ...|++|+
T Consensus 57 ------------t~~~~~~~~~l~~~~~~~~~--------------~~~t~~~~al~~a~~~~~~~~~~---~~~iv~iT 107 (172)
T PF13519_consen 57 ------------TSDKDELKNALNKLSPQGMP--------------GGGTNLYDALQEAAKMLASSDNR---RRAIVLIT 107 (172)
T ss_dssp ------------ESSHHHHHHHHHTHHHHG----------------SSS--HHHHHHHHHHHHHC-SSE---EEEEEEEE
T ss_pred ------------cccHHHHHHHhhcccccccC--------------ccCCcHHHHHHHHHHHHHhCCCC---ceEEEEec
Confidence 11334445555555421000 13467999999999999865411 25677777
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEE
Q 006547 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (641)
Q Consensus 277 sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~ 356 (641)
.|.++ . -..+.+..+.+.+|.+.++.++.+...-..|..+++.|||..+
T Consensus 108 DG~~~---------~----------------------~~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~ 156 (172)
T PF13519_consen 108 DGEDN---------S----------------------SDIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGRYF 156 (172)
T ss_dssp S-TTH---------C----------------------HHHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEEEE
T ss_pred CCCCC---------c----------------------chhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCEEE
Confidence 76433 0 0013666778899999999888777656789999999999977
Q ss_pred Ee
Q 006547 357 LY 358 (641)
Q Consensus 357 ~~ 358 (641)
..
T Consensus 157 ~~ 158 (172)
T PF13519_consen 157 HV 158 (172)
T ss_dssp EE
T ss_pred Ee
Confidence 76
No 32
>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=98.08 E-value=0.00011 Score=70.88 Aligned_cols=158 Identities=16% Similarity=0.099 Sum_probs=89.7
Q ss_pred EEEEEEECCCChh-HHHHHHHHHHHHHHhC-CCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcccc
Q 006547 123 VYVAAVDLSSSEE-FLELTRSALQAALEAV-PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVMP 200 (641)
Q Consensus 123 ~~vFvID~s~~~~-~l~~~~~~l~~~l~~l-p~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~~p 200 (641)
-.+|+||+|.+.+ ......+.++..++.+ .++.|||+|+|++..+..- ++.+
T Consensus 6 Dvv~llD~SgSm~~~~~~~~~~~~~l~~~~~~~~~rvglv~Fs~~~~~~~-----------------------~l~~--- 59 (185)
T cd01474 6 DLYFVLDKSGSVAANWIEIYDFVEQLVDRFNSPGLRFSFITFSTRATKIL-----------------------PLTD--- 59 (185)
T ss_pred eEEEEEeCcCchhhhHHHHHHHHHHHHHHcCCCCcEEEEEEecCCceEEE-----------------------eccc---
Confidence 4789999999863 2223345555555543 3568999999998654310 0100
Q ss_pred ccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhc--cccCCCcccceEEEEecC
Q 006547 201 LSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLG--SEYGNTFALARVFAFLSG 278 (641)
Q Consensus 201 ~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~--~~~~~~~~~GkIi~F~sg 278 (641)
..+.+.+.++.|..... .+++.+|.||+.|.+.+. ..++... .-.|++++.|
T Consensus 60 ----------~~~~~~~~l~~l~~~~~---------------~g~T~~~~aL~~a~~~l~~~~~~~r~~-~~~villTDG 113 (185)
T cd01474 60 ----------DSSAIIKGLEVLKKVTP---------------SGQTYIHEGLENANEQIFNRNGGGRET-VSVIIALTDG 113 (185)
T ss_pred ----------cHHHHHHHHHHHhccCC---------------CCCCcHHHHHHHHHHHHHhhccCCCCC-CeEEEEEcCC
Confidence 11123444555543311 135789999999998773 2222110 1347888888
Q ss_pred CCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEE-E
Q 006547 279 PPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF-L 357 (641)
Q Consensus 279 ~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~-~ 357 (641)
.++-..+.- -.+.+..+.+.|+.|-.+.. ...+..+|..++..++ .+| .
T Consensus 114 ~~~~~~~~~---------------------------~~~~a~~l~~~gv~i~~vgv--~~~~~~~L~~iA~~~~-~~f~~ 163 (185)
T cd01474 114 QLLLNGHKY---------------------------PEHEAKLSRKLGAIVYCVGV--TDFLKSQLINIADSKE-YVFPV 163 (185)
T ss_pred CcCCCCCcc---------------------------hHHHHHHHHHcCCEEEEEee--chhhHHHHHHHhCCCC-eeEec
Confidence 764211100 01234566667886555544 6678899999998775 444 2
Q ss_pred eCCCC
Q 006547 358 YSSTD 362 (641)
Q Consensus 358 ~~~~~ 362 (641)
..+|+
T Consensus 164 ~~~~~ 168 (185)
T cd01474 164 TSGFQ 168 (185)
T ss_pred CccHH
Confidence 33453
No 33
>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=98.01 E-value=0.00019 Score=69.28 Aligned_cols=150 Identities=17% Similarity=0.059 Sum_probs=91.3
Q ss_pred EEEEEECCCCh--hH-HHHHHHHHHHHHHhCC---CCcEEEEEeecceEEE-EEccCCccceeeEeeCCCCCcccchhhh
Q 006547 124 YVAAVDLSSSE--EF-LELTRSALQAALEAVP---SGALFGLATFSHKIGL-YDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (641)
Q Consensus 124 ~vFvID~s~~~--~~-l~~~~~~l~~~l~~lp---~~~~VgiItfd~~V~~-~~l~~~~~~~~~v~~~~~~~~~~~~dl~ 196 (641)
++|+||+|.+. .. ++.+++.+...++.++ ++.+||+|+|++..+. +++...
T Consensus 3 v~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~~~l~~~---------------------- 60 (186)
T cd01471 3 LYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELIRLSSP---------------------- 60 (186)
T ss_pred EEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEEEECCCc----------------------
Confidence 68999999985 33 7788998888888774 6789999999987653 222110
Q ss_pred ccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccc-cCCCcccceEEEE
Q 006547 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE-YGNTFALARVFAF 275 (641)
Q Consensus 197 d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~-~~~~~~~GkIi~F 275 (641)
....++.+.++++.+.... .. .+++.++.||..|.+.+... +........|+++
T Consensus 61 -----------~~~~~~~~~~~i~~l~~~~-~~-------------~G~T~l~~aL~~a~~~l~~~~~~r~~~~~~vill 115 (186)
T cd01471 61 -----------NSTNKDLALNAIRALLSLY-YP-------------NGSTNTTSALLVVEKHLFDTRGNRENAPQLVIIM 115 (186)
T ss_pred -----------cccchHHHHHHHHHHHhCc-CC-------------CCCccHHHHHHHHHHHhhccCCCcccCceEEEEE
Confidence 0112233334444443221 00 13578999999999988653 1111012468888
Q ss_pred ecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccc
Q 006547 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (641)
Q Consensus 276 ~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~ 350 (641)
+.|.++-++.. .+.++++.+.|+.+-++.++ ...|...|..|+..
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 88876532110 12456666778766666554 34777777777654
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=97.91 E-value=0.00058 Score=65.39 Aligned_cols=159 Identities=16% Similarity=0.165 Sum_probs=97.7
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc
Q 006547 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (641)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp---~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~ 198 (641)
.+|+||.|.+. ..++.+++.++..++.+. +++|||+|+|++..++.- ++.+.
T Consensus 3 i~fvlD~S~S~~~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~~~~-----------------------~l~~~ 59 (177)
T cd01469 3 IVFVLDGSGSIYPDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFRTEF-----------------------TLNEY 59 (177)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCceeEEE-----------------------ecCcc
Confidence 58999999985 468888988888888774 478999999999765320 11110
Q ss_pred ccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhc--cccCCCcccceEEEEe
Q 006547 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLG--SEYGNTFALARVFAFL 276 (641)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~--~~~~~~~~~GkIi~F~ 276 (641)
. +...+.++++.++... +.+.+|.||+.|.+.+- ..|.......-+++++
T Consensus 60 ----------~-~~~~~~~~i~~~~~~~-----------------g~T~~~~AL~~a~~~l~~~~~g~R~~~~kv~illT 111 (177)
T cd01469 60 ----------R-TKEEPLSLVKHISQLL-----------------GLTNTATAIQYVVTELFSESNGARKDATKVLVVIT 111 (177)
T ss_pred ----------C-CHHHHHHHHHhCccCC-----------------CCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEe
Confidence 0 1223344555554321 23679999999988762 2221100113577777
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCc---cChhcccccccccce
Q 006547 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEY---TDLASLKFLSIESGG 353 (641)
Q Consensus 277 sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~---~~l~~l~~l~~~TGG 353 (641)
.|..+-|+- .++.+..+.+.||.|-.+..+... .+..+|..++..+++
T Consensus 112 DG~~~~~~~-----------------------------~~~~~~~~k~~gv~v~~Vgvg~~~~~~~~~~~L~~ias~p~~ 162 (177)
T cd01469 112 DGESHDDPL-----------------------------LKDVIPQAEREGIIRYAIGVGGHFQRENSREELKTIASKPPE 162 (177)
T ss_pred CCCCCCccc-----------------------------cHHHHHHHHHCCcEEEEEEecccccccccHHHHHHHhcCCcH
Confidence 776543210 023555666788876666655432 346888888888764
Q ss_pred -EEEEeCCCC
Q 006547 354 -SLFLYSSTD 362 (641)
Q Consensus 354 -~v~~~~~~~ 362 (641)
++|..++|+
T Consensus 163 ~h~f~~~~~~ 172 (177)
T cd01469 163 EHFFNVTDFA 172 (177)
T ss_pred HhEEEecCHH
Confidence 555566553
No 35
>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=97.86 E-value=0.00067 Score=64.02 Aligned_cols=151 Identities=25% Similarity=0.264 Sum_probs=91.1
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhC---CCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc
Q 006547 124 YVAAVDLSSSE--EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (641)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~l---p~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~ 198 (641)
.+|++|.|.+. ..++.+++.++..++.+ +++.+||+|+|++..+..- ++.+
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 35777888888887765 4678999999999754310 0111
Q ss_pred ccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHh-hccccC-CCcccceEEEEe
Q 006547 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNY-LGSEYG-NTFALARVFAFL 276 (641)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~-l~~~~~-~~~~~GkIi~F~ 276 (641)
+ . +++.+.+.|++++.. .+++.+|.||..|... +....+ .......|++|+
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 223344455555421 0346799999977754 332111 100113588888
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccce-EE
Q 006547 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGG-SL 355 (641)
Q Consensus 277 sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG-~v 355 (641)
.|.++- -.++.+.++.+.||- +|+.+....+...|..++..+.+ .+
T Consensus 112 DG~~~~-------------------------------~~~~~a~~lk~~gi~--i~~ig~g~~~~~~L~~ia~~~~~~~~ 158 (164)
T cd01482 112 DGKSQD-------------------------------DVELPARVLRNLGVN--VFAVGVKDADESELKMIASKPSETHV 158 (164)
T ss_pred CCCCCc-------------------------------hHHHHHHHHHHCCCE--EEEEecCcCCHHHHHHHhCCCchheE
Confidence 876431 013466777777875 45444454668888888888654 34
Q ss_pred EEe
Q 006547 356 FLY 358 (641)
Q Consensus 356 ~~~ 358 (641)
+..
T Consensus 159 ~~~ 161 (164)
T cd01482 159 FNV 161 (164)
T ss_pred EEc
Confidence 433
No 36
>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=97.85 E-value=0.00052 Score=68.38 Aligned_cols=156 Identities=22% Similarity=0.279 Sum_probs=98.2
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHHHhC---CCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhc
Q 006547 123 VYVAAVDLSSSE--EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (641)
Q Consensus 123 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~l---p~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d 197 (641)
-.+|+||.|.+. ..++.+++.++..++.+ |+.+|||+|+|++.+++. + ++.+
T Consensus 4 DlvfllD~S~Sm~~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~~~------------~-----------~l~~ 60 (224)
T cd01475 4 DLVFLIDSSRSVRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQE------------F-----------PLGR 60 (224)
T ss_pred cEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcccCCCccEEEEEEecCceeEE------------e-----------cccc
Confidence 478999999985 46888999999888876 357899999999976542 0 1110
Q ss_pred cccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhh-ccccC-CCcc---cceE
Q 006547 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYL-GSEYG-NTFA---LARV 272 (641)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l-~~~~~-~~~~---~GkI 272 (641)
+ .+++.+.+.|+.++... .++.+|.||..|...+ ....+ .... ...|
T Consensus 61 ------~-----~~~~~l~~~i~~i~~~~-----------------~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvv 112 (224)
T cd01475 61 ------F-----KSKADLKRAVRRMEYLE-----------------TGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVG 112 (224)
T ss_pred ------c-----CCHHHHHHHHHhCcCCC-----------------CCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEE
Confidence 0 12344556666665431 2356899999888653 21111 1000 1235
Q ss_pred EEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccc
Q 006547 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESG 352 (641)
Q Consensus 273 i~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TG 352 (641)
++++.|.++- -.++.+.++.+.||.| |+.+-...|..+|..++..++
T Consensus 113 illTDG~s~~-------------------------------~~~~~a~~lk~~gv~i--~~VgvG~~~~~~L~~ias~~~ 159 (224)
T cd01475 113 IVVTDGRPQD-------------------------------DVSEVAAKARALGIEM--FAVGVGRADEEELREIASEPL 159 (224)
T ss_pred EEEcCCCCcc-------------------------------cHHHHHHHHHHCCcEE--EEEeCCcCCHHHHHHHhCCCc
Confidence 7777775320 0235677777788755 544444578889999998765
Q ss_pred e-EEEEeCCCC
Q 006547 353 G-SLFLYSSTD 362 (641)
Q Consensus 353 G-~v~~~~~~~ 362 (641)
+ .++...+|+
T Consensus 160 ~~~~f~~~~~~ 170 (224)
T cd01475 160 ADHVFYVEDFS 170 (224)
T ss_pred HhcEEEeCCHH
Confidence 4 666666664
No 37
>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=97.82 E-value=0.00097 Score=76.35 Aligned_cols=184 Identities=17% Similarity=0.218 Sum_probs=111.3
Q ss_pred CCcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhc
Q 006547 120 ARPVYVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (641)
Q Consensus 120 ~~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d 197 (641)
.+.-++|+||+|.++ ..++.+++++..+|..|+++.+++||+|++.++.+.- .. .
T Consensus 270 ~p~~vvfvlD~SgSM~g~~i~~ak~al~~~l~~L~~~d~~~ii~F~~~~~~~~~--~~---------------~------ 326 (596)
T TIGR03788 270 LPRELVFVIDTSGSMAGESIEQAKSALLLALDQLRPGDRFNIIQFDSDVTLLFP--VP---------------V------ 326 (596)
T ss_pred CCceEEEEEECCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEECCcceEecc--cc---------------c------
Confidence 345699999999986 4577889999999999999999999999998765410 00 0
Q ss_pred cccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEec
Q 006547 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (641)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~s 277 (641)
+. -.+....+...++.|... +++.+..||+.|+......+... ...|++++.
T Consensus 327 --~~------~~~~~~~a~~~i~~l~a~------------------GgT~l~~aL~~a~~~~~~~~~~~--~~~iillTD 378 (596)
T TIGR03788 327 --PA------TAHNLARARQFVAGLQAD------------------GGTEMAGALSAALRDDGPESSGA--LRQVVFLTD 378 (596)
T ss_pred --cC------CHHHHHHHHHHHhhCCCC------------------CCccHHHHHHHHHHhhcccCCCc--eeEEEEEeC
Confidence 00 011223333445554321 34679999999987643322111 247999998
Q ss_pred CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEE
Q 006547 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (641)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~ 357 (641)
|..+- + ....+.+. ....++.+..|.++. ..+-..|..||+.+||..++
T Consensus 379 G~~~~--------~--------------------~~~~~~~~--~~~~~~ri~tvGiG~-~~n~~lL~~lA~~g~G~~~~ 427 (596)
T TIGR03788 379 GAVGN--------E--------------------DALFQLIR--TKLGDSRLFTVGIGS-APNSYFMRKAAQFGRGSFTF 427 (596)
T ss_pred CCCCC--------H--------------------HHHHHHHH--HhcCCceEEEEEeCC-CcCHHHHHHHHHcCCCEEEE
Confidence 85210 0 01112221 122356666666654 36778899999999998666
Q ss_pred eCCCCCCchhHH---HHHHhccCccceeEEEEe
Q 006547 358 YSSTDDSTLPQD---IYRMLSRPYAFNCIMRLR 387 (641)
Q Consensus 358 ~~~~~~~~l~~d---l~~~l~~~~~~~a~~rvr 387 (641)
..+- ..+... +...+..+..-+..+++.
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 233322 333344555666666664
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=97.81 E-value=0.00083 Score=62.50 Aligned_cols=148 Identities=22% Similarity=0.273 Sum_probs=97.5
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc
Q 006547 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (641)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp---~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~ 198 (641)
.+|++|+|.+. ..++.+++++...+..+. ++.++|+++|++.....- ++.+
T Consensus 3 i~~llD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~~~-----------------------~~~~- 58 (161)
T cd01450 3 IVFLLDGSESVGPENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEF-----------------------SLND- 58 (161)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceEEE-----------------------ECCC-
Confidence 56899999986 357788888888887664 478999999998543210 0000
Q ss_pred ccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccC-CCcccceEEEEec
Q 006547 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYG-NTFALARVFAFLS 277 (641)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~-~~~~~GkIi~F~s 277 (641)
. . .++.+.+.++.+..... ..+.++.||..|.+.+....+ .......|++|+.
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 23444555555543210 146799999999998875431 0001257899999
Q ss_pred CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccc
Q 006547 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESG 352 (641)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TG 352 (641)
|.++.++ + ..++.+.+.+.++.|..+..+. .+...|..|+..||
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 9876643 0 1356667777788888887755 78888999998883
No 39
>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=97.80 E-value=0.00071 Score=65.65 Aligned_cols=47 Identities=21% Similarity=0.213 Sum_probs=36.7
Q ss_pred cEEEEEEECCCCh--hHHHHHHHHHHHHHHhC---------CCCcEEEEEeecceEEE
Q 006547 122 PVYVAAVDLSSSE--EFLELTRSALQAALEAV---------PSGALFGLATFSHKIGL 168 (641)
Q Consensus 122 p~~vFvID~s~~~--~~l~~~~~~l~~~l~~l---------p~~~~VgiItfd~~V~~ 168 (641)
-=.||+||.|.+. ..++.+++.+...+..+ |+++|||+|+|++..++
T Consensus 20 ~DivfvlD~S~Sm~~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~ 77 (193)
T cd01477 20 LDIVFVVDNSKGMTQGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATV 77 (193)
T ss_pred eeEEEEEeCCCCcchhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEE
Confidence 3589999999984 56788888887766543 44689999999997654
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=97.72 E-value=0.001 Score=75.57 Aligned_cols=177 Identities=13% Similarity=0.111 Sum_probs=112.9
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHh-CCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhc
Q 006547 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEA-VPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (641)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~-lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d 197 (641)
.-.++|+||+|.++ ..++.+|.++...+.. +.++.+||+|+|++...-+ .+
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 34688999999987 3588888888887764 4566799999998643111 11
Q ss_pred cccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEec
Q 006547 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (641)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~s 277 (641)
|. ......+...|+.|+.. +++.++.||..|.+.+....... .--.|++++.
