Query 004303
Match_columns 762
No_of_seqs 188 out of 749
Neff 8.0
Searched_HMMs 46136
Date Thu Mar 28 21:06:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004303.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004303hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00162 transport protein sec 100.0 4E-156 9E-161 1369.2 75.3 734 2-748 1-757 (761)
2 KOG1986 Vesicle coat complex C 100.0 4E-152 9E-157 1236.2 63.7 718 3-746 2-738 (745)
3 COG5047 SEC23 Vesicle coat com 100.0 2E-144 3E-149 1146.1 49.2 727 2-746 1-748 (755)
4 KOG1984 Vesicle coat complex C 100.0 4E-127 1E-131 1055.6 51.1 669 6-752 283-1005(1007)
5 KOG1985 Vesicle coat complex C 100.0 4E-124 1E-128 1031.6 48.4 661 6-750 166-886 (887)
6 PTZ00395 Sec24-related protein 100.0 3E-115 8E-120 1000.5 53.9 667 6-752 648-1556(1560)
7 COG5028 Vesicle coat complex C 100.0 3E-113 6E-118 938.2 49.8 655 6-751 146-861 (861)
8 cd01478 Sec23-like Sec23-like: 100.0 2.7E-54 5.7E-59 449.4 27.6 264 128-395 2-267 (267)
9 cd01479 Sec24-like Sec24-like: 100.0 1.1E-44 2.3E-49 374.6 22.1 226 128-397 2-236 (244)
10 cd01468 trunk_domain trunk dom 100.0 1.5E-44 3.2E-49 374.0 22.4 230 128-397 2-237 (239)
11 PF04811 Sec23_trunk: Sec23/Se 100.0 2.9E-43 6.3E-48 365.8 21.0 232 128-397 2-239 (243)
12 PF08033 Sec23_BS: Sec23/Sec24 99.9 1.1E-21 2.4E-26 173.2 12.5 96 407-513 1-96 (96)
13 PF04815 Sec23_helical: Sec23/ 99.8 1.7E-18 3.6E-23 155.0 8.0 98 528-628 1-103 (103)
14 PF04810 zf-Sec23_Sec24: Sec23 99.6 2.1E-16 4.5E-21 114.6 2.1 40 57-96 1-40 (40)
15 cd01465 vWA_subgroup VWA subgr 98.6 3E-06 6.5E-11 82.8 17.0 158 132-384 3-163 (170)
16 cd01463 vWA_VGCC_like VWA Volt 98.5 6.5E-06 1.4E-10 82.3 17.6 167 128-384 12-189 (190)
17 cd01451 vWA_Magnesium_chelatas 98.5 1.2E-05 2.6E-10 79.5 18.4 163 132-389 3-172 (178)
18 cd01456 vWA_ywmD_type VWA ywmD 98.4 5.2E-06 1.1E-10 84.2 15.4 168 128-378 19-196 (206)
19 cd01466 vWA_C3HC4_type VWA C3H 98.4 7.5E-06 1.6E-10 79.1 15.5 149 132-381 3-154 (155)
20 PRK13685 hypothetical protein; 98.4 1.3E-05 2.8E-10 87.2 19.0 162 128-383 87-275 (326)
21 cd01453 vWA_transcription_fact 98.3 2.2E-05 4.7E-10 78.1 16.2 152 131-383 5-167 (183)
22 PF00626 Gelsolin: Gelsolin re 98.2 2.6E-06 5.5E-11 71.6 5.4 72 640-727 4-76 (76)
23 cd01472 vWA_collagen von Wille 98.2 0.00014 3E-09 70.7 18.3 151 132-383 3-163 (164)
24 TIGR00868 hCaCC calcium-activa 98.1 0.00016 3.6E-09 86.2 20.6 154 128-383 303-462 (863)
25 cd01470 vWA_complement_factors 98.1 0.0001 2.2E-09 74.2 16.3 168 132-385 3-191 (198)
26 cd01452 VWA_26S_proteasome_sub 98.1 0.00012 2.7E-09 72.3 15.5 144 131-374 5-161 (187)
27 cd01467 vWA_BatA_type VWA BatA 98.0 0.0005 1.1E-08 67.8 18.6 155 131-383 4-176 (180)
28 cd01461 vWA_interalpha_trypsin 98.0 0.00048 1E-08 67.1 17.6 160 129-385 2-163 (171)
29 TIGR03436 acidobact_VWFA VWFA- 98.0 0.00059 1.3E-08 73.2 19.9 49 128-176 52-102 (296)
30 cd01480 vWA_collagen_alpha_1-V 97.9 0.00037 8.1E-09 69.4 16.4 157 131-385 4-173 (186)
31 PF13768 VWA_3: von Willebrand 97.9 0.00048 1E-08 66.3 15.6 151 132-379 3-154 (155)
32 PF13519 VWA_2: von Willebrand 97.8 0.00036 7.9E-09 67.6 14.1 150 132-382 2-159 (172)
33 TIGR03788 marine_srt_targ mari 97.8 0.015 3.3E-07 68.7 30.0 186 128-414 270-457 (596)
34 cd01475 vWA_Matrilin VWA_Matri 97.8 0.00097 2.1E-08 68.5 17.4 155 130-385 3-170 (224)
35 cd01482 vWA_collagen_alphaI-XI 97.7 0.002 4.3E-08 62.7 17.6 45 132-176 3-52 (164)
36 cd01469 vWA_integrins_alpha_su 97.7 0.0028 6.1E-08 62.5 17.5 156 132-385 3-172 (177)
37 cd01474 vWA_ATR ATR (Anthrax T 97.6 0.0015 3.4E-08 64.8 15.1 156 129-385 4-168 (185)
38 cd01450 vWFA_subfamily_ECM Von 97.5 0.0046 1E-07 59.2 16.7 145 132-375 3-156 (161)
39 cd01471 vWA_micronemal_protein 97.5 0.004 8.6E-08 61.8 16.0 148 132-373 3-160 (186)
40 TIGR02031 BchD-ChlD magnesium 97.5 0.0036 7.9E-08 73.4 17.8 176 128-387 406-586 (589)
41 cd01481 vWA_collagen_alpha3-VI 97.5 0.0079 1.7E-07 58.7 17.4 45 132-176 3-52 (165)
42 PRK13406 bchD magnesium chelat 97.4 0.0088 1.9E-07 69.7 20.1 172 128-390 400-576 (584)
43 cd01477 vWA_F09G8-8_type VWA F 97.4 0.006 1.3E-07 61.1 16.0 49 128-176 18-77 (193)
44 smart00327 VWA von Willebrand 97.3 0.017 3.7E-07 56.1 18.1 154 130-380 2-164 (177)
45 PF00092 VWA: von Willebrand f 97.3 0.0063 1.4E-07 59.4 14.7 156 132-386 2-170 (178)
46 TIGR02442 Cob-chelat-sub cobal 97.3 0.0062 1.3E-07 72.2 17.1 161 128-381 464-632 (633)
47 cd01476 VWA_integrin_invertebr 97.3 0.015 3.2E-07 56.3 16.5 41 132-172 3-47 (163)
48 COG1240 ChlD Mg-chelatase subu 97.0 0.037 8E-07 56.6 17.0 169 128-389 77-252 (261)
49 cd00198 vWFA Von Willebrand fa 97.0 0.039 8.5E-07 52.0 16.5 147 131-374 2-155 (161)
50 PTZ00441 sporozoite surface pr 96.9 0.061 1.3E-06 61.5 19.1 165 128-386 41-218 (576)
51 cd01473 vWA_CTRP CTRP for CS 96.9 0.053 1.1E-06 54.3 16.7 146 132-373 3-161 (192)
52 PF04056 Ssl1: Ssl1-like; Int 96.7 0.035 7.6E-07 55.1 13.6 96 266-396 77-172 (193)
53 smart00262 GEL Gelsolin homolo 96.7 0.005 1.1E-07 53.4 6.9 72 643-730 15-87 (90)
54 cd01454 vWA_norD_type norD typ 96.4 0.079 1.7E-06 51.9 14.2 43 131-173 2-48 (174)
55 cd01458 vWA_ku Ku70/Ku80 N-ter 96.2 0.13 2.9E-06 52.4 15.2 156 131-360 3-173 (218)
56 cd01462 VWA_YIEM_type VWA YIEM 95.3 0.53 1.2E-05 44.8 14.5 43 132-174 3-48 (152)
57 KOG2884 26S proteasome regulat 94.1 2.1 4.6E-05 42.6 14.9 86 268-383 84-175 (259)
58 TIGR00578 ku70 ATP-dependent D 93.9 3.7 8E-05 48.4 19.5 74 268-366 116-191 (584)
59 KOG0443 Actin regulatory prote 93.8 0.084 1.8E-06 61.5 5.4 90 626-728 616-714 (827)
60 cd01464 vWA_subfamily VWA subf 93.5 0.11 2.3E-06 51.1 5.0 45 132-176 6-58 (176)
61 COG4245 TerY Uncharacterized p 92.5 0.21 4.5E-06 48.6 5.1 49 129-178 4-60 (207)
62 cd01460 vWA_midasin VWA_Midasi 89.9 19 0.00041 37.9 17.0 46 128-175 59-111 (266)
63 KOG0444 Cytoskeletal regulator 89.0 0.61 1.3E-05 53.3 5.4 84 631-730 623-710 (1255)
64 COG5148 RPN10 26S proteasome r 88.7 12 0.00027 36.4 13.2 74 245-358 70-145 (243)
65 cd01457 vWA_ORF176_type VWA OR 86.6 10 0.00022 37.9 12.4 44 130-173 3-57 (199)
66 KOG0443 Actin regulatory prote 86.3 1.3 2.9E-05 52.0 6.2 85 629-730 254-348 (827)
67 smart00187 INB Integrin beta s 81.2 99 0.0021 34.7 25.3 282 128-472 98-391 (423)
68 PF10058 DUF2296: Predicted in 79.4 1.3 2.8E-05 34.5 1.8 33 58-90 22-54 (54)
69 TIGR01053 LSD1 zinc finger dom 79.2 2 4.4E-05 29.3 2.5 30 59-92 2-31 (31)
70 KOG2807 RNA polymerase II tran 79.1 50 0.0011 35.2 13.7 88 268-390 142-229 (378)
71 PRK00398 rpoP DNA-directed RNA 78.1 1.6 3.5E-05 32.6 2.0 30 58-91 3-32 (46)
72 TIGR00627 tfb4 transcription f 76.4 30 0.00064 36.7 11.6 86 267-382 117-208 (279)
73 PF03850 Tfb4: Transcription f 76.2 1.1E+02 0.0024 32.4 17.8 87 269-385 116-209 (276)
74 PF09967 DUF2201: VWA-like dom 73.7 7.7 0.00017 35.9 5.7 42 133-176 2-45 (126)
75 KOG2487 RNA polymerase II tran 68.6 89 0.0019 32.6 12.2 45 338-385 185-229 (314)
76 PF00362 Integrin_beta: Integr 66.3 2.3E+02 0.0051 32.0 22.2 282 128-472 101-394 (426)
77 smart00661 RPOL9 RNA polymeras 64.2 4.8 0.0001 30.7 1.9 32 60-93 2-33 (52)
78 KOG2353 L-type voltage-depende 63.9 55 0.0012 41.2 11.7 65 112-176 204-274 (1104)
79 PF08271 TF_Zn_Ribbon: TFIIB z 60.1 11 0.00023 27.7 3.0 27 60-89 2-28 (43)
80 cd00350 rubredoxin_like Rubred 59.0 6.2 0.00013 27.2 1.5 24 60-89 3-26 (33)
81 PF09723 Zn-ribbon_8: Zinc rib 58.1 4.7 0.0001 29.5 0.8 30 59-89 6-35 (42)
82 cd00730 rubredoxin Rubredoxin; 57.0 5.4 0.00012 30.5 1.0 30 60-89 3-43 (50)
83 KOG0444 Cytoskeletal regulator 56.2 10 0.00022 43.9 3.3 51 625-675 729-788 (1255)
84 PRK03954 ribonuclease P protei 55.9 7.1 0.00015 35.7 1.8 35 59-93 65-106 (121)
85 PF03731 Ku_N: Ku70/Ku80 N-ter 55.5 18 0.00038 36.8 4.9 43 131-173 1-54 (224)
86 PRK12380 hydrogenase nickel in 54.5 7.2 0.00016 35.4 1.6 27 58-90 70-96 (113)
87 COG1198 PriA Primosomal protei 53.9 41 0.00089 40.5 8.1 105 58-180 444-571 (730)
88 PF13719 zinc_ribbon_5: zinc-r 53.2 9.1 0.0002 27.2 1.6 32 59-90 3-35 (37)
89 TIGR00100 hypA hydrogenase nic 52.5 8.3 0.00018 35.1 1.6 27 58-90 70-96 (115)
90 TIGR02605 CxxC_CxxC_SSSS putat 51.1 7.5 0.00016 29.7 1.0 31 59-90 6-36 (52)
91 PF10122 Mu-like_Com: Mu-like 50.7 5.9 0.00013 30.1 0.3 34 58-93 4-37 (51)
92 PF14803 Nudix_N_2: Nudix N-te 49.4 6.2 0.00013 27.5 0.2 30 60-89 2-31 (34)
93 PF13240 zinc_ribbon_2: zinc-r 49.4 8.6 0.00019 24.3 0.9 21 60-88 1-21 (23)
94 PF00301 Rubredoxin: Rubredoxi 48.6 6.2 0.00013 29.7 0.1 30 60-89 3-43 (47)
95 PRK03681 hypA hydrogenase nick 47.8 11 0.00024 34.3 1.6 28 58-90 70-97 (114)
96 PF09779 Ima1_N: Ima1 N-termin 45.7 15 0.00033 34.2 2.3 34 59-94 1-34 (131)
97 COG1996 RPC10 DNA-directed RNA 45.6 11 0.00024 28.6 1.1 28 59-90 7-34 (49)
98 cd01455 vWA_F11C1-5a_type Von 45.6 2.8E+02 0.0061 27.7 11.2 98 245-383 75-174 (191)
99 smart00834 CxxC_CXXC_SSSS Puta 44.2 11 0.00023 27.0 0.9 29 59-88 6-34 (41)
100 cd01121 Sms Sms (bacterial rad 43.2 13 0.00028 41.2 1.7 27 60-94 2-28 (372)
101 PF08792 A2L_zn_ribbon: A2L zi 43.1 26 0.00057 24.2 2.6 29 58-90 3-31 (33)
102 PF02318 FYVE_2: FYVE-type zin 43.1 11 0.00023 34.6 0.8 32 58-89 71-103 (118)
103 KOG3799 Rab3 effector RIM1 and 42.2 13 0.00028 34.1 1.1 32 57-92 88-119 (169)
104 PF13717 zinc_ribbon_4: zinc-r 41.5 18 0.00039 25.6 1.6 31 59-89 3-34 (36)
105 PF07282 OrfB_Zn_ribbon: Putat 41.0 18 0.0004 29.3 1.9 27 59-89 29-55 (69)
106 PF09082 DUF1922: Domain of un 41.0 12 0.00027 30.3 0.8 30 58-93 3-32 (68)
107 PRK00564 hypA hydrogenase nick 38.8 13 0.00028 34.0 0.6 29 58-91 71-99 (117)
108 smart00401 ZnF_GATA zinc finge 38.5 20 0.00044 27.6 1.6 32 58-89 3-34 (52)
109 smart00659 RPOLCX RNA polymera 38.2 26 0.00057 26.0 2.1 26 60-90 4-29 (44)
110 PRK00432 30S ribosomal protein 38.0 19 0.00042 27.5 1.4 25 59-89 21-46 (50)
111 COG1096 Predicted RNA-binding 37.9 19 0.00042 35.3 1.7 25 59-89 150-174 (188)
112 PRK06393 rpoE DNA-directed RNA 37.6 19 0.00042 28.9 1.4 24 59-92 6-29 (64)
113 PRK10997 yieM hypothetical pro 37.3 46 0.001 38.1 4.9 50 131-180 325-377 (487)
114 PF06943 zf-LSD1: LSD1 zinc fi 37.2 35 0.00077 22.1 2.2 24 61-88 1-24 (25)
115 PF12760 Zn_Tnp_IS1595: Transp 36.9 40 0.00087 25.1 3.0 27 59-88 19-45 (46)
116 PF11781 RRN7: RNA polymerase 36.5 34 0.00074 24.2 2.3 27 58-89 8-34 (36)
117 COG2260 Predicted Zn-ribbon RN 36.5 31 0.00066 27.1 2.3 33 58-100 5-39 (59)
118 PF10571 UPF0547: Uncharacteri 36.2 19 0.00041 23.5 0.9 23 60-90 2-24 (26)
119 PF05762 VWA_CoxE: VWA domain 35.6 81 0.0017 32.2 6.0 44 128-174 55-100 (222)
120 PF01927 Mut7-C: Mut7-C RNAse 35.0 24 0.00052 33.6 1.9 33 58-90 91-134 (147)
121 COG5415 Predicted integral mem 34.8 22 0.00049 35.2 1.6 39 57-95 191-229 (251)
122 PF07754 DUF1610: Domain of un 34.2 27 0.00059 22.4 1.4 24 61-88 1-24 (24)
123 PF12773 DZR: Double zinc ribb 33.8 26 0.00057 26.3 1.6 35 57-96 11-45 (50)
124 PRK00762 hypA hydrogenase nick 33.6 19 0.00041 33.3 0.9 33 58-91 70-103 (124)
125 PRK13130 H/ACA RNA-protein com 33.3 46 0.00099 26.1 2.8 34 57-100 4-39 (56)
126 PRK03824 hypA hydrogenase nick 32.8 27 0.00058 32.8 1.8 34 57-90 69-117 (135)
127 PRK12286 rpmF 50S ribosomal pr 32.8 36 0.00077 26.8 2.2 26 57-91 26-51 (57)
128 TIGR02098 MJ0042_CXXC MJ0042 f 32.6 28 0.00061 24.6 1.5 31 59-89 3-34 (38)
129 PRK08351 DNA-directed RNA poly 32.2 29 0.00064 27.7 1.6 23 60-92 5-27 (61)
130 COG2051 RPS27A Ribosomal prote 31.0 39 0.00084 27.3 2.1 34 57-93 18-51 (67)
131 PF00641 zf-RanBP: Zn-finger i 30.5 17 0.00036 24.3 0.0 18 79-96 3-20 (30)
132 smart00132 LIM Zinc-binding do 30.5 40 0.00086 23.2 2.0 29 60-88 1-35 (39)
133 PF01155 HypA: Hydrogenase exp 30.3 13 0.00028 33.7 -0.7 27 58-90 70-96 (113)
134 smart00778 Prim_Zn_Ribbon Zinc 29.7 46 0.001 23.7 2.1 27 60-88 5-33 (37)
135 TIGR00311 aIF-2beta translatio 29.5 51 0.0011 30.8 3.0 32 58-92 97-130 (133)
136 PHA00626 hypothetical protein 29.2 48 0.0011 25.8 2.2 14 78-91 21-34 (59)
137 COG0275 Predicted S-adenosylme 29.2 65 0.0014 34.4 4.0 28 143-170 218-245 (314)
138 cd01464 vWA_subfamily VWA subf 29.1 75 0.0016 30.8 4.4 77 266-373 76-160 (176)
139 PF13894 zf-C2H2_4: C2H2-type 29.0 26 0.00057 21.2 0.7 11 81-91 1-11 (24)
140 PRK14890 putative Zn-ribbon RN 28.7 22 0.00048 28.1 0.4 22 58-89 36-57 (59)
141 COG3357 Predicted transcriptio 28.7 29 0.00062 29.8 1.1 35 57-95 57-91 (97)
142 TIGR01031 rpmF_bact ribosomal 28.5 35 0.00076 26.6 1.5 25 57-90 25-49 (55)
143 TIGR01384 TFS_arch transcripti 28.2 38 0.00083 30.0 1.9 27 60-92 2-28 (104)
144 PF00320 GATA: GATA zinc finge 27.7 20 0.00043 25.3 -0.0 28 61-88 1-28 (36)
145 PF02891 zf-MIZ: MIZ/SP-RING z 27.6 23 0.0005 27.0 0.3 19 70-88 31-49 (50)
146 COG2093 DNA-directed RNA polym 27.0 30 0.00064 27.6 0.8 25 60-92 6-30 (64)
147 KOG2846 Predicted membrane pro 26.6 33 0.00073 36.7 1.4 36 58-93 220-255 (328)
148 PF12172 DUF35_N: Rubredoxin-l 26.1 37 0.00081 23.9 1.2 25 58-90 11-35 (37)
149 PRK12722 transcriptional activ 25.7 32 0.00069 34.1 1.0 30 57-89 133-163 (187)
150 PF13248 zf-ribbon_3: zinc-rib 25.2 36 0.00077 22.0 0.8 22 59-88 3-24 (26)
151 PF08274 PhnA_Zn_Ribbon: PhnA 24.9 36 0.00078 23.1 0.8 26 59-89 3-28 (30)
152 PF03604 DNA_RNApol_7kD: DNA d 24.7 30 0.00064 23.8 0.4 11 56-66 15-25 (32)
153 PRK05580 primosome assembly pr 24.6 2.3E+02 0.005 34.2 8.2 35 59-93 382-421 (679)
154 smart00547 ZnF_RBZ Zinc finger 24.3 33 0.00072 21.9 0.6 14 80-93 2-15 (26)
155 TIGR00686 phnA alkylphosphonat 24.0 64 0.0014 28.8 2.4 28 58-90 2-29 (109)
156 PF02905 EBV-NA1: Epstein Barr 23.9 90 0.002 28.5 3.3 33 143-175 110-145 (146)
157 COG1592 Rubrerythrin [Energy p 23.4 44 0.00094 32.5 1.4 14 77-90 131-144 (166)
158 COG1545 Predicted nucleic-acid 23.3 1.3E+02 0.0028 28.4 4.5 66 59-141 30-95 (140)
159 PF14353 CpXC: CpXC protein 22.3 77 0.0017 29.2 2.9 35 59-93 2-51 (128)
160 PF08273 Prim_Zn_Ribbon: Zinc- 22.2 59 0.0013 23.7 1.5 27 61-88 6-34 (40)
161 COG2956 Predicted N-acetylgluc 22.0 47 0.001 35.7 1.5 28 57-92 353-380 (389)
162 cd00729 rubredoxin_SM Rubredox 21.7 51 0.0011 22.9 1.1 11 80-90 2-12 (34)
163 PF04032 Rpr2: RNAse P Rpr2/Rp 21.7 50 0.0011 27.9 1.3 30 59-88 47-85 (85)
164 COG2023 RPR2 RNase P subunit R 21.3 54 0.0012 29.2 1.4 35 59-93 57-95 (105)
165 TIGR00006 S-adenosyl-methyltra 21.3 1E+02 0.0022 33.2 3.8 27 144-170 215-241 (305)
166 PF09297 zf-NADH-PPase: NADH p 21.2 81 0.0018 21.4 2.0 26 60-89 5-30 (32)
167 COG1773 Rubredoxin [Energy pro 20.3 51 0.0011 25.7 0.9 15 74-88 30-44 (55)
168 COG4416 Com Mu-like prophage p 20.2 22 0.00048 27.3 -1.0 33 58-92 4-36 (60)
No 1
>PLN00162 transport protein sec23; Provisional
Probab=100.00 E-value=4.3e-156 Score=1369.22 Aligned_cols=734 Identities=70% Similarity=1.163 Sum_probs=675.2
Q ss_pred CCcccccCCCeeeecCCCCCCCHHHhhhCCCCeEEEEccCCCCCCCCCCCCCCCCCCcccCCCCceecCcceEEcCCceE
Q 004303 2 TEFMDLEAQDGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPYAPLRCRTCRSILNPFSIVDFAAKIW 81 (762)
Q Consensus 2 ~~~~~~~~~~~iR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~~~~~~~vp~~~~~p~RC~~C~ayiNp~~~~~~~~~~w 81 (762)
|||+|.|+.++||+|||+||+|+.++++++|||||+|+||++.+ ++|+++++|+||++|+|||||||+|+.++++|
T Consensus 1 ~~~~~~e~~~gvR~s~n~~P~t~~~~~~~~iPlg~v~tPl~~~~----~vp~v~~~pvRC~~CraylNPf~~~d~~~~~W 76 (761)
T PLN00162 1 MDFAELEAIDGVRMSWNVWPSSKIEASKCVIPLAALYTPLKPLP----ELPVLPYDPLRCRTCRAVLNPYCRVDFQAKIW 76 (761)
T ss_pred CchhhhcccCceEeeeecCCCCHHHHhcCCCCeEEEEecCCcCC----CCCcCCCCCCccCCCcCEECCceEEecCCCEE
Confidence 79999999999999999999999999999999999999999865 68999999999999999999999999999999
Q ss_pred EecCCCCCCCCCcCCCCCCCCCCCccccCCCccEEEecC---CCCCCCCCCcEEEEEEECCCChhHHHHHHHHHHHHhhc
Q 004303 82 ICPFCFQRNHFPPHYASITDDNLPAELFPQYTTIEYEPP---GPGEKSSVPPVFMFVVDTCIIEEEMSFLKSALSQAIDL 158 (762)
Q Consensus 82 ~C~~C~~~N~~p~~y~~~~~~~~~pEL~~~~~tvey~~~---~~~p~~~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~ 158 (762)
+||||++.|++|++|..++++++||||.|+++||||++| .++| .||+|+||||+|..+++++.++++|+++|+.
T Consensus 77 ~C~~C~~~N~~P~~Y~~~~~~~~p~EL~p~~~TvEY~~p~~~~~~~---~pp~fvFvID~s~~~~~l~~lk~sl~~~L~~ 153 (761)
T PLN00162 77 ICPFCFQRNHFPPHYSSISETNLPAELFPQYTTVEYTLPPGSGGAP---SPPVFVFVVDTCMIEEELGALKSALLQAIAL 153 (761)
T ss_pred EccCCCCCCCCchHhcccCccCCChhhcCCceeEEEECCCCCCCCC---CCcEEEEEEecchhHHHHHHHHHHHHHHHHh
Confidence 999999999999999888888999999888999999999 6777 8999999999999999999999999999999
Q ss_pred CCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHHHhhcccCCCCCCCccccCccCCCCcccc-cceE
Q 004303 159 LPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTI-ARFL 237 (762)
Q Consensus 159 lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl-~~~l 237 (762)
||++++|||||||+.||||+|+ .+ .+|+++||+|+++++.+|+++++++....+.+... .++...+..+.|. ++||
T Consensus 154 LP~~a~VGlITF~s~V~~~~L~-~~-~~~~~~Vf~g~k~~t~~~l~~~l~l~~~~~~~~~~-~~~~~~~~~~~p~~~~fL 230 (761)
T PLN00162 154 LPENALVGLITFGTHVHVHELG-FS-ECSKSYVFRGNKEVSKDQILEQLGLGGKKRRPAGG-GIAGARDGLSSSGVNRFL 230 (761)
T ss_pred CCCCCEEEEEEECCEEEEEEcC-CC-CCcceEEecCCccCCHHHHHHHhcccccccccccc-ccccccccccCCCcccee
Confidence 9999999999999999999998 66 68999999999999999999998774411111000 0000000012343 8999
Q ss_pred EechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhccCCCCCcEEEEEecCCCCCCCcccccCCCCCCc
Q 004303 238 VPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPI 317 (762)
Q Consensus 238 ~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~ 317 (762)
+|++||+..|+++||+|++++|++++++|+.||+|+||++|..+|+.+.++.||||++|++||||.|||+|+.++.++++
T Consensus 231 vpl~e~~~~i~~lLe~L~~~~~~~~~~~rp~r~tG~AL~vA~~lL~~~~~~~gGrI~~F~sgppT~GpG~v~~r~~~~~~ 310 (761)
T PLN00162 231 LPASECEFTLNSALEELQKDPWPVPPGHRPARCTGAALSVAAGLLGACVPGTGARIMAFVGGPCTEGPGAIVSKDLSEPI 310 (761)
T ss_pred EEHHHHHHHHHHHHHhhhccccccCCCCCCCccHHHHHHHHHHHHhhccCCCceEEEEEeCCCCCCCCceeecccccccc
Confidence 99999999999999999999999999999999999999999999998888899999999999999999999999999999
Q ss_pred cCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccChhchhhhhccccceEEEeCCCChhhhHHHHHHHh
Q 004303 318 RSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVF 397 (762)
Q Consensus 318 rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l~~~~~L~~~TGG~v~~~~~f~~~~~~~~l~~~l 397 (762)
|+|+|++++++++++++.+||++||++|+++||+||+|+++.+|+|++||+.|++.|||.+++|++|+.+.|+++|+|+|
T Consensus 311 rsh~di~k~~~~~~~~a~~fY~~la~~~~~~gisvDlF~~s~dqvglaem~~l~~~TGG~v~~~~sF~~~~f~~~l~r~~ 390 (761)
T PLN00162 311 RSHKDLDKDAAPYYKKAVKFYEGLAKQLVAQGHVLDVFACSLDQVGVAEMKVAVERTGGLVVLAESFGHSVFKDSLRRVF 390 (761)
T ss_pred cCccccccchhhhcchHHHHHHHHHHHHHHcCceEEEEEccccccCHHHHhhhHhhcCcEEEEeCCcChHHHHHHHHHHh
Confidence 99999999989999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred -hccccCccceeeeEEEEEecCCceEEeEEcCccccCCCCCCcccccccCCCCCceeeecCCCCceEEEEEEEecCCCCc
Q 004303 398 -HSGDYDLGLSSNGIFEINCSKDIKVQGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIVKKEIPD 476 (762)
Q Consensus 398 -~~~~~~~~~~~~~~l~vr~S~gl~v~~~~G~~~~~~~~~~~isd~~~g~~~~~~~~l~~~~~~~s~~~~~~~~~~~~~~ 476 (762)
++..+++.+||+|+||||||+|++|++++||++...++++++||+++|.|+|+.|+++++++++||+|+|++++..+ .
T Consensus 391 ~r~~~~~~~~gf~a~~~VrtS~glkv~g~~G~~~s~~~~~~~vsd~~iG~g~T~~w~l~~l~~~~t~av~f~~~~~~~-~ 469 (761)
T PLN00162 391 ERDGEGSLGLSFNGTFEVNCSKDVKVQGAIGPCASLEKKGPSVSDTEIGEGGTTAWKLCGLDKKTSLAVFFEVANSGQ-S 469 (761)
T ss_pred cccccccccccceeEEEEEecCCeEEeeeEcCcccccccCCccccccccCCCCceeeecCcCcCCEEEEEEEEccccc-c
Confidence 55555667899999999999999999999999988778888999999999999999999999999999999998751 0
Q ss_pred ccccCCCCeEEEEEEEEEEecCCcEEEEEEeceeecccCCCCHHHHHhccCHHHHHHHHHHHHHHHhhcCCchhHHHHHH
Q 004303 477 ATLQSTNNQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAGFDQEAAAVVMARLVSFKMEIEAEFDPIRWLD 556 (762)
Q Consensus 477 ~~~~~~~~~~~iQ~al~Yt~~~G~rriRV~T~~l~vt~~~~~~~~v~~~~D~ea~~~llak~a~~~~~~~~~~~~~~~l~ 556 (762)
.++ .....+||||+++||+.+|+|||||||++++++.. .++.+++++||+||++++|||+++.++.+++..|+++||+
T Consensus 470 ~~~-~~~~~~~iQ~a~lYt~~~G~rRiRV~T~~~~~~~~-~~~~~v~~~fDqeA~a~llaR~av~k~~~~~~~d~~r~ld 547 (761)
T PLN00162 470 NPQ-PPGQQFFLQFLTRYQHSNGQTRLRVTTVTRRWVEG-SSSEELVAGFDQEAAAVVMARLASHKMETEEEFDATRWLD 547 (761)
T ss_pred CCC-CCCceEEEEEEEEEEcCCCCEEEEEEccccCccCC-CCHHHHHHhcCHHHHHHHHHHHHHHHHhhCCHHHHHHHHH
Confidence 011 34567999999999999999999999999997642 1488999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcccccCCCCCcCCCcccccHHHHHHHHhcccCcCCCCCChHHHHHHHHHHccCCHHHHHHhhcccceecc
Q 004303 557 KALIHMCSRFGDYQKDSPSSFSLSPRFSIFPQFMFHLRRSQFVQVFNNSPDETAYFRMILNRENVTNSVVMIQPSLISYS 636 (762)
Q Consensus 557 ~~l~~~~~~~~~y~~~~~~~l~lp~~l~~lP~~~~~L~ks~~l~~~~~s~Der~~~~~~l~~~~~~~~~~~iyP~L~~~~ 636 (762)
++|+++|++|+.|||+++++|+||++|++||+|||+|+||++|+++|+|||||+|+++.++++++++++.||||+|++||
T Consensus 548 ~~li~~~~~f~~Yrk~~~~s~~Lp~~~~~lP~f~~~LrRS~~l~~~n~spDera~~r~~l~~~~~~~sl~mI~P~L~sy~ 627 (761)
T PLN00162 548 RALIRLCSKFGDYRKDDPSSFRLSPNFSLYPQFMFNLRRSQFVQVFNNSPDETAYFRMMLNRENVTNSLVMIQPTLISYS 627 (761)
T ss_pred HHHHHHHHHHhhhcccCCccccCCHHHHHHHHHHHHHhhhhhccCCCCCchHHHHHHHHHhcCCHHHHHHhhCCeEEEec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCccccccccccccCeEEEEeCCcEEEEEEcCchhHHHHcccCCCchhHHHHHhhcCCHHHHHHHHHcCCCCcEEEE
Q 004303 637 FHSGPEPALLDVAAIAADRILLLDSYFTVVIFHGATIAQWRKAGYHNQPEHQAFAQLLQAPHDDAGVIMKERFPVPRLVI 716 (762)
Q Consensus 637 ~~~~p~~~~Ls~~~l~~~~iyLlD~g~~i~i~~G~~v~~~~~~~~~~~~~~~~~~~~l~~p~~~~~~i~~~R~~~p~~~~ 716 (762)
.+++|++++||.++|++|+|||||+|++|+||+|+.+++|++++||++|+|++|+++|++|+++|++|+++|||+||+++
T Consensus 628 ~~~~P~pv~Ld~~si~~d~ilLLD~~f~vvi~~G~~ia~w~~~~~~~~~~~~~~~~~l~~p~~~a~~~~~~Rfp~Pr~i~ 707 (761)
T PLN00162 628 FNGPPEPVLLDVASIAADRILLLDSYFSVVIFHGSTIAQWRKAGYHNQPEHEAFAQLLEAPQADAQAIIKERFPVPRLVV 707 (761)
T ss_pred CCCCCcceecchhhccCCceEEEeCCCEEEEEecCcccchhhcCCCCCcchhhHHHHHHhHHHHHHHHHhcCCCCCeEEE
Confidence 98999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EccCCchhhhHHhh------hc------------cCCCcHhhHhhhhccc
Q 004303 717 CDQHGSQVGSYHNV------QQ------------MGGSLWMIVVCYLLSP 748 (762)
Q Consensus 717 ~~~g~sq~rf~~~l------~~------------~~~~~y~d~l~~~~~~ 748 (762)
|+||+|||||+..- .+ .+..|+..|+-||..-
T Consensus 708 ~~~~~SqaRfl~~klnPs~~~~~~~~~~~~~~~~tdd~sl~~f~~~l~~~ 757 (761)
T PLN00162 708 CDQHGSQARFLLAKLNPSATYNSANAMGGSDIIFTDDVSLQVFMEHLQRL 757 (761)
T ss_pred eCCCCcHHHHHHHhcCCcccccCCCCCCCCCeeecCCcCHHHHHHHHHHH
Confidence 99999999999433 11 1235888888887643
No 2
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.3e-152 Score=1236.23 Aligned_cols=718 Identities=57% Similarity=1.003 Sum_probs=679.2
Q ss_pred CcccccCCCeeeecCCCCCCCHHHhhhCCCCeEEEEccCCCCCCCCCCCCCCCCCCcccCCCCceecCcceEEcCCceEE
Q 004303 3 EFMDLEAQDGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPYAPLRCRTCRSILNPFSIVDFAAKIWI 82 (762)
Q Consensus 3 ~~~~~~~~~~iR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~~~~~~~vp~~~~~p~RC~~C~ayiNp~~~~~~~~~~w~ 82 (762)
.|+++|+.++||+|||+||+++....++++|++|+|+||.+.+ .+|.++|+|+||.+|+||+||||.+|.+.+.|.
T Consensus 2 ~~~~~e~~dGvR~twnvwPs~~~~~~~~vvPla~lytPl~e~~----~~~~~~y~P~~C~~C~AvlNPyc~vd~~a~~W~ 77 (745)
T KOG1986|consen 2 FIEDIEEIDGVRFTWNVWPSTRAEASRTVVPLACLYTPLKERP----DLPPIQYDPLRCSKCGAVLNPYCSVDFRAKSWI 77 (745)
T ss_pred cccccccCCCcccccccCCCcccccccccccHHHhccccccCC----CCCccCCCCchhccchhhcCcceeecccCceEe
Confidence 4667999999999999999999999999999999999999866 578899999999999999999999999999999
Q ss_pred ecCCCCCCCCCcCCCCCCCCCCCccccCCCccEEEecCCCCCCCCCCcEEEEEEECCCChhHHHHHHHHHHHHhhcCCCC
Q 004303 83 CPFCFQRNHFPPHYASITDDNLPAELFPQYTTIEYEPPGPGEKSSVPPVFMFVVDTCIIEEEMSFLKSALSQAIDLLPDN 162 (762)
Q Consensus 83 C~~C~~~N~~p~~y~~~~~~~~~pEL~~~~~tvey~~~~~~p~~~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~lp~~ 162 (762)
|+||+++|.+|++|..++.+|.|+||.|+++||||.+++... .||+|+||||++..+++|+.++++|+.+|+.||++
T Consensus 78 CpfC~qrN~~p~~Y~~is~~n~P~el~Pq~stvEy~l~~~~~---~ppvf~fVvDtc~~eeeL~~LkssL~~~l~lLP~~ 154 (745)
T KOG1986|consen 78 CPFCNQRNPFPPHYSGISENNLPPELLPQYSTVEYTLSPGRV---SPPVFVFVVDTCMDEEELQALKSSLKQSLSLLPEN 154 (745)
T ss_pred ccccccCCCCChhhcccCccCCChhhcCCcceeEEecCCCCC---CCceEEEEEeeccChHHHHHHHHHHHHHHhhCCCc
Confidence 999999999999999999999999999999999999996555 79999999999999999999999999999999999
Q ss_pred cEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHHHhhcccCCCCCCCccccCccCCCCcccccceEEechh
Q 004303 163 SLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFD 242 (762)
Q Consensus 163 ~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~ 242 (762)
++||||||++.||+|+++ .. .+.+++||+|+||++.++++++++++. .... +.+ ...+..+||.|+.+
T Consensus 155 alvGlItfg~~v~v~el~-~~-~~sk~~VF~G~ke~s~~q~~~~L~~~~-~~~~------~~~---~~~~~~rFL~P~~~ 222 (745)
T KOG1986|consen 155 ALVGLITFGTMVQVHELG-FE-ECSKSYVFSGNKEYSAKQLLDLLGLSG-GAGK------GSE---NQSASNRFLLPAQE 222 (745)
T ss_pred ceEEEEEecceEEEEEcC-CC-cccceeEEeccccccHHHHHHHhcCCc-cccc------CCc---ccccchhhhccHHH
Confidence 999999999999999999 76 789999999999999999999997753 1111 100 00234799999999
Q ss_pred cHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhccCCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCC
Q 004303 243 CEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKD 322 (762)
Q Consensus 243 ~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d 322 (762)
|+..+.++|++|++++|++++++|+.||||+||++|+.||++|++++|+||++|++||||.|||.+++++.++++|+|+|
T Consensus 223 c~~~L~~lle~L~~d~wpV~~g~Rp~RcTG~Al~iA~~Ll~~c~p~~g~rIv~f~gGPcT~GpG~vv~~el~~piRshhd 302 (745)
T KOG1986|consen 223 CEFKLTNLLEELQPDPWPVPPGHRPLRCTGVALSIASGLLEGCFPNTGARIVLFAGGPCTRGPGTVVSRELKEPIRSHHD 302 (745)
T ss_pred HHHHHHHHHHHhcCCCCCCCCCCCcccchhHHHHHHHHHhcccCCCCcceEEEeccCCCCcCCceecchhhcCCCcCccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccChhchhhhhccccceEEEeCCCChhhhHHHHHHHh-hccc
Q 004303 323 LDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVF-HSGD 401 (762)
Q Consensus 323 ~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l~~~~~L~~~TGG~v~~~~~f~~~~~~~~l~~~l-~~~~ 401 (762)
+++++++|++++.+||++||++++.+|++||+|+++.+|+|+++|++|++.|||.+.+.++|+.+.|+++++|+| ++..
T Consensus 303 i~~d~a~y~kKa~KfY~~La~r~~~~ghvlDifa~~lDQvGi~EMk~l~~~TGG~lvl~dsF~~s~Fk~sfqR~f~~d~~ 382 (745)
T KOG1986|consen 303 IEKDNAPYYKKAIKFYEKLAERLANQGHVLDIFAAALDQVGILEMKPLVESTGGVLVLGDSFNTSIFKQSFQRIFTRDGE 382 (745)
T ss_pred ccCcchHHHHHHHHHHHHHHHHHHhCCceEeeeeeeccccchHHHHHHhhcCCcEEEEecccchHHHHHHHHHHhccccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999 7888
Q ss_pred cCccceeeeEEEEEecCCceEEeEEcCccccCCCCCCcccccccCCCCCceeeecCCCCceEEEEEEEecCCCCcccccC
Q 004303 402 YDLGLSSNGIFEINCSKDIKVQGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIVKKEIPDATLQS 481 (762)
Q Consensus 402 ~~~~~~~~~~l~vr~S~gl~v~~~~G~~~~~~~~~~~isd~~~g~~~~~~~~l~~~~~~~s~~~~~~~~~~~~~~~~~~~ 481 (762)
+++.+||+|.|+|+||++++|++.+|++.++.+|++++||++||.|+|..|+++.+++.+++++.|++...... .
