Query 001219
Match_columns 1121
No_of_seqs 260 out of 778
Neff 6.0
Searched_HMMs 46136
Date Thu Mar 28 19:02:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001219.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001219hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1984 Vesicle coat complex C 100.0 4E-197 9E-202 1710.1 92.7 762 355-1121 236-1007(1007)
2 KOG1985 Vesicle coat complex C 100.0 4E-164 8E-169 1433.4 71.1 709 400-1118 165-887 (887)
3 PTZ00395 Sec24-related protein 100.0 2E-157 4E-162 1426.2 77.4 743 356-1120 599-1557(1560)
4 COG5028 Vesicle coat complex C 100.0 5E-152 1E-156 1320.9 63.5 716 386-1118 132-861 (861)
5 PLN00162 transport protein sec 100.0 4E-124 9E-129 1156.2 67.3 667 404-1118 8-760 (761)
6 KOG1986 Vesicle coat complex C 100.0 7.6E-93 1.7E-97 822.3 53.8 664 404-1117 8-742 (745)
7 COG5047 SEC23 Vesicle coat com 100.0 2.4E-84 5.1E-89 733.1 43.6 671 403-1117 7-752 (755)
8 cd01479 Sec24-like Sec24-like: 100.0 4.3E-53 9.3E-58 462.6 25.4 241 531-775 1-244 (244)
9 cd01468 trunk_domain trunk dom 100.0 2.7E-49 5.8E-54 431.6 25.7 235 531-769 1-239 (239)
10 PF04811 Sec23_trunk: Sec23/Se 100.0 5.2E-49 1.1E-53 430.2 19.7 237 531-771 1-243 (243)
11 cd01478 Sec23-like Sec23-like: 100.0 1.3E-43 2.8E-48 391.8 19.5 222 531-758 1-260 (267)
12 PF04815 Sec23_helical: Sec23/ 99.8 4.1E-21 9E-26 183.8 10.2 102 872-973 1-103 (103)
13 PF08033 Sec23_BS: Sec23/Sec24 99.8 2E-20 4.4E-25 176.8 9.2 85 776-860 1-96 (96)
14 PF04810 zf-Sec23_Sec24: Sec23 99.5 5.5E-15 1.2E-19 117.5 2.1 40 455-494 1-40 (40)
15 PRK13685 hypothetical protein; 98.7 3.8E-07 8.2E-12 104.9 15.9 172 534-769 89-288 (326)
16 cd01453 vWA_transcription_fact 98.5 1.7E-06 3.8E-11 91.5 16.1 164 535-770 5-178 (183)
17 cd01467 vWA_BatA_type VWA BatA 98.5 2.7E-06 5.8E-11 88.6 14.5 155 535-753 4-176 (180)
18 cd01451 vWA_Magnesium_chelatas 98.4 6.1E-06 1.3E-10 86.5 15.3 159 535-755 2-168 (178)
19 cd01465 vWA_subgroup VWA subgr 98.4 6.9E-06 1.5E-10 84.4 15.4 156 535-753 2-162 (170)
20 TIGR00868 hCaCC calcium-activa 98.4 1.5E-05 3.3E-10 100.7 20.9 168 533-771 304-477 (863)
21 cd01466 vWA_C3HC4_type VWA C3H 98.4 4.4E-06 9.5E-11 85.7 13.0 147 536-751 3-154 (155)
22 cd01463 vWA_VGCC_like VWA Volt 98.4 7.5E-06 1.6E-10 86.7 15.2 165 531-753 11-188 (190)
23 cd01456 vWA_ywmD_type VWA ywmD 98.3 5.2E-06 1.1E-10 89.0 13.7 174 529-748 16-196 (206)
24 PF13519 VWA_2: von Willebrand 98.3 6.9E-06 1.5E-10 83.5 13.3 151 536-752 2-159 (172)
25 cd01474 vWA_ATR ATR (Anthrax T 98.1 7.2E-05 1.6E-09 78.9 16.0 167 535-771 6-181 (185)
26 TIGR03436 acidobact_VWFA VWFA- 98.1 0.00014 3.1E-09 82.3 19.5 158 532-751 52-238 (296)
27 cd01472 vWA_collagen von Wille 98.1 6.4E-05 1.4E-09 77.5 15.2 151 536-753 3-163 (164)
28 TIGR03788 marine_srt_targ mari 98.1 0.00044 9.6E-09 86.0 25.1 286 531-915 269-559 (596)
29 cd01461 vWA_interalpha_trypsin 98.0 0.00019 4E-09 73.8 16.7 157 533-753 2-161 (171)
30 cd01470 vWA_complement_factors 98.0 9.2E-05 2E-09 78.9 14.3 167 536-754 3-190 (198)
31 PF00626 Gelsolin: Gelsolin re 97.9 1.4E-05 3.1E-10 71.7 5.9 70 992-1087 4-74 (76)
32 PHA03247 large tegument protei 97.9 0.085 1.8E-06 72.2 41.3 13 552-564 3114-3126(3151)
33 cd01452 VWA_26S_proteasome_sub 97.9 0.00021 4.5E-09 76.1 14.2 140 535-741 5-158 (187)
34 cd01450 vWFA_subfamily_ECM Von 97.8 0.00024 5.3E-09 71.6 13.4 145 536-744 3-155 (161)
35 PF13768 VWA_3: von Willebrand 97.8 0.00022 4.8E-09 72.7 13.0 150 536-750 3-155 (155)
36 cd01480 vWA_collagen_alpha_1-V 97.8 0.00026 5.7E-09 74.8 13.8 158 535-755 4-173 (186)
37 PHA03247 large tegument protei 97.8 0.051 1.1E-06 74.2 35.7 17 551-567 3110-3126(3151)
38 PTZ00441 sporozoite surface pr 97.7 0.00076 1.7E-08 81.8 17.5 162 535-755 44-217 (576)
39 cd01475 vWA_Matrilin VWA_Matri 97.7 0.00053 1.1E-08 74.7 14.7 168 535-772 4-184 (224)
40 cd01471 vWA_micronemal_protein 97.7 0.00083 1.8E-08 70.7 15.3 149 536-743 3-160 (186)
41 TIGR02031 BchD-ChlD magnesium 97.7 0.00053 1.2E-08 85.1 15.5 174 532-755 406-584 (589)
42 PRK13406 bchD magnesium chelat 97.7 0.00088 1.9E-08 82.7 16.9 174 532-767 400-579 (584)
43 TIGR02442 Cob-chelat-sub cobal 97.7 0.00035 7.6E-09 87.4 13.6 159 533-751 465-632 (633)
44 cd01477 vWA_F09G8-8_type VWA F 97.6 0.00073 1.6E-08 72.3 13.9 149 535-745 21-186 (193)
45 cd01469 vWA_integrins_alpha_su 97.6 0.0012 2.7E-08 69.3 15.3 157 536-755 3-172 (177)
46 cd00198 vWFA Von Willebrand fa 97.6 0.0011 2.4E-08 65.7 13.9 148 535-744 2-155 (161)
47 cd01482 vWA_collagen_alphaI-XI 97.6 0.0012 2.7E-08 68.2 14.5 151 536-753 3-163 (164)
48 KOG1924 RhoA GTPase effector D 97.6 0.00028 6.2E-09 85.6 10.1 12 935-946 1046-1057(1102)
49 smart00327 VWA von Willebrand 97.5 0.0024 5.2E-08 65.2 15.2 153 535-750 3-164 (177)
50 PF00092 VWA: von Willebrand f 97.5 0.0011 2.4E-08 68.1 12.6 155 536-755 2-169 (178)
51 COG1240 ChlD Mg-chelatase subu 97.5 0.0012 2.7E-08 72.5 12.8 165 533-756 78-249 (261)
52 cd01473 vWA_CTRP CTRP for CS 97.4 0.0055 1.2E-07 65.5 16.9 150 536-743 3-161 (192)
53 cd01481 vWA_collagen_alpha3-VI 97.4 0.0032 7E-08 65.6 14.3 152 536-754 3-165 (165)
54 cd01476 VWA_integrin_invertebr 97.1 0.0077 1.7E-07 61.7 13.8 102 536-672 3-115 (163)
55 smart00262 GEL Gelsolin homolo 97.1 0.0029 6.2E-08 59.0 9.2 71 996-1093 16-87 (90)
56 cd01458 vWA_ku Ku70/Ku80 N-ter 97.0 0.015 3.2E-07 63.2 15.1 154 535-730 3-173 (218)
57 KOG1924 RhoA GTPase effector D 97.0 0.0027 5.9E-08 77.5 9.9 12 151-162 592-603 (1102)
58 cd01464 vWA_subfamily VWA subf 96.9 0.005 1.1E-07 64.4 10.5 138 536-742 6-159 (176)
59 PF04056 Ssl1: Ssl1-like; Int 96.8 0.012 2.5E-07 63.1 11.4 164 539-772 1-174 (193)
60 cd01454 vWA_norD_type norD typ 96.7 0.039 8.5E-07 57.5 15.0 150 535-731 2-154 (174)
61 KOG0443 Actin regulatory prote 96.3 0.0054 1.2E-07 75.7 6.1 90 970-1083 615-704 (827)
62 COG4245 TerY Uncharacterized p 96.1 0.083 1.8E-06 55.8 12.5 84 537-659 7-94 (207)
63 KOG2884 26S proteasome regulat 95.6 0.22 4.7E-06 53.6 13.3 155 535-753 5-175 (259)
64 cd01462 VWA_YIEM_type VWA YIEM 95.5 0.34 7.3E-06 49.2 14.2 100 536-671 3-105 (152)
65 TIGR00578 ku70 ATP-dependent D 95.1 0.33 7.2E-06 60.6 15.5 155 535-728 12-182 (584)
66 KOG1984 Vesicle coat complex C 95.0 2.4 5.1E-05 53.8 21.6 57 1-62 1-57 (1007)
67 KOG0443 Actin regulatory prote 94.1 0.24 5.2E-06 61.9 10.3 99 975-1100 255-358 (827)
68 cd01457 vWA_ORF176_type VWA OR 93.7 0.58 1.2E-05 50.1 11.3 102 535-673 4-120 (199)
69 smart00187 INB Integrin beta s 93.6 15 0.00032 44.2 23.3 273 534-824 100-389 (423)
70 COG5148 RPN10 26S proteasome r 93.0 1.8 4E-05 45.7 13.1 133 534-729 4-146 (243)
71 PF03731 Ku_N: Ku70/Ku80 N-ter 91.6 0.69 1.5E-05 50.3 8.7 154 535-727 1-172 (224)
72 PF03850 Tfb4: Transcription f 91.3 4.4 9.6E-05 46.1 14.8 81 644-753 116-207 (276)
73 cd01460 vWA_midasin VWA_Midasi 91.3 3.6 7.7E-05 46.6 14.0 48 532-583 59-110 (266)
74 TIGR00627 tfb4 transcription f 91.1 7.3 0.00016 44.4 16.3 94 642-770 117-220 (279)
75 PF00362 Integrin_beta: Integr 90.9 22 0.00047 43.1 21.0 268 535-824 104-392 (426)
76 cd01455 vWA_F11C1-5a_type Von 90.3 8.2 0.00018 41.6 14.9 97 621-753 73-174 (191)
77 KOG2807 RNA polymerase II tran 88.7 6.6 0.00014 44.9 13.1 150 532-746 59-217 (378)
78 KOG0444 Cytoskeletal regulator 88.2 0.73 1.6E-05 56.4 5.8 79 976-1084 623-702 (1255)
79 COG2425 Uncharacterized protei 88.0 4.4 9.5E-05 48.8 12.0 149 533-753 273-425 (437)
80 PF06707 DUF1194: Protein of u 85.5 16 0.00035 39.8 13.6 115 622-775 77-202 (205)
81 PRK10997 yieM hypothetical pro 80.1 6.2 0.00013 48.3 8.8 149 534-753 324-475 (487)
82 KOG2487 RNA polymerase II tran 76.0 33 0.00072 38.7 12.0 54 708-770 185-238 (314)
83 KOG2353 L-type voltage-depende 75.7 28 0.00061 46.7 13.4 117 514-659 203-322 (1104)
84 KOG0444 Cytoskeletal regulator 74.9 6.1 0.00013 48.9 6.6 54 971-1027 730-788 (1255)
85 TIGR01053 LSD1 zinc finger dom 70.9 3.5 7.5E-05 31.5 2.2 30 457-490 2-31 (31)
86 COG4867 Uncharacterized protei 70.6 23 0.00049 42.1 9.5 160 534-752 464-634 (652)
87 KOG3768 DEAD box RNA helicase 70.0 32 0.0007 42.4 10.9 32 534-565 2-38 (888)
88 PF10058 DUF2296: Predicted in 65.9 3.9 8.4E-05 35.2 1.8 34 455-488 21-54 (54)
89 PHA03378 EBNA-3B; Provisional 62.2 1.9E+02 0.0042 36.6 15.4 9 20-28 688-696 (991)
90 PF09967 DUF2201: VWA-like dom 62.1 14 0.0003 37.1 5.3 93 537-672 2-94 (126)
91 COG2888 Predicted Zn-ribbon RN 58.6 4 8.7E-05 35.6 0.6 28 450-487 32-59 (61)
92 PRK00398 rpoP DNA-directed RNA 57.9 7.6 0.00017 32.0 2.1 29 456-488 3-31 (46)
93 KOG4849 mRNA cleavage factor I 57.6 1.7E+02 0.0036 34.3 13.0 6 16-21 214-219 (498)
94 KOG1226 Integrin beta subunit 56.1 3.3E+02 0.0072 35.2 16.4 139 535-681 134-283 (783)
95 KOG0391 SNF2 family DNA-depend 54.6 7.2E+02 0.016 34.2 19.1 6 143-148 1802-1807(1958)
96 PRK12860 transcriptional activ 50.1 8.2 0.00018 41.5 1.4 30 453-485 131-161 (189)
97 KOG0391 SNF2 family DNA-depend 49.7 8.9E+02 0.019 33.5 19.1 7 44-50 1663-1669(1958)
98 PRK03954 ribonuclease P protei 49.5 10 0.00022 38.0 1.8 35 457-491 65-106 (121)
99 PF09082 DUF1922: Domain of un 47.2 8.3 0.00018 34.7 0.7 30 456-491 3-32 (68)
100 COG1198 PriA Primosomal protei 45.9 46 0.001 42.9 7.2 33 456-492 444-476 (730)
101 PRK12722 transcriptional activ 45.9 9.4 0.0002 41.0 1.0 31 453-486 131-162 (187)
102 COG5242 TFB4 RNA polymerase II 43.2 5.1E+02 0.011 28.9 13.5 177 533-753 20-214 (296)
103 PF13719 zinc_ribbon_5: zinc-r 42.7 13 0.00027 29.5 1.1 33 456-488 2-35 (37)
104 smart00661 RPOL9 RNA polymeras 41.0 17 0.00037 30.2 1.7 32 458-491 2-33 (52)
105 PF02318 FYVE_2: FYVE-type zin 40.6 13 0.00029 36.8 1.2 34 456-489 71-105 (118)
106 KOG4672 Uncharacterized conser 40.3 1.7E+02 0.0036 35.1 9.8 13 95-107 332-344 (487)
107 PF11265 Med25_VWA: Mediator c 40.1 5.8E+02 0.012 28.6 15.2 102 623-750 90-204 (226)
108 PF09723 Zn-ribbon_8: Zinc rib 38.4 17 0.00036 29.6 1.2 30 457-487 6-35 (42)
109 PF09779 Ima1_N: Ima1 N-termin 37.9 21 0.00045 36.2 2.1 33 457-491 1-33 (131)
110 PF05762 VWA_CoxE: VWA domain 36.9 50 0.0011 36.2 5.0 46 531-583 54-100 (222)
111 PRK12380 hydrogenase nickel in 36.5 20 0.00044 35.4 1.7 28 455-488 69-96 (113)
112 PF13717 zinc_ribbon_4: zinc-r 34.9 19 0.00042 28.3 1.0 32 456-487 2-34 (36)
113 COG1096 Predicted RNA-binding 34.8 22 0.00047 38.1 1.7 25 457-487 150-174 (188)
114 PF10122 Mu-like_Com: Mu-like 34.7 14 0.00031 31.4 0.2 34 456-491 4-37 (51)
115 TIGR02605 CxxC_CxxC_SSSS putat 34.7 20 0.00042 30.1 1.1 31 457-488 6-36 (52)
116 PF11781 RRN7: RNA polymerase 34.5 27 0.00058 27.6 1.7 28 456-488 8-35 (36)
117 PF08271 TF_Zn_Ribbon: TFIIB z 34.3 43 0.00093 27.2 2.9 27 458-487 2-28 (43)
118 PRK14890 putative Zn-ribbon RN 33.9 16 0.00035 32.1 0.4 28 450-487 30-57 (59)
119 TIGR00100 hypA hydrogenase nic 33.4 25 0.00054 34.9 1.7 27 456-488 70-96 (115)
120 KOG3799 Rab3 effector RIM1 and 32.4 24 0.00051 35.7 1.4 33 454-490 87-119 (169)
121 cd00350 rubredoxin_like Rubred 32.2 27 0.00059 26.8 1.4 23 458-486 3-25 (33)
122 cd00730 rubredoxin Rubredoxin; 30.6 22 0.00047 30.2 0.7 30 458-487 3-43 (50)
123 KOG0445 Actin regulatory prote 30.5 61 0.0013 40.8 4.6 42 997-1038 362-410 (919)
124 PF02905 EBV-NA1: Epstein Barr 30.1 70 0.0015 32.1 4.1 33 552-584 112-145 (146)
125 PRK03681 hypA hydrogenase nick 29.9 31 0.00066 34.2 1.7 28 455-488 69-97 (114)
126 PF08792 A2L_zn_ribbon: A2L zi 29.0 63 0.0014 25.1 2.9 30 455-488 2-31 (33)
127 PF12257 DUF3608: Protein of u 28.6 5.9E+02 0.013 29.4 11.8 63 643-732 202-273 (281)
128 smart00834 CxxC_CXXC_SSSS Puta 27.4 30 0.00065 27.2 1.0 29 457-486 6-34 (41)
129 KOG1923 Rac1 GTPase effector F 27.2 2E+02 0.0044 37.0 8.3 16 551-566 562-577 (830)
130 COG1996 RPC10 DNA-directed RNA 26.6 35 0.00076 29.0 1.2 27 457-487 7-33 (49)
131 PF07282 OrfB_Zn_ribbon: Putat 26.3 41 0.00088 29.8 1.7 28 456-487 28-55 (69)
132 KOG2893 Zn finger protein [Gen 25.0 7E+02 0.015 27.9 10.9 7 70-76 135-141 (341)
133 smart00132 LIM Zinc-binding do 25.0 57 0.0012 24.7 2.1 30 458-487 1-36 (39)
134 KOG2846 Predicted membrane pro 24.8 34 0.00073 39.7 1.1 36 456-491 220-255 (328)
135 TIGR00311 aIF-2beta translatio 24.7 73 0.0016 32.6 3.3 32 456-490 97-130 (133)
136 PF12760 Zn_Tnp_IS1595: Transp 24.4 79 0.0017 26.1 2.9 27 457-486 19-45 (46)
137 COG4548 NorD Nitric oxide redu 23.8 3.5E+02 0.0075 33.8 9.1 165 532-750 445-616 (637)
138 KOG3355 Mitochondrial sulfhydr 23.5 59 0.0013 34.5 2.4 34 1088-1121 119-153 (177)
139 PRK00564 hypA hydrogenase nick 23.0 33 0.00071 34.1 0.5 28 455-488 70-98 (117)
140 PRK12286 rpmF 50S ribosomal pr 22.9 64 0.0014 28.2 2.2 26 455-489 26-51 (57)
141 PF06943 zf-LSD1: LSD1 zinc fi 22.6 79 0.0017 23.2 2.2 24 459-486 1-24 (25)
142 PF14803 Nudix_N_2: Nudix N-te 22.3 26 0.00056 27.5 -0.3 30 458-487 2-31 (34)
143 COG3285 Predicted eukaryotic-t 21.8 4.2E+02 0.009 30.7 8.8 19 648-666 202-220 (299)
144 smart00401 ZnF_GATA zinc finge 21.5 54 0.0012 27.9 1.5 32 456-487 3-34 (52)
145 PF07754 DUF1610: Domain of un 21.0 82 0.0018 23.0 2.0 24 459-486 1-24 (24)
146 PF13240 zinc_ribbon_2: zinc-r 20.5 49 0.0011 23.6 0.8 21 458-486 1-21 (23)
147 PF12773 DZR: Double zinc ribb 20.4 56 0.0012 27.0 1.3 32 455-491 11-42 (50)
148 TIGR00416 sms DNA repair prote 20.4 56 0.0012 39.9 1.9 29 456-492 7-35 (454)
149 PF00301 Rubredoxin: Rubredoxi 20.3 31 0.00067 29.0 -0.2 30 458-487 3-43 (47)
150 PF05280 FlhC: Flagellar trans 20.3 30 0.00064 36.9 -0.4 31 453-486 131-162 (175)
151 cd02342 ZZ_UBA_plant Zinc fing 20.1 72 0.0016 26.4 1.8 22 457-485 1-22 (43)
No 1
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.1e-197 Score=1710.12 Aligned_cols=762 Identities=52% Similarity=0.900 Sum_probs=735.0
Q ss_pred CCCCCCCCCCCCCCCccCCccccccCC-CCCCCCCCCCCCceeecCCCCCCCCceEeeccccCCCHHHhhhcCCceEEEE
Q 001219 355 PASSKIDPQQIPRPVPSSTVVLYDTRE-GNQANPPPPATSEYIVRDMGNCSPRYMRCTISQIPCTNDLLTTSGMQLALLV 433 (1121)
Q Consensus 355 ~~~~~idp~~iP~P~~~~~~~~~~t~~-~~~~~~PP~~~t~~~~~D~gN~sP~~iR~T~~~iP~t~~ll~~~~LPlgivv 433 (1121)
+.++|+||++||+|+++...+.+.++. .....+||++||+|++.|||||||||||||+|+||+|.|+++.++||||+||
T Consensus 236 ~~~~rldp~~iPs~~qv~~~d~~~~r~~~~~~~~PPl~TTd~~~~DqGN~sPr~mr~T~Y~iP~T~Dl~~as~iPLalvI 315 (1007)
T KOG1984|consen 236 PPPQRLDPNAIPSPPQVSIEDDSSFRSTDTRAQPPPLVTTDFFIQDQGNCSPRFMRCTMYTIPCTNDLLKASQIPLALVI 315 (1007)
T ss_pred CccccCChhhCCCchhcccchhhhhhcCCccCCCCCCcccceEEeccCCCCcchheeecccCCccHhHHHhcCCcceeEe
Confidence 366899999999999885555444442 3445689999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCCCCcccccCCCCCCcccCCCCceecCceEEEecCCeEEecCCCCCCCCCcccccCCCCCCCCCCCCCCCCc
Q 001219 434 QPLALPHPSEEPIQIVDFGDMGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLGPDGRRRDADDRPEL 513 (1121)
Q Consensus 434 ~Pfa~~~~~e~pvPvvd~g~~~pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL 513 (1121)
+|||.+++.|+++++||+++.+++||+||||||||||+|+++||+|+||||+.+|+++++||++|+++|||+|+++||||
T Consensus 316 qPfa~l~p~E~~~~vVd~g~sgPvRC~RCkaYinPFmqF~~~gr~f~Cn~C~~~n~vp~~yf~~L~~~grr~D~~erpEL 395 (1007)
T KOG1984|consen 316 QPFATLTPNEAPVPVVDLGESGPVRCNRCKAYINPFMQFIDGGRKFICNFCGSKNQVPDDYFNHLGPTGRRVDVEERPEL 395 (1007)
T ss_pred cccccCCcccCCCceecCCCCCCcchhhhhhhcCcceEEecCCceEEecCCCccccCChhhcccCCCcccccccccCchh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCccEEEEeccccccC--CCCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCC-CCCCceEEEEEeCCEEEEEecCC
Q 001219 514 CRGTVEFVATKEYMVR--DPMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLP-EGPRTMVGIATFDSTIHFYNLKR 590 (1121)
Q Consensus 514 ~~gtVEyvap~eY~~r--~p~pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp-~~~rt~VGiITFDs~Vhfynl~~ 590 (1121)
++|+|||+|+++||++ ++++++|||+||||++|+++|++.++|++|+++|++|+ ++++++|||||||++|||||+++
T Consensus 396 ~~Gt~dfvatk~Y~~~~k~p~ppafvFmIDVSy~Ai~~G~~~a~ce~ik~~l~~lp~~~p~~~Vgivtfd~tvhFfnl~s 475 (1007)
T KOG1984|consen 396 CLGTVDFVATKDYCRKTKPPKPPAFVFMIDVSYNAISNGAVKAACEAIKSVLEDLPREEPNIRVGIVTFDKTVHFFNLSS 475 (1007)
T ss_pred cccccceeeehhhhhcCCCCCCceEEEEEEeehhhhhcchHHHHHHHHHHHHhhcCccCCceEEEEEEecceeEeeccCc
Confidence 9999999999999997 89999999999999999999999999999999999999 68899999999999999999999
Q ss_pred CCCCceEeecCCccccccCCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc-CCeEEEEec
Q 001219 591 ALQQPLMLIVPDVEDVYTPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-GGKLLVFQS 669 (1121)
Q Consensus 591 ~~~~pqmlVvsDldd~fvPl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~-GGkIivF~s 669 (1121)
++++++|+||+|++|+|+|+.++|||+..||+..|+.|||+|+.||.+.+.+++|+|+||++|.++||.. ||||+||++
T Consensus 476 ~L~qp~mliVsdv~dvfvPf~~g~~V~~~es~~~i~~lLd~Ip~mf~~sk~pes~~g~alqaa~lalk~~~gGKl~vF~s 555 (1007)
T KOG1984|consen 476 NLAQPQMLIVSDVDDVFVPFLDGLFVNPNESRKVIELLLDSIPTMFQDSKIPESVFGSALQAAKLALKAADGGKLFVFHS 555 (1007)
T ss_pred cccCceEEEeecccccccccccCeeccchHHHHHHHHHHHHhhhhhccCCCCchhHHHHHHHHHHHHhccCCceEEEEec
Confidence 9999999999999999999999999999999999999999999999999999999999999999999987 999999999
Q ss_pred CCCCcCcc-cccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEE
Q 001219 670 VLPSVGIG-ALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQV 748 (1121)
Q Consensus 670 g~Pt~GpG-~L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v 748 (1121)
.+||+|.| +|+.|+|.. +++++||++++.+++++|++||++|++.|||||||++...|+|+|+|+.+++.|||++
T Consensus 556 ~Lpt~g~g~kl~~r~D~~----l~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~v 631 (1007)
T KOG1984|consen 556 VLPTAGAGGKLSNRDDRR----LIGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQV 631 (1007)
T ss_pred ccccccCcccccccchhh----hhcccchhhccCcchhHHHHHHHHHHHhCceEEEEEcccceeeeeeecccccccCcee
Confidence 99999986 999988866 8899999999999999999999999999999999999999999999999999999999
Q ss_pred EEeCCCCCCCchhHHHHHHHHhccCCccccceEEEEeCCCcEEEeeeCccccCCCCceeecCCCCCCeEEEEEEecCCCC
Q 001219 749 YYYYPFSALSDPAKLYNDLRWNITRPQGFEAVMRVRCSQGIQVQEYHGNFCKRIPTDIDLPAIDCNKAIMVTLKHDDKLQ 828 (1121)
Q Consensus 749 ~~y~~F~~~~d~~~L~~dL~r~ltr~~g~~a~mrVR~S~GL~V~~~~G~f~~r~~~~~~lp~id~dtSia~el~~d~~L~ 828 (1121)
|+|.+|.++.|..+|.+||+|++++++||+|+||||||+||++.+|||||+++++++++|+.+|+||+++++|+|||+|+
T Consensus 632 y~Y~~F~a~~D~~rl~nDL~~~vtk~~gf~a~mrvRtStGirv~~f~Gnf~~~~~tDiela~lD~dkt~~v~fkhDdkLq 711 (1007)
T KOG1984|consen 632 YKYYPFQALTDGPRLLNDLVRNVTKKQGFDAVMRVRTSTGIRVQDFYGNFLMRNPTDIELAALDCDKTLTVEFKHDDKLQ 711 (1007)
T ss_pred EEecchhhcccHHHHHHHHHHhcccceeeeeEEEEeecCceeeeeeechhhhcCCCCccccccccCceeEEEEecccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCceEEEEEEEEEecCCcEEEEEEcccccCCCCHHHHHhccChhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Q 001219 829 DGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSNLSNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALV 908 (1121)
Q Consensus 829 ~~~~~~~Q~AlLYT~~~GeRrIRV~Tl~lpVts~l~~vf~~~D~dai~~~laK~a~~~~~~~~l~d~R~~L~~~lv~iL~ 908 (1121)
++..++||+|||||+.+|+|||||||++++||+++.|+||++|.|+++++|+|.|+..+.++.++++|+.|+++|++||+
T Consensus 712 ~~s~~~fQ~AlLYTti~G~RR~Rv~Nlsl~~ts~l~~lyr~~~~d~l~a~maK~a~~~i~~~~lk~vre~l~~~~~~iL~ 791 (1007)
T KOG1984|consen 712 DGSDVHFQTALLYTTIDGQRRLRVLNLSLAVTSQLSELYRSADTDPLIAIMAKQAAKAILDKPLKEVREQLVSQCAQILA 791 (1007)
T ss_pred CCcceeEEEEEEEeccCCceeEEEEecchhhhhhHHHHHHhcCccHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcccCCCCCcccchhhhchHHHHHHHHhhccCCC-CCCCchHHHHHHHHHcCCChhhhhhcccceeEEeecCCCCC
Q 001219 909 SYRKFCATVSSSGQLILPEALKLLPLYTLALIKSTGLR-TDGRIDDRSFWITYVSSVSIPFAVPFVYPRMVAIHDLDKGE 987 (1121)
Q Consensus 909 ~Yrk~~a~~~s~gqLiLPesLklLPlyil~LlKS~~L~-~~~s~DeR~~~~~~l~s~~v~~~l~~lYPrLy~lh~l~~~d 987 (1121)
.|||+|++..+++||||||+||+||+|+++|+||.+|+ .+++.|+|+|++.++.++++++++.+|||||+++|+++.+|
T Consensus 792 ~YRk~cas~~ssgQLILPeslKLlPly~la~lKs~~l~~~~~~~DdRi~~~~~v~sl~v~~~~~~~YPrl~p~hdl~i~d 871 (1007)
T KOG1984|consen 792 SYRKNCASPASSGQLILPESLKLLPLYMLALLKSSALRPQEIRTDDRIYQLQLVTSLSVEQLMPFFYPRLLPFHDLDIED 871 (1007)
T ss_pred HHHHhhcCCCCcccEechhhhHHHHHHHHHHHHhhcccccccccchhHHHHHHhhcccHHhhhhhhccceeeeecccccc
Confidence 99999999999999999999999999999999999999 89999999999999999999999999999999999997653
Q ss_pred -CCCCCCCccccccccccCCcEEEEEcCceEEEEecCCCCHHHHHHhhCCCCCCCCCc-ccccCCCCcHhHHHHHHHHHH
Q 001219 988 -DGSIIPPFLPLSSEHVSDEGIYLLENGEDALIYIGSSVDSSILHQLFGISSVDEVPT-QFVLQQYDNPLSKKLNDVVNE 1065 (1121)
Q Consensus 988 -~~~~lP~~l~LS~e~L~~dgiYLLD~G~~i~lwvG~~v~~~ll~~lFGv~s~~~i~~-~~~lp~~dn~ls~~l~~iI~~ 1065 (1121)
.+..+|..|++|.|+|+.+||||||||+++|||||++|+++|+|+||+|++.++|+. ...||++||.+|+++|++|..