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 00122233456555432 34679999999998886432110 0137999999
Q ss_pred CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEE
Q 006547 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (641)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~ 357 (641)
|.+|.|-+.....+. . + ..+..+-...++..+.+.||.+=+.-+...+.+..-+..|++..||..++
T Consensus 513 G~~nv~~~~~~~~~~--~------~-----~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~y~~ 579 (589)
T TIGR02031 513 GRGNIPLDGDPESIK--A------D-----REQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAHYIY 579 (589)
T ss_pred CCCCCCCCccccccc--c------c-----chhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCcEEe
Confidence 999987532110000 0 0 01122233567888888998777766666667666688999999999998
Q ss_pred eCCCCCC
Q 006547 358 YSSTDDS 364 (641)
Q Consensus 358 ~~~~~~~ 364 (641)
.++-+..
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=97.71 E-value=0.0014 Score=73.93 Aligned_cols=175 Identities=15% Similarity=0.134 Sum_probs=111.8
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHh-CCCCcEEEEEeecce-EEEEEccCCccceeeEeeCCCCCcccchhhh
Q 006547 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEA-VPSGALFGLATFSHK-IGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (641)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~-lp~~~~VgiItfd~~-V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~ 196 (641)
+-.++|+||+|.++ ..+..+|.++...|+. +.++.+||+|+|+.. ..+ .+
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 45789999999987 5678889888888854 567789999999764 321 11
Q ss_pred ccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEe
Q 006547 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFL 276 (641)
Q Consensus 197 d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~ 276 (641)
|. ..+...+...|+.|+.. +++.++.||..|.+++....... .--.|++++
T Consensus 455 ---pp-------T~~~~~~~~~L~~l~~g------------------GgTpL~~gL~~A~~~l~~~~~~~-~~~~iVLlT 505 (584)
T PRK13406 455 ---PP-------TRSLVRAKRSLAGLPGG------------------GGTPLAAGLDAAAALALQVRRKG-MTPTVVLLT 505 (584)
T ss_pred ---CC-------CcCHHHHHHHHhcCCCC------------------CCChHHHHHHHHHHHHHHhccCC-CceEEEEEe
Confidence 10 00122333445555431 35679999999998875432110 015899999
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEE
Q 006547 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (641)
Q Consensus 277 sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~ 356 (641)
.|.+|.|-+.-..++.. ..+ =..++..+.+.+|.+=++-+.... ...+..||+.+||..+
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 034677777888876666555443 3457899999999999
Q ss_pred EeCCCCCCchhHHH
Q 006547 357 LYSSTDDSTLPQDI 370 (641)
Q Consensus 357 ~~~~~~~~~l~~dl 370 (641)
..+.-+...+.+-+
T Consensus 566 ~l~~~~a~~~~~~v 579 (584)
T PRK13406 566 PLPRADAGRLSQAV 579 (584)
T ss_pred ECCCCCHHHHHHHH
Confidence 99887765555433
No 42
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=97.68 E-value=0.0015 Score=72.10 Aligned_cols=165 Identities=14% Similarity=0.095 Sum_probs=95.6
Q ss_pred CcEEEEEEECCCChh---HHHHHHHHHHHHHHhC---CCCcEEEEEeecceEEE-EEccCCccceeeEeeCCCCCcccch
Q 006547 121 RPVYVAAVDLSSSEE---FLELTRSALQAALEAV---PSGALFGLATFSHKIGL-YDVQGAIPVVKNVFIPSDTEDTLSL 193 (641)
Q Consensus 121 ~p~~vFvID~s~~~~---~l~~~~~~l~~~l~~l---p~~~~VgiItfd~~V~~-~~l~~~~~~~~~v~~~~~~~~~~~~ 193 (641)
.--.+|+||+|.+.+ +++.++..+...+..+ ++..+||+++|++..+. +.+....
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 346899999999863 3566777777777766 35689999999987542 2221100
Q ss_pred hhhccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEE
Q 006547 194 ELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVF 273 (641)
Q Consensus 194 dl~d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi 273 (641)
...++.+...|..|.... .. .+++.+|.||..|...+...+......+.||
T Consensus 104 ---------------s~Dk~~aL~~I~sL~~~~-~p-------------gGgTnig~AL~~Aae~L~sr~~R~nvpKVVI 154 (576)
T PTZ00441 104 ---------------SKDKEQALIIVKSLRKTY-LP-------------YGKTNMTDALLEVRKHLNDRVNRENAIQLVI 154 (576)
T ss_pred ---------------cccHHHHHHHHHHHHhhc-cC-------------CCCccHHHHHHHHHHHHhhcccccCCceEEE
Confidence 001223333444443210 00 1346799999988888765432111236788
Q ss_pred EEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccc----c
Q 006547 274 AFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLS----I 349 (641)
Q Consensus 274 ~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~----~ 349 (641)
+|+.|.++-+. +- .+.+.++.+.||.|-++..+ +..+...+..++ .
T Consensus 155 LLTDG~sns~~----------------------------dv-leaAq~LR~~GVeI~vIGVG-~g~n~e~LrlIAgC~p~ 204 (576)
T PTZ00441 155 LMTDGIPNSKY----------------------------RA-LEESRKLKDRNVKLAVIGIG-QGINHQFNRLLAGCRPR 204 (576)
T ss_pred EEecCCCCCcc----------------------------cH-HHHHHHHHHCCCEEEEEEeC-CCcCHHHHHHHhccCCC
Confidence 88888753210 00 13456677788866665554 346655555555 3
Q ss_pred ccceEEEEeCCCC
Q 006547 350 ESGGSLFLYSSTD 362 (641)
Q Consensus 350 ~TGG~v~~~~~~~ 362 (641)
.++|.+|...+|+
T Consensus 205 ~g~c~~Y~vadf~ 217 (576)
T PTZ00441 205 EGKCKFYSDADWE 217 (576)
T ss_pred CCCCceEEeCCHH
Confidence 3455666666774
No 43
>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=97.65 E-value=0.0022 Score=60.58 Aligned_cols=154 Identities=19% Similarity=0.212 Sum_probs=93.4
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc
Q 006547 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (641)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp---~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~ 198 (641)
.+|+||.|.+- ..++.+++-++..++.++ +.+|||+|+|++..+.. | ++.+
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 578888998988888774 67899999999865431 0 1111
Q ss_pred ccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhh-ccccCCCcc-c-ce-EEE
Q 006547 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYL-GSEYGNTFA-L-AR-VFA 274 (641)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l-~~~~~~~~~-~-Gk-Ii~ 274 (641)
+ . +++.+.+.+++++-... ..+.+|.||+.+.+.+ ....|.... + =| +++
T Consensus 59 -----~----~-~~~~l~~~i~~i~~~~g----------------~~t~t~~AL~~~~~~~f~~~~g~R~~~~~~kv~vv 112 (165)
T cd01481 59 -----H----S-TKADVLGAVRRLRLRGG----------------SQLNTGSALDYVVKNLFTKSAGSRIEEGVPQFLVL 112 (165)
T ss_pred -----c----C-CHHHHHHHHHhcccCCC----------------CcccHHHHHHHHHHhhcCccccCCccCCCCeEEEE
Confidence 0 0 23445556666543210 1246899999877644 332221100 0 13 456
Q ss_pred EecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceE
Q 006547 275 FLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGS 354 (641)
Q Consensus 275 F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~ 354 (641)
++.|..+ + -..+-|..+.+.|| .+|..+....|..+|..++..- -.
T Consensus 113 iTdG~s~---------d----------------------~~~~~a~~lr~~gv--~i~~vG~~~~~~~eL~~ias~p-~~ 158 (165)
T cd01481 113 ITGGKSQ---------D----------------------DVERPAVALKRAGI--VPFAIGARNADLAELQQIAFDP-SF 158 (165)
T ss_pred EeCCCCc---------c----------------------hHHHHHHHHHHCCc--EEEEEeCCcCCHHHHHHHhCCC-cc
Confidence 7666421 0 12355677777775 5677666668888888888655 35
Q ss_pred EEEeCCC
Q 006547 355 LFLYSST 361 (641)
Q Consensus 355 v~~~~~~ 361 (641)
++..++|
T Consensus 159 vf~v~~f 165 (165)
T cd01481 159 VFQVSDF 165 (165)
T ss_pred EEEecCC
Confidence 5555443
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=97.61 E-value=0.00096 Score=63.25 Aligned_cols=158 Identities=21% Similarity=0.266 Sum_probs=94.1
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhC---CCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc
Q 006547 124 YVAAVDLSSSE--EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (641)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~l---p~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~ 198 (641)
.+|+||.|.+. ..++.+++.+...++.+ +.+.|||+|+|++..+.+- ++.+
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 35888999999998855 5688999999999876321 1100
Q ss_pred ccccccccchHhhHHHHHHHH-HhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccc--cCCCcccceEEEE
Q 006547 199 MPLSQFLAPVETFKENITSAL-ETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE--YGNTFALARVFAF 275 (641)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~lL-~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~--~~~~~~~GkIi~F 275 (641)
......+.+.+ ..++.. .+.+.+|.||+.|...+... |+......-++++
T Consensus 58 ----------~~~~~~~~~~i~~~~~~~-----------------~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~iili 110 (178)
T PF00092_consen 58 ----------YQSKNDLLNAINDSIPSS-----------------GGGTNLGAALKFAREQLFSSNNGGRPNSPKVIILI 110 (178)
T ss_dssp ----------HSSHHHHHHHHHTTGGCC-----------------BSSB-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEE
T ss_pred ----------cccccccccccccccccc-----------------chhhhHHHHHhhhhhcccccccccccccccceEEE
Confidence 00112222233 333221 13567999999999998654 1111112457777
Q ss_pred ecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccc--cce
Q 006547 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE--SGG 353 (641)
Q Consensus 276 ~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~--TGG 353 (641)
+.|.++.++-. ...+..+.+. ..+.+|+.+.+..+..+|..|+.. .+|
T Consensus 111 TDG~~~~~~~~-----------------------------~~~~~~~~~~-~~i~~~~ig~~~~~~~~l~~la~~~~~~~ 160 (178)
T PF00092_consen 111 TDGNSNDSDSP-----------------------------SEEAANLKKS-NGIKVIAIGIDNADNEELRELASCPTSEG 160 (178)
T ss_dssp ESSSSSSHSGH-----------------------------HHHHHHHHHH-CTEEEEEEEESCCHHHHHHHHSHSSTCHH
T ss_pred EeecccCCcch-----------------------------HHHHHHHHHh-cCcEEEEEecCcCCHHHHHHHhCCCCCCC
Confidence 77765432110 1112222221 455677666667888889999955 447
Q ss_pred EEEEeCCCC
Q 006547 354 SLFLYSSTD 362 (641)
Q Consensus 354 ~v~~~~~~~ 362 (641)
.+++..+++
T Consensus 161 ~~~~~~~~~ 169 (178)
T PF00092_consen 161 HVFYLADFS 169 (178)
T ss_dssp HEEEESSHH
T ss_pred cEEEcCCHH
Confidence 777777653
No 45
>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=97.49 E-value=0.009 Score=56.28 Aligned_cols=155 Identities=23% Similarity=0.207 Sum_probs=101.5
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHHHhCCC---CcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhc
Q 006547 123 VYVAAVDLSSSE--EFLELTRSALQAALEAVPS---GALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (641)
Q Consensus 123 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~---~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d 197 (641)
-++|+||+|.+. ..++.+++.+...+..+.. +.+||+++|++..+.+.- ..
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 5678888888888887765 889999999994432210 00
Q ss_pred cccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccc--cCCCcccceEEEE
Q 006547 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE--YGNTFALARVFAF 275 (641)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~--~~~~~~~GkIi~F 275 (641)
.....+.+.+.++.+... . ....-++.|+..|...+... .......-.|++|
T Consensus 59 ----------~~~~~~~~~~~i~~~~~~--~--------------~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~ivii 112 (177)
T smart00327 59 ----------DSRSKDALLEALASLSYK--L--------------GGGTNLGAALQYALENLFSKSAGSRRGAPKVLILI 112 (177)
T ss_pred ----------ccCCHHHHHHHHHhcCCC--C--------------CCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEE
Confidence 011234455566665431 0 02356899999999887521 1100001367777
Q ss_pred ecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEE
Q 006547 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSL 355 (641)
Q Consensus 276 ~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v 355 (641)
+.|.++.+ ..+.+...++.+.+|.+..+.++... +...+..++..++|..
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 77776543 12356777888888888888776543 7788999999999886
Q ss_pred EE
Q 006547 356 FL 357 (641)
Q Consensus 356 ~~ 357 (641)
.+
T Consensus 163 ~~ 164 (177)
T smart00327 163 VF 164 (177)
T ss_pred Ee
Confidence 55
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=97.46 E-value=0.0026 Score=73.20 Aligned_cols=160 Identities=16% Similarity=0.187 Sum_probs=103.2
Q ss_pred CcEEEEEEECCCCh---hHHHHHHHHHHHHHH-hCCCCcEEEEEeecce-EEEEEccCCccceeeEeeCCCCCcccchhh
Q 006547 121 RPVYVAAVDLSSSE---EFLELTRSALQAALE-AVPSGALFGLATFSHK-IGLYDVQGAIPVVKNVFIPSDTEDTLSLEL 195 (641)
Q Consensus 121 ~p~~vFvID~s~~~---~~l~~~~~~l~~~l~-~lp~~~~VgiItfd~~-V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl 195 (641)
.-.++|+||+|.++ ..++.++.++...+. .+..+.+||+|+|+.. ..+ .+
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 34688999999987 356777887777665 4456789999999753 211 11
Q ss_pred hccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhcc---ccCCCcccceE
Q 006547 196 EDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGS---EYGNTFALARV 272 (641)
Q Consensus 196 ~d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~---~~~~~~~~GkI 272 (641)
| .......+...|+.|+.. +++.++.||..|...+.. .++. ..+.|
T Consensus 520 ----p-------~t~~~~~~~~~L~~l~~g------------------G~Tpl~~aL~~A~~~l~~~~~~~~~--~~~~v 568 (633)
T TIGR02442 520 ----P-------PTSSVELAARRLEELPTG------------------GRTPLAAGLLKAAEVLSNELLRDDD--GRPLL 568 (633)
T ss_pred ----C-------CCCCHHHHHHHHHhCCCC------------------CCCCHHHHHHHHHHHHHHhhccCCC--CceEE
Confidence 1 011223334456555431 346789999999988873 1110 12689
Q ss_pred EEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccc
Q 006547 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESG 352 (641)
Q Consensus 273 i~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TG 352 (641)
++++.|.+|.|.+. .+ +..+ -..++..+.+.||.+.+.-+...+++..-+..||+.+|
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 99999999886211 00 0001 14567777777877666655556677778899999999
Q ss_pred eEEEEe
Q 006547 353 GSLFLY 358 (641)
Q Consensus 353 G~v~~~ 358 (641)
|..+..
T Consensus 627 g~y~~l 632 (633)
T TIGR02442 627 GEYVRL 632 (633)
T ss_pred CeEEec
Confidence 997653
No 47
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.34 E-value=0.0062 Score=60.25 Aligned_cols=170 Identities=16% Similarity=0.146 Sum_probs=110.1
Q ss_pred cEEEEEEECCCCh---hHHHHHHHHHHHHHH-hCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhc
Q 006547 122 PVYVAAVDLSSSE---EFLELTRSALQAALE-AVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (641)
Q Consensus 122 p~~vFvID~s~~~---~~l~~~~~~l~~~l~-~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d 197 (641)
--+||+||.|.+. ..++++|-++...|. .-..+-+|++|+|...= ..+++
T Consensus 79 ~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq~RdkvavI~F~G~~------------A~lll-------------- 132 (261)
T COG1240 79 NLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQRRDKVAVIAFRGEK------------AELLL-------------- 132 (261)
T ss_pred CcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHHccceEEEEEecCCc------------ceEEe--------------
Confidence 4589999999986 457778877777765 44567899999997420 01222
Q ss_pred cccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCC-cccceEEEEe
Q 006547 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNT-FALARVFAFL 276 (641)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~-~~~GkIi~F~ 276 (641)
|...+-+.+.+.|+.|+.- +++=+..||..|..++....... ..--.+++.+
T Consensus 133 ---------~pT~sv~~~~~~L~~l~~G------------------G~TPL~~aL~~a~ev~~r~~r~~p~~~~~~vviT 185 (261)
T COG1240 133 ---------PPTSSVELAERALERLPTG------------------GKTPLADALRQAYEVLAREKRRGPDRRPVMVVIT 185 (261)
T ss_pred ---------CCcccHHHHHHHHHhCCCC------------------CCCchHHHHHHHHHHHHHhhccCCCcceEEEEEe
Confidence 1122334556677777643 23448999999999987554100 0124789999
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEE
Q 006547 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (641)
Q Consensus 277 sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~ 356 (641)
.|.||.+.+.=+..+ -.+.+.++...|+-+=+.-+-..++.+.-...||...||..+
T Consensus 186 DGr~n~~~~~~~~~e-----------------------~~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~~ 242 (261)
T COG1240 186 DGRANVPIPLGPKAE-----------------------TLEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEYY 242 (261)
T ss_pred CCccCCCCCCchHHH-----------------------HHHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeEE
Confidence 999888754321110 023555566666655555555666666667899999999999
Q ss_pred EeCCCCCCchh
Q 006547 357 LYSSTDDSTLP 367 (641)
Q Consensus 357 ~~~~~~~~~l~ 367 (641)
+.+......+.