T Consensus 383 ~~l~~~fn~~leV~tSkdlkI~g~IGp~~Sl~~k~~~vsdt~ig~g~t~~wkm~~ls~~t~~s~~fei~~~~~~-----~ 457 (745)
T KOG1986|consen 383 GDLKMGFNGTLEVKTSKDLKIQGVIGPCVSLNKKGPNVSDTEIGEGNTSAWKMCGLSPSTTLSLFFEISNQHNI-----P 457 (745)
T ss_pred cchhhhcCceEEEEecCCcEEEecccccccccCCCCccccceeccccccceeeeccCCCceEEEEEEeccccCC-----C
Confidence 88999999999999999999999999999999999999999999999999999999999999999999986532 3
Q ss_pred CCCeEEEEEEEEEEecCCcEEEEEEeceeecccCCCCHHHHHhccCHHHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHH
Q 004303 482 TNNQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAGFDQEAAAVVMARLVSFKMEIEAEFDPIRWLDKALIH 561 (762)
Q Consensus 482 ~~~~~~iQ~al~Yt~~~G~rriRV~T~~l~vt~~~~~~~~v~~~~D~ea~~~llak~a~~~~~~~~~~~~~~~l~~~l~~ 561 (762)
.+..+||||++.|.+++|++|+||+|+++++++. ...++..+|||||++++|||+++.++.+++..|+++|+|+.|++
T Consensus 458 ~~~~~~iQFiT~Yq~s~g~~riRVtT~~r~~~d~--~~~~i~~~FDqEaaAV~mAR~~~~kae~e~~~d~~rwlDr~Lir 535 (745)
T KOG1986|consen 458 QSGQGYIQFITQYQHSSGQKRIRVTTLARPWADS--GSPEISQSFDQEAAAVLMARLALLKAETEDGPDVLRWLDRNLIR 535 (745)
T ss_pred CCCeeEEEEEEEEEcCCCcEEEEEEEeehhhccc--cchHhhhccchHHHHHHHHHHHHHhhhccccchHHHHHHHHHHH
Confidence 4678999999999999999999999999999985 23789999999999999999999999999889999999999999
Q ss_pred HHHHhcccccCCCCCcCCCcccccHHHHHHHHhcccCcCCCCCChHHHHHHHHHHccCCHHHHHHhhcccceecccCCCC
Q 004303 562 MCSRFGDYQKDSPSSFSLSPRFSIFPQFMFHLRRSQFVQVFNNSPDETAYFRMILNRENVTNSVVMIQPSLISYSFHSGP 641 (762)
Q Consensus 562 ~~~~~~~y~~~~~~~l~lp~~l~~lP~~~~~L~ks~~l~~~~~s~Der~~~~~~l~~~~~~~~~~~iyP~L~~~~~~~~p 641 (762)
+|++|+.|+|+.|++|.|+++|+++|+|||+||||++|+++|.|||||+|++|.|++.++.+++.||+|+|++|+.++.|
T Consensus 536 lc~kFg~y~k~dPssf~l~~~fsl~PQfmfhLRRS~fLqvfNnSPDEt~~yrhll~~e~v~~sliMIqP~L~sySf~g~~ 615 (745)
T KOG1986|consen 536 LCQKFGDYRKDDPSSFRLSPNFSLYPQFMFHLRRSPFLQVFNNSPDETAYYRHLLNREDVDNSLIMIQPTLLSYSFNGPP 615 (745)
T ss_pred HHHHHhccCCCCchhhcCChhhhhhHHHHHhhccchhhhccCCCcchHHHHHHHHhhccchhhhheecceeeeeecCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccccccCeEEEEeCCcEEEEEEcCchhHHHHcccCCCchhHHHHHhhcCCHHHHHHHHHcCCCCcEEEEEccCC
Q 004303 642 EPALLDVAAIAADRILLLDSYFTVVIFHGATIAQWRKAGYHNQPEHQAFAQLLQAPHDDAGVIMKERFPVPRLVICDQHG 721 (762)
Q Consensus 642 ~~~~Ls~~~l~~~~iyLlD~g~~i~i~~G~~v~~~~~~~~~~~~~~~~~~~~l~~p~~~~~~i~~~R~~~p~~~~~~~g~ 721 (762)
++++|+..+|.+|.|+|||++++|+||+|+.++||++++|+++|+|+.|+.+|++|+.+|++|..+|||+||+++|+||+
T Consensus 616 epvlLD~~Si~~D~iLLlDt~f~i~i~hG~tIaqWR~~gy~~~pe~~~f~~LL~ap~~dA~el~~~RFP~PR~v~~~q~G 695 (745)
T KOG1986|consen 616 EPVLLDVASILADRILLLDTYFTIVIFHGSTIAQWRKAGYHEQPEYENFKELLEAPREDAQELLLERFPMPRYVVTDQGG 695 (745)
T ss_pred ceeEecccccCCceEEEeecceEEEEECCchHHHHHhcccccChhhHHHHHHHHhHHHHHHHHHHhhCCCCeEEEecCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhhHHhh----h------c--------cCCCcHhhHhhhhc
Q 004303 722 SQVGSYHNV----Q------Q--------MGGSLWMIVVCYLL 746 (762)
Q Consensus 722 sq~rf~~~l----~------~--------~~~~~y~d~l~~~~ 746 (762)
|||||+..- + . .+.+|+.+|+-||.
T Consensus 696 SQARFLlsklnPS~t~~~~~~~~~s~~I~TDDvSlq~fm~hLk 738 (745)
T KOG1986|consen 696 SQARFLLSKLNPSETHNNLTAHGGSSIILTDDVSLQVFMEHLK 738 (745)
T ss_pred cHHHhhhhhcCcchhccchhhccCCCeeeeccccHHHHHHHHH
Confidence 999999544 1 1 13468999998885
No 3
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=100.00 E-value=1.5e-144 Score=1146.10 Aligned_cols=727 Identities=45% Similarity=0.840 Sum_probs=679.5
Q ss_pred CCcccccCCCeeeecCCCCCCCHHHhhhCCCCeEEEEccCCCCCCCCCCCCCCCCCCcccCC-CCceecCcceEEcCCce
Q 004303 2 TEFMDLEAQDGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPYAPLRCRT-CRSILNPFSIVDFAAKI 80 (762)
Q Consensus 2 ~~~~~~~~~~~iR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~~~~~~~vp~~~~~p~RC~~-C~ayiNp~~~~~~~~~~ 80 (762)
|+|+.+|+.++||+|||+||.|+.++.++.+|++|+|+||++.+ .+++..|+|+.|.. |+||+||||.+|.+++.
T Consensus 1 m~fe~iee~dgir~twnvfpat~~da~~~~iPia~lY~Pl~e~~----~~~v~~yepv~C~~pC~avlnpyC~id~r~~~ 76 (755)
T COG5047 1 MNFEIIEENDGIRLTWNVFPATRGDATRTVIPIACLYTPLHEDD----ALTVNYYEPVKCTAPCKAVLNPYCHIDERNQS 76 (755)
T ss_pred CchhhhccccceEEEEecccCCccccccccccHHHhcccccccc----ccCcccCCCceecccchhhcCcceeeccCCce
Confidence 89999999999999999999999999999999999999999865 57788899999999 99999999999999999
Q ss_pred EEecCCCCCCCCCcCCCCCCCCCCCccccCCCccEEEecCCCCCCCCCCcEEEEEEECCCChhHHHHHHHHHHHHhhcCC
Q 004303 81 WICPFCFQRNHFPPHYASITDDNLPAELFPQYTTIEYEPPGPGEKSSVPPVFMFVVDTCIIEEEMSFLKSALSQAIDLLP 160 (762)
Q Consensus 81 w~C~~C~~~N~~p~~y~~~~~~~~~pEL~~~~~tvey~~~~~~p~~~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~lp 160 (762)
|+|+||+..|.+|++|..+++.+.|+||.||++||||+++++.. .||+|+||||++++.+++.+++++|+.+|..+|
T Consensus 77 W~CpfCnqrn~lp~qy~~iS~~~LplellpqssTiey~lskp~~---~ppvf~fvvD~~~D~e~l~~Lkdslivslsllp 153 (755)
T COG5047 77 WICPFCNQRNTLPPQYRDISNANLPLELLPQSSTIEYTLSKPVI---LPPVFFFVVDACCDEEELTALKDSLIVSLSLLP 153 (755)
T ss_pred EecceecCCCCCChhhcCCCcccCCccccCCCceEEEEccCCcc---CCceEEEEEEeecCHHHHHHHHHHHHHHHhcCC
Confidence 99999999999999999999999999999999999999998877 899999999999999999999999999999999
Q ss_pred CCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHHHhhcccCCCCCCC--ccccCccCCCCcccccceEE
Q 004303 161 DNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPST--GVIAGVRDGLSSDTIARFLV 238 (762)
Q Consensus 161 ~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~~~~~~~~~~p~~--~~~~~~~~~~~~~pl~~~l~ 238 (762)
+++.||||||++.|++|+++ .. ..++.+||+|+++|+...|+++++... --+|+. .-..+.+ .+.+ .+|+.
T Consensus 154 peaLvglItygt~i~v~el~-ae-~~~r~~VF~g~~eyt~~~L~~ll~~~~-~~~~~~~es~is~~~---~~~~-~rFl~ 226 (755)
T COG5047 154 PEALVGLITYGTSIQVHELN-AE-NHRRSYVFSGNKEYTKENLQELLALSK-PTKSGGFESKISGIG---QFAS-SRFLL 226 (755)
T ss_pred ccceeeEEEecceeEEEecc-cc-ccCcceeecchHHHHHHHHHHHhcccC-CCCcchhhhhccccc---ccch-hhhhc
Confidence 99999999999999999999 66 688999999999999999999987752 111210 0000000 0122 57999
Q ss_pred echhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhccCCCCCcEEEEEecCCCCCCCcccccCCCCCCcc
Q 004303 239 PAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPIR 318 (762)
Q Consensus 239 ~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~r 318 (762)
|+.+|+..+.++|++|++|+|+++.++|+.||||+||.+|..||+.++++.|+||++|++||||.|||.|++++.++++|
T Consensus 227 p~q~ce~~L~n~le~L~pd~~~v~~~~Rp~RCTGsAl~ias~Ll~~~~p~~~~~i~lF~~GPcTvGpG~Vvs~elkEpmR 306 (755)
T COG5047 227 PTQQCEFKLLNILEQLQPDPWPVPAGKRPLRCTGSALNIASSLLEQCFPNAGCHIVLFAGGPCTVGPGTVVSTELKEPMR 306 (755)
T ss_pred cHHHHHHHHHHHHHHhCCCCccCCCCCCCccccchhHHHHHHHHHhhccCcceeEEEEcCCCccccCceeeehhhccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccChhchhhhhccccceEEEeCCCChhhhHHHHHHHh-
Q 004303 319 SHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVF- 397 (762)
Q Consensus 319 s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l~~~~~L~~~TGG~v~~~~~f~~~~~~~~l~~~l- 397 (762)
+|++++++.+++.+++.+||++||++.+++|+++|+|+++.+|+|+.+|++|...|||.+.+.++|+.++|+++++|+|
T Consensus 307 shH~ie~d~aqh~kka~KFY~~laeR~a~~gh~~DifagcldqIGI~eM~~L~~sTgg~lvlsdsF~t~ifkqSfqrif~ 386 (755)
T COG5047 307 SHHDIESDSAQHSKKATKFYKGLAERVANQGHALDIFAGCLDQIGIMEMEPLTTSTGGALVLSDSFTTSIFKQSFQRIFN 386 (755)
T ss_pred ccccccccchhhccchHHHHHHHHHHHhccchhHHHHHHHHHhhhhhcchhhccCCcceEEEeccccHHHHHHHHHHHhC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccccCccceeeeEEEEEecCCceEEeEEcCccccCCCCCCcccccccCCCCCceeeecCCCCceEEEEEEEecCCCCcc
Q 004303 398 HSGDYDLGLSSNGIFEINCSKDIKVQGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIVKKEIPDA 477 (762)
Q Consensus 398 ~~~~~~~~~~~~~~l~vr~S~gl~v~~~~G~~~~~~~~~~~isd~~~g~~~~~~~~l~~~~~~~s~~~~~~~~~~~~~~~ 477 (762)
++..|++.+||+|.|+|.|||++++++++|+....++++.+|||.+||.|.|+.|++++++|.+++++.||+.......
T Consensus 387 ~d~~g~l~~gfNa~m~V~TsKnl~~~g~ig~a~~~~k~~~ni~~~eigi~~t~swkm~slsPk~nyal~fei~~~~~~~- 465 (755)
T COG5047 387 RDSEGYLKMGFNANMEVKTSKNLKIKGLIGHAVSVKKKANNISDSEIGIGATNSWKMASLSPKSNYALYFEIALGAASG- 465 (755)
T ss_pred cCcccchhhhhccceeEeeccCceeeeeecceeeecccccccccccccccccccccccccCCCcceEEEEEeccccCCC-
Confidence 8888899999999999999999999999999999988999999999999999999999999999999999998764320
Q ss_pred cccCCCCeEEEEEEEEEEecCCcEEEEEEeceeecccCCCCHHHHHhccCHHHHHHHHHHHHHHHhhcCCchhHHHHHHH
Q 004303 478 TLQSTNNQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAGFDQEAAAVVMARLVSFKMEIEAEFDPIRWLDK 557 (762)
Q Consensus 478 ~~~~~~~~~~iQ~al~Yt~~~G~rriRV~T~~l~vt~~~~~~~~v~~~~D~ea~~~llak~a~~~~~~~~~~~~~~~l~~ 557 (762)
+. +....+||||.+.|.+++|.-||||+|++...++. ....+.++|||||+++++||.++.++..++..|+.+|+|+
T Consensus 466 ~~-~~~~~a~iQfiT~yQhss~t~riRVtTvar~f~~~--~~p~i~~SFdqEaaaV~~aR~a~~K~~~ed~~Dv~rw~dr 542 (755)
T COG5047 466 SA-QRPAEAYIQFITTYQHSSGTYRIRVTTVARMFTDG--GLPKINRSFDQEAAAVFMARIAAFKAETEDIIDVFRWIDR 542 (755)
T ss_pred cc-CCcccchhhhhhhhhccCCcEEEEEeehhhhhccC--CChhhhhcchhhHHHHHHHHHHHhhcccccchhHHHHHHH
Confidence 01 23468999999999999999999999999999975 6788999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcccccCCCCCcCCCcccccHHHHHHHHhcccCcCCCCCChHHHHHHHHHHccCCHHHHHHhhcccceeccc
Q 004303 558 ALIHMCSRFGDYQKDSPSSFSLSPRFSIFPQFMFHLRRSQFVQVFNNSPDETAYFRMILNRENVTNSVVMIQPSLISYSF 637 (762)
Q Consensus 558 ~l~~~~~~~~~y~~~~~~~l~lp~~l~~lP~~~~~L~ks~~l~~~~~s~Der~~~~~~l~~~~~~~~~~~iyP~L~~~~~ 637 (762)
.++++|+.|+.|+|+.|+++.|+++|.++|+|||+|+||++|+++|.|||||++|+|.+.+.++.+++.||+|+|.+|+.
T Consensus 543 ~lirlcq~fa~y~k~dpssfrl~~~f~lypqf~y~lrRSpfL~vfNnSPDEt~fyrh~l~~~dv~~sLimiqPtL~Sys~ 622 (755)
T COG5047 543 NLIRLCQKFADYRKDDPSSFRLDPNFTLYPQFMYHLRRSPFLSVFNNSPDETAFYRHMLNNADVNDSLIMIQPTLQSYSF 622 (755)
T ss_pred HHHHHHHHHHhcCCCCchhhcCCcchhhhhHHHhhhhccceeeccCCCcchHHHHHHHHhcccccchhhhhcchheeeec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccccccccccccCeEEEEeCCcEEEEEEcCchhHHHHcccCCCchhHHHHHhhcCCHHHHHHHHHcCCCCcEEEEE
Q 004303 638 HSGPEPALLDVAAIAADRILLLDSYFTVVIFHGATIAQWRKAGYHNQPEHQAFAQLLQAPHDDAGVIMKERFPVPRLVIC 717 (762)
Q Consensus 638 ~~~p~~~~Ls~~~l~~~~iyLlD~g~~i~i~~G~~v~~~~~~~~~~~~~~~~~~~~l~~p~~~~~~i~~~R~~~p~~~~~ 717 (762)
++.+.+|.||+-++++|.|+|||++++|+||.|+.++||++++|+++++|++++.++++|+.+|.+++.+|||.|++++|
T Consensus 623 ~~~~~pVlLDs~svkpdviLLlDtff~Ili~hG~~iaqwr~agyq~qpey~~lK~Ll~~p~~ea~ell~dRfP~Prfi~t 702 (755)
T COG5047 623 EKGGVPVLLDSVSVKPDVILLLDTFFHILIFHGSYIAQWRNAGYQEQPEYLNLKELLEAPRLEAAELLQDRFPIPRFIVT 702 (755)
T ss_pred cCCCceEEEeccccCCCeEEEeeceeEEEEECChHHHHHHhhhhhcCchhhhHHHHhhchhhHHHHHHHhhCCCCeEEEe
Confidence 87889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCchhhhHHhh-------hccC----------CCcHhhHhhhhc
Q 004303 718 DQHGSQVGSYHNV-------QQMG----------GSLWMIVVCYLL 746 (762)
Q Consensus 718 ~~g~sq~rf~~~l-------~~~~----------~~~y~d~l~~~~ 746 (762)
+||+||+||+.+- ++|+ .++|..|+-||.
T Consensus 703 eqggSQaRfLlskinPsd~~~~~~~~~s~tilTddv~lq~fm~hl~ 748 (755)
T COG5047 703 EQGGSQARFLLSKINPSDITNKMSGGGSETILTDDVNLQKFMNHLR 748 (755)
T ss_pred cCCccHHHHHHhhcCccccccccccCccceeeecccCHHHHHHHHH
Confidence 9999999999665 3322 258888888875
No 4
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.5e-127 Score=1055.58 Aligned_cols=669 Identities=19% Similarity=0.283 Sum_probs=596.6
Q ss_pred cccCCCeeeecCCCCCCCHHHhhhCCCCeEEEEccCCCCCCCCCCCCCCCC---CCcccCCCCceecCcceEEcCCceEE
Q 004303 6 DLEAQDGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILPY---APLRCRTCRSILNPFSIVDFAAKIWI 82 (762)
Q Consensus 6 ~~~~~~~iR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~~~~~~~vp~~~~---~p~RC~~C~ayiNp~~~~~~~~~~w~ 82 (762)
-|++|+|||+|+|+||.|.+++++++||||++|+||+...++|+++|+++. +|+||+||+||+|||++|.++|++|+
T Consensus 283 GN~sPr~mr~T~Y~iP~T~Dl~~as~iPLalvIqPfa~l~p~E~~~~vVd~g~sgPvRC~RCkaYinPFmqF~~~gr~f~ 362 (1007)
T KOG1984|consen 283 GNCSPRFMRCTMYTIPCTNDLLKASQIPLALVIQPFATLTPNEAPVPVVDLGESGPVRCNRCKAYINPFMQFIDGGRKFI 362 (1007)
T ss_pred CCCCcchheeecccCCccHhHHHhcCCcceeEecccccCCcccCCCceecCCCCCCcchhhhhhhcCcceEEecCCceEE
Confidence 499999999999999999999999999999999999999999999999875 79999999999999999999999999
Q ss_pred ecCCCCCCCCCcCC-CCCCCC------CCCccccCCCccEEEecCC------CCCCCCCCcEEEEEEECCCChhH---HH
Q 004303 83 CPFCFQRNHFPPHY-ASITDD------NLPAELFPQYTTIEYEPPG------PGEKSSVPPVFMFVVDTCIIEEE---MS 146 (762)
Q Consensus 83 C~~C~~~N~~p~~y-~~~~~~------~~~pEL~~~~~tvey~~~~------~~p~~~~~p~~vFvID~s~~~~~---l~ 146 (762)
||||+.+|++|.+| +++++. +.||||+ .|||||++++ +.| .||+|||+||||+++++ +.
T Consensus 363 Cn~C~~~n~vp~~yf~~L~~~grr~D~~erpEL~--~Gt~dfvatk~Y~~~~k~p---~ppafvFmIDVSy~Ai~~G~~~ 437 (1007)
T KOG1984|consen 363 CNFCGSKNQVPDDYFNHLGPTGRRVDVEERPELC--LGTVDFVATKDYCRKTKPP---KPPAFVFMIDVSYNAISNGAVK 437 (1007)
T ss_pred ecCCCccccCChhhcccCCCcccccccccCchhc--ccccceeeehhhhhcCCCC---CCceEEEEEEeehhhhhcchHH
Confidence 99999999999999 677653 5789999 9999999986 257 99999999999999998 89
Q ss_pred HHHHHHHHHhhcCCC---CcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHHHhhcccCCCCCCCccccC
Q 004303 147 FLKSALSQAIDLLPD---NSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAG 223 (762)
Q Consensus 147 ~~~~~l~~~l~~lp~---~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~~~~~~~~~~p~~~~~~~ 223 (762)
+++++|++.|+.+|. +.+|||||||++|||||++ +.|++|+|+|+ .|++|+|
T Consensus 438 a~ce~ik~~l~~lp~~~p~~~Vgivtfd~tvhFfnl~-s~L~qp~mliV--------sdv~dvf---------------- 492 (1007)
T KOG1984|consen 438 AACEAIKSVLEDLPREEPNIRVGIVTFDKTVHFFNLS-SNLAQPQMLIV--------SDVDDVF---------------- 492 (1007)
T ss_pred HHHHHHHHHHhhcCccCCceEEEEEEecceeEeeccC-ccccCceEEEe--------ecccccc----------------
Confidence 999999999999983 6899999999999999999 88999999997 5788866
Q ss_pred ccCCCCcccc-cceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhccCCCCCcEEEEEecCCCC
Q 004303 224 VRDGLSSDTI-ARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVGGPST 302 (762)
Q Consensus 224 ~~~~~~~~pl-~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~ggkIi~F~sg~pt 302 (762)
+|+ ++++++..|++..|+.+|++++. ++..++.++.++|+||++|..+|++ ..|||+++|++.+||
T Consensus 493 -------vPf~~g~~V~~~es~~~i~~lLd~Ip~---mf~~sk~pes~~g~alqaa~lalk~---~~gGKl~vF~s~Lpt 559 (1007)
T KOG1984|consen 493 -------VPFLDGLFVNPNESRKVIELLLDSIPT---MFQDSKIPESVFGSALQAAKLALKA---ADGGKLFVFHSVLPT 559 (1007)
T ss_pred -------cccccCeeccchHHHHHHHHHHHHhhh---hhccCCCCchhHHHHHHHHHHHHhc---cCCceEEEEeccccc
Confidence 675 89999999999999999999999 6888899999999999999999996 239999999999999
Q ss_pred CCCc-ccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccChhchhhhhccccceEEEe
Q 004303 303 EGPA-AIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVAELKVAVEKTGGLVVLS 381 (762)
Q Consensus 303 ~GpG-~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l~~~~~L~~~TGG~v~~~ 381 (762)
.|-| ++..|++...+ ..+||+ +++.++++.|++||++|++.|+|||||++...|+|+|+++.+++.|||.+|.|
T Consensus 560 ~g~g~kl~~r~D~~l~----~t~kek-~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~vy~Y 634 (1007)
T KOG1984|consen 560 AGAGGKLSNRDDRRLI----GTDKEK-NLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQVYKY 634 (1007)
T ss_pred ccCcccccccchhhhh----cccchh-hccCcchhHHHHHHHHHHHhCceEEEEEcccceeeeeeecccccccCceeEEe
Confidence 9988 88888765544 456775 89999999999999999999999999999999999999999999999999999
Q ss_pred CCCChhhhHHHHHHHh-hccccCccceeeeEEEEEecCCceEEeEEcCccccCCCCCCcccccccCCCCCceeeecCCCC
Q 004303 382 DSFGHAVFKDSVRRVF-HSGDYDLGLSSNGIFEINCSKDIKVQGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKA 460 (762)
Q Consensus 382 ~~f~~~~~~~~l~~~l-~~~~~~~~~~~~~~l~vr~S~gl~v~~~~G~~~~~~~~~~~isd~~~g~~~~~~~~l~~~~~~ 460 (762)
.+|....+...|...| ++. .+..||+|+||||||+||++.+++||+.. +++++.+++.+|+|
T Consensus 635 ~~F~a~~D~~rl~nDL~~~v--tk~~gf~a~mrvRtStGirv~~f~Gnf~~---------------~~~tDiela~lD~d 697 (1007)
T KOG1984|consen 635 YPFQALTDGPRLLNDLVRNV--TKKQGFDAVMRVRTSTGIRVQDFYGNFLM---------------RNPTDIELAALDCD 697 (1007)
T ss_pred cchhhcccHHHHHHHHHHhc--ccceeeeeEEEEeecCceeeeeeechhhh---------------cCCCCccccccccC
Confidence 9999887666555555 333 35689999999999999999999999974 46788999999999
Q ss_pred ceEEEEEEEecCCCCcccccCCCCeEEEEEEEEEEecCCcEEEEEEeceeecccCCCCHHHHHhccCHHHHHHHHHHHHH
Q 004303 461 TSLCLVFEIVKKEIPDATLQSTNNQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAGFDQEAAAVVMARLVS 540 (762)
Q Consensus 461 ~s~~~~~~~~~~~~~~~~~~~~~~~~~iQ~al~Yt~~~G~rriRV~T~~l~vt~~~~~~~~v~~~~D~ea~~~llak~a~ 540 (762)
++++++|+||++++ ++..++||+|++||+.+|+||+||+|+++++|+. +.++|+++|.|+++++|+|.|+
T Consensus 698 kt~~v~fkhDdkLq-------~~s~~~fQ~AlLYTti~G~RR~Rv~Nlsl~~ts~---l~~lyr~~~~d~l~a~maK~a~ 767 (1007)
T KOG1984|consen 698 KTLTVEFKHDDKLQ-------DGSDVHFQTALLYTTIDGQRRLRVLNLSLAVTSQ---LSELYRSADTDPLIAIMAKQAA 767 (1007)
T ss_pred ceeEEEEecccccc-------CCcceeEEEEEEEeccCCceeEEEEecchhhhhh---HHHHHHhcCccHHHHHHHHHHH
Confidence 99999999999994 5788999999999999999999999999999994 9999999999999999999999
Q ss_pred HHhhcCCchhHHHHHHHHHHHHHHHhcccccCC-----CCCcCCCcccccHHHHHHHHhcccCcCCCCCChHHHHHHHHH
Q 004303 541 FKMEIEAEFDPIRWLDKALIHMCSRFGDYQKDS-----PSSFSLSPRFSIFPQFMFHLRRSQFVQVFNNSPDETAYFRMI 615 (762)
Q Consensus 541 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~y~~~~-----~~~l~lp~~l~~lP~~~~~L~ks~~l~~~~~s~Der~~~~~~ 615 (762)
..+..+.+.++|+.|++.++++ |+.|||.| ++||+|||+||+||+|+++++||.+|+...++.|+|+|.+.+
T Consensus 768 ~~i~~~~lk~vre~l~~~~~~i---L~~YRk~cas~~ssgQLILPeslKLlPly~la~lKs~~l~~~~~~~DdRi~~~~~ 844 (1007)
T KOG1984|consen 768 KAILDKPLKEVREQLVSQCAQI---LASYRKNCASPASSGQLILPESLKLLPLYMLALLKSSALRPQEIRTDDRIYQLQL 844 (1007)
T ss_pred HhcccccHHHHHHHHHHHHHHH---HHHHHHhhcCCCCcccEechhhhHHHHHHHHHHHHhhcccccccccchhHHHHHH
Confidence 9999999999999999999888 89999987 469999999999999999999999999989999999999999
Q ss_pred HccCCHHHHHHhhcccceeccc----C----CCCccccccccccccCeEEEEeCCcEEEEEEcCchhHHHHcccCCCchh
Q 004303 616 LNRENVTNSVVMIQPSLISYSF----H----SGPEPALLDVAAIAADRILLLDSYFTVVIFHGATIAQWRKAGYHNQPEH 687 (762)
Q Consensus 616 l~~~~~~~~~~~iyP~L~~~~~----~----~~p~~~~Ls~~~l~~~~iyLlD~g~~i~i~~G~~v~~~~~~~~~~~~~~ 687 (762)
+.++++++++.++||+|+++|. + ..|.+|++|.+.|..+||||||||..+|||+|+++++.+.+.++..++.
T Consensus 845 v~sl~v~~~~~~~YPrl~p~hdl~i~dtl~~~~p~~VraS~e~l~negiYll~nG~~~ylwvg~sv~~~llQ~lf~V~s~ 924 (1007)
T KOG1984|consen 845 VTSLSVEQLMPFFYPRLLPFHDLDIEDTLEFVLPKAVRASSEFLSNEGIYLLDNGQKIYLWVGESVDPDLLQDLFSVSSF 924 (1007)
T ss_pred hhcccHHhhhhhhccceeeeeccccccccccccccceecchhhccCCceEEEecCcEEEEEecCCCCHHHHHHHhcCccc
Confidence 9999999999999999999996 1 3689999999999999999999999999999999997444444444444
Q ss_pred HHHHH-hhcCCH----------HHHHHHHHcCCCCcEEEEEccCC--chhhhHHhh--hcc-CCCcHhhHhhhhcccccc
Q 004303 688 QAFAQ-LLQAPH----------DDAGVIMKERFPVPRLVICDQHG--SQVGSYHNV--QQM-GGSLWMIVVCYLLSPGKD 751 (762)
Q Consensus 688 ~~~~~-~l~~p~----------~~~~~i~~~R~~~p~~~~~~~g~--sq~rf~~~l--~~~-~~~~y~d~l~~~~~~~~~ 751 (762)
+++.. +..+|+ ..++.|++.|....+++++++|. ++..|...+ |+. +++||+||||.||++++.
T Consensus 925 ~~i~s~~~~Lpe~dn~lS~k~r~~i~~i~~~r~~~l~v~~~k~g~~~~~~~~~~~lved~~~~~~sY~dyL~~~H~ki~~ 1004 (1007)
T KOG1984|consen 925 EQIDSQSGVLPELDNPLSRKVRNVISLIRRQRSSELPVVLVKQGLDGSEVEFSEYLVEDRGRNISSYVDYLCELHKKIQQ 1004 (1007)
T ss_pred cccccccccccccCcHHHHHHHHHHHHHHhccccccccEEEecCCCchhhhhhhhhhcccccCccccchHHHHHHHHHHh
Confidence 44432 234444 23455566777777899999983 454555555 443 469999999999999886
Q ss_pred c
Q 004303 752 I 752 (762)
Q Consensus 752 ~ 752 (762)
.
T Consensus 1005 ~ 1005 (1007)
T KOG1984|consen 1005 K 1005 (1007)
T ss_pred h
Confidence 4
No 5
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.4e-124 Score=1031.61 Aligned_cols=661 Identities=20% Similarity=0.305 Sum_probs=582.4
Q ss_pred cccCCCeeeecCCCCCCCHHHhhhCCCCeEEEEccCCCCCCCCCCCCCC-CCCCcccCCCCceecCcceEEcCCceEEec
Q 004303 6 DLEAQDGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPIL-PYAPLRCRTCRSILNPFSIVDFAAKIWICP 84 (762)
Q Consensus 6 ~~~~~~~iR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~~~~~~~vp~~-~~~p~RC~~C~ayiNp~~~~~~~~~~w~C~ 84 (762)
-|++|+|+|+|.++||.+.+++++++||||++|+||++.. +..++|++ +..|+||++||+|||||+.|++.|++|+||
T Consensus 166 ~nc~p~y~RsTl~~iP~t~sLl~kskLPlglvv~Pf~~~~-d~~~~p~~~~~~IvRCr~CRtYiNPFV~fid~gr~WrCN 244 (887)
T KOG1985|consen 166 SNCSPSYVRSTLSAIPQTQSLLKKSKLPLGLVVHPFAHLD-DIDPLPVITSTLIVRCRRCRTYINPFVEFIDQGRRWRCN 244 (887)
T ss_pred cCCCHHHHHHHHHhCCccHHHHHhcCCCceEEEeeccccc-ccCCCCcccCCceeeehhhhhhcCCeEEecCCCceeeec
Confidence 3889999999999999999999999999999999999776 34466765 458999999999999999999999999999
Q ss_pred CCCCCCCCCcCCC-C-C----CCCCCCccccCCCccEEEecCC----CCCCCCCCcEEEEEEECCCChhH---HHHHHHH
Q 004303 85 FCFQRNHFPPHYA-S-I----TDDNLPAELFPQYTTIEYEPPG----PGEKSSVPPVFMFVVDTCIIEEE---MSFLKSA 151 (762)
Q Consensus 85 ~C~~~N~~p~~y~-~-~----~~~~~~pEL~~~~~tvey~~~~----~~p~~~~~p~~vFvID~s~~~~~---l~~~~~~ 151 (762)
+|+..|++|.+|. . . .....|||+. +++|||++|. ++| +|++|+|+||||.++++ |++++++
T Consensus 245 lC~~~NdvP~~f~~~~~t~~~~~~~~RpEl~--~s~vE~iAP~eYmlR~P---~Pavy~FliDVS~~a~ksG~L~~~~~s 319 (887)
T KOG1985|consen 245 LCGRVNDVPDDFDWDPLTGAYGDPYSRPELT--SSVVEFIAPSEYMLRPP---QPAVYVFLIDVSISAIKSGYLETVARS 319 (887)
T ss_pred hhhhhcCCcHHhhcCccccccCCcccCcccc--ceeEEEecCcccccCCC---CCceEEEEEEeehHhhhhhHHHHHHHH
Confidence 9999999999983 2 2 2335789998 9999999997 568 99999999999999988 8999999
Q ss_pred HHHHhhcCC--CCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHHHhhcccCCCCCCCccccCccCCCC
Q 004303 152 LSQAIDLLP--DNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDGLS 229 (762)
Q Consensus 152 l~~~l~~lp--~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~~~~~~~~~~p~~~~~~~~~~~~~ 229 (762)
|++.|+.|| +.++|||||||++||||++. .++.+|+|+++ .|++|.| .
T Consensus 320 lL~~LD~lpgd~Rt~igfi~fDs~ihfy~~~-~~~~qp~mm~v--------sdl~d~f---------------------l 369 (887)
T KOG1985|consen 320 LLENLDALPGDPRTRIGFITFDSTIHFYSVQ-GDLNQPQMMIV--------SDLDDPF---------------------L 369 (887)
T ss_pred HHHhhhcCCCCCcceEEEEEeeceeeEEecC-CCcCCCceeee--------ccccccc---------------------c
Confidence 999999999 57999999999999999999 66578998886 5788876 1
Q ss_pred cccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhccCCCCCcEEEEEecCCCCCCCcccc
Q 004303 230 SDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVGGPSTEGPAAIV 309 (762)
Q Consensus 230 ~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~ggkIi~F~sg~pt~GpG~l~ 309 (762)
++| ++||+|+++||+.|..+|+.|++ ++...+..++|+|+||++|..+|+ ..||||++|++++||.|.|+|+
T Consensus 370 p~p-d~lLv~L~~ck~~i~~lL~~lp~---~F~~~~~t~~alGpALkaaf~li~----~~GGri~vf~s~lPnlG~G~L~ 441 (887)
T KOG1985|consen 370 PMP-DSLLVPLKECKDLIETLLKTLPE---MFQDTRSTGSALGPALKAAFNLIG----STGGRISVFQSTLPNLGAGKLK 441 (887)
T ss_pred CCc-hhheeeHHHHHHHHHHHHHHHHH---HHhhccCcccccCHHHHHHHHHHh----hcCCeEEEEeccCCCCCccccc
Confidence 255 89999999999999999999999 588888889999999999999999 6999999999999999999999
Q ss_pred cCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccChhchhhhhccccceEEEeCCCChh--
Q 004303 310 SKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSFGHA-- 387 (762)
Q Consensus 310 ~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l~~~~~L~~~TGG~v~~~~~f~~~-- 387 (762)
.||..+..+ . ++...++.+++.|||++|.+|++.||+||+|+++.+|.|+|+++.|++.|||.+|+|++|+..
T Consensus 442 ~rEdp~~~~----s-~~~~qlL~~~t~FYK~~a~~cs~~qI~VDlFl~s~qY~DlAsLs~LskySgG~~y~YP~f~~s~p 516 (887)
T KOG1985|consen 442 PREDPNVRS----S-DEDSQLLSPATDFYKDLALECSKSQICVDLFLFSEQYTDLASLSCLSKYSGGQVYYYPSFDGSNP 516 (887)
T ss_pred ccccccccc----c-hhhhhccCCCchHHHHHHHHhccCceEEEEEeecccccchhhhhccccccCceeEEccCCCCCCH
Confidence 996554332 2 233578999999999999999999999999999999999999999999999999999999987
Q ss_pred ----hhHHHHHHHhhccccCccceeeeEEEEEecCCceEEeEEcCccccCCCCCCcccccccCCCCCceeeecCCCCceE
Q 004303 388 ----VFKDSVRRVFHSGDYDLGLSSNGIFEINCSKDIKVQGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKATSL 463 (762)
Q Consensus 388 ----~~~~~l~~~l~~~~~~~~~~~~~~l~vr~S~gl~v~~~~G~~~~~~~~~~~isd~~~g~~~~~~~~l~~~~~~~s~ 463 (762)
+|..+|.|.|. +++||+|+||||||+|++++.+||||+. ++++++.++++.+|+++
T Consensus 517 ~~~~Kf~~el~r~Lt-----r~~~feaVmRiR~S~gl~~~~f~GnFF~---------------RStDLla~~~v~~D~sy 576 (887)
T KOG1985|consen 517 HDVLKFARELARYLT-----RKIGFEAVMRIRCSTGLRMSSFFGNFFV---------------RSTDLLALPNVNPDQSY 576 (887)
T ss_pred HHHHHHHHHHHHHhh-----hhhhhheeEEeeccccccccceeccccc---------------CcHHHhcccCCCCCccc
Confidence 45556666662 4589999999999999999999999997 46899999999999999
Q ss_pred EEEEEEecCCCCcccccCCCCeEEEEEEEEEEecCCcEEEEEEeceeecccCCCCHHHHHhccCHHHHHHHHHHHHHHHh
Q 004303 464 CLVFEIVKKEIPDATLQSTNNQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAGFDQEAAAVVMARLVSFKM 543 (762)
Q Consensus 464 ~~~~~~~~~~~~~~~~~~~~~~~~iQ~al~Yt~~~G~rriRV~T~~l~vt~~~~~~~~v~~~~D~ea~~~llak~a~~~~ 543 (762)
++++++++.+. ....+||.|++||...|||||||||+++|++++ +.++|+++|++|++.+++++|+++.
T Consensus 577 ~~qisiEesl~--------~~~~~fQvAlLyT~~~GERRIRV~T~~lpt~~s---l~evY~saD~~AI~~lla~~Av~ks 645 (887)
T KOG1985|consen 577 AFQISIEESLT--------TGFCVFQVALLYTLSKGERRIRVHTLCLPTVSS---LNEVYASADQEAIASLLAKKAVEKS 645 (887)
T ss_pred eEEEEeehhcC--------CceeEEEeeeeecccCCceeEEEEEeecccccc---HHHHHhhcCHHHHHHHHHHHHHHHH
Confidence 99999999874 567889999999999999999999999999995 9999999999999999999999999
Q ss_pred hcCCchhHHHHHHHHHHHHHHHhcccccCCC------CCcCCCcccccHHHHHHHHhcccCcCC-CCCChHHHHHHHHHH
Q 004303 544 EIEAEFDPIRWLDKALIHMCSRFGDYQKDSP------SSFSLSPRFSIFPQFMFHLRRSQFVQV-FNNSPDETAYFRMIL 616 (762)
Q Consensus 544 ~~~~~~~~~~~l~~~l~~~~~~~~~y~~~~~------~~l~lp~~l~~lP~~~~~L~ks~~l~~-~~~s~Der~~~~~~l 616 (762)
++..+.|+|+.|.+.++++ ++.|++... ..+.+|.+|++||+|+++|+|+++|+. .+++.|+|++++..+
T Consensus 646 l~ssL~dardal~~~~~D~---l~aYk~~~~~~~~~~~~l~~p~~LrllPllvlALlK~~~fr~g~~~~lD~R~~a~~~~ 722 (887)
T KOG1985|consen 646 LSSSLSDARDALTNAVVDI---LNAYKKLVSNQNGQGITLSLPASLRLLPLLVLALLKHPAFRPGTGTRLDYRAYAMCLM 722 (887)
T ss_pred HHhhhhhHHHHHHHHHHHH---HHHHHHHhcccccCCcceecCcchhhhHHHHHHHhcCCcccCCCCCCchHHHHHHHHh
Confidence 9999999999999999999 777777533 378999999999999999999999994 589999999999999
Q ss_pred ccCCHHHHHHhhcccceeccc--C--------C---CCccccccccccccCeEEEEeCCcEEEEEEcCchhH-HHHcccC
Q 004303 617 NRENVTNSVVMIQPSLISYSF--H--------S---GPEPALLDVAAIAADRILLLDSYFTVVIFHGATIAQ-WRKAGYH 682 (762)
Q Consensus 617 ~~~~~~~~~~~iyP~L~~~~~--~--------~---~p~~~~Ls~~~l~~~~iyLlD~g~~i~i~~G~~v~~-~~~~~~~ 682 (762)
..+++..++++|||.||++|. + + +|++++|+++.+++.|+||||+|..+++|+|+++++ .+...|+
T Consensus 723 ~~lpl~~L~k~IYP~Lysl~~l~~ea~~~~~d~~~~~p~~L~ltae~l~~~GlyL~D~g~~lfl~vg~~a~P~ll~~vfg 802 (887)
T KOG1985|consen 723 STLPLKYLMKYIYPTLYSLHDLDDEAGLPIHDQTVVLPPPLNLTAELLSRRGLYLMDTGTTLFLWVGSNADPSLLFDVFG 802 (887)
T ss_pred hcCCHHHHHhhhcccceeccccccccCcccccccccCCCccchHHHHhccCceEEEecCcEEEEEEcCCCCccccccccC
Confidence 999999999999999999986 1 1 478999999999999999999999999999999985 4555555
Q ss_pred CCchhHHHHH-hhcCC----------HHHHHHHHHcCCCCcEEEEEccCC-c--hhhhHHhh--hccCC-CcHhhHhhhh
Q 004303 683 NQPEHQAFAQ-LLQAP----------HDDAGVIMKERFPVPRLVICDQHG-S--QVGSYHNV--QQMGG-SLWMIVVCYL 745 (762)
Q Consensus 683 ~~~~~~~~~~-~l~~p----------~~~~~~i~~~R~~~p~~~~~~~g~-s--q~rf~~~l--~~~~~-~~y~d~l~~~ 745 (762)
. ..+.++.. +.++| ...++.+|.+|...|.++++|+++ + .+-|+.++ |+..+ .||+|||.||
T Consensus 803 ~-~~~adi~~~~~~lp~~~n~~s~r~~~fI~~lR~d~~~~p~~~ivr~~~~s~~k~~f~~~lvEDrs~~~~SY~efLq~l 881 (887)
T KOG1985|consen 803 V-STLADIPIGKYTLPELDNEESDRVRRFIKKLRDDRTYFPNLYIVRGDDNSPLKAWFFSRLVEDRSENSPSYYEFLQHL 881 (887)
T ss_pred c-chHhhcccccccCcccccchhHHHHHHHHHhhcCCcccceEEEEecCCCchHHHHHHHHHHhhhhcCcHHHHHHHHHH
Confidence 3 32322211 11122 245788889999999999999873 4 45577887 77776 7999999999
Q ss_pred ccccc
Q 004303 746 LSPGK 750 (762)
Q Consensus 746 ~~~~~ 750 (762)
|..++
T Consensus 882 k~qv~ 886 (887)
T KOG1985|consen 882 KAQVS 886 (887)
T ss_pred HHHhc
Confidence 98765
No 6
>PTZ00395 Sec24-related protein; Provisional
Probab=100.00 E-value=3.5e-115 Score=1000.54 Aligned_cols=667 Identities=15% Similarity=0.194 Sum_probs=554.8
Q ss_pred cccCCCeeeecCCCCCCCHHHhhhCCCCeEEEEccCCCCCCCCCCCCCCC-----------CCCcccCCCCceecCcceE
Q 004303 6 DLEAQDGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILP-----------YAPLRCRTCRSILNPFSIV 74 (762)
Q Consensus 6 ~~~~~~~iR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~~~~~~~vp~~~-----------~~p~RC~~C~ayiNp~~~~ 74 (762)
-+++|++||+|||.||.+.++++.+.||||++++||+.+.++| +||.++ .+|+||.+|++|+|+++.+
T Consensus 648 gn~dP~~~r~tmY~iP~~~~~~~~~~iP~gi~v~Pfa~~~~~e-~~~~~~~~~~~~d~~~~~~~~rc~~c~~y~~~~~~~ 726 (1560)
T PTZ00395 648 GKADPRFLKSTLYQIPLFSETLKLSQIPFGIIVNPFACLNEGE-GIDKIDMKDIINDKEENIEILRCPKCLGYLHATILE 726 (1560)
T ss_pred CCCChhhhhhhhhcCcchHHHHHhcCCCceeecchhhhcCCCC-CCcccchhhcccchhhccceeecchhHhhhcchhee
Confidence 4899999999999999999999999999999999999987665 577654 2789999999999999999
Q ss_pred EcCCceEEecCCCCCCCCCcC-------C-CCCCC-----C----CCCccccCCCccEEEecCCC---------------
Q 004303 75 DFAAKIWICPFCFQRNHFPPH-------Y-ASITD-----D----NLPAELFPQYTTIEYEPPGP--------------- 122 (762)
Q Consensus 75 ~~~~~~w~C~~C~~~N~~p~~-------y-~~~~~-----~----~~~pEL~~~~~tvey~~~~~--------------- 122 (762)
+-. +++.|+||++.+.+... | ..+.. + ..-|-| +|+||+++|..
T Consensus 727 ~~~-~~~~c~~c~~~~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~ 802 (1560)
T PTZ00395 727 DIS-SSVQCVFCDTDFLINENVLFDIFQYNEKIGHKESDHNEHGNSLSPLL---KGSVDIIIPPIYYHNVNKFKLTYTYL 802 (1560)
T ss_pred ccc-ceEEEEecCCcchhhHHHHHHHHHHhhhhccccccccccccccchhh---cCceeEEccchhhccCCccceeeehh
Confidence 975 89999999999988432 2 11211 1 122333 77788777630
Q ss_pred --------------------------------------------------------------C-----------------
Q 004303 123 --------------------------------------------------------------G----------------- 123 (762)
Q Consensus 123 --------------------------------------------------------------~----------------- 123 (762)
.