T Consensus 872 tl~~~~p~~VraS~e~l~negiYll~nG~~~ylwvg~sv~~~llQ~lf~V~s~~~i~s~~~~Lpe~dn~lS~k~r~~i~~ 951 (1007)
T KOG1984|consen 872 TLEFVLPKAVRASSEFLSNEGIYLLDNGQKIYLWVGESVDPDLLQDLFSVSSFEQIDSQSGVLPELDNPLSRKVRNVISL 951 (1007)
T ss_pred ccccccccceecchhhccCCceEEEecCcEEEEEecCCCCHHHHHHHhcCccccccccccccccccCcHHHHHHHHHHHH
Confidence 234789999999999999999999999999999999999999999999999999994 478999999999999999999
Q ss_pred HHHccCCcceEEEEecCCCc-HHHHHhhcccCCCCCCCCCHHHHHHHHHHHHHhhhC
Q 001219 1066 IRRQRCSYLRLKLCKKGDPS-GMVFFSYLVEDKIPTGGQSYVEFLINIHRQIQLKMS 1121 (1121)
Q Consensus 1066 lr~~r~~y~~l~ivrqg~~~-e~~f~~~LVED~~~~~~~SY~dFL~~lHk~I~~~l~ 1121 (1121)
||+.|..+++++++|+|.+. |.+|.++||||+ +++.+||+||||.|||+|+++++
T Consensus 952 i~~~r~~~l~v~~~k~g~~~~~~~~~~~lved~-~~~~~sY~dyL~~~H~ki~~~l~ 1007 (1007)
T KOG1984|consen 952 IRRQRSSELPVVLVKQGLDGSEVEFSEYLVEDR-GRNISSYVDYLCELHKKIQQKLS 1007 (1007)
T ss_pred HHhccccccccEEEecCCCchhhhhhhhhhccc-ccCccccchHHHHHHHHHHhhcC
Confidence 99999999999999999764 689999999999 88899999999999999999974
No 2
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=3.6e-164 Score=1433.36 Aligned_cols=709 Identities=39% Similarity=0.732 Sum_probs=676.0
Q ss_pred CCCCCCCceEeeccccCCCHHHhhhcCCceEEEEccCCCCCCCCCCcccccCCCCCCcccCCCCceecCceEEEecCCeE
Q 001219 400 MGNCSPRYMRCTISQIPCTNDLLTTSGMQLALLVQPLALPHPSEEPIQIVDFGDMGPVRCSRCKAYINPFMKFIDQGRRF 479 (1121)
Q Consensus 400 ~gN~sP~~iR~T~~~iP~t~~ll~~~~LPlgivv~Pfa~~~~~e~pvPvvd~g~~~pvRC~rCrAYiNPf~~f~~~g~~W 479 (1121)
.-||+|+|+|+|+++||.++++++++|||||++|+||+++. ++++++++. ...|+||++||+||||||.|++.||+|
T Consensus 165 ~~nc~p~y~RsTl~~iP~t~sLl~kskLPlglvv~Pf~~~~-d~~~~p~~~--~~~IvRCr~CRtYiNPFV~fid~gr~W 241 (887)
T KOG1985|consen 165 SSNCSPSYVRSTLSAIPQTQSLLKKSKLPLGLVVHPFAHLD-DIDPLPVIT--STLIVRCRRCRTYINPFVEFIDQGRRW 241 (887)
T ss_pred ccCCCHHHHHHHHHhCCccHHHHHhcCCCceEEEeeccccc-ccCCCCccc--CCceeeehhhhhhcCCeEEecCCCcee
Confidence 45999999999999999999999999999999999999886 445577664 678999999999999999999999999
Q ss_pred EecCCCCCCCCCcccccCCCCCCCCCCCCCCCCccCccEEEEeccccccCCCCCcEEEEEEEcchhHHhhhHHHHHHHHH
Q 001219 480 ICSLCGFTDETPRDYHCNLGPDGRRRDADDRPELCRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAI 559 (1121)
Q Consensus 480 ~CnfC~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL~~gtVEyvap~eY~~r~p~pp~yvFvIDvS~~av~sG~l~~v~~aI 559 (1121)
+||+|+..|+||.+|+.+. -++.+.|..+||||++++|||+||.|||.|+|+|++||||||||.+|+++|+|+++|++|
T Consensus 242 rCNlC~~~NdvP~~f~~~~-~t~~~~~~~~RpEl~~s~vE~iAP~eYmlR~P~Pavy~FliDVS~~a~ksG~L~~~~~sl 320 (887)
T KOG1985|consen 242 RCNLCGRVNDVPDDFDWDP-LTGAYGDPYSRPELTSSVVEFIAPSEYMLRPPQPAVYVFLIDVSISAIKSGYLETVARSL 320 (887)
T ss_pred eechhhhhcCCcHHhhcCc-cccccCCcccCccccceeEEEecCcccccCCCCCceEEEEEEeehHhhhhhHHHHHHHHH
Confidence 9999999999999998774 356788999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcccceeehHHhHHHHHHHHhhcCccccCC
Q 001219 560 SQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDIIVPVSECRQHLELLLESIPSMFQNN 639 (1121)
Q Consensus 560 ~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~ 639 (1121)
++.||.|+.++|+||||||||++||||++..++++++|++|+|+||+|+|.+++|||+++|||+.|+.+|+.|+.||.++
T Consensus 321 L~~LD~lpgd~Rt~igfi~fDs~ihfy~~~~~~~qp~mm~vsdl~d~flp~pd~lLv~L~~ck~~i~~lL~~lp~~F~~~ 400 (887)
T KOG1985|consen 321 LENLDALPGDPRTRIGFITFDSTIHFYSVQGDLNQPQMMIVSDLDDPFLPMPDSLLVPLKECKDLIETLLKTLPEMFQDT 400 (887)
T ss_pred HHhhhcCCCCCcceEEEEEeeceeeEEecCCCcCCCceeeeccccccccCCchhheeeHHHHHHHHHHHHHHHHHHHhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcchHHHHHHHHHHHHHhcCCeEEEEecCCCCcCcccccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcC
Q 001219 640 RTAESAFGAAVKAAFLALKSTGGKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQ 719 (1121)
Q Consensus 640 ~~~~~~lG~AL~aA~~lL~~~GGkIivF~sg~Pt~GpG~L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~g 719 (1121)
+..++|+|+||++|.++|+.+||||++|++++||+|.|+|+.||+.+ ..+++++..++.+++.|||+||.+|++.|
T Consensus 401 ~~t~~alGpALkaaf~li~~~GGri~vf~s~lPnlG~G~L~~rEdp~----~~~s~~~~qlL~~~t~FYK~~a~~cs~~q 476 (887)
T KOG1985|consen 401 RSTGSALGPALKAAFNLIGSTGGRISVFQSTLPNLGAGKLKPREDPN----VRSSDEDSQLLSPATDFYKDLALECSKSQ 476 (887)
T ss_pred cCcccccCHHHHHHHHHHhhcCCeEEEEeccCCCCCccccccccccc----cccchhhhhccCCCchHHHHHHHHhccCc
Confidence 99999999999999999999999999999999999999999998765 67788888999999999999999999999
Q ss_pred eEEEEEEecCCccCcccccccccccceEEEEeCCCCCC--CchhHHHHHHHHhccCCccccceEEEEeCCCcEEEeeeCc
Q 001219 720 VCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSAL--SDPAKLYNDLRWNITRPQGFEAVMRVRCSQGIQVQEYHGN 797 (1121)
Q Consensus 720 IsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~--~d~~~L~~dL~r~ltr~~g~~a~mrVR~S~GL~V~~~~G~ 797 (1121)
||||+|+++.+|.|+|+|+.|+++|||++|||++|+.. .|..||.+||.|+|+|++||||+||||||+||+++.||||
T Consensus 477 I~VDlFl~s~qY~DlAsLs~LskySgG~~y~YP~f~~s~p~~~~Kf~~el~r~Ltr~~~feaVmRiR~S~gl~~~~f~Gn 556 (887)
T KOG1985|consen 477 ICVDLFLFSEQYTDLASLSCLSKYSGGQVYYYPSFDGSNPHDVLKFARELARYLTRKIGFEAVMRIRCSTGLRMSSFFGN 556 (887)
T ss_pred eEEEEEeecccccchhhhhccccccCceeEEccCCCCCCHHHHHHHHHHHHHHhhhhhhhheeEEeeccccccccceecc
Confidence 99999999999999999999999999999999999987 4788999999999999999999999999999999999999
Q ss_pred cccCCCCceeecCCCCCCeEEEEEEecCCCCCCCceEEEEEEEEEecCCcEEEEEEcccccCCCCHHHHHhccChhHHHH
Q 001219 798 FCKRIPTDIDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSNLSNLYRSADLDTQFT 877 (1121)
Q Consensus 798 f~~r~~~~~~lp~id~dtSia~el~~d~~L~~~~~~~~Q~AlLYT~~~GeRrIRV~Tl~lpVts~l~~vf~~~D~dai~~ 877 (1121)
|+.|++|++.++++++|++++|++++|+++.+ ..++||+|+|||..+|||||||||+++++++++.|||+++|++||+.
T Consensus 557 FF~RStDLla~~~v~~D~sy~~qisiEesl~~-~~~~fQvAlLyT~~~GERRIRV~T~~lpt~~sl~evY~saD~~AI~~ 635 (887)
T KOG1985|consen 557 FFVRSTDLLALPNVNPDQSYAFQISIEESLTT-GFCVFQVALLYTLSKGERRIRVHTLCLPTVSSLNEVYASADQEAIAS 635 (887)
T ss_pred cccCcHHHhcccCCCCCccceEEEEeehhcCC-ceeEEEeeeeecccCCceeEEEEEeeccccccHHHHHhhcCHHHHHH
Confidence 99999999999999999999999999999864 56779999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHhhccc-CCCCCcccchhhhchHHHHHHHHhhccCCC--CCCCchHH
Q 001219 878 CFMKQAASEIPSTPLANVREQMMNLCVNALVSYRKFCAT-VSSSGQLILPEALKLLPLYTLALIKSTGLR--TDGRIDDR 954 (1121)
Q Consensus 878 ~laK~a~~~~~~~~l~d~R~~L~~~lv~iL~~Yrk~~a~-~~s~gqLiLPesLklLPlyil~LlKS~~L~--~~~s~DeR 954 (1121)
+|+|+|+++.++..+.|+|+.|++.++++|.+||+..+. +.....|.+|.+|++||+|+++|+|+++|| .+++.|+|
T Consensus 636 lla~~Av~ksl~ssL~dardal~~~~~D~l~aYk~~~~~~~~~~~~l~~p~~LrllPllvlALlK~~~fr~g~~~~lD~R 715 (887)
T KOG1985|consen 636 LLAKKAVEKSLSSSLSDARDALTNAVVDILNAYKKLVSNQNGQGITLSLPASLRLLPLLVLALLKHPAFRPGTGTRLDYR 715 (887)
T ss_pred HHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhcccccCCcceecCcchhhhHHHHHHHhcCCcccCCCCCCchHH
Confidence 999999999999999999999999999999999996553 344567999999999999999999999999 57999999
Q ss_pred HHHHHHHcCCChhhhhhcccceeEEeecCCCC------CCCCCCCCccccccccccCCcEEEEEcCceEEEEecCCCCHH
Q 001219 955 SFWITYVSSVSIPFAVPFVYPRMVAIHDLDKG------EDGSIIPPFLPLSSEHVSDEGIYLLENGEDALIYIGSSVDSS 1028 (1121)
Q Consensus 955 ~~~~~~l~s~~v~~~l~~lYPrLy~lh~l~~~------d~~~~lP~~l~LS~e~L~~dgiYLLD~G~~i~lwvG~~v~~~ 1028 (1121)
++++++++++++..++++|||.||++|+++.+ |+.+.+|+.++|+.+.|+.+|+||||+|..+|||||++++++
T Consensus 716 ~~a~~~~~~lpl~~L~k~IYP~Lysl~~l~~ea~~~~~d~~~~~p~~L~ltae~l~~~GlyL~D~g~~lfl~vg~~a~P~ 795 (887)
T KOG1985|consen 716 AYAMCLMSTLPLKYLMKYIYPTLYSLHDLDDEAGLPIHDQTVVLPPPLNLTAELLSRRGLYLMDTGTTLFLWVGSNADPS 795 (887)
T ss_pred HHHHHHhhcCCHHHHHhhhcccceeccccccccCcccccccccCCCccchHHHHhccCceEEEecCcEEEEEEcCCCCcc
Confidence 99999999999999999999999999999764 455678999999999999999999999999999999999999
Q ss_pred HHHHhhCCCCCCCCC-cccccCCCCcHhHHHHHHHHHHHHHccCCcceEEEEecCCC--cHHHHHhhcccCCCCCCCCCH
Q 001219 1029 ILHQLFGISSVDEVP-TQFVLQQYDNPLSKKLNDVVNEIRRQRCSYLRLKLCKKGDP--SGMVFFSYLVEDKIPTGGQSY 1105 (1121)
Q Consensus 1029 ll~~lFGv~s~~~i~-~~~~lp~~dn~ls~~l~~iI~~lr~~r~~y~~l~ivrqg~~--~e~~f~~~LVED~~~~~~~SY 1105 (1121)
++.++||++.+.+++ .++.|+++||+.++++++||++||.+|..++.++|||+++. ...||.++||||+ +.+..||
T Consensus 796 ll~~vfg~~~~adi~~~~~~lp~~~n~~s~r~~~fI~~lR~d~~~~p~~~ivr~~~~s~~k~~f~~~lvEDr-s~~~~SY 874 (887)
T KOG1985|consen 796 LLFDVFGVSTLADIPIGKYTLPELDNEESDRVRRFIKKLRDDRTYFPNLYIVRGDDNSPLKAWFFSRLVEDR-SENSPSY 874 (887)
T ss_pred ccccccCcchHhhcccccccCcccccchhHHHHHHHHHhhcCCcccceEEEEecCCCchHHHHHHHHHHhhh-hcCcHHH
Confidence 999999999999998 78899999999999999999999999999999999997754 3789999999999 9999999
Q ss_pred HHHHHHHHHHHHh
Q 001219 1106 VEFLINIHRQIQL 1118 (1121)
Q Consensus 1106 ~dFL~~lHk~I~~ 1118 (1121)
+|||.+||++|++
T Consensus 875 ~efLq~lk~qv~~ 887 (887)
T KOG1985|consen 875 YEFLQHLKAQVSK 887 (887)
T ss_pred HHHHHHHHHHhcC
Confidence 9999999999974
No 3
>PTZ00395 Sec24-related protein; Provisional
Probab=100.00 E-value=2e-157 Score=1426.23 Aligned_cols=743 Identities=26% Similarity=0.455 Sum_probs=672.8
Q ss_pred CCCCCCCCCCCCCCccC-------CccccccCCCCCCCCCCCCCCceeecCCCCCCCCceEeeccccCCCHHHhhhcCCc
Q 001219 356 ASSKIDPQQIPRPVPSS-------TVVLYDTREGNQANPPPPATSEYIVRDMGNCSPRYMRCTISQIPCTNDLLTTSGMQ 428 (1121)
Q Consensus 356 ~~~~idp~~iP~P~~~~-------~~~~~~t~~~~~~~~PP~~~t~~~~~D~gN~sP~~iR~T~~~iP~t~~ll~~~~LP 428 (1121)
...|||+++||||+... ..++|+|+++. .||+.+++|+++|+|||+|+|||+|||+||.+.++++.++||
T Consensus 599 ~~~ri~~~~ip~p~~~~~~~~~~~~~~~~~t~k~~---~pp~~~~~~~~~dtgn~dP~~~r~tmY~iP~~~~~~~~~~iP 675 (1560)
T PTZ00395 599 TINRIDMNKIPRPIINTQEKKKKKNLKVFETCKYI---SPPSYYQPYISIDTGKADPRFLKSTLYQIPLFSETLKLSQIP 675 (1560)
T ss_pred cccccCcccCCCcccccccccccccchhhhhccCC---CCCCCCCceEEeecCCCChhhhhhhhhcCcchHHHHHhcCCC
Confidence 45799999999999762 33689998653 579999999999999999999999999999999999999999
Q ss_pred eEEEEccCCCCCCCCCCcccccCC--------CCCCcccCCCCceecCceEEEecCCeEEecCCCCCCCCCcc-------
Q 001219 429 LALLVQPLALPHPSEEPIQIVDFG--------DMGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRD------- 493 (1121)
Q Consensus 429 lgivv~Pfa~~~~~e~pvPvvd~g--------~~~pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~vP~~------- 493 (1121)
|||||+|||.+.++|. |+.+|.. ..+++||.+|++|+|+++.|+-. ++++||||+..+.+..+
T Consensus 676 ~gi~v~Pfa~~~~~e~-~~~~~~~~~~~d~~~~~~~~rc~~c~~y~~~~~~~~~~-~~~~c~~c~~~~~i~e~~~~~~~~ 753 (1560)
T PTZ00395 676 FGIIVNPFACLNEGEG-IDKIDMKDIINDKEENIEILRCPKCLGYLHATILEDIS-SSVQCVFCDTDFLINENVLFDIFQ 753 (1560)
T ss_pred ceeecchhhhcCCCCC-CcccchhhcccchhhccceeecchhHhhhcchheeccc-ceEEEEecCCcchhhHHHHHHHHH
Confidence 9999999999888775 8888775 24789999999999999999976 78999999999988542
Q ss_pred cccCCCCCCCCCCCCCCC----CccCccEEEEecccccc-----------------------------------------
Q 001219 494 YHCNLGPDGRRRDADDRP----ELCRGTVEFVATKEYMV----------------------------------------- 528 (1121)
Q Consensus 494 Y~~~ld~~g~R~D~~~rP----EL~~gtVEyvap~eY~~----------------------------------------- 528 (1121)
|-..+.+ +..|.+++- -|.+|+||+++|..|..
T Consensus 754 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 831 (1560)
T PTZ00395 754 YNEKIGH--KESDHNEHGNSLSPLLKGSVDIIIPPIYYHNVNKFKLTYTYLNKNINQTAFMITNKIMSFTKHISNSLVAN 831 (1560)
T ss_pred Hhhhhcc--ccccccccccccchhhcCceeEEccchhhccCCccceeeehhhcchhhhhhhhhhhhhhhhhhhcchheec
Confidence 2122211 112222221 36799999999865410
Q ss_pred --------------------------------------------------------------------------------
Q 001219 529 -------------------------------------------------------------------------------- 528 (1121)
Q Consensus 529 -------------------------------------------------------------------------------- 528 (1121)
T Consensus 832 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 911 (1560)
T PTZ00395 832 DSKGGNKATSASAFGDSGDANFLAGGGYTNYGGAGGYNTYDNQSGYNNHDVVNNRGGSGAGNHLYGKDHDVQNFDNVMDN 911 (1560)
T ss_pred ccccccccchhhhcccccccccccccccccccccccccccccccccccccccccccccCcCcccccCcccccchhhhccC
Confidence
Q ss_pred ------------------------------------CCCCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCc
Q 001219 529 ------------------------------------RDPMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRT 572 (1121)
Q Consensus 529 ------------------------------------r~p~pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt 572 (1121)
+.++||+||||||||+.||++|+++++|++|+++|+.|+ ++|+
T Consensus 912 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~PP~YvFLIDVS~~AVkSGLl~tacesIK~sLDsL~-dpRT 990 (1560)
T PTZ00395 912 ANFTIHDMKNLICEKNGEPDSAKIRRNSFLAKYPQVKNMLPPYFVFVVECSYNAIYNNITYTILEGIRYAVQNVK-CPQT 990 (1560)
T ss_pred CceeeecchhhhhcccCCchhhhhhccchhhccccccCCCCCEEEEEEECCHHHHhhChHHHHHHHHHHHHhcCC-CCCc
Confidence 115789999999999999999999999999999999997 5789
Q ss_pred eEEEEEeCCEEEEEecCCC-------------CCCceEeecCCccccccCCc-ccceeehHHhHHHHHHHHhhcCccccC
Q 001219 573 MVGIATFDSTIHFYNLKRA-------------LQQPLMLIVPDVEDVYTPLQ-SDIIVPVSECRQHLELLLESIPSMFQN 638 (1121)
Q Consensus 573 ~VGiITFDs~Vhfynl~~~-------------~~~pqmlVvsDldd~fvPl~-~~lLv~l~e~~~~I~~lLd~Lp~~f~~ 638 (1121)
||||||||++||||+|+.+ +.++||+||+||||+|+|++ ++|||++.|+|+.|+.||++|+.+|..
T Consensus 991 RVGIITFDSsLHFYNLks~l~~~~~~~~~~~~l~qPQMLVVSDLDDPFLPlP~ddLLVnL~ESRevIe~LLDkLPemFt~ 1070 (1560)
T PTZ00395 991 KIAIITFNSSIYFYHCKGGKGVSGEEGDGGGGSGNHQVIVMSDVDDPFLPLPLEDLFFGCVEEIDKINTLIDTIKSVSTT 1070 (1560)
T ss_pred EEEEEEecCcEEEEecCcccccccccccccccCCCceEEeecCCccCcCCCCccCeeechHHHHHHHHHHHHHHHHHhhc
Confidence 9999999999999999875 47899999999999999998 899999999999999999999999999
Q ss_pred CCCCcchHHHHHHHHHHHHHhcC--CeEEEEecCCCCcCcccccccccccCCCCCCCccccccccchhHHHHHHHHHHHH
Q 001219 639 NRTAESAFGAAVKAAFLALKSTG--GKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFA 716 (1121)
Q Consensus 639 ~~~~~~~lG~AL~aA~~lL~~~G--GkIivF~sg~Pt~GpG~L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~ 716 (1121)
....++|+|+||++|.++|+..| |||++|++++|++|+|+|+.|++ +.+|+.++.++++||++||.+|+
T Consensus 1071 t~~~esCLGSALqAA~~aLk~~GGGGKIiVF~SSLPniGpGaLK~Re~---------~~KEk~Ll~pqd~FYK~LA~ECs 1141 (1560)
T PTZ00395 1071 MQSYGSCGNSALKIAMDMLKERNGLGSICMFYTTTPNCGIGAIKELKK---------DLQENFLEVKQKIFYDSLLLDLY 1141 (1560)
T ss_pred cCCCcccHHHHHHHHHHHHHhcCCCceEEEEEcCCCCCCCCccccccc---------ccccccccccchHHHHHHHHHHH
Confidence 88999999999999999999886 99999999999999999997653 34667788999999999999999
Q ss_pred hcCeEEEEEEecCCccC--cccccccccccceEEEEeCCCCCCCchhHHHHHHHHhccC-CccccceEEEEeCCCcEEEe
Q 001219 717 EYQVCVDVFITTQTYVD--IASISVIPKTTGGQVYYYYPFSALSDPAKLYNDLRWNITR-PQGFEAVMRVRCSQGIQVQE 793 (1121)
Q Consensus 717 ~~gIsVDlFl~s~~~~d--latL~~La~~TGG~v~~y~~F~~~~d~~~L~~dL~r~ltr-~~g~~a~mrVR~S~GL~V~~ 793 (1121)
+++|+||||+++..|+| |++|+.|+++|||+||||+.|+.++|..+|++||.+.|++ ++||+|+||||||+||+|++
T Consensus 1142 k~qISVDLFLfSsqYvDVDVATLg~Lsr~TGGqlyyYPnFna~rD~~KL~~DL~r~LTre~iGyEAVMRVRCS~GLrVs~ 1221 (1560)
T PTZ00395 1142 AFNISVDIFIISSNNVRVCVPSLQYVAQNTGGKILFVENFLWQKDYKEIYMNIMDTLTSEDIAYCCELKLRYSHHMSVKK 1221 (1560)
T ss_pred hcCCceEEEEccCcccccccccccchhcccceeEEEeCCCcccccHHHHHHHHHHHhhccceeeEEEEEEECCCCeEEEE
Confidence 99999999999999886 7999999999999999999999999999999999999998 69999999999999999999
Q ss_pred ee--Cccc--cCCCCceeecCCCCCCeEEEEEEecCCCCCCCceEEEEEEEEEecCCcEEEEEEcccccCCCCHHHHHhc
Q 001219 794 YH--GNFC--KRIPTDIDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSNLSNLYRS 869 (1121)
Q Consensus 794 ~~--G~f~--~r~~~~~~lp~id~dtSia~el~~d~~L~~~~~~~~Q~AlLYT~~~GeRrIRV~Tl~lpVts~l~~vf~~ 869 (1121)
|| |+++ .+++++++|++|++|++|+|+|+||++|.+...+|||+|||||+.+|||||||||++|+||+++.+||++
T Consensus 1222 fyG~GnnF~s~rStDLLaLP~Id~DqSfaVeLk~DEkL~~~~~AYFQaALLYTSssGERRIRVHTLALPVTSsLseVFrs 1301 (1560)
T PTZ00395 1222 LFCCNNNFNSIISVDTIKIPKIRHDQTFAFLLNYSDISESKKQIYFQCACIYTNLWGDRFVRLHTTHMNLTSSLSTVFRY 1301 (1560)
T ss_pred EeccCCccccccccccccccccCCCceEEEEEEeccccCCCCcEEEEEEEeeccCCCcEEEEEEeeeecccCCHHHHHHh
Confidence 99 4555 4688999999999999999999999999878899999999999999999999999999999999999999
Q ss_pred cChhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHhhcccCCCCCcccchhhhchHHHHHHHHhhccCCCCCC
Q 001219 870 ADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYRKFCATVSSSGQLILPEALKLLPLYTLALIKSTGLRTDG 949 (1121)
Q Consensus 870 ~D~dai~~~laK~a~~~~~~~~l~d~R~~L~~~lv~iL~~Yrk~~a~~~s~gqLiLPesLklLPlyil~LlKS~~L~~~~ 949 (1121)
+|++|++++|+|+|+.++++. .++|+.|.++|+++|++||++|++..+.+||||||+||+||+|+++|+||.+|+.++
T Consensus 1302 ADqdAIvslLAK~AV~~aLss--sdARe~L~dklVdILtaYRK~CAsssssgQLILPESLKLLPLYILSLLKS~AfRt~I 1379 (1560)
T PTZ00395 1302 TDAEALMNILIKQLCTNILHN--DNYSKIIIDNLAAILFSYRINCASSAHSGQLILPDTLKLLPLFTSSLLKHNVTKKEI 1379 (1560)
T ss_pred hcHHHHHHHHHHHHHHHhccc--HHHHHHHHHHHHHHHHHHHHHhhccCCCccccchhHHHHHHHHHHHHhccccccCCC
Confidence 999999999999999999987 499999999999999999999999888999999999999999999999999999889
Q ss_pred CchHHHHHHHHHcCCChhhhhhcccceeEEeecCCCC--------CCCCCCCCccccccccccCCcEEEEEcCceEEEEe
Q 001219 950 RIDDRSFWITYVSSVSIPFAVPFVYPRMVAIHDLDKG--------EDGSIIPPFLPLSSEHVSDEGIYLLENGEDALIYI 1021 (1121)
Q Consensus 950 s~DeR~~~~~~l~s~~v~~~l~~lYPrLy~lh~l~~~--------d~~~~lP~~l~LS~e~L~~dgiYLLD~G~~i~lwv 1021 (1121)
++|+|++++++|+++++..++.+|||+||+||++..+ ++...+|..|+||.++|+++||||||+|+.|||||
T Consensus 1380 ~sDeRVyaL~rL~SmPI~~Li~yLYPRLYpLHdL~~e~e~d~~d~d~~ivLPp~LrLS~ErLesdGIYLLDNGe~IyLWV 1459 (1560)
T PTZ00395 1380 LHDLKVYSLIKLLSMPIISSLLYVYPVMYVIHIKGKTNEIDSMDVDDDLFIPKTIPSSAEKIYSNGIYLLDACTHFYLYF 1459 (1560)
T ss_pred CccHHHHHHHHHhCCCHHHHHhhhcCceEEcccccccccCCccCCCCccccCCcccchHHHhcCCcEEEEECCCEEEEEE
Confidence 9999999999999999999999999999999997322 23356899999999999999999999999999999
Q ss_pred cCCCCHHHHHHhhCCCCCCCCCcccccCCCCcHhHHHHHHHHHHHHHcc--CCcceEEEEecCCCcHHHHHhhcccCCCC
Q 001219 1022 GSSVDSSILHQLFGISSVDEVPTQFVLQQYDNPLSKKLNDVVNEIRRQR--CSYLRLKLCKKGDPSGMVFFSYLVEDKIP 1099 (1121)
Q Consensus 1022 G~~v~~~ll~~lFGv~s~~~i~~~~~lp~~dn~ls~~l~~iI~~lr~~r--~~y~~l~ivrqg~~~e~~f~~~LVED~~~ 1099 (1121)
|++|+++|+++|||+..... ...+||++|+++++||++||+.||+.| ..|++|+|||++++.|.+|+++||||| +
T Consensus 1460 G~~V~PqLLqDLFGv~~~~~--~~~eLPelDT~iS~RVrnII~~LR~~r~~~~Y~pL~IVRqgDp~E~~F~s~LVEDR-s 1536 (1560)
T PTZ00395 1460 GFHSDANFAKEIVGDIPTEK--NAHELNLTDTPNAQKVQRIIKNLSRIHHFNKYVPLVMVAPKSNEEEHLISLCVEDK-A 1536 (1560)
T ss_pred CCCCCHHHHHHHcCCCcccc--ccccccCCCCHHHHHHHHHHHHHHHhccCCCcceEEEEeCCCchHHHHHHhCeecC-C
Confidence 99999999999999743222 123688999999999999999999986 589999999999999999999999999 8
Q ss_pred CCCCCHHHHHHHHHHHHHhhh
Q 001219 1100 TGGQSYVEFLINIHRQIQLKM 1120 (1121)
Q Consensus 1100 ~~~~SY~dFL~~lHk~I~~~l 1120 (1121)
.+.+||+||||+|||+|++||
T Consensus 1537 ~g~~SYvDFLc~LHKqIq~kl 1557 (1560)
T PTZ00395 1537 DKEYSYVNFLCFIHKLVHKRI 1557 (1560)
T ss_pred CCCCCHHHHHHHHHHHHHHhc
Confidence 899999999999999999987
No 4
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=100.00 E-value=5.2e-152 Score=1320.86 Aligned_cols=716 Identities=37% Similarity=0.672 Sum_probs=683.4
Q ss_pred CCCCCCCCceeecCCCCCCCCceEeeccccCCCHHHhhhcCCceEEEEccCCCCCCCCCCcccccCCCCCCcccCCCCce
Q 001219 386 NPPPPATSEYIVRDMGNCSPRYMRCTISQIPCTNDLLTTSGMQLALLVQPLALPHPSEEPIQIVDFGDMGPVRCSRCKAY 465 (1121)
Q Consensus 386 ~~PP~~~t~~~~~D~gN~sP~~iR~T~~~iP~t~~ll~~~~LPlgivv~Pfa~~~~~e~pvPvvd~g~~~pvRC~rCrAY 465 (1121)
..||+ ++.|+..+++||+|+|+|+|+|+||.+.+++++++||||+||+||.++.++|.++|+++ +..|+||+|||+|
T Consensus 132 ~~ppl-tt~~~~~e~~n~~p~yvrsT~yaiP~t~dl~~~skiPfgLVI~Pf~~l~~e~~~vpl~~--d~~ivRCrrCrsY 208 (861)
T COG5028 132 IVPPL-TTNFVGSEQSNCSPKYVRSTMYAIPETNDLLKKSKIPFGLVIRPFLELYPEEDPVPLVE--DGSIVRCRRCRSY 208 (861)
T ss_pred CCCCc-ccceeeeccCCCCHHHHHHHHhhCCCchhHHHhcCCCceEEeehhhhcCccCCCCccCC--CCcchhhhhhHhh
Confidence 35666 99999999999999999999999999999999999999999999999999888899886 3458999999999
Q ss_pred ecCceEEEecCCeEEecCCCCCCCCCcccccCCCCCCCCCCCCCCCCccCccEEEEeccccccCCCCCcEEEEEEEcchh
Q 001219 466 INPFMKFIDQGRRFICSLCGFTDETPRDYHCNLGPDGRRRDADDRPELCRGTVEFVATKEYMVRDPMPAVFFFLIDVSMN 545 (1121)
Q Consensus 466 iNPf~~f~~~g~~W~CnfC~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL~~gtVEyvap~eY~~r~p~pp~yvFvIDvS~~ 545 (1121)
||||++|+++|++|+||+|+..|++|.+++.....++.|.|+++|+||++|+|||++|++|+.|.+.|++|||+||||..
T Consensus 209 iNPfv~fi~~g~kw~CNiC~~kN~vp~~~~~~~~~~~~r~d~~~r~El~~~vvdf~ap~~Y~~~~p~P~~yvFlIDVS~~ 288 (861)
T COG5028 209 INPFVQFIEQGRKWRCNICRSKNDVPEGFDNPSGPNDPRSDRYSRPELKSGVVDFLAPKEYSLRQPPPPVYVFLIDVSFE 288 (861)
T ss_pred cCceEEEecCCcEEEEeeccccccCcccccCcCCCCCccccccccchhhceeeEEecccceeeccCCCCEEEEEEEeehH
Confidence 99999999999999999999999999999988888999999999999999999999999999999999999999999999
Q ss_pred HHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCc-ccceeehHHhHH
Q 001219 546 ALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQ-SDIIVPVSECRQ 623 (1121)
Q Consensus 546 av~sG~l~~v~~aI~~~L~~Lp~-~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~-~~lLv~l~e~~~ 623 (1121)
++++|++.+++++|++.|+.+++ ++|+||+||.||++||||+++.+++ .+|++++|+||+|+|.+ .+|++++++|+.
T Consensus 289 a~~~g~~~a~~r~Il~~l~~~~~~dpr~kIaii~fD~sl~ffk~s~d~~-~~~~~vsdld~pFlPf~s~~fv~pl~~~k~ 367 (861)
T COG5028 289 AIKNGLVKAAIRAILENLDQIPNFDPRTKIAIICFDSSLHFFKLSPDLD-EQMLIVSDLDEPFLPFPSGLFVLPLKSCKQ 367 (861)
T ss_pred hhhcchHHHHHHHHHhhccCCCCCCCcceEEEEEEcceeeEEecCCCCc-cceeeecccccccccCCcchhcccHHHHHH
Confidence 99999999999999999999976 6899999999999999999998873 38999999999999987 678999999999
Q ss_pred HHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcCCeEEEEecCCCCcCcccccccccccCCCCCCCccccccccch
Q 001219 624 HLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTGGKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQP 703 (1121)
Q Consensus 624 ~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~GGkIivF~sg~Pt~GpG~L~~re~~~r~~~~~gt~~e~~ll~p 703 (1121)
.++.||+.++.+|.+++.++.|+|.||++|..+++.+||||++|.+++||.|.|+|..|++ +|+.++.+
T Consensus 368 ~~etLl~~~~~If~d~~~pk~~~G~aLk~a~~l~g~~GGkii~~~stlPn~G~Gkl~~r~d-----------~e~~ll~c 436 (861)
T COG5028 368 IIETLLDRVPRIFQDNKSPKNALGPALKAAKSLIGGTGGKIIVFLSTLPNMGIGKLQLRED-----------KESSLLSC 436 (861)
T ss_pred HHHHHHHHhhhhhcccCCCccccCHHHHHHHHHhhccCceEEEEeecCCCccccccccccc-----------chhhhccc
Confidence 9999999999999999999999999999999999999999999999999999999999875 34558999
Q ss_pred hHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCC--chhHHHHHHHHhccCCccccceE
Q 001219 704 ADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALS--DPAKLYNDLRWNITRPQGFEAVM 781 (1121)
Q Consensus 704 a~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~--d~~~L~~dL~r~ltr~~g~~a~m 781 (1121)
.+.|||+++.+|.+.||+||+|+++.+|+|++|++.|+++|||++|||++|++++ |..||.+||.+++++++||+++|
T Consensus 437 ~d~fYk~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~~Yp~f~~~~~~d~~kl~~dL~~~ls~~~gy~~~~ 516 (861)
T COG5028 437 KDSFYKEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTYFYPNFSATRPNDATKLANDLVSHLSMEIGYEAVM 516 (861)
T ss_pred cchHHHHHHHHHHHhcceEEEEeccccccchhhhcchhhccCcceEEcCCcccCCchhHHHHHHHHHHhhhhhhhhheee
Confidence 9999999999999999999999999999999999999999999999999999998 99999999999999999999999
Q ss_pred EEEeCCCcEEEeeeCccccCCCCceeecCCCCCCeEEEEEEecCCCCCCCceEEEEEEEEEecCCcEEEEEEcccccCCC
Q 001219 782 RVRCSQGIQVQEYHGNFCKRIPTDIDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTS 861 (1121)
Q Consensus 782 rVR~S~GL~V~~~~G~f~~r~~~~~~lp~id~dtSia~el~~d~~L~~~~~~~~Q~AlLYT~~~GeRrIRV~Tl~lpVts 861 (1121)
|||||+||++++|||||+.|+.++++|+.++.|+|+.|+|++|++|.. ..+|||+|+|||..+|||||||.|+++++++
T Consensus 517 rvR~S~glr~s~fyGnf~~rs~dl~~F~tm~rd~Sl~~~~sid~~l~~-~~v~fQvAlL~T~~~GeRRiRVvn~s~~~ss 595 (861)
T COG5028 517 RVRCSTGLRVSSFYGNFFNRSSDLCAFSTMPRDTSLLVEFSIDEKLMT-SDVYFQVALLYTLNDGERRIRVVNLSLPTSS 595 (861)
T ss_pred EeeccCceehhhhhccccccCcccccccccCCCceEEEEEEecccccC-CceEEEEEEEeeccCCceEEEEEEeccccch
Confidence 999999999999999999999999999999999999999999999975 8999999999999999999999999999999
Q ss_pred CHHHHHhccChhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHhhcccCCCCCcccchhhhchHHHHHHHHhh
Q 001219 862 NLSNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYRKFCATVSSSGQLILPEALKLLPLYTLALIK 941 (1121)
Q Consensus 862 ~l~~vf~~~D~dai~~~laK~a~~~~~~~~l~d~R~~L~~~lv~iL~~Yrk~~a~~~s~gqLiLPesLklLPlyil~LlK 941 (1121)
++.|+|+++|+++|+++|+|+|+.++.+..+.++|+.|++.+++||++|||.|+....++||+||++||+||+++++|+|
T Consensus 596 ~~~evyasadq~aIa~~lak~a~~~~~~~s~~~~r~~i~~s~~~IL~~Ykk~~~~snt~tql~Lp~nL~lLPll~lal~K 675 (861)
T COG5028 596 SIREVYASADQLAIACILAKKASTKALNSSLKEARVLINKSMVDILKAYKKELVKSNTSTQLPLPANLKLLPLLMLALLK 675 (861)
T ss_pred hHHHHHHhccHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhccCCccccchhhhHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999988888888999999999999999999999
Q ss_pred ccCCC-CCCCchHHHHHHHHHcCCChhhhhhcccceeEEeecCCCCC-----CCCCCCCccccccccccCCcEEEEEcCc
Q 001219 942 STGLR-TDGRIDDRSFWITYVSSVSIPFAVPFVYPRMVAIHDLDKGE-----DGSIIPPFLPLSSEHVSDEGIYLLENGE 1015 (1121)
Q Consensus 942 S~~L~-~~~s~DeR~~~~~~l~s~~v~~~l~~lYPrLy~lh~l~~~d-----~~~~lP~~l~LS~e~L~~dgiYLLD~G~ 1015 (1121)
|.+|| ..++.|+|++.++++.+++++++++.|||+||++|++..|+ +..+++.++++|.+.|+++|+||||+|.