T Consensus 243 ~L~~l~~~~i~ 253 (261)
T COG1240 243 HLDDLSDDSIV 253 (261)
T ss_pred ecccccchHHH
Confidence 99877655444
No 48
>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=97.34 E-value=0.012 Score=55.14 Aligned_cols=107 Identities=19% Similarity=0.198 Sum_probs=65.7
Q ss_pred EEEEEECCCCh-hHHHHHHHHHHHHHHhCC---CCcEEEEEeecce--EEEEEccCCccceeeEeeCCCCCcccchhhhc
Q 006547 124 YVAAVDLSSSE-EFLELTRSALQAALEAVP---SGALFGLATFSHK--IGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (641)
Q Consensus 124 ~vFvID~s~~~-~~l~~~~~~l~~~l~~lp---~~~~VgiItfd~~--V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d 197 (641)
++|++|+|.+. +.++..++.+++.++.+. +..+||+|+|++. .++.- .+.+
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 445667788888887764 4789999999883 33210 0100
Q ss_pred cccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccC-CCcccceEEEEe
Q 006547 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYG-NTFALARVFAFL 276 (641)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~-~~~~~GkIi~F~ 276 (641)
...++.+.+.++.|+... ..+.+|.||..|.+.+....+ .......|++++
T Consensus 60 -----------~~~~~~l~~~i~~l~~~g-----------------g~T~l~~aL~~a~~~l~~~~~~r~~~~~~villT 111 (163)
T cd01476 60 -----------HNDGEELLEKVDNLRFIG-----------------GTTATGAAIEVALQQLDPSEGRREGIPKVVVVLT 111 (163)
T ss_pred -----------CCCHHHHHHHHHhCccCC-----------------CCccHHHHHHHHHHHhccccCCCCCCCeEEEEEC
Confidence 012334555666654210 246799999999999852211 000014688888
Q ss_pred cCCCC
Q 006547 277 SGPPD 281 (641)
Q Consensus 277 sg~pt 281 (641)
.|.++
T Consensus 112 DG~~~ 116 (163)
T cd01476 112 DGRSH 116 (163)
T ss_pred CCCCC
Confidence 87654
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=97.34 E-value=0.0082 Score=55.08 Aligned_cols=149 Identities=23% Similarity=0.298 Sum_probs=95.3
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHHHhCCC---CcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhc
Q 006547 123 VYVAAVDLSSSE--EFLELTRSALQAALEAVPS---GALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (641)
Q Consensus 123 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~---~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d 197 (641)
.++|+||+|.+. ..++.+++++...+..++. ..++|++.|+...+.+- .+.+
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 6788889999988888875 78999999998432210 0000
Q ss_pred cccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEec
Q 006547 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (641)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~s 277 (641)
. ...+.+...++.+... . .....+..|+..|.+.+...... .....+++|+.
T Consensus 59 ------~-----~~~~~~~~~~~~~~~~--~--------------~~~t~~~~al~~~~~~~~~~~~~-~~~~~lvvitD 110 (161)
T cd00198 59 ------D-----TDKADLLEAIDALKKG--L--------------GGGTNIGAALRLALELLKSAKRP-NARRVIILLTD 110 (161)
T ss_pred ------c-----CCHHHHHHHHHhcccC--C--------------CCCccHHHHHHHHHHHhcccCCC-CCceEEEEEeC
Confidence 0 0223444555555420 0 12456889999999888653100 01257888888
Q ss_pred CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhccccccccc
Q 006547 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (641)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~T 351 (641)
|.++.++ . -.++....+.+.++.+.++.++. ..+-..+..++..|
T Consensus 111 g~~~~~~-----~-----------------------~~~~~~~~~~~~~v~v~~v~~g~-~~~~~~l~~l~~~~ 155 (161)
T cd00198 111 GEPNDGP-----E-----------------------LLAEAARELRKLGITVYTIGIGD-DANEDELKEIADKT 155 (161)
T ss_pred CCCCCCc-----c-----------------------hhHHHHHHHHHcCCEEEEEEcCC-CCCHHHHHHHhccc
Confidence 7765443 0 01345666677799998887765 34556678888877
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=97.24 E-value=0.002 Score=61.56 Aligned_cols=45 Identities=20% Similarity=0.169 Sum_probs=36.0
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC------CCcEEEEEeecceEEE
Q 006547 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP------SGALFGLATFSHKIGL 168 (641)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~lp------~~~~VgiItfd~~V~~ 168 (641)
.+|+||+|.+. ..++.++++++..++.+. ++.+||||+|++..+.
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 57999999986 457788888888887774 3569999999997653
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=97.13 E-value=0.0047 Score=59.36 Aligned_cols=164 Identities=13% Similarity=0.167 Sum_probs=104.2
Q ss_pred EEECCCCh-------hHHHHHHHHHHHHHHhC---CCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhh
Q 006547 127 AVDLSSSE-------EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (641)
Q Consensus 127 vID~s~~~-------~~l~~~~~~l~~~l~~l---p~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~ 196 (641)
|||.|... .+++.+.+.+...++.. +|=+.+|||+.-+.+-- . +.++
T Consensus 1 viD~S~~m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a~------------~----------ls~l- 57 (193)
T PF04056_consen 1 VIDMSEAMREKDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRAE------------R----------LSEL- 57 (193)
T ss_pred CeechHhHHhCcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeecceeE------------E----------eeec-
Confidence 57887764 56777777777777643 34479999998664310 0 1111
Q ss_pred ccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEe
Q 006547 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFL 276 (641)
Q Consensus 197 d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~ 276 (641)
...-....+.|+++.... + .+...+-.||+.|...|+..-+.+ .=.|+++.
T Consensus 58 ------------sgn~~~h~~~L~~~~~~~----~-----------~G~~SLqN~Le~A~~~L~~~p~~~--srEIlvi~ 108 (193)
T PF04056_consen 58 ------------SGNPQEHIEALKKLRKLE----P-----------SGEPSLQNGLEMARSSLKHMPSHG--SREILVIF 108 (193)
T ss_pred ------------CCCHHHHHHHHHHhccCC----C-----------CCChhHHHHHHHHHHHHhhCcccc--ceEEEEEE
Confidence 111122334455544321 1 135679999999999998653211 13788888
Q ss_pred cCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEE
Q 006547 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (641)
Q Consensus 277 sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~ 356 (641)
++.-|..||.+ .+..+.+.+.+|-|++..++. .+.-.+.+|+.|||...
T Consensus 109 gSl~t~Dp~di----------------------------~~ti~~l~~~~IrvsvI~laa---Ev~I~k~i~~~T~G~y~ 157 (193)
T PF04056_consen 109 GSLTTCDPGDI----------------------------HETIESLKKENIRVSVISLAA---EVYICKKICKETGGTYG 157 (193)
T ss_pred eecccCCchhH----------------------------HHHHHHHHHcCCEEEEEEEhH---HHHHHHHHHHhhCCEEE
Confidence 88877777744 367889999999999998876 45668999999999532
Q ss_pred EeCCCCCCchhHHHHHHhc
Q 006547 357 LYSSTDDSTLPQDIYRMLS 375 (641)
Q Consensus 357 ~~~~~~~~~l~~dl~~~l~ 375 (641)
. .-+...|++-|..+..
T Consensus 158 V--~lde~H~~~lL~~~~~ 174 (193)
T PF04056_consen 158 V--ILDEDHFKELLMEHVP 174 (193)
T ss_pred E--ecCHHHHHHHHHhhCC
Confidence 2 2344556665555544
No 52
>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=97.04 E-value=0.028 Score=53.47 Aligned_cols=145 Identities=19% Similarity=0.174 Sum_probs=84.7
Q ss_pred EEEEEEECCCCh---hHHHHHHHHHHHHHHhCCC-CcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhcc
Q 006547 123 VYVAAVDLSSSE---EFLELTRSALQAALEAVPS-GALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (641)
Q Consensus 123 ~~vFvID~s~~~---~~l~~~~~~l~~~l~~lp~-~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~ 198 (641)
.++|+||+|.+. ..++.+++++...++.+.+ +.++|+++|++... ..... .++. ..+.++
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 3688888888877777764 78999999988630 00000 0000 001110
Q ss_pred ccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEecC
Q 006547 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSG 278 (641)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg 278 (641)
.+ ...+...|..+... ..+.+|.||..|...+...... ...|++++.|
T Consensus 66 -----~~------~~~~~~~l~~~~~~------------------g~T~~~~al~~a~~~l~~~~~~---~~~iiliTDG 113 (174)
T cd01454 66 -----SL------HERARKRLAALSPG------------------GNTRDGAAIRHAAERLLARPEK---RKILLVISDG 113 (174)
T ss_pred -----cc------chhHHHHHHccCCC------------------CCCcHHHHHHHHHHHHhcCCCc---CcEEEEEeCC
Confidence 00 01223334443321 2467999999999888643221 2578899999
Q ss_pred CCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHH---HHHHHHcCcEEEEeeecCC
Q 006547 279 PPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDL---AAVAVQAGVCVDIFAITNE 337 (641)
Q Consensus 279 ~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~l---a~~~~~~~isvdlf~~~~~ 337 (641)
.|+.+...-.. ....++. +.++.+.||.+..+..+.+
T Consensus 114 ~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~gi~v~~igig~~ 153 (174)
T cd01454 114 EPNDLDYYEGN----------------------VFATEDALRAVIEARKLGIEVFGITIDRD 153 (174)
T ss_pred CcCcccccCcc----------------------hhHHHHHHHHHHHHHhCCcEEEEEEecCc
Confidence 98866321100 0011222 6777888998877666554
No 53
>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=96.92 E-value=0.033 Score=54.05 Aligned_cols=151 Identities=13% Similarity=0.046 Sum_probs=90.2
Q ss_pred EEEEEECCCChh--HHH-HHHHHHHHHHHhC---CCCcEEEEEeecceEEEE-EccCCccceeeEeeCCCCCcccchhhh
Q 006547 124 YVAAVDLSSSEE--FLE-LTRSALQAALEAV---PSGALFGLATFSHKIGLY-DVQGAIPVVKNVFIPSDTEDTLSLELE 196 (641)
Q Consensus 124 ~vFvID~s~~~~--~l~-~~~~~l~~~l~~l---p~~~~VgiItfd~~V~~~-~l~~~~~~~~~v~~~~~~~~~~~~dl~ 196 (641)
.+|+||.|.+.+ ..+ .+++.++..++.+ ++++|||+|+|++..+++ .+.. +
T Consensus 3 i~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~~~~~~~~--------------------~-- 60 (192)
T cd01473 3 LTLILDESASIGYSNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNRDVVPFSD--------------------E-- 60 (192)
T ss_pred EEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCceeEEecCc--------------------c--
Confidence 589999999863 244 4777888888776 467899999999976532 1110 0
Q ss_pred ccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCC-cccceEEEE
Q 006547 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNT-FALARVFAF 275 (641)
Q Consensus 197 d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~-~~~GkIi~F 275 (641)
....++.+.+.++++...... ..++.+|.||+.|.+.+...++.. ...--++++
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 011244556666666532110 135679999999988775432211 001236666
Q ss_pred ecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccc
Q 006547 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (641)
Q Consensus 276 ~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~ 350 (641)
|.|..+-+ . + .--.+.++.+.+.||.+-.+..+. .+-+++..++..
T Consensus 116 TDG~s~~~-~------------------~--------~~~~~~a~~lk~~gV~i~~vGiG~--~~~~el~~ia~~ 161 (192)
T cd01473 116 TDGNDTSA-S------------------K--------KELQDISLLYKEENVKLLVVGVGA--ASENKLKLLAGC 161 (192)
T ss_pred ecCCCCCc-c------------------h--------hhHHHHHHHHHHCCCEEEEEEecc--ccHHHHHHhcCC
Confidence 66643211 0 0 001356778888899777666543 466778877764
No 54
>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=96.80 E-value=0.025 Score=56.01 Aligned_cols=158 Identities=17% Similarity=0.264 Sum_probs=86.6
Q ss_pred EEEEEEECCCCh---------hHHHHHHHHHHHHHHhC---CCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcc
Q 006547 123 VYVAAVDLSSSE---------EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDT 190 (641)
Q Consensus 123 ~~vFvID~s~~~---------~~l~~~~~~l~~~l~~l---p~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~ 190 (641)
..+|+||+|.++ ..++.+++++...+... .++.+||+|.|++.-+-.. .. ..++++
T Consensus 3 ~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~----~~-~~~i~v------- 70 (218)
T cd01458 3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNP----VG-YENIYV------- 70 (218)
T ss_pred EEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCc----CC-CCceEE-------
Confidence 478999998854 45777888888888752 4567999999988532100 00 011111
Q ss_pred cchhhhccccccccccchHhhHHHHHHHHHhhcCC-CccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccc
Q 006547 191 LSLELEDVMPLSQFLAPVETFKENITSALETLRPT-TSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFAL 269 (641)
Q Consensus 191 ~~~dl~d~~p~~~~l~~~~~~~~~i~~lL~~L~~~-~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~ 269 (641)
+.++.. + ..+.+..+++.+... .......+ ...+..++.||..|..++..... ....
T Consensus 71 -~~~l~~---------~---~~~~l~~l~~~~~~~~~~~~~~~~--------~~~~~~l~~aL~~a~~~~~~~~~-~~~~ 128 (218)
T cd01458 71 -LLDLDT---------P---GAERVEDLKELIEPGGLSFAGQVG--------DSGQVSLSDALWVCLDLFSKGKK-KKSH 128 (218)
T ss_pred -eecCCC---------C---CHHHHHHHHHHhhcchhhhcccCC--------CCCCccHHHHHHHHHHHHHhccc-cccc
Confidence 111110 0 112333344333221 00000000 01357899999999999976211 0112
Q ss_pred ceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCC
Q 006547 270 ARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNE 337 (641)
Q Consensus 270 GkIi~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~ 337 (641)
-+|++||.|--..|.... ...-..+++.++.+.||.+.+|....+
T Consensus 129 k~IvL~TDg~~p~~~~~~-----------------------~~~~~~~~a~~l~~~gI~i~~i~i~~~ 173 (218)
T cd01458 129 KRIFLFTNNDDPHGGDSI-----------------------KDSQAAVKAEDLKDKGIELELFPLSSP 173 (218)
T ss_pred cEEEEECCCCCCCCCCHH-----------------------HHHHHHHHHHHHHhCCcEEEEEecCCC
Confidence 589999987644331100 011234688888888999998876443
No 55
>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=96.54 E-value=0.068 Score=49.45 Aligned_cols=42 Identities=21% Similarity=0.067 Sum_probs=30.8
Q ss_pred EEEEEECCCChhH--HHHHHHHHHHHHHhCC-CCcEEEEEeecce
Q 006547 124 YVAAVDLSSSEEF--LELTRSALQAALEAVP-SGALFGLATFSHK 165 (641)
Q Consensus 124 ~vFvID~s~~~~~--l~~~~~~l~~~l~~lp-~~~~VgiItfd~~ 165 (641)
++|+||+|.+... ++..+..+...++.+. ++.+|++|+|++.
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 6899999998632 4555666655555554 4779999999987
No 56
>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=95.34 E-value=0.013 Score=47.32 Aligned_cols=24 Identities=17% Similarity=0.303 Sum_probs=22.0
Q ss_pred cCCCcEEEEeCCcEEEEEEcCCCC
Q 006547 597 TSGSPIFLLDAFTTIIVFYSSTAD 620 (641)
Q Consensus 597 ~~~~~iyLlD~~~~i~i~~g~~~~ 620 (641)
+.++++||||+|..||+|+|++++
T Consensus 15 L~s~~~yIld~~~~i~vW~G~~~~ 38 (76)
T PF00626_consen 15 LNSDDCYILDCGYEIFVWVGKKSS 38 (76)
T ss_dssp EETTSEEEEEESSEEEEEEHTTSH
T ss_pred cCCCCEEEEEeCCCcEEEEeccCC
Confidence 589999999999999999999844
No 57
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=95.29 E-value=0.038 Score=51.86 Aligned_cols=48 Identities=23% Similarity=0.321 Sum_probs=39.4
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCC------CCcEEEEEeecceEEEE
Q 006547 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEAVP------SGALFGLATFSHKIGLY 169 (641)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp------~~~~VgiItfd~~V~~~ 169 (641)
-|+| |++|+|.+. +.++++..+|+..++.|. +...++|||||+.+++|
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 4665 789999986 678999999999998874 35799999999977665
No 58
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=94.42 E-value=1.2 Score=42.96 Aligned_cols=134 Identities=16% Similarity=0.252 Sum_probs=83.0
Q ss_pred EEEEEEECCCCh-------hHHHHHHHHHHHHHH----hCCCCcEEEEEeecc-eEEEEEccCCccceeeEeeCCCCCcc
Q 006547 123 VYVAAVDLSSSE-------EFLELTRSALQAALE----AVPSGALFGLATFSH-KIGLYDVQGAIPVVKNVFIPSDTEDT 190 (641)
Q Consensus 123 ~~vFvID~s~~~-------~~l~~~~~~l~~~l~----~lp~~~~VgiItfd~-~V~~~~l~~~~~~~~~v~~~~~~~~~ 190 (641)
.-+.+||=|-.+ ..+++=++++.-... +-|++ .|||||... .+.+. +
T Consensus 5 atmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEn-tvGiitla~a~~~vL-------------s------- 63 (259)
T KOG2884|consen 5 ATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPEN-TVGIITLANASVQVL-------------S------- 63 (259)
T ss_pred eEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCccc-ceeeEeccCCCceee-------------e-------
Confidence 456788876543 567776776654433 23444 799999765 33321 1
Q ss_pred cchhhhccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccc
Q 006547 191 LSLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALA 270 (641)
Q Consensus 191 ~~~dl~d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~G 270 (641)
. +......|...+..++.. ++.-++.+|+.|..+|+..-+... --
T Consensus 64 ---T-------------~T~d~gkils~lh~i~~~------------------g~~~~~~~i~iA~lalkhRqnk~~-~~ 108 (259)
T KOG2884|consen 64 ---T-------------LTSDRGKILSKLHGIQPH------------------GKANFMTGIQIAQLALKHRQNKNQ-KQ 108 (259)
T ss_pred ---e-------------ccccchHHHHHhcCCCcC------------------CcccHHHHHHHHHHHHHhhcCCCc-ce
Confidence 0 011234455555555432 345689999999999986543110 15
Q ss_pred eEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccC
Q 006547 271 RVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTD 340 (641)
Q Consensus 271 kIi~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~ 340 (641)
||++|.++|-. +.|+ -.-++|+++-+.+|+||+..|+-..-+
T Consensus 109 riVvFvGSpi~--------------------e~ek--------eLv~~akrlkk~~Vaidii~FGE~~~~ 150 (259)
T KOG2884|consen 109 RIVVFVGSPIE--------------------ESEK--------ELVKLAKRLKKNKVAIDIINFGEAENN 150 (259)
T ss_pred EEEEEecCcch--------------------hhHH--------HHHHHHHHHHhcCeeEEEEEecccccc
Confidence 99999998621 1122 224789999999999999998765444
No 59
>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=93.87 E-value=2.4 Score=43.20 Aligned_cols=45 Identities=22% Similarity=0.253 Sum_probs=33.1
Q ss_pred CCcEEEEEEECCCCh-------hHHHHHHHHHHHHHHhCCCCcEEEEEeecceE
Q 006547 120 ARPVYVAAVDLSSSE-------EFLELTRSALQAALEAVPSGALFGLATFSHKI 166 (641)
Q Consensus 120 ~~p~~vFvID~s~~~-------~~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V 166 (641)
...-.+++||.|.+. ..++ .+..|..+++.++. -+||++.|+..+
T Consensus 59 r~~qIvlaID~S~SM~~~~~~~~ale-ak~lIs~al~~Le~-g~vgVv~Fg~~~ 110 (266)
T cd01460 59 RDYQILIAIDDSKSMSENNSKKLALE-SLCLVSKALTLLEV-GQLGVCSFGEDV 110 (266)
T ss_pred cCceEEEEEecchhcccccccccHHH-HHHHHHHHHHhCcC-CcEEEEEeCCCc
Confidence 456799999999985 2345 34456667777765 499999999865
No 60
>smart00262 GEL Gelsolin homology domain. Gelsolin/severin/villin homology domain. Calcium-binding and actin-binding. Both intra- and extracellular domains.