T Consensus 803 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 882 (1560)
T PTZ00395 803 NKNINQTAFMITNKIMSFTKHISNSLVANDSKGGNKATSASAFGDSGDANFLAGGGYTNYGGAGGYNTYDNQSGYNNHDV 882 (1560)
T ss_pred hcchhhhhhhhhhhhhhhhhhhcchheecccccccccchhhhcccccccccccccccccccccccccccccccccccccc
Confidence 0
Q ss_pred ----------C------------------------------------------------------CCCCCcEEEEEEECC
Q 004303 124 ----------E------------------------------------------------------KSSVPPVFMFVVDTC 139 (762)
Q Consensus 124 ----------p------------------------------------------------------~~~~~p~~vFvID~s 139 (762)
| ...+||+|+||||||
T Consensus 883 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~PP~YvFLIDVS 962 (1560)
T PTZ00395 883 VNNRGGSGAGNHLYGKDHDVQNFDNVMDNANFTIHDMKNLICEKNGEPDSAKIRRNSFLAKYPQVKNMLPPYFVFVVECS 962 (1560)
T ss_pred cccccccCcCcccccCcccccchhhhccCCceeeecchhhhhcccCCchhhhhhccchhhccccccCCCCCEEEEEEECC
Confidence 0 014689999999999
Q ss_pred CChhH---HHHHHHHHHHHhhcCC-CCcEEEEEEeCCeEEEEEcCCCC-------------CCCCeeEEecCCccCChHH
Q 004303 140 IIEEE---MSFLKSALSQAIDLLP-DNSLVGLITFGTLVQVHELGGFG-------------QIIPKTYVFKGSKDVSKDQ 202 (762)
Q Consensus 140 ~~~~~---l~~~~~~l~~~l~~lp-~~~~VglITfd~~V~~y~l~~~~-------------~~~~~~~V~~g~~~~~~~~ 202 (762)
..+++ +++++++|+++|+.++ +.++|||||||++||||+|+ ++ +++|+|+|+ .|
T Consensus 963 ~~AVkSGLl~tacesIK~sLDsL~dpRTRVGIITFDSsLHFYNLk-s~l~~~~~~~~~~~~l~qPQMLVV--------SD 1033 (1560)
T PTZ00395 963 YNAIYNNITYTILEGIRYAVQNVKCPQTKIAIITFNSSIYFYHCK-GGKGVSGEEGDGGGGSGNHQVIVM--------SD 1033 (1560)
T ss_pred HHHHhhChHHHHHHHHHHHHhcCCCCCcEEEEEEecCcEEEEecC-cccccccccccccccCCCceEEee--------cC
Confidence 99999 8999999999999997 46999999999999999997 53 478999997 68
Q ss_pred HHHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHh
Q 004303 203 LLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLL 282 (762)
Q Consensus 203 l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll 282 (762)
|+|+| . +.|.+++|+++.|+++.|+.+|+.|+. ++........|+|+||++|..+|
T Consensus 1034 LDDPF-------L--------------PlP~ddLLVnL~ESRevIe~LLDkLPe---mFt~t~~~esCLGSALqAA~~aL 1089 (1560)
T PTZ00395 1034 VDDPF-------L--------------PLPLEDLFFGCVEEIDKINTLIDTIKS---VSTTMQSYGSCGNSALKIAMDML 1089 (1560)
T ss_pred CccCc-------C--------------CCCccCeeechHHHHHHHHHHHHHHHH---HhhccCCCcccHHHHHHHHHHHH
Confidence 88877 1 133478999999999999999999987 46666778899999999999999
Q ss_pred hccCCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCcc
Q 004303 283 GACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQV 362 (762)
Q Consensus 283 ~~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~ 362 (762)
+. .+.||||++|++++|++|||+|+.++. ..++ ..++.++++||++||.+|++.+||||||+++.+++
T Consensus 1090 k~--~GGGGKIiVF~SSLPniGpGaLK~Re~---------~~KE-k~Ll~pqd~FYK~LA~ECsk~qISVDLFLfSsqYv 1157 (1560)
T PTZ00395 1090 KE--RNGLGSICMFYTTTPNCGIGAIKELKK---------DLQE-NFLEVKQKIFYDSLLLDLYAFNISVDIFIISSNNV 1157 (1560)
T ss_pred Hh--cCCCceEEEEEcCCCCCCCCccccccc---------cccc-ccccccchHHHHHHHHHHHhcCCceEEEEccCccc
Confidence 94 123599999999999999999987541 1233 25678899999999999999999999999998887
Q ss_pred C--hhchhhhhccccceEEEeCCCChhhhHHHHHHHh-hccccCccceeeeEEEEEecCCceEEeEEc--CccccCCCCC
Q 004303 363 G--VAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVF-HSGDYDLGLSSNGIFEINCSKDIKVQGIIG--PCASLEKKGP 437 (762)
Q Consensus 363 ~--l~~~~~L~~~TGG~v~~~~~f~~~~~~~~l~~~l-~~~~~~~~~~~~~~l~vr~S~gl~v~~~~G--~~~~~~~~~~ 437 (762)
| +++|+.|++.|||++++|+.|+..++...|...| +.++ ...+||+|+||||||+||+|+++|| +++..
T Consensus 1158 DVDVATLg~Lsr~TGGqlyyYPnFna~rD~~KL~~DL~r~LT-re~iGyEAVMRVRCS~GLrVs~fyG~GnnF~s----- 1231 (1560)
T PTZ00395 1158 RVCVPSLQYVAQNTGGKILFVENFLWQKDYKEIYMNIMDTLT-SEDIAYCCELKLRYSHHMSVKKLFCCNNNFNS----- 1231 (1560)
T ss_pred ccccccccchhcccceeEEEeCCCcccccHHHHHHHHHHHhh-ccceeeEEEEEEECCCCeEEEEEeccCCcccc-----
Confidence 6 7999999999999999999999876555554433 2221 0147999999999999999999994 44421
Q ss_pred CcccccccCCCCCceeeecCCCCceEEEEEEEecCCCCcccccCCCCeEEEEEEEEEEecCCcEEEEEEeceeecccCCC
Q 004303 438 LCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIVKKEIPDATLQSTNNQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPG 517 (762)
Q Consensus 438 ~isd~~~g~~~~~~~~l~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~iQ~al~Yt~~~G~rriRV~T~~l~vt~~~~ 517 (762)
..+++++.+|.+++|++|+|+|++++++. ....+|||+|++||+.+|+|||||||+++|||++
T Consensus 1232 --------~rStDLLaLP~Id~DqSfaVeLk~DEkL~-------~~~~AYFQaALLYTSssGERRIRVHTLALPVTSs-- 1294 (1560)
T PTZ00395 1232 --------IISVDTIKIPKIRHDQTFAFLLNYSDISE-------SKKQIYFQCACIYTNLWGDRFVRLHTTHMNLTSS-- 1294 (1560)
T ss_pred --------ccccccccccccCCCceEEEEEEeccccC-------CCCcEEEEEEEeeccCCCcEEEEEEeeeecccCC--
Confidence 12467899999999999999999999984 3678999999999999999999999999999995
Q ss_pred CHHHHHhccCHHHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHHHHhcccccCC-----CCCcCCCcccccHHHHHHH
Q 004303 518 SVQDLIAGFDQEAAAVVMARLVSFKMEIEAEFDPIRWLDKALIHMCSRFGDYQKDS-----PSSFSLSPRFSIFPQFMFH 592 (762)
Q Consensus 518 ~~~~v~~~~D~ea~~~llak~a~~~~~~~~~~~~~~~l~~~l~~~~~~~~~y~~~~-----~~~l~lp~~l~~lP~~~~~ 592 (762)
+.+||+++|++|++.+|+|+++.++++++ ++|+.|.+.++++ |..||+.| ++||+||++||+||+|+++
T Consensus 1295 -LseVFrsADqdAIvslLAK~AV~~aLsss--dARe~L~dklVdI---LtaYRK~CAsssssgQLILPESLKLLPLYILS 1368 (1560)
T PTZ00395 1295 -LSTVFRYTDAEALMNILIKQLCTNILHND--NYSKIIIDNLAAI---LFSYRINCASSAHSGQLILPDTLKLLPLFTSS 1368 (1560)
T ss_pred -HHHHHHhhcHHHHHHHHHHHHHHHhcccH--HHHHHHHHHHHHH---HHHHHHHhhccCCCccccchhHHHHHHHHHHH
Confidence 99999999999999999999999999874 8999999998888 78888865 4689999999999999999
Q ss_pred HhcccCcCCCCCChHHHHHHHHHHccCCHHHHHHhhcccceecccC------------C---CCccccccccccccCeEE
Q 004303 593 LRRSQFVQVFNNSPDETAYFRMILNRENVTNSVVMIQPSLISYSFH------------S---GPEPALLDVAAIAADRIL 657 (762)
Q Consensus 593 L~ks~~l~~~~~s~Der~~~~~~l~~~~~~~~~~~iyP~L~~~~~~------------~---~p~~~~Ls~~~l~~~~iy 657 (762)
|+||.+|+ ..+++|+|++.+++++++++..++.++||+||++|.- + +|.+++||.+.|.++|+|
T Consensus 1369 LLKS~AfR-t~I~sDeRVyaL~rL~SmPI~~Li~yLYPRLYpLHdL~~e~e~d~~d~d~~ivLPp~LrLS~ErLesdGIY 1447 (1560)
T PTZ00395 1369 LLKHNVTK-KEILHDLKVYSLIKLLSMPIISSLLYVYPVMYVIHIKGKTNEIDSMDVDDDLFIPKTIPSSAEKIYSNGIY 1447 (1560)
T ss_pred Hhcccccc-CCCCccHHHHHHHHHhCCCHHHHHhhhcCceEEcccccccccCCccCCCCccccCCcccchHHHhcCCcEE
Confidence 99999998 4789999999999999999999999999999999950 1 489999999999999999
Q ss_pred EEeCCcEEEEEEcCchh-HHHHcccCCCchhHHHHHh--hcCC-----HHHHHHHHHcC--CCCcEEEEEccCC-chhhh
Q 004303 658 LLDSYFTVVIFHGATIA-QWRKAGYHNQPEHQAFAQL--LQAP-----HDDAGVIMKER--FPVPRLVICDQHG-SQVGS 726 (762)
Q Consensus 658 LlD~g~~i~i~~G~~v~-~~~~~~~~~~~~~~~~~~~--l~~p-----~~~~~~i~~~R--~~~p~~~~~~~g~-sq~rf 726 (762)
|||+|..+|||+|++++ +|+.+.|++.+.......+ ++.+ ...++.|++.| .++++++++++++ .+.+|
T Consensus 1448 LLDNGe~IyLWVG~~V~PqLLqDLFGv~~~~~~~~eLPelDT~iS~RVrnII~~LR~~r~~~~Y~pL~IVRqgDp~E~~F 1527 (1560)
T PTZ00395 1448 LLDACTHFYLYFGFHSDANFAKEIVGDIPTEKNAHELNLTDTPNAQKVQRIIKNLSRIHHFNKYVPLVMVAPKSNEEEHL 1527 (1560)
T ss_pred EEECCCEEEEEECCCCCHHHHHHHcCCCccccccccccCCCCHHHHHHHHHHHHHHHhccCCCcceEEEEeCCCchHHHH
Confidence 99999999999999998 5888988854321110011 1111 13456676665 4677788888884 68888
Q ss_pred HHhh--hccCC-CcHhhHhhhhccccccc
Q 004303 727 YHNV--QQMGG-SLWMIVVCYLLSPGKDI 752 (762)
Q Consensus 727 ~~~l--~~~~~-~~y~d~l~~~~~~~~~~ 752 (762)
+..| |+.++ +||+||||+||..++.-
T Consensus 1528 ~s~LVEDRs~g~~SYvDFLc~LHKqIq~k 1556 (1560)
T PTZ00395 1528 ISLCVEDKADKEYSYVNFLCFIHKLVHKR 1556 (1560)
T ss_pred HHhCeecCCCCCCCHHHHHHHHHHHHHHh
Confidence 8888 77655 79999999999988653
No 7
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=100.00 E-value=2.7e-113 Score=938.16 Aligned_cols=655 Identities=19% Similarity=0.318 Sum_probs=571.7
Q ss_pred cccCCCeeeecCCCCCCCHHHhhhCCCCeEEEEccCCCCCCCCCCCCCCC-CCCcccCCCCceecCcceEEcCCceEEec
Q 004303 6 DLEAQDGVRMPWNVIPGTKQEASNCVVPVSAIYTPIKAFPVNNNSMPILP-YAPLRCRTCRSILNPFSIVDFAAKIWICP 84 (762)
Q Consensus 6 ~~~~~~~iR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~~~~~~~vp~~~-~~p~RC~~C~ayiNp~~~~~~~~~~w~C~ 84 (762)
.|++|+|||+|+|++|.+.++.++++||||++++||.+..+++.++|+.. ..|+||++||+|+|||++|.++|++|+||
T Consensus 146 ~n~~p~yvrsT~yaiP~t~dl~~~skiPfgLVI~Pf~~l~~e~~~vpl~~d~~ivRCrrCrsYiNPfv~fi~~g~kw~CN 225 (861)
T COG5028 146 SNCSPKYVRSTMYAIPETNDLLKKSKIPFGLVIRPFLELYPEEDPVPLVEDGSIVRCRRCRSYINPFVQFIEQGRKWRCN 225 (861)
T ss_pred CCCCHHHHHHHHhhCCCchhHHHhcCCCceEEeehhhhcCccCCCCccCCCCcchhhhhhHhhcCceEEEecCCcEEEEe
Confidence 48999999999999999999999999999999999999887777788764 45899999999999999999999999999
Q ss_pred CCCCCCCCCcCCC-CCC------CCCCCccccCCCccEEEecCC----CCCCCCCCcEEEEEEECCCChhH---HHHHHH
Q 004303 85 FCFQRNHFPPHYA-SIT------DDNLPAELFPQYTTIEYEPPG----PGEKSSVPPVFMFVVDTCIIEEE---MSFLKS 150 (762)
Q Consensus 85 ~C~~~N~~p~~y~-~~~------~~~~~pEL~~~~~tvey~~~~----~~p~~~~~p~~vFvID~s~~~~~---l~~~~~ 150 (762)
+|+..|++|..+. +.. +.+.|+||. +++|||.+|. +.| .||+|||+||||.++.+ +.++.+
T Consensus 226 iC~~kN~vp~~~~~~~~~~~~r~d~~~r~El~--~~vvdf~ap~~Y~~~~p---~P~~yvFlIDVS~~a~~~g~~~a~~r 300 (861)
T COG5028 226 ICRSKNDVPEGFDNPSGPNDPRSDRYSRPELK--SGVVDFLAPKEYSLRQP---PPPVYVFLIDVSFEAIKNGLVKAAIR 300 (861)
T ss_pred eccccccCcccccCcCCCCCccccccccchhh--ceeeEEecccceeeccC---CCCEEEEEEEeehHhhhcchHHHHHH
Confidence 9999999998874 221 235789998 9999999997 356 79999999999999988 889999
Q ss_pred HHHHHhhcCC---CCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHHHhhcccCCCCCCCccccCccCC
Q 004303 151 ALSQAIDLLP---DNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQLNFFIKKPKPSTGVIAGVRDG 227 (762)
Q Consensus 151 ~l~~~l~~lp---~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~~~~~~~~~~p~~~~~~~~~~~ 227 (762)
+|++.|+.+| ++++|+||.||++|||++++ .+++ .+++++ .|++++|
T Consensus 301 ~Il~~l~~~~~~dpr~kIaii~fD~sl~ffk~s-~d~~-~~~~~v--------sdld~pF-------------------- 350 (861)
T COG5028 301 AILENLDQIPNFDPRTKIAIICFDSSLHFFKLS-PDLD-EQMLIV--------SDLDEPF-------------------- 350 (861)
T ss_pred HHHhhccCCCCCCCcceEEEEEEcceeeEEecC-CCCc-cceeee--------ccccccc--------------------
Confidence 9999999886 47999999999999999998 6632 144443 5777765
Q ss_pred CCcccc--cceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhccCCCCCcEEEEEecCCCCCCC
Q 004303 228 LSSDTI--ARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSGARILAFVGGPSTEGP 305 (762)
Q Consensus 228 ~~~~pl--~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~ggkIi~F~sg~pt~Gp 305 (762)
.|. +.|++|+++|+..++.||+..+. .+..++.++.|+|+||++|..+++ .+||||++|.+++||.|.
T Consensus 351 ---lPf~s~~fv~pl~~~k~~~etLl~~~~~---If~d~~~pk~~~G~aLk~a~~l~g----~~GGkii~~~stlPn~G~ 420 (861)
T COG5028 351 ---LPFPSGLFVLPLKSCKQIIETLLDRVPR---IFQDNKSPKNALGPALKAAKSLIG----GTGGKIIVFLSTLPNMGI 420 (861)
T ss_pred ---ccCCcchhcccHHHHHHHHHHHHHHhhh---hhcccCCCccccCHHHHHHHHHhh----ccCceEEEEeecCCCccc
Confidence 343 58999999999888889999988 467788999999999999999999 699999999999999999
Q ss_pred cccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccChhchhhhhccccceEEEeCCCC
Q 004303 306 AAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSFG 385 (762)
Q Consensus 306 G~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l~~~~~L~~~TGG~v~~~~~f~ 385 (762)
|+|..|++ ++ ..+++..+.||+++|.+|.+.||+||+|+++.+++|+++++.|++.|||.+++|++|+
T Consensus 421 Gkl~~r~d-----------~e-~~ll~c~d~fYk~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~~Yp~f~ 488 (861)
T COG5028 421 GKLQLRED-----------KE-SSLLSCKDSFYKEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTYFYPNFS 488 (861)
T ss_pred cccccccc-----------ch-hhhccccchHHHHHHHHHHHhcceEEEEeccccccchhhhcchhhccCcceEEcCCcc
Confidence 99998864 23 2478899999999999999999999999999999999999999999999999999999
Q ss_pred hhh------hHHHHHHHhhccccCccceeeeEEEEEecCCceEEeEEcCccccCCCCCCcccccccCCCCCceeeecCCC
Q 004303 386 HAV------FKDSVRRVFHSGDYDLGLSSNGIFEINCSKDIKVQGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDK 459 (762)
Q Consensus 386 ~~~------~~~~l~~~l~~~~~~~~~~~~~~l~vr~S~gl~v~~~~G~~~~~~~~~~~isd~~~g~~~~~~~~l~~~~~ 459 (762)
..+ |.++|.+.+ .+..||++.||||||+|+++.++|||++. ++.++..++.+++
T Consensus 489 ~~~~~d~~kl~~dL~~~l-----s~~~gy~~~~rvR~S~glr~s~fyGnf~~---------------rs~dl~~F~tm~r 548 (861)
T COG5028 489 ATRPNDATKLANDLVSHL-----SMEIGYEAVMRVRCSTGLRVSSFYGNFFN---------------RSSDLCAFSTMPR 548 (861)
T ss_pred cCCchhHHHHHHHHHHhh-----hhhhhhheeeEeeccCceehhhhhccccc---------------cCcccccccccCC
Confidence 987 555555544 24579999999999999999999999986 3567899999999
Q ss_pred CceEEEEEEEecCCCCcccccCCCCeEEEEEEEEEEecCCcEEEEEEeceeecccCCCCHHHHHhccCHHHHHHHHHHHH
Q 004303 460 ATSLCLVFEIVKKEIPDATLQSTNNQFYFQFLTYYQHNCGQMRLRVTTLSRRWVAGPGSVQDLIAGFDQEAAAVVMARLV 539 (762)
Q Consensus 460 ~~s~~~~~~~~~~~~~~~~~~~~~~~~~iQ~al~Yt~~~G~rriRV~T~~l~vt~~~~~~~~v~~~~D~ea~~~llak~a 539 (762)
|+|+.|+|++++++. ...+|||.|++||..+|+|||||.|++++++++ +.++|+++|++|++.+|+|+|
T Consensus 549 d~Sl~~~~sid~~l~--------~~~v~fQvAlL~T~~~GeRRiRVvn~s~~~ss~---~~evyasadq~aIa~~lak~a 617 (861)
T COG5028 549 DTSLLVEFSIDEKLM--------TSDVYFQVALLYTLNDGERRIRVVNLSLPTSSS---IREVYASADQLAIACILAKKA 617 (861)
T ss_pred CceEEEEEEeccccc--------CCceEEEEEEEeeccCCceEEEEEEeccccchh---HHHHHHhccHHHHHHHHHHHH
Confidence 999999999999974 489999999999999999999999999999995 999999999999999999999
Q ss_pred HHHhhcCCchhHHHHHHHHHHHHHHHhcccccC-----CCCCcCCCcccccHHHHHHHHhcccCcCCCCCChHHHHHHHH
Q 004303 540 SFKMEIEAEFDPIRWLDKALIHMCSRFGDYQKD-----SPSSFSLSPRFSIFPQFMFHLRRSQFVQVFNNSPDETAYFRM 614 (762)
Q Consensus 540 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~y~~~-----~~~~l~lp~~l~~lP~~~~~L~ks~~l~~~~~s~Der~~~~~ 614 (762)
+.++.+....++|+.|++.++++ +..|||. .+++++||++|++||++|++|.||.+|+...++.|.|+++..
T Consensus 618 ~~~~~~~s~~~~r~~i~~s~~~I---L~~Ykk~~~~snt~tql~Lp~nL~lLPll~lal~Ks~~~rs~~~~sD~r~~~L~ 694 (861)
T COG5028 618 STKALNSSLKEARVLINKSMVDI---LKAYKKELVKSNTSTQLPLPANLKLLPLLMLALLKSSAFRSGSTPSDIRISALN 694 (861)
T ss_pred HHHhhhhhHHHHHHHHHHHHHHH---HHHHHHHHhhccCCccccchhhhHHHHHHHHHHhhhcccccCCCccchhHHHHH
Confidence 99999999999999999999999 7778874 468999999999999999999999999988899999999999
Q ss_pred HHccCCHHHHHHhhcccceeccc----CC--------CCccccccccccccCeEEEEeCCcEEEEEEcCchhHHHHcccC
Q 004303 615 ILNRENVTNSVVMIQPSLISYSF----HS--------GPEPALLDVAAIAADRILLLDSYFTVVIFHGATIAQWRKAGYH 682 (762)
Q Consensus 615 ~l~~~~~~~~~~~iyP~L~~~~~----~~--------~p~~~~Ls~~~l~~~~iyLlD~g~~i~i~~G~~v~~~~~~~~~ 682 (762)
.+.++++.+.+..|||+||++|. .+ .|+++.++.+.++++|+||+|+|..+|+|+|+++++-+.+.++
T Consensus 695 ~l~~~p~~~l~~~iYP~lyalHdm~~e~~l~~~~~~~~~~piNaT~s~le~~GlYLidtg~~iflw~g~d~~p~Ll~dlf 774 (861)
T COG5028 695 RLTSLPLKQLMRNIYPTLYALHDMPIEAGLPDEGLLVLPSPINATSSLLESGGLYLIDTGQKIFLWFGKDAVPSLLQDLF 774 (861)
T ss_pred HhhcCCHHHHHHhhccceeeecccccccCCCcccccccccchhhhHHHHhcCCeEEEEcCCEEEEEecCCCCHHHHHHhc
Confidence 99999999999999999999994 11 4789999999999999999999999999999999876555555
Q ss_pred CCchhHHH---HHhh--------cCCHHHHHHHHH-cCCCCcEEEEEccCC--c-hhhhHHhh--hcc-CCCcHhhHhhh
Q 004303 683 NQPEHQAF---AQLL--------QAPHDDAGVIMK-ERFPVPRLVICDQHG--S-QVGSYHNV--QQM-GGSLWMIVVCY 744 (762)
Q Consensus 683 ~~~~~~~~---~~~l--------~~p~~~~~~i~~-~R~~~p~~~~~~~g~--s-q~rf~~~l--~~~-~~~~y~d~l~~ 744 (762)
+.++.+.+ +..+ +.-...+.++++ .+..++.++++|+|+ + +..|+..| |+. +..||.||||.
T Consensus 775 ~~~~~~~I~~~k~~~p~~~n~~n~~v~~iI~~lrs~~~~~tl~lvlVR~~~d~s~~~~~~s~lVEDk~~n~~SY~~yL~~ 854 (861)
T COG5028 775 GVDSLSDIPSGKFTLPPTGNEFNERVRNIIGELRSVNDDSTLPLVLVRGGGDPSLRLWFFSTLVEDKTLNIPSYLDYLQI 854 (861)
T ss_pred CcchhhhccccccccCCcCCHHHHHHHHHHHHHHhhCCCCccceEEEecCCCcchhhheehheecccccCCccHHHHHHH
Confidence 45444433 1110 001134566676 577777799999984 3 55678888 665 45999999999
Q ss_pred hcccccc
Q 004303 745 LLSPGKD 751 (762)
Q Consensus 745 ~~~~~~~ 751 (762)
+|.++|+
T Consensus 855 lh~ki~~ 861 (861)
T COG5028 855 LHEKIKS 861 (861)
T ss_pred HHHHhcC
Confidence 9999874
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=2.7e-54 Score=449.45 Aligned_cols=264 Identities=56% Similarity=0.928 Sum_probs=236.7
Q ss_pred CCcEEEEEEECCCChhHHHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHHHh
Q 004303 128 VPPVFMFVVDTCIIEEEMSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQL 207 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~~ 207 (762)
.||+|+||||+|.+++++++++++|+++|+.||++++|||||||++||||+|+ .. .+++++||+|+++|+.+++++++
T Consensus 2 ~pp~~vFviDvs~~~~el~~l~~sl~~~L~~lP~~a~VGlITfd~~V~~~~L~-~~-~~~~~~vf~g~~~~~~~~~~~~l 79 (267)
T cd01478 2 SPPVFLFVVDTCMDEEELDALKESLIMSLSLLPPNALVGLITFGTMVQVHELG-FE-ECSKSYVFRGNKDYTAKQIQDML 79 (267)
T ss_pred CCCEEEEEEECccCHHHHHHHHHHHHHHHHhCCCCCEEEEEEECCEEEEEEcC-CC-cCceeeeccCCccCCHHHHHHHh
Confidence 78999999999999999999999999999999999999999999999999998 66 78999999999999999999998
Q ss_pred hcccCCCCCCCccccCccCCCCccc--ccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhcc
Q 004303 208 NFFIKKPKPSTGVIAGVRDGLSSDT--IARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGAC 285 (762)
Q Consensus 208 ~~~~~~~~p~~~~~~~~~~~~~~~p--l~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~ 285 (762)
++........ ..... ..+..+.| .++||+|++||++.|+++|++|+++.|++++++++.||+|+||++|..+|+++
T Consensus 80 ~~~~~~~~~~-~~~~~-~~~~~~~p~~~~~flvpl~e~~~~i~~lLe~L~~~~~~~~~~~r~~r~~G~Al~~A~~ll~~~ 157 (267)
T cd01478 80 GLGGPAMRPS-ASQHP-GAGNPLPSAAASRFLLPVSQCEFTLTDLLEQLQPDPWPVPAGHRPLRCTGVALSIAVGLLEAC 157 (267)
T ss_pred cccccccccc-ccCcC-CccccccccccccEEEEHHHHHHHHHHHHHhCcccccccCCCCCCCCchHHHHHHHHHHHHhh
Confidence 7743110000 00000 00001223 37999999999999999999999999999999999999999999999999988
Q ss_pred CCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccChh
Q 004303 286 VPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVA 365 (762)
Q Consensus 286 ~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l~ 365 (762)
+++.||||++|++||||.|||+|+.++.++++|+|.|++++++++++++++||++||.+|+++||+||+|+++.+|+|++
T Consensus 158 ~~~~gGki~~F~sg~pT~GpG~l~~r~~~~~~r~~~d~~~~~~~~~~~a~~fY~~la~~~~~~~vsvDlF~~s~d~vgla 237 (267)
T cd01478 158 FPNTGARIMLFAGGPCTVGPGAVVSTELKDPIRSHHDIDKDNAKYYKKAVKFYDSLAKRLAANGHAVDIFAGCLDQVGLL 237 (267)
T ss_pred cCCCCcEEEEEECCCCCCCCceeeccccccccccccccccchhhhhhhHHHHHHHHHHHHHhCCeEEEEEeccccccCHH
Confidence 77899999999999999999999999999999999999999889999999999999999999999999999999999999
Q ss_pred chhhhhccccceEEEeCCCChhhhHHHHHH
Q 004303 366 ELKVAVEKTGGLVVLSDSFGHAVFKDSVRR 395 (762)
Q Consensus 366 ~~~~L~~~TGG~v~~~~~f~~~~~~~~l~~ 395 (762)
+|+.|++.|||.+++|++|+.+.|+++|+|
T Consensus 238 em~~l~~~TGG~v~~~~~f~~~~f~~s~~~ 267 (267)
T cd01478 238 EMKVLVNSTGGHVVLSDSFTTSIFKQSFQR 267 (267)
T ss_pred HHHHHHHhcCcEEEEeCCcchHHHHHHhcC
Confidence 999999999999999999999999998764
No 9
>cd01479 Sec24-like Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 24 is very similar to Sec23. The Sec23 and Sec24
Probab=100.00 E-value=1.1e-44 Score=374.60 Aligned_cols=226 Identities=23% Similarity=0.335 Sum_probs=198.3
Q ss_pred CCcEEEEEEECCCChhH---HHHHHHHHHHHhhcCCCC---cEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChH
Q 004303 128 VPPVFMFVVDTCIIEEE---MSFLKSALSQAIDLLPDN---SLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKD 201 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~~---l~~~~~~l~~~l~~lp~~---~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~ 201 (762)
+||+|+||||+|.++++ +++++++|+++|+.+|++ ++|||||||+.||||+++ .++.+++++|+ .
T Consensus 2 ~pp~~~FvIDvs~~a~~~g~~~~~~~si~~~L~~lp~~~~~~~VgiITfd~~v~~y~l~-~~~~~~q~~vv--------~ 72 (244)
T cd01479 2 QPAVYVFLIDVSYNAIKSGLLATACEALLSNLDNLPGDDPRTRVGFITFDSTLHFFNLK-SSLEQPQMMVV--------S 72 (244)
T ss_pred CCCEEEEEEEccHHHHhhChHHHHHHHHHHHHHhcCCCCCCeEEEEEEECCeEEEEECC-CCCCCCeEEEe--------e
Confidence 79999999999999986 999999999999999977 999999999999999998 76678888886 4
Q ss_pred HHHHHhhcccCCCCCCCccccCccCCCCcccc-cceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHH
Q 004303 202 QLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTI-ARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAAS 280 (762)
Q Consensus 202 ~l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl-~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ 280 (762)
|++|++ .|+ ++||+|++||++.|.++|++|+. .+.+++++.+|+|+||++|..
T Consensus 73 dl~d~f-----------------------~P~~~~~lv~l~e~~~~i~~lL~~L~~---~~~~~~~~~~c~G~Al~~A~~ 126 (244)
T cd01479 73 DLDDPF-----------------------LPLPDGLLVNLKESRQVIEDLLDQIPE---MFQDTKETESALGPALQAAFL 126 (244)
T ss_pred Cccccc-----------------------CCCCcceeecHHHHHHHHHHHHHHHHH---HHhcCCCCcccHHHHHHHHHH
Confidence 677654 343 78999999999999999999976 467788899999999999999
Q ss_pred HhhccCCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCC
Q 004303 281 LLGACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALD 360 (762)
Q Consensus 281 ll~~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~ 360 (762)
+|+ +.||||++|++|+||.|||+|+.++.++ ++.+ +++ .++++++++||+++|.+|+++||+||+|+++.+
T Consensus 127 lL~----~~GGkIi~f~s~~pt~GpG~l~~~~~~~-~~~~---~~e-~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~ 197 (244)
T cd01479 127 LLK----ETGGKIIVFQSSLPTLGAGKLKSREDPK-LLST---DKE-KQLLQPQTDFYKKLALECVKSQISVDLFLFSNQ 197 (244)
T ss_pred HHH----hcCCEEEEEeCCCCCcCCcccccCcccc-ccCc---hhh-hhhcCcchHHHHHHHHHHHHcCeEEEEEEccCc
Confidence 999 6999999999999999999999987654 3333 233 378999999999999999999999999999999
Q ss_pred ccChhchhhhhccccceEEEeC--CCChhhhHHHHHHHh
Q 004303 361 QVGVAELKVAVEKTGGLVVLSD--SFGHAVFKDSVRRVF 397 (762)
Q Consensus 361 ~~~l~~~~~L~~~TGG~v~~~~--~f~~~~~~~~l~~~l 397 (762)
++|+++|+.|++.|||.+++|+ .|+..++.+.|...+
T Consensus 198 ~~dla~l~~l~~~TGG~v~~y~~~~~~~~~d~~kl~~dl 236 (244)
T cd01479 198 YVDVATLGCLSRLTGGQVYYYPSFNFSAPNDVEKLVNEL 236 (244)
T ss_pred ccChhhhhhhhhhcCceEEEECCccCCchhhHHHHHHHH
Confidence 9999999999999999999999 676554444444333
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=1.5e-44 Score=374.05 Aligned_cols=230 Identities=40% Similarity=0.619 Sum_probs=199.6
Q ss_pred CCcEEEEEEECCCChh---HHHHHHHHHHHHhhcCC--CCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHH
Q 004303 128 VPPVFMFVVDTCIIEE---EMSFLKSALSQAIDLLP--DNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQ 202 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~---~l~~~~~~l~~~l~~lp--~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~ 202 (762)
+||+|+||||+|.+++ ++++++++|+++|+.|| ++++|||||||++||||+++ .....++++|++ |
T Consensus 2 ~pp~~vFvID~s~~ai~~~~l~~~~~sl~~~l~~lp~~~~~~igiITf~~~V~~~~~~-~~~~~~~~~v~~--------d 72 (239)
T cd01468 2 QPPVFVFVIDVSYEAIKEGLLQALKESLLASLDLLPGDPRARVGLITYDSTVHFYNLS-SDLAQPKMYVVS--------D 72 (239)
T ss_pred CCCEEEEEEEcchHhccccHHHHHHHHHHHHHHhCCCCCCcEEEEEEeCCeEEEEECC-CCCCCCeEEEeC--------C
Confidence 8999999999999954 49999999999999999 99999999999999999998 664568888874 5
Q ss_pred HHHHhhcccCCCCCCCccccCccCCCCcccc-cceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHH
Q 004303 203 LLEQLNFFIKKPKPSTGVIAGVRDGLSSDTI-ARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASL 281 (762)
Q Consensus 203 l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl-~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~l 281 (762)
++|.| .|. +++++|++|+++.|.++|++|++..+.. .++++.||+|+||++|..+
T Consensus 73 l~d~f-----------------------~p~~~~~l~~~~e~~~~i~~~l~~l~~~~~~~-~~~~~~~~~G~Al~~A~~l 128 (239)
T cd01468 73 LKDVF-----------------------LPLPDRFLVPLSECKKVIHDLLEQLPPMFWPV-PTHRPERCLGPALQAAFLL 128 (239)
T ss_pred CccCc-----------------------CCCcCceeeeHHHHHHHHHHHHHhhhhhcccc-CCCCCcccHHHHHHHHHHH
Confidence 55654 232 6899999999999999999999864322 2678999999999999999
Q ss_pred hhccCCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCc
Q 004303 282 LGACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQ 361 (762)
Q Consensus 282 l~~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~ 361 (762)
|+.. ..||||++|++|+||.|||+|+.++.++++|+| + ++++++++.+||++||++|+++||+||+|+++.++
T Consensus 129 l~~~--~~gGkI~~f~sg~pt~GpG~l~~~~~~~~~~~~----~-e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~ 201 (239)
T cd01468 129 LKGT--FAGGRIIVFQGGLPTVGPGKLKSREDKEPIRSH----D-EAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDY 201 (239)
T ss_pred Hhhc--CCCceEEEEECCCCCCCCCccccCcccccCCCc----c-chhcccccHHHHHHHHHHHHHcCeEEEEEeccccc
Confidence 9941 139999999999999999999999888888876 2 25899999999999999999999999999999999
Q ss_pred cChhchhhhhccccceEEEeCCCChhhhHHHHHHHh
Q 004303 362 VGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVF 397 (762)
Q Consensus 362 ~~l~~~~~L~~~TGG~v~~~~~f~~~~~~~~l~~~l 397 (762)
+|+++|++|++.|||.+++|++|+..+..+.|.+.|
T Consensus 202 ~dl~~l~~l~~~TGG~v~~y~~f~~~~~~~~~~~~l 237 (239)
T cd01468 202 VDVATLKQLAKSTGGQVYLYDSFQAPNDGSKFKQDL 237 (239)
T ss_pred cCHHHhhhhhhcCCceEEEeCCCCCcccHHHHHHHh
Confidence 999999999999999999999996555444444433
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=2.9e-43 Score=365.83 Aligned_cols=232 Identities=32% Similarity=0.503 Sum_probs=184.4
Q ss_pred CCcEEEEEEECCCChhH---HHHHHHHHHHHhhcCC--CCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHH
Q 004303 128 VPPVFMFVVDTCIIEEE---MSFLKSALSQAIDLLP--DNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQ 202 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~~---l~~~~~~l~~~l~~lp--~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~ 202 (762)
+||+|+||||+|.++++ ++.++++|+++|+.+| ++++|||||||+.||||+++ .++..++++|. .|
T Consensus 2 ~pp~y~FvID~s~~av~~g~~~~~~~sl~~~l~~l~~~~~~~vgiitfd~~V~~y~l~-~~~~~~~~~v~--------~d 72 (243)
T PF04811_consen 2 QPPVYVFVIDVSYEAVQSGLLQSLIESLKSALDSLPGDERTRVGIITFDSSVHFYNLS-SSLSQPQMIVV--------SD 72 (243)
T ss_dssp S--EEEEEEE-SHHHHHHTHHHHHHHHHHHHGCTSSTSTT-EEEEEEESSSEEEEETT-TTSSSTEEEEE--------HH
T ss_pred CCCEEEEEEECchhhhhccHHHHHHHHHHHHHHhccCCCCcEEEEEEeCCEEEEEECC-CCcCCCcccch--------HH
Confidence 89999999999999766 9999999999999999 89999999999999999999 65567888875 78
Q ss_pred HHHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHh
Q 004303 203 LLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLL 282 (762)
Q Consensus 203 l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll 282 (762)
++|++. +.| ++|+++++++++.|.++|++|++ .++...++++.||+|+||++|..+|
T Consensus 73 l~~~~~---------------------p~~-~~llv~~~e~~~~i~~ll~~L~~-~~~~~~~~~~~~c~G~Al~~A~~ll 129 (243)
T PF04811_consen 73 LDDPFI---------------------PLP-DGLLVPLSECRDAIEELLESLPS-IFPETAGKRPERCLGSALSAALSLL 129 (243)
T ss_dssp TTSHHS---------------------STS-SSSSEETTTCHHHHHHHHHHHHH-HSTT-TTB-----HHHHHHHHHHHH
T ss_pred Hhhccc---------------------CCc-ccEEEEhHHhHHHHHHHHHHhhh-hcccccccCccccHHHHHHHHHHHH
Confidence 888771 134 89999999999999999999997 3333334889999999999999999
Q ss_pred hccCCCCCcEEEEEecCCCCCCC-cccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCc
Q 004303 283 GACVPGSGARILAFVGGPSTEGP-AAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQ 361 (762)
Q Consensus 283 ~~~~~~~ggkIi~F~sg~pt~Gp-G~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~ 361 (762)
+.. +.||||++|++|+||.|| |++..++.. ++.+++++++.+++++.+||++||++|+++||+||+|+++.++
T Consensus 130 ~~~--~~gGkI~~F~s~~pt~G~Gg~l~~~~~~----~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~ 203 (243)
T PF04811_consen 130 SSR--NTGGKILVFTSGPPTYGPGGSLKKREDS----SHYDTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDY 203 (243)
T ss_dssp HHH--TS-EEEEEEESS---SSSTTSS-SBTTS----CCCCHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS-
T ss_pred hcc--ccCCEEEEEeccCCCCCCCceecccccc----cccccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCC
Confidence 942 489999999999999999 666666433 4567777767888999999999999999999999999999999
Q ss_pred cChhchhhhhccccceEEEeCCCChhhhHHHHHHHh
Q 004303 362 VGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVF 397 (762)
Q Consensus 362 ~~l~~~~~L~~~TGG~v~~~~~f~~~~~~~~l~~~l 397 (762)
+|+++|+.|++.|||.+++|++|+.+++.+.|++.|
T Consensus 204 ~~l~tl~~l~~~TGG~l~~y~~f~~~~~~~~l~~dl 239 (243)
T PF04811_consen 204 VDLATLGPLARYTGGSLYYYPNFNAERDGEKLRQDL 239 (243)
T ss_dssp -SHHHHTHHHHCTT-EEEEETTTTCHHHHHHHHHHH
T ss_pred CCcHhHHHHHHhCceeEEEeCCCCCchhHHHHHHHH
Confidence 999999999999999999999999655554444444
No 12
>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=99.87 E-value=1.1e-21 Score=173.24 Aligned_cols=96 Identities=40% Similarity=0.683 Sum_probs=87.0
Q ss_pred eeeeEEEEEecCCceEEeEEcCccccCCCCCCcccccccCCCCCceeeecCCCCceEEEEEEEecCCCCcccccCCCCeE
Q 004303 407 SSNGIFEINCSKDIKVQGIIGPCASLEKKGPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIVKKEIPDATLQSTNNQF 486 (762)
Q Consensus 407 ~~~~~l~vr~S~gl~v~~~~G~~~~~~~~~~~isd~~~g~~~~~~~~l~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~ 486 (762)
||+|+||||||+|++|++++||+... +++||.++|.++++.|.+++++++++++|+|++++++ ...+.+
T Consensus 1 g~~~~l~vr~S~gl~v~~~~G~~~~~----~~~s~~~~g~~~~~~~~~~~l~~~~s~~~~~~~~~~~-------~~~~~~ 69 (96)
T PF08033_consen 1 GFNAVLRVRCSKGLKVSGVIGPCFNR----SSVSDNEIGEGDTTRWKLPSLDPDTSFAFEFEIDEDL-------PNGSQA 69 (96)
T ss_dssp EEEEEEEEEE-TTEEEEEEESSSEES----STBESSECSBSSCSEEEEEEEETT--EEEEEEESSBT-------BTTSEE
T ss_pred CceEEEEEEECCCeEEEEEEcCcccc----ccccceeeccCCccEEEecccCCCCEEEEEEEECCCC-------CCCCeE
Confidence 79999999999999999999999974 4688999999999999999999999999999999886 347899
Q ss_pred EEEEEEEEEecCCcEEEEEEeceeecc
Q 004303 487 YFQFLTYYQHNCGQMRLRVTTLSRRWV 513 (762)
Q Consensus 487 ~iQ~al~Yt~~~G~rriRV~T~~l~vt 513 (762)
|||++++||+.+|+|||||+|+++|+|
T Consensus 70 ~iQ~~~~Yt~~~G~r~iRV~T~~l~vt 96 (96)
T PF08033_consen 70 YIQFALLYTDSNGERRIRVTTLSLPVT 96 (96)
T ss_dssp EEEEEEEEEETTSEEEEEEEEEEEEEE
T ss_pred EEEEEEEEECCCCCEEEEEEeeccccC
Confidence 999999999999999999999999986
No 13
>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=99.75 E-value=1.7e-18 Score=154.98 Aligned_cols=98 Identities=26% Similarity=0.351 Sum_probs=88.0
Q ss_pred HHHHHHHHHHHHHHHhhcCCchhHHHHHHHHHHHHHHHhcccccCC-----CCCcCCCcccccHHHHHHHHhcccCcCCC
Q 004303 528 QEAAAVVMARLVSFKMEIEAEFDPIRWLDKALIHMCSRFGDYQKDS-----PSSFSLSPRFSIFPQFMFHLRRSQFVQVF 602 (762)
Q Consensus 528 ~ea~~~llak~a~~~~~~~~~~~~~~~l~~~l~~~~~~~~~y~~~~-----~~~l~lp~~l~~lP~~~~~L~ks~~l~~~ 602 (762)
|||++++++|+++.++.+++..++|++++++++++ +..||++| +++|+|||+||+||+|+++|+||++|++.