T Consensus 676 s~~~rs~~~~sD~r~~~L~~l~~~p~~~l~~~iYP~lyalHdm~~e~~l~~~~~~~~~~piNaT~s~le~~GlYLidtg~ 755 (861)
T COG5028 676 SSAFRSGSTPSDIRISALNRLTSLPLKQLMRNIYPTLYALHDMPIEAGLPDEGLLVLPSPINATSSLLESGGLYLIDTGQ 755 (861)
T ss_pred hcccccCCCccchhHHHHHHhhcCCHHHHHHhhccceeeecccccccCCCcccccccccchhhhHHHHhcCCeEEEEcCC
Confidence 99999 66889999999999999999999999999999999986552 2456889999999999999999999999
Q ss_pred eEEEEecCCCCHHHHHHhhCCCCCCCCC-cccccCCCCcHhHHHHHHHHHHHHH-ccCCcceEEEEecCC-Cc-HHHHHh
Q 001219 1016 DALIYIGSSVDSSILHQLFGISSVDEVP-TQFVLQQYDNPLSKKLNDVVNEIRR-QRCSYLRLKLCKKGD-PS-GMVFFS 1091 (1121)
Q Consensus 1016 ~i~lwvG~~v~~~ll~~lFGv~s~~~i~-~~~~lp~~dn~ls~~l~~iI~~lr~-~r~~y~~l~ivrqg~-~~-e~~f~~ 1091 (1121)
++|||+|+++++.+++||||++++.+|+ .+..+|..+|++++++++||++||+ .+...+++++||+|. +. +.||.+
T Consensus 756 ~iflw~g~d~~p~Ll~dlf~~~~~~~I~~~k~~~p~~~n~~n~~v~~iI~~lrs~~~~~tl~lvlVR~~~d~s~~~~~~s 835 (861)
T COG5028 756 KIFLWFGKDAVPSLLQDLFGVDSLSDIPSGKFTLPPTGNEFNERVRNIIGELRSVNDDSTLPLVLVRGGGDPSLRLWFFS 835 (861)
T ss_pred EEEEEecCCCCHHHHHHhcCcchhhhccccccccCCcCCHHHHHHHHHHHHHHhhCCCCccceEEEecCCCcchhhheeh
Confidence 9999999999999999999999999999 7888999999999999999999999 566778899999984 45 899999
Q ss_pred hcccCCCCCCCCCHHHHHHHHHHHHHh
Q 001219 1092 YLVEDKIPTGGQSYVEFLINIHRQIQL 1118 (1121)
Q Consensus 1092 ~LVED~~~~~~~SY~dFL~~lHk~I~~ 1118 (1121)
.||||+ +.+..||.|||+.||++|++
T Consensus 836 ~lVEDk-~~n~~SY~~yL~~lh~ki~~ 861 (861)
T COG5028 836 TLVEDK-TLNIPSYLDYLQILHEKIKS 861 (861)
T ss_pred heeccc-ccCCccHHHHHHHHHHHhcC
Confidence 999999 88899999999999999974
No 5
>PLN00162 transport protein sec23; Provisional
Probab=100.00 E-value=4.2e-124 Score=1156.22 Aligned_cols=667 Identities=21% Similarity=0.290 Sum_probs=592.6
Q ss_pred CCCceEeeccccCCCHHHhhhcCCceEEEEccCCCCCCCCCCcccccCCCCCCcccCCCCceecCceEEEecCCeEEecC
Q 001219 404 SPRYMRCTISQIPCTNDLLTTSGMQLALLVQPLALPHPSEEPIQIVDFGDMGPVRCSRCKAYINPFMKFIDQGRRFICSL 483 (1121)
Q Consensus 404 sP~~iR~T~~~iP~t~~ll~~~~LPlgivv~Pfa~~~~~e~pvPvvd~g~~~pvRC~rCrAYiNPf~~f~~~g~~W~Cnf 483 (1121)
+-+.||+|||+||.|+.++++++|||||+|+||+... ++|++++ +|+||++|||||||||+|+++|++|+|||
T Consensus 8 ~~~gvR~s~n~~P~t~~~~~~~~iPlg~v~tPl~~~~----~vp~v~~---~pvRC~~CraylNPf~~~d~~~~~W~C~~ 80 (761)
T PLN00162 8 AIDGVRMSWNVWPSSKIEASKCVIPLAALYTPLKPLP----ELPVLPY---DPLRCRTCRAVLNPYCRVDFQAKIWICPF 80 (761)
T ss_pred ccCceEeeeecCCCCHHHHhcCCCCeEEEEecCCcCC----CCCcCCC---CCCccCCCcCEECCceEEecCCCEEEccC
Confidence 3478999999999999999999999999999998753 2888875 69999999999999999999999999999
Q ss_pred CCCCCCCCcccccCCCCCCCCCCCCCCCCc--cCccEEEEeccccccCCCCCcEEEEEEEcchhHHhhhHHHHHHHHHHH
Q 001219 484 CGFTDETPRDYHCNLGPDGRRRDADDRPEL--CRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAISQ 561 (1121)
Q Consensus 484 C~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL--~~gtVEyvap~eY~~r~p~pp~yvFvIDvS~~av~sG~l~~v~~aI~~ 561 (1121)
|+..|++|.+|+ +++.+ +.+||| .++||||++++ |+.+++.||+||||||+|..+++ ++.++++|++
T Consensus 81 C~~~N~~P~~Y~-~~~~~------~~p~EL~p~~~TvEY~~p~-~~~~~~~pp~fvFvID~s~~~~~---l~~lk~sl~~ 149 (761)
T PLN00162 81 CFQRNHFPPHYS-SISET------NLPAELFPQYTTVEYTLPP-GSGGAPSPPVFVFVVDTCMIEEE---LGALKSALLQ 149 (761)
T ss_pred CCCCCCCchHhc-ccCcc------CCChhhcCCceeEEEECCC-CCCCCCCCcEEEEEEecchhHHH---HHHHHHHHHH
Confidence 999999999997 44432 468999 89999999998 99999999999999999999998 5667899999
Q ss_pred HHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecC--------Cccc----------------------cccCCc
Q 001219 562 VISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVP--------DVED----------------------VYTPLQ 611 (1121)
Q Consensus 562 ~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvs--------Dldd----------------------~fvPl~ 611 (1121)
+|+.||++ ++|||||||++||||+|+... .++++|+. |+++ .|+|..
T Consensus 150 ~L~~LP~~--a~VGlITF~s~V~~~~L~~~~-~~~~~Vf~g~k~~t~~~l~~~l~l~~~~~~~~~~~~~~~~~~~~~p~~ 226 (761)
T PLN00162 150 AIALLPEN--ALVGLITFGTHVHVHELGFSE-CSKSYVFRGNKEVSKDQILEQLGLGGKKRRPAGGGIAGARDGLSSSGV 226 (761)
T ss_pred HHHhCCCC--CEEEEEEECCEEEEEEcCCCC-CcceEEecCCccCCHHHHHHHhccccccccccccccccccccccCCCc
Confidence 99999976 899999999999999998754 67888886 2222 234566
Q ss_pred ccceeehHHhHHHHHHHHhhcCccc---cCCCCCcchHHHHHHHHHHHHH----hcCCeEEEEecCCCCcCccccccccc
Q 001219 612 SDIIVPVSECRQHLELLLESIPSMF---QNNRTAESAFGAAVKAAFLALK----STGGKLLVFQSVLPSVGIGALSAREA 684 (1121)
Q Consensus 612 ~~lLv~l~e~~~~I~~lLd~Lp~~f---~~~~~~~~~lG~AL~aA~~lL~----~~GGkIivF~sg~Pt~GpG~L~~re~ 684 (1121)
++||++++||++.|+++||+|+.++ .+++++.+|+|+||++|..+|+ .+||||++|++|+||.|||+|+.|++
T Consensus 227 ~~fLvpl~e~~~~i~~lLe~L~~~~~~~~~~~rp~r~tG~AL~vA~~lL~~~~~~~gGrI~~F~sgppT~GpG~v~~r~~ 306 (761)
T PLN00162 227 NRFLLPASECEFTLNSALEELQKDPWPVPPGHRPARCTGAALSVAAGLLGACVPGTGARIMAFVGGPCTEGPGAIVSKDL 306 (761)
T ss_pred cceeEEHHHHHHHHHHHHHhhhccccccCCCCCCCccHHHHHHHHHHHHhhccCCCceEEEEEeCCCCCCCCceeecccc
Confidence 8999999999999999999998763 5678899999999999999998 67999999999999999999999875
Q ss_pred c--cCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCCchhH
Q 001219 685 E--GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAK 762 (1121)
Q Consensus 685 ~--~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~d~~~ 762 (1121)
+ .|+|.++ .+++.++++++.+||++||++|+++||+||||+++.+|+||++|+.|++.|||.+++|++|+. ++
T Consensus 307 ~~~~rsh~di-~k~~~~~~~~a~~fY~~la~~~~~~gisvDlF~~s~dqvglaem~~l~~~TGG~v~~~~sF~~----~~ 381 (761)
T PLN00162 307 SEPIRSHKDL-DKDAAPYYKKAVKFYEGLAKQLVAQGHVLDVFACSLDQVGVAEMKVAVERTGGLVVLAESFGH----SV 381 (761)
T ss_pred cccccCcccc-ccchhhhcchHHHHHHHHHHHHHHcCceEEEEEccccccCHHHHhhhHhhcCcEEEEeCCcCh----HH
Confidence 3 3444333 345567999999999999999999999999999999999999999999999999999999965 58
Q ss_pred HHHHHHHhccCC------ccccceEEEEeCCCcEEEeeeCcccc---------------CCCCceeecCCCCCCeEEEEE
Q 001219 763 LYNDLRWNITRP------QGFEAVMRVRCSQGIQVQEYHGNFCK---------------RIPTDIDLPAIDCNKAIMVTL 821 (1121)
Q Consensus 763 L~~dL~r~ltr~------~g~~a~mrVR~S~GL~V~~~~G~f~~---------------r~~~~~~lp~id~dtSia~el 821 (1121)
|.++|+|.++|+ +||+|+||||||+||+|+++|||++. +++++|+++++++|++|+|+|
T Consensus 382 f~~~l~r~~~r~~~~~~~~gf~a~~~VrtS~glkv~g~~G~~~s~~~~~~~vsd~~iG~g~T~~w~l~~l~~~~t~av~f 461 (761)
T PLN00162 382 FKDSLRRVFERDGEGSLGLSFNGTFEVNCSKDVKVQGAIGPCASLEKKGPSVSDTEIGEGGTTAWKLCGLDKKTSLAVFF 461 (761)
T ss_pred HHHHHHHHhcccccccccccceeEEEEEecCCeEEeeeEcCcccccccCCccccccccCCCCceeeecCcCcCCEEEEEE
Confidence 999999999874 89999999999999999999999862 457889999999999999999
Q ss_pred EecCCC-----CCCCceEEEEEEEEEecCCcEEEEEEcccccCCC--CHHHHHhccChhHHHHHHHHHHHHhcCCCCHHH
Q 001219 822 KHDDKL-----QDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTS--NLSNLYRSADLDTQFTCFMKQAASEIPSTPLAN 894 (1121)
Q Consensus 822 ~~d~~L-----~~~~~~~~Q~AlLYT~~~GeRrIRV~Tl~lpVts--~l~~vf~~~D~dai~~~laK~a~~~~~~~~l~d 894 (1121)
+++++. .++..+|||+|++||+.+|+|||||||++++++. ++.++|+++|+||++++|+|+|+.+++++.+.|
T Consensus 462 ~~~~~~~~~~~~~~~~~~iQ~a~lYt~~~G~rRiRV~T~~~~~~~~~~~~~v~~~fDqeA~a~llaR~av~k~~~~~~~d 541 (761)
T PLN00162 462 EVANSGQSNPQPPGQQFFLQFLTRYQHSNGQTRLRVTTVTRRWVEGSSSEELVAGFDQEAAAVVMARLASHKMETEEEFD 541 (761)
T ss_pred EEccccccCCCCCCceEEEEEEEEEEcCCCCEEEEEEccccCccCCCCHHHHHHhcCHHHHHHHHHHHHHHHHhhCCHHH
Confidence 999775 4556799999999999999999999999999754 889999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH---HHHHhhcccCCCCCcccchhhhchHHHHHHHHhhccCCC-CCCCchHHHHHHHHHcCCChhhhh
Q 001219 895 VREQMMNLCVNAL---VSYRKFCATVSSSGQLILPEALKLLPLYTLALIKSTGLR-TDGRIDDRSFWITYVSSVSIPFAV 970 (1121)
Q Consensus 895 ~R~~L~~~lv~iL---~~Yrk~~a~~~s~gqLiLPesLklLPlyil~LlKS~~L~-~~~s~DeR~~~~~~l~s~~v~~~l 970 (1121)
+|+||+++|++++ ..|||.+ +.+|+||++||+||+|||+|+||.+|+ .++++|||+++++.++++++.+++
T Consensus 542 ~~r~ld~~li~~~~~f~~Yrk~~-----~~s~~Lp~~~~~lP~f~~~LrRS~~l~~~n~spDera~~r~~l~~~~~~~sl 616 (761)
T PLN00162 542 ATRWLDRALIRLCSKFGDYRKDD-----PSSFRLSPNFSLYPQFMFNLRRSQFVQVFNNSPDETAYFRMMLNRENVTNSL 616 (761)
T ss_pred HHHHHHHHHHHHHHHHhhhcccC-----CccccCCHHHHHHHHHHHHHhhhhhccCCCCCchHHHHHHHHHhcCCHHHHH
Confidence 9999999999886 6677755 346999999999999999999999999 899999999999999999999999
Q ss_pred hcccceeEEeecCCCCCCCCCCCCccccccccccCCcEEEEEcCceEEEEecCCCCHHHHHHhhCCCCCCCCCcccccCC
Q 001219 971 PFVYPRMVAIHDLDKGEDGSIIPPFLPLSSEHVSDEGIYLLENGEDALIYIGSSVDSSILHQLFGISSVDEVPTQFVLQQ 1050 (1121)
Q Consensus 971 ~~lYPrLy~lh~l~~~d~~~~lP~~l~LS~e~L~~dgiYLLD~G~~i~lwvG~~v~~~ll~~lFGv~s~~~i~~~~~lp~ 1050 (1121)
.||||+||++|.- .+|+++.|+.++|++|+|||||+|++|+||+|+.|..|..+.+-..+..+++
T Consensus 617 ~mI~P~L~sy~~~-------~~P~pv~Ld~~si~~d~ilLLD~~f~vvi~~G~~ia~w~~~~~~~~~~~~~~-------- 681 (761)
T PLN00162 617 VMIQPTLISYSFN-------GPPEPVLLDVASIAADRILLLDSYFSVVIFHGSTIAQWRKAGYHNQPEHEAF-------- 681 (761)
T ss_pred HhhCCeEEEecCC-------CCCcceecchhhccCCceEEEeCCCEEEEEecCcccchhhcCCCCCcchhhH--------
Confidence 9999999999941 2588999999999999999999999999999999999999644332222111
Q ss_pred CCcHhHHHHHHHHHHHHHccCCcceEEEEecCCCcHHHHHhhcccCCCC-------------CCCCCHHHHHHHHHHHHH
Q 001219 1051 YDNPLSKKLNDVVNEIRRQRCSYLRLKLCKKGDPSGMVFFSYLVEDKIP-------------TGGQSYVEFLINIHRQIQ 1117 (1121)
Q Consensus 1051 ~dn~ls~~l~~iI~~lr~~r~~y~~l~ivrqg~~~e~~f~~~LVED~~~-------------~~~~SY~dFL~~lHk~I~ 1117 (1121)
.++.+..++.+++|...|.+.+++++++||++++|+|+++|....+. .++.|+..|+.||+|.+.
T Consensus 682 --~~~l~~p~~~a~~~~~~Rfp~Pr~i~~~~~~SqaRfl~~klnPs~~~~~~~~~~~~~~~~tdd~sl~~f~~~l~~~~v 759 (761)
T PLN00162 682 --AQLLEAPQADAQAIIKERFPVPRLVVCDQHGSQARFLLAKLNPSATYNSANAMGGSDIIFTDDVSLQVFMEHLQRLAV 759 (761)
T ss_pred --HHHHHhHHHHHHHHHhcCCCCCeEEEeCCCCcHHHHHHHhcCCcccccCCCCCCCCCeeecCCcCHHHHHHHHHHHhc
Confidence 26677788889999999999999999999999999999999876311 257999999999999875
Q ss_pred h
Q 001219 1118 L 1118 (1121)
Q Consensus 1118 ~ 1118 (1121)
+
T Consensus 760 ~ 760 (761)
T PLN00162 760 Q 760 (761)
T ss_pred C
Confidence 4
No 6
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=7.6e-93 Score=822.28 Aligned_cols=664 Identities=20% Similarity=0.289 Sum_probs=576.8
Q ss_pred CCCceEeeccccCCCHHHhhhcCCceEEEEccCCCCCCCCCCcccccCCCCCCcccCCCCceecCceEEEecCCeEEecC
Q 001219 404 SPRYMRCTISQIPCTNDLLTTSGMQLALLVQPLALPHPSEEPIQIVDFGDMGPVRCSRCKAYINPFMKFIDQGRRFICSL 483 (1121)
Q Consensus 404 sP~~iR~T~~~iP~t~~ll~~~~LPlgivv~Pfa~~~~~e~pvPvvd~g~~~pvRC~rCrAYiNPf~~f~~~g~~W~Cnf 483 (1121)
.-.-+|+|||.||.++....++.+|++++++||.+.+. +|++ .++|+||++|+||+||||.++.+.+.|.|+|
T Consensus 8 ~~dGvR~twnvwPs~~~~~~~~vvPla~lytPl~e~~~----~~~~---~y~P~~C~~C~AvlNPyc~vd~~a~~W~Cpf 80 (745)
T KOG1986|consen 8 EIDGVRFTWNVWPSTRAEASRTVVPLACLYTPLKERPD----LPPI---QYDPLRCSKCGAVLNPYCSVDFRAKSWICPF 80 (745)
T ss_pred cCCCcccccccCCCcccccccccccHHHhccccccCCC----CCcc---CCCCchhccchhhcCcceeecccCceEeccc
Confidence 34579999999999999999999999999999986433 5655 4589999999999999999999999999999
Q ss_pred CCCCCCCCcccccCCCCCCCCCCCCCCCCc--cCccEEEEeccccccCCCCCcEEEEEEEcchhHHhhhHHHHHHHHHHH
Q 001219 484 CGFTDETPRDYHCNLGPDGRRRDADDRPEL--CRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAISQ 561 (1121)
Q Consensus 484 C~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL--~~gtVEyvap~eY~~r~p~pp~yvFvIDvS~~av~sG~l~~v~~aI~~ 561 (1121)
|+..|.+|.+|-. +..+ +.-+|| .+.+|||+.++.. ..||+||||||++....+ |+.++++|+.
T Consensus 81 C~qrN~~p~~Y~~-is~~------n~P~el~Pq~stvEy~l~~~~----~~ppvf~fVvDtc~~eee---L~~LkssL~~ 146 (745)
T KOG1986|consen 81 CNQRNPFPPHYSG-ISEN------NLPPELLPQYSTVEYTLSPGR----VSPPVFVFVVDTCMDEEE---LQALKSSLKQ 146 (745)
T ss_pred cccCCCCChhhcc-cCcc------CCChhhcCCcceeEEecCCCC----CCCceEEEEEeeccChHH---HHHHHHHHHH
Confidence 9999999999853 3222 334588 6899999998653 358999999999999988 8889999999
Q ss_pred HHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecC---Cc-----ccc-ccC-----------CcccceeehHHh
Q 001219 562 VISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVP---DV-----EDV-YTP-----------LQSDIIVPVSEC 621 (1121)
Q Consensus 562 ~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvs---Dl-----dd~-fvP-----------l~~~lLv~l~e~ 621 (1121)
+|+.||++ ++||||||++.||+|+|+... ..+..|+. |+ .|. ... ....||.++.+|
T Consensus 147 ~l~lLP~~--alvGlItfg~~v~v~el~~~~-~sk~~VF~G~ke~s~~q~~~~L~~~~~~~~~~~~~~~~~rFL~P~~~c 223 (745)
T KOG1986|consen 147 SLSLLPEN--ALVGLITFGTMVQVHELGFEE-CSKSYVFSGNKEYSAKQLLDLLGLSGGAGKGSENQSASNRFLLPAQEC 223 (745)
T ss_pred HHhhCCCc--ceEEEEEecceEEEEEcCCCc-ccceeEEeccccccHHHHHHHhcCCcccccCCcccccchhhhccHHHH
Confidence 99999998 999999999999999998753 34555654 21 111 000 114789999999
Q ss_pred HHHHHHHHhhcC---ccccCCCCCcchHHHHHHHHHHHHHh----cCCeEEEEecCCCCcCccccccccc--ccCCCCCC
Q 001219 622 RQHLELLLESIP---SMFQNNRTAESAFGAAVKAAFLALKS----TGGKLLVFQSVLPSVGIGALSAREA--EGRSNISS 692 (1121)
Q Consensus 622 ~~~I~~lLd~Lp---~~f~~~~~~~~~lG~AL~aA~~lL~~----~GGkIivF~sg~Pt~GpG~L~~re~--~~r~~~~~ 692 (1121)
...+.++|++|. +-....+|..||+|.||.+|+.+|+. +|+||++|++|+||.|||++..+|. ..|+|+++
T Consensus 224 ~~~L~~lle~L~~d~wpV~~g~Rp~RcTG~Al~iA~~Ll~~c~p~~g~rIv~f~gGPcT~GpG~vv~~el~~piRshhdi 303 (745)
T KOG1986|consen 224 EFKLTNLLEELQPDPWPVPPGHRPLRCTGVALSIASGLLEGCFPNTGARIVLFAGGPCTRGPGTVVSRELKEPIRSHHDI 303 (745)
T ss_pred HHHHHHHHHHhcCCCCCCCCCCCcccchhHHHHHHHHHhcccCCCCcceEEEeccCCCCcCCceecchhhcCCCcCcccc
Confidence 999999999994 45567889999999999999999985 7999999999999999999999874 57877666
Q ss_pred CccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCCchhHHHHHHHHhcc
Q 001219 693 GEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYNDLRWNIT 772 (1121)
Q Consensus 693 gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~d~~~L~~dL~r~lt 772 (1121)
+++...+++++.+||++||++++.+|.+||||+++.++++|++|..|++.|||.|...++|+.+ .|..+++|+++
T Consensus 304 -~~d~a~y~kKa~KfY~~La~r~~~~ghvlDifa~~lDQvGi~EMk~l~~~TGG~lvl~dsF~~s----~Fk~sfqR~f~ 378 (745)
T KOG1986|consen 304 -EKDNAPYYKKAIKFYEKLAERLANQGHVLDIFAAALDQVGILEMKPLVESTGGVLVLGDSFNTS----IFKQSFQRIFT 378 (745)
T ss_pred -cCcchHHHHHHHHHHHHHHHHHHhCCceEeeeeeeccccchHHHHHHhhcCCcEEEEecccchH----HHHHHHHHHhc
Confidence 4555778999999999999999999999999999999999999999999999999999999865 46666666666
Q ss_pred ------CCccccceEEEEeCCCcEEEeeeCcccc---------------CCCCceeecCCCCCCeEEEEEEecCC--CCC
Q 001219 773 ------RPQGFEAVMRVRCSQGIQVQEYHGNFCK---------------RIPTDIDLPAIDCNKAIMVTLKHDDK--LQD 829 (1121)
Q Consensus 773 ------r~~g~~a~mrVR~S~GL~V~~~~G~f~~---------------r~~~~~~lp~id~dtSia~el~~d~~--L~~ 829 (1121)
...||+|.|+|+||++|+|++.+|++.. +++..|++..++..+++++.|++... ...
T Consensus 379 ~d~~~~l~~~fn~~leV~tSkdlkI~g~IGp~~Sl~~k~~~vsdt~ig~g~t~~wkm~~ls~~t~~s~~fei~~~~~~~~ 458 (745)
T KOG1986|consen 379 RDGEGDLKMGFNGTLEVKTSKDLKIQGVIGPCVSLNKKGPNVSDTEIGEGNTSAWKMCGLSPSTTLSLFFEISNQHNIPQ 458 (745)
T ss_pred cccccchhhhcCceEEEEecCCcEEEecccccccccCCCCccccceeccccccceeeeccCCCceEEEEEEeccccCCCC
Confidence 4689999999999999999999998642 35678999999999999999998754 344
Q ss_pred CCceEEEEEEEEEecCCcEEEEEEcccccCCCCH-HHHHhccChhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Q 001219 830 GSECAFQCALLYTTVYGQRRIRVTTLSLPCTSNL-SNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALV 908 (1121)
Q Consensus 830 ~~~~~~Q~AlLYT~~~GeRrIRV~Tl~lpVts~l-~~vf~~~D~dai~~~laK~a~~~~~~~~l~d~R~~L~~~lv~iL~ 908 (1121)
+..+||||++.|.+.+|++|+||+|+++++++.. .++-.++|+||.++++||+++.++.++.-.|+++|+++.++++..
T Consensus 459 ~~~~~iQFiT~Yq~s~g~~riRVtT~~r~~~d~~~~~i~~~FDqEaaAV~mAR~~~~kae~e~~~d~~rwlDr~Lirlc~ 538 (745)
T KOG1986|consen 459 SGQGYIQFITQYQHSSGQKRIRVTTLARPWADSGSPEISQSFDQEAAAVLMARLALLKAETEDGPDVLRWLDRNLIRLCQ 538 (745)
T ss_pred CCeeEEEEEEEEEcCCCcEEEEEEEeehhhccccchHhhhccchHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHHH
Confidence 6689999999999999999999999999999876 588899999999999999999999998889999999999999999
Q ss_pred HHHhhcccCCCCCcccchhhhchHHHHHHHHhhccCCC-CCCCchHHHHHHHHHcCCChhhhhhcccceeEEeecCCCCC
Q 001219 909 SYRKFCATVSSSGQLILPEALKLLPLYTLALIKSTGLR-TDGRIDDRSFWITYVSSVSIPFAVPFVYPRMVAIHDLDKGE 987 (1121)
Q Consensus 909 ~Yrk~~a~~~s~gqLiLPesLklLPlyil~LlKS~~L~-~~~s~DeR~~~~~~l~s~~v~~~l~~lYPrLy~lh~l~~~d 987 (1121)
.|..+...+ +..+.|+++|.++|+|+|+|+||++|. .|.|+|||+|++|+|.+.++.+++.||.|+|++++...
T Consensus 539 kFg~y~k~d--Pssf~l~~~fsl~PQfmfhLRRS~fLqvfNnSPDEt~~yrhll~~e~v~~sliMIqP~L~sySf~g--- 613 (745)
T KOG1986|consen 539 KFGDYRKDD--PSSFRLSPNFSLYPQFMFHLRRSPFLQVFNNSPDETAYYRHLLNREDVDNSLIMIQPTLLSYSFNG--- 613 (745)
T ss_pred HHhccCCCC--chhhcCChhhhhhHHHHHhhccchhhhccCCCcchHHHHHHHHhhccchhhhheecceeeeeecCC---
Confidence 888776554 456889999999999999999999999 99999999999999999999999999999999998742
Q ss_pred CCCCCCCccccccccccCCcEEEEEcCceEEEEecCCCCHHHHHHhhCCCCCCCCCcccccCCCCc--HhHHHHHHHHHH
Q 001219 988 DGSIIPPFLPLSSEHVSDEGIYLLENGEDALIYIGSSVDSSILHQLFGISSVDEVPTQFVLQQYDN--PLSKKLNDVVNE 1065 (1121)
Q Consensus 988 ~~~~lP~~l~LS~e~L~~dgiYLLD~G~~i~lwvG~~v~~~ll~~lFGv~s~~~i~~~~~lp~~dn--~ls~~l~~iI~~ 1065 (1121)
-|+++.|+..+|.+|.|+|||+++.|+||.|..+..|.....-. -|++++ ++.+..++..++
T Consensus 614 ----~~epvlLD~~Si~~D~iLLlDt~f~i~i~hG~tIaqWR~~gy~~------------~pe~~~f~~LL~ap~~dA~e 677 (745)
T KOG1986|consen 614 ----PPEPVLLDVASILADRILLLDTYFTIVIFHGSTIAQWRKAGYHE------------QPEYENFKELLEAPREDAQE 677 (745)
T ss_pred ----CCceeEecccccCCceEEEeecceEEEEECCchHHHHHhccccc------------ChhhHHHHHHHHhHHHHHHH
Confidence 37789999999999999999999999999999999998863322 234443 778888888999
Q ss_pred HHHccCCcceEEEEecCCCcHHHHHhhcccCCC-------------CCCCCCHHHHHHHHHHHHH
Q 001219 1066 IRRQRCSYLRLKLCKKGDPSGMVFFSYLVEDKI-------------PTGGQSYVEFLINIHRQIQ 1117 (1121)
Q Consensus 1066 lr~~r~~y~~l~ivrqg~~~e~~f~~~LVED~~-------------~~~~~SY~dFL~~lHk~I~ 1117 (1121)
|-.+|.+.+++++++||.++.++++++|..... ..+++||.+|+.||.|.+.
T Consensus 678 l~~~RFP~PR~v~~~q~GSQARFLlsklnPS~t~~~~~~~~~s~~I~TDDvSlq~fm~hLkklav 742 (745)
T KOG1986|consen 678 LLLERFPMPRYVVTDQGGSQARFLLSKLNPSETHNNLTAHGGSSIILTDDVSLQVFMEHLKKLAV 742 (745)
T ss_pred HHHhhCCCCeEEEecCCccHHHhhhhhcCcchhccchhhccCCCeeeeccccHHHHHHHHHhhcC
Confidence 999999999999999999999999999997320 1258999999999998653
No 7
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=100.00 E-value=2.4e-84 Score=733.05 Aligned_cols=671 Identities=19% Similarity=0.267 Sum_probs=560.5
Q ss_pred CCCCceEeeccccCCCHHHhhhcCCceEEEEccCCCCCCCCCCcccccCCCCCCcccCC-CCceecCceEEEecCCeEEe
Q 001219 403 CSPRYMRCTISQIPCTNDLLTTSGMQLALLVQPLALPHPSEEPIQIVDFGDMGPVRCSR-CKAYINPFMKFIDQGRRFIC 481 (1121)
Q Consensus 403 ~sP~~iR~T~~~iP~t~~ll~~~~LPlgivv~Pfa~~~~~e~pvPvvd~g~~~pvRC~r-CrAYiNPf~~f~~~g~~W~C 481 (1121)
-.-+-||+|||+||.|+....++.+|++++|+||.+.+. +.++ .++|+.|.. |+||+||||.++.+.+.|+|
T Consensus 7 ee~dgir~twnvfpat~~da~~~~iPia~lY~Pl~e~~~----~~v~---~yepv~C~~pC~avlnpyC~id~r~~~W~C 79 (755)
T COG5047 7 EENDGIRLTWNVFPATRGDATRTVIPIACLYTPLHEDDA----LTVN---YYEPVKCTAPCKAVLNPYCHIDERNQSWIC 79 (755)
T ss_pred ccccceEEEEecccCCccccccccccHHHhccccccccc----cCcc---cCCCceecccchhhcCcceeeccCCceEec
Confidence 345679999999999999999999999999999986422 5544 468999999 99999999999999999999
Q ss_pred cCCCCCCCCCcccccCCCCCCCCCCCCCCCCc--cCccEEEEeccccccCCCCCcEEEEEEEcchhHHhhhHHHHHHHHH
Q 001219 482 SLCGFTDETPRDYHCNLGPDGRRRDADDRPEL--CRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAI 559 (1121)
Q Consensus 482 nfC~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL--~~gtVEyvap~eY~~r~p~pp~yvFvIDvS~~av~sG~l~~v~~aI 559 (1121)
.||+..|.+|.+|-. +.. .+..+|| .+.||||+..+. .-.+|+|+||||++++..+ |.+++++|
T Consensus 80 pfCnqrn~lp~qy~~-iS~------~~LplellpqssTiey~lskp----~~~ppvf~fvvD~~~D~e~---l~~Lkdsl 145 (755)
T COG5047 80 PFCNQRNTLPPQYRD-ISN------ANLPLELLPQSSTIEYTLSKP----VILPPVFFFVVDACCDEEE---LTALKDSL 145 (755)
T ss_pred ceecCCCCCChhhcC-CCc------ccCCccccCCCceEEEEccCC----ccCCceEEEEEEeecCHHH---HHHHHHHH
Confidence 999999999998842 322 2345588 799999998875 3578999999999998877 89999999
Q ss_pred HHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCC--------cccc---c---cC-------------Ccc
Q 001219 560 SQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPD--------VEDV---Y---TP-------------LQS 612 (1121)
Q Consensus 560 ~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsD--------ldd~---f---vP-------------l~~ 612 (1121)
+..|..||.+ +.||||||.+.||+|+++... ..+..|++- |++. . .+ ...