Probab=92.95 E-value=0.1 Score=43.68 Aligned_cols=25 Identities=16% Similarity=0.311 Sum_probs=23.4
Q ss_pred cCCCcEEEEeCCcEEEEEEcCCCCC
Q 006547 597 TSGSPIFLLDAFTTIIVFYSSTADP 621 (641)
Q Consensus 597 ~~~~~iyLlD~~~~i~i~~g~~~~~ 621 (641)
++++.+||||++..||+|+|+.+++
T Consensus 23 L~s~d~fild~~~~iyvW~G~~as~ 47 (90)
T smart00262 23 LNSGDCYILDTGSEIYVWVGKKSSQ 47 (90)
T ss_pred CCCCCEEEEECCCEEEEEECCCCCH
Confidence 5899999999999999999999885
No 61
>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=91.82 E-value=1.7 Score=42.13 Aligned_cols=43 Identities=19% Similarity=0.108 Sum_probs=30.7
Q ss_pred EEEEEEECCCChh---------HHHHHHHHHHHHHHhCC--CCcEEEEEeecce
Q 006547 123 VYVAAVDLSSSEE---------FLELTRSALQAALEAVP--SGALFGLATFSHK 165 (641)
Q Consensus 123 ~~vFvID~s~~~~---------~l~~~~~~l~~~l~~lp--~~~~VgiItfd~~ 165 (641)
-++|+||.|.+++ .++.+++++...+..+. +..++++++|++.
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 4789999999873 35778887777666543 3456888888654
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=91.54 E-value=5.8 Score=38.18 Aligned_cols=40 Identities=15% Similarity=0.088 Sum_probs=29.4
Q ss_pred HHHHHHcCcEEEEeeecCCccChhcccccccccceEEEEeCC
Q 006547 319 AAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSS 360 (641)
Q Consensus 319 a~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~ 360 (641)
++.+.+.||-|..+..+.. |-.++..+++.|||+-|...+
T Consensus 135 a~lA~~~gV~iytIgiG~~--d~~~l~~iA~~tgG~~F~A~d 174 (191)
T cd01455 135 DALAREPNVNAFVIFIGSL--SDEADQLQRELPAGKAFVCMD 174 (191)
T ss_pred HHHHHhCCCEEEEEEecCC--CHHHHHHHHhCCCCcEEEeCC
Confidence 3556678888777666543 667789999999999777653
No 63
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=90.09 E-value=0.28 Score=55.69 Aligned_cols=55 Identities=20% Similarity=0.214 Sum_probs=37.4
Q ss_pred hhhhccceEeeccCCCCCCC-ccccchhhhccCCCcEEEEeCCcEEEEEEcCCCCCC
Q 006547 567 QRAVYPLLTSYSTPDKQAFP-RHSLSRAALITSGSPIFLLDAFTTIIVFYSSTADPT 622 (641)
Q Consensus 567 ~~~~yP~L~~~~~~~~~~~p-~~~L~~~~~~~~~~~iyLlD~~~~i~i~~g~~~~~~ 622 (641)
..-..|+||.-+...+. +- ..+.--....+..+-|||||++..||||+|++++++
T Consensus 615 ~~~~~PrLF~Cs~~~g~-f~~~EI~~F~QdDL~tdDi~lLDt~~evfvWvG~~a~~~ 670 (827)
T KOG0443|consen 615 KPERDPRLFSCSNKTGS-FVVEEIYNFTQDDLMTDDIMLLDTWSEVFVWVGQEANEK 670 (827)
T ss_pred cCCCCCcEEEEEecCCc-EEEEEecCcchhhccccceEEEecCceEEEEecCCCChh
Confidence 45678999998865331 10 001111122357889999999999999999999874
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=88.76 E-value=28 Score=35.75 Aligned_cols=87 Identities=21% Similarity=0.193 Sum_probs=56.3
Q ss_pred cchHHHHHHHHHhhccccC-----CCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHH
Q 006547 246 RGFGLAMESLFNYLGSEYG-----NTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAA 320 (641)
Q Consensus 246 ~~~G~Al~~a~~~l~~~~~-----~~~~~GkIi~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~ 320 (641)
+.+..||..|+-.+..... +.-..+||+++.++-+.. . .+.-=+-+..-
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 5788899998877764411 011237999964432111 0 01112235566
Q ss_pred HHHHcCcEEEEeeecCCccChhcccccccccceEEEEeCC
Q 006547 321 VAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSS 360 (641)
Q Consensus 321 ~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~ 360 (641)
.|.+.+|.+|++..+. -|-.-|.+.+..|||.-...+.
T Consensus 170 aAqk~~v~IDv~~L~~--~~s~fLqQa~d~T~G~y~~~~~ 207 (276)
T PF03850_consen 170 AAQKQKVPIDVCKLGG--KDSTFLQQASDITGGIYLKVSK 207 (276)
T ss_pred HHhcCCceeEEEEecC--CchHHHHHHHHHhCceeeccCc
Confidence 7888999999998866 3556689999999999666654
No 65
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=86.30 E-value=26 Score=33.16 Aligned_cols=131 Identities=18% Similarity=0.208 Sum_probs=79.3
Q ss_pred EEEEEEECCCCh-------hHHHHHHHHHHHHHHh-CC--CCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccc
Q 006547 123 VYVAAVDLSSSE-------EFLELTRSALQAALEA-VP--SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLS 192 (641)
Q Consensus 123 ~~vFvID~s~~~-------~~l~~~~~~l~~~l~~-lp--~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~ 192 (641)
+.|.+||-|..+ ..+++=++++...+.. .. +...||||+-... . + .+++
T Consensus 5 atvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a---------~--p-~vls--------- 63 (243)
T COG5148 5 ATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQA---------Q--P-NVLS--------- 63 (243)
T ss_pred eEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccC---------C--c-chhc---------
Confidence 467888876643 5677777777776652 32 2347888875331 0 0 1111
Q ss_pred hhhhccccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceE
Q 006547 193 LELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARV 272 (641)
Q Consensus 193 ~dl~d~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkI 272 (641)
- ....+..|...|..++-. ++--++-+|+.|..+++..-.. ..--||
T Consensus 64 -T-------------~T~~~gkilt~lhd~~~~------------------g~a~~~~~lqiaql~lkhR~nk-~q~qri 110 (243)
T COG5148 64 -T-------------PTKQRGKILTFLHDIRLH------------------GGADIMRCLQIAQLILKHRDNK-GQRQRI 110 (243)
T ss_pred -c-------------chhhhhHHHHHhcccccc------------------CcchHHHHHHHHHHHHhcccCC-ccceEE
Confidence 0 122345666677666532 2335788899998888755321 012699
Q ss_pred EEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeec
Q 006547 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAIT 335 (641)
Q Consensus 273 i~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~ 335 (641)
++|.+++-. .+ | +-.-.+|+++-+++|++|+..++
T Consensus 111 VaFvgSpi~--------es------------e--------deLirlak~lkknnVAidii~fG 145 (243)
T COG5148 111 VAFVGSPIQ--------ES------------E--------DELIRLAKQLKKNNVAIDIIFFG 145 (243)
T ss_pred EEEecCccc--------cc------------H--------HHHHHHHHHHHhcCeeEEEEehh
Confidence 999998621 11 1 11236899999999999998764
No 66
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=82.97 E-value=14 Score=37.89 Aligned_cols=88 Identities=17% Similarity=0.170 Sum_probs=60.1
Q ss_pred CcchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHH
Q 006547 245 GRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQ 324 (641)
Q Consensus 245 ~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~ 324 (641)
...+-.||+.|...|+..-+-. .-.|++..++..|.-||-+- +..+.+.+
T Consensus 142 ~fSLqNaLe~a~~~Lk~~p~H~--sREVLii~sslsT~DPgdi~----------------------------~tI~~lk~ 191 (378)
T KOG2807|consen 142 DFSLQNALELAREVLKHMPGHV--SREVLIIFSSLSTCDPGDIY----------------------------ETIDKLKA 191 (378)
T ss_pred ChHHHHHHHHHHHHhcCCCccc--ceEEEEEEeeecccCcccHH----------------------------HHHHHHHh
Confidence 3568889999999998762110 13677777888888888542 35557778
Q ss_pred cCcEEEEeeecCCccChhcccccccccceEEEEeCCCCCCchh
Q 006547 325 AGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLP 367 (641)
Q Consensus 325 ~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~ 367 (641)
..|-|.+...+.+ ++.-+.||+.|||. |+=..|...|+
T Consensus 192 ~kIRvsvIgLsaE---v~icK~l~kaT~G~--Y~V~lDe~Hlk 229 (378)
T KOG2807|consen 192 YKIRVSVIGLSAE---VFICKELCKATGGR--YSVALDEGHLK 229 (378)
T ss_pred hCeEEEEEeechh---HHHHHHHHHhhCCe--EEEEeCHHHHH
Confidence 8899998876644 44458899999993 33334544454
No 67
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=81.89 E-value=37 Score=41.52 Aligned_cols=67 Identities=18% Similarity=0.206 Sum_probs=50.1
Q ss_pred ccccEEEEecCC---CCccccCCCCcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEEeecceEEE
Q 006547 100 ISSFIDLDLPLE---GSEEETMQARPVYVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGL 168 (641)
Q Consensus 100 ~~~tve~~~p~~---y~~~~~~~~~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~ 168 (641)
...++|+-...- |.. ....|--.+|++|+|.+. ..+...|..+.++|+.|.++..|-++||++.++.
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 445666655432 332 123455789999999985 5678889999999999999999999999997754
No 68
>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=81.66 E-value=54 Score=31.96 Aligned_cols=103 Identities=21% Similarity=0.251 Sum_probs=58.2
Q ss_pred CcchHHHHHHHHHhhccccCCCcccceEEEEec--CCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHH
Q 006547 245 GRGFGLAMESLFNYLGSEYGNTFALARVFAFLS--GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVA 322 (641)
Q Consensus 245 ~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~s--g~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~ 322 (641)
.++.|.||..+..++...+.. +.|-++=.| |+.|.|+.-. +..-..+
T Consensus 94 ~Taig~Al~~a~~ll~~~~~~---~~RrVIDvSGDG~~N~G~~p~----------------------------~~ard~~ 142 (205)
T PF06707_consen 94 RTAIGSALDFAAALLAQNPFE---CWRRVIDVSGDGPNNQGPRPV----------------------------TSARDAA 142 (205)
T ss_pred CchHHHHHHHHHHHHHhCCCC---CceEEEEECCCCCCCCCCCcc----------------------------HHHHHHH
Confidence 479999999999999865421 234444444 4445554322 1122345
Q ss_pred HHcCcEEEEeeecCCcc----ChhcccccccccceEEEEeCCCCCCchhHHHHHHhccCc
Q 006547 323 VQAGVCVDIFAITNEYT----DLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRMLSRPY 378 (641)
Q Consensus 323 ~~~~isvdlf~~~~~~~----~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~~~l~~~~ 378 (641)
...||.||=+......- ++...-.=+-.+|---|..+..+...|.+.++|-|.++.
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 56899999988765543 444432222222222233333334467777877776653
No 69
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=78.52 E-value=1.3 Score=31.97 Aligned_cols=28 Identities=18% Similarity=0.356 Sum_probs=20.0
Q ss_pred CCCCCCCCeeeeccceeec--ceeEecCCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQ--WAWTCSLCGSLNG 81 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~N~ 81 (641)
..+|.+|++-+-- +. ..++|+.||....
T Consensus 3 ~y~C~~CG~~~~~----~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVEL----DEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEE----CCCCCceECCCCCCeEE
Confidence 3689999995422 22 2799999997654
No 70
>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=78.44 E-value=1.2 Score=33.49 Aligned_cols=33 Identities=24% Similarity=0.632 Sum_probs=23.2
Q ss_pred CCCCCCCCCCeeeeccce--eecceeEecCCCCCC
Q 006547 48 HMLPRCENCYAYFNTYCE--LEQWAWTCSLCGSLN 80 (641)
Q Consensus 48 ~~~~RC~~C~ayiNp~~~--~~~~~w~C~~C~~~N 80 (641)
..+.-|++|+.--.-+-+ +..-+|+|+.|+..|
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 346779999985333322 334699999999987
No 71
>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=78.32 E-value=33 Score=39.29 Aligned_cols=73 Identities=12% Similarity=0.138 Sum_probs=43.0
Q ss_pred cchHHHHHHHHHhhccccCCCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHHHHHc
Q 006547 246 RGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQA 325 (641)
Q Consensus 246 ~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~ 325 (641)
..+..||.+|..++...+.. +..=||++||+--.-.|..+ +++. ==...|.++...
T Consensus 117 ~~l~daL~~~~~~f~~~~~k-~~~kRI~lfTd~D~P~~~~~---------------~~~~--------~a~~~a~dl~~~ 172 (584)
T TIGR00578 117 YSLSEVLWVCANLFSDVQFR-MSHKRIMLFTNEDNPHGNDS---------------AKAS--------RARTKAGDLRDT 172 (584)
T ss_pred CcHHHHHHHHHHHHHhcchh-hcCcEEEEECCCCCCCCCch---------------hHHH--------HHHHHHHHHHhc
Confidence 47899999999999753221 11247999996432222110 0000 002357888899
Q ss_pred CcEEEEeeec-CCccChh
Q 006547 326 GVCVDIFAIT-NEYTDLA 342 (641)
Q Consensus 326 ~isvdlf~~~-~~~~~l~ 342 (641)
||.+++|..+ .+.+|..
T Consensus 173 gi~ielf~l~~~~~Fd~s 190 (584)
T TIGR00578 173 GIFLDLMHLKKPGGFDIS 190 (584)
T ss_pred CeEEEEEecCCCCCCChh
Confidence 9999998653 2335544
No 72
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=78.00 E-value=5.9 Score=35.49 Aligned_cols=42 Identities=26% Similarity=0.185 Sum_probs=31.5
Q ss_pred EEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEEeecceEEE
Q 006547 125 VAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGL 168 (641)
Q Consensus 125 vFvID~s~~~--~~l~~~~~~l~~~l~~lp~~~~VgiItfd~~V~~ 168 (641)
+++||+|.+. +.++...+-+...++.. +.+|-+|.||..|+-
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 6889999985 56666666666666666 556899999998863
No 73
>PRK10997 yieM hypothetical protein; Provisional
Probab=76.63 E-value=22 Score=39.45 Aligned_cols=49 Identities=27% Similarity=0.309 Sum_probs=32.6
Q ss_pred EEEEEEECCCChh-HHHHHHHHHHHHHH--hCCCCcEEEEEeecceEEEEEc
Q 006547 123 VYVAAVDLSSSEE-FLELTRSALQAALE--AVPSGALFGLATFSHKIGLYDV 171 (641)
Q Consensus 123 ~~vFvID~s~~~~-~l~~~~~~l~~~l~--~lp~~~~VgiItfd~~V~~~~l 171 (641)
-++++||+|.+.. .-+....++..+|- .+.++-++++|.|++.+.-|.+
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 4789999999863 32333334444443 4567789999999998765543
No 74
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=74.89 E-value=18 Score=39.44 Aligned_cols=102 Identities=23% Similarity=0.208 Sum_probs=62.8
Q ss_pred CcEEEEEEECCCCh-hHHHHHHHHHHHHHH--hCCCCcEEEEEeecceEEEEEccCCccceeeEeeCCCCCcccchhhhc
Q 006547 121 RPVYVAAVDLSSSE-EFLELTRSALQAALE--AVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (641)
Q Consensus 121 ~p~~vFvID~s~~~-~~l~~~~~~l~~~l~--~lp~~~~VgiItfd~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d 197 (641)
+| ++.+||.|.++ |.-+....|+..+|- .+-+|.++.++.||+.++=+.+.++. .
T Consensus 273 Gp-villlD~SGSM~G~~e~~AKAvalAl~~~alaenR~~~~~lF~s~~~~~el~~k~-----------------~---- 330 (437)
T COG2425 273 GP-VILLLDKSGSMSGFKEQWAKAVALALMRIALAENRDCYVILFDSEVIEYELYEKK-----------------I---- 330 (437)
T ss_pred CC-EEEEEeCCCCcCCcHHHHHHHHHHHHHHHHHHhccceEEEEecccceeeeecCCc-----------------c----
Confidence 45 55799999997 555554445555543 45688899999999943323222110 0
Q ss_pred cccccccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccceEEEEec
Q 006547 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (641)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~~~~~~~GkIi~F~s 277 (641)
.+.++++.|...+. +++-+-.||..|++.++...-- .+.+++.|.
T Consensus 331 ----------------~~~e~i~fL~~~f~----------------GGTD~~~~l~~al~~~k~~~~~---~adiv~ITD 375 (437)
T COG2425 331 ----------------DIEELIEFLSYVFG----------------GGTDITKALRSALEDLKSRELF---KADIVVITD 375 (437)
T ss_pred ----------------CHHHHHHHHhhhcC----------------CCCChHHHHHHHHHHhhccccc---CCCEEEEec
Confidence 12334555544431 2356888999999988854321 278888888
Q ss_pred CC
Q 006547 278 GP 279 (641)
Q Consensus 278 g~ 279 (641)
|-
T Consensus 376 g~ 377 (437)
T COG2425 376 GE 377 (437)
T ss_pred cH
Confidence 74
No 75
>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=74.28 E-value=1.4e+02 Score=32.56 Aligned_cols=200 Identities=18% Similarity=0.195 Sum_probs=99.0
Q ss_pred EEEEEECCCCh----hHHHHHHHHHHHHHHhCCCCcEEEEEee-cceEEEEEccCCccceeeEeeCCCCCcccchhhhcc
Q 006547 124 YVAAVDLSSSE----EFLELTRSALQAALEAVPSGALFGLATF-SHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (641)
Q Consensus 124 ~vFvID~s~~~----~~l~~~~~~l~~~l~~lp~~~~VgiItf-d~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~ 198 (641)
..|+.|+|.++ ..++.+-+.|...|..+-.+.|+||=+| |+.|.=|--..+. ...-| ....-..-
T Consensus 102 LYyLMDlS~SM~ddl~~lk~lg~~L~~~m~~it~n~rlGfGsFVDK~v~P~~~t~p~----~l~~P------C~~~~~~c 171 (423)
T smart00187 102 LYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTRPE----KLENP------CPNYNLTC 171 (423)
T ss_pred eEEEEeCCccHHHHHHHHHHHHHHHHHHHHhcccCceeeEEEeecCccCCcccCCHH----HhcCC------CcCCCCCc
Confidence 56899999997 3345555566667777888999999888 4444222110000 00000 00000000
Q ss_pred c-ccc-ccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHHhhcccc-CCCcccceEEEE
Q 006547 199 M-PLS-QFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEY-GNTFALARVFAF 275 (641)
Q Consensus 199 ~-p~~-~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~~l~~~~-~~~~~~GkIi~F 275 (641)
. |++ +-..++.+.-..+.+.+++..-. .+.. .++..+-+-+++|+-- +..| ... .-|+++|
T Consensus 172 ~p~f~f~~~L~LT~~~~~F~~~V~~~~iS--gN~D-----------~PEgG~DAimQaaVC~-~~IGWR~~--a~rllv~ 235 (423)
T smart00187 172 EPPYGFKHVLSLTDDTDEFNEEVKKQRIS--GNLD-----------APEGGFDAIMQAAVCT-EQIGWRED--ARRLLVF 235 (423)
T ss_pred CCCcceeeeccCCCCHHHHHHHHhhceee--cCCc-----------CCcccHHHHHHHHhhc-cccccCCC--ceEEEEE
Confidence 1 121 12244555555556666654321 1111 1345676667777411 1122 111 2489999
Q ss_pred ecCCCCC--CCCcccc---ccccC-cccCCCcchhhccCCCcchHHHHHHHHHHHcCcEEEEeeecCCccChhccccccc
Q 006547 276 LSGPPDH--GAGQLDT---RRYGE-QYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSI 349 (641)
Q Consensus 276 ~sg~pt~--GpG~l~~---~~~~~-~~~~~~~~~e~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~ 349 (641)
++-.+-. |-|+|.. ..+++ ++...+.-.+. ......--.+|++++.+++|-+ ||+.+..+.+++ ..|+.