T Consensus 1 Qda~~~llak~ai~~~~~~~l~~~r~~l~~~~v~i---l~~Yr~~~~~~~~~~qLilPe~lklLPly~l~llKs~alr~~ 77 (103)
T PF04815_consen 1 QDAITSLLAKQAIDKALSSSLKDARESLDNRLVDI---LAAYRKNCASSSSSGQLILPESLKLLPLYILALLKSPALRPT 77 (103)
T ss_dssp HHHHHHHHHHHHHHHHCCS-HHHHHHHHHHHHHHH---HHHHHHHCTTECCCTEEEEEGGGTTHHHHHHHHHTSTTTSCS
T ss_pred CHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHH---HHHHHhhccCCCCchhhhCCHHHHHHHHHHHHHHcchhhcCC
Confidence 79999999999999999999999999999999999 55666653 36899999999999999999999999999
Q ss_pred CCChHHHHHHHHHHccCCHHHHHHhh
Q 004303 603 NNSPDETAYFRMILNRENVTNSVVMI 628 (762)
Q Consensus 603 ~~s~Der~~~~~~l~~~~~~~~~~~i 628 (762)
++++|||+|+++++++++++.++.||
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 99999999999999999999998875
No 14
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=99.61 E-value=2.1e-16 Score=114.56 Aligned_cols=40 Identities=55% Similarity=1.250 Sum_probs=29.1
Q ss_pred CCcccCCCCceecCcceEEcCCceEEecCCCCCCCCCcCC
Q 004303 57 APLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFPPHY 96 (762)
Q Consensus 57 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~~y 96 (762)
+|+||++|+||||||++|+.++++|+|+||++.|++|++|
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 4899999999999999999999999999999999999887
No 15
>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=98.56 E-value=3e-06 Score=82.77 Aligned_cols=158 Identities=16% Similarity=0.211 Sum_probs=109.6
Q ss_pred EEEEEECCCChhH--HHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHHHhhc
Q 004303 132 FMFVVDTCIIEEE--MSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQLNF 209 (762)
Q Consensus 132 ~vFvID~s~~~~~--l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~~~~ 209 (762)
++|++|+|.+... ++.+++++...+..++++.+||+++|++..+..--. .
T Consensus 3 ~~~vlD~S~SM~~~~~~~~k~a~~~~~~~l~~~~~v~li~f~~~~~~~~~~--~-------------------------- 54 (170)
T cd01465 3 LVFVIDRSGSMDGPKLPLVKSALKLLVDQLRPDDRLAIVTYDGAAETVLPA--T-------------------------- 54 (170)
T ss_pred EEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEecCCccEEecC--c--------------------------
Confidence 6899999998644 888899999999999988999999999765432100 0
Q ss_pred ccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhccCC-C
Q 004303 210 FIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVP-G 288 (762)
Q Consensus 210 ~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~-~ 288 (762)
+. . ....+...|+++.. ...+.++.||..|...+..... .
T Consensus 55 ----------------------~~-------~-~~~~l~~~l~~~~~---------~g~T~~~~al~~a~~~~~~~~~~~ 95 (170)
T cd01465 55 ----------------------PV-------R-DKAAILAAIDRLTA---------GGSTAGGAGIQLGYQEAQKHFVPG 95 (170)
T ss_pred ----------------------cc-------c-hHHHHHHHHHcCCC---------CCCCCHHHHHHHHHHHHHhhcCCC
Confidence 00 0 01233444444433 2345788999999888864211 1
Q ss_pred CCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccChhchh
Q 004303 289 SGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVAELK 368 (762)
Q Consensus 289 ~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l~~~~ 368 (762)
.-.+|++|++|.++.|+.. .+-+.+....+...++.|+.+.++ +..+...|.
T Consensus 96 ~~~~ivl~TDG~~~~~~~~---------------------------~~~~~~~~~~~~~~~v~i~~i~~g-~~~~~~~l~ 147 (170)
T cd01465 96 GVNRILLATDGDFNVGETD---------------------------PDELARLVAQKRESGITLSTLGFG-DNYNEDLME 147 (170)
T ss_pred CeeEEEEEeCCCCCCCCCC---------------------------HHHHHHHHHHhhcCCeEEEEEEeC-CCcCHHHHH
Confidence 1267999999988776421 011234455566789999999988 678899999
Q ss_pred hhhccccceEEEeCCC
Q 004303 369 VAVEKTGGLVVLSDSF 384 (762)
Q Consensus 369 ~L~~~TGG~v~~~~~f 384 (762)
.++..++|..++.++.
T Consensus 148 ~ia~~~~g~~~~~~~~ 163 (170)
T cd01465 148 AIADAGNGNTAYIDNL 163 (170)
T ss_pred HHHhcCCceEEEeCCH
Confidence 9999999998876554
No 16
>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=98.49 E-value=6.5e-06 Score=82.32 Aligned_cols=167 Identities=17% Similarity=0.177 Sum_probs=106.9
Q ss_pred CCcEEEEEEECCCChh--HHHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHH
Q 004303 128 VPPVFMFVVDTCIIEE--EMSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLE 205 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~--~l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~ 205 (762)
.|-..+||||+|.+.. .++.++++++..++.++++.+||||+|++.++..--- ..
T Consensus 12 ~p~~vv~llD~SgSM~~~~l~~ak~~~~~ll~~l~~~d~v~lv~F~~~~~~~~~~-~~---------------------- 68 (190)
T cd01463 12 SPKDIVILLDVSGSMTGQRLHLAKQTVSSILDTLSDNDFFNIITFSNEVNPVVPC-FN---------------------- 68 (190)
T ss_pred CCceEEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCCCEEEEEEeCCCeeEEeee-cc----------------------
Confidence 5677899999999864 3899999999999999999999999999988754210 00
Q ss_pred HhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhcc
Q 004303 206 QLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGAC 285 (762)
Q Consensus 206 ~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~ 285 (762)
..++....+....+...|+.|+. ...+.++.||..|...+...
T Consensus 69 ----------------------------~~~~~~~~~~~~~~~~~l~~l~~---------~G~T~~~~al~~a~~~l~~~ 111 (190)
T cd01463 69 ----------------------------DTLVQATTSNKKVLKEALDMLEA---------KGIANYTKALEFAFSLLLKN 111 (190)
T ss_pred ----------------------------cceEecCHHHHHHHHHHHhhCCC---------CCcchHHHHHHHHHHHHHHh
Confidence 00111111123345555555554 22467899999999888741
Q ss_pred C--------CCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHH-HHHhcCcEEEEEE
Q 004303 286 V--------PGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSK-QLVHQGHVLDLFA 356 (762)
Q Consensus 286 ~--------~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~-~~~~~~isvDlf~ 356 (762)
. +.....|+++|+|.++.+.- ....+.. .....++.|..|.
T Consensus 112 ~~~~~~~~~~~~~~~iillTDG~~~~~~~------------------------------~~~~~~~~~~~~~~v~i~tig 161 (190)
T cd01463 112 LQSNHSGSRSQCNQAIMLITDGVPENYKE------------------------------IFDKYNWDKNSEIPVRVFTYL 161 (190)
T ss_pred hhcccccccCCceeEEEEEeCCCCCcHhH------------------------------HHHHhcccccCCCcEEEEEEe
Confidence 0 11234688899997653210 0111100 0011245555555
Q ss_pred ecCCccChhchhhhhccccceEEEeCCC
Q 004303 357 CALDQVGVAELKVAVEKTGGLVVLSDSF 384 (762)
Q Consensus 357 ~~~~~~~l~~~~~L~~~TGG~v~~~~~f 384 (762)
++.+..|...|..|+..+||..++.++.
T Consensus 162 iG~~~~d~~~L~~lA~~~~G~~~~i~~~ 189 (190)
T cd01463 162 IGREVTDRREIQWMACENKGYYSHIQSL 189 (190)
T ss_pred cCCccccchHHHHHHhhcCCeEEEcccC
Confidence 5555568889999999999999987653
No 17
>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=98.46 E-value=1.2e-05 Score=79.50 Aligned_cols=163 Identities=19% Similarity=0.134 Sum_probs=109.0
Q ss_pred EEEEEECCCChh---HHHHHHHHHHHHhhc-CCCCcEEEEEEeCCe-EEEEEcCCCCCCCCeeEEecCCccCChHHHHHH
Q 004303 132 FMFVVDTCIIEE---EMSFLKSALSQAIDL-LPDNSLVGLITFGTL-VQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQ 206 (762)
Q Consensus 132 ~vFvID~s~~~~---~l~~~~~~l~~~l~~-lp~~~~VglITfd~~-V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~ 206 (762)
++|+||+|.++. .++.+++++...+.. ++++.+||+|+|++. .++. +. ..
T Consensus 3 v~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~~~~~d~v~lv~F~~~~~~~~-~~-~t----------------------- 57 (178)
T cd01451 3 VIFVVDASGSMAARHRMAAAKGAVLSLLRDAYQRRDKVALIAFRGTEAEVL-LP-PT----------------------- 57 (178)
T ss_pred EEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceEE-eC-CC-----------------------
Confidence 679999999865 488888888888754 567889999999864 2221 11 00
Q ss_pred hhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhccC
Q 004303 207 LNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACV 286 (762)
Q Consensus 207 ~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~ 286 (762)
.....+...|+.++. ...+.++.||..|...++...
T Consensus 58 -----------------------------------~~~~~~~~~l~~l~~---------~G~T~l~~aL~~a~~~l~~~~ 93 (178)
T cd01451 58 -----------------------------------RSVELAKRRLARLPT---------GGGTPLAAGLLAAYELAAEQA 93 (178)
T ss_pred -----------------------------------CCHHHHHHHHHhCCC---------CCCCcHHHHHHHHHHHHHHHh
Confidence 001123334445443 245689999999999882111
Q ss_pred CCCC--cEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccCh
Q 004303 287 PGSG--ARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGV 364 (762)
Q Consensus 287 ~~~g--gkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l 364 (762)
...+ ..|+++++|.++.|.... ..+ -.++++++...||.+..+.......+-
T Consensus 94 ~~~~~~~~ivliTDG~~~~g~~~~-----------------------~~~---~~~~~~~l~~~gi~v~~I~~~~~~~~~ 147 (178)
T cd01451 94 RDPGQRPLIVVITDGRANVGPDPT-----------------------ADR---ALAAARKLRARGISALVIDTEGRPVRR 147 (178)
T ss_pred cCCCCceEEEEECCCCCCCCCCch-----------------------hHH---HHHHHHHHHhcCCcEEEEeCCCCccCc
Confidence 1122 578888999888763100 000 145677788889988777666556677
Q ss_pred hchhhhhccccceEEEeCCCChhhh
Q 004303 365 AELKVAVEKTGGLVVLSDSFGHAVF 389 (762)
Q Consensus 365 ~~~~~L~~~TGG~v~~~~~f~~~~~ 389 (762)
..|..|++.|||..++.++.+...|
T Consensus 148 ~~l~~iA~~tgG~~~~~~d~~~~~~ 172 (178)
T cd01451 148 GLAKDLARALGGQYVRLPDLSADAI 172 (178)
T ss_pred cHHHHHHHHcCCeEEEcCcCCHHHH
Confidence 7899999999999999988876544
No 18
>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=98.43 E-value=5.2e-06 Score=84.19 Aligned_cols=168 Identities=23% Similarity=0.269 Sum_probs=109.8
Q ss_pred CCcEEEEEEECCCChh--------HHHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCC
Q 004303 128 VPPVFMFVVDTCIIEE--------EMSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVS 199 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~--------~l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~ 199 (762)
.+..++||||+|.++. .++.+++++...++.++++.+|||++|++.++- . ..
T Consensus 19 ~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l~~~~~v~lv~F~~~~~~---~-~~---------------- 78 (206)
T cd01456 19 LPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDGTRLGLWTFSGDGDN---P-LD---------------- 78 (206)
T ss_pred CCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhCCCCceEEEEEecCCCCC---C-cc----------------
Confidence 6788999999999875 389999999999999999999999999985531 0 00
Q ss_pred hHHHHHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHcc-CCCCCCCCCCCCcchhhHHHHHH
Q 004303 200 KDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQ-KDPWPVPPDQRSTRCTGTALSIA 278 (762)
Q Consensus 200 ~~~l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~-~~~~~~~~~~~~~~~~G~Al~~A 278 (762)
....+-. .| ...++..+. ...+..+...|+.+. . ...+.++.||..|
T Consensus 79 ---~~~~~p~-----~~------------~~~~~~~~~---~~~~~~l~~~i~~i~~~---------~G~T~l~~aL~~a 126 (206)
T cd01456 79 ---VRVLVPK-----GC------------LTAPVNGFP---SAQRSALDAALNSLQTP---------TGWTPLAAALAEA 126 (206)
T ss_pred ---ccccccc-----cc------------cccccCCCC---cccHHHHHHHHHhhcCC---------CCcChHHHHHHHH
Confidence 0000000 00 000011110 013456777777776 2 2357899999999
Q ss_pred HHHhhccCCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHH-HHhcCcEEEEEEe
Q 004303 279 ASLLGACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQ-LVHQGHVLDLFAC 357 (762)
Q Consensus 279 ~~ll~~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~-~~~~~isvDlf~~ 357 (762)
..++. +.....|+++++|.++.|+.. .+..++++.. ....+|.|+.+.+
T Consensus 127 ~~~l~---~~~~~~iillTDG~~~~~~~~---------------------------~~~~~~~~~~~~~~~~i~i~~igi 176 (206)
T cd01456 127 AAYVD---PGRVNVVVLITDGEDTCGPDP---------------------------CEVARELAKRRTPAPPIKVNVIDF 176 (206)
T ss_pred HHHhC---CCCcceEEEEcCCCccCCCCH---------------------------HHHHHHHHHhcCCCCCceEEEEEe
Confidence 99985 133378999999977655300 0011122211 0225899999988
Q ss_pred cCCccChhchhhhhccccceE
Q 004303 358 ALDQVGVAELKVAVEKTGGLV 378 (762)
Q Consensus 358 ~~~~~~l~~~~~L~~~TGG~v 378 (762)
+.+ .+...|..++..|||..
T Consensus 177 G~~-~~~~~l~~iA~~tgG~~ 196 (206)
T cd01456 177 GGD-ADRAELEAIAEATGGTY 196 (206)
T ss_pred cCc-ccHHHHHHHHHhcCCeE
Confidence 754 67889999999999988
No 19
>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=98.42 E-value=7.5e-06 Score=79.08 Aligned_cols=149 Identities=20% Similarity=0.206 Sum_probs=103.3
Q ss_pred EEEEEECCCChhH--HHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHHHhhc
Q 004303 132 FMFVVDTCIIEEE--MSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQLNF 209 (762)
Q Consensus 132 ~vFvID~s~~~~~--l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~~~~ 209 (762)
.+|+||+|.+... ++.+++++...++.|+++.+||||+|++..+.. . + +
T Consensus 3 v~~vlD~S~SM~~~rl~~ak~a~~~l~~~l~~~~~~~li~F~~~~~~~--~-~------------------------~-- 53 (155)
T cd01466 3 LVAVLDVSGSMAGDKLQLVKHALRFVISSLGDADRLSIVTFSTSAKRL--S-P------------------------L-- 53 (155)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcceEEEEEecCCcccc--C-C------------------------C--
Confidence 5799999998753 889999999999999998999999999865432 1 0 0
Q ss_pred ccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhccC-CC
Q 004303 210 FIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACV-PG 288 (762)
Q Consensus 210 ~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~-~~ 288 (762)
.+.. ...+..+.++++.+.+ ...++++.||..|..++.... .+
T Consensus 54 ---------------------~~~~------~~~~~~~~~~i~~~~~---------~g~T~~~~al~~a~~~~~~~~~~~ 97 (155)
T cd01466 54 ---------------------RRMT------AKGKRSAKRVVDGLQA---------GGGTNVVGGLKKALKVLGDRRQKN 97 (155)
T ss_pred ---------------------cccC------HHHHHHHHHHHHhccC---------CCCccHHHHHHHHHHHHhhcccCC
Confidence 0000 0112345556666543 346789999999999987311 12
Q ss_pred CCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccChhchh
Q 004303 289 SGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVAELK 368 (762)
Q Consensus 289 ~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l~~~~ 368 (762)
....|+++++|.++.|+.. . ++.+.++.|..+..+. ..+..+|.
T Consensus 98 ~~~~iillTDG~~~~~~~~---------~--------------------------~~~~~~v~v~~igig~-~~~~~~l~ 141 (155)
T cd01466 98 PVASIMLLSDGQDNHGAVV---------L--------------------------RADNAPIPIHTFGLGA-SHDPALLA 141 (155)
T ss_pred CceEEEEEcCCCCCcchhh---------h--------------------------cccCCCceEEEEecCC-CCCHHHHH
Confidence 3468999999987765100 0 0112577888877753 46888999
Q ss_pred hhhccccceEEEe
Q 004303 369 VAVEKTGGLVVLS 381 (762)
Q Consensus 369 ~L~~~TGG~v~~~ 381 (762)
.|+..|||+.++.
T Consensus 142 ~iA~~t~G~~~~~ 154 (155)
T cd01466 142 FIAEITGGTFSYV 154 (155)
T ss_pred HHHhccCceEEEe
Confidence 9999999998874
No 20
>PRK13685 hypothetical protein; Provisional
Probab=98.42 E-value=1.3e-05 Score=87.23 Aligned_cols=162 Identities=20% Similarity=0.174 Sum_probs=113.1
Q ss_pred CCcEEEEEEECCCChh-------HHHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCCh
Q 004303 128 VPPVFMFVVDTCIIEE-------EMSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSK 200 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~-------~l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~ 200 (762)
.+...+||||+|.++. .++.++++++..++.++++.+||+|+|++..++. .
T Consensus 87 ~~~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l~~~d~vglv~Fa~~a~~~--~-------------------- 144 (326)
T PRK13685 87 NRAVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADELTPGINLGLIAFAGTATVL--V-------------------- 144 (326)
T ss_pred CCceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhCCCCCeEEEEEEcCceeec--C--------------------
Confidence 3446899999999864 3899999999999999888999999999765431 1
Q ss_pred HHHHHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHH
Q 004303 201 DQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAAS 280 (762)
Q Consensus 201 ~~l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ 280 (762)
|+ ...+..+...|+.|... ..++.|.|+..|..
T Consensus 145 -------------------------------p~-------t~d~~~l~~~l~~l~~~---------~~T~~g~al~~A~~ 177 (326)
T PRK13685 145 -------------------------------SP-------TTNREATKNAIDKLQLA---------DRTATGEAIFTALQ 177 (326)
T ss_pred -------------------------------CC-------CCCHHHHHHHHHhCCCC---------CCcchHHHHHHHHH
Confidence 10 01134566667777542 24567889998888
Q ss_pred Hhhcc-------CCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEE
Q 004303 281 LLGAC-------VPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLD 353 (762)
Q Consensus 281 ll~~~-------~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvD 353 (762)
.+... .....++|+++++|-.+.|..... . ... .+.++.+.+.||.|.
T Consensus 178 ~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~~~~-------------~--------~~~----~~aa~~a~~~gi~i~ 232 (326)
T PRK13685 178 AIATVGAVIGGGDTPPPARIVLMSDGKETVPTNPDN-------------P--------RGA----YTAARTAKDQGVPIS 232 (326)
T ss_pred HHHhhhcccccccCCCCCEEEEEcCCCCCCCCCCCC-------------c--------ccH----HHHHHHHHHcCCeEE
Confidence 77521 012347899999997776531100 0 000 134666778899999
Q ss_pred EEEecCCc-------------cChhchhhhhccccceEEEeCC
Q 004303 354 LFACALDQ-------------VGVAELKVAVEKTGGLVVLSDS 383 (762)
Q Consensus 354 lf~~~~~~-------------~~l~~~~~L~~~TGG~v~~~~~ 383 (762)
.+.++.+. .|-..|..+++.|||..++.++
T Consensus 233 ~Ig~G~~~g~~~~~g~~~~~~~d~~~L~~iA~~tgG~~~~~~~ 275 (326)
T PRK13685 233 TISFGTPYGSVEINGQRQPVPVDDESLKKIAQLSGGEFYTAAS 275 (326)
T ss_pred EEEECCCCCCcCcCCceeeecCCHHHHHHHHHhcCCEEEEcCC
Confidence 99887642 5778899999999998887654
No 21
>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=98.31 E-value=2.2e-05 Score=78.06 Aligned_cols=152 Identities=13% Similarity=0.088 Sum_probs=99.7
Q ss_pred EEEEEEECCCChh-------HHHHHHHHHHHHhhcC---CCCcEEEEEEe-CCeEEEEEcCCCCCCCCeeEEecCCccCC
Q 004303 131 VFMFVVDTCIIEE-------EMSFLKSALSQAIDLL---PDNSLVGLITF-GTLVQVHELGGFGQIIPKTYVFKGSKDVS 199 (762)
Q Consensus 131 ~~vFvID~s~~~~-------~l~~~~~~l~~~l~~l---p~~~~VglITf-d~~V~~y~l~~~~~~~~~~~V~~g~~~~~ 199 (762)
-.+++||+|.++. +++.+++.+...++.+ .++.+||||+| ++.-++-.
T Consensus 5 ~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~~~--------------------- 63 (183)
T cd01453 5 HLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEKLT--------------------- 63 (183)
T ss_pred EEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEEEE---------------------
Confidence 4689999999865 3899999998888754 34679999999 44433311
Q ss_pred hHHHHHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHH
Q 004303 200 KDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAA 279 (762)
Q Consensus 200 ~~~l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~ 279 (762)
|+ ......+...|+.+.. + ...++++.||..|.
T Consensus 64 --------------------------------Pl-------T~D~~~~~~~L~~~~~-----~---~G~t~l~~aL~~A~ 96 (183)
T cd01453 64 --------------------------------DL-------TGNPRKHIQALKTARE-----C---SGEPSLQNGLEMAL 96 (183)
T ss_pred --------------------------------CC-------CCCHHHHHHHhhcccC-----C---CCchhHHHHHHHHH
Confidence 11 0001122223333211 1 23478999999999
Q ss_pred HHhhccCCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecC
Q 004303 280 SLLGACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACAL 359 (762)
Q Consensus 280 ~ll~~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~ 359 (762)
..++..-....+++++++++.-+.+|+ -+.++++.+.+.+|.|++..++.
T Consensus 97 ~~l~~~~~~~~~~iiil~sd~~~~~~~------------------------------~~~~~~~~l~~~~I~v~~IgiG~ 146 (183)
T cd01453 97 ESLKHMPSHGSREVLIIFSSLSTCDPG------------------------------NIYETIDKLKKENIRVSVIGLSA 146 (183)
T ss_pred HHHhcCCccCceEEEEEEcCCCcCChh------------------------------hHHHHHHHHHHcCcEEEEEEech
Confidence 999742112246788887752211110 02457888889999999999864
Q ss_pred CccChhchhhhhccccceEEEeCC
Q 004303 360 DQVGVAELKVAVEKTGGLVVLSDS 383 (762)
Q Consensus 360 ~~~~l~~~~~L~~~TGG~v~~~~~ 383 (762)
+...|+.+|+.|||+.|...+
T Consensus 147 ---~~~~L~~ia~~tgG~~~~~~~ 167 (183)
T cd01453 147 ---EMHICKEICKATNGTYKVILD 167 (183)
T ss_pred ---HHHHHHHHHHHhCCeeEeeCC
Confidence 467899999999999987644
No 22
>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=98.18 E-value=2.6e-06 Score=71.59 Aligned_cols=72 Identities=17% Similarity=0.318 Sum_probs=56.5
Q ss_pred CCccccccccccccCeEEEEeCCcEEEEEEcCchhHHHHcccCCCchhHHHHHhhcCCHHHHHHHH-HcCCCCcEEEEEc
Q 004303 640 GPEPALLDVAAIAADRILLLDSYFTVVIFHGATIAQWRKAGYHNQPEHQAFAQLLQAPHDDAGVIM-KERFPVPRLVICD 718 (762)
Q Consensus 640 ~p~~~~Ls~~~l~~~~iyLlD~g~~i~i~~G~~v~~~~~~~~~~~~~~~~~~~~l~~p~~~~~~i~-~~R~~~p~~~~~~ 718 (762)
.|+.++++.+.|.++++||||+|..||+|+|++.+. .+.. .....++++. .+|.+.|.++.+.
T Consensus 4 ~~~~~~~s~~~L~s~~~yIld~~~~i~vW~G~~~~~-----------~e~~-----~a~~~a~~~~~~~~~~~~~~~~~~ 67 (76)
T PF00626_consen 4 RPEQVPLSQSSLNSDDCYILDCGYEIFVWVGKKSSP-----------EEKA-----FAAQLAQELLSEERPPLPEVIRVE 67 (76)
T ss_dssp EEEEESSSGGGEETTSEEEEEESSEEEEEEHTTSHH-----------HHHH-----HHHHHHHHHHHHHTTTTSEEEEEE
T ss_pred cCCcCCCCHHHcCCCCEEEEEeCCCcEEEEeccCCH-----------HHHH-----HHHHHHHHhhhhcCCCCCEEEEec
Confidence 367889999999999999999999999999998432 1110 0123456777 7899999999999
Q ss_pred cCCchhhhH
Q 004303 719 QHGSQVGSY 727 (762)
Q Consensus 719 ~g~sq~rf~ 727 (762)
+|....+|+
T Consensus 68 eg~E~~~F~ 76 (76)
T PF00626_consen 68 EGKEPAEFL 76 (76)
T ss_dssp TTHHHHHHH
T ss_pred CCCCChHHC
Confidence 998888775
No 23
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins. This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.
Probab=98.17 E-value=0.00014 Score=70.74 Aligned_cols=151 Identities=15% Similarity=0.136 Sum_probs=95.5
Q ss_pred EEEEEECCCChhH--HHHHHHHHHHHhhcCC---CCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHHH
Q 004303 132 FMFVVDTCIIEEE--MSFLKSALSQAIDLLP---DNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQ 206 (762)
Q Consensus 132 ~vFvID~s~~~~~--l~~~~~~l~~~l~~lp---~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~ 206 (762)
.+|+||+|.+... ++.+++++++.+..+. ++.+||+|+|++..+..- . ..
T Consensus 3 vv~vlD~SgSm~~~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~~~-~-~~----------------------- 57 (164)
T cd01472 3 IVFLVDGSESIGLSNFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRTEF-Y-LN----------------------- 57 (164)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCceeEEE-e-cC-----------------------
Confidence 4799999998654 7888888888887774 467999999998765421 1 00
Q ss_pred hhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhcc-
Q 004303 207 LNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGAC- 285 (762)
Q Consensus 207 ~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~- 285 (762)
. .. .+..+.+.|+.++.. ...+.+|.||..|...+...
T Consensus 58 ----------------------------~----~~-~~~~~~~~l~~l~~~--------~g~T~~~~al~~a~~~l~~~~ 96 (164)
T cd01472 58 ----------------------------T----YR-SKDDVLEAVKNLRYI--------GGGTNTGKALKYVRENLFTEA 96 (164)
T ss_pred ----------------------------C----CC-CHHHHHHHHHhCcCC--------CCCchHHHHHHHHHHHhCCcc
Confidence 0 00 122344455565541 23568999999999988741
Q ss_pred ---CCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCcc
Q 004303 286 ---VPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQV 362 (762)
Q Consensus 286 ---~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~ 362 (762)
.++....|++++.|-++.+. ...+..+.+.||.+-.+..+ ..
T Consensus 97 ~~~~~~~~~~iiliTDG~~~~~~---------------------------------~~~~~~l~~~gv~i~~ig~g--~~ 141 (164)
T cd01472 97 SGSREGVPKVLVVITDGKSQDDV---------------------------------EEPAVELKQAGIEVFAVGVK--NA 141 (164)
T ss_pred cCCCCCCCEEEEEEcCCCCCchH---------------------------------HHHHHHHHHCCCEEEEEECC--cC
Confidence 12334557777777332110 11233444567765555443 34
Q ss_pred Chhchhhhhccccc-eEEEeCC
Q 004303 363 GVAELKVAVEKTGG-LVVLSDS 383 (762)
Q Consensus 363 ~l~~~~~L~~~TGG-~v~~~~~ 383 (762)
+...|..++..++| .++.+.+
T Consensus 142 ~~~~L~~ia~~~~~~~~~~~~~ 163 (164)
T cd01472 142 DEEELKQIASDPKELYVFNVAD 163 (164)
T ss_pred CHHHHHHHHCCCchheEEeccC
Confidence 99999999999987 5655544
No 24
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.11 E-value=0.00016 Score=86.22 Aligned_cols=154 Identities=16% Similarity=0.222 Sum_probs=103.7
Q ss_pred CCcEEEEEEECCCChh---HHHHHHHHHHHHh-hcCCCCcEEEEEEeCCeEEEEE-cCCCCCCCCeeEEecCCccCChHH
Q 004303 128 VPPVFMFVVDTCIIEE---EMSFLKSALSQAI-DLLPDNSLVGLITFGTLVQVHE-LGGFGQIIPKTYVFKGSKDVSKDQ 202 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~---~l~~~~~~l~~~l-~~lp~~~~VglITfd~~V~~y~-l~~~~~~~~~~~V~~g~~~~~~~~ 202 (762)
.+..+++|||+|.++. .++.++++++..+ +.++++.+||||+|++..++.. |.
T Consensus 303 ~~r~VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~l~~~DrVGLVtFsssA~vl~pLt---------------------- 360 (863)
T TIGR00868 303 RQRIVCLVLDKSGSMTVEDRLKRMNQAAKLFLLQTVEKGSWVGMVTFDSAAYIKNELI---------------------- 360 (863)
T ss_pred CCceEEEEEECCccccccCHHHHHHHHHHHHHHHhCCCCCEEEEEEECCceeEeeccc----------------------
Confidence 4466999999999974 3888888888765 4578889999999999876531 11
Q ss_pred HHHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHh
Q 004303 203 LLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLL 282 (762)
Q Consensus 203 l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll 282 (762)
++.. .. .+..+...+ +. . ....++++.||..|..+|
T Consensus 361 -----------------------------~Its----~~-dr~aL~~~L---~~----~---A~GGT~I~~GL~~Alq~L 396 (863)
T TIGR00868 361 -----------------------------QITS----SA-ERDALTANL---PT----A---ASGGTSICSGLKAAFQVI 396 (863)
T ss_pred -----------------------------cCCc----HH-HHHHHHHhh---cc----c---cCCCCcHHHHHHHHHHHH
Confidence 0000 00 112222222 21 1 134689999999999999
Q ss_pred hccCC-CCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCc
Q 004303 283 GACVP-GSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQ 361 (762)
Q Consensus 283 ~~~~~-~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~ 361 (762)
..... ..++.|+++++|-++.+ ..+...+.+.|+.|..+.++.+.
T Consensus 397 ~~~~~~~~~~~IILLTDGedn~~----------------------------------~~~l~~lk~~gVtI~TIg~G~da 442 (863)
T TIGR00868 397 KKSYQSTDGSEIVLLTDGEDNTI----------------------------------SSCFEEVKQSGAIIHTIALGPSA 442 (863)
T ss_pred HhcccccCCCEEEEEeCCCCCCH----------------------------------HHHHHHHHHcCCEEEEEEeCCCh
Confidence 85321 34678889888843211 12344556689999999887653
Q ss_pred cChhchhhhhccccceEEEeCC
Q 004303 362 VGVAELKVAVEKTGGLVVLSDS 383 (762)
Q Consensus 362 ~~l~~~~~L~~~TGG~v~~~~~ 383 (762)
-..|..||+.|||..++..+
T Consensus 443 --d~~L~~IA~~TGG~~f~asd 462 (863)
T TIGR00868 443 --AKELEELSDMTGGLRFYASD 462 (863)
T ss_pred --HHHHHHHHHhcCCEEEEeCC
Confidence 34689999999999998865
No 25
>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=98.11 E-value=0.0001 Score=74.22 Aligned_cols=168 Identities=15% Similarity=0.111 Sum_probs=100.4
Q ss_pred EEEEEECCCChhH--HHHHHHHHHHHhhcCCC---CcEEEEEEeCCeEEEE-EcCCCCCCCCeeEEecCCccCChHHHHH
Q 004303 132 FMFVVDTCIIEEE--MSFLKSALSQAIDLLPD---NSLVGLITFGTLVQVH-ELGGFGQIIPKTYVFKGSKDVSKDQLLE 205 (762)
Q Consensus 132 ~vFvID~s~~~~~--l~~~~~~l~~~l~~lp~---~~~VglITfd~~V~~y-~l~~~~~~~~~~~V~~g~~~~~~~~l~~ 205 (762)
++||||+|.+... ++.+++++...++.++. +.+||+|+|++.++.. .+. ..
T Consensus 3 i~~vlD~SgSM~~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~~~~~~~-~~---------------------- 59 (198)
T cd01470 3 IYIALDASDSIGEEDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPKEIVSIR-DF---------------------- 59 (198)
T ss_pred EEEEEECCCCccHHHHHHHHHHHHHHHHHccccCCCceEEEEEecCCceEEEecc-cC----------------------
Confidence 6899999998753 89999999999988863 6799999999876542 222 10
Q ss_pred HhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhcc
Q 004303 206 QLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGAC 285 (762)
Q Consensus 206 ~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~ 285 (762)
. + ..+..+...|+.++... ......+.++.||..|...+...
T Consensus 60 -~------------------------~---------~~~~~~~~~l~~~~~~~----~~~~ggT~~~~Al~~~~~~l~~~ 101 (198)
T cd01470 60 -N------------------------S---------NDADDVIKRLEDFNYDD----HGDKTGTNTAAALKKVYERMALE 101 (198)
T ss_pred -C------------------------C---------CCHHHHHHHHHhCCccc----ccCccchhHHHHHHHHHHHHHHH
Confidence 0 0 01123344455554321 11123567888888887765310
Q ss_pred C-C------CCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHH------HHHhcCcEE
Q 004303 286 V-P------GSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSK------QLVHQGHVL 352 (762)
Q Consensus 286 ~-~------~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~------~~~~~~isv 352 (762)
. . ...-.|+++++|.++.|... ..+.+.++++.. .+...++.|
T Consensus 102 ~~~~~~~~~~~~~~iillTDG~~~~g~~~------------------------~~~~~~~~~~~~~~~~~~~~~~~~v~i 157 (198)
T cd01470 102 KVRNKEAFNETRHVIILFTDGKSNMGGSP------------------------LPTVDKIKNLVYKNNKSDNPREDYLDV 157 (198)
T ss_pred HhcCccchhhcceEEEEEcCCCcCCCCCh------------------------hHHHHHHHHHHhcccccccchhcceeE
Confidence 0 0 01124789999988876210 001111222211 123345555
Q ss_pred EEEEecCCccChhchhhhhccccc--eEEEeCCCC
Q 004303 353 DLFACALDQVGVAELKVAVEKTGG--LVVLSDSFG 385 (762)
Q Consensus 353 Dlf~~~~~~~~l~~~~~L~~~TGG--~v~~~~~f~ 385 (762)
..+..+ +.++-.+|..|+..||| ++|...+|+
T Consensus 158 ~~iGvG-~~~~~~~L~~iA~~~~g~~~~f~~~~~~ 191 (198)
T cd01470 158 YVFGVG-DDVNKEELNDLASKKDNERHFFKLKDYE 191 (198)
T ss_pred EEEecC-cccCHHHHHHHhcCCCCCceEEEeCCHH
Confidence 555544 35789999999999999 467766663
No 26
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=98.06 E-value=0.00012 Score=72.31 Aligned_cols=144 Identities=21% Similarity=0.199 Sum_probs=94.8
Q ss_pred EEEEEEECCCChhH-------HHHHHHHHHHHh----hcCCCCcEEEEEEeCC-eEEEEEcCCCCCCCCeeEEecCCccC
Q 004303 131 VFMFVVDTCIIEEE-------MSFLKSALSQAI----DLLPDNSLVGLITFGT-LVQVHELGGFGQIIPKTYVFKGSKDV 198 (762)
Q Consensus 131 ~~vFvID~s~~~~~-------l~~~~~~l~~~l----~~lp~~~~VglITfd~-~V~~y~l~~~~~~~~~~~V~~g~~~~ 198 (762)
+.+++||+|..+.+ +++.++++...+ +..| ..+||||+|.+ .-++. .
T Consensus 5 a~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~~~~f~~~np-~~~vGlv~fag~~a~v~--~------------------ 63 (187)
T cd01452 5 ATMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNP-ENNVGLMTMAGNSPEVL--V------------------ 63 (187)
T ss_pred EEEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCC-CccEEEEEecCCceEEE--E------------------
Confidence 57899999998643 888888887664 5556 45999999886 33221 1
Q ss_pred ChHHHHHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHH
Q 004303 199 SKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIA 278 (762)
Q Consensus 199 ~~~~l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A 278 (762)
| +......+...|+.+.. .....+|.||+.|
T Consensus 64 ---------------------------------p-------lT~D~~~~~~~L~~i~~---------~g~~~l~~AL~~A 94 (187)
T cd01452 64 ---------------------------------T-------LTNDQGKILSKLHDVQP---------KGKANFITGIQIA 94 (187)
T ss_pred ---------------------------------C-------CCCCHHHHHHHHHhCCC---------CCcchHHHHHHHH
Confidence 1 11112345555655543 1356799999999
Q ss_pred HHHhhccCCC-CCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEe
Q 004303 279 ASLLGACVPG-SGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFAC 357 (762)
Q Consensus 279 ~~ll~~~~~~-~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~ 357 (762)
...|+..-.. ...||++|.+++.+.-|| + ..++++++.+.||.||++.+
T Consensus 95 ~~~L~~~~~~~~~~rivi~v~S~~~~d~~-----------------------------~-i~~~~~~lkk~~I~v~vI~~ 144 (187)
T cd01452 95 QLALKHRQNKNQKQRIVAFVGSPIEEDEK-----------------------------D-LVKLAKRLKKNNVSVDIINF 144 (187)
T ss_pred HHHHhcCCCcCCcceEEEEEecCCcCCHH-----------------------------H-HHHHHHHHHHcCCeEEEEEe
Confidence 9999753222 235999999875322111 1 23678999999999999999
Q ss_pred cCCccChhchhhhhccc
Q 004303 358 ALDQVGVAELKVAVEKT 374 (762)
Q Consensus 358 ~~~~~~l~~~~~L~~~T 374 (762)
+...-+..-+..+.+..
T Consensus 145 G~~~~~~~~l~~~~~~~ 161 (187)
T cd01452 145 GEIDDNTEKLTAFIDAV 161 (187)
T ss_pred CCCCCCHHHHHHHHHHh
Confidence 86655555555555544
No 27
>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=98.00 E-value=0.0005 Score=67.81 Aligned_cols=155 Identities=17% Similarity=0.203 Sum_probs=101.2
Q ss_pred EEEEEEECCCChh--------HHHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHH
Q 004303 131 VFMFVVDTCIIEE--------EMSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQ 202 (762)
Q Consensus 131 ~~vFvID~s~~~~--------~l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~ 202 (762)
-++|+||+|.+.. .++.++..+...+... ++.+||+|+|++.++..- . ..
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~~~-~~~~v~lv~f~~~~~~~~-~-~~------------------- 61 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFIDRR-ENDRIGLVVFAGAAFTQA-P-LT------------------- 61 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHHHHHHHHHhC-CCCeEEEEEEcCCeeecc-C-CC-------------------
Confidence 4789999999753 2677777777766655 477999999987664310 0 00
Q ss_pred HHHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHh
Q 004303 203 LLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLL 282 (762)
Q Consensus 203 l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll 282 (762)
..+..+..+++.|... . ....+.++.||..|...+
T Consensus 62 ---------------------------------------~~~~~~~~~l~~l~~~---~---~~g~T~l~~al~~a~~~l 96 (180)
T cd01467 62 ---------------------------------------LDRESLKELLEDIKIG---L---AGQGTAIGDAIGLAIKRL 96 (180)
T ss_pred ---------------------------------------ccHHHHHHHHHHhhhc---c---cCCCCcHHHHHHHHHHHH
Confidence 0012333444554421 0 123467899999999988
Q ss_pred hccCCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCC--
Q 004303 283 GACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALD-- 360 (762)
Q Consensus 283 ~~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~-- 360 (762)
... ......|+++++|.++.|+- . ..+.+..+.+.||.|+.+.++..
T Consensus 97 ~~~-~~~~~~iiliTDG~~~~g~~-------------------------~-----~~~~~~~~~~~gi~i~~i~ig~~~~ 145 (180)
T cd01467 97 KNS-EAKERVIVLLTDGENNAGEI-------------------------D-----PATAAELAKNKGVRIYTIGVGKSGS 145 (180)
T ss_pred Hhc-CCCCCEEEEEeCCCCCCCCC-------------------------C-----HHHHHHHHHHCCCEEEEEEecCCCC
Confidence 631 12346788889997765420 0 11223445568999998888762
Q ss_pred --------ccChhchhhhhccccceEEEeCC
Q 004303 361 --------QVGVAELKVAVEKTGGLVVLSDS 383 (762)
Q Consensus 361 --------~~~l~~~~~L~~~TGG~v~~~~~ 383 (762)
..+...|..|++.|||..++..+
T Consensus 146 ~~~~~~~~~~~~~~l~~la~~tgG~~~~~~~ 176 (180)
T cd01467 146 GPKPDGSTILDEDSLVEIADKTGGRIFRALD 176 (180)
T ss_pred CcCCCCcccCCHHHHHHHHHhcCCEEEEecC
Confidence 46778899999999999998754
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=97.97 E-value=0.00048 Score=67.13 Aligned_cols=160 Identities=20% Similarity=0.185 Sum_probs=103.3
Q ss_pred CcEEEEEEECCCChhH--HHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHHH
Q 004303 129 PPVFMFVVDTCIIEEE--MSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQ 206 (762)
Q Consensus 129 ~p~~vFvID~s~~~~~--l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~ 206 (762)
|.-++|++|+|.+... ++.+++++...+..++++.+|++++|++.++.+ . .. .
T Consensus 2 ~~~v~~vlD~S~SM~~~~~~~~~~al~~~l~~l~~~~~~~l~~Fs~~~~~~--~-~~-~--------------------- 56 (171)
T cd01461 2 PKEVVFVIDTSGSMSGTKIEQTKEALLTALKDLPPGDYFNIIGFSDTVEEF--S-PS-S--------------------- 56 (171)
T ss_pred CceEEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEeCCCceee--c-Cc-c---------------------
Confidence 5568999999998743 889999999999999988899999999876543 1 10 0
Q ss_pred hhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhccC
Q 004303 207 LNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACV 286 (762)
Q Consensus 207 ~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~ 286 (762)
.+.+ .+....+.+.|+.+.. ...+.++.||..|...+.. .
T Consensus 57 ------------------------~~~~------~~~~~~~~~~l~~~~~---------~g~T~l~~al~~a~~~l~~-~ 96 (171)
T cd01461 57 ------------------------VSAT------AENVAAAIEYVNRLQA---------LGGTNMNDALEAALELLNS-S 96 (171)
T ss_pred ------------------------eeCC------HHHHHHHHHHHHhcCC---------CCCcCHHHHHHHHHHhhcc-C
Confidence 0000 0001122334444433 2346788999999888863 1
Q ss_pred CCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccChhc
Q 004303 287 PGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVAE 366 (762)
Q Consensus 287 ~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l~~ 366 (762)
+.....|++|++|.++. ..+.+ +.++++.+.++.|..+.++. ..+-..
T Consensus 97 ~~~~~~iillTDG~~~~------------------------------~~~~~-~~~~~~~~~~i~i~~i~~g~-~~~~~~ 144 (171)
T cd01461 97 PGSVPQIILLTDGEVTN------------------------------ESQIL-KNVREALSGRIRLFTFGIGS-DVNTYL 144 (171)
T ss_pred CCCccEEEEEeCCCCCC------------------------------HHHHH-HHHHHhcCCCceEEEEEeCC-ccCHHH
Confidence 13446777788874210 01222 33344444577777776653 456788
Q ss_pred hhhhhccccceEEEeCCCC
Q 004303 367 LKVAVEKTGGLVVLSDSFG 385 (762)
Q Consensus 367 ~~~L~~~TGG~v~~~~~f~ 385 (762)
|..++..|||...+..+-.