T Consensus 146 ivslsllppe--aLvglItygt~i~v~el~ae~-~~r~~VF~g~~eyt~~~L~~ll~~~~~~~~~~~es~is~~~~~~~~ 222 (755)
T COG5047 146 IVSLSLLPPE--ALVGLITYGTSIQVHELNAEN-HRRSYVFSGNKEYTKENLQELLALSKPTKSGGFESKISGIGQFASS 222 (755)
T ss_pred HHHHhcCCcc--ceeeEEEecceeEEEeccccc-cCcceeecchHHHHHHHHHHHhcccCCCCcchhhhhcccccccchh
Confidence 9999999987 899999999999999998653 334455541 1111 0 01 013
Q ss_pred cceeehHHhHHHHHHHHhhcC---ccccCCCCCcchHHHHHHHHHHHHHh----cCCeEEEEecCCCCcCccccccccc-
Q 001219 613 DIIVPVSECRQHLELLLESIP---SMFQNNRTAESAFGAAVKAAFLALKS----TGGKLLVFQSVLPSVGIGALSAREA- 684 (1121)
Q Consensus 613 ~lLv~l~e~~~~I~~lLd~Lp---~~f~~~~~~~~~lG~AL~aA~~lL~~----~GGkIivF~sg~Pt~GpG~L~~re~- 684 (1121)
.|+.++.+|...+.++||+|. +.....+++.||+|+||++|..+|+. .|+||++|++|+||.|+|++..+|.
T Consensus 223 rFl~p~q~ce~~L~n~le~L~pd~~~v~~~~Rp~RCTGsAl~ias~Ll~~~~p~~~~~i~lF~~GPcTvGpG~Vvs~elk 302 (755)
T COG5047 223 RFLLPTQQCEFKLLNILEQLQPDPWPVPAGKRPLRCTGSALNIASSLLEQCFPNAGCHIVLFAGGPCTVGPGTVVSTELK 302 (755)
T ss_pred hhhccHHHHHHHHHHHHHHhCCCCccCCCCCCCccccchhHHHHHHHHHhhccCcceeEEEEcCCCccccCceeeehhhc
Confidence 489999999999999999994 44567899999999999999999985 6999999999999999999999874
Q ss_pred -ccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCCchhHH
Q 001219 685 -EGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKL 763 (1121)
Q Consensus 685 -~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~d~~~L 763 (1121)
++|+|+++..| ..++.+++.+||++||++.+.+|.++|+|+.+.++++|-+|..|...|||.+...+.|+.+++...|
T Consensus 303 EpmRshH~ie~d-~aqh~kka~KFY~~laeR~a~~gh~~DifagcldqIGI~eM~~L~~sTgg~lvlsdsF~t~ifkqSf 381 (755)
T COG5047 303 EPMRSHHDIESD-SAQHSKKATKFYKGLAERVANQGHALDIFAGCLDQIGIMEMEPLTTSTGGALVLSDSFTTSIFKQSF 381 (755)
T ss_pred cccccccccccc-chhhccchHHHHHHHHHHHhccchhHHHHHHHHHhhhhhcchhhccCCcceEEEeccccHHHHHHHH
Confidence 57877666443 3778999999999999999999999999999999999999999999999999999999876544444
Q ss_pred HHHHHHhccC--CccccceEEEEeCCCcEEEeeeCcccc---------------CCCCceeecCCCCCCeEEEEEEecCC
Q 001219 764 YNDLRWNITR--PQGFEAVMRVRCSQGIQVQEYHGNFCK---------------RIPTDIDLPAIDCNKAIMVTLKHDDK 826 (1121)
Q Consensus 764 ~~dL~r~ltr--~~g~~a~mrVR~S~GL~V~~~~G~f~~---------------r~~~~~~lp~id~dtSia~el~~d~~ 826 (1121)
.+-|.+.-.. ..||+|.|+|.|||+|+|++++|+... +.++.|.++.+.+.+++++.|++...
T Consensus 382 qrif~~d~~g~l~~gfNa~m~V~TsKnl~~~g~ig~a~~~~k~~~ni~~~eigi~~t~swkm~slsPk~nyal~fei~~~ 461 (755)
T COG5047 382 QRIFNRDSEGYLKMGFNANMEVKTSKNLKIKGLIGHAVSVKKKANNISDSEIGIGATNSWKMASLSPKSNYALYFEIALG 461 (755)
T ss_pred HHHhCcCcccchhhhhccceeEeeccCceeeeeecceeeecccccccccccccccccccccccccCCCcceEEEEEeccc
Confidence 4433332111 389999999999999999999998542 24567999999999999999987753
Q ss_pred CCC-----CCceEEEEEEEEEecCCcEEEEEEcccccCCCC-HHHHHhccChhHHHHHHHHHHHHhcCCCCHHHHHHHHH
Q 001219 827 LQD-----GSECAFQCALLYTTVYGQRRIRVTTLSLPCTSN-LSNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMM 900 (1121)
Q Consensus 827 L~~-----~~~~~~Q~AlLYT~~~GeRrIRV~Tl~lpVts~-l~~vf~~~D~dai~~~laK~a~~~~~~~~l~d~R~~L~ 900 (1121)
-.. ...+|+|+.++|.+.+|.-||||.|++...++. ...+++++|+||.++++||+|+.++..+...|+-+|++
T Consensus 462 ~~~~~~~~~~~a~iQfiT~yQhss~t~riRVtTvar~f~~~~~p~i~~SFdqEaaaV~~aR~a~~K~~~ed~~Dv~rw~d 541 (755)
T COG5047 462 AASGSAQRPAEAYIQFITTYQHSSGTYRIRVTTVARMFTDGGLPKINRSFDQEAAAVFMARIAAFKAETEDIIDVFRWID 541 (755)
T ss_pred cCCCccCCcccchhhhhhhhhccCCcEEEEEeehhhhhccCCChhhhhcchhhHHHHHHHHHHHhhcccccchhHHHHHH
Confidence 322 257999999999999999999999999877754 56688999999999999999999999889999999999
Q ss_pred HHHHHHHHHHHhhcccCCCCCcccchhhhchHHHHHHHHhhccCCC-CCCCchHHHHHHHHHcCCChhhhhhcccceeEE
Q 001219 901 NLCVNALVSYRKFCATVSSSGQLILPEALKLLPLYTLALIKSTGLR-TDGRIDDRSFWITYVSSVSIPFAVPFVYPRMVA 979 (1121)
Q Consensus 901 ~~lv~iL~~Yrk~~a~~~s~gqLiLPesLklLPlyil~LlKS~~L~-~~~s~DeR~~~~~~l~s~~v~~~l~~lYPrLy~ 979 (1121)
+.++++.+.|..+-... +..+.|+.++.++|+|+|+|+||++|. .|.++|||++++|+|.+.++.+++.||.|.|.+
T Consensus 542 r~lirlcq~fa~y~k~d--pssfrl~~~f~lypqf~y~lrRSpfL~vfNnSPDEt~fyrh~l~~~dv~~sLimiqPtL~S 619 (755)
T COG5047 542 RNLIRLCQKFADYRKDD--PSSFRLDPNFTLYPQFMYHLRRSPFLSVFNNSPDETAFYRHMLNNADVNDSLIMIQPTLQS 619 (755)
T ss_pred HHHHHHHHHHHhcCCCC--chhhcCCcchhhhhHHHhhhhccceeeccCCCcchHHHHHHHHhcccccchhhhhcchhee
Confidence 98888877766655443 456889999999999999999999999 999999999999999999999999999999999
Q ss_pred eecCCCCCCCCCCCCccccccccccCCcEEEEEcCceEEEEecCCCCHHHHHHhhCCCCCCCCCcccccCCCCcHhHHHH
Q 001219 980 IHDLDKGEDGSIIPPFLPLSSEHVSDEGIYLLENGEDALIYIGSSVDSSILHQLFGISSVDEVPTQFVLQQYDNPLSKKL 1059 (1121)
Q Consensus 980 lh~l~~~d~~~~lP~~l~LS~e~L~~dgiYLLD~G~~i~lwvG~~v~~~ll~~lFGv~s~~~i~~~~~lp~~dn~ls~~l 1059 (1121)
+|... | ..+|-|+.-++++|.|+|||++++|+||.|+.+..|.-+.+-....+..+ .++.+.-
T Consensus 620 ys~~~---~----~~pVlLDs~svkpdviLLlDtff~Ili~hG~~iaqwr~agyq~qpey~~l----------K~Ll~~p 682 (755)
T COG5047 620 YSFEK---G----GVPVLLDSVSVKPDVILLLDTFFHILIFHGSYIAQWRNAGYQEQPEYLNL----------KELLEAP 682 (755)
T ss_pred eeccC---C----CceEEEeccccCCCeEEEeeceeEEEEECChHHHHHHhhhhhcCchhhhH----------HHHhhch
Confidence 99753 1 34788999999999999999999999999999998887643322211111 1444444
Q ss_pred HHHHHHHHHccCCcceEEEEecCCCcHHHHHhhcccCCCC------------CCCCCHHHHHHHHHHHHH
Q 001219 1060 NDVVNEIRRQRCSYLRLKLCKKGDPSGMVFFSYLVEDKIP------------TGGQSYVEFLINIHRQIQ 1117 (1121)
Q Consensus 1060 ~~iI~~lr~~r~~y~~l~ivrqg~~~e~~f~~~LVED~~~------------~~~~SY~dFL~~lHk~I~ 1117 (1121)
+..+.+|..+|.+.+++++++||.++.+++++++..-... .++++|.+|+.|+.+...
T Consensus 683 ~~ea~ell~dRfP~Prfi~teqggSQaRfLlskinPsd~~~~~~~~~s~tilTddv~lq~fm~hl~~lav 752 (755)
T COG5047 683 RLEAAELLQDRFPIPRFIVTEQGGSQARFLLSKINPSDITNKMSGGGSETILTDDVNLQKFMNHLRKLAV 752 (755)
T ss_pred hhHHHHHHHhhCCCCeEEEecCCccHHHHHHhhcCccccccccccCccceeeecccCHHHHHHHHHHHhc
Confidence 5556777888999999999999999999999999974211 147999999999988654
No 8
>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=4.3e-53 Score=462.60 Aligned_cols=241 Identities=47% Similarity=0.800 Sum_probs=230.7
Q ss_pred CCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC-CCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccC
Q 001219 531 PMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEG-PRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTP 609 (1121)
Q Consensus 531 p~pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~-~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvP 609 (1121)
|+||+||||||||..++++|+++++|++|+++|+.|+++ +|++|||||||++||||+++..+.+++|+|++|++|+|+|
T Consensus 1 p~pp~~~FvIDvs~~a~~~g~~~~~~~si~~~L~~lp~~~~~~~VgiITfd~~v~~y~l~~~~~~~q~~vv~dl~d~f~P 80 (244)
T cd01479 1 PQPAVYVFLIDVSYNAIKSGLLATACEALLSNLDNLPGDDPRTRVGFITFDSTLHFFNLKSSLEQPQMMVVSDLDDPFLP 80 (244)
T ss_pred CCCCEEEEEEEccHHHHhhChHHHHHHHHHHHHHhcCCCCCCeEEEEEEECCeEEEEECCCCCCCCeEEEeeCcccccCC
Confidence 578999999999999999999999999999999999987 8999999999999999999998889999999999999999
Q ss_pred CcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcCCeEEEEecCCCCcCcccccccccccCCC
Q 001219 610 LQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTGGKLLVFQSVLPSVGIGALSAREAEGRSN 689 (1121)
Q Consensus 610 l~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~GGkIivF~sg~Pt~GpG~L~~re~~~r~~ 689 (1121)
++++||++++||++.|+++||+|++++.+++++++|+|+||++|..+|++.||||++|++|+||+|+|+|+.|++..
T Consensus 81 ~~~~~lv~l~e~~~~i~~lL~~L~~~~~~~~~~~~c~G~Al~~A~~lL~~~GGkIi~f~s~~pt~GpG~l~~~~~~~--- 157 (244)
T cd01479 81 LPDGLLVNLKESRQVIEDLLDQIPEMFQDTKETESALGPALQAAFLLLKETGGKIIVFQSSLPTLGAGKLKSREDPK--- 157 (244)
T ss_pred CCcceeecHHHHHHHHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHhcCCEEEEEeCCCCCcCCcccccCcccc---
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999998644
Q ss_pred CCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeC--CCCCCCchhHHHHHH
Q 001219 690 ISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYY--PFSALSDPAKLYNDL 767 (1121)
Q Consensus 690 ~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~--~F~~~~d~~~L~~dL 767 (1121)
..++++|+++++++++||++||.+|+++||+||||+++.+|+|+++|+.|+++|||.++||+ +|+..+|.++|++||
T Consensus 158 -~~~~~~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~TGG~v~~y~~~~~~~~~d~~kl~~dl 236 (244)
T cd01479 158 -LLSTDKEKQLLQPQTDFYKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRLTGGQVYYYPSFNFSAPNDVEKLVNEL 236 (244)
T ss_pred -ccCchhhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhhcCceEEEECCccCCchhhHHHHHHHH
Confidence 55677888999999999999999999999999999999999999999999999999999999 788888999999999
Q ss_pred HHhccCCc
Q 001219 768 RWNITRPQ 775 (1121)
Q Consensus 768 ~r~ltr~~ 775 (1121)
+|+|+|++
T Consensus 237 ~~~ltr~~ 244 (244)
T cd01479 237 ARYLTRKI 244 (244)
T ss_pred HHHhcccC
Confidence 99999864
No 9
>cd01468 trunk_domain trunk domain. COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is known as the trunk domain and has an alpha/beta vWA fold and forms the dimer interface. Some members of this family possess a partial MIDAS motif that is a characteristic feature of most vWA domain proteins.
Probab=100.00 E-value=2.7e-49 Score=431.64 Aligned_cols=235 Identities=43% Similarity=0.748 Sum_probs=224.3
Q ss_pred CCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCC
Q 001219 531 PMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPL 610 (1121)
Q Consensus 531 p~pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl 610 (1121)
|+||+||||||+|++|+++|+++.+|++|+++|+.|+++++++|||||||++||||+++....+++|+|++|++|.|+|.
T Consensus 1 p~pp~~vFvID~s~~ai~~~~l~~~~~sl~~~l~~lp~~~~~~igiITf~~~V~~~~~~~~~~~~~~~v~~dl~d~f~p~ 80 (239)
T cd01468 1 PQPPVFVFVIDVSYEAIKEGLLQALKESLLASLDLLPGDPRARVGLITYDSTVHFYNLSSDLAQPKMYVVSDLKDVFLPL 80 (239)
T ss_pred CCCCEEEEEEEcchHhccccHHHHHHHHHHHHHHhCCCCCCcEEEEEEeCCeEEEEECCCCCCCCeEEEeCCCccCcCCC
Confidence 58999999999999999999999999999999999997677999999999999999999887778999999999999999
Q ss_pred cccceeehHHhHHHHHHHHhhcCccccC--CCCCcchHHHHHHHHHHHHHhc--CCeEEEEecCCCCcCccccccccccc
Q 001219 611 QSDIIVPVSECRQHLELLLESIPSMFQN--NRTAESAFGAAVKAAFLALKST--GGKLLVFQSVLPSVGIGALSAREAEG 686 (1121)
Q Consensus 611 ~~~lLv~l~e~~~~I~~lLd~Lp~~f~~--~~~~~~~lG~AL~aA~~lL~~~--GGkIivF~sg~Pt~GpG~L~~re~~~ 686 (1121)
++++|+++.|+++.|+++|++|+.++.. +++.++|+|+||++|..+|+.. ||||++|++|+||+|+|+|+.|++..
T Consensus 81 ~~~~l~~~~e~~~~i~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~gGkI~~f~sg~pt~GpG~l~~~~~~~ 160 (239)
T cd01468 81 PDRFLVPLSECKKVIHDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLKGTFAGGRIIVFQGGLPTVGPGKLKSREDKE 160 (239)
T ss_pred cCceeeeHHHHHHHHHHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHhhcCCCceEEEEECCCCCCCCCccccCcccc
Confidence 9999999999999999999999999887 8899999999999999999998 99999999999999999999997654
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCCchhHHHHH
Q 001219 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYND 766 (1121)
Q Consensus 687 r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~d~~~L~~d 766 (1121)
.+++++|+++++++++||++||++|++++|+||||+++.+++|+++|+.|++.|||.+++|++|+..+|.++|.+|
T Consensus 161 ----~~~~~~e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~TGG~v~~y~~f~~~~~~~~~~~~ 236 (239)
T cd01468 161 ----PIRSHDEAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKSTGGQVYLYDSFQAPNDGSKFKQD 236 (239)
T ss_pred ----cCCCccchhcccccHHHHHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcCCceEEEeCCCCCcccHHHHHHH
Confidence 5667789999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHH
Q 001219 767 LRW 769 (1121)
Q Consensus 767 L~r 769 (1121)
|+|
T Consensus 237 l~r 239 (239)
T cd01468 237 LQR 239 (239)
T ss_pred hcC
Confidence 875
No 10
>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=5.2e-49 Score=430.19 Aligned_cols=237 Identities=41% Similarity=0.724 Sum_probs=204.9
Q ss_pred CCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCC
Q 001219 531 PMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPL 610 (1121)
Q Consensus 531 p~pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl 610 (1121)
|+||+||||||+|.+|+++|+++++|++|+++|+.|+.+++++|||||||++||||+++....+++++|++|+||+|+|+
T Consensus 1 P~pp~y~FvID~s~~av~~g~~~~~~~sl~~~l~~l~~~~~~~vgiitfd~~V~~y~l~~~~~~~~~~v~~dl~~~~~p~ 80 (243)
T PF04811_consen 1 PQPPVYVFVIDVSYEAVQSGLLQSLIESLKSALDSLPGDERTRVGIITFDSSVHFYNLSSSLSQPQMIVVSDLDDPFIPL 80 (243)
T ss_dssp -S--EEEEEEE-SHHHHHHTHHHHHHHHHHHHGCTSSTSTT-EEEEEEESSSEEEEETTTTSSSTEEEEEHHTTSHHSST
T ss_pred CCCCEEEEEEECchhhhhccHHHHHHHHHHHHHHhccCCCCcEEEEEEeCCEEEEEECCCCcCCCcccchHHHhhcccCC
Confidence 68999999999999999999999999999999999997778999999999999999999988889999999999999999
Q ss_pred cccceeehHHhHHHHHHHHhhcCccccCC--CCCcchHHHHHHHHHHHHH--hcCCeEEEEecCCCCcCc-ccccccccc
Q 001219 611 QSDIIVPVSECRQHLELLLESIPSMFQNN--RTAESAFGAAVKAAFLALK--STGGKLLVFQSVLPSVGI-GALSAREAE 685 (1121)
Q Consensus 611 ~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~--~~~~~~lG~AL~aA~~lL~--~~GGkIivF~sg~Pt~Gp-G~L~~re~~ 685 (1121)
+++||+++.|+++.|+++|++|+.++... ++.++|+|+||++|..+|+ ..||||++|++|+||+|+ |+|+.+++.
T Consensus 81 ~~~llv~~~e~~~~i~~ll~~L~~~~~~~~~~~~~~c~G~Al~~A~~ll~~~~~gGkI~~F~s~~pt~G~Gg~l~~~~~~ 160 (243)
T PF04811_consen 81 PDGLLVPLSECRDAIEELLESLPSIFPETAGKRPERCLGSALSAALSLLSSRNTGGKILVFTSGPPTYGPGGSLKKREDS 160 (243)
T ss_dssp SSSSSEETTTCHHHHHHHHHHHHHHSTT-TTB-----HHHHHHHHHHHHHHHTS-EEEEEEESS---SSSTTSS-SBTTS
T ss_pred cccEEEEhHHhHHHHHHHHHHhhhhcccccccCccccHHHHHHHHHHHHhccccCCEEEEEeccCCCCCCCceecccccc
Confidence 99999999999999999999999988776 8899999999999999999 899999999999999999 788887665
Q ss_pred cCCCCCCCcccc-ccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCCchhHHH
Q 001219 686 GRSNISSGEKET-HKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLY 764 (1121)
Q Consensus 686 ~r~~~~~gt~~e-~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~d~~~L~ 764 (1121)
. .+++++| +.++.++++||++||++|+++||+||||+++.+++|+++|+.|++.|||.++||++|+.++|.++|+
T Consensus 161 ~----~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~~TGG~l~~y~~f~~~~~~~~l~ 236 (243)
T PF04811_consen 161 S----HYDTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLARYTGGSLYYYPNFNAERDGEKLR 236 (243)
T ss_dssp C----CCCHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHHCTT-EEEEETTTTCHHHHHHHH
T ss_pred c----ccccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHHhCceeEEEeCCCCCchhHHHHH
Confidence 3 5555555 6778888899999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhc
Q 001219 765 NDLRWNI 771 (1121)
Q Consensus 765 ~dL~r~l 771 (1121)
+||.|++
T Consensus 237 ~dl~r~~ 243 (243)
T PF04811_consen 237 QDLKRLV 243 (243)
T ss_dssp HHHHHHH
T ss_pred HHHHHhC
Confidence 9999974
No 11
>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=1.3e-43 Score=391.83 Aligned_cols=222 Identities=26% Similarity=0.369 Sum_probs=191.7
Q ss_pred CCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCC---------------CCc
Q 001219 531 PMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRAL---------------QQP 595 (1121)
Q Consensus 531 p~pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~---------------~~p 595 (1121)
|.||+||||||+|..+++ ++.++++|+++|+.||++ ++|||||||++||||||+... ++.
T Consensus 1 p~pp~~vFviDvs~~~~e---l~~l~~sl~~~L~~lP~~--a~VGlITfd~~V~~~~L~~~~~~~~~vf~g~~~~~~~~~ 75 (267)
T cd01478 1 TSPPVFLFVVDTCMDEEE---LDALKESLIMSLSLLPPN--ALVGLITFGTMVQVHELGFEECSKSYVFRGNKDYTAKQI 75 (267)
T ss_pred CCCCEEEEEEECccCHHH---HHHHHHHHHHHHHhCCCC--CEEEEEEECCEEEEEEcCCCcCceeeeccCCccCCHHHH
Confidence 578999999999999998 788999999999999987 899999999999999998541 011
Q ss_pred -eEe------------ecCCccccccCCc-ccceeehHHhHHHHHHHHhhcCcc---ccCCCCCcchHHHHHHHHHHHHH
Q 001219 596 -LML------------IVPDVEDVYTPLQ-SDIIVPVSECRQHLELLLESIPSM---FQNNRTAESAFGAAVKAAFLALK 658 (1121)
Q Consensus 596 -qml------------VvsDldd~fvPl~-~~lLv~l~e~~~~I~~lLd~Lp~~---f~~~~~~~~~lG~AL~aA~~lL~ 658 (1121)
+|+ +.+|++|.|+|.+ ++||++++||++.|+++||+|+.+ +.+++++++|+|+||++|..+|+
T Consensus 76 ~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~~~flvpl~e~~~~i~~lLe~L~~~~~~~~~~~r~~r~~G~Al~~A~~ll~ 155 (267)
T cd01478 76 QDMLGLGGPAMRPSASQHPGAGNPLPSAAASRFLLPVSQCEFTLTDLLEQLQPDPWPVPAGHRPLRCTGVALSIAVGLLE 155 (267)
T ss_pred HHHhccccccccccccCcCCccccccccccccEEEEHHHHHHHHHHHHHhCcccccccCCCCCCCCchHHHHHHHHHHHH
Confidence 122 2235788898866 799999999999999999999876 46678999999999999999998
Q ss_pred ----hcCCeEEEEecCCCCcCcccccccccc--cCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCcc
Q 001219 659 ----STGGKLLVFQSVLPSVGIGALSAREAE--GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYV 732 (1121)
Q Consensus 659 ----~~GGkIivF~sg~Pt~GpG~L~~re~~--~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~ 732 (1121)
.+||||++|++|+||+|||+|+.|+++ .|+|.+. .+++.++++++++||++||.+|+++||+||||+++.+|+
T Consensus 156 ~~~~~~gGki~~F~sg~pT~GpG~l~~r~~~~~~r~~~d~-~~~~~~~~~~a~~fY~~la~~~~~~~vsvDlF~~s~d~v 234 (267)
T cd01478 156 ACFPNTGARIMLFAGGPCTVGPGAVVSTELKDPIRSHHDI-DKDNAKYYKKAVKFYDSLAKRLAANGHAVDIFAGCLDQV 234 (267)
T ss_pred hhcCCCCcEEEEEECCCCCCCCceeecccccccccccccc-ccchhhhhhhHHHHHHHHHHHHHhCCeEEEEEecccccc
Confidence 579999999999999999999998743 3332211 233346999999999999999999999999999999999
Q ss_pred CcccccccccccceEEEEeCCCCCCC
Q 001219 733 DIASISVIPKTTGGQVYYYYPFSALS 758 (1121)
Q Consensus 733 dlatL~~La~~TGG~v~~y~~F~~~~ 758 (1121)
||++|+.|++.|||.+|+|+.|+.+.
T Consensus 235 glaem~~l~~~TGG~v~~~~~f~~~~ 260 (267)
T cd01478 235 GLLEMKVLVNSTGGHVVLSDSFTTSI 260 (267)
T ss_pred CHHHHHHHHHhcCcEEEEeCCcchHH
Confidence 99999999999999999999997643
No 12
>PF04815 Sec23_helical: Sec23/Sec24 helical domain; InterPro: IPR006900 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region, and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the all-helical domain, which forms an approximately 105-residue segment with the C-terminal 30 residues. The linker between alpha-M and alpha-N contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_B 2NUP_B 2NUT_B 3EGX_B 3EH2_C 3EH1_A 3EFO_B 3EG9_B 2QTV_A 1M2O_C ....
Probab=99.84 E-value=4.1e-21 Score=183.82 Aligned_cols=102 Identities=43% Similarity=0.614 Sum_probs=96.0
Q ss_pred hhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHhhcccCCCCCcccchhhhchHHHHHHHHhhccCCC-CCCC
Q 001219 872 LDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYRKFCATVSSSGQLILPEALKLLPLYTLALIKSTGLR-TDGR 950 (1121)
Q Consensus 872 ~dai~~~laK~a~~~~~~~~l~d~R~~L~~~lv~iL~~Yrk~~a~~~s~gqLiLPesLklLPlyil~LlKS~~L~-~~~s 950 (1121)
|||++++++|++++++.+++++++|++++++|+++|++||++|+..++++||+|||+||+||+|+++|+||++|+ .+++
T Consensus 1 Qda~~~llak~ai~~~~~~~l~~~r~~l~~~~v~il~~Yr~~~~~~~~~~qLilPe~lklLPly~l~llKs~alr~~~v~ 80 (103)
T PF04815_consen 1 QDAITSLLAKQAIDKALSSSLKDARESLDNRLVDILAAYRKNCASSSSSGQLILPESLKLLPLYILALLKSPALRPTNVS 80 (103)
T ss_dssp HHHHHHHHHHHHHHHHCCS-HHHHHHHHHHHHHHHHHHHHHHCTTECCCTEEEEEGGGTTHHHHHHHHHTSTTTSCSTS-
T ss_pred CHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHhhccCCCCchhhhCCHHHHHHHHHHHHHHcchhhcCCCCC
Confidence 699999999999999999999999999999999999999999999988899999999999999999999999999 6999
Q ss_pred chHHHHHHHHHcCCChhhhhhcc
Q 001219 951 IDDRSFWITYVSSVSIPFAVPFV 973 (1121)
Q Consensus 951 ~DeR~~~~~~l~s~~v~~~l~~l 973 (1121)
+|||+++++++++++++.++.||
T Consensus 81 ~D~R~~~~~~~~~~~~~~~~~~i 103 (103)
T PF04815_consen 81 PDERAYAMHLLLSMPVDSLLRMI 103 (103)
T ss_dssp HHHHHHHHHHHHHS-HHHHHHHH
T ss_pred CcHHHHHHHHHHCCCHHHHHhhC
Confidence 99999999999999999998875
No 13
>PF08033 Sec23_BS: Sec23/Sec24 beta-sandwich domain; InterPro: IPR012990 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes part of the Sec23/24 beta-barrel domain, which is formed from approximately 180 residues from three segments of the polypeptide. The strands of the barrel are oriented roughly parallel to the membrane such that one end of the barrel forms part of the inner surface of the coat and the other end part of the membrane-distal surface. The barrel is constructed from two opposed sheets: a six-stranded beta sheet facing partly towards the zinc finger domain and partly towards the solvent, and a five-stranded beta sheet facing the helical domain.; PDB: 3EFO_B 3EG9_B 1PD0_A 1PD1_A 1M2V_B 1PCX_A 3EH2_C 3EGD_A 2NUP_A 3EGX_A ....
Probab=99.82 E-value=2e-20 Score=176.83 Aligned_cols=85 Identities=46% Similarity=0.734 Sum_probs=77.1
Q ss_pred cccceEEEEeCCCcEEEeeeCccccCC---------CCc--eeecCCCCCCeEEEEEEecCCCCCCCceEEEEEEEEEec
Q 001219 776 GFEAVMRVRCSQGIQVQEYHGNFCKRI---------PTD--IDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTV 844 (1121)
Q Consensus 776 g~~a~mrVR~S~GL~V~~~~G~f~~r~---------~~~--~~lp~id~dtSia~el~~d~~L~~~~~~~~Q~AlLYT~~ 844 (1121)
||||+||||||+||+|++++||++.++ .+. |++++++++++|+|+|++++++.....+|||+|++||+.
T Consensus 1 g~~~~l~vr~S~gl~v~~~~G~~~~~~~~s~~~~g~~~~~~~~~~~l~~~~s~~~~~~~~~~~~~~~~~~iQ~~~~Yt~~ 80 (96)
T PF08033_consen 1 GFNAVLRVRCSKGLKVSGVIGPCFNRSSVSDNEIGEGDTTRWKLPSLDPDTSFAFEFEIDEDLPNGSQAYIQFALLYTDS 80 (96)
T ss_dssp EEEEEEEEEE-TTEEEEEEESSSEESSTBESSECSBSSCSEEEEEEEETT--EEEEEEESSBTBTTSEEEEEEEEEEEET
T ss_pred CceEEEEEEECCCeEEEEEEcCccccccccceeeccCCccEEEecccCCCCEEEEEEEECCCCCCCCeEEEEEEEEEECC
Confidence 799999999999999999999998766 455 999999999999999999999887889999999999999
Q ss_pred CCcEEEEEEcccccCC
Q 001219 845 YGQRRIRVTTLSLPCT 860 (1121)
Q Consensus 845 ~GeRrIRV~Tl~lpVt 860 (1121)
+|+|||||+|++++||
T Consensus 81 ~G~r~iRV~T~~l~vt 96 (96)
T PF08033_consen 81 NGERRIRVTTLSLPVT 96 (96)
T ss_dssp TSEEEEEEEEEEEEEE
T ss_pred CCCEEEEEEeeccccC
Confidence 9999999999999985
No 14
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=99.50 E-value=5.5e-15 Score=117.52 Aligned_cols=40 Identities=53% Similarity=1.280 Sum_probs=29.2
Q ss_pred CCcccCCCCceecCceEEEecCCeEEecCCCCCCCCCccc
Q 001219 455 GPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRDY 494 (1121)
Q Consensus 455 ~pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~vP~~Y 494 (1121)
+|+||++|+||||||++|++++++|+|+||++.|++|.+|
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
>PRK13685 hypothetical protein; Provisional
Probab=98.66 E-value=3.8e-07 Score=104.89 Aligned_cols=172 Identities=20% Similarity=0.250 Sum_probs=119.4
Q ss_pred cEEEEEEEcchhHHhh----hHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccC
Q 001219 534 AVFFFLIDVSMNALQT----GATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTP 609 (1121)
Q Consensus 534 p~yvFvIDvS~~av~s----G~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvP 609 (1121)
-.++||||+|.+.... ..++.++++++..++.+..+ .+||+|+|++..++. +|
T Consensus 89 ~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l~~~--d~vglv~Fa~~a~~~---------------------~p 145 (326)
T PRK13685 89 AVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADELTPG--INLGLIAFAGTATVL---------------------VS 145 (326)
T ss_pred ceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhCCCC--CeEEEEEEcCceeec---------------------CC
Confidence 4689999999987542 36889999999999998654 689999998775421 11
Q ss_pred CcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc-----------CCeEEEEecCCCCcCccc
Q 001219 610 LQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-----------GGKLLVFQSVLPSVGIGA 678 (1121)
Q Consensus 610 l~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~-----------GGkIivF~sg~Pt~GpG~ 678 (1121)
+.+.++.+.+.|+.|.. ...+++|.||..|.+.++.. .++|+++++|.-|.|...