T Consensus 236 ~TDa~fH~AGDGkLaGIv~PNDg~CHL~~~g~Yt~s--~~~DYPSi~ql~~kL~e~nI~~-IFAVT~~~~~~Y--~~Ls~ 310 (423)
T smart00187 236 STDAGFHFAGDGKLAGIVQPNDGQCHLDNNGEYTMS--TTQDYPSIGQLNQKLAENNINP-IFAVTKKQVSLY--KELSA 310 (423)
T ss_pred EcCCCccccCCcceeeEecCCCCcceeCCCCCcCcc--CcCCCCCHHHHHHHHHhcCceE-EEEEcccchhHH--HHHHH
Confidence 9877654 7777654 23222 11111100000 0011123457888888888854 787777777665 34444
Q ss_pred ccceE
Q 006547 350 ESGGS 354 (641)
Q Consensus 350 ~TGG~ 354 (641)
+-.|.
T Consensus 311 lipgs 315 (423)
T smart00187 311 LIPGS 315 (423)
T ss_pred hcCcc
Confidence 43443
No 76
>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=72.63 E-value=1.5e+02 Score=32.43 Aligned_cols=182 Identities=17% Similarity=0.195 Sum_probs=87.2
Q ss_pred EEEEEECCCCh----hHHHHHHHHHHHHHHhCCCCcEEEEEeec-ceEEEEEccCCccceeeEeeCCCCCcccchhhhcc
Q 006547 124 YVAAVDLSSSE----EFLELTRSALQAALEAVPSGALFGLATFS-HKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (641)
Q Consensus 124 ~vFvID~s~~~----~~l~~~~~~l~~~l~~lp~~~~VgiItfd-~~V~~~~l~~~~~~~~~v~~~~~~~~~~~~dl~d~ 198 (641)
..|++|+|.+. ..++.+-..|...|..+-.+.|+||=+|= +.|.= |+ +. ....+.++
T Consensus 105 LYyLmDlS~Sm~ddl~~l~~lg~~l~~~~~~it~~~~~GfGsfvdK~~~P-------------~~--~~---~p~~l~~p 166 (426)
T PF00362_consen 105 LYYLMDLSYSMKDDLENLKSLGQDLAEEMRNITSNFRLGFGSFVDKPVMP-------------FV--ST---TPEKLKNP 166 (426)
T ss_dssp EEEEEE-SGGGHHHHHHHCCCCHHHHHHHHTT-SSEEEEEEEESSSSSTT-------------TS--T----SSHCHHST
T ss_pred EEEEeechhhhhhhHHHHHHHHHHHHHHHHhcCccceEechhhcccccCC-------------cc--cC---ChhhhcCc
Confidence 56899999986 33445566788888889899999998884 33310 10 00 00111111
Q ss_pred --------c-ccc-ccccchHhhHHHHHHHHHhhcCCCccccccccccCCCCcccCCcchHHHHHHHHH--hhccccCCC
Q 006547 199 --------M-PLS-QFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFN--YLGSEYGNT 266 (641)
Q Consensus 199 --------~-p~~-~~l~~~~~~~~~i~~lL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~--~l~~~~~~~ 266 (641)
. |+. +-..++.+....+.+.+++.. . +++.. .++.++=+-+++|+- .++=...
T Consensus 167 c~~~~~~c~~~~~f~~~l~Lt~~~~~F~~~v~~~~-i-s~n~D-----------~PEgg~dal~Qa~vC~~~igWr~~-- 231 (426)
T PF00362_consen 167 CPSKNPNCQPPFSFRHVLSLTDDITEFNEEVNKQK-I-SGNLD-----------APEGGLDALMQAAVCQEEIGWRNE-- 231 (426)
T ss_dssp SCCTTS--B---SEEEEEEEES-HHHHHHHHHTS----B--SS-----------SSBSHHHHHHHHHH-HHHHT--ST--
T ss_pred ccccCCCCCCCeeeEEeecccchHHHHHHhhhhcc-c-cCCCC-----------CCccccchheeeeecccccCcccC--
Confidence 0 111 112345555555666666543 1 22211 134566666777652 2221111
Q ss_pred cccceEEEEecCCC--CCCCCccccccccCcccCCCcchhhcc---CCCcchHHHHHHHHHHHcCcEEEEeeecCCccCh
Q 006547 267 FALARVFAFLSGPP--DHGAGQLDTRRYGEQYASKGEDADRAL---LPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDL 341 (641)
Q Consensus 267 ~~~GkIi~F~sg~p--t~GpG~l~~~~~~~~~~~~~~~~e~~~---~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l 341 (641)
.-|+++|++-.+ .-|-|++...-.++....|-.+. ..| ......-..+|.+.+.+++|.+ ||+.+....++
T Consensus 232 --a~~llv~~TD~~fH~agDg~l~gi~~pnd~~Chl~~~-~~y~~~~~~DYPSv~ql~~~l~e~~i~~-IFAVt~~~~~~ 307 (426)
T PF00362_consen 232 --ARRLLVFSTDAGFHFAGDGKLAGIVKPNDGKCHLDDN-GMYTASTEQDYPSVGQLVRKLSENNINP-IFAVTKDVYSI 307 (426)
T ss_dssp --SEEEEEEEESS-B--TTGGGGGT--S---SS--BSTT-SBBGGGGCS----HHHHHHHHHHTTEEE-EEEEEGGGHHH
T ss_pred --ceEEEEEEcCCccccccccccceeeecCCCceEECCC-CcccccccccCCCHHHHHHHHHHcCCEE-EEEEchhhhhH
Confidence 259999988665 44777776533222222111111 011 1123345667888888888754 77777766654
Q ss_pred h
Q 006547 342 A 342 (641)
Q Consensus 342 ~ 342 (641)
+
T Consensus 308 Y 308 (426)
T PF00362_consen 308 Y 308 (426)
T ss_dssp H
T ss_pred H
Confidence 4
No 77
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=67.63 E-value=32 Score=35.29 Aligned_cols=99 Identities=14% Similarity=0.118 Sum_probs=61.7
Q ss_pred cchHHHHHHHHHhhccccC----CCcccceEEEEecCCCCCCCCccccccccCcccCCCcchhhccCCCcchHHHHHHHH
Q 006547 246 RGFGLAMESLFNYLGSEYG----NTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAV 321 (641)
Q Consensus 246 ~~~G~Al~~a~~~l~~~~~----~~~~~GkIi~F~sg~pt~GpG~l~~~~~~~~~~~~~~~~e~~~~~~~~~fY~~la~~ 321 (641)
..+..||..|+-.+..... +...-+||+++..++ +.. .+.-=+-+....
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 4577888888888754311 001138999998752 111 111123367888
Q ss_pred HHHcCcEEEEeeecCCccChhcccccccccceEEEEeCCCCCCchhHHHHHHh
Q 006547 322 AVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRML 374 (641)
Q Consensus 322 ~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~~~l 374 (641)
|.+.+|.||++..+.+ -+..-++++++.|||.-...+ +...|.+-|...+
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 8999999999988643 356778999999999533333 3334555544444
No 78
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=66.88 E-value=6.5 Score=44.19 Aligned_cols=56 Identities=13% Similarity=0.197 Sum_probs=37.0
Q ss_pred hhhhhhccceEeeccC-CCCCCCcc-ccchh---hhccCCCcEEEEeCCcEEEEEEcCCCC
Q 006547 565 SLQRAVYPLLTSYSTP-DKQAFPRH-SLSRA---ALITSGSPIFLLDAFTTIIVFYSSTAD 620 (641)
Q Consensus 565 ~~~~~~yP~L~~~~~~-~~~~~p~~-~L~~~---~~~~~~~~iyLlD~~~~i~i~~g~~~~ 620 (641)
+--.--.|+||.+.-. .--++|+- .+|.. ..++.+.++|+|||...+|||+|+..+
T Consensus 727 Edf~p~qpkLYkV~lGmGyLELPQvel~P~~~l~q~lL~sk~VyiLDc~sDiF~W~GkKs~ 787 (1255)
T KOG0444|consen 727 EDFVPEQPKLYKVNLGMGYLELPQVELLPKGILKQDLLGSKGVYILDCNSDIFLWIGKKSN 787 (1255)
T ss_pred cccCCCCcceEEEccccceeecchhhhchhhHHHHHhhcCCeEEEEecCCceEEEecccch
Confidence 3345568999988531 11223432 22332 233688999999999999999999854
No 79
>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=66.40 E-value=4.7 Score=34.58 Aligned_cols=28 Identities=25% Similarity=0.496 Sum_probs=22.1
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (641)
.|.|.+|.+ -|.--++..|+|+.|++.-
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 478999987 4555667899999999874
No 80
>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=65.62 E-value=4.4 Score=27.69 Aligned_cols=27 Identities=19% Similarity=0.437 Sum_probs=22.7
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (641)
..+|..|++. +...++..|.|.=||+.
T Consensus 8 ~~~C~~C~~~---~~~~~dG~~yC~~cG~~ 34 (36)
T PF11781_consen 8 NEPCPVCGSR---WFYSDDGFYYCDRCGHQ 34 (36)
T ss_pred CCcCCCCCCe---EeEccCCEEEhhhCceE
Confidence 4579999998 66677899999999975
No 81
>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=64.95 E-value=3.3 Score=30.57 Aligned_cols=28 Identities=25% Similarity=0.708 Sum_probs=19.5
Q ss_pred CCCCCCeeeeccc-----------eeec--ceeEecCCCCC
Q 006547 52 RCENCYAYFNTYC-----------ELEQ--WAWTCSLCGSL 79 (641)
Q Consensus 52 RC~~C~ayiNp~~-----------~~~~--~~w~C~~C~~~ 79 (641)
+|..|+=..+|-. .|++ ..|+|+.|+..
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 6888887777642 3332 58999999853
No 82
>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=64.56 E-value=4.4 Score=26.65 Aligned_cols=30 Identities=20% Similarity=0.399 Sum_probs=19.7
Q ss_pred CCCCCCCeeeeccceeecceeEecCCCCCCCC
Q 006547 51 PRCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~ 82 (641)
+.|..|++.+--- ....+++|..|++.|.+
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 5788888854211 11268999999887753
No 83
>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=64.13 E-value=2.1 Score=31.34 Aligned_cols=34 Identities=21% Similarity=0.480 Sum_probs=24.7
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLS 83 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p 83 (641)
-+||.+|+=.+--.-.+..-.-+|+=|++.|.+-
T Consensus 4 eiRC~~CnklLa~~g~~~~leIKCpRC~tiN~~~ 37 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVIELEIKCPRCKTINHVR 37 (51)
T ss_pred ceeccchhHHHhhhcCccEEEEECCCCCccceEe
Confidence 3799999876544333334578999999999874
No 84
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=63.75 E-value=6.4 Score=45.19 Aligned_cols=50 Identities=18% Similarity=0.195 Sum_probs=34.4
Q ss_pred hccceEeeccCCCC-CCC---ccccchhhhccCCCcEEEEeCC-cEEEEEEcCCCCC
Q 006547 570 VYPLLTSYSTPDKQ-AFP---RHSLSRAALITSGSPIFLLDAF-TTIIVFYSSTADP 621 (641)
Q Consensus 570 ~yP~L~~~~~~~~~-~~p---~~~L~~~~~~~~~~~iyLlD~~-~~i~i~~g~~~~~ 621 (641)
--.+||.+++.... ..+ ..+|.. ..++.+..||||+| ..||||+|+.++.
T Consensus 253 ~~~kLYkVsd~~g~l~v~~va~~~l~q--dlLd~~dCYILD~g~~~IfVW~Gr~as~ 307 (827)
T KOG0443|consen 253 AAAKLYKVSDASGGLKVPVVADGPLTK--DLLDTEDCYILDCGGGEIFVWKGRQASL 307 (827)
T ss_pred cccEEEEEeccCCCccccccccchhhH--HhhccCCeEEEecCCceEEEEeCCCCCH
Confidence 34689999863321 111 112333 23589999999999 9999999999875
No 85
>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=63.45 E-value=3.3 Score=30.14 Aligned_cols=28 Identities=25% Similarity=0.731 Sum_probs=17.4
Q ss_pred CCCCCCeeeeccce-----------eec--ceeEecCCCCC
Q 006547 52 RCENCYAYFNTYCE-----------LEQ--WAWTCSLCGSL 79 (641)
Q Consensus 52 RC~~C~ayiNp~~~-----------~~~--~~w~C~~C~~~ 79 (641)
+|..|+-..+|-.. |++ ..|+|+.|+..
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 57778776666543 332 57999999864
No 86
>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=63.00 E-value=4.6 Score=26.88 Aligned_cols=24 Identities=25% Similarity=0.807 Sum_probs=15.1
Q ss_pred CCCCCCeeeeccceeecceeEecCCCCC
Q 006547 52 RCENCYAYFNTYCELEQWAWTCSLCGSL 79 (641)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (641)
+|..|+=...+- ..-|.|+.||..
T Consensus 3 ~C~~CGy~y~~~----~~~~~CP~Cg~~ 26 (33)
T cd00350 3 VCPVCGYIYDGE----EAPWVCPVCGAP 26 (33)
T ss_pred ECCCCCCEECCC----cCCCcCcCCCCc
Confidence 577777433332 157888888863
No 87
>PRK10220 hypothetical protein; Provisional
Probab=57.78 E-value=8.4 Score=33.09 Aligned_cols=28 Identities=25% Similarity=0.638 Sum_probs=21.6
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (641)
.|.|.+|.+ -|.--++..|+|+-|++.-
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 477999986 3455566799999999874
No 88
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=57.71 E-value=6.7 Score=28.83 Aligned_cols=31 Identities=19% Similarity=0.444 Sum_probs=21.2
Q ss_pred CCCCCCeeeeccceeec-ceeEecCCCCCCCCC
Q 006547 52 RCENCYAYFNTYCELEQ-WAWTCSLCGSLNGLS 83 (641)
Q Consensus 52 RC~~C~ayiNp~~~~~~-~~w~C~~C~~~N~~p 83 (641)
.|..|+..+-+- ..++ ..|.|+-||..-.+.
T Consensus 2 FCp~Cg~~l~~~-~~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPK-EGKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCccccc-cCCCCCEEECCcCCCeEECC
Confidence 589999966332 2222 489999999876543
No 89
>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=56.20 E-value=8.5 Score=25.13 Aligned_cols=27 Identities=30% Similarity=0.646 Sum_probs=14.4
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (641)
.+.|..|++ .|.-.|+..++|+-|++.
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 367889987 333477789999999863
No 90
>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=55.82 E-value=22 Score=35.04 Aligned_cols=43 Identities=21% Similarity=0.232 Sum_probs=24.7
Q ss_pred EEEEEEECCCCh--------hHHHHHHHHHHHHHHhC---CCCcEEEEEeecce
Q 006547 123 VYVAAVDLSSSE--------EFLELTRSALQAALEAV---PSGALFGLATFSHK 165 (641)
Q Consensus 123 ~~vFvID~s~~~--------~~l~~~~~~l~~~l~~l---p~~~~VgiItfd~~ 165 (641)
+.+|+||+|.+. ..++.+.+++...+... .++..||+|.|++.
T Consensus 1 ~~vflID~s~sM~~~~~~~~~~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~ 54 (224)
T PF03731_consen 1 ATVFLIDVSPSMFEPSSESESPLEEALKAIEDLMQQKIISSPKDEVGVVLFGTD 54 (224)
T ss_dssp EEEEEEE-SCGGGS-BTTCS-HHHHHHHHHHHHHHHHHHTT---EEEEEEES-S
T ss_pred CEEEEEECCHHHCCCCCCcchhHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCC
Confidence 368999998864 23444555555555421 34479999999874
No 91
>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=55.52 E-value=2.9 Score=32.76 Aligned_cols=31 Identities=26% Similarity=0.664 Sum_probs=19.0
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCCCCCh
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~ 84 (641)
+.|| +|+.|+ |..-....-+| .||....+..
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 92
>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=55.43 E-value=2e+02 Score=27.96 Aligned_cols=43 Identities=14% Similarity=0.069 Sum_probs=29.2
Q ss_pred EEEEEEECCCCh------hHHHHHHHHHHHHHHhCCCCcEEEEEeecce
Q 006547 123 VYVAAVDLSSSE------EFLELTRSALQAALEAVPSGALFGLATFSHK 165 (641)
Q Consensus 123 ~~vFvID~s~~~------~~l~~~~~~l~~~l~~lp~~~~VgiItfd~~ 165 (641)
...+|||.|.++ |..|.+.+-+...-..+.++..|=+.+|++.