T Consensus 145 l~~ia~~~gG~~~~~~~~~ 163 (171)
T cd01461 145 LERLAREGRGIARRIYETD 163 (171)
T ss_pred HHHHHHcCCCeEEEecChH
Confidence 9999999999999877643
No 29
>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=97.96 E-value=0.00059 Score=73.23 Aligned_cols=49 Identities=22% Similarity=0.265 Sum_probs=42.4
Q ss_pred CCcEEEEEEECCCChhH-HHHHHHHHHHHhhc-CCCCcEEEEEEeCCeEEE
Q 004303 128 VPPVFMFVVDTCIIEEE-MSFLKSALSQAIDL-LPDNSLVGLITFGTLVQV 176 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~~-l~~~~~~l~~~l~~-lp~~~~VglITfd~~V~~ 176 (762)
.|...+|+||+|.+... +..+++++...++. ++++.+||||+|++.+++
T Consensus 52 ~p~~vvlvlD~SgSM~~~~~~a~~a~~~~l~~~l~~~d~v~lv~f~~~~~~ 102 (296)
T TIGR03436 52 LPLTVGLVIDTSGSMRNDLDRARAAAIRFLKTVLRPNDRVFVVTFNTRLRL 102 (296)
T ss_pred CCceEEEEEECCCCchHHHHHHHHHHHHHHHhhCCCCCEEEEEEeCCceeE
Confidence 57889999999998766 78888888888877 788899999999998765
No 30
>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=97.93 E-value=0.00037 Score=69.38 Aligned_cols=157 Identities=15% Similarity=0.117 Sum_probs=100.0
Q ss_pred EEEEEEECCCChhH--HHHHHHHHHHHhhcC---------CCCcEEEEEEeCCeEEEE-EcCCCCCCCCeeEEecCCccC
Q 004303 131 VFMFVVDTCIIEEE--MSFLKSALSQAIDLL---------PDNSLVGLITFGTLVQVH-ELGGFGQIIPKTYVFKGSKDV 198 (762)
Q Consensus 131 ~~vFvID~s~~~~~--l~~~~~~l~~~l~~l---------p~~~~VglITfd~~V~~y-~l~~~~~~~~~~~V~~g~~~~ 198 (762)
-.+|+||.|.+... ++.+++.++..++.+ +++.+||+|+|++..++. .+. .
T Consensus 4 dvv~vlD~S~Sm~~~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~~~~~l~-~---------------- 66 (186)
T cd01480 4 DITFVLDSSESVGLQNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQEVEAGFL-R---------------- 66 (186)
T ss_pred eEEEEEeCCCccchhhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCceeeEecc-c----------------
Confidence 46899999998653 777788777777766 446899999999765431 111 0
Q ss_pred ChHHHHHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHH
Q 004303 199 SKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIA 278 (762)
Q Consensus 199 ~~~~l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A 278 (762)
. ...+..+.+.|++++.. ...+.+|.||..|
T Consensus 67 -------------------------------------~----~~~~~~l~~~i~~l~~~--------gg~T~~~~AL~~a 97 (186)
T cd01480 67 -------------------------------------D----IRNYTSLKEAVDNLEYI--------GGGTFTDCALKYA 97 (186)
T ss_pred -------------------------------------c----cCCHHHHHHHHHhCccC--------CCCccHHHHHHHH
Confidence 0 00134556666666531 2357899999999
Q ss_pred HHHhhcc-CCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEe
Q 004303 279 ASLLGAC-VPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFAC 357 (762)
Q Consensus 279 ~~ll~~~-~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~ 357 (762)
...+... .+.....|++++.|.++.++. .-..+.+.++.+.||.+-.+..
T Consensus 98 ~~~l~~~~~~~~~~~iillTDG~~~~~~~-----------------------------~~~~~~~~~~~~~gi~i~~vgi 148 (186)
T cd01480 98 TEQLLEGSHQKENKFLLVITDGHSDGSPD-----------------------------GGIEKAVNEADHLGIKIFFVAV 148 (186)
T ss_pred HHHHhccCCCCCceEEEEEeCCCcCCCcc-----------------------------hhHHHHHHHHHHCCCEEEEEec
Confidence 9988741 123345677777875532110 0023445667778888666655
Q ss_pred cCCccChhchhhhhccccceEEEeCCCC
Q 004303 358 ALDQVGVAELKVAVEKTGGLVVLSDSFG 385 (762)
Q Consensus 358 ~~~~~~l~~~~~L~~~TGG~v~~~~~f~ 385 (762)
+. .+...|..++...+|. ++.++|.
T Consensus 149 g~--~~~~~L~~IA~~~~~~-~~~~~~~ 173 (186)
T cd01480 149 GS--QNEEPLSRIACDGKSA-LYRENFA 173 (186)
T ss_pred Cc--cchHHHHHHHcCCcch-hhhcchh
Confidence 43 7888899999887775 5545554
No 31
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=97.87 E-value=0.00048 Score=66.27 Aligned_cols=151 Identities=21% Similarity=0.228 Sum_probs=100.3
Q ss_pred EEEEEECCCChhH-HHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHHHhhcc
Q 004303 132 FMFVVDTCIIEEE-MSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLEQLNFF 210 (762)
Q Consensus 132 ~vFvID~s~~~~~-l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~~~~~~ 210 (762)
.+||||+|.++.. .+.++++|+..++.|+++.++.||+|++.+..+. . . ....
T Consensus 3 vvilvD~S~Sm~g~~~~~k~al~~~l~~L~~~d~fnii~f~~~~~~~~-~--~-------------------~~~~---- 56 (155)
T PF13768_consen 3 VVILVDTSGSMSGEKELVKDALRAILRSLPPGDRFNIIAFGSSVRPLF-P--G-------------------LVPA---- 56 (155)
T ss_pred EEEEEeCCCCCCCcHHHHHHHHHHHHHhCCCCCEEEEEEeCCEeeEcc-h--h-------------------HHHH----
Confidence 5899999998754 4899999999999999999999999999776543 1 1 0000
Q ss_pred cCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhccCCCCC
Q 004303 211 IKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSG 290 (762)
Q Consensus 211 ~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~g 290 (762)
. .+........|+.+... ...+.++.||+.|...+.. ++.-
T Consensus 57 --------------------~---------~~~~~~a~~~I~~~~~~--------~G~t~l~~aL~~a~~~~~~--~~~~ 97 (155)
T PF13768_consen 57 --------------------T---------EENRQEALQWIKSLEAN--------SGGTDLLAALRAALALLQR--PGCV 97 (155)
T ss_pred --------------------h---------HHHHHHHHHHHHHhccc--------CCCccHHHHHHHHHHhccc--CCCc
Confidence 0 01122334445555441 3457899999999998621 2566
Q ss_pred cEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccChhchhhh
Q 004303 291 ARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVAELKVA 370 (762)
Q Consensus 291 gkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l~~~~~L 370 (762)
-.|+++++|.++.++ ....+.+. .+. ..+.+..|.++. ..+-..|..|
T Consensus 98 ~~IilltDG~~~~~~-----------------------------~~i~~~v~-~~~-~~~~i~~~~~g~-~~~~~~L~~L 145 (155)
T PF13768_consen 98 RAIILLTDGQPVSGE-----------------------------EEILDLVR-RAR-GHIRIFTFGIGS-DADADFLREL 145 (155)
T ss_pred cEEEEEEeccCCCCH-----------------------------HHHHHHHH-hcC-CCceEEEEEECC-hhHHHHHHHH
Confidence 789999988663332 11111111 111 456677776654 4567889999
Q ss_pred hccccceEE
Q 004303 371 VEKTGGLVV 379 (762)
Q Consensus 371 ~~~TGG~v~ 379 (762)
++.|||..+
T Consensus 146 A~~~~G~~~ 154 (155)
T PF13768_consen 146 ARATGGSFH 154 (155)
T ss_pred HHcCCCEEE
Confidence 999999865
No 32
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=97.83 E-value=0.00036 Score=67.61 Aligned_cols=150 Identities=23% Similarity=0.225 Sum_probs=95.6
Q ss_pred EEEEEECCCChhH-------HHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEEE-EcCCCCCCCCeeEEecCCccCChHHH
Q 004303 132 FMFVVDTCIIEEE-------MSFLKSALSQAIDLLPDNSLVGLITFGTLVQVH-ELGGFGQIIPKTYVFKGSKDVSKDQL 203 (762)
Q Consensus 132 ~vFvID~s~~~~~-------l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~y-~l~~~~~~~~~~~V~~g~~~~~~~~l 203 (762)
++||||+|.+... ++.+++++...++.+| +.+|||++|++..++. .+.
T Consensus 2 vv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~l~~f~~~~~~~~~~t----------------------- 57 (172)
T PF13519_consen 2 VVFVLDNSGSMNGYDGNRTRIDQAKDALNELLANLP-GDRVGLVSFSDSSRTLSPLT----------------------- 57 (172)
T ss_dssp EEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHHHT-TSEEEEEEESTSCEEEEEEE-----------------------
T ss_pred EEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHHCC-CCEEEEEEeccccccccccc-----------------------
Confidence 5899999998642 7889999999998888 4499999999754221 111
Q ss_pred HHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhh
Q 004303 204 LEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLG 283 (762)
Q Consensus 204 ~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~ 283 (762)
..+..+.+.++++.... ......+++.|+..|..++.
T Consensus 58 --------------------------------------~~~~~~~~~l~~~~~~~-----~~~~~t~~~~al~~a~~~~~ 94 (172)
T PF13519_consen 58 --------------------------------------SDKDELKNALNKLSPQG-----MPGGGTNLYDALQEAAKMLA 94 (172)
T ss_dssp --------------------------------------SSHHHHHHHHHTHHHHG-------SSS--HHHHHHHHHHHHH
T ss_pred --------------------------------------ccHHHHHHHhhcccccc-----cCccCCcHHHHHHHHHHHHH
Confidence 01223333333333210 01234789999999999998
Q ss_pred ccCCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccC
Q 004303 284 ACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVG 363 (762)
Q Consensus 284 ~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~ 363 (762)
... .....|++|++|.++ . . ..+.++.+.+.+|.+..+.++.+...
T Consensus 95 ~~~-~~~~~iv~iTDG~~~-------~------------------~--------~~~~~~~~~~~~i~i~~v~~~~~~~~ 140 (172)
T PF13519_consen 95 SSD-NRRRAIVLITDGEDN-------S------------------S--------DIEAAKALKQQGITIYTVGIGSDSDA 140 (172)
T ss_dssp C-S-SEEEEEEEEES-TTH-------C------------------H--------HHHHHHHHHCTTEEEEEEEES-TT-E
T ss_pred hCC-CCceEEEEecCCCCC-------c------------------c--------hhHHHHHHHHcCCeEEEEEECCCccH
Confidence 521 133566666776332 0 0 01266678889999999998887766
Q ss_pred hhchhhhhccccceEEEeC
Q 004303 364 VAELKVAVEKTGGLVVLSD 382 (762)
Q Consensus 364 l~~~~~L~~~TGG~v~~~~ 382 (762)
-..+..+++.|||..+...
T Consensus 141 ~~~l~~la~~tgG~~~~~~ 159 (172)
T PF13519_consen 141 NEFLQRLAEATGGRYFHVD 159 (172)
T ss_dssp HHHHHHHHHHTEEEEEEE-
T ss_pred HHHHHHHHHhcCCEEEEec
Confidence 6789999999999988873
No 33
>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=0.015 Score=68.65 Aligned_cols=186 Identities=17% Similarity=0.121 Sum_probs=113.6
Q ss_pred CCcEEEEEEECCCChhH--HHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHHH
Q 004303 128 VPPVFMFVVDTCIIEEE--MSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLLE 205 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~~--l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~~ 205 (762)
.|.-++||||+|.++.. ++.+++++..+|..|+++.+++||+|++.++.+.-. . .
T Consensus 270 ~p~~vvfvlD~SgSM~g~~i~~ak~al~~~l~~L~~~d~~~ii~F~~~~~~~~~~--~--~------------------- 326 (596)
T TIGR03788 270 LPRELVFVIDTSGSMAGESIEQAKSALLLALDQLRPGDRFNIIQFDSDVTLLFPV--P--V------------------- 326 (596)
T ss_pred CCceEEEEEECCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEECCcceEeccc--c--c-------------------
Confidence 56679999999998753 888999999999999999999999999988754211 0 0
Q ss_pred HhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhcc
Q 004303 206 QLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGAC 285 (762)
Q Consensus 206 ~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~ 285 (762)
+.+ .+....+...|+.|..+ ..+.+..||..|.......
T Consensus 327 --------------------------~~~------~~~~~~a~~~i~~l~a~---------GgT~l~~aL~~a~~~~~~~ 365 (596)
T TIGR03788 327 --------------------------PAT------AHNLARARQFVAGLQAD---------GGTEMAGALSAALRDDGPE 365 (596)
T ss_pred --------------------------cCC------HHHHHHHHHHHhhCCCC---------CCccHHHHHHHHHHhhccc
Confidence 000 00112334445555442 3467899999988765321
Q ss_pred CCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccChh
Q 004303 286 VPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVGVA 365 (762)
Q Consensus 286 ~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~l~ 365 (762)
....-.+|+++++|.. | . .....+.+. ....++.+..|.++. ..+-.
T Consensus 366 ~~~~~~~iillTDG~~--~--~--------------------------~~~~~~~~~--~~~~~~ri~tvGiG~-~~n~~ 412 (596)
T TIGR03788 366 SSGALRQVVFLTDGAV--G--N--------------------------EDALFQLIR--TKLGDSRLFTVGIGS-APNSY 412 (596)
T ss_pred CCCceeEEEEEeCCCC--C--C--------------------------HHHHHHHHH--HhcCCceEEEEEeCC-CcCHH
Confidence 1122346889999842 0 0 011122221 122356666666654 46778
Q ss_pred chhhhhccccceEEEeCCCChhhhHHHHHHHhhccccCccceeeeEEEE
Q 004303 366 ELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHSGDYDLGLSSNGIFEI 414 (762)
Q Consensus 366 ~~~~L~~~TGG~v~~~~~f~~~~~~~~l~~~l~~~~~~~~~~~~~~l~v 414 (762)
.|..||+.+||..++..+ .+...+.+.+++.... .+...+..+++
T Consensus 413 lL~~lA~~g~G~~~~i~~--~~~~~~~~~~~l~~~~--~p~l~~v~v~~ 457 (596)
T TIGR03788 413 FMRKAAQFGRGSFTFIGS--TDEVQRKMSQLFAKLE--QPALTDIALTF 457 (596)
T ss_pred HHHHHHHcCCCEEEECCC--HHHHHHHHHHHHHhhc--CeEEEEEEEEE
Confidence 899999999998777554 3344455556663321 23345555554
No 34
>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=97.81 E-value=0.00097 Score=68.53 Aligned_cols=155 Identities=21% Similarity=0.316 Sum_probs=96.6
Q ss_pred cEEEEEEECCCChh--HHHHHHHHHHHHhhcC---CCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHH
Q 004303 130 PVFMFVVDTCIIEE--EMSFLKSALSQAIDLL---PDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLL 204 (762)
Q Consensus 130 p~~vFvID~s~~~~--~l~~~~~~l~~~l~~l---p~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~ 204 (762)
.-.+|+||.|.+.. +++.+++.++..++.+ |+..+||+|+|++.+++.- . ..
T Consensus 3 ~DlvfllD~S~Sm~~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~~~~-~-l~--------------------- 59 (224)
T cd01475 3 TDLVFLIDSSRSVRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQEF-P-LG--------------------- 59 (224)
T ss_pred ccEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcccCCCccEEEEEEecCceeEEe-c-cc---------------------
Confidence 34799999999854 4899999999888876 3568999999998775421 1 00
Q ss_pred HHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHh-h
Q 004303 205 EQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLL-G 283 (762)
Q Consensus 205 ~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll-~ 283 (762)
+ + . .+..+...|+.++.. ...+.+|.||..|...+ .
T Consensus 60 ~------------------------------~----~-~~~~l~~~i~~i~~~--------~~~t~tg~AL~~a~~~~~~ 96 (224)
T cd01475 60 R------------------------------F----K-SKADLKRAVRRMEYL--------ETGTMTGLAIQYAMNNAFS 96 (224)
T ss_pred c------------------------------c----C-CHHHHHHHHHhCcCC--------CCCChHHHHHHHHHHHhCC
Confidence 0 0 0 122344455555431 22457899999888643 2
Q ss_pred cc--CC-CC---CcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEe
Q 004303 284 AC--VP-GS---GARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFAC 357 (762)
Q Consensus 284 ~~--~~-~~---ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~ 357 (762)
.. .+ .. ...|+++++|.++. + ..+.+.++...||.| |+.
T Consensus 97 ~~~g~r~~~~~~~kvvillTDG~s~~------------------~---------------~~~~a~~lk~~gv~i--~~V 141 (224)
T cd01475 97 EAEGARPGSERVPRVGIVVTDGRPQD------------------D---------------VSEVAAKARALGIEM--FAV 141 (224)
T ss_pred hhcCCCCCCCCCCeEEEEEcCCCCcc------------------c---------------HHHHHHHHHHCCcEE--EEE
Confidence 10 00 11 22357777774310 0 234567777788655 544
Q ss_pred cCCccChhchhhhhcccc-ceEEEeCCCC
Q 004303 358 ALDQVGVAELKVAVEKTG-GLVVLSDSFG 385 (762)
Q Consensus 358 ~~~~~~l~~~~~L~~~TG-G~v~~~~~f~ 385 (762)
+-...+..+|..++..++ +.++..++|+
T Consensus 142 gvG~~~~~~L~~ias~~~~~~~f~~~~~~ 170 (224)
T cd01475 142 GVGRADEEELREIASEPLADHVFYVEDFS 170 (224)
T ss_pred eCCcCCHHHHHHHhCCCcHhcEEEeCCHH
Confidence 445578889999998765 4677767765
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=97.74 E-value=0.002 Score=62.71 Aligned_cols=45 Identities=24% Similarity=0.462 Sum_probs=36.5
Q ss_pred EEEEEECCCChhH--HHHHHHHHHHHhhcC---CCCcEEEEEEeCCeEEE
Q 004303 132 FMFVVDTCIIEEE--MSFLKSALSQAIDLL---PDNSLVGLITFGTLVQV 176 (762)
Q Consensus 132 ~vFvID~s~~~~~--l~~~~~~l~~~l~~l---p~~~~VglITfd~~V~~ 176 (762)
.+|++|.|.+..+ ++.+++.++..+..+ +++.+||+|+|++..+.
T Consensus 3 v~~vlD~S~Sm~~~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~~ 52 (164)
T cd01482 3 IVFLVDGSWSIGRSNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPRT 52 (164)
T ss_pred EEEEEeCCCCcChhhHHHHHHHHHHHHhheeeCCCceEEEEEEECCCeeE
Confidence 6899999998753 888888888877765 46799999999987543
No 36
>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=97.66 E-value=0.0028 Score=62.54 Aligned_cols=156 Identities=16% Similarity=0.148 Sum_probs=98.0
Q ss_pred EEEEEECCCChh--HHHHHHHHHHHHhhcCC---CCcEEEEEEeCCeEEEE-EcCCCCCCCCeeEEecCCccCChHHHHH
Q 004303 132 FMFVVDTCIIEE--EMSFLKSALSQAIDLLP---DNSLVGLITFGTLVQVH-ELGGFGQIIPKTYVFKGSKDVSKDQLLE 205 (762)
Q Consensus 132 ~vFvID~s~~~~--~l~~~~~~l~~~l~~lp---~~~~VglITfd~~V~~y-~l~~~~~~~~~~~V~~g~~~~~~~~l~~ 205 (762)
.+|+||.|.+.. +++.+++.++..++.+. +++|||+|+|++..++. ++. .
T Consensus 3 i~fvlD~S~S~~~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~~~~~l~-~----------------------- 58 (177)
T cd01469 3 IVFVLDGSGSIYPDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFRTEFTLN-E----------------------- 58 (177)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCceeEEEecC-c-----------------------
Confidence 589999999864 48889988888888774 46899999999876542 222 0
Q ss_pred HhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhc-
Q 004303 206 QLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGA- 284 (762)
Q Consensus 206 ~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~- 284 (762)
+ . +...+.++++.++.. ...+.+|.||..|...+-.
T Consensus 59 -~-----------------------~-----------~~~~~~~~i~~~~~~--------~g~T~~~~AL~~a~~~l~~~ 95 (177)
T cd01469 59 -Y-----------------------R-----------TKEEPLSLVKHISQL--------LGLTNTATAIQYVVTELFSE 95 (177)
T ss_pred -c-----------------------C-----------CHHHHHHHHHhCccC--------CCCccHHHHHHHHHHHhcCc
Confidence 0 0 011233344444431 1237899999999887621
Q ss_pred --c-CCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCc
Q 004303 285 --C-VPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQ 361 (762)
Q Consensus 285 --~-~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~ 361 (762)
. .++...-+++++.|..+.|+ . .++.++.+...|+.|-.+..+.+.
T Consensus 96 ~~g~R~~~~kv~illTDG~~~~~~-----------------------~--------~~~~~~~~k~~gv~v~~Vgvg~~~ 144 (177)
T cd01469 96 SNGARKDATKVLVVITDGESHDDP-----------------------L--------LKDVIPQAEREGIIRYAIGVGGHF 144 (177)
T ss_pred ccCCCCCCCeEEEEEeCCCCCCcc-----------------------c--------cHHHHHHHHHCCcEEEEEEecccc
Confidence 0 11123347777888654332 0 023455566678877666665432
Q ss_pred ---cChhchhhhhccccc-eEEEeCCCC
Q 004303 362 ---VGVAELKVAVEKTGG-LVVLSDSFG 385 (762)
Q Consensus 362 ---~~l~~~~~L~~~TGG-~v~~~~~f~ 385 (762)
.+..+|..++..+++ +++..++|+
T Consensus 145 ~~~~~~~~L~~ias~p~~~h~f~~~~~~ 172 (177)
T cd01469 145 QRENSREELKTIASKPPEEHFFNVTDFA 172 (177)
T ss_pred cccccHHHHHHHhcCCcHHhEEEecCHH
Confidence 347889999998864 666667764
No 37
>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=97.62 E-value=0.0015 Score=64.84 Aligned_cols=156 Identities=17% Similarity=0.104 Sum_probs=89.2
Q ss_pred CcEEEEEEECCCChhH-HHHHHHHHHHHhhcC-CCCcEEEEEEeCCeEEEE-EcCCCCCCCCeeEEecCCccCChHHHHH
Q 004303 129 PPVFMFVVDTCIIEEE-MSFLKSALSQAIDLL-PDNSLVGLITFGTLVQVH-ELGGFGQIIPKTYVFKGSKDVSKDQLLE 205 (762)
Q Consensus 129 ~p~~vFvID~s~~~~~-l~~~~~~l~~~l~~l-p~~~~VglITfd~~V~~y-~l~~~~~~~~~~~V~~g~~~~~~~~l~~ 205 (762)
+.-.+|+||.|.+... .....+.++..++.+ .++.+||+|+|++..++. .+. ..
T Consensus 4 ~~Dvv~llD~SgSm~~~~~~~~~~~~~l~~~~~~~~~rvglv~Fs~~~~~~~~l~-~~---------------------- 60 (185)
T cd01474 4 HFDLYFVLDKSGSVAANWIEIYDFVEQLVDRFNSPGLRFSFITFSTRATKILPLT-DD---------------------- 60 (185)
T ss_pred ceeEEEEEeCcCchhhhHHHHHHHHHHHHHHcCCCCcEEEEEEecCCceEEEecc-cc----------------------
Confidence 4457899999998654 333334455555443 356999999999865432 111 00
Q ss_pred HhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhcc
Q 004303 206 QLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGAC 285 (762)
Q Consensus 206 ~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~ 285 (762)
...+.+.++.|... .+ ...+++|.||..|...+...
T Consensus 61 --------------------------------------~~~~~~~l~~l~~~---~~---~g~T~~~~aL~~a~~~l~~~ 96 (185)
T cd01474 61 --------------------------------------SSAIIKGLEVLKKV---TP---SGQTYIHEGLENANEQIFNR 96 (185)
T ss_pred --------------------------------------HHHHHHHHHHHhcc---CC---CCCCcHHHHHHHHHHHHHhh
Confidence 00122233333321 11 24678999999999877310
Q ss_pred CCCCC-----cEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCC
Q 004303 286 VPGSG-----ARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALD 360 (762)
Q Consensus 286 ~~~~g-----gkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~ 360 (762)
..| ..|++++.|.++...+. + -...++.+.+.|+.|-.+.. .
T Consensus 97 --~~~~r~~~~~villTDG~~~~~~~~--------------~---------------~~~~a~~l~~~gv~i~~vgv--~ 143 (185)
T cd01474 97 --NGGGRETVSVIIALTDGQLLLNGHK--------------Y---------------PEHEAKLSRKLGAIVYCVGV--T 143 (185)
T ss_pred --ccCCCCCCeEEEEEcCCCcCCCCCc--------------c---------------hHHHHHHHHHcCCEEEEEee--c
Confidence 122 34788888865311000 0 01224456667886555544 6
Q ss_pred ccChhchhhhhccccceEE-EeCCCC
Q 004303 361 QVGVAELKVAVEKTGGLVV-LSDSFG 385 (762)
Q Consensus 361 ~~~l~~~~~L~~~TGG~v~-~~~~f~ 385 (762)
..+..+|..++..++ .+| ...+|+
T Consensus 144 ~~~~~~L~~iA~~~~-~~f~~~~~~~ 168 (185)
T cd01474 144 DFLKSQLINIADSKE-YVFPVTSGFQ 168 (185)
T ss_pred hhhHHHHHHHhCCCC-eeEecCccHH
Confidence 678899999998875 454 334554
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=97.53 E-value=0.0046 Score=59.17 Aligned_cols=145 Identities=19% Similarity=0.178 Sum_probs=96.7
Q ss_pred EEEEEECCCChhH--HHHHHHHHHHHhhcCC---CCcEEEEEEeCCeEEEE-EcCCCCCCCCeeEEecCCccCChHHHHH
Q 004303 132 FMFVVDTCIIEEE--MSFLKSALSQAIDLLP---DNSLVGLITFGTLVQVH-ELGGFGQIIPKTYVFKGSKDVSKDQLLE 205 (762)
Q Consensus 132 ~vFvID~s~~~~~--l~~~~~~l~~~l~~lp---~~~~VglITfd~~V~~y-~l~~~~~~~~~~~V~~g~~~~~~~~l~~ 205 (762)
++|++|+|.+... ++.+++.+.+.+..+. ++.++|+++|++..... ++. .
T Consensus 3 i~~llD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~~~~~~-~----------------------- 58 (161)
T cd01450 3 IVFLLDGSESVGPENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEFSLN-D----------------------- 58 (161)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceEEEECC-C-----------------------
Confidence 4799999998654 7888888888877765 47899999999854331 111 0
Q ss_pred HhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhcc
Q 004303 206 QLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGAC 285 (762)
Q Consensus 206 ~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~ 285 (762)
.. ....+.+.++.+... . + +.+.++.||..|...+...
T Consensus 59 -----------------------------~~------~~~~~~~~i~~~~~~---~--~--~~t~~~~al~~a~~~~~~~ 96 (161)
T cd01450 59 -----------------------------YK------SKDDLLKAVKNLKYL---G--G--GGTNTGKALQYALEQLFSE 96 (161)
T ss_pred -----------------------------CC------CHHHHHHHHHhcccC---C--C--CCccHHHHHHHHHHHhccc
Confidence 00 122444455554431 0 1 3578899999999988742
Q ss_pred C---CCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCcc
Q 004303 286 V---PGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQV 362 (762)
Q Consensus 286 ~---~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~ 362 (762)
. ......|++|++|.++.++ -..++.+++.+.++.|..+..+. .
T Consensus 97 ~~~~~~~~~~iiliTDG~~~~~~-------------------------------~~~~~~~~~~~~~v~v~~i~~g~--~ 143 (161)
T cd01450 97 SNARENVPKVIIVLTDGRSDDGG-------------------------------DPKEAAAKLKDEGIKVFVVGVGP--A 143 (161)
T ss_pred ccccCCCCeEEEEECCCCCCCCc-------------------------------chHHHHHHHHHCCCEEEEEeccc--c
Confidence 1 1344578888999776553 02345666667788888887765 6
Q ss_pred Chhchhhhhcccc
Q 004303 363 GVAELKVAVEKTG 375 (762)
Q Consensus 363 ~l~~~~~L~~~TG 375 (762)
+...|..|+..||
T Consensus 144 ~~~~l~~la~~~~ 156 (161)
T cd01450 144 DEEELREIASCPS 156 (161)
T ss_pred CHHHHHHHhCCCC
Confidence 8888999998883
No 39
>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=97.49 E-value=0.004 Score=61.84 Aligned_cols=148 Identities=14% Similarity=0.078 Sum_probs=90.4
Q ss_pred EEEEEECCCChh--H-HHHHHHHHHHHhhcCC---CCcEEEEEEeCCeEEE-EEcCCCCCCCCeeEEecCCccCChHHHH
Q 004303 132 FMFVVDTCIIEE--E-MSFLKSALSQAIDLLP---DNSLVGLITFGTLVQV-HELGGFGQIIPKTYVFKGSKDVSKDQLL 204 (762)
Q Consensus 132 ~vFvID~s~~~~--~-l~~~~~~l~~~l~~lp---~~~~VglITfd~~V~~-y~l~~~~~~~~~~~V~~g~~~~~~~~l~ 204 (762)
++|+||.|.+.. + ++.+++.+...++.++ ++.+||+|+|++..+. +.+. ..
T Consensus 3 v~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~~~l~-~~--------------------- 60 (186)
T cd01471 3 LYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELIRLS-SP--------------------- 60 (186)
T ss_pred EEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEEEECC-Cc---------------------
Confidence 689999999854 3 7888888888888774 5789999999987653 3333 10
Q ss_pred HHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhc
Q 004303 205 EQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGA 284 (762)
Q Consensus 205 ~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~ 284 (762)
. ...+..+..+++.|.... . ....+.++.||..|...+..
T Consensus 61 --~---------------------------------~~~~~~~~~~i~~l~~~~--~---~~G~T~l~~aL~~a~~~l~~ 100 (186)
T cd01471 61 --N---------------------------------STNKDLALNAIRALLSLY--Y---PNGSTNTTSALLVVEKHLFD 100 (186)
T ss_pred --c---------------------------------ccchHHHHHHHHHHHhCc--C---CCCCccHHHHHHHHHHHhhc
Confidence 0 000112223333333211 1 13457899999999988864
Q ss_pred c---CCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCc
Q 004303 285 C---VPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQ 361 (762)
Q Consensus 285 ~---~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~ 361 (762)
. .++....|+++|+|.++.++. . .+.++++.+.|+.+-++..+ ..
T Consensus 101 ~~~~r~~~~~~villTDG~~~~~~~---------------------------~----~~~a~~l~~~gv~v~~igiG-~~ 148 (186)
T cd01471 101 TRGNRENAPQLVIIMTDGIPDSKFR---------------------------T----LKEARKLRERGVIIAVLGVG-QG 148 (186)
T ss_pred cCCCcccCceEEEEEccCCCCCCcc---------------------------h----hHHHHHHHHCCCEEEEEEee-hh
Confidence 1 112234688888886543210 0 02355666778777666654 35
Q ss_pred cChhchhhhhcc
Q 004303 362 VGVAELKVAVEK 373 (762)
Q Consensus 362 ~~l~~~~~L~~~ 373 (762)
.+...+..|+..
T Consensus 149 ~d~~~l~~ia~~ 160 (186)
T cd01471 149 VNHEENRSLVGC 160 (186)
T ss_pred hCHHHHHHhcCC
Confidence 677777777654
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=97.47 E-value=0.0036 Score=73.36 Aligned_cols=176 Identities=18% Similarity=0.080 Sum_probs=115.7
Q ss_pred CCcEEEEEEECCCChhH--HHHHHHHHHHHhhc-CCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHH
Q 004303 128 VPPVFMFVVDTCIIEEE--MSFLKSALSQAIDL-LPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLL 204 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~~--l~~~~~~l~~~l~~-lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~ 204 (762)
..-.++|+||+|.++.. ++.++.++...+.. +.+.-+||||+|++...-+-+. .+
T Consensus 406 ~~~~v~fvvD~SGSM~~~rl~~aK~av~~Ll~~~~~~~D~v~Li~F~~~~a~~~lp-~t--------------------- 463 (589)
T TIGR02031 406 SGRLLIFVVDASGSAAVARMSEAKGAVELLLGEAYVHRDQVSLIAFRGTAAEVLLP-PS--------------------- 463 (589)
T ss_pred cCceEEEEEECCCCCChHHHHHHHHHHHHHHHhhccCCCEEEEEEECCCCceEECC-CC---------------------
Confidence 45568899999998753 89999998888875 4456699999997543111111 10
Q ss_pred HHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhc
Q 004303 205 EQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGA 284 (762)
Q Consensus 205 ~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~ 284 (762)
. ....+...|+.|+. ...+.++.||..|...+..
T Consensus 464 -----------------------------~--------~~~~~~~~L~~l~~---------gGgTpL~~gL~~A~~~~~~ 497 (589)
T TIGR02031 464 -----------------------------R--------SVEQAKRRLDVLPG---------GGGTPLAAGLAAAFQTALQ 497 (589)
T ss_pred -----------------------------C--------CHHHHHHHHhcCCC---------CCCCcHHHHHHHHHHHHHH
Confidence 0 11122334555543 2357789999999998874
Q ss_pred cCCCCC--cEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCcc
Q 004303 285 CVPGSG--ARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQV 362 (762)
Q Consensus 285 ~~~~~g--gkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~ 362 (762)
... .+ -.|+++++|-+|.|-+.....+ + .-..+..+-...++.++...||.+=++-+...+.
T Consensus 498 ~~~-~~~~~~ivllTDG~~nv~~~~~~~~~------------~---~~~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~ 561 (589)
T TIGR02031 498 ARS-SGGTPTIVLITDGRGNIPLDGDPESI------------K---ADREQAAEEALALARKIREAGMPALVIDTAMRFV 561 (589)
T ss_pred hcc-cCCceEEEEECCCCCCCCCCcccccc------------c---ccchhHHHHHHHHHHHHHhcCCeEEEEeCCCCCc
Confidence 221 23 3699999999998743110000 0 0012233344567888889998877777776666
Q ss_pred ChhchhhhhccccceEEEeCCCChh
Q 004303 363 GVAELKVAVEKTGGLVVLSDSFGHA 387 (762)
Q Consensus 363 ~l~~~~~L~~~TGG~v~~~~~f~~~ 387 (762)
....+..|++..||..|+.++-+..
T Consensus 562 ~~~~~~~lA~~~~g~y~~l~~~~a~ 586 (589)
T TIGR02031 562 STGFAQKLARKMGAHYIYLPNATAA 586 (589)
T ss_pred cchHHHHHHHhcCCcEEeCCCCChh
Confidence 6667889999999999999887654
No 41
>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=97.47 E-value=0.0079 Score=58.66 Aligned_cols=45 Identities=13% Similarity=0.271 Sum_probs=36.8
Q ss_pred EEEEEECCCChh--HHHHHHHHHHHHhhcCC---CCcEEEEEEeCCeEEE
Q 004303 132 FMFVVDTCIIEE--EMSFLKSALSQAIDLLP---DNSLVGLITFGTLVQV 176 (762)
Q Consensus 132 ~vFvID~s~~~~--~l~~~~~~l~~~l~~lp---~~~~VglITfd~~V~~ 176 (762)
.+|+||.|.+-. +++.+++.++..++.++ +.++||+|+|++..+.
T Consensus 3 ivfllD~S~Si~~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~~ 52 (165)
T cd01481 3 IVFLIDGSDNVGSGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPRP 52 (165)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCeeE
Confidence 589999999754 48999999998888774 5689999999976543
No 42
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=97.43 E-value=0.0088 Score=69.68 Aligned_cols=172 Identities=15% Similarity=0.099 Sum_probs=112.1
Q ss_pred CCcEEEEEEECCCChh--HHHHHHHHHHHHhhc-CCCCcEEEEEEeCCe-EEEEEcCCCCCCCCeeEEecCCccCChHHH
Q 004303 128 VPPVFMFVVDTCIIEE--EMSFLKSALSQAIDL-LPDNSLVGLITFGTL-VQVHELGGFGQIIPKTYVFKGSKDVSKDQL 203 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~--~l~~~~~~l~~~l~~-lp~~~~VglITfd~~-V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l 203 (762)
.+-.++||||+|.++. .+..+|.++...|.. +.+.-+||+|+|++. ..+ -+. .+
T Consensus 400 ~~~~vvfvvD~SGSM~~~rl~~aK~a~~~ll~~ay~~rD~v~lI~F~g~~a~~-~lp-pT-------------------- 457 (584)
T PRK13406 400 SETTTIFVVDASGSAALHRLAEAKGAVELLLAEAYVRRDQVALVAFRGRGAEL-LLP-PT-------------------- 457 (584)
T ss_pred CCccEEEEEECCCCCcHhHHHHHHHHHHHHHHhhcCCCCEEEEEEECCCceeE-EcC-CC--------------------
Confidence 4578999999999874 389999998888855 456779999999754 322 111 11
Q ss_pred HHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhh
Q 004303 204 LEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLG 283 (762)
Q Consensus 204 ~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~ 283 (762)
. +...+...|+.|+. ...+.++.||..|..++.
T Consensus 458 -------------------------------~-------~~~~~~~~L~~l~~---------gGgTpL~~gL~~A~~~l~ 490 (584)
T PRK13406 458 -------------------------------R-------SLVRAKRSLAGLPG---------GGGTPLAAGLDAAAALAL 490 (584)
T ss_pred -------------------------------c-------CHHHHHHHHhcCCC---------CCCChHHHHHHHHHHHHH
Confidence 0 11223344445543 246789999999998876
Q ss_pred ccC-CCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCcc
Q 004303 284 ACV-PGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQV 362 (762)
Q Consensus 284 ~~~-~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~ 362 (762)
... ++.--.|+++|+|-+|.|.+.-..+. .....+ ..++..+...+|.+=++-+....
T Consensus 491 ~~~~~~~~~~iVLlTDG~~n~~~~~~~~~~----------------~~~~~~----~~~a~~~~~~gi~~~vId~g~~~- 549 (584)
T PRK13406 491 QVRRKGMTPTVVLLTDGRANIARDGTAGRA----------------QAEEDA----LAAARALRAAGLPALVIDTSPRP- 549 (584)
T ss_pred HhccCCCceEEEEEeCCCCCCCcccccccc----------------chhhHH----HHHHHHHHhcCCeEEEEecCCCC-
Confidence 421 11235888899999988753211110 000011 34577778888876666665443
Q ss_pred ChhchhhhhccccceEEEeCCCChhhhH
Q 004303 363 GVAELKVAVEKTGGLVVLSDSFGHAVFK 390 (762)
Q Consensus 363 ~l~~~~~L~~~TGG~v~~~~~f~~~~~~ 390 (762)
...+..||+.+||..|..+.-+.....
T Consensus 550 -~~~~~~LA~~~gg~y~~l~~~~a~~~~ 576 (584)
T PRK13406 550 -QPQARALAEAMGARYLPLPRADAGRLS 576 (584)
T ss_pred -cHHHHHHHHhcCCeEEECCCCCHHHHH
Confidence 345889999999999999998876543
No 43
>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=97.40 E-value=0.006 Score=61.06 Aligned_cols=49 Identities=22% Similarity=0.290 Sum_probs=37.9
Q ss_pred CCcEEEEEEECCCChh--HHHHHHHHHHHHhhcC---------CCCcEEEEEEeCCeEEE
Q 004303 128 VPPVFMFVVDTCIIEE--EMSFLKSALSQAIDLL---------PDNSLVGLITFGTLVQV 176 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~--~l~~~~~~l~~~l~~l---------p~~~~VglITfd~~V~~ 176 (762)
.+.=.+|+||.|.+.. +++.+++.++..+..+ |+.+|||+|+|++..++
T Consensus 18 ~~~DivfvlD~S~Sm~~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~ 77 (193)
T cd01477 18 LWLDIVFVVDNSKGMTQGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATV 77 (193)
T ss_pred ceeeEEEEEeCCCCcchhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEE
Confidence 3455899999999854 4888888888766543 34589999999997755
No 44
>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=97.33 E-value=0.017 Score=56.06 Aligned_cols=154 Identities=21% Similarity=0.152 Sum_probs=100.7
Q ss_pred cEEEEEEECCCCh-hH-HHHHHHHHHHHhhcCCC---CcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHHH
Q 004303 130 PVFMFVVDTCIIE-EE-MSFLKSALSQAIDLLPD---NSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQLL 204 (762)
Q Consensus 130 p~~vFvID~s~~~-~~-l~~~~~~l~~~l~~lp~---~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l~ 204 (762)
.-++|+||+|.+. .. ++.+++.+...+..+.. +.+||+++|++..+.+--- .
T Consensus 2 ~~v~l~vD~S~SM~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~~~~~-~---------------------- 58 (177)
T smart00327 2 LDVVFLLDGSGSMGPNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATVLFPL-N---------------------- 58 (177)
T ss_pred ccEEEEEeCCCccchHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceEEEcc-c----------------------
Confidence 3478999999987 33 88888888888887765 7899999999844332100 0
Q ss_pred HHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhc
Q 004303 205 EQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGA 284 (762)
Q Consensus 205 ~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~ 284 (762)
. ......+...++.+... ......++.|+..|...+..
T Consensus 59 --~---------------------------------~~~~~~~~~~i~~~~~~-------~~~~~~~~~al~~~~~~~~~ 96 (177)
T smart00327 59 --D---------------------------------SRSKDALLEALASLSYK-------LGGGTNLGAALQYALENLFS 96 (177)
T ss_pred --c---------------------------------cCCHHHHHHHHHhcCCC-------CCCCchHHHHHHHHHHHhcC
Confidence 0 00122444455555431 12345688888888888752
Q ss_pred cCCCC----CcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCC
Q 004303 285 CVPGS----GARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALD 360 (762)
Q Consensus 285 ~~~~~----ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~ 360 (762)
..... .-.|++|++|.++.+ ..+.+...++.+.+|.+..+.++.+
T Consensus 97 ~~~~~~~~~~~~iviitDg~~~~~-------------------------------~~~~~~~~~~~~~~i~i~~i~~~~~ 145 (177)
T smart00327 97 KSAGSRRGAPKVLILITDGESNDG-------------------------------GDLLKAAKELKRSGVKVFVVGVGND 145 (177)
T ss_pred cCCCCCCCCCeEEEEEcCCCCCCC-------------------------------ccHHHHHHHHHHCCCEEEEEEccCc
Confidence 11111 346777788765533 1144567777788888888887754
Q ss_pred ccChhchhhhhccccceEEE
Q 004303 361 QVGVAELKVAVEKTGGLVVL 380 (762)
Q Consensus 361 ~~~l~~~~~L~~~TGG~v~~ 380 (762)
. +-..+..++..++|...+
T Consensus 146 ~-~~~~l~~~~~~~~~~~~~ 164 (177)
T smart00327 146 V-DEEELKKLASAPGGVYVF 164 (177)
T ss_pred c-CHHHHHHHhCCCcceEEe
Confidence 3 788899999999987655
No 45
>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=97.30 E-value=0.0063 Score=59.38 Aligned_cols=156 Identities=21% Similarity=0.247 Sum_probs=94.6
Q ss_pred EEEEEECCCChhH--HHHHHHHHHHHhhcC---CCCcEEEEEEeCCeEEEE-EcCCCCCCCCeeEEecCCccCChHHHHH
Q 004303 132 FMFVVDTCIIEEE--MSFLKSALSQAIDLL---PDNSLVGLITFGTLVQVH-ELGGFGQIIPKTYVFKGSKDVSKDQLLE 205 (762)
Q Consensus 132 ~vFvID~s~~~~~--l~~~~~~l~~~l~~l---p~~~~VglITfd~~V~~y-~l~~~~~~~~~~~V~~g~~~~~~~~l~~ 205 (762)
.+|+||.|.+... ++.+++.+...++.+ +++.+||+|+|++..+.+ .+. .. .+.+
T Consensus 2 ivflvD~S~sm~~~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~~~~~~~-~~-----------------~~~~- 62 (178)
T PF00092_consen 2 IVFLVDTSGSMSGDNFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSARVLFSLT-DY-----------------QSKN- 62 (178)
T ss_dssp EEEEEE-STTSCHHHHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEEEEEETT-SH-----------------SSHH-
T ss_pred EEEEEeCCCCCchHHHHHHHHHHHHHHHhhhccccccccceeeeecccccccccc-cc-----------------cccc-
Confidence 5899999998654 888999988888855 567999999999877632 222 10 0011
Q ss_pred HhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHH-HHccCCCCCCCCCCCCcchhhHHHHHHHHHhhc
Q 004303 206 QLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVL-EELQKDPWPVPPDQRSTRCTGTALSIAASLLGA 284 (762)
Q Consensus 206 ~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll-~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~ 284 (762)
.+...+ ..++. ....+.+|.||..|...+..