T Consensus 146 --------~t~d~~~l~~~l~~l~~------~~~T~~g~al~~A~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~~ 211 (326)
T PRK13685 146 --------PTTNREATKNAIDKLQL------ADRTATGEAIFTALQAIATVGAVIGGGDTPPPARIVLMSDGKETVPTNP 211 (326)
T ss_pred --------CCCCHHHHHHHHHhCCC------CCCcchHHHHHHHHHHHHhhhcccccccCCCCCEEEEEcCCCCCCCCCC
Confidence 12356677888888852 34567899999998887621 367999999876554211
Q ss_pred ccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCC-------------ccCcccccccccccc
Q 001219 679 LSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQT-------------YVDIASISVIPKTTG 745 (1121)
Q Consensus 679 L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~-------------~~dlatL~~La~~TG 745 (1121)
. + .. .. .+.++.+.+.||.|+.+.++.+ ..|-..|..+++.||
T Consensus 212 ~----~----------~~--------~~--~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~~~~d~~~L~~iA~~tg 267 (326)
T PRK13685 212 D----N----------PR--------GA--YTAARTAKDQGVPISTISFGTPYGSVEINGQRQPVPVDDESLKKIAQLSG 267 (326)
T ss_pred C----C----------cc--------cH--HHHHHHHHHcCCeEEEEEECCCCCCcCcCCceeeecCCHHHHHHHHHhcC
Confidence 0 0 00 00 2345667889999999998874 257789999999999
Q ss_pred eEEEEeCCCCCCCchhHHHHHHHH
Q 001219 746 GQVYYYYPFSALSDPAKLYNDLRW 769 (1121)
Q Consensus 746 G~v~~y~~F~~~~d~~~L~~dL~r 769 (1121)
|+.|+..+- .+-.+.+++|.+
T Consensus 268 G~~~~~~~~---~~L~~if~~I~~ 288 (326)
T PRK13685 268 GEFYTAASL---EELRAVYATLQQ 288 (326)
T ss_pred CEEEEcCCH---HHHHHHHHHHHH
Confidence 988876541 233444555544
No 16
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=98.55 E-value=1.7e-06 Score=91.48 Aligned_cols=164 Identities=16% Similarity=0.163 Sum_probs=108.5
Q ss_pred EEEEEEEcchhHHhh----hHHHHHHHHHHHHHhcCC-CCCCceEEEEEe-CCEEEEEecCCCCCCceEeecCCcccccc
Q 001219 535 VFFFLIDVSMNALQT----GATAAACSAISQVISDLP-EGPRTMVGIATF-DSTIHFYNLKRALQQPLMLIVPDVEDVYT 608 (1121)
Q Consensus 535 ~yvFvIDvS~~av~s----G~l~~v~~aI~~~L~~Lp-~~~rt~VGiITF-Ds~Vhfynl~~~~~~pqmlVvsDldd~fv 608 (1121)
..+|+||+|.+..++ -.++.+++.+...++.+. .++..+||||+| ++.-++. +
T Consensus 5 ~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~~---------------------~ 63 (183)
T cd01453 5 HLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEKL---------------------T 63 (183)
T ss_pred EEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEEE---------------------E
Confidence 468999999997643 268888888888877542 233469999999 5443321 1
Q ss_pred CCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc----CCeEEEEecCCCCcCccccccccc
Q 001219 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST----GGKLLVFQSVLPSVGIGALSAREA 684 (1121)
Q Consensus 609 Pl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~----GGkIivF~sg~Pt~GpG~L~~re~ 684 (1121)
|+ ....+.+...|+.+ + .....+.++.||..|...|+.. .++|+++.++.-+..+
T Consensus 64 Pl--------T~D~~~~~~~L~~~--~---~~~G~t~l~~aL~~A~~~l~~~~~~~~~~iiil~sd~~~~~~-------- 122 (183)
T cd01453 64 DL--------TGNPRKHIQALKTA--R---ECSGEPSLQNGLEMALESLKHMPSHGSREVLIIFSSLSTCDP-------- 122 (183)
T ss_pred CC--------CCCHHHHHHHhhcc--c---CCCCchhHHHHHHHHHHHHhcCCccCceEEEEEEcCCCcCCh--------
Confidence 21 11222344455554 1 1234579999999999999752 3568888765211000
Q ss_pred ccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCCchhHHH
Q 001219 685 EGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLY 764 (1121)
Q Consensus 685 ~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~d~~~L~ 764 (1121)
.-+.++++++.+.+|.|+++.+.. ++..|..+|+.|||+.|.-.+ .+.|.
T Consensus 123 ---------------------~~~~~~~~~l~~~~I~v~~IgiG~---~~~~L~~ia~~tgG~~~~~~~------~~~l~ 172 (183)
T cd01453 123 ---------------------GNIYETIDKLKKENIRVSVIGLSA---EMHICKEICKATNGTYKVILD------ETHLK 172 (183)
T ss_pred ---------------------hhHHHHHHHHHHcCcEEEEEEech---HHHHHHHHHHHhCCeeEeeCC------HHHHH
Confidence 012567888999999999999974 467899999999999987644 45666
Q ss_pred HHHHHh
Q 001219 765 NDLRWN 770 (1121)
Q Consensus 765 ~dL~r~ 770 (1121)
..|.+.
T Consensus 173 ~~~~~~ 178 (183)
T cd01453 173 ELLLEH 178 (183)
T ss_pred HHHHhc
Confidence 555543
No 17
>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.46 E-value=2.7e-06 Score=88.58 Aligned_cols=155 Identities=21% Similarity=0.234 Sum_probs=103.6
Q ss_pred EEEEEEEcchhHHhh-----hHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccC
Q 001219 535 VFFFLIDVSMNALQT-----GATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTP 609 (1121)
Q Consensus 535 ~yvFvIDvS~~av~s-----G~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvP 609 (1121)
-++||||+|.+.-.. -.++.+++.+...+...++ .+||+|+|++.++.. ++
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~~~~~---~~v~lv~f~~~~~~~---------------------~~ 59 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFIDRREN---DRIGLVVFAGAAFTQ---------------------AP 59 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHHHHHHHHHhCCC---CeEEEEEEcCCeeec---------------------cC
Confidence 478999999976322 1356777777777766543 699999998766421 11
Q ss_pred CcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc---CCeEEEEecCCCCcCccccccccccc
Q 001219 610 LQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---GGKLLVFQSVLPSVGIGALSAREAEG 686 (1121)
Q Consensus 610 l~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~---GGkIivF~sg~Pt~GpG~L~~re~~~ 686 (1121)
+ ...+..++++|+.|... .....+.++.||..|...+... ...|+++++|.++.|. .
T Consensus 60 ~--------~~~~~~~~~~l~~l~~~---~~~g~T~l~~al~~a~~~l~~~~~~~~~iiliTDG~~~~g~--~------- 119 (180)
T cd01467 60 L--------TLDRESLKELLEDIKIG---LAGQGTAIGDAIGLAIKRLKNSEAKERVIVLLTDGENNAGE--I------- 119 (180)
T ss_pred C--------CccHHHHHHHHHHhhhc---ccCCCCcHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCCCC--C-------
Confidence 1 12234455666666421 1234567999999999998653 2568888888754321 0
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCC----------ccCcccccccccccceEEEEeCC
Q 001219 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQT----------YVDIASISVIPKTTGGQVYYYYP 753 (1121)
Q Consensus 687 r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~----------~~dlatL~~La~~TGG~v~~y~~ 753 (1121)
. ..+.+..+.+.+|.|+.+.+... ..|...|..|++.|||.+++..+
T Consensus 120 ---------------~-----~~~~~~~~~~~gi~i~~i~ig~~~~~~~~~~~~~~~~~~l~~la~~tgG~~~~~~~ 176 (180)
T cd01467 120 ---------------D-----PATAAELAKNKGVRIYTIGVGKSGSGPKPDGSTILDEDSLVEIADKTGGRIFRALD 176 (180)
T ss_pred ---------------C-----HHHHHHHHHHCCCEEEEEEecCCCCCcCCCCcccCCHHHHHHHHHhcCCEEEEecC
Confidence 0 12233456678999999998873 46788899999999999998754
No 18
>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=98.39 E-value=6.1e-06 Score=86.52 Aligned_cols=159 Identities=19% Similarity=0.200 Sum_probs=107.9
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCE-EEEEecCCCCCCceEeecCCccccccCCccc
Q 001219 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDST-IHFYNLKRALQQPLMLIVPDVEDVYTPLQSD 613 (1121)
Q Consensus 535 ~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~-Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~ 613 (1121)
.++||||+|.+......++.+++++...+..+.. .+.+||||+|+++ .++. +|.
T Consensus 2 ~v~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~~~-~~d~v~lv~F~~~~~~~~---------------------~~~--- 56 (178)
T cd01451 2 LVIFVVDASGSMAARHRMAAAKGAVLSLLRDAYQ-RRDKVALIAFRGTEAEVL---------------------LPP--- 56 (178)
T ss_pred eEEEEEECCccCCCccHHHHHHHHHHHHHHHhhc-CCCEEEEEEECCCCceEE---------------------eCC---
Confidence 3689999999875432577888888887764322 2379999999864 2211 111
Q ss_pred ceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHH-h---cC--CeEEEEecCCCCcCcccccccccccC
Q 001219 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALK-S---TG--GKLLVFQSVLPSVGIGALSAREAEGR 687 (1121)
Q Consensus 614 lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~-~---~G--GkIivF~sg~Pt~GpG~L~~re~~~r 687 (1121)
...+..+...|+.++ ....+.++.||..|...++ . .+ ..|+++++|.++.|...
T Consensus 57 -----t~~~~~~~~~l~~l~------~~G~T~l~~aL~~a~~~l~~~~~~~~~~~~ivliTDG~~~~g~~~--------- 116 (178)
T cd01451 57 -----TRSVELAKRRLARLP------TGGGTPLAAGLLAAYELAAEQARDPGQRPLIVVITDGRANVGPDP--------- 116 (178)
T ss_pred -----CCCHHHHHHHHHhCC------CCCCCcHHHHHHHHHHHHHHHhcCCCCceEEEEECCCCCCCCCCc---------
Confidence 112233455666664 2456789999999999882 1 12 46888888887665210
Q ss_pred CCCCCCccccccccchhHHHH-HHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCC
Q 001219 688 SNISSGEKETHKLLQPADKTL-KAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFS 755 (1121)
Q Consensus 688 ~~~~~gt~~e~~ll~pa~~FY-k~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~ 755 (1121)
...- .++++++.+.+|.|.++.+...+.|-..|..|++.|||+.|+.++.+
T Consensus 117 -----------------~~~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~~tgG~~~~~~d~~ 168 (178)
T cd01451 117 -----------------TADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLARALGGQYVRLPDLS 168 (178)
T ss_pred -----------------hhHHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHHHcCCeEEEcCcCC
Confidence 0011 56677888899988777666666788889999999999999988753
No 19
>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=98.39 E-value=6.9e-06 Score=84.40 Aligned_cols=156 Identities=15% Similarity=0.179 Sum_probs=109.8
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcccc
Q 001219 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDI 614 (1121)
Q Consensus 535 ~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~l 614 (1121)
.++||||+|.+.-... ++.+++++...+..+..+ .+|++|+|++..+.+- +. ..
T Consensus 2 ~~~~vlD~S~SM~~~~-~~~~k~a~~~~~~~l~~~--~~v~li~f~~~~~~~~--------------~~----~~----- 55 (170)
T cd01465 2 NLVFVIDRSGSMDGPK-LPLVKSALKLLVDQLRPD--DRLAIVTYDGAAETVL--------------PA----TP----- 55 (170)
T ss_pred cEEEEEECCCCCCChh-HHHHHHHHHHHHHhCCCC--CEEEEEEecCCccEEe--------------cC----cc-----
Confidence 3789999999875433 678888999999988664 6999999987654321 00 00
Q ss_pred eeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc---C--CeEEEEecCCCCcCcccccccccccCCC
Q 001219 615 IVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---G--GKLLVFQSVLPSVGIGALSAREAEGRSN 689 (1121)
Q Consensus 615 Lv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~---G--GkIivF~sg~Pt~GpG~L~~re~~~r~~ 689 (1121)
...++.+...|+++. ....+.++.||+.|...++.. + .+|++|++|.++.|...
T Consensus 56 ----~~~~~~l~~~l~~~~------~~g~T~~~~al~~a~~~~~~~~~~~~~~~ivl~TDG~~~~~~~~----------- 114 (170)
T cd01465 56 ----VRDKAAILAAIDRLT------AGGSTAGGAGIQLGYQEAQKHFVPGGVNRILLATDGDFNVGETD----------- 114 (170)
T ss_pred ----cchHHHHHHHHHcCC------CCCCCCHHHHHHHHHHHHHhhcCCCCeeEEEEEeCCCCCCCCCC-----------
Confidence 012344555565553 234567899999999988642 2 56999999987765310
Q ss_pred CCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCC
Q 001219 690 ISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYP 753 (1121)
Q Consensus 690 ~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~ 753 (1121)
.+-+++....+.+.+|.|+.|.+. ...|...|..+++.++|..++..+
T Consensus 115 ---------------~~~~~~~~~~~~~~~v~i~~i~~g-~~~~~~~l~~ia~~~~g~~~~~~~ 162 (170)
T cd01465 115 ---------------PDELARLVAQKRESGITLSTLGFG-DNYNEDLMEAIADAGNGNTAYIDN 162 (170)
T ss_pred ---------------HHHHHHHHHHhhcCCeEEEEEEeC-CCcCHHHHHHHHhcCCceEEEeCC
Confidence 012344555667889999999998 678889999999999999887655
No 20
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.38 E-value=1.5e-05 Score=100.71 Aligned_cols=168 Identities=17% Similarity=0.221 Sum_probs=109.3
Q ss_pred CcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhc-CCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCc
Q 001219 533 PAVFFFLIDVSMNALQTGATAAACSAISQVISD-LPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQ 611 (1121)
Q Consensus 533 pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~-Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~ 611 (1121)
...++||||+|.++.....++.++++++..|.. ++.+ .+||||+||+..++.. + +.++.
T Consensus 304 ~r~VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~l~~~--DrVGLVtFsssA~vl~--------------p----Lt~It 363 (863)
T TIGR00868 304 QRIVCLVLDKSGSMTVEDRLKRMNQAAKLFLLQTVEKG--SWVGMVTFDSAAYIKN--------------E----LIQIT 363 (863)
T ss_pred CceEEEEEECCccccccCHHHHHHHHHHHHHHHhCCCC--CEEEEEEECCceeEee--------------c----cccCC
Confidence 356899999999975434577777777776644 4433 7999999999865321 1 11110
Q ss_pred ccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh-----cCCeEEEEecCCCCcCccccccccccc
Q 001219 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS-----TGGKLLVFQSVLPSVGIGALSAREAEG 686 (1121)
Q Consensus 612 ~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~-----~GGkIivF~sg~Pt~GpG~L~~re~~~ 686 (1121)
+ ...++.|...|... ....++++.||+.|+++|+. .+..||++++|..+.+
T Consensus 364 s------~~dr~aL~~~L~~~-------A~GGT~I~~GL~~Alq~L~~~~~~~~~~~IILLTDGedn~~----------- 419 (863)
T TIGR00868 364 S------SAERDALTANLPTA-------ASGGTSICSGLKAAFQVIKKSYQSTDGSEIVLLTDGEDNTI----------- 419 (863)
T ss_pred c------HHHHHHHHHhhccc-------cCCCCcHHHHHHHHHHHHHhcccccCCCEEEEEeCCCCCCH-----------
Confidence 0 12233344333211 24578999999999999975 3567888877653210
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCCchhHHHHH
Q 001219 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYND 766 (1121)
Q Consensus 687 r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~d~~~L~~d 766 (1121)
.++..++.+++|.|+.|.++.+.- ..|..||+.|||..|+..+ ..+...|...
T Consensus 420 ----------------------~~~l~~lk~~gVtI~TIg~G~dad--~~L~~IA~~TGG~~f~asd---~~dl~~L~dA 472 (863)
T TIGR00868 420 ----------------------SSCFEEVKQSGAIIHTIALGPSAA--KELEELSDMTGGLRFYASD---QADNNGLIDA 472 (863)
T ss_pred ----------------------HHHHHHHHHcCCEEEEEEeCCChH--HHHHHHHHhcCCEEEEeCC---HHHHHHHHHH
Confidence 123345567899999999987643 4589999999999998864 1233456666
Q ss_pred HHHhc
Q 001219 767 LRWNI 771 (1121)
Q Consensus 767 L~r~l 771 (1121)
|.++.
T Consensus 473 F~~is 477 (863)
T TIGR00868 473 FGALS 477 (863)
T ss_pred HHHHh
Confidence 65543
No 21
>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=98.36 E-value=4.4e-06 Score=85.71 Aligned_cols=147 Identities=16% Similarity=0.208 Sum_probs=103.6
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcccce
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDII 615 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~lL 615 (1121)
.+||||+|.+... ..++.++++|...++.|+++ .+||||+|++..+.+. .+.+.
T Consensus 3 v~~vlD~S~SM~~-~rl~~ak~a~~~l~~~l~~~--~~~~li~F~~~~~~~~------------------~~~~~----- 56 (155)
T cd01466 3 LVAVLDVSGSMAG-DKLQLVKHALRFVISSLGDA--DRLSIVTFSTSAKRLS------------------PLRRM----- 56 (155)
T ss_pred EEEEEECCCCCCc-HHHHHHHHHHHHHHHhCCCc--ceEEEEEecCCccccC------------------CCccc-----
Confidence 5799999997643 25778899999999988865 6899999998754320 01110
Q ss_pred eehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc-----CCeEEEEecCCCCcCcccccccccccCCCC
Q 001219 616 VPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-----GGKLLVFQSVLPSVGIGALSAREAEGRSNI 690 (1121)
Q Consensus 616 v~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~-----GGkIivF~sg~Pt~GpG~L~~re~~~r~~~ 690 (1121)
-.+.++.+.++|+.|. ....++++.||..|..+++.. ...||++++|.++.|. .
T Consensus 57 --~~~~~~~~~~~i~~~~------~~g~T~~~~al~~a~~~~~~~~~~~~~~~iillTDG~~~~~~-------~------ 115 (155)
T cd01466 57 --TAKGKRSAKRVVDGLQ------AGGGTNVVGGLKKALKVLGDRRQKNPVASIMLLSDGQDNHGA-------V------ 115 (155)
T ss_pred --CHHHHHHHHHHHHhcc------CCCCccHHHHHHHHHHHHhhcccCCCceEEEEEcCCCCCcch-------h------
Confidence 0123556677777763 245689999999999999743 2578888888876540 0
Q ss_pred CCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEe
Q 001219 691 SSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYY 751 (1121)
Q Consensus 691 ~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y 751 (1121)
. .++.+.+|.|..+.++. ..|..+|..|+..|||+.|+.
T Consensus 116 ~---------------------~~~~~~~v~v~~igig~-~~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 116 V---------------------LRADNAPIPIHTFGLGA-SHDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred h---------------------hcccCCCceEEEEecCC-CCCHHHHHHHHhccCceEEEe
Confidence 0 01123678888888764 468889999999999999874
No 22
>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=98.36 E-value=7.5e-06 Score=86.71 Aligned_cols=165 Identities=15% Similarity=0.175 Sum_probs=107.3
Q ss_pred CCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCC
Q 001219 531 PMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPL 610 (1121)
Q Consensus 531 p~pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl 610 (1121)
..|-.++||||+|.+.... .++.++++++..|+.|.++ .+||||+|++.++.+---.
T Consensus 11 ~~p~~vv~llD~SgSM~~~-~l~~ak~~~~~ll~~l~~~--d~v~lv~F~~~~~~~~~~~-------------------- 67 (190)
T cd01463 11 TSPKDIVILLDVSGSMTGQ-RLHLAKQTVSSILDTLSDN--DFFNIITFSNEVNPVVPCF-------------------- 67 (190)
T ss_pred cCCceEEEEEECCCCCCcH-HHHHHHHHHHHHHHhCCCC--CEEEEEEeCCCeeEEeeec--------------------
Confidence 3456789999999987533 4688899999999999765 6999999999876431000
Q ss_pred cccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh---c---------CCeEEEEecCCCCcCccc
Q 001219 611 QSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---T---------GGKLLVFQSVLPSVGIGA 678 (1121)
Q Consensus 611 ~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~---~---------GGkIivF~sg~Pt~GpG~ 678 (1121)
...++....+.++.+...|+.|.. ...+.++.||..|...++. . ...|+++++|.++.+.
T Consensus 68 ~~~~~~~~~~~~~~~~~~l~~l~~------~G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~-- 139 (190)
T cd01463 68 NDTLVQATTSNKKVLKEALDMLEA------KGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPENYK-- 139 (190)
T ss_pred ccceEecCHHHHHHHHHHHhhCCC------CCcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCcHh--
Confidence 011111122345555666666542 3346899999999988875 1 1358888888764210
Q ss_pred ccccccccCCCCCCCccccccccchhHHHHHHHHH-HHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCC
Q 001219 679 LSAREAEGRSNISSGEKETHKLLQPADKTLKAMAI-EFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYP 753 (1121)
Q Consensus 679 L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~-~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~ 753 (1121)
+.++++.. ...+.+|.|..|.++.+..|...|..|+..+||..++.++
T Consensus 140 ---------------------------~~~~~~~~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~~~~G~~~~i~~ 188 (190)
T cd01463 140 ---------------------------EIFDKYNWDKNSEIPVRVFTYLIGREVTDRREIQWMACENKGYYSHIQS 188 (190)
T ss_pred ---------------------------HHHHHhcccccCCCcEEEEEEecCCccccchHHHHHHhhcCCeEEEccc
Confidence 00111110 1112346666666666656889999999999999998765
No 23
>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=98.35 E-value=5.2e-06 Score=89.03 Aligned_cols=174 Identities=20% Similarity=0.195 Sum_probs=110.7
Q ss_pred CCCCCcEEEEEEEcchhHHh-----hhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCc
Q 001219 529 RDPMPAVFFFLIDVSMNALQ-----TGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDV 603 (1121)
Q Consensus 529 r~p~pp~yvFvIDvS~~av~-----sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDl 603 (1121)
....+..++||||+|.+... ...++.+++++...|+.++++ .+|||++|++.++-. .. .+ .+++
T Consensus 16 ~~~~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l~~~--~~v~lv~F~~~~~~~---~~---~~-~~~p-- 84 (206)
T cd01456 16 EPQLPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDG--TRLGLWTFSGDGDNP---LD---VR-VLVP-- 84 (206)
T ss_pred ccCCCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhCCCC--ceEEEEEecCCCCCC---cc---cc-cccc--
Confidence 34566789999999998762 236889999999999998765 799999999855210 00 00 0000
Q ss_pred cccccCCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcC-CeEEEEecCCCCcCccccccc
Q 001219 604 EDVYTPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG-GKLLVFQSVLPSVGIGALSAR 682 (1121)
Q Consensus 604 dd~fvPl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~G-GkIivF~sg~Pt~GpG~L~~r 682 (1121)
..+....+--.....++.+.+.|+.|. .....+.++.||+.|...++... ..||++++|..+.+...
T Consensus 85 ---~~~~~~~~~~~~~~~~~~l~~~i~~i~-----~~~G~T~l~~aL~~a~~~l~~~~~~~iillTDG~~~~~~~~---- 152 (206)
T cd01456 85 ---KGCLTAPVNGFPSAQRSALDAALNSLQ-----TPTGWTPLAAALAEAAAYVDPGRVNVVVLITDGEDTCGPDP---- 152 (206)
T ss_pred ---ccccccccCCCCcccHHHHHHHHHhhc-----CCCCcChHHHHHHHHHHHhCCCCcceEEEEcCCCccCCCCH----
Confidence 001100000000134566777787775 12456789999999999996222 57889988876543200
Q ss_pred ccccCCCCCCCccccccccchhHHHHHHHHHHH-HhcCeEEEEEEecCCccCcccccccccccceEE
Q 001219 683 EAEGRSNISSGEKETHKLLQPADKTLKAMAIEF-AEYQVCVDVFITTQTYVDIASISVIPKTTGGQV 748 (1121)
Q Consensus 683 e~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~-~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v 748 (1121)
.+..++++.+. .+.+|.|+++.+..+ .|...|..|++.|||..
T Consensus 153 ----------------------~~~~~~~~~~~~~~~~i~i~~igiG~~-~~~~~l~~iA~~tgG~~ 196 (206)
T cd01456 153 ----------------------CEVARELAKRRTPAPPIKVNVIDFGGD-ADRAELEAIAEATGGTY 196 (206)
T ss_pred ----------------------HHHHHHHHHhcCCCCCceEEEEEecCc-ccHHHHHHHHHhcCCeE
Confidence 01112222110 225899999999865 67889999999999988
No 24
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=98.32 E-value=6.9e-06 Score=83.55 Aligned_cols=151 Identities=14% Similarity=0.162 Sum_probs=100.6
Q ss_pred EEEEEEcchhHHhhh----HHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCc
Q 001219 536 FFFLIDVSMNALQTG----ATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQ 611 (1121)
Q Consensus 536 yvFvIDvS~~av~sG----~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~ 611 (1121)
+|||||+|.+....+ .++.+++++...++.+++ .+|+|++|++..+..
T Consensus 2 vv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~~~~---~~v~l~~f~~~~~~~------------------------- 53 (172)
T PF13519_consen 2 VVFVLDNSGSMNGYDGNRTRIDQAKDALNELLANLPG---DRVGLVSFSDSSRTL------------------------- 53 (172)
T ss_dssp EEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHHHTT---SEEEEEEESTSCEEE-------------------------
T ss_pred EEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHHCCC---CEEEEEEeccccccc-------------------------
Confidence 689999999886552 578889999999988764 499999998753110
Q ss_pred ccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcC---CeEEEEecCCCCcCcccccccccccCC
Q 001219 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG---GKLLVFQSVLPSVGIGALSAREAEGRS 688 (1121)
Q Consensus 612 ~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~G---GkIivF~sg~Pt~GpG~L~~re~~~r~ 688 (1121)
.++...++.+.+.|+++.... ......+++.||..|.+++.... ..|++|++|.++ .
T Consensus 54 ----~~~t~~~~~~~~~l~~~~~~~--~~~~~t~~~~al~~a~~~~~~~~~~~~~iv~iTDG~~~------------~-- 113 (172)
T PF13519_consen 54 ----SPLTSDKDELKNALNKLSPQG--MPGGGTNLYDALQEAAKMLASSDNRRRAIVLITDGEDN------------S-- 113 (172)
T ss_dssp ----EEEESSHHHHHHHHHTHHHHG----SSS--HHHHHHHHHHHHHC-SSEEEEEEEEES-TTH------------C--
T ss_pred ----ccccccHHHHHHHhhcccccc--cCccCCcHHHHHHHHHHHHHhCCCCceEEEEecCCCCC------------c--
Confidence 011234455566666664321 12455789999999999998643 456666665322 0
Q ss_pred CCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeC
Q 001219 689 NISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYY 752 (1121)
Q Consensus 689 ~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~ 752 (1121)
+ ..+.+..+.+.+|.|.++.+..+...-..|..|++.|||..+...
T Consensus 114 ------~------------~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~~~~ 159 (172)
T PF13519_consen 114 ------S------------DIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGRYFHVD 159 (172)
T ss_dssp ------H------------HHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEEEEEE-
T ss_pred ------c------------hhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCEEEEec
Confidence 0 012666788999999999998887766789999999999988873
No 25
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax. ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells.
Probab=98.12 E-value=7.2e-05 Score=78.92 Aligned_cols=167 Identities=12% Similarity=0.081 Sum_probs=95.9
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEE-ecCCCCCCceEeecCCccccccCCccc
Q 001219 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDVYTPLQSD 613 (1121)
Q Consensus 535 ~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfy-nl~~~~~~pqmlVvsDldd~fvPl~~~ 613 (1121)
-.+||||+|.+.-.. ....++.+++.++.+.. ++.+||||+|++..+.. .+. +
T Consensus 6 Dvv~llD~SgSm~~~--~~~~~~~~~~l~~~~~~-~~~rvglv~Fs~~~~~~~~l~------------~----------- 59 (185)
T cd01474 6 DLYFVLDKSGSVAAN--WIEIYDFVEQLVDRFNS-PGLRFSFITFSTRATKILPLT------------D----------- 59 (185)
T ss_pred eEEEEEeCcCchhhh--HHHHHHHHHHHHHHcCC-CCcEEEEEEecCCceEEEecc------------c-----------
Confidence 479999999986432 23344666666666532 34899999998765321 110 0
Q ss_pred ceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHH--hcCCe-----EEEEecCCCCcCccccccccccc
Q 001219 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALK--STGGK-----LLVFQSVLPSVGIGALSAREAEG 686 (1121)
Q Consensus 614 lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~--~~GGk-----IivF~sg~Pt~GpG~L~~re~~~ 686 (1121)
..+.+.+.|+.|..+. ....+++|.||+.|...|. ..||+ ||++++|..+-..+
T Consensus 60 -------~~~~~~~~l~~l~~~~---~~g~T~~~~aL~~a~~~l~~~~~~~r~~~~~villTDG~~~~~~~--------- 120 (185)
T cd01474 60 -------DSSAIIKGLEVLKKVT---PSGQTYIHEGLENANEQIFNRNGGGRETVSVIIALTDGQLLLNGH--------- 120 (185)
T ss_pred -------cHHHHHHHHHHHhccC---CCCCCcHHHHHHHHHHHHHhhccCCCCCCeEEEEEcCCCcCCCCC---------
Confidence 0112333444444332 1356899999999998773 34442 77777776421000
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEE-EeCCCCCCCchhHHHH
Q 001219 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVY-YYYPFSALSDPAKLYN 765 (1121)
Q Consensus 687 r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~-~y~~F~~~~d~~~L~~ 765 (1121)
.+ -.+.+.++.+.||.|..+.+ ...|..+|..++..++ .+| ...+|+ ....+.+
T Consensus 121 -------~~------------~~~~a~~l~~~gv~i~~vgv--~~~~~~~L~~iA~~~~-~~f~~~~~~~---~l~~~~~ 175 (185)
T cd01474 121 -------KY------------PEHEAKLSRKLGAIVYCVGV--TDFLKSQLINIADSKE-YVFPVTSGFQ---ALSGIIE 175 (185)
T ss_pred -------cc------------hHHHHHHHHHcCCEEEEEee--chhhHHHHHHHhCCCC-eeEecCccHH---HHHHHHH
Confidence 00 01234456678886666655 5678888999998775 454 333443 2234455
Q ss_pred HHHHhc
Q 001219 766 DLRWNI 771 (1121)
Q Consensus 766 dL~r~l 771 (1121)
+|.+.+
T Consensus 176 ~~~~~~ 181 (185)
T cd01474 176 SVVKKA 181 (185)
T ss_pred HHHHhh
Confidence 554443
No 26
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=98.11 E-value=0.00014 Score=82.34 Aligned_cols=158 Identities=18% Similarity=0.216 Sum_probs=100.7
Q ss_pred CCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhc-CCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCC
Q 001219 532 MPAVFFFLIDVSMNALQTGATAAACSAISQVISD-LPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPL 610 (1121)
Q Consensus 532 ~pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~-Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl 610 (1121)
.|...+||||+|.+... .+..++++++..|+. +.. +.+|+||+|++.+++.. ++
T Consensus 52 ~p~~vvlvlD~SgSM~~--~~~~a~~a~~~~l~~~l~~--~d~v~lv~f~~~~~~~~--------------~~------- 106 (296)
T TIGR03436 52 LPLTVGLVIDTSGSMRN--DLDRARAAAIRFLKTVLRP--NDRVFVVTFNTRLRLLQ--------------DF------- 106 (296)
T ss_pred CCceEEEEEECCCCchH--HHHHHHHHHHHHHHhhCCC--CCEEEEEEeCCceeEee--------------cC-------
Confidence 46789999999998753 467788888888876 543 47999999998775421 10
Q ss_pred cccceeehHHhHHHHHHHHhhcCcccc---------CCCCCcchHHHHHHHH-HHHHHhc-----CCe-EEEEecCCCCc
Q 001219 611 QSDIIVPVSECRQHLELLLESIPSMFQ---------NNRTAESAFGAAVKAA-FLALKST-----GGK-LLVFQSVLPSV 674 (1121)
Q Consensus 611 ~~~lLv~l~e~~~~I~~lLd~Lp~~f~---------~~~~~~~~lG~AL~aA-~~lL~~~-----GGk-IivF~sg~Pt~ 674 (1121)
...++.|...|+.|..... ......+++..||..| ..++... |-| ||+|++|.-+
T Consensus 107 --------t~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~~~p~rk~iIllTDG~~~- 177 (296)
T TIGR03436 107 --------TSDPRLLEAALNRLKPPLRTDYNSSGAFVRDGGGTALYDAITLAALEQLANALAGIPGRKALIVISDGGDN- 177 (296)
T ss_pred --------CCCHHHHHHHHHhccCCCccccccccccccCCCcchhHHHHHHHHHHHHHHhhcCCCCCeEEEEEecCCCc-
Confidence 1124456666666643110 0124557788887544 4555432 334 5555554210
Q ss_pred CcccccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCc------------cCccccccccc
Q 001219 675 GIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTY------------VDIASISVIPK 742 (1121)
Q Consensus 675 GpG~L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~------------~dlatL~~La~ 742 (1121)
....-++++...|.+.+|.|..+.+.... .+-..|..||+
T Consensus 178 ----------------------------~~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L~~iA~ 229 (296)
T TIGR03436 178 ----------------------------RSRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEALERLAE 229 (296)
T ss_pred ----------------------------chHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHHHHHHH
Confidence 01123567778888999998888775321 24467999999
Q ss_pred ccceEEEEe
Q 001219 743 TTGGQVYYY 751 (1121)
Q Consensus 743 ~TGG~v~~y 751 (1121)
.|||+.++.
T Consensus 230 ~TGG~~~~~ 238 (296)
T TIGR03436 230 ETGGRAFYV 238 (296)
T ss_pred HhCCeEecc
Confidence 999997664
No 27
>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=98.11 E-value=6.4e-05 Score=77.46 Aligned_cols=151 Identities=14% Similarity=0.109 Sum_probs=95.3
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC-CCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcccc
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEG-PRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDI 614 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~-~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~l 614 (1121)
.+|+||+|.+.... -++.++++++..+..|... .+.+||||+|++..+..- .+..