T Consensus 3 rV~LVLD~SGSM~~~yk~G~vQ~~~Er~lalA~~~DdDG~i~v~~Fs~~ 51 (200)
T PF10138_consen 3 RVYLVLDISGSMRPLYKDGTVQRVVERILALAAQFDDDGEIDVWFFSTE 51 (200)
T ss_pred EEEEEEeCCCCCchhhhCccHHHHHHHHHHHHhhcCCCCceEEEEeCCC
Confidence 356899999986 5666666666654456777666666666653
No 93
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=54.23 E-value=5.9 Score=34.76 Aligned_cols=27 Identities=19% Similarity=0.433 Sum_probs=19.1
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (641)
-.||+.|+.... .+...|.||-||..+
T Consensus 70 ~~~C~~Cg~~~~----~~~~~~~CP~Cgs~~ 96 (113)
T PRK12380 70 QAWCWDCSQVVE----IHQHDAQCPHCHGER 96 (113)
T ss_pred EEEcccCCCEEe----cCCcCccCcCCCCCC
Confidence 469999995322 223677899999775
No 94
>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=54.21 E-value=6.1 Score=34.81 Aligned_cols=27 Identities=22% Similarity=0.493 Sum_probs=19.8
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (641)
-.||++|+....+ +...|.||-||..+
T Consensus 70 ~~~C~~Cg~~~~~----~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 70 ECECEDCSEEVSP----EIDLYRCPKCHGIM 96 (115)
T ss_pred EEEcccCCCEEec----CCcCccCcCCcCCC
Confidence 4699999954332 23478999999876
No 95
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=53.08 E-value=6.5 Score=23.92 Aligned_cols=21 Identities=33% Similarity=0.817 Sum_probs=11.0
Q ss_pred CCCCCCeeeeccceeecceeEecCCCC
Q 006547 52 RCENCYAYFNTYCELEQWAWTCSLCGS 78 (641)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~ 78 (641)
+|.+|++-+..-.+| |+-||+
T Consensus 1 ~Cp~CG~~~~~~~~f------C~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKF------CPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcc------hhhhCC
Confidence 466666654433332 666654
No 96
>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=52.67 E-value=13 Score=26.69 Aligned_cols=27 Identities=19% Similarity=0.445 Sum_probs=19.8
Q ss_pred CCCCCCCeeeeccceeecceeEecCCCC
Q 006547 51 PRCENCYAYFNTYCELEQWAWTCSLCGS 78 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~ 78 (641)
+.|.+|++- ..|..-....|.|.-|++
T Consensus 19 ~~CP~Cg~~-~~~~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST-KHYRLKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCe-eeEEeCCCCeEECCCCCC
Confidence 669999997 333323358999999986
No 97
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=52.37 E-value=40 Score=39.46 Aligned_cols=114 Identities=18% Similarity=0.269 Sum_probs=64.3
Q ss_pred CCCCCCCeee-ecccee----e--cceeEecCCCCCCCCChhhhcccCCCcCccccccccEEEEecC-CCCc---cccCC
Q 006547 51 PRCENCYAYF-NTYCEL----E--QWAWTCSLCGSLNGLSSQAIARYTHPQSCAEMISSFIDLDLPL-EGSE---EETMQ 119 (641)
Q Consensus 51 ~RC~~C~ayi-Np~~~~----~--~~~w~C~~C~~~N~~p~~~~~~~~~~~~~pEL~~~tve~~~p~-~y~~---~~~~~ 119 (641)
+.|++|+-.. .|.|.. - .+.-.|..||+.-.+|.. -|+.-+...-+.-+- +... ..--|
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 3555555443 334432 1 279999999999777754 466544433333221 1100 00125
Q ss_pred CCcEEEEEEECCCChhHHHHHHHHHHH----------HH-H--hCCCCcEEEEEeecceEEEEEccCC
Q 006547 120 ARPVYVAAVDLSSSEEFLELTRSALQA----------AL-E--AVPSGALFGLATFSHKIGLYDVQGA 174 (641)
Q Consensus 120 ~~p~~vFvID~s~~~~~l~~~~~~l~~----------~l-~--~lp~~~~VgiItfd~~V~~~~l~~~ 174 (641)
..+++.|--|+....+.++.+-..+.. +| + ..|+-+.||++-=|..++.-|+.+.
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 678888888888877656554444332 11 1 2355578888888887776666543
No 98
>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=50.82 E-value=34 Score=33.84 Aligned_cols=45 Identities=22% Similarity=0.169 Sum_probs=26.2
Q ss_pred CCCc-EEEEEEECCCChhHHHHHHHHHHHHH-HhCCCCcEEEEEeecceE
Q 006547 119 QARP-VYVAAVDLSSSEEFLELTRSALQAAL-EAVPSGALFGLATFSHKI 166 (641)
Q Consensus 119 ~~~p-~~vFvID~s~~~~~l~~~~~~l~~~l-~~lp~~~~VgiItfd~~V 166 (641)
+..| -+|+++|+|.+......+.-.+..++ ...+ ++.++.|++.+
T Consensus 54 ~~~~~~lvvl~DvSGSM~~~s~~~l~~~~~l~~~~~---~~~~f~F~~~l 100 (222)
T PF05762_consen 54 PRKPRRLVVLCDVSGSMAGYSEFMLAFLYALQRQFR---RVRVFVFSTRL 100 (222)
T ss_pred cCCCccEEEEEeCCCChHHHHHHHHHHHHHHHHhCC---CEEEEEEeeeh
Confidence 3445 79999999999743222222232222 2333 77777777754
No 99
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=48.78 E-value=7.3 Score=34.23 Aligned_cols=27 Identities=26% Similarity=0.470 Sum_probs=18.7
Q ss_pred CCCCCCCCeeeeccceeec-ceeEecCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQ-WAWTCSLCGSLN 80 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~-~~w~C~~C~~~N 80 (641)
-.||+.|+.+. .... ..|.||-||..+
T Consensus 70 ~~~C~~Cg~~~----~~~~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 70 ECWCETCQQYV----TLLTQRVRRCPQCHGDM 97 (114)
T ss_pred EEEcccCCCee----ecCCccCCcCcCcCCCC
Confidence 46899999632 1222 348899999876
No 100
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=47.97 E-value=11 Score=35.85 Aligned_cols=26 Identities=27% Similarity=0.613 Sum_probs=20.8
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (641)
-.||++|++-|=. +.++.+|+-||..
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 3589999996543 6789999999964
No 101
>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=47.44 E-value=10 Score=27.97 Aligned_cols=30 Identities=27% Similarity=0.517 Sum_probs=21.3
Q ss_pred CCCCCCCeeeeccceee-cceeEecCCCCCC
Q 006547 51 PRCENCYAYFNTYCELE-QWAWTCSLCGSLN 80 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~-~~~w~C~~C~~~N 80 (641)
.||.+|+....-+..+. .....|+-||..+
T Consensus 6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~ 36 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMSDDPLATCPECGGEK 36 (52)
T ss_pred EEeCCCCCEeEEEEecCCCCCCCCCCCCCCc
Confidence 58999998666554443 3567899999854
No 102
>PHA00626 hypothetical protein
Probab=46.49 E-value=16 Score=27.41 Aligned_cols=30 Identities=17% Similarity=0.278 Sum_probs=19.1
Q ss_pred CCCCCe---eeeccceeecceeEecCCCCCCCC
Q 006547 53 CENCYA---YFNTYCELEQWAWTCSLCGSLNGL 82 (641)
Q Consensus 53 C~~C~a---yiNp~~~~~~~~w~C~~C~~~N~~ 82 (641)
|.+|++ +-|..|+-..+.|+|+-||..-.-
T Consensus 3 CP~CGS~~Ivrcg~cr~~snrYkCkdCGY~ft~ 35 (59)
T PHA00626 3 CPKCGSGNIAKEKTMRGWSDDYVCCDCGYNDSK 35 (59)
T ss_pred CCCCCCceeeeeceecccCcceEcCCCCCeech
Confidence 666665 233334444578999999987543
No 103
>PRK00420 hypothetical protein; Validated
Probab=46.09 E-value=13 Score=32.47 Aligned_cols=30 Identities=20% Similarity=0.383 Sum_probs=24.9
Q ss_pred CCCCCCCeeeeccceeecceeEecCCCCCCCCC
Q 006547 51 PRCENCYAYFNTYCELEQWAWTCSLCGSLNGLS 83 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p 83 (641)
-.|..|++ |+.++.++.-.|+.||..-.+.
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 8888877899999999966554
No 104
>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=45.60 E-value=11 Score=26.59 Aligned_cols=29 Identities=31% Similarity=0.606 Sum_probs=22.7
Q ss_pred CCCCCCCeeeeccceeec-ceeEecCCCCC
Q 006547 51 PRCENCYAYFNTYCELEQ-WAWTCSLCGSL 79 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~-~~w~C~~C~~~ 79 (641)
-||..|+....-...+.+ ....|+-||..
T Consensus 6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~ 35 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSISEDDPVPCPECGST 35 (42)
T ss_pred EEeCCCCCEEEEEEEcCCCCCCcCCCCCCC
Confidence 589999987776666654 68999999983
No 105
>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=45.31 E-value=11 Score=41.71 Aligned_cols=29 Identities=24% Similarity=0.587 Sum_probs=22.2
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCCCCCh
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~ 84 (641)
.-+|++|+.- .-...|+|+-|+..|.+.+
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 4689999851 2235899999999999865
No 106
>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=43.58 E-value=14 Score=23.87 Aligned_cols=27 Identities=19% Similarity=0.639 Sum_probs=15.3
Q ss_pred CCCCCCeeeeccceeecceeEecCCCC
Q 006547 52 RCENCYAYFNTYCELEQWAWTCSLCGS 78 (641)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~ 78 (641)
.|.+|+.++-.-..-....+.|+-|..
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 599999985544333346899999864
No 107
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=43.22 E-value=9.2 Score=33.78 Aligned_cols=28 Identities=21% Similarity=0.360 Sum_probs=18.5
Q ss_pred CCCCCCCCeeeeccceeecc-eeEecCCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQW-AWTCSLCGSLNG 81 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~-~w~C~~C~~~N~ 81 (641)
..||+.|+.+ ...+.. .+.||-||..+.
T Consensus 71 ~~~C~~Cg~~----~~~~~~~~~~CP~Cgs~~~ 99 (117)
T PRK00564 71 ELECKDCSHV----FKPNALDYGVCEKCHSKNV 99 (117)
T ss_pred EEEhhhCCCc----cccCCccCCcCcCCCCCce
Confidence 4799999943 222233 345999998763
No 108
>PRK11823 DNA repair protein RadA; Provisional
Probab=42.90 E-value=11 Score=41.62 Aligned_cols=30 Identities=30% Similarity=0.644 Sum_probs=22.5
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCCCCChh
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSSQ 85 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~~ 85 (641)
.-+|++|+.- .....|+|+-|+..|.+.++
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 4689999861 22358999999999987653
No 109
>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=42.66 E-value=13 Score=23.41 Aligned_cols=22 Identities=32% Similarity=0.510 Sum_probs=14.5
Q ss_pred CCCCCCeeeeccceeecceeEecCCCCC
Q 006547 52 RCENCYAYFNTYCELEQWAWTCSLCGSL 79 (641)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (641)
+|..|++-|+- ..-.|+.||+.
T Consensus 2 ~CP~C~~~V~~------~~~~Cp~CG~~ 23 (26)
T PF10571_consen 2 TCPECGAEVPE------SAKFCPHCGYD 23 (26)
T ss_pred cCCCCcCCchh------hcCcCCCCCCC
Confidence 57778776532 34478888875
No 110
>PRK03954 ribonuclease P protein component 4; Validated
Probab=41.92 E-value=13 Score=32.98 Aligned_cols=32 Identities=25% Similarity=0.541 Sum_probs=23.8
Q ss_pred CCCCCCeeeeccc--e--eecc-----eeEecCCCCCCCCC
Q 006547 52 RCENCYAYFNTYC--E--LEQW-----AWTCSLCGSLNGLS 83 (641)
Q Consensus 52 RC~~C~ayiNp~~--~--~~~~-----~w~C~~C~~~N~~p 83 (641)
-|++|.+++=|-. . +.++ .++|..||+..-+|
T Consensus 66 ~CK~C~t~LiPG~n~~vRi~~~~~~~vvitCl~CG~~kR~P 106 (121)
T PRK03954 66 YCKRCHSFLVPGVNARVRLRQKRMPHVVITCLECGHIMRYP 106 (121)
T ss_pred HhhcCCCeeecCCceEEEEecCCcceEEEECccCCCEEeec
Confidence 4999999997743 2 3332 35999999988776
No 111
>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=41.87 E-value=13 Score=40.04 Aligned_cols=27 Identities=30% Similarity=0.684 Sum_probs=21.0
Q ss_pred CCCCCCeeeeccceeecceeEecCCCCCCCCCh
Q 006547 52 RCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (641)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~ 84 (641)
+|++|+.- .-...|+|+-|+..|.+.+
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 2235899999999998865
No 112
>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=41.37 E-value=13 Score=32.89 Aligned_cols=32 Identities=19% Similarity=0.486 Sum_probs=25.8
Q ss_pred CCCCCCCCeeeeccceeec---ceeEecCCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQ---WAWTCSLCGSLNG 81 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~---~~w~C~~C~~~N~ 81 (641)
...|..|+-.+-.-|.+.. ..|.|++|.....
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 3789999999999988763 6899999976443
No 113
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=40.95 E-value=17 Score=26.76 Aligned_cols=26 Identities=23% Similarity=0.635 Sum_probs=19.2
Q ss_pred CCCCCCCeeeeccceeecceeEecCCCCC
Q 006547 51 PRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (641)
..|.+|++ + |+.....+|.|.-||..
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 114
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=40.19 E-value=14 Score=28.71 Aligned_cols=26 Identities=19% Similarity=0.452 Sum_probs=18.8
Q ss_pred CCCCCCCeeeeccceeecceeEecCCCCCCCCCh
Q 006547 51 PRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~ 84 (641)
.-|++|+...+ .. +|+.||..+..++
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 45999998763 12 8999999864443
No 115
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=39.95 E-value=12 Score=33.40 Aligned_cols=31 Identities=19% Similarity=0.438 Sum_probs=19.7
Q ss_pred CCCCCCCCeeeecc-ceeecc--eeEecCCCCCCC
Q 006547 50 LPRCENCYAYFNTY-CELEQW--AWTCSLCGSLNG 81 (641)
Q Consensus 50 ~~RC~~C~ayiNp~-~~~~~~--~w~C~~C~~~N~ 81 (641)
-.|| .|+.+..+- ...+.. .|.||-||..+.
T Consensus 70 ~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~ 103 (124)
T PRK00762 70 EIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRA 103 (124)
T ss_pred eEEe-eCcCcccccccchhccccCCcCcCCCCCCC
Confidence 4699 999764432 122222 378999997763
No 116
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=39.04 E-value=22 Score=23.97 Aligned_cols=28 Identities=18% Similarity=0.438 Sum_probs=13.9
Q ss_pred CCCCCCeeeecccee-ec-ceeEecCCCCC
Q 006547 52 RCENCYAYFNTYCEL-EQ-WAWTCSLCGSL 79 (641)
Q Consensus 52 RC~~C~ayiNp~~~~-~~-~~w~C~~C~~~ 79 (641)
-|+.|++=+.--.-- |+ .+|+|+-||..
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 388888865433321 22 58999999864
No 117
>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=38.72 E-value=11 Score=24.34 Aligned_cols=15 Identities=33% Similarity=0.742 Sum_probs=12.5
Q ss_pred ceeEecCCCCCCCCC
Q 006547 69 WAWTCSLCGSLNGLS 83 (641)
Q Consensus 69 ~~w~C~~C~~~N~~p 83 (641)
+.|.|+.|...|...
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 579999999999643
No 118
>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=38.66 E-value=16 Score=24.95 Aligned_cols=26 Identities=19% Similarity=0.522 Sum_probs=13.7
Q ss_pred CCCCCeeeeccceeecceeEecCCCC
Q 006547 53 CENCYAYFNTYCELEQWAWTCSLCGS 78 (641)
Q Consensus 53 C~~C~ayiNp~~~~~~~~w~C~~C~~ 78 (641)
|..|++.-|-...--....+|..||.
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 66666666654443334556666654
No 119
>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=38.53 E-value=17 Score=25.07 Aligned_cols=28 Identities=32% Similarity=0.650 Sum_probs=19.9
Q ss_pred CCCCCCCeeeeccceee-cceeEecCCCC
Q 006547 51 PRCENCYAYFNTYCELE-QWAWTCSLCGS 78 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~-~~~w~C~~C~~ 78 (641)
.||..|+.......... .....|+-||.
T Consensus 6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKISDDPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecCCCCCCCCCCCCC
Confidence 48888888666554443 45778888887
No 120
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=38.46 E-value=19 Score=32.45 Aligned_cols=33 Identities=24% Similarity=0.595 Sum_probs=22.9
Q ss_pred CCCCCCCeeeeccceeec--ceeEecCCCCCCCCChh
Q 006547 51 PRCENCYAYFNTYCELEQ--WAWTCSLCGSLNGLSSQ 85 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~N~~p~~ 85 (641)
++|.-|+.. .-+..+. +.|.|+-|+..|.+..+
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 468888764 2223333 45999999999988765
No 121
>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=38.20 E-value=21 Score=27.92 Aligned_cols=29 Identities=21% Similarity=0.377 Sum_probs=22.3
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (641)
--.|..|+...-- ....+.|+|+-||..-
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 3579999987655 4456899999999863
No 122
>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=37.80 E-value=21 Score=25.22 Aligned_cols=25 Identities=24% Similarity=0.604 Sum_probs=17.4
Q ss_pred CCCCCCeeeeccceee--cceeEecCCCCC
Q 006547 52 RCENCYAYFNTYCELE--QWAWTCSLCGSL 79 (641)
Q Consensus 52 RC~~C~ayiNp~~~~~--~~~w~C~~C~~~ 79 (641)
+|..|++-- ..+| ...++|.-||..
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 368999999964
No 123
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=36.83 E-value=48 Score=34.28 Aligned_cols=30 Identities=30% Similarity=0.439 Sum_probs=27.1
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEeecc
Q 006547 135 EFLELTRSALQAALEAVPSGALFGLATFSH 164 (641)
Q Consensus 135 ~~l~~~~~~l~~~l~~lp~~~~VgiItfd~ 164 (641)
.+|+.++++|.++++.|.++.|+++|||-+
T Consensus 218 dEL~~L~~~L~~a~~~L~~gGRl~VIsFHS 247 (314)
T COG0275 218 DELEELEEALEAALDLLKPGGRLAVISFHS 247 (314)
T ss_pred hHHHHHHHHHHHHHHhhCCCcEEEEEEecc
Confidence 678899999999999999999999999854
No 124
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=36.24 E-value=27 Score=25.00 Aligned_cols=26 Identities=19% Similarity=0.284 Sum_probs=14.5
Q ss_pred CCCCCCeeeeccceeecceeEecCCCCCC
Q 006547 52 RCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (641)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (641)
+|.+|++-++.- ....-+|+-||+.-
T Consensus 4 ~C~~Cg~~~~~~---~~~~irC~~CG~rI 29 (44)
T smart00659 4 ICGECGRENEIK---SKDVVRCRECGYRI 29 (44)
T ss_pred ECCCCCCEeecC---CCCceECCCCCceE
Confidence 566676643322 23456777777653
No 125
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=35.08 E-value=32 Score=23.00 Aligned_cols=29 Identities=28% Similarity=0.373 Sum_probs=20.0
Q ss_pred CCCCCCCCCeeeeccce-eecceeEecCCCCCC
Q 006547 49 MLPRCENCYAYFNTYCE-LEQWAWTCSLCGSLN 80 (641)
Q Consensus 49 ~~~RC~~C~ayiNp~~~-~~~~~w~C~~C~~~N 80 (641)
.+.+|..|++-. .- -++....|.+|+...