T Consensus 63 ----------------------------------------~~~~~i~~~~~~--------~~g~t~~~~aL~~a~~~l~~ 94 (178)
T PF00092_consen 63 ----------------------------------------DLLNAINDSIPS--------SGGGTNLGAALKFAREQLFS 94 (178)
T ss_dssp ----------------------------------------HHHHHHHTTGGC--------CBSSB-HHHHHHHHHHHTTS
T ss_pred ----------------------------------------cccccccccccc--------cchhhhHHHHHhhhhhcccc
Confidence 111121 22222 23456799999999999864
Q ss_pred c----CCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCC
Q 004303 285 C----VPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALD 360 (762)
Q Consensus 285 ~----~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~ 360 (762)
. .+....-|+++++|.++.++- .. ..+....+. ..|.+|+.+.+
T Consensus 95 ~~~~~r~~~~~~iiliTDG~~~~~~~--------------------------~~-----~~~~~~~~~-~~i~~~~ig~~ 142 (178)
T PF00092_consen 95 SNNGGRPNSPKVIILITDGNSNDSDS--------------------------PS-----EEAANLKKS-NGIKVIAIGID 142 (178)
T ss_dssp GGGTTGTTSEEEEEEEESSSSSSHSG--------------------------HH-----HHHHHHHHH-CTEEEEEEEES
T ss_pred cccccccccccceEEEEeecccCCcc--------------------------hH-----HHHHHHHHh-cCcEEEEEecC
Confidence 2 112334577778876544320 00 111111111 45666766666
Q ss_pred ccChhchhhhhcc--ccceEEEeCCCCh
Q 004303 361 QVGVAELKVAVEK--TGGLVVLSDSFGH 386 (762)
Q Consensus 361 ~~~l~~~~~L~~~--TGG~v~~~~~f~~ 386 (762)
..+..++..|+.. .+|.+++..+++.
T Consensus 143 ~~~~~~l~~la~~~~~~~~~~~~~~~~~ 170 (178)
T PF00092_consen 143 NADNEELRELASCPTSEGHVFYLADFSD 170 (178)
T ss_dssp CCHHHHHHHHSHSSTCHHHEEEESSHHH
T ss_pred cCCHHHHHHHhCCCCCCCcEEEcCCHHH
Confidence 7888899999965 4478888877765
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=97.30 E-value=0.0062 Score=72.23 Aligned_cols=161 Identities=19% Similarity=0.147 Sum_probs=104.7
Q ss_pred CCcEEEEEEECCCChh---HHHHHHHHHHHHhhc-CCCCcEEEEEEeCCe-EEEEEcCCCCCCCCeeEEecCCccCChHH
Q 004303 128 VPPVFMFVVDTCIIEE---EMSFLKSALSQAIDL-LPDNSLVGLITFGTL-VQVHELGGFGQIIPKTYVFKGSKDVSKDQ 202 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~---~l~~~~~~l~~~l~~-lp~~~~VglITfd~~-V~~y~l~~~~~~~~~~~V~~g~~~~~~~~ 202 (762)
....++|+||+|.++. .++.++.++...+.. .....+||+|+|++. ..+. +. .
T Consensus 464 ~~~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~a~~~~D~v~lI~F~g~~a~~~-~p-~-------------------- 521 (633)
T TIGR02442 464 AGNLVIFVVDASGSMAARGRMAAAKGAVLSLLRDAYQKRDKVALITFRGEEAEVL-LP-P-------------------- 521 (633)
T ss_pred CCceEEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceEE-cC-C--------------------
Confidence 4457889999999874 478888887777654 456789999999743 2211 11 0
Q ss_pred HHHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHh
Q 004303 203 LLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLL 282 (762)
Q Consensus 203 l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll 282 (762)
......+...|+.|+. ...+.++.||..|..++
T Consensus 522 --------------------------------------t~~~~~~~~~L~~l~~---------gG~Tpl~~aL~~A~~~l 554 (633)
T TIGR02442 522 --------------------------------------TSSVELAARRLEELPT---------GGRTPLAAGLLKAAEVL 554 (633)
T ss_pred --------------------------------------CCCHHHHHHHHHhCCC---------CCCCCHHHHHHHHHHHH
Confidence 0011233345555543 23567899999999888
Q ss_pred hcc---CCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecC
Q 004303 283 GAC---VPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACAL 359 (762)
Q Consensus 283 ~~~---~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~ 359 (762)
... .+...+.|+++++|.+|.|.+. .+ . ..+ -..+|.++.+.||.+.++-+..
T Consensus 555 ~~~~~~~~~~~~~vvliTDG~~n~~~~~---~~---~-----------------~~~-~~~~a~~l~~~~i~~~vIdt~~ 610 (633)
T TIGR02442 555 SNELLRDDDGRPLLVVITDGRANVADGG---EP---P-----------------TDD-ARTIAAKLAARGILFVVIDTES 610 (633)
T ss_pred HHhhccCCCCceEEEEECCCCCCCCCCC---CC---h-----------------HHH-HHHHHHHHHhcCCeEEEEeCCC
Confidence 721 1224567999999998886211 00 0 001 1446777777788777766666
Q ss_pred CccChhchhhhhccccceEEEe
Q 004303 360 DQVGVAELKVAVEKTGGLVVLS 381 (762)
Q Consensus 360 ~~~~l~~~~~L~~~TGG~v~~~ 381 (762)
..++...+..||+.+||..+..
T Consensus 611 ~~~~~~~~~~lA~~~gg~y~~l 632 (633)
T TIGR02442 611 GFVRLGLAEDLARALGGEYVRL 632 (633)
T ss_pred CCcchhHHHHHHHhhCCeEEec
Confidence 6677788999999999998864
No 47
>cd01476 VWA_integrin_invertebrates VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions. Because of their involvement in many biologically important adhesion processes, integrins are conserved across a wide range of multicellular animals. Integrins from invertebrates have been identified from six phyla. There are no data to date to suggest any immunological functions for the invertebrate integrins. The members of this sub-group have the conserved MIDAS motif that is charateristic of this domain suggesting the involvement of the integrins in the recognition and binding of multi-ligands.
Probab=97.25 E-value=0.015 Score=56.30 Aligned_cols=41 Identities=22% Similarity=0.332 Sum_probs=33.3
Q ss_pred EEEEEECCCChhH-HHHHHHHHHHHhhcCC---CCcEEEEEEeCC
Q 004303 132 FMFVVDTCIIEEE-MSFLKSALSQAIDLLP---DNSLVGLITFGT 172 (762)
Q Consensus 132 ~vFvID~s~~~~~-l~~~~~~l~~~l~~lp---~~~~VglITfd~ 172 (762)
++|++|+|.+... ++..++.++..+..+. +..+||+|+|++
T Consensus 3 v~~llD~S~Sm~~~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~ 47 (163)
T cd01476 3 LLFVLDSSGSVRGKFEKYKKYIERIVEGLEIGPTATRVALITYSG 47 (163)
T ss_pred EEEEEeCCcchhhhHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcC
Confidence 6899999998755 6777777888777764 478999999988
No 48
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.03 E-value=0.037 Score=56.61 Aligned_cols=169 Identities=17% Similarity=0.108 Sum_probs=112.9
Q ss_pred CCcEEEEEEECCCChhH---HHHHHHHHHHHhhcC-CCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHH
Q 004303 128 VPPVFMFVVDTCIIEEE---MSFLKSALSQAIDLL-PDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQL 203 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~~---l~~~~~~l~~~l~~l-p~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l 203 (762)
...-+|||||.|.++.- .+++|-++.+.|..- ...-+|++|+|.. ..
T Consensus 77 ~g~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq~RdkvavI~F~G---------~~-------------------- 127 (261)
T COG1240 77 AGNLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQRRDKVAVIAFRG---------EK-------------------- 127 (261)
T ss_pred cCCcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHHccceEEEEEecC---------Cc--------------------
Confidence 34568999999998653 788888887777543 3457999998752 11
Q ss_pred HHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhh
Q 004303 204 LEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLG 283 (762)
Q Consensus 204 ~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~ 283 (762)
..+++|...+-+.+...|+.|+. ...+=+..||..|..++.
T Consensus 128 ------------------------------A~lll~pT~sv~~~~~~L~~l~~---------GG~TPL~~aL~~a~ev~~ 168 (261)
T COG1240 128 ------------------------------AELLLPPTSSVELAERALERLPT---------GGKTPLADALRQAYEVLA 168 (261)
T ss_pred ------------------------------ceEEeCCcccHHHHHHHHHhCCC---------CCCCchHHHHHHHHHHHH
Confidence 01222222233455666677765 224558899999999998
Q ss_pred ccCC---CCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCC
Q 004303 284 ACVP---GSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALD 360 (762)
Q Consensus 284 ~~~~---~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~ 360 (762)
.+.+ ..--.+++.++|.||.+++.=+. +. -...+.++...|+-+=+.-+-..
T Consensus 169 r~~r~~p~~~~~~vviTDGr~n~~~~~~~~-----------------------~e--~~~~a~~~~~~g~~~lvid~e~~ 223 (261)
T COG1240 169 REKRRGPDRRPVMVVITDGRANVPIPLGPK-----------------------AE--TLEAASKLRLRGIQLLVIDTEGS 223 (261)
T ss_pred HhhccCCCcceEEEEEeCCccCCCCCCchH-----------------------HH--HHHHHHHHhhcCCcEEEEecCCc
Confidence 5432 23457888999998877532100 00 11345566667776666667777
Q ss_pred ccChhchhhhhccccceEEEeCCCChhhh
Q 004303 361 QVGVAELKVAVEKTGGLVVLSDSFGHAVF 389 (762)
Q Consensus 361 ~~~l~~~~~L~~~TGG~v~~~~~f~~~~~ 389 (762)
++.+.-...||...||.+++.+..+....
T Consensus 224 ~~~~g~~~~iA~~~Gg~~~~L~~l~~~~i 252 (261)
T COG1240 224 EVRLGLAEEIARASGGEYYHLDDLSDDSI 252 (261)
T ss_pred cccccHHHHHHHHhCCeEEecccccchHH
Confidence 78888889999999999999998887543
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=97.00 E-value=0.039 Score=52.01 Aligned_cols=147 Identities=24% Similarity=0.308 Sum_probs=94.5
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHhhcCCC---CcEEEEEEeCCeEEEEE-cCCCCCCCCeeEEecCCccCChHHHH
Q 004303 131 VFMFVVDTCIIE--EEMSFLKSALSQAIDLLPD---NSLVGLITFGTLVQVHE-LGGFGQIIPKTYVFKGSKDVSKDQLL 204 (762)
Q Consensus 131 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~lp~---~~~VglITfd~~V~~y~-l~~~~~~~~~~~V~~g~~~~~~~~l~ 204 (762)
.++|+||+|.++ ..++.+++.+...+..++. ..+||++.|+...+.+- +. .
T Consensus 2 ~v~~viD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~~~~~~-~---------------------- 58 (161)
T cd00198 2 DIVFLLDVSGSMGGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVVLPLT-T---------------------- 58 (161)
T ss_pred cEEEEEeCCCCcCcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccceeeccc-c----------------------
Confidence 378999999986 3388899999999888876 78999999997433221 11 0
Q ss_pred HHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhc
Q 004303 205 EQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGA 284 (762)
Q Consensus 205 ~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~ 284 (762)
. .....+...++.+.. .......+..|+..|...+..
T Consensus 59 -------------------------------~-----~~~~~~~~~~~~~~~-------~~~~~t~~~~al~~~~~~~~~ 95 (161)
T cd00198 59 -------------------------------D-----TDKADLLEAIDALKK-------GLGGGTNIGAALRLALELLKS 95 (161)
T ss_pred -------------------------------c-----CCHHHHHHHHHhccc-------CCCCCccHHHHHHHHHHHhcc
Confidence 0 011233334444432 112345678888888888864
Q ss_pred cC-CCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEecCCccC
Q 004303 285 CV-PGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACALDQVG 363 (762)
Q Consensus 285 ~~-~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~~~~~~ 363 (762)
.. +.....|++|++|.++.++ . + ..+..+.+.+.++.+.++.++. ..+
T Consensus 96 ~~~~~~~~~lvvitDg~~~~~~-----~----------~---------------~~~~~~~~~~~~v~v~~v~~g~-~~~ 144 (161)
T cd00198 96 AKRPNARRVIILLTDGEPNDGP-----E----------L---------------LAEAARELRKLGITVYTIGIGD-DAN 144 (161)
T ss_pred cCCCCCceEEEEEeCCCCCCCc-----c----------h---------------hHHHHHHHHHcCCEEEEEEcCC-CCC
Confidence 21 2346678888888655443 0 0 1234556667799998888775 345
Q ss_pred hhchhhhhccc
Q 004303 364 VAELKVAVEKT 374 (762)
Q Consensus 364 l~~~~~L~~~T 374 (762)
-..+..|+..|
T Consensus 145 ~~~l~~l~~~~ 155 (161)
T cd00198 145 EDELKEIADKT 155 (161)
T ss_pred HHHHHHHhccc
Confidence 66788888877
No 50
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=96.90 E-value=0.061 Score=61.50 Aligned_cols=165 Identities=12% Similarity=0.047 Sum_probs=96.1
Q ss_pred CCcEEEEEEECCCChhH---HHHHHHHHHHHhhcC---CCCcEEEEEEeCCeEE-EEEcCCCCCCCCeeEEecCCccCCh
Q 004303 128 VPPVFMFVVDTCIIEEE---MSFLKSALSQAIDLL---PDNSLVGLITFGTLVQ-VHELGGFGQIIPKTYVFKGSKDVSK 200 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~~---l~~~~~~l~~~l~~l---p~~~~VglITfd~~V~-~y~l~~~~~~~~~~~V~~g~~~~~~ 200 (762)
..--++||||.|.+... ++.++..++..+..+ ++..+||+++|++..+ ++.+. .. . .+
T Consensus 41 ~~lDIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r~vfpL~-s~-~-----------s~-- 105 (576)
T PTZ00441 41 EEVDLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTTELIRLG-SG-A-----------SK-- 105 (576)
T ss_pred CCceEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCceEEEecC-CC-c-----------cc--
Confidence 44568999999998653 467777777777766 3468999999998654 33333 11 0 00
Q ss_pred HHHHHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHH
Q 004303 201 DQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAAS 280 (762)
Q Consensus 201 ~~l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ 280 (762)
+ +..+...|..|.... .+ ...+.+|.||..|..
T Consensus 106 -D-----------------------------------------k~~aL~~I~sL~~~~--~p---gGgTnig~AL~~Aae 138 (576)
T PTZ00441 106 -D-----------------------------------------KEQALIIVKSLRKTY--LP---YGKTNMTDALLEVRK 138 (576)
T ss_pred -c-----------------------------------------HHHHHHHHHHHHhhc--cC---CCCccHHHHHHHHHH
Confidence 0 112222233332210 11 235679999998888
Q ss_pred Hhhcc--CCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEec
Q 004303 281 LLGAC--VPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACA 358 (762)
Q Consensus 281 ll~~~--~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~ 358 (762)
.+... ..+..+.||+|+.|.++.+. . -.+.++++...||.|-++..+
T Consensus 139 ~L~sr~~R~nvpKVVILLTDG~sns~~-----------------------d--------vleaAq~LR~~GVeI~vIGVG 187 (576)
T PTZ00441 139 HLNDRVNRENAIQLVILMTDGIPNSKY-----------------------R--------ALEESRKLKDRNVKLAVIGIG 187 (576)
T ss_pred HHhhcccccCCceEEEEEecCCCCCcc-----------------------c--------HHHHHHHHHHCCCEEEEEEeC
Confidence 77631 01223678888888643110 0 012356677778876666664
Q ss_pred CCccChhchhhhh----ccccceEEEeCCCCh
Q 004303 359 LDQVGVAELKVAV----EKTGGLVVLSDSFGH 386 (762)
Q Consensus 359 ~~~~~l~~~~~L~----~~TGG~v~~~~~f~~ 386 (762)
. ..+...+..|+ ..++|.+|...+|..
T Consensus 188 ~-g~n~e~LrlIAgC~p~~g~c~~Y~vadf~e 218 (576)
T PTZ00441 188 Q-GINHQFNRLLAGCRPREGKCKFYSDADWEE 218 (576)
T ss_pred C-CcCHHHHHHHhccCCCCCCCceEEeCCHHH
Confidence 3 45655566566 335567788778853
No 51
>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=96.87 E-value=0.053 Score=54.29 Aligned_cols=146 Identities=14% Similarity=0.089 Sum_probs=89.2
Q ss_pred EEEEEECCCChhH--HH-HHHHHHHHHhhcC---CCCcEEEEEEeCCeEEEE-EcCCCCCCCCeeEEecCCccCChHHHH
Q 004303 132 FMFVVDTCIIEEE--MS-FLKSALSQAIDLL---PDNSLVGLITFGTLVQVH-ELGGFGQIIPKTYVFKGSKDVSKDQLL 204 (762)
Q Consensus 132 ~vFvID~s~~~~~--l~-~~~~~l~~~l~~l---p~~~~VglITfd~~V~~y-~l~~~~~~~~~~~V~~g~~~~~~~~l~ 204 (762)
.+|+||.|.+..+ ++ .+++.++..++.+ ++++|||+|+|++..+++ .+. ..
T Consensus 3 i~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~~~~~~~-~~--------------------- 60 (192)
T cd01473 3 LTLILDESASIGYSNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNRDVVPFS-DE--------------------- 60 (192)
T ss_pred EEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCceeEEecC-cc---------------------
Confidence 5899999998654 55 4777777777776 457999999999877542 222 10
Q ss_pred HHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhc
Q 004303 205 EQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGA 284 (762)
Q Consensus 205 ~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~ 284 (762)
. ...+..+...++++... +. ....+.+|.||..|...+..
T Consensus 61 ~-----------------------------------~~~~~~l~~~i~~l~~~---~~--~~g~T~~~~AL~~a~~~~~~ 100 (192)
T cd01473 61 E-----------------------------------RYDKNELLKKINDLKNS---YR--SGGETYIVEALKYGLKNYTK 100 (192)
T ss_pred c-----------------------------------ccCHHHHHHHHHHHHhc---cC--CCCcCcHHHHHHHHHHHhcc
Confidence 0 00123444555565531 11 12456899999999887753
Q ss_pred cCCCCCc-----E-EEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEec
Q 004303 285 CVPGSGA-----R-ILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACA 358 (762)
Q Consensus 285 ~~~~~gg-----k-Ii~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~ 358 (762)
..|+ | ++++|.|..+.+- + .=-.+.++.+.+.||.+-.+..+
T Consensus 101 ---~~~~r~~~~kv~IllTDG~s~~~~------------------~-----------~~~~~~a~~lk~~gV~i~~vGiG 148 (192)
T cd01473 101 ---HGNRRKDAPKVTMLFTDGNDTSAS------------------K-----------KELQDISLLYKEENVKLLVVGVG 148 (192)
T ss_pred ---CCCCcccCCeEEEEEecCCCCCcc------------------h-----------hhHHHHHHHHHHCCCEEEEEEec
Confidence 2222 2 6677777332110 0 00134577888888888777765
Q ss_pred CCccChhchhhhhcc
Q 004303 359 LDQVGVAELKVAVEK 373 (762)
Q Consensus 359 ~~~~~l~~~~~L~~~ 373 (762)
. .+-.++..++..
T Consensus 149 ~--~~~~el~~ia~~ 161 (192)
T cd01473 149 A--ASENKLKLLAGC 161 (192)
T ss_pred c--ccHHHHHHhcCC
Confidence 4 456777777764
No 52
>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=96.70 E-value=0.035 Score=55.11 Aligned_cols=96 Identities=20% Similarity=0.198 Sum_probs=66.2
Q ss_pred CCcchhhHHHHHHHHHhhccCCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHH
Q 004303 266 RSTRCTGTALSIAASLLGACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQL 345 (762)
Q Consensus 266 ~~~~~~G~Al~~A~~ll~~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~ 345 (762)
.....+-.||..|...|+..-....=.|+++.++.-|..||.+ .+..+.+
T Consensus 77 ~G~~SLqN~Le~A~~~L~~~p~~~srEIlvi~gSl~t~Dp~di------------------------------~~ti~~l 126 (193)
T PF04056_consen 77 SGEPSLQNGLEMARSSLKHMPSHGSREILVIFGSLTTCDPGDI------------------------------HETIESL 126 (193)
T ss_pred CCChhHHHHHHHHHHHHhhCccccceEEEEEEeecccCCchhH------------------------------HHHHHHH
Confidence 3456888999999999985432222356666676666665533 2457788
Q ss_pred HhcCcEEEEEEecCCccChhchhhhhccccceEEEeCCCChhhhHHHHHHH
Q 004303 346 VHQGHVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRV 396 (762)
Q Consensus 346 ~~~~isvDlf~~~~~~~~l~~~~~L~~~TGG~v~~~~~f~~~~~~~~l~~~ 396 (762)
.+.+|-|++...+. .+.-.+.+|+.|||.... ..++..|++.|...
T Consensus 127 ~~~~IrvsvI~laa---Ev~I~k~i~~~T~G~y~V--~lde~H~~~lL~~~ 172 (193)
T PF04056_consen 127 KKENIRVSVISLAA---EVYICKKICKETGGTYGV--ILDEDHFKELLMEH 172 (193)
T ss_pred HHcCCEEEEEEEhH---HHHHHHHHHHhhCCEEEE--ecCHHHHHHHHHhh
Confidence 88999999999876 566789999999995443 34555566544433
No 53
>smart00262 GEL Gelsolin homology domain. Gelsolin/severin/villin homology domain. Calcium-binding and actin-binding. Both intra- and extracellular domains.
Probab=96.70 E-value=0.005 Score=53.40 Aligned_cols=72 Identities=10% Similarity=0.050 Sum_probs=49.2
Q ss_pred cccccccccccCeEEEEeCCcEEEEEEcCchhHHHHcccCCCchhHHHHHhhcCCHHHHHHHHH-cCCCCcEEEEEccCC
Q 004303 643 PALLDVAAIAADRILLLDSYFTVVIFHGATIAQWRKAGYHNQPEHQAFAQLLQAPHDDAGVIMK-ERFPVPRLVICDQHG 721 (762)
Q Consensus 643 ~~~Ls~~~l~~~~iyLlD~g~~i~i~~G~~v~~~~~~~~~~~~~~~~~~~~l~~p~~~~~~i~~-~R~~~p~~~~~~~g~ 721 (762)
.++++.++|.++.+||||+|..||+|+|+.++.- +. . .....++.+.+ .+.+..++.+++||.
T Consensus 15 ~~~~~~~~L~s~d~fild~~~~iyvW~G~~as~~---------ek----~---~A~~~a~~~~~~~~~~~~~i~~v~eg~ 78 (90)
T smart00262 15 EVPFSQGSLNSGDCYILDTGSEIYVWVGKKSSQD---------EK----K---KAAELAVELDDTLGPGPVQVRVVDEGK 78 (90)
T ss_pred EcCCCHHHCCCCCEEEEECCCEEEEEECCCCCHH---------HH----H---HHHHHHHHHHHhcCCCCceEEEEeCCC
Confidence 4567888999999999999999999999987531 10 0 01123444443 344566788888987
Q ss_pred chhhhHHhh
Q 004303 722 SQVGSYHNV 730 (762)
Q Consensus 722 sq~rf~~~l 730 (762)
....|...+
T Consensus 79 E~~~F~~~f 87 (90)
T smart00262 79 EPPEFWSLF 87 (90)
T ss_pred CCHHHHHHh
Confidence 556666544
No 54
>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=96.42 E-value=0.079 Score=51.93 Aligned_cols=43 Identities=14% Similarity=0.097 Sum_probs=35.2
Q ss_pred EEEEEEECCCChh---HHHHHHHHHHHHhhcCCC-CcEEEEEEeCCe
Q 004303 131 VFMFVVDTCIIEE---EMSFLKSALSQAIDLLPD-NSLVGLITFGTL 173 (762)
Q Consensus 131 ~~vFvID~s~~~~---~l~~~~~~l~~~l~~lp~-~~~VglITfd~~ 173 (762)
.++|+||+|.++. .++.+++++...++.+.+ +.++|+++|++.
T Consensus 2 ~v~~llD~SgSM~~~~kl~~ak~a~~~l~~~l~~~~d~~~l~~F~~~ 48 (174)
T cd01454 2 AVTLLLDLSGSMRSDRRIDVAKKAAVLLAEALEACGVPHAILGFTTD 48 (174)
T ss_pred EEEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHHcCCcEEEEEecCC
Confidence 5789999999863 478888888877777764 789999999876
No 55
>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=96.24 E-value=0.13 Score=52.44 Aligned_cols=156 Identities=16% Similarity=0.141 Sum_probs=88.3
Q ss_pred EEEEEEECCCChh---------HHHHHHHHHHHHhhcC---CCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccC
Q 004303 131 VFMFVVDTCIIEE---------EMSFLKSALSQAIDLL---PDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDV 198 (762)
Q Consensus 131 ~~vFvID~s~~~~---------~l~~~~~~l~~~l~~l---p~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~ 198 (762)
..+|+||+|.++. .|+.+++.+...+... -++.+||+|.|++.-+-.. . .....+|+.
T Consensus 3 ~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~-~----~~~~i~v~~----- 72 (218)
T cd01458 3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNP-V----GYENIYVLL----- 72 (218)
T ss_pred EEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCc-C----CCCceEEee-----
Confidence 4799999998652 2888888888888762 4567999999886532110 0 111222210
Q ss_pred ChHHHHHHhhcccCCCCCCCccccCccCCCCcccccceEEechhcHHHHHHHHHHccCCCCC--CCCCCCCcchhhHHHH
Q 004303 199 SKDQLLEQLNFFIKKPKPSTGVIAGVRDGLSSDTIARFLVPAFDCEFTLNSVLEELQKDPWP--VPPDQRSTRCTGTALS 276 (762)
Q Consensus 199 ~~~~l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl~~~l~~~~~~~~~i~~ll~~L~~~~~~--~~~~~~~~~~~G~Al~ 276 (762)
++. .| ....+..+++.+...... ...+......++.||.
T Consensus 73 ------~l~-----------------------~~----------~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~ 113 (218)
T cd01458 73 ------DLD-----------------------TP----------GAERVEDLKELIEPGGLSFAGQVGDSGQVSLSDALW 113 (218)
T ss_pred ------cCC-----------------------CC----------CHHHHHHHHHHhhcchhhhcccCCCCCCccHHHHHH
Confidence 000 00 112333333333221000 0011235678999999
Q ss_pred HHHHHhhccCC-CCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHhcCcEEEEE
Q 004303 277 IAASLLGACVP-GSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLF 355 (762)
Q Consensus 277 ~A~~ll~~~~~-~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf 355 (762)
+|..++..... ...-+|++||+|--..|.. .....-...++.++.+.||.+.+|
T Consensus 114 ~a~~~~~~~~~~~~~k~IvL~TDg~~p~~~~-------------------------~~~~~~~~~~a~~l~~~gI~i~~i 168 (218)
T cd01458 114 VCLDLFSKGKKKKSHKRIFLFTNNDDPHGGD-------------------------SIKDSQAAVKAEDLKDKGIELELF 168 (218)
T ss_pred HHHHHHHhccccccccEEEEECCCCCCCCCC-------------------------HHHHHHHHHHHHHHHhCCcEEEEE
Confidence 99999985211 2346799999874333310 001222456788888889999998
Q ss_pred EecCC
Q 004303 356 ACALD 360 (762)
Q Consensus 356 ~~~~~ 360 (762)
....+
T Consensus 169 ~i~~~ 173 (218)
T cd01458 169 PLSSP 173 (218)
T ss_pred ecCCC
Confidence 86543
No 56
>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=95.34 E-value=0.53 Score=44.79 Aligned_cols=43 Identities=16% Similarity=0.098 Sum_probs=32.5
Q ss_pred EEEEEECCCChhH--HHHHHHHHHHHhhcCC-CCcEEEEEEeCCeE
Q 004303 132 FMFVVDTCIIEEE--MSFLKSALSQAIDLLP-DNSLVGLITFGTLV 174 (762)
Q Consensus 132 ~vFvID~s~~~~~--l~~~~~~l~~~l~~lp-~~~~VglITfd~~V 174 (762)
++|+||+|.+... ++..+..+...+..+. ++.+|++|+|++..
T Consensus 3 v~illD~SgSM~~~k~~~a~~~~~~l~~~~~~~~~~v~li~F~~~~ 48 (152)
T cd01462 3 VILLVDQSGSMYGAPEEVAKAVALALLRIALAENRDTYLILFDSEF 48 (152)
T ss_pred EEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHcCCcEEEEEeCCCc
Confidence 6899999998764 5566666666666554 47799999999873
No 57
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=94.13 E-value=2.1 Score=42.55 Aligned_cols=86 Identities=22% Similarity=0.222 Sum_probs=57.2
Q ss_pred cchhhHHHHHHHHHhhccC-CCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHH
Q 004303 268 TRCTGTALSIAASLLGACV-PGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLV 346 (762)
Q Consensus 268 ~~~~G~Al~~A~~ll~~~~-~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~ 346 (762)
+.-++.+|++|..+|++-. ++.--||++|.++|-.. ..+-.-++|+++.
T Consensus 84 ~~~~~~~i~iA~lalkhRqnk~~~~riVvFvGSpi~e------------------------------~ekeLv~~akrlk 133 (259)
T KOG2884|consen 84 KANFMTGIQIAQLALKHRQNKNQKQRIVVFVGSPIEE------------------------------SEKELVKLAKRLK 133 (259)
T ss_pred cccHHHHHHHHHHHHHhhcCCCcceEEEEEecCcchh------------------------------hHHHHHHHHHHHH
Confidence 4568999999999999521 12237999999985211 1112457899999
Q ss_pred hcCcEEEEEEecCCccChhchhhhhccccce-----EEEeCC
Q 004303 347 HQGHVLDLFACALDQVGVAELKVAVEKTGGL-----VVLSDS 383 (762)
Q Consensus 347 ~~~isvDlf~~~~~~~~l~~~~~L~~~TGG~-----v~~~~~ 383 (762)
+.++.||++.++-...+-.-+......++|. +...++
T Consensus 134 k~~Vaidii~FGE~~~~~e~l~~fida~N~~~~gshlv~Vpp 175 (259)
T KOG2884|consen 134 KNKVAIDIINFGEAENNTEKLFEFIDALNGKGDGSHLVSVPP 175 (259)
T ss_pred hcCeeEEEEEeccccccHHHHHHHHHHhcCCCCCceEEEeCC
Confidence 9999999999986555533344444444443 555554
No 58
>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=93.93 E-value=3.7 Score=48.36 Aligned_cols=74 Identities=18% Similarity=0.192 Sum_probs=44.8
Q ss_pred cchhhHHHHHHHHHhhccCCCCC-cEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHH
Q 004303 268 TRCTGTALSIAASLLGACVPGSG-ARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLV 346 (762)
Q Consensus 268 ~~~~G~Al~~A~~ll~~~~~~~g-gkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~ 346 (762)
...+..||.+|..++..+.++.+ =||++||+--.-.|. ++ . ...==...|..+.
T Consensus 116 ~~~l~daL~~~~~~f~~~~~k~~~kRI~lfTd~D~P~~~------------------~~---~----~~~~a~~~a~dl~ 170 (584)
T TIGR00578 116 DYSLSEVLWVCANLFSDVQFRMSHKRIMLFTNEDNPHGN------------------DS---A----KASRARTKAGDLR 170 (584)
T ss_pred CCcHHHHHHHHHHHHHhcchhhcCcEEEEECCCCCCCCC------------------ch---h----HHHHHHHHHHHHH
Confidence 34789999999999985444444 469999964221110 00 0 0000122477888
Q ss_pred hcCcEEEEEEec-CCccChhc
Q 004303 347 HQGHVLDLFACA-LDQVGVAE 366 (762)
Q Consensus 347 ~~~isvDlf~~~-~~~~~l~~ 366 (762)
..||.+++|..+ .+.+|...
T Consensus 171 ~~gi~ielf~l~~~~~Fd~s~ 191 (584)
T TIGR00578 171 DTGIFLDLMHLKKPGGFDISL 191 (584)
T ss_pred hcCeEEEEEecCCCCCCChhh
Confidence 899999999654 23355553
No 59
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=93.77 E-value=0.084 Score=61.45 Aligned_cols=90 Identities=20% Similarity=0.211 Sum_probs=55.5
Q ss_pred HhhcccceecccC-C-C--CccccccccccccCeEEEEeCCcEEEEEEcCchhH-HHHcccCCCchhHHHHHhhcCCHHH
Q 004303 626 VMIQPSLISYSFH-S-G--PEPALLDVAAIAADRILLLDSYFTVVIFHGATIAQ-WRKAGYHNQPEHQAFAQLLQAPHDD 700 (762)
Q Consensus 626 ~~iyP~L~~~~~~-~-~--p~~~~Ls~~~l~~~~iyLlD~g~~i~i~~G~~v~~-~~~~~~~~~~~~~~~~~~l~~p~~~ 700 (762)
.-..|+||..+.. + + -+-...+.+.|..+.|||||++..||||+|++++. +... . |......
T Consensus 616 ~~~~PrLF~Cs~~~g~f~~~EI~~F~QdDL~tdDi~lLDt~~evfvWvG~~a~~~eK~~---------A----l~~~~~y 682 (827)
T KOG0443|consen 616 PERDPRLFSCSNKTGSFVVEEIYNFTQDDLMTDDIMLLDTWSEVFVWVGQEANEKEKEE---------A----LTIGQKY 682 (827)
T ss_pred CCCCCcEEEEEecCCcEEEEEecCcchhhccccceEEEecCceEEEEecCCCChhHHHH---------H----HHHHHHH
Confidence 4567888887753 2 1 12225677888999999999999999999998863 2211 1 1111111
Q ss_pred HHH-HHHcCCCCcEEEEEccCC---chhhhHH
Q 004303 701 AGV-IMKERFPVPRLVICDQHG---SQVGSYH 728 (762)
Q Consensus 701 ~~~-i~~~R~~~p~~~~~~~g~---sq~rf~~ 728 (762)
++. +-..|-|.-.+++++||+ .--|||.
T Consensus 683 l~~~~p~gr~~~TPI~vV~qG~EPp~Ftg~F~ 714 (827)
T KOG0443|consen 683 LETDLPEGRDPRTPIYVVKQGHEPPFFTGFFL 714 (827)
T ss_pred HhccCcccCCCCCceEEecCCCCCChhhcccc
Confidence 111 235676644478888885 2455554
No 60
>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=93.50 E-value=0.11 Score=51.13 Aligned_cols=45 Identities=20% Similarity=0.253 Sum_probs=36.3
Q ss_pred EEEEEECCCChh--HHHHHHHHHHHHhhcCCC------CcEEEEEEeCCeEEE
Q 004303 132 FMFVVDTCIIEE--EMSFLKSALSQAIDLLPD------NSLVGLITFGTLVQV 176 (762)
Q Consensus 132 ~vFvID~s~~~~--~l~~~~~~l~~~l~~lp~------~~~VglITfd~~V~~ 176 (762)
++|+||+|.+.. .++.++++++..++.+.+ +.+||+|+|++..+.
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 579999999864 388888888888887753 469999999987654
No 61
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=92.45 E-value=0.21 Score=48.55 Aligned_cols=49 Identities=24% Similarity=0.371 Sum_probs=39.0
Q ss_pred CcEEEEEEECCCChhH--HHHHHHHHHHHhhcCCC------CcEEEEEEeCCeEEEEE
Q 004303 129 PPVFMFVVDTCIIEEE--MSFLKSALSQAIDLLPD------NSLVGLITFGTLVQVHE 178 (762)
Q Consensus 129 ~p~~vFvID~s~~~~~--l~~~~~~l~~~l~~lp~------~~~VglITfd~~V~~y~ 178 (762)
-|+| |++|+|.+..- ++++..+|+..++.|.. .+.++|||||+.+++|.
T Consensus 4 lP~~-lllDtSgSM~Ge~IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~~a~~~~ 60 (207)
T COG4245 4 LPCY-LLLDTSGSMIGEPIEALNAGLQMMIDTLKQDPYALERVELSIVTFGGPARVIQ 60 (207)
T ss_pred CCEE-EEEecCcccccccHHHHHHHHHHHHHHHHhChhhhheeEEEEEEecCcceEEe
Confidence 3454 89999998754 88888888888887743 47999999999887764
No 62
>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=89.88 E-value=19 Score=37.94 Aligned_cols=46 Identities=24% Similarity=0.307 Sum_probs=35.3
Q ss_pred CCcEEEEEEECCCChhH-------HHHHHHHHHHHhhcCCCCcEEEEEEeCCeEE
Q 004303 128 VPPVFMFVVDTCIIEEE-------MSFLKSALSQAIDLLPDNSLVGLITFGTLVQ 175 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~~-------l~~~~~~l~~~l~~lp~~~~VglITfd~~V~ 175 (762)
...-++++||.|.++.+ ++ .+..|..+++.++ ..+||++.|+..+.
T Consensus 59 r~~qIvlaID~S~SM~~~~~~~~ale-ak~lIs~al~~Le-~g~vgVv~Fg~~~~ 111 (266)
T cd01460 59 RDYQILIAIDDSKSMSENNSKKLALE-SLCLVSKALTLLE-VGQLGVCSFGEDVQ 111 (266)
T ss_pred cCceEEEEEecchhcccccccccHHH-HHHHHHHHHHhCc-CCcEEEEEeCCCce
Confidence 66789999999998754 45 4556677777776 46999999998763
No 63
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=89.01 E-value=0.61 Score=53.32 Aligned_cols=84 Identities=20% Similarity=0.199 Sum_probs=55.4
Q ss_pred cceecccCC---CCccccccccccccCeEEEEeCCcEEEEEEcCchhHHHHcccCCCchhHHHHHhhcCCHHHHHHHH-H
Q 004303 631 SLISYSFHS---GPEPALLDVAAIAADRILLLDSYFTVVIFHGATIAQWRKAGYHNQPEHQAFAQLLQAPHDDAGVIM-K 706 (762)
Q Consensus 631 ~L~~~~~~~---~p~~~~Ls~~~l~~~~iyLlD~g~~i~i~~G~~v~~~~~~~~~~~~~~~~~~~~l~~p~~~~~~i~-~ 706 (762)
|||.++..| .-+|++|+..+|.+.-++|||.|..||||-|....- .. -...+.++..|. .
T Consensus 623 RlYrv~~~g~~i~lEPVpl~~tSLDPRf~FlLD~G~~IyiW~G~~s~~----------t~------~~KARLfAEkinK~ 686 (1255)
T KOG0444|consen 623 RLYRVGVNGTAIELEPVPLSVTSLDPRFCFLLDAGETIYIWSGYKSRI----------TV------SNKARLFAEKINKR 686 (1255)
T ss_pred hhheeccccceeEeeccCccccccCcceEEEEeCCceEEEEeccchhc----------cc------chHHHHHHHHhhhh
Confidence 456555443 347999999999999999999999999999986421 00 011223444554 2
Q ss_pred cCCCCcEEEEEccCCchhhhHHhh
Q 004303 707 ERFPVPRLVICDQHGSQVGSYHNV 730 (762)
Q Consensus 707 ~R~~~p~~~~~~~g~sq~rf~~~l 730 (762)
+|...--+-.++||.--..|-+-|
T Consensus 687 eRKgK~EI~l~rQg~e~pEFWqaL 710 (1255)
T KOG0444|consen 687 ERKGKSEIELCRQGREPPEFWQAL 710 (1255)
T ss_pred hccCceeeehhhhcCCCHHHHHHh
Confidence 455555666777776555565544
No 64
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=88.74 E-value=12 Score=36.37 Aligned_cols=74 Identities=26% Similarity=0.295 Sum_probs=50.1
Q ss_pred HHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhhccCCCCC--cEEEEEecCCCCCCCcccccCCCCCCccCCCC
Q 004303 245 FTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLGACVPGSG--ARILAFVGGPSTEGPAAIVSKNLSEPIRSHKD 322 (762)
Q Consensus 245 ~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~g--gkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d 322 (762)
..|...|..++- +...-.+.+|+.|..++++-- +.| .||++|.++|....
T Consensus 70 gkilt~lhd~~~---------~g~a~~~~~lqiaql~lkhR~-nk~q~qriVaFvgSpi~es------------------ 121 (243)
T COG5148 70 GKILTFLHDIRL---------HGGADIMRCLQIAQLILKHRD-NKGQRQRIVAFVGSPIQES------------------ 121 (243)
T ss_pred hHHHHHhccccc---------cCcchHHHHHHHHHHHHhccc-CCccceEEEEEecCccccc------------------
Confidence 355556655554 223457899999999998521 233 69999999853110
Q ss_pred CCCCCCcccchhHHHHHHHHHHHHhcCcEEEEEEec
Q 004303 323 LDKDSAPHYHKAVKFYDALSKQLVHQGHVLDLFACA 358 (762)
Q Consensus 323 ~~~~~~~~~~~a~~fY~~la~~~~~~~isvDlf~~~ 358 (762)
.+-.-.+|+++.+++++||++.++
T Consensus 122 ------------edeLirlak~lkknnVAidii~fG 145 (243)
T COG5148 122 ------------EDELIRLAKQLKKNNVAIDIIFFG 145 (243)
T ss_pred ------------HHHHHHHHHHHHhcCeeEEEEehh
Confidence 111335899999999999999875
No 65
>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=86.63 E-value=10 Score=37.88 Aligned_cols=44 Identities=7% Similarity=-0.004 Sum_probs=30.8
Q ss_pred cEEEEEEECCCChh---------HHHHHHHHHHHHhhcCC--CCcEEEEEEeCCe
Q 004303 130 PVFMFVVDTCIIEE---------EMSFLKSALSQAIDLLP--DNSLVGLITFGTL 173 (762)
Q Consensus 130 p~~vFvID~s~~~~---------~l~~~~~~l~~~l~~lp--~~~~VglITfd~~ 173 (762)
.-++|+||.|.++. .++.+++++...+..++ +...+++++|++.
T Consensus 3 ~dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~ 57 (199)
T cd01457 3 RDYTLLIDKSGSMAEADEAKERSRWEEAQESTRALARKCEEYDSDGITVYLFSGD 57 (199)
T ss_pred cCEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHHHHHhcCCCCeEEEEecCC
Confidence 34789999999874 36778888777766543 2345887777543
No 66
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=86.32 E-value=1.3 Score=51.98 Aligned_cols=85 Identities=16% Similarity=0.113 Sum_probs=55.9
Q ss_pred cccceeccc--CCC--C--ccccccccccccCeEEEEeCC-cEEEEEEcCchhH-HHHcccCCCchhHHHHHhhcCCHHH
Q 004303 629 QPSLISYSF--HSG--P--EPALLDVAAIAADRILLLDSY-FTVVIFHGATIAQ-WRKAGYHNQPEHQAFAQLLQAPHDD 700 (762)
Q Consensus 629 yP~L~~~~~--~~~--p--~~~~Ls~~~l~~~~iyLlD~g-~~i~i~~G~~v~~-~~~~~~~~~~~~~~~~~~l~~p~~~ 700 (762)
.++||.++. .++ + ..-+|+.+-|..+.+|+||+| ..||||+|+.++. .+++ . ...