T Consensus 3 vv~vlD~SgSm~~~-~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~~~--------------~~~~--------- 58 (164)
T cd01472 3 IVFLVDGSESIGLS-NFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRTEF--------------YLNT--------- 58 (164)
T ss_pred EEEEEeCCCCCCHH-HHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCceeEEE--------------ecCC---------
Confidence 58999999976543 4577888888888877532 347999999998765421 0000
Q ss_pred eeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc--------CCeEEEEecCCCCcCccccccccccc
Q 001219 615 IVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST--------GGKLLVFQSVLPSVGIGALSAREAEG 686 (1121)
Q Consensus 615 Lv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~--------GGkIivF~sg~Pt~GpG~L~~re~~~ 686 (1121)
...++.+.+.|+.|... ...+.+|.||..|...+... ...|+++++|.++.+
T Consensus 59 ----~~~~~~~~~~l~~l~~~-----~g~T~~~~al~~a~~~l~~~~~~~~~~~~~~iiliTDG~~~~~----------- 118 (164)
T cd01472 59 ----YRSKDDVLEAVKNLRYI-----GGGTNTGKALKYVRENLFTEASGSREGVPKVLVVITDGKSQDD----------- 118 (164)
T ss_pred ----CCCHHHHHHHHHhCcCC-----CCCchHHHHHHHHHHHhCCcccCCCCCCCEEEEEEcCCCCCch-----------
Confidence 01234455567777532 34578999999999988641 124566666632110
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccce-EEEEeCC
Q 001219 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGG-QVYYYYP 753 (1121)
Q Consensus 687 r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG-~v~~y~~ 753 (1121)
....+.++.+.||.|..+.+.. .|...|..++..++| .++.+.+
T Consensus 119 ---------------------~~~~~~~l~~~gv~i~~ig~g~--~~~~~L~~ia~~~~~~~~~~~~~ 163 (164)
T cd01472 119 ---------------------VEEPAVELKQAGIEVFAVGVKN--ADEEELKQIASDPKELYVFNVAD 163 (164)
T ss_pred ---------------------HHHHHHHHHHCCCEEEEEECCc--CCHHHHHHHHCCCchheEEeccC
Confidence 0112234556777655554443 499999999999987 5665554
No 28
>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=98.10 E-value=0.00044 Score=86.02 Aligned_cols=286 Identities=12% Similarity=0.093 Sum_probs=161.4
Q ss_pred CCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCC
Q 001219 531 PMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPL 610 (1121)
Q Consensus 531 p~pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl 610 (1121)
..+..++||||+|.++.. .-++.+++++..+|+.|.++ .+|+||+||+.++.+.- . ..+.
T Consensus 269 ~~p~~vvfvlD~SgSM~g-~~i~~ak~al~~~l~~L~~~--d~~~ii~F~~~~~~~~~-------~----------~~~~ 328 (596)
T TIGR03788 269 VLPRELVFVIDTSGSMAG-ESIEQAKSALLLALDQLRPG--DRFNIIQFDSDVTLLFP-------V----------PVPA 328 (596)
T ss_pred CCCceEEEEEECCCCCCC-ccHHHHHHHHHHHHHhCCCC--CEEEEEEECCcceEecc-------c----------cccC
Confidence 456679999999998743 23677888999999999765 69999999998865420 0 0000
Q ss_pred cccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc-C---CeEEEEecCCCCcCccccccccccc
Q 001219 611 QSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-G---GKLLVFQSVLPSVGIGALSAREAEG 686 (1121)
Q Consensus 611 ~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~-G---GkIivF~sg~Pt~GpG~L~~re~~~ 686 (1121)
-.+.++.+...|+.|.. ...+.+..||+.|+...... . -.||++++|.. |
T Consensus 329 -------~~~~~~~a~~~i~~l~a------~GgT~l~~aL~~a~~~~~~~~~~~~~~iillTDG~~----~--------- 382 (596)
T TIGR03788 329 -------TAHNLARARQFVAGLQA------DGGTEMAGALSAALRDDGPESSGALRQVVFLTDGAV----G--------- 382 (596)
T ss_pred -------CHHHHHHHHHHHhhCCC------CCCccHHHHHHHHHHhhcccCCCceeEEEEEeCCCC----C---------
Confidence 01233444455665532 35578999999998775332 1 25888888742 0
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCCchhHHHHH
Q 001219 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYND 766 (1121)
Q Consensus 687 r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~d~~~L~~d 766 (1121)
++ ...++.+. ....++.|..|.++.+ .|-..|..|++.+||..++..+ .+...+++.+.
T Consensus 383 --------~~--------~~~~~~~~--~~~~~~ri~tvGiG~~-~n~~lL~~lA~~g~G~~~~i~~--~~~~~~~~~~~ 441 (596)
T TIGR03788 383 --------NE--------DALFQLIR--TKLGDSRLFTVGIGSA-PNSYFMRKAAQFGRGSFTFIGS--TDEVQRKMSQL 441 (596)
T ss_pred --------CH--------HHHHHHHH--HhcCCceEEEEEeCCC-cCHHHHHHHHHcCCCEEEECCC--HHHHHHHHHHH
Confidence 00 11222221 1234567777777654 5778899999999997776543 11122333333
Q ss_pred HHHhccCCccccceEEEEeCCCcEEEeeeCccccCCCCceeecCCCCCCeEEEEEEecCCCCCCCceEEEEEEEEEecCC
Q 001219 767 LRWNITRPQGFEAVMRVRCSQGIQVQEYHGNFCKRIPTDIDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYG 846 (1121)
Q Consensus 767 L~r~ltr~~g~~a~mrVR~S~GL~V~~~~G~f~~r~~~~~~lp~id~dtSia~el~~d~~L~~~~~~~~Q~AlLYT~~~G 846 (1121)
|.+ +.....-+..+++.. ..+..++ --.++.+.....+.+..++... ... + .+..+..++
T Consensus 442 l~~-~~~p~l~~v~v~~~~---~~~~~v~---------P~~~p~L~~g~~l~v~g~~~~~---~~~--i--~v~g~~~~~ 501 (596)
T TIGR03788 442 FAK-LEQPALTDIALTFDN---GNAADVY---------PSPIPDLYRGEPLQIAIKLQQA---AGE--L--QLTGRTGSQ 501 (596)
T ss_pred HHh-hcCeEEEEEEEEEcC---Cccceec---------cCCCccccCCCEEEEEEEecCC---CCe--E--EEEEEcCCc
Confidence 333 555666666666632 2222222 1235566666777777665331 112 2 233332322
Q ss_pred cEEEEEEcccccCCCCHHHHHhccChhHHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHHHHHHHHHhhcc
Q 001219 847 QRRIRVTTLSLPCTSNLSNLYRSADLDTQFTCFMKQAASEIPSTPL-ANVREQMMNLCVNALVSYRKFCA 915 (1121)
Q Consensus 847 eRrIRV~Tl~lpVts~l~~vf~~~D~dai~~~laK~a~~~~~~~~l-~d~R~~L~~~lv~iL~~Yrk~~a 915 (1121)
. . +..+.+... .+-..+-.++||+-+..+..... ..-++.+.++++++-..|+-.|.
T Consensus 502 ~--~---~~~~~~~~~-------~~~~~l~~lwA~~~I~~L~~~~~~~~~~~~~~~~Ii~Lsl~y~lvT~ 559 (596)
T TIGR03788 502 P--W---SQQLDLDSA-------APGKGIDKLWARRKIDSLEDSLRYGANEEKVKDQVTALALNHHLVSP 559 (596)
T ss_pred e--E---EEEEecCCC-------CCcchHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHhCCCCc
Confidence 2 1 122222221 13344667788877776642211 01124566778888888876554
No 29
>cd01461 vWA_interalpha_trypsin_inhibitor vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to the extracellular matrix by binding to hyaluronic acid. The heavy chains carry the VWA domain with a conserved MIDAS motif. Although the exact role of the VWA domains remains unknown, it has been speculated to be involved in mediating protein-protein interactions with the components of the extracellular matrix.
Probab=98.03 E-value=0.00019 Score=73.78 Aligned_cols=157 Identities=16% Similarity=0.183 Sum_probs=101.3
Q ss_pred CcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcc
Q 001219 533 PAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQS 612 (1121)
Q Consensus 533 pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~ 612 (1121)
|.-++||+|+|.+... ..++.++++|...+..++.+ .+|+|++|++.++.+- .. +.+
T Consensus 2 ~~~v~~vlD~S~SM~~-~~~~~~~~al~~~l~~l~~~--~~~~l~~Fs~~~~~~~--~~---------------~~~--- 58 (171)
T cd01461 2 PKEVVFVIDTSGSMSG-TKIEQTKEALLTALKDLPPG--DYFNIIGFSDTVEEFS--PS---------------SVS--- 58 (171)
T ss_pred CceEEEEEECCCCCCC-hhHHHHHHHHHHHHHhCCCC--CEEEEEEeCCCceeec--Cc---------------cee---
Confidence 4468999999998743 23778888999999888765 6899999998765431 00 000
Q ss_pred cceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh---cCCeEEEEecCCCCcCcccccccccccCCC
Q 001219 613 DIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---TGGKLLVFQSVLPSVGIGALSAREAEGRSN 689 (1121)
Q Consensus 613 ~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~---~GGkIivF~sg~Pt~GpG~L~~re~~~r~~ 689 (1121)
.+ .+.+..+.+.|+.+.. ...+.+..||..|...++. ....|++|++|..+ +
T Consensus 59 ---~~-~~~~~~~~~~l~~~~~------~g~T~l~~al~~a~~~l~~~~~~~~~iillTDG~~~----------~----- 113 (171)
T cd01461 59 ---AT-AENVAAAIEYVNRLQA------LGGTNMNDALEAALELLNSSPGSVPQIILLTDGEVT----------N----- 113 (171)
T ss_pred ---CC-HHHHHHHHHHHHhcCC------CCCcCHHHHHHHHHHhhccCCCCccEEEEEeCCCCC----------C-----
Confidence 00 1122233344554431 4456799999999998874 23566666666410 0
Q ss_pred CCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCC
Q 001219 690 ISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYP 753 (1121)
Q Consensus 690 ~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~ 753 (1121)
..+++ +.+.++.+.+|.|..+.++. ..|-..|..+++.|||..++..+
T Consensus 114 --------------~~~~~-~~~~~~~~~~i~i~~i~~g~-~~~~~~l~~ia~~~gG~~~~~~~ 161 (171)
T cd01461 114 --------------ESQIL-KNVREALSGRIRLFTFGIGS-DVNTYLLERLAREGRGIARRIYE 161 (171)
T ss_pred --------------HHHHH-HHHHHhcCCCceEEEEEeCC-ccCHHHHHHHHHcCCCeEEEecC
Confidence 11222 33344555588777777764 35667899999999999999876
No 30
>cd01470 vWA_complement_factors Complement factors B and C2 are two critical proteases for complement activation. They both contain three CCP or Sushi domains, a trypsin-type serine protease domain and a single VWA domain with a conserved metal ion dependent adhesion site referred commonly as the MIDAS motif. Orthologues of these molecules are found from echinoderms to chordates. During complement activation, the CCP domains are cleaved off, resulting in the formation of an active protease that cleaves and activates complement C3. Complement C2 is in the classical pathway and complement B is in the alternative pathway. The interaction of C2 with C4 and of factor B with C3b are both dependent on Mg2+ binding sites within the VWA domains and the VWA domain of factor B has been shown to mediate the binding of C3. This is consistent with the common inferred function of VWA domains as magnesium-dependent protein interaction domains.
Probab=98.00 E-value=9.2e-05 Score=78.88 Aligned_cols=167 Identities=14% Similarity=0.128 Sum_probs=101.3
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC-CCceEEEEEeCCEEEEE-ecCCCCCCceEeecCCccccccCCccc
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEG-PRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDVYTPLQSD 613 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~-~rt~VGiITFDs~Vhfy-nl~~~~~~pqmlVvsDldd~fvPl~~~ 613 (1121)
++||||+|.+.-.. -++.++++|+..++.|... .+.+||||+|++..+.. .+...
T Consensus 3 i~~vlD~SgSM~~~-~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~~~~~~~~~---------------------- 59 (198)
T cd01470 3 IYIALDASDSIGEE-DFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPKEIVSIRDF---------------------- 59 (198)
T ss_pred EEEEEECCCCccHH-HHHHHHHHHHHHHHHccccCCCceEEEEEecCCceEEEecccC----------------------
Confidence 68999999987543 3678889999999888642 24799999998876432 21110
Q ss_pred ceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh---c------C--CeEEEEecCCCCcCccccccc
Q 001219 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---T------G--GKLLVFQSVLPSVGIGALSAR 682 (1121)
Q Consensus 614 lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~---~------G--GkIivF~sg~Pt~GpG~L~~r 682 (1121)
....++.+...|+.+..... .....+.++.||+.+...+.. . + -.||++++|.+|.|.. ..
T Consensus 60 ----~~~~~~~~~~~l~~~~~~~~-~~~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~---~~ 131 (198)
T cd01470 60 ----NSNDADDVIKRLEDFNYDDH-GDKTGTNTAAALKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGGS---PL 131 (198)
T ss_pred ----CCCCHHHHHHHHHhCCcccc-cCccchhHHHHHHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCCC---hh
Confidence 00122334445666543211 123457899999988876631 0 1 2378999998876521 00
Q ss_pred ccccCCCCCCCccccccccchhHHHHHHHHH------HHHhcCeEEEEEEecCCccCcccccccccccce--EEEEeCCC
Q 001219 683 EAEGRSNISSGEKETHKLLQPADKTLKAMAI------EFAEYQVCVDVFITTQTYVDIASISVIPKTTGG--QVYYYYPF 754 (1121)
Q Consensus 683 e~~~r~~~~~gt~~e~~ll~pa~~FYk~La~------~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG--~v~~y~~F 754 (1121)
...+.++++.. .+.+.+|+|..|.+.. .+|...|..|+..||| ++|+..+|
T Consensus 132 --------------------~~~~~~~~~~~~~~~~~~~~~~~v~i~~iGvG~-~~~~~~L~~iA~~~~g~~~~f~~~~~ 190 (198)
T cd01470 132 --------------------PTVDKIKNLVYKNNKSDNPREDYLDVYVFGVGD-DVNKEELNDLASKKDNERHFFKLKDY 190 (198)
T ss_pred --------------------HHHHHHHHHHhcccccccchhcceeEEEEecCc-ccCHHHHHHHhcCCCCCceEEEeCCH
Confidence 01112222211 1234566666665553 4789999999999999 46666554
No 31
>PF00626 Gelsolin: Gelsolin repeat; InterPro: IPR007123 Gelsolin is a cytoplasmic, calcium-regulated, actin-modulating protein that binds to the barbed ends of actin filaments, preventing monomer exchange (end-blocking or capping) []. It can promote nucleation (the assembly of monomers into filaments), as well as sever existing filaments. In addition, this protein binds with high affinity to fibronectin. Plasma gelsolin and cytoplasmic gelsolin are derived from a single gene by alternate initiation sites and differential splicing. Sequence comparisons indicate an evolutionary relationship between gelsolin, villin, fragmin and severin []. Six large repeating segments occur in gelsolin and villin, and 3 similar segments in severin and fragmin. While the multiple repeats have yet to be related to any known function of the actin-severing proteins, the superfamily appears to have evolved from an ancestral sequence of 120 to 130 amino acid residues [].; PDB: 3FG6_F 1RGI_G 2FGH_A 1D0N_B 3EGD_B 2NUP_B 2NUT_B 3EGX_B 1JHW_A 1J72_A ....
Probab=97.95 E-value=1.4e-05 Score=71.69 Aligned_cols=70 Identities=20% Similarity=0.408 Sum_probs=53.0
Q ss_pred CCCccccccccccCCcEEEEEcCceEEEEecCCCCHHHHHHhhCCCCCCCCCcccccCCCCcHhHHHHHHHHHHHH-Hcc
Q 001219 992 IPPFLPLSSEHVSDEGIYLLENGEDALIYIGSSVDSSILHQLFGISSVDEVPTQFVLQQYDNPLSKKLNDVVNEIR-RQR 1070 (1121)
Q Consensus 992 lP~~l~LS~e~L~~dgiYLLD~G~~i~lwvG~~v~~~ll~~lFGv~s~~~i~~~~~lp~~dn~ls~~l~~iI~~lr-~~r 1070 (1121)
.+..++++.+.|.++++||||+|..||+|+|+. ....++.++ ..+++++. ..|
T Consensus 4 ~~~~~~~s~~~L~s~~~yIld~~~~i~vW~G~~--~~~~e~~~a------------------------~~~a~~~~~~~~ 57 (76)
T PF00626_consen 4 RPEQVPLSQSSLNSDDCYILDCGYEIFVWVGKK--SSPEEKAFA------------------------AQLAQELLSEER 57 (76)
T ss_dssp EEEEESSSGGGEETTSEEEEEESSEEEEEEHTT--SHHHHHHHH------------------------HHHHHHHHHHHT
T ss_pred cCCcCCCCHHHcCCCCEEEEEeCCCcEEEEecc--CCHHHHHHH------------------------HHHHHHhhhhcC
Confidence 456789999999999999999999999999998 333433332 23455555 677
Q ss_pred CCcceEEEEecCCCcHH
Q 001219 1071 CSYLRLKLCKKGDPSGM 1087 (1121)
Q Consensus 1071 ~~y~~l~ivrqg~~~e~ 1087 (1121)
....++.++.+|.....
T Consensus 58 ~~~~~~~~~~eg~E~~~ 74 (76)
T PF00626_consen 58 PPLPEVIRVEEGKEPAE 74 (76)
T ss_dssp TTTSEEEEEETTHHHHH
T ss_pred CCCCEEEEecCCCCChH
Confidence 88889999888865433
No 32
>PHA03247 large tegument protein UL36; Provisional
Probab=97.92 E-value=0.085 Score=72.22 Aligned_cols=13 Identities=23% Similarity=0.447 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHh
Q 001219 552 TAAACSAISQVIS 564 (1121)
Q Consensus 552 l~~v~~aI~~~L~ 564 (1121)
|-..|+.|...|.
T Consensus 3114 Li~ACr~i~r~lr 3126 (3151)
T PHA03247 3114 LIEACRRIRRQLR 3126 (3151)
T ss_pred HHHHHHHHHHHHH
Confidence 4444555554443
No 33
>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=97.88 E-value=0.00021 Score=76.10 Aligned_cols=140 Identities=17% Similarity=0.221 Sum_probs=93.1
Q ss_pred EEEEEEEcchhHHhh----hHHHHHHHHHHHHH----hcCCCCCCceEEEEEeCC-EEEEEecCCCCCCceEeecCCccc
Q 001219 535 VFFFLIDVSMNALQT----GATAAACSAISQVI----SDLPEGPRTMVGIATFDS-TIHFYNLKRALQQPLMLIVPDVED 605 (1121)
Q Consensus 535 ~yvFvIDvS~~av~s----G~l~~v~~aI~~~L----~~Lp~~~rt~VGiITFDs-~Vhfynl~~~~~~pqmlVvsDldd 605 (1121)
+.+++||+|....+. ..|++.++++...+ +..++ .+||||+|.. .-++
T Consensus 5 a~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~~~~f~~~np~---~~vGlv~fag~~a~v-------------------- 61 (187)
T cd01452 5 ATMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNPE---NNVGLMTMAGNSPEV-------------------- 61 (187)
T ss_pred EEEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCCC---ccEEEEEecCCceEE--------------------
Confidence 578999999987543 36788888877664 55554 6999999964 2211
Q ss_pred cccCCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc-----CCeEEEEecCCCCcCccccc
Q 001219 606 VYTPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-----GGKLLVFQSVLPSVGIGALS 680 (1121)
Q Consensus 606 ~fvPl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~-----GGkIivF~sg~Pt~GpG~L~ 680 (1121)
++++...+..+...|+.+.. ..+..++.||+.|..+|++. ..||++|.++.-+
T Consensus 62 ---------~~plT~D~~~~~~~L~~i~~------~g~~~l~~AL~~A~~~L~~~~~~~~~~rivi~v~S~~~------- 119 (187)
T cd01452 62 ---------LVTLTNDQGKILSKLHDVQP------KGKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIE------- 119 (187)
T ss_pred ---------EECCCCCHHHHHHHHHhCCC------CCcchHHHHHHHHHHHHhcCCCcCCcceEEEEEecCCc-------
Confidence 12223335566677776641 25567999999999999742 3588999886521
Q ss_pred ccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccc
Q 001219 681 AREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIP 741 (1121)
Q Consensus 681 ~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La 741 (1121)
+.+ .+ ..++++++.+++|.||++.++...-+..-|..+.
T Consensus 120 --------------~d~-------~~-i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~~~~ 158 (187)
T cd01452 120 --------------EDE-------KD-LVKLAKRLKKNNVSVDIINFGEIDDNTEKLTAFI 158 (187)
T ss_pred --------------CCH-------HH-HHHHHHHHHHcCCeEEEEEeCCCCCCHHHHHHHH
Confidence 111 12 3478899999999999999876533333333333
No 34
>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=97.84 E-value=0.00024 Score=71.60 Aligned_cols=145 Identities=17% Similarity=0.152 Sum_probs=96.5
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcccc
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDI 614 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~-~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~l 614 (1121)
++||||+|.+.-.. .++.+++.+...++.+.. +.+.+|+||+|++..+..- ++.+ ..
T Consensus 3 i~~llD~S~Sm~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~~~--------------~~~~-------~~ 60 (161)
T cd01450 3 IVFLLDGSESVGPE-NFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEF--------------SLND-------YK 60 (161)
T ss_pred EEEEEeCCCCcCHH-HHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceEEE--------------ECCC-------CC
Confidence 57999999976532 567788888888887764 2458999999987543210 1100 00
Q ss_pred eeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcC-------CeEEEEecCCCCcCcccccccccccC
Q 001219 615 IVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG-------GKLLVFQSVLPSVGIGALSAREAEGR 687 (1121)
Q Consensus 615 Lv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~G-------GkIivF~sg~Pt~GpG~L~~re~~~r 687 (1121)
.++.+.+.|+.+..... ..+.++.||..|...+.... ..|++|++|.++.+.
T Consensus 61 ------~~~~~~~~i~~~~~~~~----~~t~~~~al~~a~~~~~~~~~~~~~~~~~iiliTDG~~~~~~----------- 119 (161)
T cd01450 61 ------SKDDLLKAVKNLKYLGG----GGTNTGKALQYALEQLFSESNARENVPKVIIVLTDGRSDDGG----------- 119 (161)
T ss_pred ------CHHHHHHHHHhcccCCC----CCccHHHHHHHHHHHhcccccccCCCCeEEEEECCCCCCCCc-----------
Confidence 23445556666543211 46889999999999987532 357888887654421
Q ss_pred CCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCccccccccccc
Q 001219 688 SNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTT 744 (1121)
Q Consensus 688 ~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~T 744 (1121)
-..++.+++.+.+|.|..+.+.. .|...|..|+..|
T Consensus 120 -------------------~~~~~~~~~~~~~v~v~~i~~g~--~~~~~l~~la~~~ 155 (161)
T cd01450 120 -------------------DPKEAAAKLKDEGIKVFVVGVGP--ADEEELREIASCP 155 (161)
T ss_pred -------------------chHHHHHHHHHCCCEEEEEeccc--cCHHHHHHHhCCC
Confidence 12455666777888888887766 7788888888887
No 35
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=97.83 E-value=0.00022 Score=72.68 Aligned_cols=150 Identities=19% Similarity=0.283 Sum_probs=99.2
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcccce
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDII 615 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~lL 615 (1121)
.|||||+|.+..... +.++++|+..|+.|.++ .++.||+||+.++.|. .. +
T Consensus 3 vvilvD~S~Sm~g~~--~~~k~al~~~l~~L~~~--d~fnii~f~~~~~~~~--~~-----------------------~ 53 (155)
T PF13768_consen 3 VVILVDTSGSMSGEK--ELVKDALRAILRSLPPG--DRFNIIAFGSSVRPLF--PG-----------------------L 53 (155)
T ss_pred EEEEEeCCCCCCCcH--HHHHHHHHHHHHhCCCC--CEEEEEEeCCEeeEcc--hh-----------------------H
Confidence 689999999885432 88999999999999875 7999999999876553 11 0
Q ss_pred eehH-HhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh--cCCeEEEEecCCCCcCcccccccccccCCCCCC
Q 001219 616 VPVS-ECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS--TGGKLLVFQSVLPSVGIGALSAREAEGRSNISS 692 (1121)
Q Consensus 616 v~l~-e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~--~GGkIivF~sg~Pt~GpG~L~~re~~~r~~~~~ 692 (1121)
+..+ +.++...+.|+.+.. ....+.+..||+.|+..+.. .--.|+++++|.++.+.
T Consensus 54 ~~~~~~~~~~a~~~I~~~~~-----~~G~t~l~~aL~~a~~~~~~~~~~~~IilltDG~~~~~~---------------- 112 (155)
T PF13768_consen 54 VPATEENRQEALQWIKSLEA-----NSGGTDLLAALRAALALLQRPGCVRAIILLTDGQPVSGE---------------- 112 (155)
T ss_pred HHHhHHHHHHHHHHHHHhcc-----cCCCccHHHHHHHHHHhcccCCCccEEEEEEeccCCCCH----------------
Confidence 1111 233444445555431 25567899999999988632 34678888777652211
Q ss_pred CccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEE
Q 001219 693 GEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYY 750 (1121)
Q Consensus 693 gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~ 750 (1121)
....+.+. .+. ..+.|+.|.+.. ..+-..|..|++.|||..++
T Consensus 113 ------------~~i~~~v~-~~~-~~~~i~~~~~g~-~~~~~~L~~LA~~~~G~~~f 155 (155)
T PF13768_consen 113 ------------EEILDLVR-RAR-GHIRIFTFGIGS-DADADFLRELARATGGSFHF 155 (155)
T ss_pred ------------HHHHHHHH-hcC-CCceEEEEEECC-hhHHHHHHHHHHcCCCEEEC
Confidence 11222221 222 457777777765 45678899999999998763
No 36
>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=97.82 E-value=0.00026 Score=74.83 Aligned_cols=158 Identities=13% Similarity=0.075 Sum_probs=99.5
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-------CCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccc
Q 001219 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPE-------GPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVY 607 (1121)
Q Consensus 535 ~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~-------~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~f 607 (1121)
-.+||||.|.+.-.+. ++.+++.++..++.|.. ....+||+|+|++..++.-
T Consensus 4 dvv~vlD~S~Sm~~~~-~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~~~~-------------------- 62 (186)
T cd01480 4 DITFVLDSSESVGLQN-FDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQEVEA-------------------- 62 (186)
T ss_pred eEEEEEeCCCccchhh-HHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCceeeE--------------------
Confidence 4689999999865443 45667777777776621 2247999999987654210
Q ss_pred cCCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh----cC-CeEEEEecCCCCcCccccccc
Q 001219 608 TPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS----TG-GKLLVFQSVLPSVGIGALSAR 682 (1121)
Q Consensus 608 vPl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~----~G-GkIivF~sg~Pt~GpG~L~~r 682 (1121)
++.+. ...++.+.+.|+.|... ...+++|.||..|...+.. .. ..|+++++|..+.+.
T Consensus 63 -~l~~~-----~~~~~~l~~~i~~l~~~-----gg~T~~~~AL~~a~~~l~~~~~~~~~~~iillTDG~~~~~~------ 125 (186)
T cd01480 63 -GFLRD-----IRNYTSLKEAVDNLEYI-----GGGTFTDCALKYATEQLLEGSHQKENKFLLVITDGHSDGSP------ 125 (186)
T ss_pred -ecccc-----cCCHHHHHHHHHhCccC-----CCCccHHHHHHHHHHHHhccCCCCCceEEEEEeCCCcCCCc------
Confidence 00000 12345667777777532 3457899999999998864 11 355666666432100
Q ss_pred ccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCC
Q 001219 683 EAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFS 755 (1121)
Q Consensus 683 e~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~ 755 (1121)
..-..+.+.++.+.||.|-.+.+.. .|...|..++...+|. |+..+|.
T Consensus 126 ----------------------~~~~~~~~~~~~~~gi~i~~vgig~--~~~~~L~~IA~~~~~~-~~~~~~~ 173 (186)
T cd01480 126 ----------------------DGGIEKAVNEADHLGIKIFFVAVGS--QNEEPLSRIACDGKSA-LYRENFA 173 (186)
T ss_pred ----------------------chhHHHHHHHHHHCCCEEEEEecCc--cchHHHHHHHcCCcch-hhhcchh
Confidence 0112455667778888876666654 7888899999887775 6656654
No 37
>PHA03247 large tegument protein UL36; Provisional
Probab=97.77 E-value=0.051 Score=74.22 Aligned_cols=17 Identities=24% Similarity=0.171 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHhcCC
Q 001219 551 ATAAACSAISQVISDLP 567 (1121)
Q Consensus 551 ~l~~v~~aI~~~L~~Lp 567 (1121)
.|..++++.+.+..+|.
T Consensus 3110 alAlLi~ACr~i~r~lr 3126 (3151)
T PHA03247 3110 ALAVLIEACRRIRRQLR 3126 (3151)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 46666666666666654
No 38
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=97.74 E-value=0.00076 Score=81.78 Aligned_cols=162 Identities=9% Similarity=0.052 Sum_probs=97.1
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCEEE-EEecCCCCCCceEeecCCccccccCCcc
Q 001219 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIH-FYNLKRALQQPLMLIVPDVEDVYTPLQS 612 (1121)
Q Consensus 535 ~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~-~~rt~VGiITFDs~Vh-fynl~~~~~~pqmlVvsDldd~fvPl~~ 612 (1121)
-++||||+|.+.-...+++.++..++..++.+.. ..+++||+|+|++..+ ++.+.....
T Consensus 44 DIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r~vfpL~s~~s------------------- 104 (576)
T PTZ00441 44 DLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTTELIRLGSGAS------------------- 104 (576)
T ss_pred eEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCceEEEecCCCcc-------------------
Confidence 4799999999876666777788888888887753 3458999999987654 333322100
Q ss_pred cceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcC------CeEEEEecCCCCcCccccccccccc
Q 001219 613 DIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG------GKLLVFQSVLPSVGIGALSAREAEG 686 (1121)
Q Consensus 613 ~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~G------GkIivF~sg~Pt~GpG~L~~re~~~ 686 (1121)
.+....+..|..++..+. ....+.++.||..|...+...+ +.||||+.|.++-+ +
T Consensus 105 ---~Dk~~aL~~I~sL~~~~~------pgGgTnig~AL~~Aae~L~sr~~R~nvpKVVILLTDG~sns~-------~--- 165 (576)
T PTZ00441 105 ---KDKEQALIIVKSLRKTYL------PYGKTNMTDALLEVRKHLNDRVNRENAIQLVILMTDGIPNSK-------Y--- 165 (576)
T ss_pred ---ccHHHHHHHHHHHHhhcc------CCCCccHHHHHHHHHHHHhhcccccCCceEEEEEecCCCCCc-------c---
Confidence 011112223333333321 1245779999999988886543 56888877764210 0
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccc----cccceEEEEeCCCC
Q 001219 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIP----KTTGGQVYYYYPFS 755 (1121)
Q Consensus 687 r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La----~~TGG~v~~y~~F~ 755 (1121)
+ ..+.+..+.+.||.|-+|.++. .++...+..|+ ..++|.+|.+.+|+
T Consensus 166 -------------------d-vleaAq~LR~~GVeI~vIGVG~-g~n~e~LrlIAgC~p~~g~c~~Y~vadf~ 217 (576)
T PTZ00441 166 -------------------R-ALEESRKLKDRNVKLAVIGIGQ-GINHQFNRLLAGCRPREGKCKFYSDADWE 217 (576)
T ss_pred -------------------c-HHHHHHHHHHCCCEEEEEEeCC-CcCHHHHHHHhccCCCCCCCceEEeCCHH
Confidence 0 0133456677788766666654 45555444444 33456777777774
No 39
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=97.73 E-value=0.00053 Score=74.73 Aligned_cols=168 Identities=18% Similarity=0.239 Sum_probs=104.1
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC-CCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCccc
Q 001219 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPEG-PRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSD 613 (1121)
Q Consensus 535 ~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~-~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~ 613 (1121)
-.+||||.|.+.-... ++.+++.|++.++.|.-. ..++||||+|++.+++.- ++.+.
T Consensus 4 DlvfllD~S~Sm~~~~-~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~~~~--------------~l~~~------- 61 (224)
T cd01475 4 DLVFLIDSSRSVRPEN-FELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQEF--------------PLGRF------- 61 (224)
T ss_pred cEEEEEeCCCCCCHHH-HHHHHHHHHHHHHhcccCCCccEEEEEEecCceeEEe--------------ccccc-------
Confidence 4799999999754332 678888888888877532 358999999998765420 11110
Q ss_pred ceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHH-Hh-cC--------Ce-EEEEecCCCCcCccccccc
Q 001219 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLAL-KS-TG--------GK-LLVFQSVLPSVGIGALSAR 682 (1121)
Q Consensus 614 lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL-~~-~G--------Gk-IivF~sg~Pt~GpG~L~~r 682 (1121)
.+++.|.+.|+.|..+ ...+.+|.||..|...+ .. .| -| ||+|++|.++
T Consensus 62 ------~~~~~l~~~i~~i~~~-----~~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvvillTDG~s~--------- 121 (224)
T cd01475 62 ------KSKADLKRAVRRMEYL-----ETGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVGIVVTDGRPQ--------- 121 (224)
T ss_pred ------CCHHHHHHHHHhCcCC-----CCCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEEEEEcCCCCc---------
Confidence 1234556667776543 23457899999888653 21 11 13 4666665421
Q ss_pred ccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccc-eEEEEeCCCCCCCchh
Q 001219 683 EAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTG-GQVYYYYPFSALSDPA 761 (1121)
Q Consensus 683 e~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TG-G~v~~y~~F~~~~d~~ 761 (1121)
+ -+++.+.++.+.||.| |.+.-...|...|..|+..++ +.+++-.+|+ +.+
T Consensus 122 ~-----------------------~~~~~a~~lk~~gv~i--~~VgvG~~~~~~L~~ias~~~~~~~f~~~~~~---~l~ 173 (224)
T cd01475 122 D-----------------------DVSEVAAKARALGIEM--FAVGVGRADEEELREIASEPLADHVFYVEDFS---TIE 173 (224)
T ss_pred c-----------------------cHHHHHHHHHHCCcEE--EEEeCCcCCHHHHHHHhCCCcHhcEEEeCCHH---HHH
Confidence 0 0245677777888655 544444578889999998765 4677766664 234
Q ss_pred HHHHHHHHhcc
Q 001219 762 KLYNDLRWNIT 772 (1121)
Q Consensus 762 ~L~~dL~r~lt 772 (1121)
++.++|...+.