T Consensus 2 ~~~~C~~C~~~~---i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 2 NLKKCSKCGGNG---IVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred CceEcCCCCCCe---EEEecCCeEEcccCCcEe
Confidence 357899998843 11 234688999999754
No 126
>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=34.38 E-value=24 Score=32.50 Aligned_cols=31 Identities=26% Similarity=0.701 Sum_probs=21.7
Q ss_pred CCCCCCCCeeeeccceee-------------cceeEecCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELE-------------QWAWTCSLCGSLN 80 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~-------------~~~w~C~~C~~~N 80 (641)
..||..|.+-+-+-.+-+ +.-|+|+-||+.-
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 1489999999864
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=34.11 E-value=21 Score=20.83 Aligned_cols=12 Identities=25% Similarity=0.783 Sum_probs=7.3
Q ss_pred eEecCCCCCCCC
Q 006547 71 WTCSLCGSLNGL 82 (641)
Q Consensus 71 w~C~~C~~~N~~ 82 (641)
|.|++|+....-
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
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]
Probab=33.81 E-value=24 Score=35.94 Aligned_cols=28 Identities=14% Similarity=0.371 Sum_probs=19.4
Q ss_pred CCCCCCCeeeeccceeecceeEecCCCC
Q 006547 51 PRCENCYAYFNTYCELEQWAWTCSLCGS 78 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~ 78 (641)
--|++|++-|---..-....|.|+-|.+
T Consensus 246 epC~~CGt~I~k~~~~gR~t~~CP~CQ~ 273 (273)
T COG0266 246 EPCRRCGTPIEKIKLGGRSTFYCPVCQK 273 (273)
T ss_pred CCCCccCCEeEEEEEcCCcCEeCCCCCC
Confidence 3488999976433222346999999974
No 129
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=33.77 E-value=20 Score=32.57 Aligned_cols=31 Identities=23% Similarity=0.502 Sum_probs=20.2
Q ss_pred CCCCCCCCeeeeccc-e------------e----ecceeEecCCCCCC
Q 006547 50 LPRCENCYAYFNTYC-E------------L----EQWAWTCSLCGSLN 80 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~-~------------~----~~~~w~C~~C~~~N 80 (641)
..||..|+.....-- + + ....|.||-||..+
T Consensus 70 ~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~ 117 (135)
T PRK03824 70 VLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRD 117 (135)
T ss_pred EEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCC
Confidence 468999996544421 0 0 03568899999875
No 130
>PRK12722 transcriptional activator FlhC; Provisional
Probab=33.35 E-value=19 Score=34.43 Aligned_cols=28 Identities=21% Similarity=0.580 Sum_probs=20.2
Q ss_pred CCCCCCCCCeeeecccee-e--cceeEecCCCCC
Q 006547 49 MLPRCENCYAYFNTYCEL-E--QWAWTCSLCGSL 79 (641)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~-~--~~~w~C~~C~~~ 79 (641)
...+|++|++ .|+.- . ...++|++|+-.
T Consensus 133 ~l~~C~~Cgg---~fv~~~~e~~~~f~CplC~~p 163 (187)
T PRK12722 133 QLSSCNCCGG---HFVTHAHDPVGSFVCGLCQPP 163 (187)
T ss_pred eeccCCCCCC---CeeccccccCCCCcCCCCCCc
Confidence 4678999998 44322 2 369999999873
No 131
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=32.99 E-value=26 Score=23.93 Aligned_cols=29 Identities=28% Similarity=0.575 Sum_probs=16.3
Q ss_pred CCCCCCCeeeeccc-eee--cceeEecCCCCC
Q 006547 51 PRCENCYAYFNTYC-ELE--QWAWTCSLCGSL 79 (641)
Q Consensus 51 ~RC~~C~ayiNp~~-~~~--~~~w~C~~C~~~ 79 (641)
++|.+|++-.+-=- ++. +++.+|+-|++.
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 56777777544322 221 256777777764
No 132
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=32.01 E-value=15 Score=27.97 Aligned_cols=22 Identities=41% Similarity=0.880 Sum_probs=12.0
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (641)
|.||.+||-.-| .++|+-||..
T Consensus 36 I~RC~~CRk~~~--------~Y~CP~CGF~ 57 (59)
T PRK14890 36 IYRCEKCRKQSN--------PYTCPKCGFE 57 (59)
T ss_pred EeechhHHhcCC--------ceECCCCCCc
Confidence 455555554333 4467767653
No 133
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=31.77 E-value=31 Score=30.91 Aligned_cols=25 Identities=20% Similarity=0.542 Sum_probs=19.8
Q ss_pred CCCCCCCeeeeccceeecceeEecCCCCC
Q 006547 51 PRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (641)
--|..|++ |..+ -++.-.|+.|++.
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 4578999999953
No 134
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=30.95 E-value=22 Score=21.96 Aligned_cols=14 Identities=43% Similarity=0.850 Sum_probs=11.6
Q ss_pred eeEecCCCCCCCCC
Q 006547 70 AWTCSLCGSLNGLS 83 (641)
Q Consensus 70 ~w~C~~C~~~N~~p 83 (641)
.|.|..|+..|...
T Consensus 2 ~W~C~~C~~~N~~~ 15 (26)
T smart00547 2 DWECPACTFLNFAS 15 (26)
T ss_pred cccCCCCCCcChhh
Confidence 69999999999643
No 135
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=30.89 E-value=15 Score=27.94 Aligned_cols=24 Identities=29% Similarity=0.654 Sum_probs=11.9
Q ss_pred CCCCCCCCCCeeeeccceeecceeEecCCCCC
Q 006547 48 HMLPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (641)
Q Consensus 48 ~~~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (641)
..|.||.+||-.=| .++|+-||..
T Consensus 36 ~~I~Rc~~CRk~g~--------~Y~Cp~CGF~ 59 (61)
T COG2888 36 VEIYRCAKCRKLGN--------PYRCPKCGFE 59 (61)
T ss_pred eeeehhhhHHHcCC--------ceECCCcCcc
Confidence 34555555554333 3456666543
No 136
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=30.42 E-value=38 Score=25.76 Aligned_cols=25 Identities=28% Similarity=0.487 Sum_probs=19.6
Q ss_pred CCCCCCCCCeeeeccceeecceeEecCCCCCC
Q 006547 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (641)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (641)
.+..|..|+.+.=| .-.|+.||..+
T Consensus 26 ~l~~C~~CG~~~~~-------H~vC~~CG~Y~ 50 (57)
T PRK12286 26 GLVECPNCGEPKLP-------HRVCPSCGYYK 50 (57)
T ss_pred cceECCCCCCccCC-------eEECCCCCcCC
Confidence 56889999997554 56899999765
No 137
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.21 E-value=25 Score=31.27 Aligned_cols=30 Identities=20% Similarity=0.568 Sum_probs=18.0
Q ss_pred CCCCCCCeeeeccceeecceeEecCCCCCCCC
Q 006547 51 PRCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~ 82 (641)
--|.+|++-+.-- -+.-+|.||+|...-.+
T Consensus 90 r~CARCGGrv~lr--sNKv~wvcnlc~k~q~i 119 (169)
T KOG3799|consen 90 RFCARCGGRVSLR--SNKVMWVCNLCRKQQEI 119 (169)
T ss_pred hHHHhcCCeeeec--cCceEEeccCCcHHHHH
Confidence 3467777643211 11248999999976553
No 138
>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=30.14 E-value=30 Score=29.64 Aligned_cols=27 Identities=19% Similarity=0.486 Sum_probs=21.6
Q ss_pred CCCCCCeeeeccceeecceeEecCCCCCCCC
Q 006547 52 RCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (641)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~ 82 (641)
.|.+|++.|.|- ...|.|+-|+.....
T Consensus 2 fC~~Cg~~l~~~----~~~~~C~~C~~~~~~ 28 (104)
T TIGR01384 2 FCPKCGSLMTPK----NGVYVCPSCGYEKEK 28 (104)
T ss_pred CCcccCcccccC----CCeEECcCCCCcccc
Confidence 599999999653 468999999987554
No 139
>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=29.69 E-value=74 Score=28.07 Aligned_cols=33 Identities=15% Similarity=0.287 Sum_probs=24.9
Q ss_pred hHHHHHHHHHHHHHHhCCC---CcEEEEEeecceEE
Q 006547 135 EFLELTRSALQAALEAVPS---GALFGLATFSHKIG 167 (641)
Q Consensus 135 ~~l~~~~~~l~~~l~~lp~---~~~VgiItfd~~V~ 167 (641)
.+.+.+++||+.-+..-|. +++|-+++||+.|-
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 4567899999887766553 67999999998774
No 140
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=29.35 E-value=29 Score=26.77 Aligned_cols=26 Identities=23% Similarity=0.501 Sum_probs=18.3
Q ss_pred CCCCCCeeeeccceeecceeEecCCCCCCCCChh
Q 006547 52 RCENCYAYFNTYCELEQWAWTCSLCGSLNGLSSQ 85 (641)
Q Consensus 52 RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~~ 85 (641)
-|++|+...+ .. +|+.||...-..++
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 5999998763 12 69999997744433
No 141
>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=29.16 E-value=38 Score=22.46 Aligned_cols=13 Identities=23% Similarity=0.273 Sum_probs=9.2
Q ss_pred CCCCCCCCCCCee
Q 006547 47 GHMLPRCENCYAY 59 (641)
Q Consensus 47 ~~~~~RC~~C~ay 59 (641)
..+++||..|+.-
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 4567899999863
No 142
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=29.05 E-value=9.1 Score=28.28 Aligned_cols=33 Identities=18% Similarity=0.386 Sum_probs=20.4
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~ 82 (641)
-+||..|.-.+----..---.-+|+-|...|.+
T Consensus 4 tiRC~~CnKlLa~a~~~~yle~KCPrCK~vN~~ 36 (60)
T COG4416 4 TIRCAKCNKLLAEAEGQAYLEKKCPRCKEVNEF 36 (60)
T ss_pred eeehHHHhHHHHhcccceeeeecCCccceeeee
Confidence 378998875432211111135789999999975
No 143
>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=28.93 E-value=19 Score=26.51 Aligned_cols=10 Identities=30% Similarity=1.185 Sum_probs=4.0
Q ss_pred ceeEecCCCC
Q 006547 69 WAWTCSLCGS 78 (641)
Q Consensus 69 ~~w~C~~C~~ 78 (641)
+.|.|++|++
T Consensus 40 ~~W~CPiC~~ 49 (50)
T PF02891_consen 40 PKWKCPICNK 49 (50)
T ss_dssp ---B-TTT--
T ss_pred CCeECcCCcC
Confidence 5899999986
No 144
>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=28.63 E-value=71 Score=33.27 Aligned_cols=30 Identities=27% Similarity=0.328 Sum_probs=26.7
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEeecc
Q 006547 135 EFLELTRSALQAALEAVPSGALFGLATFSH 164 (641)
Q Consensus 135 ~~l~~~~~~l~~~l~~lp~~~~VgiItfd~ 164 (641)
.+|+.+..+|.++.+.|.++-|+++|||-+
T Consensus 214 ~EL~~L~~~L~~~~~~L~~gGrl~VISfHS 243 (305)
T TIGR00006 214 DELEELEEALQFAPNLLAPGGRLSIISFHS 243 (305)
T ss_pred HhHHHHHHHHHHHHHHhcCCCEEEEEecCc
Confidence 678889999999999999999999999854
No 145
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=28.05 E-value=52 Score=37.44 Aligned_cols=33 Identities=21% Similarity=0.089 Sum_probs=25.3
Q ss_pred cccchhhhccCCCcEEEEeCCcEEEEEEcCCCCC
Q 006547 588 HSLSRAALITSGSPIFLLDAFTTIIVFYSSTADP 621 (641)
Q Consensus 588 ~~L~~~~~~~~~~~iyLlD~~~~i~i~~g~~~~~ 621 (641)
|+.+...+ +++--.||||.|.+||||-|.....
T Consensus 638 PVpl~~tS-LDPRf~FlLD~G~~IyiW~G~~s~~ 670 (1255)
T KOG0444|consen 638 PVPLSVTS-LDPRFCFLLDAGETIYIWSGYKSRI 670 (1255)
T ss_pred ccCccccc-cCcceEEEEeCCceEEEEeccchhc
Confidence 34444445 5788899999999999999987543
No 146
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=27.70 E-value=36 Score=23.14 Aligned_cols=29 Identities=31% Similarity=0.608 Sum_probs=14.9
Q ss_pred CCCCCCCeeeeccce-ee--cceeEecCCCCC
Q 006547 51 PRCENCYAYFNTYCE-LE--QWAWTCSLCGSL 79 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~-~~--~~~w~C~~C~~~ 79 (641)
++|.+|++-.+-=-. +- .++.+|.-|++.
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 467777764332211 11 146777777653
No 147
>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=27.69 E-value=49 Score=20.46 Aligned_cols=23 Identities=22% Similarity=0.609 Sum_probs=11.4
Q ss_pred CCCCCeeeeccceeecceeEecCCC
Q 006547 53 CENCYAYFNTYCELEQWAWTCSLCG 77 (641)
Q Consensus 53 C~~C~ayiNp~~~~~~~~w~C~~C~ 77 (641)
|.+|+.-|-|--+ ...|.|+-||
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 5555554433211 2356677666
No 148
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=27.05 E-value=1.1e+02 Score=34.41 Aligned_cols=46 Identities=15% Similarity=0.262 Sum_probs=28.9
Q ss_pred ccChhcccccccccceEEEEeCCCCCCchhHHHHHHhccCccceeEEEE
Q 006547 338 YTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRMLSRPYAFNCIMRL 386 (641)
Q Consensus 338 ~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~~~l~~~~~~~a~~rv 386 (641)
.+|-.-+..+|+.|||+-|..- +...+.+.|..++++ .-|.++++.
T Consensus 191 p~Dds~IermCevTGGRSysV~--Spr~lnqciesLvqk-vQ~gVvv~F 236 (888)
T KOG3768|consen 191 PIDDSVIERMCEVTGGRSYSVV--SPRQLNQCIESLVQK-VQYGVVVRF 236 (888)
T ss_pred CCCchhhHHhhhhcCCceeeee--CHHHHHHHHHHHHHh-hccCeEEEe
Confidence 3566778999999999976653 333466666655554 234444443
No 149
>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=26.87 E-value=26 Score=33.32 Aligned_cols=27 Identities=19% Similarity=0.720 Sum_probs=10.2
Q ss_pred CCCCCCCCCeeeecccee--e-cceeEecCCCC
Q 006547 49 MLPRCENCYAYFNTYCEL--E-QWAWTCSLCGS 78 (641)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~--~-~~~w~C~~C~~ 78 (641)
...+|.+|++ .|+.- + ...++|++|+-
T Consensus 133 ~l~~C~~C~~---~fv~~~~~~~~~~~Cp~C~~ 162 (175)
T PF05280_consen 133 QLAPCRRCGG---HFVTHAHDPRHSFVCPFCQP 162 (175)
T ss_dssp EEEE-TTT-----EEEEESS--SS----TT---
T ss_pred cccCCCCCCC---CeECcCCCCCcCcCCCCCCC
Confidence 4568999998 33332 2 36899999993
No 150
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=26.60 E-value=30 Score=25.37 Aligned_cols=26 Identities=35% Similarity=0.677 Sum_probs=16.8
Q ss_pred CCCCCCCeeeeccceeec--ceeEecCCCCCC
Q 006547 51 PRCENCYAYFNTYCELEQ--WAWTCSLCGSLN 80 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~N 80 (641)
-+|.+|++-+ ..+. ..-.|+-||+.-
T Consensus 7 Y~C~~Cg~~~----~~~~~~~~irCp~Cg~rI 34 (49)
T COG1996 7 YKCARCGREV----ELDQETRGIRCPYCGSRI 34 (49)
T ss_pred EEhhhcCCee----ehhhccCceeCCCCCcEE
Confidence 4688888765 3222 567788888764
No 151
>PRK12860 transcriptional activator FlhC; Provisional
Probab=26.51 E-value=33 Score=32.92 Aligned_cols=26 Identities=27% Similarity=0.792 Sum_probs=19.3
Q ss_pred CCCCCCCCCeeeeccce-e-e-cceeEecCCC
Q 006547 49 MLPRCENCYAYFNTYCE-L-E-QWAWTCSLCG 77 (641)
Q Consensus 49 ~~~RC~~C~ayiNp~~~-~-~-~~~w~C~~C~ 77 (641)
...+|.+|++ .|+. . + ...++|++|.
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 5679999998 3332 1 2 3699999999
No 152
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=26.24 E-value=1.1e+02 Score=28.04 Aligned_cols=25 Identities=24% Similarity=0.487 Sum_probs=19.1
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (641)
-.||.+|+.+.=| -+-.|+-|+...
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 3699999997433 455799999986
No 153
>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=25.22 E-value=21 Score=31.30 Aligned_cols=27 Identities=30% Similarity=0.883 Sum_probs=16.9
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (641)
-.||..|+.-..+ +...+.||.||..+
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 4689999986433 22347799999986
No 154
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=24.57 E-value=93 Score=32.29 Aligned_cols=30 Identities=30% Similarity=0.434 Sum_probs=26.5
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEeecc
Q 006547 135 EFLELTRSALQAALEAVPSGALFGLATFSH 164 (641)
Q Consensus 135 ~~l~~~~~~l~~~l~~lp~~~~VgiItfd~ 164 (641)
.+++.+..+|.++.+.|.++.++++|||.+
T Consensus 210 ~El~~L~~~L~~~~~~L~~gGrl~visfHS 239 (296)
T PRK00050 210 DELEELERALEAALDLLKPGGRLAVISFHS 239 (296)
T ss_pred hhHHHHHHHHHHHHHHhcCCCEEEEEecCc
Confidence 678889999999999999999999999964
No 155
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=24.08 E-value=40 Score=35.14 Aligned_cols=29 Identities=24% Similarity=0.674 Sum_probs=21.9
Q ss_pred CCCCCCCCCCeeeeccceeec--ceeEecCCCCCCCCCh
Q 006547 48 HMLPRCENCYAYFNTYCELEQ--WAWTCSLCGSLNGLSS 84 (641)
Q Consensus 48 ~~~~RC~~C~ayiNp~~~~~~--~~w~C~~C~~~N~~p~ 84 (641)
...-||++|+ |.. -.|-||-|+..-.+.+
T Consensus 352 ~~~YRC~~CG--------F~a~~l~W~CPsC~~W~TikP 382 (389)
T COG2956 352 KPRYRCQNCG--------FTAHTLYWHCPSCRAWETIKP 382 (389)
T ss_pred cCCceecccC--------CcceeeeeeCCCcccccccCC
Confidence 3567999998 332 4899999998877644
No 156
>PF12773 DZR: Double zinc ribbon
Probab=24.04 E-value=41 Score=24.40 Aligned_cols=31 Identities=23% Similarity=0.327 Sum_probs=22.9
Q ss_pred CCCCCCCCCeeeeccceeecceeEecCCCCCCCC
Q 006547 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (641)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~ 82 (641)
+-..|.+|++-+. ..+...++|+-|++.|..