T Consensus 254 ~~kLYkVsd~~g~l~v~~va~~~l~qdlLd~~dCYILD~g~~~IfVW~Gr~as~~ERka-------------A----m~~ 316 (827)
T KOG0443|consen 254 AAKLYKVSDASGGLKVPVVADGPLTKDLLDTEDCYILDCGGGEIFVWKGRQASLDERKA-------------A----MSS 316 (827)
T ss_pred ccEEEEEeccCCCccccccccchhhHHhhccCCeEEEecCCceEEEEeCCCCCHHHHHH-------------H----HHH
Confidence 467888885 221 1 111278888999999999999 9999999998763 1211 1 112
Q ss_pred HHHHH--HcCCCCcEEEEEccCCchhhhHHhh
Q 004303 701 AGVIM--KERFPVPRLVICDQHGSQVGSYHNV 730 (762)
Q Consensus 701 ~~~i~--~~R~~~p~~~~~~~g~sq~rf~~~l 730 (762)
+++.+ +++.+.-+++.+.+|..-+.|-+.-
T Consensus 317 AeeFlk~k~yP~~TqV~rv~EG~Esa~FKq~F 348 (827)
T KOG0443|consen 317 AEEFLKKKKYPPNTQVVRVLEGAESAPFKQLF 348 (827)
T ss_pred HHHHHHhccCCCCceEEEecCCCcchhHHHHH
Confidence 33433 3455677888888887666665444
No 67
>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=81.19 E-value=99 Score=34.66 Aligned_cols=282 Identities=13% Similarity=0.071 Sum_probs=145.7
Q ss_pred CCcEEEEEEECCCChhH----HHHHHHHHHHHhhcCCCCcEEEEEEeCCeEE-EEEcCCCCCCCCeeEEecCCccCChHH
Q 004303 128 VPPVFMFVVDTCIIEEE----MSFLKSALSQAIDLLPDNSLVGLITFGTLVQ-VHELGGFGQIIPKTYVFKGSKDVSKDQ 202 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~~----l~~~~~~l~~~l~~lp~~~~VglITfd~~V~-~y~l~~~~~~~~~~~V~~g~~~~~~~~ 202 (762)
.|-=..|+.|+|.++.+ ++.+...|...|..+..+.|+||=+|=+..- =|- .. . .++
T Consensus 98 yPvDLYyLMDlS~SM~ddl~~lk~lg~~L~~~m~~it~n~rlGfGsFVDK~v~P~~---~t--~-------------p~~ 159 (423)
T smart00187 98 YPVDLYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFV---ST--R-------------PEK 159 (423)
T ss_pred CccceEEEEeCCccHHHHHHHHHHHHHHHHHHHHhcccCceeeEEEeecCccCCcc---cC--C-------------HHH
Confidence 44557899999999866 6677777777788888899999988765431 111 00 0 122
Q ss_pred HHHHhhcccCCCCCCCccccCccCCCCcccc-cceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHH
Q 004303 203 LLEQLNFFIKKPKPSTGVIAGVRDGLSSDTI-ARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASL 281 (762)
Q Consensus 203 l~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl-~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~l 281 (762)
+..+-. . .. ..+ -.|+ =+-..++.+.-....+.+.+..-. .+.-.|+..+-+-+++|+--
T Consensus 160 l~~PC~--~--~~------~~c-----~p~f~f~~~L~LT~~~~~F~~~V~~~~iS----gN~D~PEgG~DAimQaaVC~ 220 (423)
T smart00187 160 LENPCP--N--YN------LTC-----EPPYGFKHVLSLTDDTDEFNEEVKKQRIS----GNLDAPEGGFDAIMQAAVCT 220 (423)
T ss_pred hcCCCc--C--CC------CCc-----CCCcceeeeccCCCCHHHHHHHHhhceee----cCCcCCcccHHHHHHHHhhc
Confidence 222110 0 00 001 0122 122456666555666666654331 12234666677777777432
Q ss_pred hhccCCCCCcEEEEEecCCC--CCCCcccccCCCCCCccCCCCCCCCCCcccc---hhHHHHHHHHHHHHhcCcEEEEEE
Q 004303 282 LGACVPGSGARILAFVGGPS--TEGPAAIVSKNLSEPIRSHKDLDKDSAPHYH---KAVKFYDALSKQLVHQGHVLDLFA 356 (762)
Q Consensus 282 l~~~~~~~ggkIi~F~sg~p--t~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~---~a~~fY~~la~~~~~~~isvDlf~ 356 (762)
=+...+...-||++|++-.+ --|-|+|...-..+..+-|-+-+. .|.. -...--.+|++++.+++|-+ ||+
T Consensus 221 ~~IGWR~~a~rllv~~TDa~fH~AGDGkLaGIv~PNDg~CHL~~~g---~Yt~s~~~DYPSi~ql~~kL~e~nI~~-IFA 296 (423)
T smart00187 221 EQIGWREDARRLLVFSTDAGFHFAGDGKLAGIVQPNDGQCHLDNNG---EYTMSTTQDYPSIGQLNQKLAENNINP-IFA 296 (423)
T ss_pred cccccCCCceEEEEEEcCCCccccCCcceeeEecCCCCcceeCCCC---CcCccCcCCCCCHHHHHHHHHhcCceE-EEE
Confidence 11112334568999975544 479999876644444444433110 1111 11112457788888888764 888
Q ss_pred ecCCccChhchhhhhccccceEEEeCCCChhhhHHHHHHHhhccccCccceeeeEEEEEe-cCCceEEeEEcCccccCCC
Q 004303 357 CALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFKDSVRRVFHSGDYDLGLSSNGIFEINC-SKDIKVQGIIGPCASLEKK 435 (762)
Q Consensus 357 ~~~~~~~l~~~~~L~~~TGG~v~~~~~f~~~~~~~~l~~~l~~~~~~~~~~~~~~l~vr~-S~gl~v~~~~G~~~~~~~~ 435 (762)
....+.+++ ..|+.+-.|...=-=+ .+..++..++++. |.......+|+... +.+++++- ...|......
T Consensus 297 VT~~~~~~Y--~~Ls~lipgs~vg~Ls----~DSsNIv~LI~~a--Y~~i~S~V~l~~~~~p~~v~~~y-~s~C~~g~~~ 367 (423)
T smart00187 297 VTKKQVSLY--KELSALIPGSSVGVLS----EDSSNVVELIKDA--YNKISSRVELEDNSLPEGVSVTY-TSSCPGGVVG 367 (423)
T ss_pred EcccchhHH--HHHHHhcCcceeeecc----cCcchHHHHHHHH--HHhhceEEEEecCCCCCcEEEEE-EeeCCCCCcc
Confidence 887777765 3344443443331111 1123333444321 22234556666663 56776653 3333221000
Q ss_pred CCCcccccccCCCCCceeeecCCCCceEEEEEEEecC
Q 004303 436 GPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIVKK 472 (762)
Q Consensus 436 ~~~isd~~~g~~~~~~~~l~~~~~~~s~~~~~~~~~~ 472 (762)
...-...++.....+.|..++.-.
T Consensus 368 -------------~~~~~C~~v~iG~~V~F~v~vta~ 391 (423)
T smart00187 368 -------------PGTRKCEGVKIGDTVSFEVTVTAT 391 (423)
T ss_pred -------------cCCcccCCcccCCEEEEEEEEEeC
Confidence 111134566667777777777643
No 68
>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=79.44 E-value=1.3 Score=34.48 Aligned_cols=33 Identities=27% Similarity=0.507 Sum_probs=25.2
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
++-|++|+.--.-+-+-+...-+|+|+.|+..|
T Consensus 22 aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 22 ALICSKCFSHNGLAPKEEFEEIQYRCPYCGALN 54 (54)
T ss_pred eEECcccchhhcccccccCCceEEEcCCCCCcC
Confidence 566999998754443555556799999999887
No 69
>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=79.24 E-value=2 Score=29.27 Aligned_cols=30 Identities=27% Similarity=0.483 Sum_probs=23.3
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCCCCCC
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHF 92 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 92 (762)
+.|..|+..+-- -.+...++|.+|+..|.+
T Consensus 2 ~~C~~C~t~L~y----P~gA~~vrCs~C~~vt~v 31 (31)
T TIGR01053 2 VVCGGCRTLLMY----PRGASSVRCALCQTVNLV 31 (31)
T ss_pred cCcCCCCcEeec----CCCCCeEECCCCCeEecC
Confidence 579999987643 257789999999988753
No 70
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=79.06 E-value=50 Score=35.15 Aligned_cols=88 Identities=19% Similarity=0.143 Sum_probs=57.1
Q ss_pred cchhhHHHHHHHHHhhccCCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHHHHHHHh
Q 004303 268 TRCTGTALSIAASLLGACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDALSKQLVH 347 (762)
Q Consensus 268 ~~~~G~Al~~A~~ll~~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~la~~~~~ 347 (762)
...+-.||+.|...|+..-.+..-.|++..++..|.-||.+.. .-+.+..
T Consensus 142 ~fSLqNaLe~a~~~Lk~~p~H~sREVLii~sslsT~DPgdi~~------------------------------tI~~lk~ 191 (378)
T KOG2807|consen 142 DFSLQNALELAREVLKHMPGHVSREVLIIFSSLSTCDPGDIYE------------------------------TIDKLKA 191 (378)
T ss_pred ChHHHHHHHHHHHHhcCCCcccceEEEEEEeeecccCcccHHH------------------------------HHHHHHh
Confidence 4567789999999998421122235667777778877766532 2345666
Q ss_pred cCcEEEEEEecCCccChhchhhhhccccceEEEeCCCChhhhH
Q 004303 348 QGHVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSFGHAVFK 390 (762)
Q Consensus 348 ~~isvDlf~~~~~~~~l~~~~~L~~~TGG~v~~~~~f~~~~~~ 390 (762)
..|-|.++..+. .+.--+.||+.||| .|+=..++..++
T Consensus 192 ~kIRvsvIgLsa---Ev~icK~l~kaT~G--~Y~V~lDe~Hlk 229 (378)
T KOG2807|consen 192 YKIRVSVIGLSA---EVFICKELCKATGG--RYSVALDEGHLK 229 (378)
T ss_pred hCeEEEEEeech---hHHHHHHHHHhhCC--eEEEEeCHHHHH
Confidence 788888887765 45566899999999 333344444433
No 71
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=78.08 E-value=1.6 Score=32.64 Aligned_cols=30 Identities=23% Similarity=0.484 Sum_probs=21.3
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNH 91 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~ 91 (762)
..+|.+|++-+- ++.....++|+.||....
T Consensus 3 ~y~C~~CG~~~~----~~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVE----LDEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEE----ECCCCCceECCCCCCeEE
Confidence 368999999543 233333799999997654
No 72
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=76.44 E-value=30 Score=36.69 Aligned_cols=86 Identities=20% Similarity=0.100 Sum_probs=57.5
Q ss_pred CcchhhHHHHHHHHHhhcc------CCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHH
Q 004303 267 STRCTGTALSIAASLLGAC------VPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDA 340 (762)
Q Consensus 267 ~~~~~G~Al~~A~~ll~~~------~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~ 340 (762)
....+..||..|+-.+.-. ..+..+||+++..++ +. ..+..=+-+
T Consensus 117 ~~s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s~-----------~~------------------~~qYi~~mn 167 (279)
T TIGR00627 117 SRTVLAGALSDALGYINRSEQSETASEKLKSRILVISITP-----------DM------------------ALQYIPLMN 167 (279)
T ss_pred ccccchhHHHhhhhhhcccccccccCcCCcceEEEEECCC-----------Cc------------------hHHHHHHHH
Confidence 3556778888888877421 123468999998752 00 011112446
Q ss_pred HHHHHHhcCcEEEEEEecCCccChhchhhhhccccceEEEeC
Q 004303 341 LSKQLVHQGHVLDLFACALDQVGVAELKVAVEKTGGLVVLSD 382 (762)
Q Consensus 341 la~~~~~~~isvDlf~~~~~~~~l~~~~~L~~~TGG~v~~~~ 382 (762)
....|.+.+|.||++..+.+ -+..-++.+++.|||.-....
T Consensus 168 ~Ifaaqk~~I~Idv~~L~~e-~~~~~lqQa~~~TgG~Y~~~~ 208 (279)
T TIGR00627 168 CIFSAQKQNIPIDVVSIGGD-FTSGFLQQAADITGGSYLHVK 208 (279)
T ss_pred HHHHHHHcCceEEEEEeCCc-cccHHHHHHHHHhCCEEeccC
Confidence 77889999999999988653 357779999999999444443
No 73
>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=76.16 E-value=1.1e+02 Score=32.41 Aligned_cols=87 Identities=18% Similarity=0.102 Sum_probs=58.5
Q ss_pred chhhHHHHHHHHHhhccC-------CCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHHHHHH
Q 004303 269 RCTGTALSIAASLLGACV-------PGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKFYDAL 341 (762)
Q Consensus 269 ~~~G~Al~~A~~ll~~~~-------~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~fY~~l 341 (762)
..+..||..|+-.+.-.. ....+||+++.++-+.. ..+.-=+-+.
T Consensus 116 s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~d~----------------------------~~QYi~~MN~ 167 (276)
T PF03850_consen 116 SLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSPDS----------------------------SSQYIPLMNC 167 (276)
T ss_pred hhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCCCc----------------------------cHHHHHHHHH
Confidence 678888888887766321 13567999964431100 1111124455
Q ss_pred HHHHHhcCcEEEEEEecCCccChhchhhhhccccceEEEeCCCC
Q 004303 342 SKQLVHQGHVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSFG 385 (762)
Q Consensus 342 a~~~~~~~isvDlf~~~~~~~~l~~~~~L~~~TGG~v~~~~~f~ 385 (762)
.-.|.+.+|.||++..+. -+-.-+...+..|||.-...+...
T Consensus 168 iFaAqk~~v~IDv~~L~~--~~s~fLqQa~d~T~G~y~~~~~~~ 209 (276)
T PF03850_consen 168 IFAAQKQKVPIDVCKLGG--KDSTFLQQASDITGGIYLKVSKPE 209 (276)
T ss_pred HHHHhcCCceeEEEEecC--CchHHHHHHHHHhCceeeccCccc
Confidence 677888999999999876 355668999999999888877643
No 74
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=73.70 E-value=7.7 Score=35.88 Aligned_cols=42 Identities=21% Similarity=0.202 Sum_probs=33.0
Q ss_pred EEEEECCCChh--HHHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEE
Q 004303 133 MFVVDTCIIEE--EMSFLKSALSQAIDLLPDNSLVGLITFGTLVQV 176 (762)
Q Consensus 133 vFvID~s~~~~--~l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~ 176 (762)
+++||+|.+.. ++..+...+...++.. +.+|-+|.||..|+-
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 68999999864 3777777778777777 556889999988864
No 75
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=68.59 E-value=89 Score=32.56 Aligned_cols=45 Identities=20% Similarity=0.118 Sum_probs=35.7
Q ss_pred HHHHHHHHHhcCcEEEEEEecCCccChhchhhhhccccceEEEeCCCC
Q 004303 338 YDALSKQLVHQGHVLDLFACALDQVGVAELKVAVEKTGGLVVLSDSFG 385 (762)
Q Consensus 338 Y~~la~~~~~~~isvDlf~~~~~~~~l~~~~~L~~~TGG~v~~~~~f~ 385 (762)
|-+.--.|.+++|.||++....+ -..+.+.|..|||.-...+.-.
T Consensus 185 ~MNciFaAqKq~I~Idv~~l~~~---s~~LqQa~D~TGG~YL~v~~~~ 229 (314)
T KOG2487|consen 185 YMNCIFAAQKQNIPIDVVSLGGD---SGFLQQACDITGGDYLHVEKPD 229 (314)
T ss_pred HHHHHHHHHhcCceeEEEEecCC---chHHHHHHhhcCCeeEecCCcc
Confidence 55566678889999999998766 3358899999999988877544
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=66.28 E-value=2.3e+02 Score=32.03 Aligned_cols=282 Identities=11% Similarity=0.085 Sum_probs=134.3
Q ss_pred CCcEEEEEEECCCChhH----HHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEEEEcCCCCCCCCeeEEecCCccCChHHH
Q 004303 128 VPPVFMFVVDTCIIEEE----MSFLKSALSQAIDLLPDNSLVGLITFGTLVQVHELGGFGQIIPKTYVFKGSKDVSKDQL 203 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~~----l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~y~l~~~~~~~~~~~V~~g~~~~~~~~l 203 (762)
.|-=..|++|+|.+..+ ++.+-..|...|..+..+.|+||=+|=+..- .-.. .. . ...+
T Consensus 101 yPvDLYyLmDlS~Sm~ddl~~l~~lg~~l~~~~~~it~~~~~GfGsfvdK~~-~P~~-~~--~-------------p~~l 163 (426)
T PF00362_consen 101 YPVDLYYLMDLSYSMKDDLENLKSLGQDLAEEMRNITSNFRLGFGSFVDKPV-MPFV-ST--T-------------PEKL 163 (426)
T ss_dssp --EEEEEEEE-SGGGHHHHHHHCCCCHHHHHHHHTT-SSEEEEEEEESSSSS-TTTS-T---S-------------SHCH
T ss_pred cceeEEEEeechhhhhhhHHHHHHHHHHHHHHHHhcCccceEechhhccccc-CCcc-cC--C-------------hhhh
Confidence 44557899999998765 5666778888889999999999998865431 1111 10 0 1233
Q ss_pred HHHhhcccCCCCCCCccccCccCCCCcccc-cceEEechhcHHHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHh
Q 004303 204 LEQLNFFIKKPKPSTGVIAGVRDGLSSDTI-ARFLVPAFDCEFTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLL 282 (762)
Q Consensus 204 ~~~~~~~~~~~~p~~~~~~~~~~~~~~~pl-~~~l~~~~~~~~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll 282 (762)
..+..-. . +.+ ..|. =+-..++.+........+.+..- .+ +--.|+..+=+-+++|+--=
T Consensus 164 ~~pc~~~----~------~~c-----~~~~~f~~~l~Lt~~~~~F~~~v~~~~i-s~---n~D~PEgg~dal~Qa~vC~~ 224 (426)
T PF00362_consen 164 KNPCPSK----N------PNC-----QPPFSFRHVLSLTDDITEFNEEVNKQKI-SG---NLDAPEGGLDALMQAAVCQE 224 (426)
T ss_dssp HSTSCCT----T------S-------B---SEEEEEEEES-HHHHHHHHHTS---B-----SSSSBSHHHHHHHHHH-HH
T ss_pred cCccccc----C------CCC-----CCCeeeEEeecccchHHHHHHhhhhccc-cC---CCCCCccccchheeeeeccc
Confidence 3322000 0 001 0122 12345666666666666665332 11 22346677777777775422
Q ss_pred hccCCCCCcEEEEEecCCC--CCCCcccccCCCCCCccCCCCCCCCCCccc---chhHHHHHHHHHHHHhcCcEEEEEEe
Q 004303 283 GACVPGSGARILAFVGGPS--TEGPAAIVSKNLSEPIRSHKDLDKDSAPHY---HKAVKFYDALSKQLVHQGHVLDLFAC 357 (762)
Q Consensus 283 ~~~~~~~ggkIi~F~sg~p--t~GpG~l~~~~~~~~~rs~~d~~~~~~~~~---~~a~~fY~~la~~~~~~~isvDlf~~ 357 (762)
....++..-||++|++-.+ ..|-|++...-..+..+-|-+-. ..|. .....-..+|.+.+.+++|.+ ||+.
T Consensus 225 ~igWr~~a~~llv~~TD~~fH~agDg~l~gi~~pnd~~Chl~~~---~~y~~~~~~DYPSv~ql~~~l~e~~i~~-IFAV 300 (426)
T PF00362_consen 225 EIGWRNEARRLLVFSTDAGFHFAGDGKLAGIVKPNDGKCHLDDN---GMYTASTEQDYPSVGQLVRKLSENNINP-IFAV 300 (426)
T ss_dssp HHT--STSEEEEEEEESS-B--TTGGGGGT--S---SS--BSTT---SBBGGGGCS----HHHHHHHHHHTTEEE-EEEE
T ss_pred ccCcccCceEEEEEEcCCccccccccccceeeecCCCceEECCC---CcccccccccCCCHHHHHHHHHHcCCEE-EEEE
Confidence 2222345679999975444 58999988775555555554321 1221 123345667888888877764 7777
Q ss_pred cCCccChhchhhhhcc-ccceEEEeCCCChhhhHHHHHHHhhccccCccceeeeEEEEEe-cCCceEEeEEcCccccCCC
Q 004303 358 ALDQVGVAELKVAVEK-TGGLVVLSDSFGHAVFKDSVRRVFHSGDYDLGLSSNGIFEINC-SKDIKVQGIIGPCASLEKK 435 (762)
Q Consensus 358 ~~~~~~l~~~~~L~~~-TGG~v~~~~~f~~~~~~~~l~~~l~~~~~~~~~~~~~~l~vr~-S~gl~v~~~~G~~~~~~~~ 435 (762)
.....+++ ..|+.. .|+.+-.... +.+ ++..++++. |......+.|+... ++++++ .+..+|.....
T Consensus 301 t~~~~~~Y--~~L~~~i~~s~vg~L~~-dSs----NIv~LI~~a--Y~~i~s~V~L~~~~~p~~v~v-~y~s~C~~~~~- 369 (426)
T PF00362_consen 301 TKDVYSIY--EELSNLIPGSSVGELSS-DSS----NIVQLIKEA--YNKISSKVELKHDNAPDGVKV-SYTSNCPNGST- 369 (426)
T ss_dssp EGGGHHHH--HHHHHHSTTEEEEEEST-TSH----THHHHHHHH--HHHHCTEEEEEECS--TTEEE-EEEEEESSSEE-
T ss_pred chhhhhHH--HHHhhcCCCceeccccc-Cch----hHHHHHHHH--HHHHhheEEEEecCCCCcEEE-EEEEEccCCcc-
Confidence 77666654 333333 3444444433 222 222233211 11223445555333 345666 44444432100
Q ss_pred CCCcccccccCCCCCceeeecCCCCceEEEEEEEecC
Q 004303 436 GPLCSDAVVGQGNTSAWKMCGLDKATSLCLVFEIVKK 472 (762)
Q Consensus 436 ~~~isd~~~g~~~~~~~~l~~~~~~~s~~~~~~~~~~ 472 (762)
....-...++....++.|.+.+.-.
T Consensus 370 ------------~~~~~~C~~V~iG~~V~F~VtVta~ 394 (426)
T PF00362_consen 370 ------------VPGTNECSNVKIGDTVTFNVTVTAK 394 (426)
T ss_dssp ------------EECCEEECSE-TT-EEEEEEEEEES
T ss_pred ------------cCcCccccCEecCCEEEEEEEEEEe
Confidence 0111344556666777777766654
No 77
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=64.24 E-value=4.8 Score=30.67 Aligned_cols=32 Identities=19% Similarity=0.428 Sum_probs=22.3
Q ss_pred ccCCCCceecCcceEEcCCceEEecCCCCCCCCC
Q 004303 60 RCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFP 93 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p 93 (762)
.|..|+..+-+- -..++..|+|+-|+..-.+.
T Consensus 2 FCp~Cg~~l~~~--~~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPK--EGKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCccccc--cCCCCCEEECCcCCCeEECC
Confidence 599999977332 22223589999999876654
No 78
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=63.88 E-value=55 Score=41.23 Aligned_cols=65 Identities=18% Similarity=0.310 Sum_probs=50.6
Q ss_pred CccEEEecCCCC----CCCCCCcEEEEEEECCCChhH--HHHHHHHHHHHhhcCCCCcEEEEEEeCCeEEE
Q 004303 112 YTTIEYEPPGPG----EKSSVPPVFMFVVDTCIIEEE--MSFLKSALSQAIDLLPDNSLVGLITFGTLVQV 176 (762)
Q Consensus 112 ~~tvey~~~~~~----p~~~~~p~~vFvID~s~~~~~--l~~~~~~l~~~l~~lp~~~~VglITfd~~V~~ 176 (762)
..++++.-.+.. ..+..|--.+|++|+|++... +..++..+.++|+.|.++..|-++||++.++.
T Consensus 204 ~~~idl~D~R~r~Wyi~aAt~pKdiviLlD~SgSm~g~~~~lak~tv~~iLdtLs~~Dfvni~tf~~~~~~ 274 (1104)
T KOG2353|consen 204 DNSIDLYDCRNRSWYIQAATSPKDIVILLDVSGSMSGLRLDLAKQTVNEILDTLSDNDFVNILTFNSEVNP 274 (1104)
T ss_pred CCcceeeecccccccccccCCccceEEEEeccccccchhhHHHHHHHHHHHHhcccCCeEEEEeeccccCc
Confidence 556666655421 111266779999999998654 89999999999999999999999999998865
No 79
>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=60.12 E-value=11 Score=27.74 Aligned_cols=27 Identities=26% Similarity=0.502 Sum_probs=21.4
Q ss_pred ccCCCCceecCcceEEcCCceEEecCCCCC
Q 004303 60 RCRTCRSILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
+|.+|++-- ..+|...+.++|.-||..
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 699999933 577888889999999976
No 80
>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=58.98 E-value=6.2 Score=27.24 Aligned_cols=24 Identities=29% Similarity=0.789 Sum_probs=16.2
Q ss_pred ccCCCCceecCcceEEcCCceEEecCCCCC
Q 004303 60 RCRTCRSILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
+|..|+=...+-. .-|+|+.|+..
T Consensus 3 ~C~~CGy~y~~~~------~~~~CP~Cg~~ 26 (33)
T cd00350 3 VCPVCGYIYDGEE------APWVCPVCGAP 26 (33)
T ss_pred ECCCCCCEECCCc------CCCcCcCCCCc
Confidence 5788875545432 56889999864
No 81
>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=58.14 E-value=4.7 Score=29.51 Aligned_cols=30 Identities=20% Similarity=0.437 Sum_probs=25.3
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCCC
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
.||..|+....-...+.+ .....|+-||..
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~ 35 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSISE-DDPVPCPECGST 35 (42)
T ss_pred EEeCCCCCEEEEEEEcCC-CCCCcCCCCCCC
Confidence 579999988888877777 678999999983
No 82
>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=57.00 E-value=5.4 Score=30.48 Aligned_cols=30 Identities=30% Similarity=0.785 Sum_probs=20.1
Q ss_pred ccCCCCceecCc-----------ceEEcCCceEEecCCCCC
Q 004303 60 RCRTCRSILNPF-----------SIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 60 RC~~C~ayiNp~-----------~~~~~~~~~w~C~~C~~~ 89 (762)
+|..|+=..+|- ..|++-...|+|+.|+..
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 688888666754 334444557999999854
No 83
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=56.20 E-value=10 Score=43.94 Aligned_cols=51 Identities=18% Similarity=0.316 Sum_probs=36.9
Q ss_pred HHhhcccceecccC----CCCcc-----ccccccccccCeEEEEeCCcEEEEEEcCchhH
Q 004303 625 VVMIQPSLISYSFH----SGPEP-----ALLDVAAIAADRILLLDSYFTVVIFHGATIAQ 675 (762)
Q Consensus 625 ~~~iyP~L~~~~~~----~~p~~-----~~Ls~~~l~~~~iyLlD~g~~i~i~~G~~v~~ 675 (762)
..-.+|+||.+... .+|+- ..|-..-|.+.++|+||+...|+||+|+....
T Consensus 729 f~p~qpkLYkV~lGmGyLELPQvel~P~~~l~q~lL~sk~VyiLDc~sDiF~W~GkKs~R 788 (1255)
T KOG0444|consen 729 FVPEQPKLYKVNLGMGYLELPQVELLPKGILKQDLLGSKGVYILDCNSDIFLWIGKKSNR 788 (1255)
T ss_pred cCCCCcceEEEccccceeecchhhhchhhHHHHHhhcCCeEEEEecCCceEEEecccchH
Confidence 34568999998752 23432 12334456899999999999999999998654
No 84
>PRK03954 ribonuclease P protein component 4; Validated
Probab=55.92 E-value=7.1 Score=35.73 Aligned_cols=35 Identities=23% Similarity=0.425 Sum_probs=25.2
Q ss_pred cccCCCCceecCc----ceEEcCC---ceEEecCCCCCCCCC
Q 004303 59 LRCRTCRSILNPF----SIVDFAA---KIWICPFCFQRNHFP 93 (762)
Q Consensus 59 ~RC~~C~ayiNp~----~~~~~~~---~~w~C~~C~~~N~~p 93 (762)
.-|++|.+++=|- +.+..++ -.++|..||+..-+|
T Consensus 65 ~~CK~C~t~LiPG~n~~vRi~~~~~~~vvitCl~CG~~kR~P 106 (121)
T PRK03954 65 RYCKRCHSFLVPGVNARVRLRQKRMPHVVITCLECGHIMRYP 106 (121)
T ss_pred HHhhcCCCeeecCCceEEEEecCCcceEEEECccCCCEEeec
Confidence 4599999998663 3344332 345999999998887
No 85
>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=55.47 E-value=18 Score=36.83 Aligned_cols=43 Identities=21% Similarity=0.266 Sum_probs=25.5
Q ss_pred EEEEEEECCCChhH--------HHHHHHHHHHHhhcC---CCCcEEEEEEeCCe
Q 004303 131 VFMFVVDTCIIEEE--------MSFLKSALSQAIDLL---PDNSLVGLITFGTL 173 (762)
Q Consensus 131 ~~vFvID~s~~~~~--------l~~~~~~l~~~l~~l---p~~~~VglITfd~~ 173 (762)
+.+|+||++.+..+ |+.+.+++...+... .+...||+|.|++.
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 46899999998653 555555555555431 23478999988753
No 86
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=54.51 E-value=7.2 Score=35.37 Aligned_cols=27 Identities=19% Similarity=0.519 Sum_probs=19.9
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
-.||..|+....+ ....|.|+-||..+
T Consensus 70 ~~~C~~Cg~~~~~------~~~~~~CP~Cgs~~ 96 (113)
T PRK12380 70 QAWCWDCSQVVEI------HQHDAQCPHCHGER 96 (113)
T ss_pred EEEcccCCCEEec------CCcCccCcCCCCCC
Confidence 4899999954333 23568899999875
No 87
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=53.94 E-value=41 Score=40.54 Aligned_cols=105 Identities=19% Similarity=0.248 Sum_probs=64.2
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCCCCCcCCCCCCCCCCCccccCCCccEEEecCC----------CCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFPPHYASITDDNLPAELFPQYTTIEYEPPG----------PGEKSS 127 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~~y~~~~~~~~~pEL~~~~~tvey~~~~----------~~p~~~ 127 (762)
+.+|.+|.+++ .+-...+.-+|..||+.-.+|.. | |+.- +..+-|.-+- --|
T Consensus 444 v~~Cp~Cd~~l----t~H~~~~~L~CH~Cg~~~~~p~~-C--------p~Cg--s~~L~~~G~GterieeeL~~~FP--- 505 (730)
T COG1198 444 IAECPNCDSPL----TLHKATGQLRCHYCGYQEPIPQS-C--------PECG--SEHLRAVGPGTERIEEELKRLFP--- 505 (730)
T ss_pred cccCCCCCcce----EEecCCCeeEeCCCCCCCCCCCC-C--------CCCC--CCeeEEecccHHHHHHHHHHHCC---
Confidence 55666666653 34456688999999999777632 1 1221 2223333221 126
Q ss_pred CCcEEEEEEECCCChhHHHHHHHHHHHH----------h---hcCCCCcEEEEEEeCCeEEEEEcC
Q 004303 128 VPPVFMFVVDTCIIEEEMSFLKSALSQA----------I---DLLPDNSLVGLITFGTLVQVHELG 180 (762)
Q Consensus 128 ~~p~~vFvID~s~~~~~l~~~~~~l~~~----------l---~~lp~~~~VglITfd~~V~~y~l~ 180 (762)
..+++.|--|++.....++.+.+.+..- | ...|.=++||++-=|..++.-|+.
T Consensus 506 ~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfR 571 (730)
T COG1198 506 GARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFR 571 (730)
T ss_pred CCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhhcCCCcccceEEEEEechhhhcCCCcc
Confidence 7788888888888776665555444321 0 123555899999888877776665
No 88
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=53.17 E-value=9.1 Score=27.19 Aligned_cols=32 Identities=16% Similarity=0.361 Sum_probs=23.3
Q ss_pred cccCCCCceecCc-ceEEcCCceEEecCCCCCC
Q 004303 59 LRCRTCRSILNPF-SIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 59 ~RC~~C~ayiNp~-~~~~~~~~~w~C~~C~~~N 90 (762)
++|.+|++-.+-= .++..++++.+|+-|++.-
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 6788898876543 3455668888999998753
No 89
>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=52.50 E-value=8.3 Score=35.10 Aligned_cols=27 Identities=22% Similarity=0.682 Sum_probs=20.5
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
-.||.+|+....+ ....|.||-||..+
T Consensus 70 ~~~C~~Cg~~~~~------~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 70 ECECEDCSEEVSP------EIDLYRCPKCHGIM 96 (115)
T ss_pred EEEcccCCCEEec------CCcCccCcCCcCCC
Confidence 4899999965544 23468999999876
No 90
>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=51.09 E-value=7.5 Score=29.68 Aligned_cols=31 Identities=19% Similarity=0.460 Sum_probs=22.4
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
.||.+|+....-+..+.+ .....|+-||..+
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~ 36 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMSD-DPLATCPECGGEK 36 (52)
T ss_pred EEeCCCCCEeEEEEecCC-CCCCCCCCCCCCc
Confidence 479999996665554444 4568899999854
No 91
>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=50.69 E-value=5.9 Score=30.13 Aligned_cols=34 Identities=29% Similarity=0.511 Sum_probs=24.0
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFP 93 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p 93 (762)
-+||.+|+-.+--.-.+. .-.-+|+=|++.|.+-
T Consensus 4 eiRC~~CnklLa~~g~~~--~leIKCpRC~tiN~~~ 37 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVI--ELEIKCPRCKTINHVR 37 (51)
T ss_pred ceeccchhHHHhhhcCcc--EEEEECCCCCccceEe
Confidence 389999987765422222 1348999999999873
No 92
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=49.44 E-value=6.2 Score=27.54 Aligned_cols=30 Identities=20% Similarity=0.270 Sum_probs=15.8
Q ss_pred ccCCCCceecCcceEEcCCceEEecCCCCC
Q 004303 60 RCRTCRSILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
.|..|++-+..-.--.++..+|+|+-|+..
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 488888876554443356788999999864
No 93
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=49.43 E-value=8.6 Score=24.26 Aligned_cols=21 Identities=24% Similarity=0.605 Sum_probs=12.5
Q ss_pred ccCCCCceecCcceEEcCCceEEecCCCC
Q 004303 60 RCRTCRSILNPFSIVDFAAKIWICPFCFQ 88 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~ 88 (762)
+|.+|++-+.+-.+| |+-||+
T Consensus 1 ~Cp~CG~~~~~~~~f--------C~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKF--------CPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcc--------hhhhCC
Confidence 477777766543322 777765
No 94
>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=48.57 E-value=6.2 Score=29.75 Aligned_cols=30 Identities=23% Similarity=0.700 Sum_probs=16.2
Q ss_pred ccCCCCceecCcc-----------eEEcCCceEEecCCCCC
Q 004303 60 RCRTCRSILNPFS-----------IVDFAAKIWICPFCFQR 89 (762)
Q Consensus 60 RC~~C~ayiNp~~-----------~~~~~~~~w~C~~C~~~ 89 (762)
+|..|+-..+|-- .|++-...|+|+.|+..
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 5777776655543 23333456888888864
No 95
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=47.77 E-value=11 Score=34.28 Aligned_cols=28 Identities=21% Similarity=0.618 Sum_probs=19.2
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
-.||.+|+.+...- ....|.||-||..+
T Consensus 70 ~~~C~~Cg~~~~~~-----~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 70 ECWCETCQQYVTLL-----TQRVRRCPQCHGDM 97 (114)
T ss_pred EEEcccCCCeeecC-----CccCCcCcCcCCCC
Confidence 48999999743321 11238899999876
No 96
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=45.73 E-value=15 Score=34.20 Aligned_cols=34 Identities=29% Similarity=0.539 Sum_probs=24.0
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCCCCCCCc
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFPP 94 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~ 94 (762)
++|.-|+..- -...+.....|.|+-|+..|.+..
T Consensus 1 v~C~fC~~~s--~~~~~~~~~~w~C~~C~q~N~f~e 34 (131)
T PF09779_consen 1 VNCWFCGQNS--KVPYDNRNSNWTCPHCEQYNGFDE 34 (131)
T ss_pred CeeccCCCCC--CCCCCCCCCeeECCCCCCccCccc
Confidence 4688888752 333344445699999999998864
No 97
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=45.57 E-value=11 Score=28.60 Aligned_cols=28 Identities=25% Similarity=0.610 Sum_probs=19.9
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
-+|.+|++-+ ..+.....-.|+-||+.-
T Consensus 7 Y~C~~Cg~~~----~~~~~~~~irCp~Cg~rI 34 (49)
T COG1996 7 YKCARCGREV----ELDQETRGIRCPYCGSRI 34 (49)
T ss_pred EEhhhcCCee----ehhhccCceeCCCCCcEE
Confidence 4688888877 444456678888888764
No 98
>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=45.56 E-value=2.8e+02 Score=27.68 Aligned_cols=98 Identities=12% Similarity=-0.009 Sum_probs=60.8
Q ss_pred HHHHHHHHHccCCCCCCCCCCCCcchhhHHHHHHHHHhh-ccCCCCCcEEEEEecCCCCCCCcccccCCCCCCccCCCCC
Q 004303 245 FTLNSVLEELQKDPWPVPPDQRSTRCTGTALSIAASLLG-ACVPGSGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDL 323 (762)
Q Consensus 245 ~~i~~ll~~L~~~~~~~~~~~~~~~~~G~Al~~A~~ll~-~~~~~~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~ 323 (762)
..+..+|+.++- .+ . + ..++ .||..|+.-|+ . .+...--||+++.|--|.|- +
T Consensus 75 ~~l~~~l~~~q~-g~--a-g--~~Ta--dAi~~av~rl~~~-~~a~~kvvILLTDG~n~~~~--i--------------- 128 (191)
T cd01455 75 ETLKMMHAHSQF-CW--S-G--DHTV--EATEFAIKELAAK-EDFDEAIVIVLSDANLERYG--I--------------- 128 (191)
T ss_pred HHHHHHHHhccc-Cc--c-C--ccHH--HHHHHHHHHHHhc-CcCCCcEEEEEeCCCcCCCC--C---------------
Confidence 477788887764 21 1 1 2333 99999998885 3 12223355566666433220 1
Q ss_pred CCCCCcccchhHHHHHHH-HHHHHhcCcEEEEEEecCCccChhchhhhhccccceEEEeCC
Q 004303 324 DKDSAPHYHKAVKFYDAL-SKQLVHQGHVLDLFACALDQVGVAELKVAVEKTGGLVVLSDS 383 (762)
Q Consensus 324 ~~~~~~~~~~a~~fY~~l-a~~~~~~~isvDlf~~~~~~~~l~~~~~L~~~TGG~v~~~~~ 383 (762)
.| .+. |+.+.+.||-|..+..+.. |-..+..+++.|||+-|...+
T Consensus 129 --------~P-----~~aAa~lA~~~gV~iytIgiG~~--d~~~l~~iA~~tgG~~F~A~d 174 (191)
T cd01455 129 --------QP-----KKLADALAREPNVNAFVIFIGSL--SDEADQLQRELPAGKAFVCMD 174 (191)
T ss_pred --------Ch-----HHHHHHHHHhCCCEEEEEEecCC--CHHHHHHHHhCCCCcEEEeCC
Confidence 11 133 4556678888777766543 667799999999999998765
No 99
>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=44.23 E-value=11 Score=27.05 Aligned_cols=29 Identities=21% Similarity=0.516 Sum_probs=21.7
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCC
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQ 88 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~ 88 (762)
.||..|+........... +....|+-||.
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKISD-DPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecCC-CCCCCCCCCCC
Confidence 479999997766655544 56788999997
No 100
>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=43.18 E-value=13 Score=41.23 Aligned_cols=27 Identities=22% Similarity=0.372 Sum_probs=21.4
Q ss_pred ccCCCCceecCcceEEcCCceEEecCCCCCCCCCc
Q 004303 60 RCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFPP 94 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~ 94 (762)
+|++|+. ......|+|+-|+..|.+..
T Consensus 2 ~c~~cg~--------~~~~~~g~cp~c~~w~~~~e 28 (372)
T cd01121 2 VCSECGY--------VSPKWLGKCPECGEWNTLVE 28 (372)
T ss_pred CCCCCCC--------CCCCccEECcCCCCceeeee
Confidence 6999986 33456799999999999853
No 101
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=43.15 E-value=26 Score=24.24 Aligned_cols=29 Identities=24% Similarity=0.428 Sum_probs=20.5
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
+.+|..|++-. -+.......+|.+|+...
T Consensus 3 ~~~C~~C~~~~----i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 3 LKKCSKCGGNG----IVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred ceEcCCCCCCe----EEEecCCeEEcccCCcEe
Confidence 56899999854 232345679999999764
No 102
>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=43.07 E-value=11 Score=34.55 Aligned_cols=32 Identities=22% Similarity=0.498 Sum_probs=26.1
Q ss_pred CcccCCCCceecCcceEEc-CCceEEecCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDF-AAKIWICPFCFQR 89 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~-~~~~w~C~~C~~~ 89 (762)
...|..|+-.+..-|.+.. +...|.|++|...
T Consensus 71 ~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 71 GRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CEEETTTTEEEETTSEEETSSSCCEEEHHHHHH
T ss_pred CCcCCcCCccccCccCCcCCCCCCEEChhhHHH
Confidence 4778888888888888874 5789999999754
No 103
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.17 E-value=13 Score=34.14 Aligned_cols=32 Identities=16% Similarity=0.537 Sum_probs=22.9
Q ss_pred CCcccCCCCceecCcceEEcCCceEEecCCCCCCCC
Q 004303 57 APLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHF 92 (762)
Q Consensus 57 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 92 (762)
..-.|.+|++-+.-- .+.-+|.||+|...-++
T Consensus 88 q~r~CARCGGrv~lr----sNKv~wvcnlc~k~q~i 119 (169)
T KOG3799|consen 88 QTRFCARCGGRVSLR----SNKVMWVCNLCRKQQEI 119 (169)
T ss_pred hhhHHHhcCCeeeec----cCceEEeccCCcHHHHH
Confidence 456688999976543 34568999999876553
No 104
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=41.48 E-value=18 Score=25.56 Aligned_cols=31 Identities=13% Similarity=0.281 Sum_probs=20.3
Q ss_pred cccCCCCceecCc-ceEEcCCceEEecCCCCC
Q 004303 59 LRCRTCRSILNPF-SIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 59 ~RC~~C~ayiNp~-~~~~~~~~~w~C~~C~~~ 89 (762)
++|.+|++-.+-= -++-..|.+.+|.-|++.
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 5788888765433 224446778888888764
No 105
>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=41.01 E-value=18 Score=29.29 Aligned_cols=27 Identities=19% Similarity=0.503 Sum_probs=22.0
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCCC
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
-.|..|+...-. ...++.|.|+-||..
T Consensus 29 q~C~~CG~~~~~----~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 29 QTCPRCGHRNKK----RRSGRVFTCPNCGFE 55 (69)
T ss_pred cCccCccccccc----ccccceEEcCCCCCE
Confidence 559999987766 456789999999986
No 106
>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=40.98 E-value=12 Score=30.34 Aligned_cols=30 Identities=27% Similarity=0.461 Sum_probs=20.7
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFP 93 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p 93 (762)
+.|| .|+.|+ -.+++.+.-+| .||....+-
T Consensus 3 ifrC-~Cgr~l----ya~e~~kTkkC-~CG~~l~vk 32 (68)
T PF09082_consen 3 IFRC-DCGRYL----YAKEGAKTKKC-VCGKTLKVK 32 (68)
T ss_dssp EEEE-TTS--E----EEETT-SEEEE-TTTEEEE--
T ss_pred EEEe-cCCCEE----EecCCcceeEe-cCCCeeeee
Confidence 6899 799975 35677889999 999987764
No 107
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=38.81 E-value=13 Score=34.00 Aligned_cols=29 Identities=24% Similarity=0.676 Sum_probs=18.9
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNH 91 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~ 91 (762)
..||..|+.+..+- . ...++|+-||..+.
T Consensus 71 ~~~C~~Cg~~~~~~----~-~~~~~CP~Cgs~~~ 99 (117)
T PRK00564 71 ELECKDCSHVFKPN----A-LDYGVCEKCHSKNV 99 (117)
T ss_pred EEEhhhCCCccccC----C-ccCCcCcCCCCCce
Confidence 58999999543321 1 12345999998863
No 108
>smart00401 ZnF_GATA zinc finger binding to DNA consensus sequence [AT]GATA[AG].
Probab=38.50 E-value=20 Score=27.57 Aligned_cols=32 Identities=16% Similarity=0.271 Sum_probs=27.1
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
+.+|.+|++--.|..+-...|..-.||-|+..
T Consensus 3 ~~~C~~C~~~~T~~WR~g~~g~~~LCnaCgl~ 34 (52)
T smart00401 3 GRSCSNCGTTETPLWRRGPSGNKTLCNACGLY 34 (52)
T ss_pred CCCcCCCCCCCCCccccCCCCCCcEeecccHH
Confidence 57899999998988877777778999999954
No 109
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=38.23 E-value=26 Score=26.00 Aligned_cols=26 Identities=19% Similarity=0.259 Sum_probs=17.5
Q ss_pred ccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 60 RCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
+|.+|++-+..- .+..-+|+-||+.-
T Consensus 4 ~C~~Cg~~~~~~-----~~~~irC~~CG~rI 29 (44)
T smart00659 4 ICGECGRENEIK-----SKDVVRCRECGYRI 29 (44)
T ss_pred ECCCCCCEeecC-----CCCceECCCCCceE
Confidence 588888865532 34568888888753
No 110
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=38.03 E-value=19 Score=27.46 Aligned_cols=25 Identities=24% Similarity=0.542 Sum_probs=18.5
Q ss_pred cccCCCCc-eecCcceEEcCCceEEecCCCCC
Q 004303 59 LRCRTCRS-ILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 59 ~RC~~C~a-yiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
..|.+|++ ++-+. ..+|.|.=|+..