T Consensus 174 ~~~~~l~~~~C 184 (224)
T cd01475 174 ELTKKFQGKIC 184 (224)
T ss_pred HHhhhcccccC
Confidence 55555554443
No 40
>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=97.71 E-value=0.00083 Score=70.67 Aligned_cols=149 Identities=13% Similarity=0.111 Sum_probs=91.0
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCEEEE-EecCCCCCCceEeecCCccccccCCccc
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHF-YNLKRALQQPLMLIVPDVEDVYTPLQSD 613 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~-~~rt~VGiITFDs~Vhf-ynl~~~~~~pqmlVvsDldd~fvPl~~~ 613 (1121)
++||||+|.+.-....++.+++.++..++.+.. ..+.+||+|+|++..+. +.+...
T Consensus 3 v~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~~~l~~~---------------------- 60 (186)
T cd01471 3 LYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELIRLSSP---------------------- 60 (186)
T ss_pred EEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEEEECCCc----------------------
Confidence 689999999876665577888888888887753 23589999999987652 222110
Q ss_pred ceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc-C------CeEEEEecCCCCcCccccccccccc
Q 001219 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-G------GKLLVFQSVLPSVGIGALSAREAEG 686 (1121)
Q Consensus 614 lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~-G------GkIivF~sg~Pt~GpG~L~~re~~~ 686 (1121)
....++.+.++++.|.... .....+.++.||..|.+.+... + ..|+++++|.++-+.
T Consensus 61 ----~~~~~~~~~~~i~~l~~~~--~~~G~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~~~~---------- 124 (186)
T cd01471 61 ----NSTNKDLALNAIRALLSLY--YPNGSTNTTSALLVVEKHLFDTRGNRENAPQLVIIMTDGIPDSKF---------- 124 (186)
T ss_pred ----cccchHHHHHHHHHHHhCc--CCCCCccHHHHHHHHHHHhhccCCCcccCceEEEEEccCCCCCCc----------
Confidence 0012222233333332211 1244678999999999999652 1 247777777643210
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccc
Q 001219 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKT 743 (1121)
Q Consensus 687 r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~ 743 (1121)
. . .+.++++.+.||.|-++.+.. ..|...|..|+..
T Consensus 125 -----------~-------~--~~~a~~l~~~gv~v~~igiG~-~~d~~~l~~ia~~ 160 (186)
T cd01471 125 -----------R-------T--LKEARKLRERGVIIAVLGVGQ-GVNHEENRSLVGC 160 (186)
T ss_pred -----------c-------h--hHHHHHHHHCCCEEEEEEeeh-hhCHHHHHHhcCC
Confidence 0 0 124556667787766666653 4666667666644
No 41
>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=97.68 E-value=0.00053 Score=85.05 Aligned_cols=174 Identities=17% Similarity=0.215 Sum_probs=116.5
Q ss_pred CCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCc
Q 001219 532 MPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQ 611 (1121)
Q Consensus 532 ~pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~ 611 (1121)
..-.++||||+|.++. ..-++.+++++...|..+-. .+.+||||+|++...-+ + +|.
T Consensus 406 ~~~~v~fvvD~SGSM~-~~rl~~aK~av~~Ll~~~~~-~~D~v~Li~F~~~~a~~------------~--------lp~- 462 (589)
T TIGR02031 406 SGRLLIFVVDASGSAA-VARMSEAKGAVELLLGEAYV-HRDQVSLIAFRGTAAEV------------L--------LPP- 462 (589)
T ss_pred cCceEEEEEECCCCCC-hHHHHHHHHHHHHHHHhhcc-CCCEEEEEEECCCCceE------------E--------CCC-
Confidence 3456889999999773 33578888998888875422 23589999997543111 0 111
Q ss_pred ccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh---cCC--eEEEEecCCCCcCccccccccccc
Q 001219 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---TGG--KLLVFQSVLPSVGIGALSAREAEG 686 (1121)
Q Consensus 612 ~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~---~GG--kIivF~sg~Pt~GpG~L~~re~~~ 686 (1121)
..+++.+...|+.|+. ...+.++.||..|...++. .++ .|+++++|.+|+|.+.....+..
T Consensus 463 -------t~~~~~~~~~L~~l~~------gGgTpL~~gL~~A~~~~~~~~~~~~~~~ivllTDG~~nv~~~~~~~~~~~- 528 (589)
T TIGR02031 463 -------SRSVEQAKRRLDVLPG------GGGTPLAAGLAAAFQTALQARSSGGTPTIVLITDGRGNIPLDGDPESIKA- 528 (589)
T ss_pred -------CCCHHHHHHHHhcCCC------CCCCcHHHHHHHHHHHHHHhcccCCceEEEEECCCCCCCCCCcccccccc-
Confidence 1123334455777652 4557899999999999864 233 69999999999875321000000
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCC
Q 001219 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFS 755 (1121)
Q Consensus 687 r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~ 755 (1121)
. .....+-...++..+.+.||.+-++-+...+.+..-+..|++..||..|+.++-+
T Consensus 529 --------~-----~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~y~~l~~~~ 584 (589)
T TIGR02031 529 --------D-----REQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAHYIYLPNAT 584 (589)
T ss_pred --------c-----chhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCcEEeCCCCC
Confidence 0 1123334467788899999887777777777777778899999999999988744
No 42
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=97.66 E-value=0.00088 Score=82.75 Aligned_cols=174 Identities=14% Similarity=0.151 Sum_probs=113.6
Q ss_pred CCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCE-EEEEecCCCCCCceEeecCCccccccCC
Q 001219 532 MPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDST-IHFYNLKRALQQPLMLIVPDVEDVYTPL 610 (1121)
Q Consensus 532 ~pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~-Vhfynl~~~~~~pqmlVvsDldd~fvPl 610 (1121)
..-.++||||+|.++.. ..+..++.+++..|++.-. .+-+|+||+|++. .++ + +|
T Consensus 400 ~~~~vvfvvD~SGSM~~-~rl~~aK~a~~~ll~~ay~-~rD~v~lI~F~g~~a~~-------------~--------lp- 455 (584)
T PRK13406 400 SETTTIFVVDASGSAAL-HRLAEAKGAVELLLAEAYV-RRDQVALVAFRGRGAEL-------------L--------LP- 455 (584)
T ss_pred CCccEEEEEECCCCCcH-hHHHHHHHHHHHHHHhhcC-CCCEEEEEEECCCceeE-------------E--------cC-
Confidence 34689999999998743 3678889998888866422 2469999999654 321 1 11
Q ss_pred cccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc---C--CeEEEEecCCCCcCcccccccccc
Q 001219 611 QSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---G--GKLLVFQSVLPSVGIGALSAREAE 685 (1121)
Q Consensus 611 ~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~---G--GkIivF~sg~Pt~GpG~L~~re~~ 685 (1121)
...+.+.+...|+.|+ ....+.++.||..|..+++.. | -.|+++++|..|.|.+.-..+...
T Consensus 456 -------pT~~~~~~~~~L~~l~------~gGgTpL~~gL~~A~~~l~~~~~~~~~~~iVLlTDG~~n~~~~~~~~~~~~ 522 (584)
T PRK13406 456 -------PTRSLVRAKRSLAGLP------GGGGTPLAAGLDAAAALALQVRRKGMTPTVVLLTDGRANIARDGTAGRAQA 522 (584)
T ss_pred -------CCcCHHHHHHHHhcCC------CCCCChHHHHHHHHHHHHHHhccCCCceEEEEEeCCCCCCCccccccccch
Confidence 1112334455666665 346788999999999988642 2 578889999988875321111110
Q ss_pred cCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCCchhHHHH
Q 001219 686 GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYN 765 (1121)
Q Consensus 686 ~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~d~~~L~~ 765 (1121)
..+ =..++..+.+.+|.+-++-+.... ...+..||+.+||..|..++-+ .+.|.+
T Consensus 523 ------------------~~~-~~~~a~~~~~~gi~~~vId~g~~~--~~~~~~LA~~~gg~y~~l~~~~----a~~~~~ 577 (584)
T PRK13406 523 ------------------EED-ALAAARALRAAGLPALVIDTSPRP--QPQARALAEAMGARYLPLPRAD----AGRLSQ 577 (584)
T ss_pred ------------------hhH-HHHHHHHHHhcCCeEEEEecCCCC--cHHHHHHHHhcCCeEEECCCCC----HHHHHH
Confidence 000 145677788888876666665444 3457899999999999998843 445544
Q ss_pred HH
Q 001219 766 DL 767 (1121)
Q Consensus 766 dL 767 (1121)
-.
T Consensus 578 ~v 579 (584)
T PRK13406 578 AV 579 (584)
T ss_pred HH
Confidence 33
No 43
>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=97.66 E-value=0.00035 Score=87.42 Aligned_cols=159 Identities=21% Similarity=0.269 Sum_probs=108.1
Q ss_pred CcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCE-EEEEecCCCCCCceEeecCCccccccCCc
Q 001219 533 PAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDST-IHFYNLKRALQQPLMLIVPDVEDVYTPLQ 611 (1121)
Q Consensus 533 pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~-Vhfynl~~~~~~pqmlVvsDldd~fvPl~ 611 (1121)
.-.++||||+|.++...+.++.++.++...|..... .+.+||||+|+.. ..+ .+|
T Consensus 465 ~~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~a~~-~~D~v~lI~F~g~~a~~---------------------~~p-- 520 (633)
T TIGR02442 465 GNLVIFVVDASGSMAARGRMAAAKGAVLSLLRDAYQ-KRDKVALITFRGEEAEV---------------------LLP-- 520 (633)
T ss_pred CceEEEEEECCccCCCccHHHHHHHHHHHHHHHhhc-CCCEEEEEEECCCCceE---------------------EcC--
Confidence 457889999999885444577778877777764322 2469999999743 211 111
Q ss_pred ccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh-------cCCeEEEEecCCCCcC-cccccccc
Q 001219 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS-------TGGKLLVFQSVLPSVG-IGALSARE 683 (1121)
Q Consensus 612 ~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~-------~GGkIivF~sg~Pt~G-pG~L~~re 683 (1121)
...+++.+...|+.|+. ...+.++.||..|..+++. ..+.|+++++|..|.+ .| .
T Consensus 521 ------~t~~~~~~~~~L~~l~~------gG~Tpl~~aL~~A~~~l~~~~~~~~~~~~~vvliTDG~~n~~~~~-----~ 583 (633)
T TIGR02442 521 ------PTSSVELAARRLEELPT------GGRTPLAAGLLKAAEVLSNELLRDDDGRPLLVVITDGRANVADGG-----E 583 (633)
T ss_pred ------CCCCHHHHHHHHHhCCC------CCCCCHHHHHHHHHHHHHHhhccCCCCceEEEEECCCCCCCCCCC-----C
Confidence 12234445566777752 4567899999999998883 2367999999998875 12 0
Q ss_pred cccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEe
Q 001219 684 AEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYY 751 (1121)
Q Consensus 684 ~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y 751 (1121)
+. ..+ -..++..+.+.+|.+.++-+...+++...+..||+.+||+.|+.
T Consensus 584 ~~------------------~~~-~~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~gg~y~~l 632 (633)
T TIGR02442 584 PP------------------TDD-ARTIAAKLAARGILFVVIDTESGFVRLGLAEDLARALGGEYVRL 632 (633)
T ss_pred Ch------------------HHH-HHHHHHHHHhcCCeEEEEeCCCCCcchhHHHHHHHhhCCeEEec
Confidence 00 001 14567777777887777666667777888999999999998864
No 44
>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=97.64 E-value=0.00073 Score=72.35 Aligned_cols=149 Identities=19% Similarity=0.237 Sum_probs=86.9
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-------CCCceEEEEEeCCEEEEE-ecCCCCCCceEeecCCcccc
Q 001219 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPE-------GPRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDV 606 (1121)
Q Consensus 535 ~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~-------~~rt~VGiITFDs~Vhfy-nl~~~~~~pqmlVvsDldd~ 606 (1121)
=.|||||.|.+.-..+ ++.+++.|+..+..+.. ...+|||+|+|++..++. +|. |..
T Consensus 21 DivfvlD~S~Sm~~~~-f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~~~~L~------------d~~-- 85 (193)
T cd01477 21 DIVFVVDNSKGMTQGG-LWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATVVADLN------------DLQ-- 85 (193)
T ss_pred eEEEEEeCCCCcchhh-HHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEEEEecc------------ccc--
Confidence 4799999999864333 67788888877776543 124899999999876532 221 110
Q ss_pred ccCCcccceeehHHhHHHHHHHHhh-cCccccCCCCCcchHHHHHHHHHHHHHhc--C-----Ce-EEEEecCCCCcCcc
Q 001219 607 YTPLQSDIIVPVSECRQHLELLLES-IPSMFQNNRTAESAFGAAVKAAFLALKST--G-----GK-LLVFQSVLPSVGIG 677 (1121)
Q Consensus 607 fvPl~~~lLv~l~e~~~~I~~lLd~-Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~--G-----Gk-IivF~sg~Pt~GpG 677 (1121)
.++.+.+.|+. +..+. ....+.+|.||..|.+++... + -| ||+++++.-+.+
T Consensus 86 --------------~~~~~~~ai~~~~~~~~---~~ggT~ig~aL~~A~~~l~~~~~~~R~~v~kvvIllTDg~~~~~-- 146 (193)
T cd01477 86 --------------SFDDLYSQIQGSLTDVS---STNASYLDTGLQAAEQMLAAGKRTSRENYKKVVIVFASDYNDEG-- 146 (193)
T ss_pred --------------CHHHHHHHHHHHhhccc---cCCcchHHHHHHHHHHHHHhhhccccCCCCeEEEEEecCccCCC--
Confidence 11222223332 11111 123578999999999999742 3 46 555554421000
Q ss_pred cccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccc
Q 001219 678 ALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTG 745 (1121)
Q Consensus 678 ~L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TG 745 (1121)
.+. ..+.|+++.+.||.|..+.+.. +.|-..+..|++..+
T Consensus 147 ----------------~~~-----------~~~~a~~l~~~GI~i~tVGiG~-~~d~~~~~~L~~ias 186 (193)
T cd01477 147 ----------------SND-----------PRPIAARLKSTGIAIITVAFTQ-DESSNLLDKLGKIAS 186 (193)
T ss_pred ----------------CCC-----------HHHHHHHHHHCCCEEEEEEeCC-CCCHHHHHHHHHhcC
Confidence 000 1467888899999999888875 344333444444433
No 45
>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=97.64 E-value=0.0012 Score=69.27 Aligned_cols=157 Identities=13% Similarity=0.164 Sum_probs=98.6
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC-CCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcccc
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEG-PRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDI 614 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~-~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~l 614 (1121)
++|+||.|.+.-.. -++.+++.++..++.+..+ ..+|||+|+|++..++. +-+.|..
T Consensus 3 i~fvlD~S~S~~~~-~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~~~-----------~~l~~~~---------- 60 (177)
T cd01469 3 IVFVLDGSGSIYPD-DFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFRTE-----------FTLNEYR---------- 60 (177)
T ss_pred EEEEEeCCCCCCHH-HHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCceeEE-----------EecCccC----------
Confidence 68999999875432 2577888888888887653 35899999999876432 0111111
Q ss_pred eeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHH--HhcCC------eEEEEecCCCCcCccccccccccc
Q 001219 615 IVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLAL--KSTGG------KLLVFQSVLPSVGIGALSAREAEG 686 (1121)
Q Consensus 615 Lv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL--~~~GG------kIivF~sg~Pt~GpG~L~~re~~~ 686 (1121)
+.+.+.++++.+... ...+.+|.||+.|...+ ...|. -+++++.|..+-+.
T Consensus 61 ------~~~~~~~~i~~~~~~-----~g~T~~~~AL~~a~~~l~~~~~g~R~~~~kv~illTDG~~~~~~---------- 119 (177)
T cd01469 61 ------TKEEPLSLVKHISQL-----LGLTNTATAIQYVVTELFSESNGARKDATKVLVVITDGESHDDP---------- 119 (177)
T ss_pred ------CHHHHHHHHHhCccC-----CCCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEeCCCCCCcc----------
Confidence 122244456665432 22378999999998876 22232 36677666532211
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCc---cCcccccccccccce-EEEEeCCCC
Q 001219 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTY---VDIASISVIPKTTGG-QVYYYYPFS 755 (1121)
Q Consensus 687 r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~---~dlatL~~La~~TGG-~v~~y~~F~ 755 (1121)
. .++.+.++.+.||.|-.+.+...+ .+..+|..++..+++ ++|...+|+
T Consensus 120 -------~-------------~~~~~~~~k~~gv~v~~Vgvg~~~~~~~~~~~L~~ias~p~~~h~f~~~~~~ 172 (177)
T cd01469 120 -------L-------------LKDVIPQAEREGIIRYAIGVGGHFQRENSREELKTIASKPPEEHFFNVTDFA 172 (177)
T ss_pred -------c-------------cHHHHHHHHHCCcEEEEEEecccccccccHHHHHHHhcCCcHHhEEEecCHH
Confidence 0 034455677788877777776543 346888888888764 666667764
No 46
>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=97.62 E-value=0.0011 Score=65.66 Aligned_cols=148 Identities=21% Similarity=0.237 Sum_probs=95.9
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCccc
Q 001219 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSD 613 (1121)
Q Consensus 535 ~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~-~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~ 613 (1121)
.++|+||+|.+. ....++.+++.+...++.+.. ....+|++++|+...+.+- ++.+.
T Consensus 2 ~v~~viD~S~Sm-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~~~--------------~~~~~------- 59 (161)
T cd00198 2 DIVFLLDVSGSM-GGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVVL--------------PLTTD------- 59 (161)
T ss_pred cEEEEEeCCCCc-CcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccceee--------------ccccc-------
Confidence 378999999986 334678888888888888875 2347999999987432221 00000
Q ss_pred ceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc-----CCeEEEEecCCCCcCcccccccccccCC
Q 001219 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-----GGKLLVFQSVLPSVGIGALSAREAEGRS 688 (1121)
Q Consensus 614 lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~-----GGkIivF~sg~Pt~GpG~L~~re~~~r~ 688 (1121)
..++.+...++.+.. .......+..|+..+...+... ...|++|+++..+.+.
T Consensus 60 ------~~~~~~~~~~~~~~~----~~~~~t~~~~al~~~~~~~~~~~~~~~~~~lvvitDg~~~~~~------------ 117 (161)
T cd00198 60 ------TDKADLLEAIDALKK----GLGGGTNIGAALRLALELLKSAKRPNARRVIILLTDGEPNDGP------------ 117 (161)
T ss_pred ------CCHHHHHHHHHhccc----CCCCCccHHHHHHHHHHHhcccCCCCCceEEEEEeCCCCCCCc------------
Confidence 123445556666643 2345567889999999999753 4567777776543221
Q ss_pred CCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCccccccccccc
Q 001219 689 NISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTT 744 (1121)
Q Consensus 689 ~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~T 744 (1121)
.-.++..+.+.+.+|.|+++.+.. ..+-..+..|+..|
T Consensus 118 -----------------~~~~~~~~~~~~~~v~v~~v~~g~-~~~~~~l~~l~~~~ 155 (161)
T cd00198 118 -----------------ELLAEAARELRKLGITVYTIGIGD-DANEDELKEIADKT 155 (161)
T ss_pred -----------------chhHHHHHHHHHcCCEEEEEEcCC-CCCHHHHHHHhccc
Confidence 001344556667799998888876 35556677777776
No 47
>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=97.60 E-value=0.0012 Score=68.16 Aligned_cols=151 Identities=13% Similarity=0.146 Sum_probs=92.6
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcccc
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDI 614 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~-~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~l 614 (1121)
.+|+||.|.+.-+.+ ++.+++.|+..++.+.- ..+.+||||+|++..+..- ++.+ +
T Consensus 3 v~~vlD~S~Sm~~~~-~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~~~~--------------~l~~--------~ 59 (164)
T cd01482 3 IVFLVDGSWSIGRSN-FNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPRTEF--------------DLNA--------Y 59 (164)
T ss_pred EEEEEeCCCCcChhh-HHHHHHHHHHHHhheeeCCCceEEEEEEECCCeeEEE--------------ecCC--------C
Confidence 689999999875544 57788888888877632 2358999999998654320 1111 0
Q ss_pred eeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHH-Hh-cC------CeEEEEecCCCCcCccccccccccc
Q 001219 615 IVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLAL-KS-TG------GKLLVFQSVLPSVGIGALSAREAEG 686 (1121)
Q Consensus 615 Lv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL-~~-~G------GkIivF~sg~Pt~GpG~L~~re~~~ 686 (1121)
.+++.+.+.|+++.. ....+.+|.||..|...+ +. .| ..|++|+.|.++.
T Consensus 60 -----~~~~~l~~~l~~~~~-----~~g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~iillTDG~~~~------------ 117 (164)
T cd01482 60 -----TSKEDVLAAIKNLPY-----KGGNTRTGKALTHVREKNFTPDAGARPGVPKVVILITDGKSQD------------ 117 (164)
T ss_pred -----CCHHHHHHHHHhCcC-----CCCCChHHHHHHHHHHHhcccccCCCCCCCEEEEEEcCCCCCc------------
Confidence 123344555666642 234567999999877644 32 11 2377777765311
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccce-EEEEeCC
Q 001219 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGG-QVYYYYP 753 (1121)
Q Consensus 687 r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG-~v~~y~~ 753 (1121)
-.++.+.++.+.||.|-.+ .....+...|..|+..+.. +++...+
T Consensus 118 --------------------~~~~~a~~lk~~gi~i~~i--g~g~~~~~~L~~ia~~~~~~~~~~~~d 163 (164)
T cd01482 118 --------------------DVELPARVLRNLGVNVFAV--GVKDADESELKMIASKPSETHVFNVAD 163 (164)
T ss_pred --------------------hHHHHHHHHHHCCCEEEEE--ecCcCCHHHHHHHhCCCchheEEEcCC
Confidence 0145667777778755444 4444567788888888644 4555443
No 48
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=97.56 E-value=0.00028 Score=85.56 Aligned_cols=12 Identities=25% Similarity=0.243 Sum_probs=5.5
Q ss_pred HHHHHhhccCCC
Q 001219 935 YTLALIKSTGLR 946 (1121)
Q Consensus 935 yil~LlKS~~L~ 946 (1121)
++-+|+-..+||
T Consensus 1046 lLeaLqsgaafr 1057 (1102)
T KOG1924|consen 1046 LLEALQSGAAFR 1057 (1102)
T ss_pred HHHHHHhhcccc
Confidence 344444444444
No 49
>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=97.52 E-value=0.0024 Score=65.20 Aligned_cols=153 Identities=22% Similarity=0.187 Sum_probs=103.0
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCccc
Q 001219 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSD 613 (1121)
Q Consensus 535 ~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~-~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~ 613 (1121)
-++||||+|.+.- ...++.+++.+...+..+.. ++..+||||+|++..+.+. +..
T Consensus 3 ~v~l~vD~S~SM~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~~~---------------------~~~-- 58 (177)
T smart00327 3 DVVFLLDGSGSMG-PNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATVLF---------------------PLN-- 58 (177)
T ss_pred cEEEEEeCCCccc-hHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceEEE---------------------ccc--
Confidence 4789999999874 23577888888888887765 2348999999998443321 000
Q ss_pred ceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh---c-----CCeEEEEecCCCCcCcccccccccc
Q 001219 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---T-----GGKLLVFQSVLPSVGIGALSAREAE 685 (1121)
Q Consensus 614 lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~---~-----GGkIivF~sg~Pt~GpG~L~~re~~ 685 (1121)
.....+.+...++.+... .....-++.||+.|...++. . .-.|++|++|.++.+
T Consensus 59 ----~~~~~~~~~~~i~~~~~~----~~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~iviitDg~~~~~---------- 120 (177)
T smart00327 59 ----DSRSKDALLEALASLSYK----LGGGTNLGAALQYALENLFSKSAGSRRGAPKVLILITDGESNDG---------- 120 (177)
T ss_pred ----ccCCHHHHHHHHHhcCCC----CCCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEEcCCCCCCC----------
Confidence 112344566666666431 34456799999999998852 1 125667766654322
Q ss_pred cCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEE
Q 001219 686 GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYY 750 (1121)
Q Consensus 686 ~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~ 750 (1121)
..+++...++.+.+|.+..+.+.... +...+..++..++|...+
T Consensus 121 --------------------~~~~~~~~~~~~~~i~i~~i~~~~~~-~~~~l~~~~~~~~~~~~~ 164 (177)
T smart00327 121 --------------------GDLLKAAKELKRSGVKVFVVGVGNDV-DEEELKKLASAPGGVYVF 164 (177)
T ss_pred --------------------ccHHHHHHHHHHCCCEEEEEEccCcc-CHHHHHHHhCCCcceEEe
Confidence 22456677788888888888887653 777889999999987765
No 50
>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=97.51 E-value=0.0011 Score=68.08 Aligned_cols=155 Identities=23% Similarity=0.287 Sum_probs=93.6
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCC-CCCCceEEEEEeCCEEEEE-ecCCCCCCceEeecCCccccccCCccc
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLP-EGPRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDVYTPLQSD 613 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp-~~~rt~VGiITFDs~Vhfy-nl~~~~~~pqmlVvsDldd~fvPl~~~ 613 (1121)
.+|+||.|.+.-..+ ++.+++.|...++.+. ...+.|||||+|++..+.+ ++.. .
T Consensus 2 ivflvD~S~sm~~~~-~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~~~~~~~~------------~---------- 58 (178)
T PF00092_consen 2 IVFLVDTSGSMSGDN-FEKAKQFVKSIISRLSISNNGTRVGIVTFSDSARVLFSLTD------------Y---------- 58 (178)
T ss_dssp EEEEEE-STTSCHHH-HHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEEEEEETTS------------H----------
T ss_pred EEEEEeCCCCCchHH-HHHHHHHHHHHHHhhhccccccccceeeeeccccccccccc------------c----------
Confidence 589999999765433 5668888888888773 3456999999999877622 1111 0
Q ss_pred ceeehHHhHHHHHHHH-hhcCccccCCCCCcchHHHHHHHHHHHHHhc--C------CeEEEEecCCCCcCccccccccc
Q 001219 614 IIVPVSECRQHLELLL-ESIPSMFQNNRTAESAFGAAVKAAFLALKST--G------GKLLVFQSVLPSVGIGALSAREA 684 (1121)
Q Consensus 614 lLv~l~e~~~~I~~lL-d~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~--G------GkIivF~sg~Pt~GpG~L~~re~ 684 (1121)
++.+.+.+.+ +.+.. ....+.+|.||+.|...+... | .-||++++|.++.+.
T Consensus 59 ------~~~~~~~~~i~~~~~~-----~~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~iiliTDG~~~~~~-------- 119 (178)
T PF00092_consen 59 ------QSKNDLLNAINDSIPS-----SGGGTNLGAALKFAREQLFSSNNGGRPNSPKVIILITDGNSNDSD-------- 119 (178)
T ss_dssp ------SSHHHHHHHHHTTGGC-----CBSSB-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEEESSSSSSHS--------
T ss_pred ------cccccccccccccccc-----cchhhhHHHHHhhhhhcccccccccccccccceEEEEeecccCCc--------
Confidence 1122222222 33322 345667999999999998643 1 236666666543211
Q ss_pred ccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccc--cceEEEEeCCCC
Q 001219 685 EGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKT--TGGQVYYYYPFS 755 (1121)
Q Consensus 685 ~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~--TGG~v~~y~~F~ 755 (1121)
. ....+..+.+. ..|.+|.++.+..|...|..|+.. ..+++++..+|+
T Consensus 120 -----------~-----------~~~~~~~~~~~-~~i~~~~ig~~~~~~~~l~~la~~~~~~~~~~~~~~~~ 169 (178)
T PF00092_consen 120 -----------S-----------PSEEAANLKKS-NGIKVIAIGIDNADNEELRELASCPTSEGHVFYLADFS 169 (178)
T ss_dssp -----------G-----------HHHHHHHHHHH-CTEEEEEEEESCCHHHHHHHHSHSSTCHHHEEEESSHH
T ss_pred -----------c-----------hHHHHHHHHHh-cCcEEEEEecCcCCHHHHHHHhCCCCCCCcEEEcCCHH
Confidence 0 01111111221 556777777677888889988855 447888887753
No 51
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.47 E-value=0.0012 Score=72.47 Aligned_cols=165 Identities=19% Similarity=0.247 Sum_probs=116.9
Q ss_pred CcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcc
Q 001219 533 PAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQS 612 (1121)
Q Consensus 533 pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~ 612 (1121)
..-+|||||.|.+.......++++-++...|.+--. -|-||++|+|..+ + .
T Consensus 78 g~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq-~RdkvavI~F~G~-----------~-----------------A 128 (261)
T COG1240 78 GNLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQ-RRDKVAVIAFRGE-----------K-----------------A 128 (261)
T ss_pred CCcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHH-ccceEEEEEecCC-----------c-----------------c
Confidence 356899999999887666678888888888765322 3569999998421 1 1
Q ss_pred cceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcC-------CeEEEEecCCCCcCcccccccccc
Q 001219 613 DIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG-------GKLLVFQSVLPSVGIGALSAREAE 685 (1121)
Q Consensus 613 ~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~G-------GkIivF~sg~Pt~GpG~L~~re~~ 685 (1121)
.++++...+-+.++..|+.|+. ...+=+..||+.|.+++.... -.+++.++|.+|.+.+.=
T Consensus 129 ~lll~pT~sv~~~~~~L~~l~~------GG~TPL~~aL~~a~ev~~r~~r~~p~~~~~~vviTDGr~n~~~~~~------ 196 (261)
T COG1240 129 ELLLPPTSSVELAERALERLPT------GGKTPLADALRQAYEVLAREKRRGPDRRPVMVVITDGRANVPIPLG------ 196 (261)
T ss_pred eEEeCCcccHHHHHHHHHhCCC------CCCCchHHHHHHHHHHHHHhhccCCCcceEEEEEeCCccCCCCCCc------
Confidence 2344455566678888888874 344569999999999997532 478899999988765311
Q ss_pred cCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCC
Q 001219 686 GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSA 756 (1121)
Q Consensus 686 ~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~ 756 (1121)
-+.| -.+.+.++...++-+=+.=+...++.+.-...||+..||++|+.+..+.
T Consensus 197 --------~~~e----------~~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~~~L~~l~~ 249 (261)
T COG1240 197 --------PKAE----------TLEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEYYHLDDLSD 249 (261)
T ss_pred --------hHHH----------HHHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeEEecccccc
Confidence 0011 1345556666777666666777788788889999999999999988543
No 52
>cd01473 vWA_CTRP CTRP for CS protein-TRAP-related protein: Adhesion of Plasmodium to host cells is an important phenomenon in parasite invasion and in malaria associated pathology.CTRP encodes a protein containing a putative signal sequence followed by a long extracellular region of 1990 amino acids, a transmembrane domain, and a short cytoplasmic segment. The extracellular region of CTRP contains two separated adhesive domains. The first domain contains six 210-amino acid-long homologous VWA domain repeats. The second domain contains seven repeats of 87-60 amino acids in length, which share similarities with the thrombospondin type 1 domain found in a variety of adhesive molecules. Finally, CTRP also contains consensus motifs found in the superfamily of haematopoietin receptors. The VWA domains in these proteins likely mediate protein-protein interactions.
Probab=97.42 E-value=0.0055 Score=65.48 Aligned_cols=150 Identities=13% Similarity=0.151 Sum_probs=91.7
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCEEEEE-ecCCCCCCceEeecCCccccccCCccc
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDVYTPLQSD 613 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~-~~rt~VGiITFDs~Vhfy-nl~~~~~~pqmlVvsDldd~fvPl~~~ 613 (1121)
.+|+||.|.+.-+..+-..+++.++..++.+.- ..++|||+|+|++..+++ .+...
T Consensus 3 i~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~~~~~~~~~---------------------- 60 (192)
T cd01473 3 LTLILDESASIGYSNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNRDVVPFSDE---------------------- 60 (192)
T ss_pred EEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCceeEEecCcc----------------------
Confidence 589999999876555544577778888887753 235899999998766432 11110
Q ss_pred ceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcCC------e-EEEEecCCCCcCccccccccccc
Q 001219 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTGG------K-LLVFQSVLPSVGIGALSAREAEG 686 (1121)
Q Consensus 614 lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~GG------k-IivF~sg~Pt~GpG~L~~re~~~ 686 (1121)
....++.+.+.|+.|..... ....+.+|.||+.|.+.+...+| | +|+++.|..+-+
T Consensus 61 ----~~~~~~~l~~~i~~l~~~~~--~~g~T~~~~AL~~a~~~~~~~~~~r~~~~kv~IllTDG~s~~~----------- 123 (192)
T cd01473 61 ----ERYDKNELLKKINDLKNSYR--SGGETYIVEALKYGLKNYTKHGNRRKDAPKVTMLFTDGNDTSA----------- 123 (192)
T ss_pred ----cccCHHHHHHHHHHHHhccC--CCCcCcHHHHHHHHHHHhccCCCCcccCCeEEEEEecCCCCCc-----------
Confidence 00123344555666643221 13466799999999888754322 2 566666542110
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccc
Q 001219 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKT 743 (1121)
Q Consensus 687 r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~ 743 (1121)
.+ .--.+.++++.+.||.|-.+.+.. .+..+|..|+..
T Consensus 124 ---------~~--------~~~~~~a~~lk~~gV~i~~vGiG~--~~~~el~~ia~~ 161 (192)
T cd01473 124 ---------SK--------KELQDISLLYKEENVKLLVVGVGA--ASENKLKLLAGC 161 (192)
T ss_pred ---------ch--------hhHHHHHHHHHHCCCEEEEEEecc--ccHHHHHHhcCC
Confidence 00 012456778888998888777765 356677777754
No 53
>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=97.38 E-value=0.0032 Score=65.63 Aligned_cols=152 Identities=16% Similarity=0.170 Sum_probs=92.5
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcccc
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDI 614 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~-~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~l 614 (1121)
.+|+||.|.+--+. -++.+++-|+..++.+.- ...+|||+|+|++..+.. + ++++.