T Consensus 11 ~~~fC~~CG~~l~---~~~~~~~~C~~Cg~~~~~ 41 (50)
T PF12773_consen 11 DAKFCPHCGTPLP---PPDQSKKICPNCGAENPP 41 (50)
T ss_pred cccCChhhcCChh---hccCCCCCCcCCcCCCcC
Confidence 3468999998777 223468999999998654
No 157
>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=23.70 E-value=83 Score=31.52 Aligned_cols=35 Identities=17% Similarity=0.455 Sum_probs=30.4
Q ss_pred CCCCCCCCCeeeeccceeecceeEecCCCCCCCCC
Q 006547 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLS 83 (641)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p 83 (641)
..+.|+-|++.||---+..+...+|+-|+.-+++-
T Consensus 64 p~v~CrVCq~~I~i~gk~~QhVVkC~~CnEATPIr 98 (256)
T PF09788_consen 64 PVVTCRVCQSLIDIEGKMHQHVVKCSVCNEATPIR 98 (256)
T ss_pred ceEEeecCCceecccCccceeeEECCCCCcccccc
Confidence 46789999999998888888899999999888763
No 158
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=22.78 E-value=34 Score=28.40 Aligned_cols=34 Identities=21% Similarity=0.260 Sum_probs=21.6
Q ss_pred CCCCCCCCCeeeeccceeecceeEecCCCCCCCCCh
Q 006547 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (641)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~p~ 84 (641)
.|+||++|+--.++ .-...--+|+-|...-.-++
T Consensus 57 ~Pa~CkkCGfef~~--~~ik~pSRCP~CKSE~Ie~p 90 (97)
T COG3357 57 RPARCKKCGFEFRD--DKIKKPSRCPKCKSEWIEEP 90 (97)
T ss_pred cChhhcccCccccc--cccCCcccCCcchhhcccCC
Confidence 58999999865444 00113568999987654433
No 159
>PF08273 Prim_Zn_Ribbon: Zinc-binding domain of primase-helicase; InterPro: IPR013237 This entry is represented by bacteriophage T7 Gp4. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a zinc binding domain found in the N-terminal region of the bacteriophage T7 Gp4 and P4 alpha protein. P4 is a multifunctional protein with origin recognition, helicase and primase activities [, , ].; GO: 0003896 DNA primase activity, 0004386 helicase activity, 0008270 zinc ion binding; PDB: 1NUI_B.
Probab=22.60 E-value=55 Score=22.97 Aligned_cols=25 Identities=24% Similarity=0.788 Sum_probs=14.7
Q ss_pred CCCCCeeeeccceeec----ceeEecCCCC
Q 006547 53 CENCYAYFNTYCELEQ----WAWTCSLCGS 78 (641)
Q Consensus 53 C~~C~ayiNp~~~~~~----~~w~C~~C~~ 78 (641)
|..|++ -.-|..+++ ..|+|+-|+.
T Consensus 6 CP~CGG-~DrFri~~d~~~~G~~~C~~C~~ 34 (40)
T PF08273_consen 6 CPICGG-KDRFRIFDDKDGRGTWICRQCGG 34 (40)
T ss_dssp -TTTT--TTTEEEETT----S-EEETTTTB
T ss_pred CCCCcC-ccccccCcCcccCCCEECCCCCC
Confidence 677777 344554554 6999999943
No 160
>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=22.60 E-value=58 Score=22.03 Aligned_cols=25 Identities=28% Similarity=0.410 Sum_probs=12.0
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (641)
.-||..|+.+.= .-+-.|+-|+..+
T Consensus 11 ~~rC~~Cg~~~~------pPr~~Cp~C~s~~ 35 (37)
T PF12172_consen 11 GQRCRDCGRVQF------PPRPVCPHCGSDE 35 (37)
T ss_dssp EEE-TTT--EEE------S--SEETTTT---
T ss_pred EEEcCCCCCEec------CCCcCCCCcCccc
Confidence 468999998722 2346888887543
No 161
>PRK12496 hypothetical protein; Provisional
Probab=22.57 E-value=36 Score=32.04 Aligned_cols=25 Identities=24% Similarity=0.521 Sum_probs=15.3
Q ss_pred CCCCCCCeeeeccceeecceeEecCCCCC
Q 006547 51 PRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (641)
-||..|+.+.+-- ...=.|+.||+.
T Consensus 128 ~~C~gC~~~~~~~----~~~~~C~~CG~~ 152 (164)
T PRK12496 128 KVCKGCKKKYPED----YPDDVCEICGSP 152 (164)
T ss_pred EECCCCCccccCC----CCCCcCCCCCCh
Confidence 5799999753210 012269999965
No 162
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=22.54 E-value=50 Score=34.51 Aligned_cols=26 Identities=23% Similarity=0.572 Sum_probs=21.1
Q ss_pred CCCCCCCCCeeeeccceeecceeEecCCCCCCC
Q 006547 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLNG 81 (641)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~ 81 (641)
.-..|..|+. +..+.|.|+-||...+
T Consensus 308 tS~~C~~cg~-------~~~r~~~C~~cg~~~~ 333 (364)
T COG0675 308 TSKTCPCCGH-------LSGRLFKCPRCGFVHD 333 (364)
T ss_pred CcccccccCC-------ccceeEECCCCCCeeh
Confidence 3468999999 5568999999998754
No 163
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=22.53 E-value=32 Score=28.24 Aligned_cols=15 Identities=20% Similarity=0.627 Sum_probs=6.6
Q ss_pred ceeEecCCCCCCCCC
Q 006547 69 WAWTCSLCGSLNGLS 83 (641)
Q Consensus 69 ~~w~C~~C~~~N~~p 83 (641)
..|.|+||++.+.+.
T Consensus 21 ~~F~CPfC~~~~sV~ 35 (81)
T PF05129_consen 21 KVFDCPFCNHEKSVS 35 (81)
T ss_dssp S----TTT--SS-EE
T ss_pred ceEcCCcCCCCCeEE
Confidence 689999999999874
No 164
>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=22.33 E-value=47 Score=22.26 Aligned_cols=11 Identities=36% Similarity=1.458 Sum_probs=9.3
Q ss_pred eeEecCCCCCC
Q 006547 70 AWTCSLCGSLN 80 (641)
Q Consensus 70 ~w~C~~C~~~N 80 (641)
.|+|..||..-
T Consensus 2 ~~~C~~CG~i~ 12 (34)
T cd00729 2 VWVCPVCGYIH 12 (34)
T ss_pred eEECCCCCCEe
Confidence 69999999763
No 165
>smart00778 Prim_Zn_Ribbon Zinc-binding domain of primase-helicase. This region represents the zinc binding domain. It is found in the N-terminal region of the bacteriophage P4 alpha protein, which is a multifunctional protein with origin recognition, helicase and primase activities.
Probab=22.10 E-value=70 Score=22.01 Aligned_cols=25 Identities=32% Similarity=0.971 Sum_probs=16.8
Q ss_pred CCCCCCeeeeccceeec----ceeEecCCCC
Q 006547 52 RCENCYAYFNTYCELEQ----WAWTCSLCGS 78 (641)
Q Consensus 52 RC~~C~ayiNp~~~~~~----~~w~C~~C~~ 78 (641)
-|..|++ -.-|- +++ ..|+|+-|+.
T Consensus 5 pCP~CGG-~DrFr-~~d~~g~G~~~C~~Cg~ 33 (37)
T smart00778 5 PCPNCGG-SDRFR-FDDKDGRGTWFCSVCGA 33 (37)
T ss_pred CCCCCCC-ccccc-cccCCCCcCEEeCCCCC
Confidence 4777777 23333 443 6899999986
No 166
>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=21.94 E-value=7.9e+02 Score=24.41 Aligned_cols=42 Identities=19% Similarity=0.220 Sum_probs=31.5
Q ss_pred chHHHHHHHHHHHcCcEEEEeeecCCccChhcccccccccceEEEE
Q 006547 312 TPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (641)
Q Consensus 312 ~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~ 357 (641)
...+++++..+.+.+|.+.++. .. -+..+..|-+..+|....
T Consensus 163 ~~~~d~la~~~~~~~I~LSiis--Pr--klP~l~~Lfeka~~~~~~ 204 (226)
T PF11265_consen 163 GKTCDQLAVLISERNISLSIIS--PR--KLPSLRSLFEKAKGNPRA 204 (226)
T ss_pred CCCHHHHHHHHHhcCceEEEEc--Cc--cCHHHHHHHHhcCCCccc
Confidence 3467899999999999999884 23 456677777777777655
No 167
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=21.87 E-value=52 Score=33.68 Aligned_cols=27 Identities=19% Similarity=0.448 Sum_probs=17.9
Q ss_pred CCCCCCCeeeeccceee-cceeEecCCCC
Q 006547 51 PRCENCYAYFNTYCELE-QWAWTCSLCGS 78 (641)
Q Consensus 51 ~RC~~C~ayiNp~~~~~-~~~w~C~~C~~ 78 (641)
--|.+|++-|=- .++. ...|.|+-|..
T Consensus 245 ~pCprCG~~I~~-~~~~gR~t~~CP~CQ~ 272 (272)
T PRK14810 245 EPCLNCKTPIRR-VVVAGRSSHYCPHCQK 272 (272)
T ss_pred CcCCCCCCeeEE-EEECCCccEECcCCcC
Confidence 359999986621 1122 36999999974
No 168
>TIGR00354 polC DNA polymerase, archaeal type II, large subunit. This model represents the large subunit, DP2, of a two subunit novel Archaeal replicative DNA polymerase first characterized for Pyrococcus furiosus. Structure of DP2 appears to be organized as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit.
Probab=21.85 E-value=44 Score=39.63 Aligned_cols=25 Identities=24% Similarity=0.725 Sum_probs=19.8
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~~ 82 (641)
.-||.+|+.| .-+++|+.||..+..
T Consensus 625 ~RKCPkCG~y--------Tlk~rCP~CG~~Te~ 649 (1095)
T TIGR00354 625 IRKCPQCGKE--------SFWLKCPVCGELTEQ 649 (1095)
T ss_pred EEECCCCCcc--------cccccCCCCCCcccc
Confidence 4589999987 346899999998754
No 169
>TIGR00375 conserved hypothetical protein TIGR00375. The member of this family from Methanococcus jannaschii, MJ0043, is considerably longer and appears to contain an intein N-terminal to the region of homology.
Probab=21.82 E-value=29 Score=37.24 Aligned_cols=32 Identities=22% Similarity=0.307 Sum_probs=22.0
Q ss_pred CCCCCCCCCCCCeeeeccceeecceeEecCCCCC
Q 006547 46 DGHMLPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (641)
Q Consensus 46 ~~~~~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (641)
+.+.---|++|+.-++|--. ....|+|+ ||..
T Consensus 236 GKYh~~~c~~C~~~~~~~~~-~~~~~~Cp-CG~~ 267 (374)
T TIGR00375 236 GKYHQTACEACGEPAVSEDA-ETACANCP-CGGR 267 (374)
T ss_pred CccchhhhcccCCcCCchhh-hhcCCCCC-CCCc
Confidence 34556789999876554311 12479999 9998
No 170
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=21.70 E-value=52 Score=19.73 Aligned_cols=13 Identities=15% Similarity=0.560 Sum_probs=9.0
Q ss_pred eEecCCCCCCCCC
Q 006547 71 WTCSLCGSLNGLS 83 (641)
Q Consensus 71 w~C~~C~~~N~~p 83 (641)
|.|.+|+..-.-+
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 7889998654433
No 171
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=21.40 E-value=35 Score=39.72 Aligned_cols=38 Identities=18% Similarity=0.542 Sum_probs=31.0
Q ss_pred CCCCCCCCCCeeeeccceee--------cceeEecCCCCCCCCChh
Q 006547 48 HMLPRCENCYAYFNTYCELE--------QWAWTCSLCGSLNGLSSQ 85 (641)
Q Consensus 48 ~~~~RC~~C~ayiNp~~~~~--------~~~w~C~~C~~~N~~p~~ 85 (641)
...-||+-|.-..+.+.... ++-|+||+||.+...+..
T Consensus 351 ~~khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkGN 396 (958)
T KOG1074|consen 351 FFKHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKGN 396 (958)
T ss_pred cccchhhhhHhhcCchhhhhhhhhccCCCCCeeecccccccccccc
Confidence 35678999999999998764 278999999998876654
No 172
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=21.14 E-value=50 Score=31.86 Aligned_cols=36 Identities=19% Similarity=0.317 Sum_probs=22.9
Q ss_pred CCCCCCCCeeeeccceee--cceeEecCCCCCCCCChh
Q 006547 50 LPRCENCYAYFNTYCELE--QWAWTCSLCGSLNGLSSQ 85 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~--~~~w~C~~C~~~N~~p~~ 85 (641)
-.-|++|.-==+-+.--. -..|+|++|++.|+.+.+
T Consensus 192 alIC~~C~hhngl~~~~ek~~~efiC~~Cn~~n~~~~~ 229 (251)
T COG5415 192 ALICPQCHHHNGLYRLAEKPIIEFICPHCNHKNDEVKE 229 (251)
T ss_pred hhccccccccccccccccccchheecccchhhcCcccc
Confidence 345777765333332222 147999999999987754
No 173
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=21.04 E-value=46 Score=29.21 Aligned_cols=28 Identities=36% Similarity=0.668 Sum_probs=18.9
Q ss_pred CCCCCCCCeeeeccceeecceeEecCCCCCCC
Q 006547 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNG 81 (641)
Q Consensus 50 ~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N~ 81 (641)
-.+|..|..+ ...+...+.||.|+..|.
T Consensus 70 ~~~C~~C~~~----~~~e~~~~~CP~C~s~~~ 97 (115)
T COG0375 70 ECWCLDCGQE----VELEELDYRCPKCGSINL 97 (115)
T ss_pred EEEeccCCCe----ecchhheeECCCCCCCce
Confidence 3689999554 233334555999998874
No 174
>COG1773 Rubredoxin [Energy production and conversion]
Probab=20.89 E-value=49 Score=24.93 Aligned_cols=15 Identities=33% Similarity=0.898 Sum_probs=11.1
Q ss_pred ceeec--ceeEecCCCC
Q 006547 64 CELEQ--WAWTCSLCGS 78 (641)
Q Consensus 64 ~~~~~--~~w~C~~C~~ 78 (641)
..|++ -.|.|+.||.
T Consensus 28 T~fedlPd~w~CP~Cg~ 44 (55)
T COG1773 28 TPFEDLPDDWVCPECGV 44 (55)
T ss_pred CchhhCCCccCCCCCCC
Confidence 34554 6899999996
No 175
>TIGR00340 zpr1_rel ZPR1-related zinc finger protein. A model ZPR1_znf (TIGR00310) has been created to describe the domain shared by this protein and ZPR1.
Probab=20.88 E-value=70 Score=30.05 Aligned_cols=13 Identities=23% Similarity=0.621 Sum_probs=11.5
Q ss_pred ceeEecCCCCCCC
Q 006547 69 WAWTCSLCGSLNG 81 (641)
Q Consensus 69 ~~w~C~~C~~~N~ 81 (641)
..|.|+-||.+|.
T Consensus 27 ~sf~C~~CGyr~~ 39 (163)
T TIGR00340 27 STYICEKCGYRST 39 (163)
T ss_pred EEEECCCCCCchh
Confidence 6999999998875
No 176
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=20.85 E-value=61 Score=22.58 Aligned_cols=27 Identities=19% Similarity=0.387 Sum_probs=14.5
Q ss_pred CCCCCeeeeccceeecceeEecCCCCC
Q 006547 53 CENCYAYFNTYCELEQWAWTCSLCGSL 79 (641)
Q Consensus 53 C~~C~ayiNp~~~~~~~~w~C~~C~~~ 79 (641)
|.+|++-+.+.-.-+-.-+.|+-|+-.
T Consensus 2 CP~C~~~l~~~~~~~~~id~C~~C~G~ 28 (41)
T PF13453_consen 2 CPRCGTELEPVRLGDVEIDVCPSCGGI 28 (41)
T ss_pred cCCCCcccceEEECCEEEEECCCCCeE
Confidence 666666555443311245666666643
No 177
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=20.75 E-value=47 Score=20.67 Aligned_cols=8 Identities=50% Similarity=0.795 Sum_probs=4.9
Q ss_pred CCCCCCCe
Q 006547 51 PRCENCYA 58 (641)
Q Consensus 51 ~RC~~C~a 58 (641)
..|.+|++
T Consensus 3 ~~Cp~Cg~ 10 (26)
T PF13248_consen 3 MFCPNCGA 10 (26)
T ss_pred CCCcccCC
Confidence 45666666
No 178
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=20.48 E-value=41 Score=23.56 Aligned_cols=9 Identities=44% Similarity=1.198 Sum_probs=7.3
Q ss_pred CCCCCCCee
Q 006547 51 PRCENCYAY 59 (641)
Q Consensus 51 ~RC~~C~ay 59 (641)
+||.+|++|
T Consensus 2 ~kC~~CG~~ 10 (40)
T PF15288_consen 2 VKCKNCGAF 10 (40)
T ss_pred ccccccccc
Confidence 588889885
No 179
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=20.35 E-value=54 Score=38.46 Aligned_cols=30 Identities=23% Similarity=0.603 Sum_probs=20.3
Q ss_pred CCCCCCCCCeeeeccceeecceeEecCCCCCC
Q 006547 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (641)
Q Consensus 49 ~~~RC~~C~ayiNp~~~~~~~~w~C~~C~~~N 80 (641)
..-+|..|+ | ..-...+.+.|.||-||..+
T Consensus 640 ~~~~C~~CG-~-~Ge~~~~~~~~~CP~CG~~~ 669 (711)
T PRK09263 640 PIDECYECG-F-TGEFECTEKGFTCPKCGNHD 669 (711)
T ss_pred CCcccCCCC-C-CccccCCCCCCcCcCCCCCC
Confidence 456899999 3 22222244569999999876
No 180
>PF04032 Rpr2: RNAse P Rpr2/Rpp21/SNM1 subunit domain; InterPro: IPR007175 This family contains a ribonuclease P subunit of human and yeast. Other members of the family include the probable archaeal homologues. This subunit possibly binds the precursor tRNA [].; PDB: 2K3R_A 2KI7_B 2ZAE_B 1X0T_A.
Probab=20.22 E-value=78 Score=25.72 Aligned_cols=28 Identities=21% Similarity=0.602 Sum_probs=16.3
Q ss_pred CCCCCCCeeeeccc----eee-----c--ceeEecCCCC
Q 006547 51 PRCENCYAYFNTYC----ELE-----Q--WAWTCSLCGS 78 (641)
Q Consensus 51 ~RC~~C~ayiNp~~----~~~-----~--~~w~C~~C~~ 78 (641)
.-|++|++++=|-. ++. . -.|+|..||+
T Consensus 47 ~~Ck~C~~~liPG~~~~vri~~~~~~~~~l~~~C~~C~~ 85 (85)
T PF04032_consen 47 TICKKCGSLLIPGVNCSVRIRKKKKKKNFLVYTCLNCGH 85 (85)
T ss_dssp TB-TTT--B--CTTTEEEEEE---SSS-EEEEEETTTTE
T ss_pred ccccCCCCEEeCCCccEEEEEecCCCCCEEEEEccccCC
Confidence 46999999988864 233 1 2799999984
Done!