T Consensus 21 ~fCP~Cg~~~m~~~------~~r~~C~~Cgyt 46 (50)
T PRK00432 21 KFCPRCGSGFMAEH------LDRWHCGKCGYT 46 (50)
T ss_pred CcCcCCCcchhecc------CCcEECCCcCCE
Confidence 46999998 55443 268999999864
No 111
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=37.86 E-value=19 Score=35.30 Aligned_cols=25 Identities=32% Similarity=0.719 Sum_probs=20.8
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCCC
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
.||++|++-+=+ .+++.+|+-||..
T Consensus 150 A~CsrC~~~L~~------~~~~l~Cp~Cg~t 174 (188)
T COG1096 150 ARCSRCRAPLVK------KGNMLKCPNCGNT 174 (188)
T ss_pred EEccCCCcceEE------cCcEEECCCCCCE
Confidence 799999996643 4789999999975
No 112
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=37.57 E-value=19 Score=28.93 Aligned_cols=24 Identities=21% Similarity=0.570 Sum_probs=17.7
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCCCCCC
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHF 92 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 92 (762)
.-|++|+...+ + . +|+.||..+.-
T Consensus 6 ~AC~~C~~i~~-------~-~--~Cp~Cgs~~~S 29 (64)
T PRK06393 6 RACKKCKRLTP-------E-K--TCPVHGDEKTT 29 (64)
T ss_pred hhHhhCCcccC-------C-C--cCCCCCCCcCC
Confidence 34999998773 1 2 89999998543
No 113
>PRK10997 yieM hypothetical protein; Provisional
Probab=37.25 E-value=46 Score=38.12 Aligned_cols=50 Identities=26% Similarity=0.167 Sum_probs=33.4
Q ss_pred EEEEEEECCCChh-HHHHHHHHHHHHhh--cCCCCcEEEEEEeCCeEEEEEcC
Q 004303 131 VFMFVVDTCIIEE-EMSFLKSALSQAID--LLPDNSLVGLITFGTLVQVHELG 180 (762)
Q Consensus 131 ~~vFvID~s~~~~-~l~~~~~~l~~~l~--~lp~~~~VglITfd~~V~~y~l~ 180 (762)
-+++|||+|.+.. .-+....++..+|- .+.++-++++|.|++.+.-|.+.
T Consensus 325 piII~VDtSGSM~G~ke~~AkalAaAL~~iAl~q~dr~~li~Fs~~i~~~~l~ 377 (487)
T PRK10997 325 PFIVCVDTSGSMGGFNEQCAKAFCLALMRIALAENRRCYIMLFSTEVVTYELT 377 (487)
T ss_pred cEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEEecCCceeeccC
Confidence 4789999999875 11222224333333 35677899999999988777655
No 114
>PF06943 zf-LSD1: LSD1 zinc finger; InterPro: IPR005735 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 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 []. This domain may play a role in the regulation of transcription, via either repression of a prodeath pathway or activation of an antideath pathway, in response to signals emanating from cells undergoing pathogen-induced hypersensitive cell death. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=37.18 E-value=35 Score=22.08 Aligned_cols=24 Identities=29% Similarity=0.592 Sum_probs=14.1
Q ss_pred cCCCCceecCcceEEcCCceEEecCCCC
Q 004303 61 CRTCRSILNPFSIVDFAAKIWICPFCFQ 88 (762)
Q Consensus 61 C~~C~ayiNp~~~~~~~~~~w~C~~C~~ 88 (762)
|.+|+..+.- -.+...++|..|++
T Consensus 1 C~~Cr~~L~y----p~GA~sVrCa~C~~ 24 (25)
T PF06943_consen 1 CGGCRTLLMY----PRGAPSVRCACCHT 24 (25)
T ss_pred CCCCCceEEc----CCCCCCeECCccCc
Confidence 5666665431 23556677777764
No 115
>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=36.93 E-value=40 Score=25.07 Aligned_cols=27 Identities=19% Similarity=0.540 Sum_probs=19.1
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCC
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQ 88 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~ 88 (762)
+.|.+|++- ..| .+. +.+.|.|.-|++
T Consensus 19 ~~CP~Cg~~-~~~-~~~-~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST-KHY-RLK-TRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCe-eeE-EeC-CCCeEECCCCCC
Confidence 569999987 332 222 258899999985
No 116
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=36.51 E-value=34 Score=24.19 Aligned_cols=27 Identities=22% Similarity=0.491 Sum_probs=20.4
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
..+|..|++. +...+ .+.|.|.=||+.
T Consensus 8 ~~~C~~C~~~---~~~~~--dG~~yC~~cG~~ 34 (36)
T PF11781_consen 8 NEPCPVCGSR---WFYSD--DGFYYCDRCGHQ 34 (36)
T ss_pred CCcCCCCCCe---EeEcc--CCEEEhhhCceE
Confidence 3569999998 44444 478999999975
No 117
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=36.50 E-value=31 Score=27.13 Aligned_cols=33 Identities=21% Similarity=0.518 Sum_probs=22.8
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCCC--CCcCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNH--FPPHYASIT 100 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~--~p~~y~~~~ 100 (762)
+-+|.+|+.|- -+=+|+.||.... .|+.|++-|
T Consensus 5 ~rkC~~cg~YT----------Lke~Cp~CG~~t~~~~PprFSPeD 39 (59)
T COG2260 5 IRKCPKCGRYT----------LKEKCPVCGGDTKVPHPPRFSPED 39 (59)
T ss_pred hhcCcCCCcee----------ecccCCCCCCccccCCCCCCCccc
Confidence 45799999872 1258999997765 466676544
No 118
>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=36.24 E-value=19 Score=23.50 Aligned_cols=23 Identities=22% Similarity=0.531 Sum_probs=16.5
Q ss_pred ccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 60 RCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
+|..|++-|+- ..-.|+.||+.-
T Consensus 2 ~CP~C~~~V~~--------~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE--------SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh--------hcCcCCCCCCCC
Confidence 58888887743 446788898753
No 119
>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=35.62 E-value=81 Score=32.17 Aligned_cols=44 Identities=18% Similarity=0.105 Sum_probs=26.2
Q ss_pred CCc-EEEEEEECCCChhHHHHHHHHHHHH-hhcCCCCcEEEEEEeCCeE
Q 004303 128 VPP-VFMFVVDTCIIEEEMSFLKSALSQA-IDLLPDNSLVGLITFGTLV 174 (762)
Q Consensus 128 ~~p-~~vFvID~s~~~~~l~~~~~~l~~~-l~~lp~~~~VglITfd~~V 174 (762)
..| -+|+++|+|.+......+.-.+..+ ....+ ++.++.|++.+
T Consensus 55 ~~~~~lvvl~DvSGSM~~~s~~~l~~~~~l~~~~~---~~~~f~F~~~l 100 (222)
T PF05762_consen 55 RKPRRLVVLCDVSGSMAGYSEFMLAFLYALQRQFR---RVRVFVFSTRL 100 (222)
T ss_pred CCCccEEEEEeCCCChHHHHHHHHHHHHHHHHhCC---CEEEEEEeeeh
Confidence 445 8999999999988743332223322 23333 66666666543
No 120
>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=35.00 E-value=24 Score=33.58 Aligned_cols=33 Identities=30% Similarity=0.606 Sum_probs=22.7
Q ss_pred CcccCCCCceecCcce-----------EEcCCceEEecCCCCCC
Q 004303 58 PLRCRTCRSILNPFSI-----------VDFAAKIWICPFCFQRN 90 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~-----------~~~~~~~w~C~~C~~~N 90 (762)
..||..|.+-+-+-.+ +......|+|+-|++.-
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 4899999995533221 11235699999999874
No 121
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=34.75 E-value=22 Score=35.21 Aligned_cols=39 Identities=21% Similarity=0.479 Sum_probs=27.5
Q ss_pred CCcccCCCCceecCcceEEcCCceEEecCCCCCCCCCcC
Q 004303 57 APLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFPPH 95 (762)
Q Consensus 57 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~~ 95 (762)
.-+-|++|.-=-+.+.--...-..|+|.+|+..|..|.+
T Consensus 191 ~alIC~~C~hhngl~~~~ek~~~efiC~~Cn~~n~~~~~ 229 (251)
T COG5415 191 KALICPQCHHHNGLYRLAEKPIIEFICPHCNHKNDEVKE 229 (251)
T ss_pred hhhccccccccccccccccccchheecccchhhcCcccc
Confidence 346788887655555444444557999999999987654
No 122
>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=34.16 E-value=27 Score=22.36 Aligned_cols=24 Identities=29% Similarity=0.642 Sum_probs=16.5
Q ss_pred cCCCCceecCcceEEcCCceEEecCCCC
Q 004303 61 CRTCRSILNPFSIVDFAAKIWICPFCFQ 88 (762)
Q Consensus 61 C~~C~ayiNp~~~~~~~~~~w~C~~C~~ 88 (762)
|.+|+.-|-|-- .+..|.|+-||.
T Consensus 1 C~sC~~~i~~r~----~~v~f~CPnCG~ 24 (24)
T PF07754_consen 1 CTSCGRPIAPRE----QAVPFPCPNCGF 24 (24)
T ss_pred CccCCCcccCcc----cCceEeCCCCCC
Confidence 677877776642 245688888874
No 123
>PF12773 DZR: Double zinc ribbon
Probab=33.81 E-value=26 Score=26.34 Aligned_cols=35 Identities=23% Similarity=0.358 Sum_probs=26.3
Q ss_pred CCcccCCCCceecCcceEEcCCceEEecCCCCCCCCCcCC
Q 004303 57 APLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFPPHY 96 (762)
Q Consensus 57 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~~y 96 (762)
+-..|.+|++-+. ......++|+-|++.|.-...|
T Consensus 11 ~~~fC~~CG~~l~-----~~~~~~~~C~~Cg~~~~~~~~f 45 (50)
T PF12773_consen 11 DAKFCPHCGTPLP-----PPDQSKKICPNCGAENPPNAKF 45 (50)
T ss_pred cccCChhhcCChh-----hccCCCCCCcCCcCCCcCCcCc
Confidence 3467999999887 3345689999999987655444
No 124
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=33.57 E-value=19 Score=33.26 Aligned_cols=33 Identities=21% Similarity=0.399 Sum_probs=20.0
Q ss_pred CcccCCCCceecCc-ceEEcCCceEEecCCCCCCC
Q 004303 58 PLRCRTCRSILNPF-SIVDFAAKIWICPFCFQRNH 91 (762)
Q Consensus 58 p~RC~~C~ayiNp~-~~~~~~~~~w~C~~C~~~N~ 91 (762)
-.|| .|+.+..+- ...+.-...|.||-||..+.
T Consensus 70 ~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~ 103 (124)
T PRK00762 70 EIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRA 103 (124)
T ss_pred eEEe-eCcCcccccccchhccccCCcCcCCCCCCC
Confidence 4899 999775432 11111111378999997763
No 125
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=33.27 E-value=46 Score=26.14 Aligned_cols=34 Identities=24% Similarity=0.542 Sum_probs=23.9
Q ss_pred CCcccCCCCceecCcceEEcCCceEEecCCCCCCCC--CcCCCCCC
Q 004303 57 APLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHF--PPHYASIT 100 (762)
Q Consensus 57 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~--p~~y~~~~ 100 (762)
.+-+|.+|+.|== .=+|+.||..... |..|++.|
T Consensus 4 ~mr~C~~CgvYTL----------k~~CP~CG~~t~~~~P~rfSp~D 39 (56)
T PRK13130 4 KIRKCPKCGVYTL----------KEICPVCGGKTKNPHPPRFSPED 39 (56)
T ss_pred cceECCCCCCEEc----------cccCcCCCCCCCCCCCCCCCCCC
Confidence 3578999999832 4679999987654 66666543
No 126
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=32.82 E-value=27 Score=32.78 Aligned_cols=34 Identities=26% Similarity=0.437 Sum_probs=20.8
Q ss_pred CCcccCCCCceecCcc---e----------EEc--CCceEEecCCCCCC
Q 004303 57 APLRCRTCRSILNPFS---I----------VDF--AAKIWICPFCFQRN 90 (762)
Q Consensus 57 ~p~RC~~C~ayiNp~~---~----------~~~--~~~~w~C~~C~~~N 90 (762)
...+|..|+.....-- + +.+ ....|.|+-||..+
T Consensus 69 ~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~ 117 (135)
T PRK03824 69 AVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRD 117 (135)
T ss_pred eEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCC
Confidence 3588999996554420 0 000 03558899999875
No 127
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=32.75 E-value=36 Score=26.84 Aligned_cols=26 Identities=23% Similarity=0.512 Sum_probs=20.7
Q ss_pred CCcccCCCCceecCcceEEcCCceEEecCCCCCCC
Q 004303 57 APLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNH 91 (762)
Q Consensus 57 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~ 91 (762)
.+..|.+|+.+.=| .-.|+.||..+.
T Consensus 26 ~l~~C~~CG~~~~~---------H~vC~~CG~Y~g 51 (57)
T PRK12286 26 GLVECPNCGEPKLP---------HRVCPSCGYYKG 51 (57)
T ss_pred cceECCCCCCccCC---------eEECCCCCcCCC
Confidence 46789999998766 478999997654
No 128
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=32.59 E-value=28 Score=24.57 Aligned_cols=31 Identities=16% Similarity=0.366 Sum_probs=15.7
Q ss_pred cccCCCCceecCc-ceEEcCCceEEecCCCCC
Q 004303 59 LRCRTCRSILNPF-SIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 59 ~RC~~C~ayiNp~-~~~~~~~~~w~C~~C~~~ 89 (762)
+.|.+|++-..-- -.+...+...+|+-|++.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~ 34 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHV 34 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCE
Confidence 4577777742211 112223446777777754
No 129
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=32.16 E-value=29 Score=27.67 Aligned_cols=23 Identities=35% Similarity=0.785 Sum_probs=17.1
Q ss_pred ccCCCCceecCcceEEcCCceEEecCCCCCCCC
Q 004303 60 RCRTCRSILNPFSIVDFAAKIWICPFCFQRNHF 92 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 92 (762)
-|++|+..+.. . +|+.|+...-.
T Consensus 5 AC~~C~~i~~~--------~--~CP~Cgs~~~T 27 (61)
T PRK08351 5 ACRHCHYITTE--------D--RCPVCGSRDLS 27 (61)
T ss_pred hhhhCCcccCC--------C--cCCCCcCCccc
Confidence 49999987731 1 69999997643
No 130
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=31.03 E-value=39 Score=27.32 Aligned_cols=34 Identities=21% Similarity=0.457 Sum_probs=25.5
Q ss_pred CCcccCCCCceecCcceEEcCCceEEecCCCCCCCCC
Q 004303 57 APLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFP 93 (762)
Q Consensus 57 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p 93 (762)
--++|..|+ |--+-|......-+|+.||..=--|
T Consensus 18 l~VkCpdC~---N~q~vFshast~V~C~~CG~~l~~P 51 (67)
T COG2051 18 LRVKCPDCG---NEQVVFSHASTVVTCLICGTTLAEP 51 (67)
T ss_pred EEEECCCCC---CEEEEeccCceEEEecccccEEEec
Confidence 358999998 4556666777889999999874433
No 131
>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=30.52 E-value=17 Score=24.34 Aligned_cols=18 Identities=28% Similarity=0.484 Sum_probs=13.9
Q ss_pred ceEEecCCCCCCCCCcCC
Q 004303 79 KIWICPFCFQRNHFPPHY 96 (762)
Q Consensus 79 ~~w~C~~C~~~N~~p~~y 96 (762)
+.|.|+.|...|..-..+
T Consensus 3 g~W~C~~C~~~N~~~~~~ 20 (30)
T PF00641_consen 3 GDWKCPSCTFMNPASRSK 20 (30)
T ss_dssp SSEEETTTTEEEESSSSB
T ss_pred cCccCCCCcCCchHHhhh
Confidence 479999999999754333
No 132
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=30.46 E-value=40 Score=23.22 Aligned_cols=29 Identities=17% Similarity=0.466 Sum_probs=17.2
Q ss_pred ccCCCCceecCc-ceEEcCCce-----EEecCCCC
Q 004303 60 RCRTCRSILNPF-SIVDFAAKI-----WICPFCFQ 88 (762)
Q Consensus 60 RC~~C~ayiNp~-~~~~~~~~~-----w~C~~C~~ 88 (762)
||..|+..|-+- ..+...++. |.|..|+.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~ 35 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGK 35 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCCCCcccCC
Confidence 688888887774 333333344 46666664
No 133
>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=30.31 E-value=13 Score=33.69 Aligned_cols=27 Identities=30% Similarity=0.627 Sum_probs=18.2
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
-.||..|+.-..+- ...+.|+.||+.+
T Consensus 70 ~~~C~~Cg~~~~~~------~~~~~CP~Cgs~~ 96 (113)
T PF01155_consen 70 RARCRDCGHEFEPD------EFDFSCPRCGSPD 96 (113)
T ss_dssp EEEETTTS-EEECH------HCCHH-SSSSSS-
T ss_pred cEECCCCCCEEecC------CCCCCCcCCcCCC
Confidence 48999999876553 2347799999986
No 134
>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=29.74 E-value=46 Score=23.74 Aligned_cols=27 Identities=26% Similarity=0.727 Sum_probs=18.5
Q ss_pred ccCCCCceecCcceEEc--CCceEEecCCCC
Q 004303 60 RCRTCRSILNPFSIVDF--AAKIWICPFCFQ 88 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~--~~~~w~C~~C~~ 88 (762)
-|..|++ ---|- +++ +...|+|+-|+.
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 3888887 33333 554 457899999975
No 135
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=29.50 E-value=51 Score=30.81 Aligned_cols=32 Identities=19% Similarity=0.430 Sum_probs=26.2
Q ss_pred CcccCCCCceecCcceEEcCCceE--EecCCCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIW--ICPFCFQRNHF 92 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w--~C~~C~~~N~~ 92 (762)
-+-|+.|+. |=..+...++.| +|.-||..-++
T Consensus 97 yVlC~~C~s---PdT~l~k~~r~~~l~C~ACGa~~~v 130 (133)
T TIGR00311 97 YVICRECNR---PDTRIIKEGRVSLLKCEACGAKAPL 130 (133)
T ss_pred eEECCCCCC---CCcEEEEeCCeEEEecccCCCCCcc
Confidence 488999997 777777767776 89999998776
No 136
>PHA00626 hypothetical protein
Probab=29.22 E-value=48 Score=25.80 Aligned_cols=14 Identities=14% Similarity=0.377 Sum_probs=11.6
Q ss_pred CceEEecCCCCCCC
Q 004303 78 AKIWICPFCFQRNH 91 (762)
Q Consensus 78 ~~~w~C~~C~~~N~ 91 (762)
.+.++|+-||..-.
T Consensus 21 snrYkCkdCGY~ft 34 (59)
T PHA00626 21 SDDYVCCDCGYNDS 34 (59)
T ss_pred CcceEcCCCCCeec
Confidence 57899999998764
No 137
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=29.19 E-value=65 Score=34.37 Aligned_cols=28 Identities=36% Similarity=0.584 Sum_probs=25.5
Q ss_pred hHHHHHHHHHHHHhhcCCCCcEEEEEEe
Q 004303 143 EEMSFLKSALSQAIDLLPDNSLVGLITF 170 (762)
Q Consensus 143 ~~l~~~~~~l~~~l~~lp~~~~VglITf 170 (762)
.||+.+.++|.++++.|.++.|+++|||
T Consensus 218 dEL~~L~~~L~~a~~~L~~gGRl~VIsF 245 (314)
T COG0275 218 DELEELEEALEAALDLLKPGGRLAVISF 245 (314)
T ss_pred hHHHHHHHHHHHHHHhhCCCcEEEEEEe
Confidence 3599999999999999999999999984
No 138
>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=29.10 E-value=75 Score=30.79 Aligned_cols=77 Identities=18% Similarity=0.175 Sum_probs=45.4
Q ss_pred CCcchhhHHHHHHHHHhhccCCC--------CCcEEEEEecCCCCCCCcccccCCCCCCccCCCCCCCCCCcccchhHHH
Q 004303 266 RSTRCTGTALSIAASLLGACVPG--------SGARILAFVGGPSTEGPAAIVSKNLSEPIRSHKDLDKDSAPHYHKAVKF 337 (762)
Q Consensus 266 ~~~~~~G~Al~~A~~ll~~~~~~--------~ggkIi~F~sg~pt~GpG~l~~~~~~~~~rs~~d~~~~~~~~~~~a~~f 337 (762)
...+++|.||..|...+...... .-..|+++|+|-|+.++.. ..+.
T Consensus 76 ~GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~~~--------------------------~~~~ 129 (176)
T cd01464 76 SGGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPTDDLTA--------------------------AIER 129 (176)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCCchHHH--------------------------HHHH
Confidence 35689999999999998631100 0126888899866433110 1111
Q ss_pred HHHHHHHHHhcCcEEEEEEecCCccChhchhhhhcc
Q 004303 338 YDALSKQLVHQGHVLDLFACALDQVGVAELKVAVEK 373 (762)
Q Consensus 338 Y~~la~~~~~~~isvDlf~~~~~~~~l~~~~~L~~~ 373 (762)
+ ..+...++.+..|..+. .++...|..++..
T Consensus 130 ~----~~~~~~~~~i~~igiG~-~~~~~~L~~ia~~ 160 (176)
T cd01464 130 I----KEARDSKGRIVACAVGP-KADLDTLKQITEG 160 (176)
T ss_pred H----HhhcccCCcEEEEEecc-ccCHHHHHHHHCC
Confidence 2 22333466677666654 5777777777753
No 139
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=29.00 E-value=26 Score=21.18 Aligned_cols=11 Identities=27% Similarity=0.815 Sum_probs=6.5
Q ss_pred EEecCCCCCCC
Q 004303 81 WICPFCFQRNH 91 (762)
Q Consensus 81 w~C~~C~~~N~ 91 (762)
|.|++|+....
T Consensus 1 ~~C~~C~~~~~ 11 (24)
T PF13894_consen 1 FQCPICGKSFR 11 (24)
T ss_dssp EE-SSTS-EES
T ss_pred CCCcCCCCcCC
Confidence 78888887643
No 140
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=28.75 E-value=22 Score=28.06 Aligned_cols=22 Identities=32% Similarity=0.776 Sum_probs=14.3
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
+.||.+||-. +..++|+-||..
T Consensus 36 I~RC~~CRk~----------~~~Y~CP~CGF~ 57 (59)
T PRK14890 36 IYRCEKCRKQ----------SNPYTCPKCGFE 57 (59)
T ss_pred EeechhHHhc----------CCceECCCCCCc
Confidence 5667666653 345678888764
No 141
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=28.67 E-value=29 Score=29.79 Aligned_cols=35 Identities=26% Similarity=0.477 Sum_probs=24.0
Q ss_pred CCcccCCCCceecCcceEEcCCceEEecCCCCCCCCCcC
Q 004303 57 APLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFPPH 95 (762)
Q Consensus 57 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~~ 95 (762)
.|+||++|+--.++ -.+ ..--+|+-|++.-.-++.
T Consensus 57 ~Pa~CkkCGfef~~-~~i---k~pSRCP~CKSE~Ie~pr 91 (97)
T COG3357 57 RPARCKKCGFEFRD-DKI---KKPSRCPKCKSEWIEEPR 91 (97)
T ss_pred cChhhcccCccccc-ccc---CCcccCCcchhhcccCCc
Confidence 68999999976666 222 234679999987554443
No 142
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=28.54 E-value=35 Score=26.64 Aligned_cols=25 Identities=24% Similarity=0.596 Sum_probs=19.5
Q ss_pred CCcccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 57 APLRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 57 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
.+..|.+|+.+.=|+ ..|..||+.+
T Consensus 25 ~l~~C~~cG~~~~~H---------~vc~~cG~Y~ 49 (55)
T TIGR01031 25 TLVVCPNCGEFKLPH---------RVCPSCGYYK 49 (55)
T ss_pred cceECCCCCCcccCe---------eECCccCeEC
Confidence 468899999976654 7888898655
No 143
>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=28.16 E-value=38 Score=29.95 Aligned_cols=27 Identities=26% Similarity=0.725 Sum_probs=21.7
Q ss_pred ccCCCCceecCcceEEcCCceEEecCCCCCCCC
Q 004303 60 RCRTCRSILNPFSIVDFAAKIWICPFCFQRNHF 92 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 92 (762)
.|.+|++.+.|- +..|.|+-|+.....
T Consensus 2 fC~~Cg~~l~~~------~~~~~C~~C~~~~~~ 28 (104)
T TIGR01384 2 FCPKCGSLMTPK------NGVYVCPSCGYEKEK 28 (104)
T ss_pred CCcccCcccccC------CCeEECcCCCCcccc
Confidence 599999999763 357999999987554
No 144
>PF00320 GATA: GATA zinc finger; InterPro: IPR000679 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 GATA-type zinc fingers (Znf). A number of transcription factors (including erythroid-specific transcription factor and nitrogen regulatory proteins), specifically bind the DNA sequence (A/T)GATA(A/G) [] in the regulatory regions of genes. They are consequently termed GATA-binding transcription factors. The interactions occur via highly-conserved Znf domains in which the zinc ion is coordinated by 4 cysteine residues [, ]. NMR studies have shown the core of the Znf to comprise 2 irregular anti-parallel beta-sheets and an alpha-helix, followed by a long loop to the C-terminal end of the finger. The N-terminal part, which includes the helix, is similar in structure, but not sequence, to the N-terminal zinc module of the glucocorticoid receptor DNA-binding domain. The helix and the loop connecting the 2 beta-sheets interact with the major groove of the DNA, while the C-terminal tail wraps around into the minor groove. It is this tail that is the essential determinant of specific binding. Interactions between the Znf and DNA are mainly hydrophobic, explaining the preponderance of thymines in the binding site; a large number of interactions with the phosphate backbone have also been observed []. Two GATA zinc fingers are found in the GATA transcription factors. However there are several proteins which only contains a single copy of the domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0008270 zinc ion binding, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 3GAT_A 2GAT_A 1GAU_A 1GAT_A 1Y0J_A 1GNF_A 2L6Z_A 2L6Y_A 3DFV_D 3DFX_B ....
Probab=27.66 E-value=20 Score=25.25 Aligned_cols=28 Identities=18% Similarity=0.304 Sum_probs=19.7
Q ss_pred cCCCCceecCcceEEcCCceEEecCCCC
Q 004303 61 CRTCRSILNPFSIVDFAAKIWICPFCFQ 88 (762)
Q Consensus 61 C~~C~ayiNp~~~~~~~~~~w~C~~C~~ 88 (762)
|.+|++-=.|..+-...|....||-|+.
T Consensus 1 C~~C~tt~t~~WR~~~~g~~~LCn~Cg~ 28 (36)
T PF00320_consen 1 CSNCGTTETPQWRRGPNGNRTLCNACGL 28 (36)
T ss_dssp -TTT--ST-SSEEEETTSEE-EEHHHHH
T ss_pred CcCCcCCCCchhhcCCCCCCHHHHHHHH
Confidence 8889999899988888888889998874
No 145
>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=27.59 E-value=23 Score=26.98 Aligned_cols=19 Identities=26% Similarity=0.712 Sum_probs=8.0
Q ss_pred CcceEEcCCceEEecCCCC
Q 004303 70 PFSIVDFAAKIWICPFCFQ 88 (762)
Q Consensus 70 p~~~~~~~~~~w~C~~C~~ 88 (762)
-|.......+.|.|++|++
T Consensus 31 ~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 31 SFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp HHHHHHHHS---B-TTT--
T ss_pred HHHHHhhccCCeECcCCcC
Confidence 3444444566799999986
No 146
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=26.98 E-value=30 Score=27.58 Aligned_cols=25 Identities=24% Similarity=0.685 Sum_probs=19.0
Q ss_pred ccCCCCceecCcceEEcCCceEEecCCCCCCCC
Q 004303 60 RCRTCRSILNPFSIVDFAAKIWICPFCFQRNHF 92 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 92 (762)
-|.+|+..++. ..=+|+.||.....
T Consensus 6 AC~~Ck~l~~~--------d~e~CP~Cgs~~~t 30 (64)
T COG2093 6 ACKNCKRLTPE--------DTEICPVCGSTDLT 30 (64)
T ss_pred HHhhccccCCC--------CCccCCCCCCcccc
Confidence 49999987765 45689999987543
No 147
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=26.57 E-value=33 Score=36.66 Aligned_cols=36 Identities=19% Similarity=0.375 Sum_probs=26.1
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFP 93 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p 93 (762)
-.-|++|+.==+-+-.=+..--.|+|.+|+..|+-+
T Consensus 220 ALIC~~C~~HNGla~~ee~~yi~F~C~~Cn~LN~~~ 255 (328)
T KOG2846|consen 220 ALICSQCHHHNGLARKEEYEYITFRCPHCNALNPAK 255 (328)
T ss_pred hhcchhhccccCcCChhhcCceEEECccccccCCCc
Confidence 367999998655544433344789999999999854
No 148
>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=26.09 E-value=37 Score=23.86 Aligned_cols=25 Identities=32% Similarity=0.736 Sum_probs=13.1
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
.-||..|+.+.=| -+-.|+-|+..+
T Consensus 11 ~~rC~~Cg~~~~p--------Pr~~Cp~C~s~~ 35 (37)
T PF12172_consen 11 GQRCRDCGRVQFP--------PRPVCPHCGSDE 35 (37)
T ss_dssp EEE-TTT--EEES----------SEETTTT---
T ss_pred EEEcCCCCCEecC--------CCcCCCCcCccc
Confidence 4689999998544 347888887543
No 149
>PRK12722 transcriptional activator FlhC; Provisional
Probab=25.66 E-value=32 Score=34.06 Aligned_cols=30 Identities=13% Similarity=0.428 Sum_probs=21.1
Q ss_pred CCcccCCCCc-eecCcceEEcCCceEEecCCCCC
Q 004303 57 APLRCRTCRS-ILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 57 ~p~RC~~C~a-yiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
...+|..|++ ||- ...+....++|++|+-.
T Consensus 133 ~l~~C~~Cgg~fv~---~~~e~~~~f~CplC~~p 163 (187)
T PRK12722 133 QLSSCNCCGGHFVT---HAHDPVGSFVCGLCQPP 163 (187)
T ss_pred eeccCCCCCCCeec---cccccCCCCcCCCCCCc
Confidence 5788999987 342 22244578999999873
No 150
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=25.18 E-value=36 Score=22.04 Aligned_cols=22 Identities=27% Similarity=0.780 Sum_probs=11.8
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCC
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQ 88 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~ 88 (762)
..|.+|++.+.+ ..-.|+-||+
T Consensus 3 ~~Cp~Cg~~~~~--------~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDP--------DAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCc--------ccccChhhCC
Confidence 457777773322 2345666664
No 151
>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=24.92 E-value=36 Score=23.08 Aligned_cols=26 Identities=23% Similarity=0.551 Sum_probs=13.3
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCCC
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
+.|..|++=.+- .++..++|+-|++.
T Consensus 3 p~Cp~C~se~~y-----~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 3 PKCPLCGSEYTY-----EDGELLVCPECGHE 28 (30)
T ss_dssp ---TTT-----E-----E-SSSEEETTTTEE
T ss_pred CCCCCCCCccee-----ccCCEEeCCccccc
Confidence 578888874433 34688999999863
No 152
>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=24.66 E-value=30 Score=23.84 Aligned_cols=11 Identities=36% Similarity=0.957 Sum_probs=6.1
Q ss_pred CCCcccCCCCc
Q 004303 56 YAPLRCRTCRS 66 (762)
Q Consensus 56 ~~p~RC~~C~a 66 (762)
.+++||..|+.
T Consensus 15 ~~~irC~~CG~ 25 (32)
T PF03604_consen 15 GDPIRCPECGH 25 (32)
T ss_dssp SSTSSBSSSS-
T ss_pred CCcEECCcCCC
Confidence 34566666664
No 153
>PRK05580 primosome assembly protein PriA; Validated
Probab=24.56 E-value=2.3e+02 Score=34.22 Aligned_cols=35 Identities=23% Similarity=0.454 Sum_probs=21.4
Q ss_pred cccCCCCcee-cCcce----EEcCCceEEecCCCCCCCCC
Q 004303 59 LRCRTCRSIL-NPFSI----VDFAAKIWICPFCFQRNHFP 93 (762)
Q Consensus 59 ~RC~~C~ayi-Np~~~----~~~~~~~w~C~~C~~~N~~p 93 (762)
+.|.+|+..+ .|.|. +....+.-+|..||..-.+|
T Consensus 382 ~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~ 421 (679)
T PRK05580 382 LLCRDCGWVAECPHCDASLTLHRFQRRLRCHHCGYQEPIP 421 (679)
T ss_pred eEhhhCcCccCCCCCCCceeEECCCCeEECCCCcCCCCCC
Confidence 4555555443 33333 22356778999999887765
No 154
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=24.28 E-value=33 Score=21.90 Aligned_cols=14 Identities=36% Similarity=0.733 Sum_probs=11.8
Q ss_pred eEEecCCCCCCCCC
Q 004303 80 IWICPFCFQRNHFP 93 (762)
Q Consensus 80 ~w~C~~C~~~N~~p 93 (762)
.|.|..|+..|...
T Consensus 2 ~W~C~~C~~~N~~~ 15 (26)
T smart00547 2 DWECPACTFLNFAS 15 (26)
T ss_pred cccCCCCCCcChhh
Confidence 59999999999754
No 155
>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=24.03 E-value=64 Score=28.79 Aligned_cols=28 Identities=25% Similarity=0.560 Sum_probs=19.5
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRN 90 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 90 (762)
.+.|.+|.+- |.-- +|..|+|+-|++.=
T Consensus 2 lp~CP~C~se---ytY~--dg~~~iCpeC~~EW 29 (109)
T TIGR00686 2 LPPCPKCNSE---YTYH--DGTQLICPSCLYEW 29 (109)
T ss_pred CCcCCcCCCc---ceEe--cCCeeECccccccc
Confidence 4678888862 2222 46789999999863
No 156
>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=23.93 E-value=90 Score=28.47 Aligned_cols=33 Identities=24% Similarity=0.209 Sum_probs=25.0
Q ss_pred hHHHHHHHHHHHHhhcCCC---CcEEEEEEeCCeEE
Q 004303 143 EEMSFLKSALSQAIDLLPD---NSLVGLITFGTLVQ 175 (762)
Q Consensus 143 ~~l~~~~~~l~~~l~~lp~---~~~VglITfd~~V~ 175 (762)
.-.+.++++|+.-+..-|. +.+|-+++||+.|-
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 3357889999988877664 57999999998774
No 157
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=23.40 E-value=44 Score=32.48 Aligned_cols=14 Identities=36% Similarity=1.163 Sum_probs=11.2
Q ss_pred CCceEEecCCCCCC
Q 004303 77 AAKIWICPFCFQRN 90 (762)
Q Consensus 77 ~~~~w~C~~C~~~N 90 (762)
.|+.|+|+.||+.-
T Consensus 131 ~~~~~vC~vCGy~~ 144 (166)
T COG1592 131 EGKVWVCPVCGYTH 144 (166)
T ss_pred cCCEEEcCCCCCcc
Confidence 35689999999774
No 158
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=23.31 E-value=1.3e+02 Score=28.42 Aligned_cols=66 Identities=17% Similarity=0.306 Sum_probs=37.2
Q ss_pred cccCCCCceecCcceEEcCCceEEecCCCCCCCCCcCCCCCCCCCCCccccCCCccEEEecCCCCCCCCCCcEEEEEEEC
Q 004303 59 LRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHFPPHYASITDDNLPAELFPQYTTIEYEPPGPGEKSSVPPVFMFVVDT 138 (762)
Q Consensus 59 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~~y~~~~~~~~~pEL~~~~~tvey~~~~~~p~~~~~p~~vFvID~ 138 (762)
.||.+|+.+.=| -+-.|+-|+....+ ++-.++ .+-++. .=|+-|..+.... ..+|..+-+|+.
T Consensus 30 ~kC~~CG~v~~P--------Pr~~Cp~C~~~~~~--E~vels---~~G~V~--t~Tv~~~~~~~~~--~~~P~viaiV~l 92 (140)
T COG1545 30 TKCKKCGRVYFP--------PRAYCPKCGSETEL--EWVELS---GEGKVE--TYTVVYVKPPGFS--LEEPYVIAIVEL 92 (140)
T ss_pred EEcCCCCeEEcC--------CcccCCCCCCCCce--EEEEeC---CCeEEE--EEEEEeeCCCCcc--cCCCEEEEEEEe
Confidence 799999998777 35789999999632 110000 011222 2344455443221 156777777776
Q ss_pred CCC
Q 004303 139 CII 141 (762)
Q Consensus 139 s~~ 141 (762)
-..
T Consensus 93 ~~~ 95 (140)
T COG1545 93 EEG 95 (140)
T ss_pred CCC
Confidence 543
No 159
>PF14353 CpXC: CpXC protein
Probab=22.30 E-value=77 Score=29.15 Aligned_cols=35 Identities=14% Similarity=0.475 Sum_probs=22.7
Q ss_pred cccCCCCceec--CcceEEcC-------------CceEEecCCCCCCCCC
Q 004303 59 LRCRTCRSILN--PFSIVDFA-------------AKIWICPFCFQRNHFP 93 (762)
Q Consensus 59 ~RC~~C~ayiN--p~~~~~~~-------------~~~w~C~~C~~~N~~p 93 (762)
++|.+|+.-.. -|..++.. =..++|+-||+...++
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLE 51 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecC
Confidence 57889987632 23333322 2379999999988763
No 160
>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=22.19 E-value=59 Score=23.65 Aligned_cols=27 Identities=33% Similarity=0.752 Sum_probs=15.0
Q ss_pred cCCCCceecCcceEEc--CCceEEecCCCC
Q 004303 61 CRTCRSILNPFSIVDF--AAKIWICPFCFQ 88 (762)
Q Consensus 61 C~~C~ayiNp~~~~~~--~~~~w~C~~C~~ 88 (762)
|..|++ -.-|..|++ +...|+|+-|+.
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 777877 444554554 457899999943
No 161
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=22.03 E-value=47 Score=35.67 Aligned_cols=28 Identities=25% Similarity=0.672 Sum_probs=21.6
Q ss_pred CCcccCCCCceecCcceEEcCCceEEecCCCCCCCC
Q 004303 57 APLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHF 92 (762)
Q Consensus 57 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 92 (762)
..-||.+|+- ....-.|.||-|+..-.+
T Consensus 353 ~~YRC~~CGF--------~a~~l~W~CPsC~~W~Ti 380 (389)
T COG2956 353 PRYRCQNCGF--------TAHTLYWHCPSCRAWETI 380 (389)
T ss_pred CCceecccCC--------cceeeeeeCCCccccccc
Confidence 5689999983 233457999999988766
No 162
>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=21.72 E-value=51 Score=22.94 Aligned_cols=11 Identities=36% Similarity=1.301 Sum_probs=9.5
Q ss_pred eEEecCCCCCC
Q 004303 80 IWICPFCFQRN 90 (762)
Q Consensus 80 ~w~C~~C~~~N 90 (762)
.|+|..||..-
T Consensus 2 ~~~C~~CG~i~ 12 (34)
T cd00729 2 VWVCPVCGYIH 12 (34)
T ss_pred eEECCCCCCEe
Confidence 69999999873
No 163
>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=21.71 E-value=50 Score=27.86 Aligned_cols=30 Identities=23% Similarity=0.460 Sum_probs=17.3
Q ss_pred cccCCCCceecCc----ceEE-----cCCceEEecCCCC
Q 004303 59 LRCRTCRSILNPF----SIVD-----FAAKIWICPFCFQ 88 (762)
Q Consensus 59 ~RC~~C~ayiNp~----~~~~-----~~~~~w~C~~C~~ 88 (762)
.-|++|++++=|- +++. .+.-.|+|..|++
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 5699999997664 4555 3456799999984
No 164
>COG2023 RPR2 RNase P subunit RPR2 [Translation, ribosomal structure and biogenesis]
Probab=21.32 E-value=54 Score=29.16 Aligned_cols=35 Identities=20% Similarity=0.373 Sum_probs=27.2
Q ss_pred cccCCCCceecCc----ceEEcCCceEEecCCCCCCCCC
Q 004303 59 LRCRTCRSILNPF----SIVDFAAKIWICPFCFQRNHFP 93 (762)
Q Consensus 59 ~RC~~C~ayiNp~----~~~~~~~~~w~C~~C~~~N~~p 93 (762)
.-|++|.+.+=|. +.+..+.-.|+|--||..--+|
T Consensus 57 ~~CkkC~t~Lvpg~n~rvR~~~~~v~vtC~~CG~~~R~p 95 (105)
T COG2023 57 TICKKCYTPLVPGKNARVRLRKGRVVVTCLECGTIRRYP 95 (105)
T ss_pred HhccccCcccccCcceEEEEcCCeEEEEecCCCcEEEec
Confidence 4599999986554 5556566799999999987765
No 165
>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=21.25 E-value=1e+02 Score=33.21 Aligned_cols=27 Identities=33% Similarity=0.468 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHhhcCCCCcEEEEEEe
Q 004303 144 EMSFLKSALSQAIDLLPDNSLVGLITF 170 (762)
Q Consensus 144 ~l~~~~~~l~~~l~~lp~~~~VglITf 170 (762)
||+.+..+|.++.+.|.++.++++|||
T Consensus 215 EL~~L~~~L~~~~~~L~~gGrl~VISf 241 (305)
T TIGR00006 215 ELEELEEALQFAPNLLAPGGRLSIISF 241 (305)
T ss_pred hHHHHHHHHHHHHHHhcCCCEEEEEec
Confidence 488999999999999999999999985
No 166
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=21.23 E-value=81 Score=21.40 Aligned_cols=26 Identities=19% Similarity=0.341 Sum_probs=14.4
Q ss_pred ccCCCCceecCcceEEcCCceEEecCCCCC
Q 004303 60 RCRTCRSILNPFSIVDFAAKIWICPFCFQR 89 (762)
Q Consensus 60 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 89 (762)
.|.+|++= +....++..-+|+-|+..
T Consensus 5 fC~~CG~~----t~~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 5 FCGRCGAP----TKPAPGGWARRCPSCGHE 30 (32)
T ss_dssp B-TTT--B----EEE-SSSS-EEESSSS-E
T ss_pred ccCcCCcc----ccCCCCcCEeECCCCcCE
Confidence 58888884 344566788899988864
No 167
>COG1773 Rubredoxin [Energy production and conversion]
Probab=20.30 E-value=51 Score=25.75 Aligned_cols=15 Identities=27% Similarity=0.698 Sum_probs=9.9
Q ss_pred EEcCCceEEecCCCC
Q 004303 74 VDFAAKIWICPFCFQ 88 (762)
Q Consensus 74 ~~~~~~~w~C~~C~~ 88 (762)
|.+--..|.|+.|+.
T Consensus 30 fedlPd~w~CP~Cg~ 44 (55)
T COG1773 30 FEDLPDDWVCPECGV 44 (55)
T ss_pred hhhCCCccCCCCCCC
Confidence 444345688888885
No 168
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=20.21 E-value=22 Score=27.27 Aligned_cols=33 Identities=27% Similarity=0.584 Sum_probs=22.0
Q ss_pred CcccCCCCceecCcceEEcCCceEEecCCCCCCCC
Q 004303 58 PLRCRTCRSILNPFSIVDFAAKIWICPFCFQRNHF 92 (762)
Q Consensus 58 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 92 (762)
-+||..|.-.+---...-. -.-+|+-|...|.+
T Consensus 4 tiRC~~CnKlLa~a~~~~y--le~KCPrCK~vN~~ 36 (60)
T COG4416 4 TIRCAKCNKLLAEAEGQAY--LEKKCPRCKEVNEF 36 (60)
T ss_pred eeehHHHhHHHHhccccee--eeecCCccceeeee
Confidence 4799999876543221111 23689999999986
Done!