T Consensus 3 ivfllD~S~Si~~~-~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~~~-----------~---~l~~~-------- 59 (165)
T cd01481 3 IVFLIDGSDNVGSG-NFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPRPE-----------F---YLNTH-------- 59 (165)
T ss_pred EEEEEeCCCCcCHH-HHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCeeEE-----------E---ecccc--------
Confidence 58999998865433 357888888888888763 235899999998765321 0 11110
Q ss_pred eeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHH-Hh-cCC-------e-EEEEecCCCCcCccccccccc
Q 001219 615 IVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLAL-KS-TGG-------K-LLVFQSVLPSVGIGALSAREA 684 (1121)
Q Consensus 615 Lv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL-~~-~GG-------k-IivF~sg~Pt~GpG~L~~re~ 684 (1121)
.+++.|.+.|++|+.+ ....+.+|.||+.+.+.+ .. .|+ | ++++++|..+
T Consensus 60 -----~~~~~l~~~i~~i~~~----~g~~t~t~~AL~~~~~~~f~~~~g~R~~~~~~kv~vviTdG~s~----------- 119 (165)
T cd01481 60 -----STKADVLGAVRRLRLR----GGSQLNTGSALDYVVKNLFTKSAGSRIEEGVPQFLVLITGGKSQ----------- 119 (165)
T ss_pred -----CCHHHHHHHHHhcccC----CCCcccHHHHHHHHHHhhcCccccCCccCCCCeEEEEEeCCCCc-----------
Confidence 0233455556666432 122356899999887644 32 232 3 4556555310
Q ss_pred ccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCC
Q 001219 685 EGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPF 754 (1121)
Q Consensus 685 ~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F 754 (1121)
+ + +++-|+++.+.|| .+|..+....|..+|..++..- -.++...+|
T Consensus 120 ----------d----------~-~~~~a~~lr~~gv--~i~~vG~~~~~~~eL~~ias~p-~~vf~v~~f 165 (165)
T cd01481 120 ----------D----------D-VERPAVALKRAGI--VPFAIGARNADLAELQQIAFDP-SFVFQVSDF 165 (165)
T ss_pred ----------c----------h-HHHHHHHHHHCCc--EEEEEeCCcCCHHHHHHHhCCC-ccEEEecCC
Confidence 0 1 3456777888875 5677776667888888887655 355555544
No 54
>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=97.13 E-value=0.0077 Score=61.73 Aligned_cols=102 Identities=20% Similarity=0.256 Sum_probs=65.9
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC-CCceEEEEEeCC--EEEEE-ecCCCCCCceEeecCCccccccCCc
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEG-PRTMVGIATFDS--TIHFY-NLKRALQQPLMLIVPDVEDVYTPLQ 611 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~-~rt~VGiITFDs--~Vhfy-nl~~~~~~pqmlVvsDldd~fvPl~ 611 (1121)
++|+||+|.+.-. -++..++.+++.++.|... .+.+||+|+|++ ..++. .+..
T Consensus 3 v~~llD~S~Sm~~--~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~~~~~~l~~--------------------- 59 (163)
T cd01476 3 LLFVLDSSGSVRG--KFEKYKKYIERIVEGLEIGPTATRVALITYSGRGRQRVRFNLPK--------------------- 59 (163)
T ss_pred EEEEEeCCcchhh--hHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCceEEEecCCC---------------------
Confidence 6899999987743 3567788888888887542 348999999987 33321 1110
Q ss_pred ccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc-C------CeEEEEecCCC
Q 001219 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-G------GKLLVFQSVLP 672 (1121)
Q Consensus 612 ~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~-G------GkIivF~sg~P 672 (1121)
..+++.+...|+.|.. ....+.+|.||..|..++... + ..|+++++|..
T Consensus 60 -------~~~~~~l~~~i~~l~~-----~gg~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~ 115 (163)
T cd01476 60 -------HNDGEELLEKVDNLRF-----IGGTTATGAAIEVALQQLDPSEGRREGIPKVVVVLTDGRS 115 (163)
T ss_pred -------CCCHHHHHHHHHhCcc-----CCCCccHHHHHHHHHHHhccccCCCCCCCeEEEEECCCCC
Confidence 0123445556666642 134578999999999999521 1 34677766653
No 55
>smart00262 GEL Gelsolin homology domain. Gelsolin/severin/villin homology domain. Calcium-binding and actin-binding. Both intra- and extracellular domains.
Probab=97.10 E-value=0.0029 Score=59.02 Aligned_cols=71 Identities=14% Similarity=0.392 Sum_probs=50.0
Q ss_pred cccccccccCCcEEEEEcCceEEEEecCCCCHHHHHHhhCCCCCCCCCcccccCCCCcHhHHHHHHHHHHHHH-ccCCcc
Q 001219 996 LPLSSEHVSDEGIYLLENGEDALIYIGSSVDSSILHQLFGISSVDEVPTQFVLQQYDNPLSKKLNDVVNEIRR-QRCSYL 1074 (1121)
Q Consensus 996 l~LS~e~L~~dgiYLLD~G~~i~lwvG~~v~~~ll~~lFGv~s~~~i~~~~~lp~~dn~ls~~l~~iI~~lr~-~r~~y~ 1074 (1121)
+.++.+.|.++.+||||+|..||+|+|+.++...... ...+.+.+.+ .+....
T Consensus 16 ~~~~~~~L~s~d~fild~~~~iyvW~G~~as~~ek~~--------------------------A~~~a~~~~~~~~~~~~ 69 (90)
T smart00262 16 VPFSQGSLNSGDCYILDTGSEIYVWVGKKSSQDEKKK--------------------------AAELAVELDDTLGPGPV 69 (90)
T ss_pred cCCCHHHCCCCCEEEEECCCEEEEEECCCCCHHHHHH--------------------------HHHHHHHHHHhcCCCCc
Confidence 4677889999999999999999999999987655532 1222233322 334567
Q ss_pred eEEEEecCCCcHHHHHhhc
Q 001219 1075 RLKLCKKGDPSGMVFFSYL 1093 (1121)
Q Consensus 1075 ~l~ivrqg~~~e~~f~~~L 1093 (1121)
+++++++|...+ .|..+|
T Consensus 70 ~i~~v~eg~E~~-~F~~~f 87 (90)
T smart00262 70 QVRVVDEGKEPP-EFWSLF 87 (90)
T ss_pred eEEEEeCCCCCH-HHHHHh
Confidence 899999987553 455544
No 56
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or non-homologues end joining and facilitate repair by the non-homologous end-joining pathway (NHEJ). The Ku heterodimer is required for accurate process that tends to preserve the sequence at the junction. Ku78 is found in all three kingdoms of life. However, only the eukaryotic proteins have a vWA domain fused to them at their N-termini. The vWA domain is not involved in DNA binding but may very likey mediate Ku78's interactions with other proteins. Members of this subgroup lack the conserved MIDAS motif.
Probab=97.00 E-value=0.015 Score=63.23 Aligned_cols=154 Identities=16% Similarity=0.248 Sum_probs=90.1
Q ss_pred EEEEEEEcchhHHhh------hHHHHHHHHHHHHHhcC-CCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccc
Q 001219 535 VFFFLIDVSMNALQT------GATAAACSAISQVISDL-PEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVY 607 (1121)
Q Consensus 535 ~yvFvIDvS~~av~s------G~l~~v~~aI~~~L~~L-p~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~f 607 (1121)
..+|+||||.+..+. ..|+.+++.|...+... -..+..+||+|.|++.-+-- ......+.++.++...
T Consensus 3 ~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~----~~~~~~i~v~~~l~~~- 77 (218)
T cd01458 3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKN----PVGYENIYVLLDLDTP- 77 (218)
T ss_pred EEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCC----cCCCCceEEeecCCCC-
Confidence 579999999987522 35778888888888752 11223599999997643210 0011233344333211
Q ss_pred cCCcccceeehHHhHHHHHHHHhhcCcc-c----cCCCCCcchHHHHHHHHHHHHHh-----cCCeEEEEecCCCCcCcc
Q 001219 608 TPLQSDIIVPVSECRQHLELLLESIPSM-F----QNNRTAESAFGAAVKAAFLALKS-----TGGKLLVFQSVLPSVGIG 677 (1121)
Q Consensus 608 vPl~~~lLv~l~e~~~~I~~lLd~Lp~~-f----~~~~~~~~~lG~AL~aA~~lL~~-----~GGkIivF~sg~Pt~GpG 677 (1121)
..+.|+.+++.+..- . ......+..++.||..|..++.. ..-+|++|+++--..| |
T Consensus 78 -------------~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~~~~~~k~IvL~TDg~~p~~-~ 143 (218)
T cd01458 78 -------------GAERVEDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKGKKKKSHKRIFLFTNNDDPHG-G 143 (218)
T ss_pred -------------CHHHHHHHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHhccccccccEEEEECCCCCCCC-C
Confidence 122334444333211 0 01123567899999999999985 2346888888643222 0
Q ss_pred cccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCC
Q 001219 678 ALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQT 730 (1121)
Q Consensus 678 ~L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~ 730 (1121)
+ . -...-+.+++.++.+.||.|.+|.+...
T Consensus 144 ------~----------~-------~~~~~~~~~a~~l~~~gI~i~~i~i~~~ 173 (218)
T cd01458 144 ------D----------S-------IKDSQAAVKAEDLKDKGIELELFPLSSP 173 (218)
T ss_pred ------C----------H-------HHHHHHHHHHHHHHhCCcEEEEEecCCC
Confidence 0 0 0123356788899999999999886543
No 57
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=96.99 E-value=0.0027 Score=77.46 Aligned_cols=12 Identities=25% Similarity=0.268 Sum_probs=6.0
Q ss_pred CCCCCCCCCCCC
Q 001219 151 SLTRPVGATPGA 162 (1121)
Q Consensus 151 ~~~~~~~~~~~~ 162 (1121)
.|++|..|++|-
T Consensus 592 ~Gg~ppPP~~gm 603 (1102)
T KOG1924|consen 592 LGGPPPPPPPGM 603 (1102)
T ss_pred CCCCCCCCCCCc
Confidence 455555555433
No 58
>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=96.94 E-value=0.005 Score=64.41 Aligned_cols=138 Identities=15% Similarity=0.225 Sum_probs=83.3
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC----CCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCc
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEG----PRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQ 611 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~----~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~ 611 (1121)
++||||+|.+.... -++.++++++..++.|..+ ++.+|+||+|++..+..- . +.++++.
T Consensus 6 v~~llD~SgSM~~~-~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~~~~---~--------l~~~~~~----- 68 (176)
T cd01464 6 IYLLLDTSGSMAGE-PIEALNQGLQMLQSELRQDPYALESVEISVITFDSAARVIV---P--------LTPLESF----- 68 (176)
T ss_pred EEEEEECCCCCCCh-HHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCceEec---C--------CccHHhc-----
Confidence 58999999986433 3567778888888777543 367999999998765421 0 0011100
Q ss_pred ccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc-----C-------CeEEEEecCCCCcCcccc
Q 001219 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-----G-------GKLLVFQSVLPSVGIGAL 679 (1121)
Q Consensus 612 ~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~-----G-------GkIivF~sg~Pt~GpG~L 679 (1121)
.++.| .....++++.||..|...|+.. + ..|+++++|.++.+..
T Consensus 69 ----------------~~~~l------~~~GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~~-- 124 (176)
T cd01464 69 ----------------QPPRL------TASGGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPTDDLT-- 124 (176)
T ss_pred ----------------CCCcc------cCCCCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCCchHH--
Confidence 01111 1235689999999999998641 0 1588888887542110
Q ss_pred cccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCccccccccc
Q 001219 680 SAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPK 742 (1121)
Q Consensus 680 ~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~ 742 (1121)
...+.++ ++.+.++.|..|.++. .+|...|..|+.
T Consensus 125 -----------------------~~~~~~~----~~~~~~~~i~~igiG~-~~~~~~L~~ia~ 159 (176)
T cd01464 125 -----------------------AAIERIK----EARDSKGRIVACAVGP-KADLDTLKQITE 159 (176)
T ss_pred -----------------------HHHHHHH----hhcccCCcEEEEEecc-ccCHHHHHHHHC
Confidence 0112222 2334467777777766 577777777663
No 59
>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=96.75 E-value=0.012 Score=63.07 Aligned_cols=164 Identities=16% Similarity=0.211 Sum_probs=101.1
Q ss_pred EEEcchhHHhhh----HHHHHHHHHHHHHhcC-CCCCCceEEEEEeCCE-EEEEecCCCCCCceEeecCCccccccCCcc
Q 001219 539 LIDVSMNALQTG----ATAAACSAISQVISDL-PEGPRTMVGIATFDST-IHFYNLKRALQQPLMLIVPDVEDVYTPLQS 612 (1121)
Q Consensus 539 vIDvS~~av~sG----~l~~v~~aI~~~L~~L-p~~~rt~VGiITFDs~-Vhfynl~~~~~~pqmlVvsDldd~fvPl~~ 612 (1121)
|||.|....+.- .+.++++.+..-++.. ..|+-++||||+.-+. .+ +++++.
T Consensus 1 viD~S~~m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a~--------------~ls~ls-------- 58 (193)
T PF04056_consen 1 VIDMSEAMREKDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRAE--------------RLSELS-------- 58 (193)
T ss_pred CeechHhHHhCcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeecceeE--------------EeeecC--------
Confidence 589998766532 4566666666666543 3467789999987332 22 122221
Q ss_pred cceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc---CC-eEEEEecCCCCcCcccccccccccCC
Q 001219 613 DIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---GG-KLLVFQSVLPSVGIGALSAREAEGRS 688 (1121)
Q Consensus 613 ~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~---GG-kIivF~sg~Pt~GpG~L~~re~~~r~ 688 (1121)
-+-....+.|+++.+ ..-..+..+-.||+.|...|++. +. .|+++.+++-|.-||
T Consensus 59 -------gn~~~h~~~L~~~~~---~~~~G~~SLqN~Le~A~~~L~~~p~~~srEIlvi~gSl~t~Dp~----------- 117 (193)
T PF04056_consen 59 -------GNPQEHIEALKKLRK---LEPSGEPSLQNGLEMARSSLKHMPSHGSREILVIFGSLTTCDPG----------- 117 (193)
T ss_pred -------CCHHHHHHHHHHhcc---CCCCCChhHHHHHHHHHHHHhhCccccceEEEEEEeecccCCch-----------
Confidence 111112223333322 23456678999999999999853 44 455555555444333
Q ss_pred CCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCCchhHHHHHHH
Q 001219 689 NISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYNDLR 768 (1121)
Q Consensus 689 ~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~d~~~L~~dL~ 768 (1121)
+ +.+..+.+.+.+|-||++.++.+ +.-+..||+.|||.....- |...|..-|.
T Consensus 118 -----------------d-i~~ti~~l~~~~IrvsvI~laaE---v~I~k~i~~~T~G~y~V~l------de~H~~~lL~ 170 (193)
T PF04056_consen 118 -----------------D-IHETIESLKKENIRVSVISLAAE---VYICKKICKETGGTYGVIL------DEDHFKELLM 170 (193)
T ss_pred -----------------h-HHHHHHHHHHcCCEEEEEEEhHH---HHHHHHHHHhhCCEEEEec------CHHHHHHHHH
Confidence 1 23667789999999999999864 6778999999999554432 3455655555
Q ss_pred Hhcc
Q 001219 769 WNIT 772 (1121)
Q Consensus 769 r~lt 772 (1121)
..+.
T Consensus 171 ~~~~ 174 (193)
T PF04056_consen 171 EHVP 174 (193)
T ss_pred hhCC
Confidence 4443
No 60
>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=96.72 E-value=0.039 Score=57.49 Aligned_cols=150 Identities=15% Similarity=0.078 Sum_probs=86.2
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcccc
Q 001219 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDI 614 (1121)
Q Consensus 535 ~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~l 614 (1121)
.++|+||+|.+......++.+++++...++.|.. .+.+++|++|++... .......+...+.++. +
T Consensus 2 ~v~~llD~SgSM~~~~kl~~ak~a~~~l~~~l~~-~~d~~~l~~F~~~~~------~~~~~~~~~~~~~~~~-------~ 67 (174)
T cd01454 2 AVTLLLDLSGSMRSDRRIDVAKKAAVLLAEALEA-CGVPHAILGFTTDAG------GRERVRWIKIKDFDES-------L 67 (174)
T ss_pred EEEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHH-cCCcEEEEEecCCCC------CccceEEEEecCcccc-------c
Confidence 5789999999875433677788877776666654 236899999987530 0000011111111111 0
Q ss_pred eeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh---cCCeEEEEecCCCCcCcccccccccccCCCCC
Q 001219 615 IVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---TGGKLLVFQSVLPSVGIGALSAREAEGRSNIS 691 (1121)
Q Consensus 615 Lv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~---~GGkIivF~sg~Pt~GpG~L~~re~~~r~~~~ 691 (1121)
...+...|+.+.. ...+.+|.||..|...+.. ....||++++|.++.+...-
T Consensus 68 -------~~~~~~~l~~~~~------~g~T~~~~al~~a~~~l~~~~~~~~~iiliTDG~~~~~~~~~------------ 122 (174)
T cd01454 68 -------HERARKRLAALSP------GGNTRDGAAIRHAAERLLARPEKRKILLVISDGEPNDLDYYE------------ 122 (174)
T ss_pred -------chhHHHHHHccCC------CCCCcHHHHHHHHHHHHhcCCCcCcEEEEEeCCCcCcccccC------------
Confidence 0122333444421 2357899999999999874 34568888999887653100
Q ss_pred CCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCc
Q 001219 692 SGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTY 731 (1121)
Q Consensus 692 ~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~ 731 (1121)
.+ +.... +- .+.+.++.+.||.|..+.+..+-
T Consensus 123 ---~~---~~~~~-~~-~~~~~~~~~~gi~v~~igig~~~ 154 (174)
T cd01454 123 ---GN---VFATE-DA-LRAVIEARKLGIEVFGITIDRDA 154 (174)
T ss_pred ---cc---hhHHH-HH-HHHHHHHHhCCcEEEEEEecCcc
Confidence 00 00000 00 22377788899998877776553
No 61
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=96.30 E-value=0.0054 Score=75.75 Aligned_cols=90 Identities=12% Similarity=0.299 Sum_probs=61.0
Q ss_pred hhcccceeEEeecCCCCCCCCCCCCccccccccccCCcEEEEEcCceEEEEecCCCCHHHHHHhhCCCCCCCCCcccccC
Q 001219 970 VPFVYPRMVAIHDLDKGEDGSIIPPFLPLSSEHVSDEGIYLLENGEDALIYIGSSVDSSILHQLFGISSVDEVPTQFVLQ 1049 (1121)
Q Consensus 970 l~~lYPrLy~lh~l~~~d~~~~lP~~l~LS~e~L~~dgiYLLD~G~~i~lwvG~~v~~~ll~~lFGv~s~~~i~~~~~lp 1049 (1121)
....-||||..+.-.. ....-+-...+-+.|..|.|||||++..||||||+.++++....++.
T Consensus 615 ~~~~~PrLF~Cs~~~g---~f~~~EI~~F~QdDL~tdDi~lLDt~~evfvWvG~~a~~~eK~~Al~-------------- 677 (827)
T KOG0443|consen 615 KPERDPRLFSCSNKTG---SFVVEEIYNFTQDDLMTDDIMLLDTWSEVFVWVGQEANEKEKEEALT-------------- 677 (827)
T ss_pred cCCCCCcEEEEEecCC---cEEEEEecCcchhhccccceEEEecCceEEEEecCCCChhHHHHHHH--------------
Confidence 3456789999886421 11111233678889999999999999999999999999887765441
Q ss_pred CCCcHhHHHHHHHHHHHHHccCCcceEEEEecCC
Q 001219 1050 QYDNPLSKKLNDVVNEIRRQRCSYLRLKLCKKGD 1083 (1121)
Q Consensus 1050 ~~dn~ls~~l~~iI~~lr~~r~~y~~l~ivrqg~ 1083 (1121)
...+..+ .+ +-+.|.+--+++||+||.
T Consensus 678 -----~~~~yl~-~~-~p~gr~~~TPI~vV~qG~ 704 (827)
T KOG0443|consen 678 -----IGQKYLE-TD-LPEGRDPRTPIYVVKQGH 704 (827)
T ss_pred -----HHHHHHh-cc-CcccCCCCCceEEecCCC
Confidence 1111100 11 234566677899999995
No 62
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=96.06 E-value=0.083 Score=55.79 Aligned_cols=84 Identities=19% Similarity=0.339 Sum_probs=57.2
Q ss_pred EEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC----CCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcc
Q 001219 537 FFLIDVSMNALQTGATAAACSAISQVISDLPEG----PRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQS 612 (1121)
Q Consensus 537 vFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~----~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~ 612 (1121)
+|++|+|.+.+.. -++++-..|+..++.|..+ ++..|+|||||+.++.|. -+.|++..+.|.
T Consensus 7 ~lllDtSgSM~Ge-~IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~~a~~~~-----------pf~~~~nF~~p~-- 72 (207)
T COG4245 7 YLLLDTSGSMIGE-PIEALNAGLQMMIDTLKQDPYALERVELSIVTFGGPARVIQ-----------PFTDAANFNPPI-- 72 (207)
T ss_pred EEEEecCcccccc-cHHHHHHHHHHHHHHHHhChhhhheeEEEEEEecCcceEEe-----------chhhHhhcCCCc--
Confidence 5699999986542 3567777777777777654 467999999999777663 123443322221
Q ss_pred cceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh
Q 001219 613 DIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS 659 (1121)
Q Consensus 613 ~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~ 659 (1121)
++ ....+.+|+||+.|.++++.
T Consensus 73 ----------------------L~---a~GgT~lGaAl~~a~d~Ie~ 94 (207)
T COG4245 73 ----------------------LT---AQGGTPLGAALTLALDMIEE 94 (207)
T ss_pred ----------------------ee---cCCCCchHHHHHHHHHHHHH
Confidence 11 23567899999999999974
No 63
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=95.57 E-value=0.22 Score=53.64 Aligned_cols=155 Identities=20% Similarity=0.249 Sum_probs=94.7
Q ss_pred EEEEEEEcchhHHhhh----HHHHHHHHHHHHHh-cCCCCCCceEEEEEeCC-EEEEEecCCCCCCceEeecCCcccccc
Q 001219 535 VFFFLIDVSMNALQTG----ATAAACSAISQVIS-DLPEGPRTMVGIATFDS-TIHFYNLKRALQQPLMLIVPDVEDVYT 608 (1121)
Q Consensus 535 ~yvFvIDvS~~av~sG----~l~~v~~aI~~~L~-~Lp~~~rt~VGiITFDs-~Vhfynl~~~~~~pqmlVvsDldd~fv 608 (1121)
+.+.|||-|.-..+.- .+++-+++|.-... .+..++...|||||... .+.+..
T Consensus 5 atmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~~~vLs--------------------- 63 (259)
T KOG2884|consen 5 ATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANASVQVLS--------------------- 63 (259)
T ss_pred eEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCCceeee---------------------
Confidence 5688999887665432 35555555554433 34445567899998743 333321
Q ss_pred CCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcC-----CeEEEEecCCCCcCcccccccc
Q 001219 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG-----GKLLVFQSVLPSVGIGALSARE 683 (1121)
Q Consensus 609 Pl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~G-----GkIivF~sg~Pt~GpG~L~~re 683 (1121)
.+...+-.|...|..|. -..+.-++.+|++|..+||+.- -||++|.+++-
T Consensus 64 --------T~T~d~gkils~lh~i~------~~g~~~~~~~i~iA~lalkhRqnk~~~~riVvFvGSpi----------- 118 (259)
T KOG2884|consen 64 --------TLTSDRGKILSKLHGIQ------PHGKANFMTGIQIAQLALKHRQNKNQKQRIVVFVGSPI----------- 118 (259)
T ss_pred --------eccccchHHHHHhcCCC------cCCcccHHHHHHHHHHHHHhhcCCCcceEEEEEecCcc-----------
Confidence 11112233444455553 2345568999999999999742 58999988762
Q ss_pred cccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccce-----EEEEeCC
Q 001219 684 AEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGG-----QVYYYYP 753 (1121)
Q Consensus 684 ~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG-----~v~~y~~ 753 (1121)
.+.| +-.-++|+++.+++|.|||+-|.....+-.-+......++| ++...+.
T Consensus 119 ----------~e~e--------keLv~~akrlkk~~Vaidii~FGE~~~~~e~l~~fida~N~~~~gshlv~Vpp 175 (259)
T KOG2884|consen 119 ----------EESE--------KELVKLAKRLKKNKVAIDIINFGEAENNTEKLFEFIDALNGKGDGSHLVSVPP 175 (259)
T ss_pred ----------hhhH--------HHHHHHHHHHHhcCeeEEEEEeccccccHHHHHHHHHHhcCCCCCceEEEeCC
Confidence 1111 12457899999999999999998765553333333333333 4666655
No 64
>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=95.47 E-value=0.34 Score=49.17 Aligned_cols=100 Identities=12% Similarity=0.117 Sum_probs=58.6
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcccce
Q 001219 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDII 615 (1121)
Q Consensus 536 yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~lL 615 (1121)
++|+||+|.+.... -++.++..+...++.+.. .+.+|++|+|++..+.+.+. ..
T Consensus 3 v~illD~SgSM~~~-k~~~a~~~~~~l~~~~~~-~~~~v~li~F~~~~~~~~~~------------~~------------ 56 (152)
T cd01462 3 VILLVDQSGSMYGA-PEEVAKAVALALLRIALA-ENRDTYLILFDSEFQTKIVD------------KT------------ 56 (152)
T ss_pred EEEEEECCCCCCCC-HHHHHHHHHHHHHHHHHH-cCCcEEEEEeCCCceEEecC------------Cc------------
Confidence 68999999987532 234445555555554432 12589999998773222110 00
Q ss_pred eehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc---CCeEEEEecCC
Q 001219 616 VPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---GGKLLVFQSVL 671 (1121)
Q Consensus 616 v~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~---GGkIivF~sg~ 671 (1121)
. .+..+++.|..+. ....+.++.||..+...++.. .+.|+++++|.
T Consensus 57 ----~---~~~~~~~~l~~~~---~~ggT~l~~al~~a~~~l~~~~~~~~~ivliTDG~ 105 (152)
T cd01462 57 ----D---DLEEPVEFLSGVQ---LGGGTDINKALRYALELIERRDPRKADIVLITDGY 105 (152)
T ss_pred ----c---cHHHHHHHHhcCC---CCCCcCHHHHHHHHHHHHHhcCCCCceEEEECCCC
Confidence 0 1122233332221 245678999999999998753 46788887764
No 65
>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=95.15 E-value=0.33 Score=60.59 Aligned_cols=155 Identities=9% Similarity=0.197 Sum_probs=86.2
Q ss_pred EEEEEEEcchhHHh-------hhHHHHHHHHHHHHHhcC-CCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCcccc
Q 001219 535 VFFFLIDVSMNALQ-------TGATAAACSAISQVISDL-PEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDV 606 (1121)
Q Consensus 535 ~yvFvIDvS~~av~-------sG~l~~v~~aI~~~L~~L-p~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~ 606 (1121)
..|||||||....+ ..-+..++++|...+.+. -.+++..|||+.|++.=+ ++.+.-..++|+.||+.+
T Consensus 12 ailflIDvs~sM~~~~~~~~~~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t----~n~~~~~~i~v~~~L~~p 87 (584)
T TIGR00578 12 SLIFLVDASKAMFEESQGEDELTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKD----KNSVNFKNIYVLQELDNP 87 (584)
T ss_pred EEEEEEECCHHHcCCCcCcCcCChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCC----CCccCCCceEEEeeCCCC
Confidence 68999999998764 113445566666666542 234568999998865332 122223456666666643
Q ss_pred ccCCcccceeehHHhHHHHHHHHhh-cCccccC--CCCCcchHHHHHHHHHHHHHh----cC-CeEEEEecCCCCcCccc
Q 001219 607 YTPLQSDIIVPVSECRQHLELLLES-IPSMFQN--NRTAESAFGAAVKAAFLALKS----TG-GKLLVFQSVLPSVGIGA 678 (1121)
Q Consensus 607 fvPl~~~lLv~l~e~~~~I~~lLd~-Lp~~f~~--~~~~~~~lG~AL~aA~~lL~~----~G-GkIivF~sg~Pt~GpG~ 678 (1121)
-. +....|++|++. -...|.. .......+..||.+|..++.. .+ =||++||+----.+
T Consensus 88 ~a-----------~~i~~L~~l~~~~~~~~~~~~~~~~~~~~l~daL~~~~~~f~~~~~k~~~kRI~lfTd~D~P~~--- 153 (584)
T TIGR00578 88 GA-----------KRILELDQFKGDQGPKKFRDTYGHGSDYSLSEVLWVCANLFSDVQFRMSHKRIMLFTNEDNPHG--- 153 (584)
T ss_pred CH-----------HHHHHHHHHhhccCccchhhccCCCCCCcHHHHHHHHHHHHHhcchhhcCcEEEEECCCCCCCC---
Confidence 11 111223333332 1111110 122234799999999999965 33 35889985321111
Q ss_pred ccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEec
Q 001219 679 LSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITT 728 (1121)
Q Consensus 679 L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s 728 (1121)
.++. ...-=...|.++.+.||.+++|.++
T Consensus 154 ---------------~~~~------~~~~a~~~a~dl~~~gi~ielf~l~ 182 (584)
T TIGR00578 154 ---------------NDSA------KASRARTKAGDLRDTGIFLDLMHLK 182 (584)
T ss_pred ---------------Cchh------HHHHHHHHHHHHHhcCeEEEEEecC
Confidence 1110 0011134578888999999999764
No 66
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.00 E-value=2.4 Score=53.85 Aligned_cols=57 Identities=39% Similarity=0.715 Sum_probs=44.2
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccccccCCCCCCCCCCCCCCCCCCCCCCC
Q 001219 1 MAASVPPGAPRQQPPPPPPNYNPNLQQNPNSLSDNFQNLNLNRPVSMPNSGPRPTPFAQSPQ 62 (1121)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 62 (1121)
|.+.+|||+||++ .|+|+|+++. .++++++++|++++-+++|+..++++.|.|++|+
T Consensus 1 ~~~~~ppg~p~p~--~g~~~~~~g~---~~~~a~~~~~~~~~p~p~~~~~~p~~~ppg~~p~ 57 (1007)
T KOG1984|consen 1 MSQGVPPGQPQPN--SGPPNFYGGS---SNSLAQAMPNGSINPPPPMQGTGPRGPPPGAPPQ 57 (1007)
T ss_pred CCCCCCCCCCCCC--CCCCCcCCCC---CchhhhhccCCccCCCCCCCCCCCCCCCCCCCCC
Confidence 7889999999886 4488888877 6779999999999977777766666555444443
No 67
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=94.07 E-value=0.24 Score=61.86 Aligned_cols=99 Identities=14% Similarity=0.277 Sum_probs=63.5
Q ss_pred ceeEEeecCCCCCCCCCCCCccccccccccCCcEEEEEcC-ceEEEEecCCCCHHHHHHhhCCCCCCCCCcccccCCCCc
Q 001219 975 PRMVAIHDLDKGEDGSIIPPFLPLSSEHVSDEGIYLLENG-EDALIYIGSSVDSSILHQLFGISSVDEVPTQFVLQQYDN 1053 (1121)
Q Consensus 975 PrLy~lh~l~~~d~~~~lP~~l~LS~e~L~~dgiYLLD~G-~~i~lwvG~~v~~~ll~~lFGv~s~~~i~~~~~lp~~dn 1053 (1121)
.+||.+.+-...-....+-.. +|+-+-|+.+++||||+| ..||||+|+.++.+-.+..+
T Consensus 255 ~kLYkVsd~~g~l~v~~va~~-~l~qdlLd~~dCYILD~g~~~IfVW~Gr~as~~ERkaAm------------------- 314 (827)
T KOG0443|consen 255 AKLYKVSDASGGLKVPVVADG-PLTKDLLDTEDCYILDCGGGEIFVWKGRQASLDERKAAM------------------- 314 (827)
T ss_pred cEEEEEeccCCCccccccccc-hhhHHhhccCCeEEEecCCceEEEEeCCCCCHHHHHHHH-------------------
Confidence 478888863211000001111 288889999999999999 99999999998755444221
Q ss_pred HhHHHHHHHHHHHHH-ccCCcceEEEEecCCCc---HHHHHhhcccCCCCC
Q 001219 1054 PLSKKLNDVVNEIRR-QRCSYLRLKLCKKGDPS---GMVFFSYLVEDKIPT 1100 (1121)
Q Consensus 1054 ~ls~~l~~iI~~lr~-~r~~y~~l~ivrqg~~~---e~~f~~~LVED~~~~ 1100 (1121)
.+-++ -||+ .+..+-.|++|.+|... ..+|.+...+|+ ++
T Consensus 315 ---~~Aee---Flk~k~yP~~TqV~rv~EG~Esa~FKq~F~~W~~~~~-t~ 358 (827)
T KOG0443|consen 315 ---SSAEE---FLKKKKYPPNTQVVRVLEGAESAPFKQLFDSWPDKDQ-TN 358 (827)
T ss_pred ---HHHHH---HHHhccCCCCceEEEecCCCcchhHHHHHhhCccccc-cc
Confidence 12233 3443 44567778888887543 467888888888 44
No 68
>cd01457 vWA_ORF176_type VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most
Probab=93.67 E-value=0.58 Score=50.09 Aligned_cols=102 Identities=15% Similarity=0.198 Sum_probs=59.2
Q ss_pred EEEEEEEcchhHHhh----h--HHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCcccccc
Q 001219 535 VFFFLIDVSMNALQT----G--ATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYT 608 (1121)
Q Consensus 535 ~yvFvIDvS~~av~s----G--~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fv 608 (1121)
-++|+||+|.+.... + .++.+++++...++.+......+|++++|++..+-+ .
T Consensus 4 dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~~~~~---------------------~ 62 (199)
T cd01457 4 DYTLLIDKSGSMAEADEAKERSRWEEAQESTRALARKCEEYDSDGITVYLFSGDFRRY---------------------D 62 (199)
T ss_pred CEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHHHHHhcCCCCeEEEEecCCcccc---------------------C
Confidence 479999999987532 1 355666666665554433223468888885543111 1
Q ss_pred CCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHH-HHHhc--------CCeEEEEecCCCC
Q 001219 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFL-ALKST--------GGKLLVFQSVLPS 673 (1121)
Q Consensus 609 Pl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~-lL~~~--------GGkIivF~sg~Pt 673 (1121)
++ . +..+.++++.+.. ...+.++.||..++. +++.. +..||+++.|.++
T Consensus 63 ~~--------~--~~~v~~~~~~~~p------~G~T~l~~~l~~a~~~~~~~~~~~~~~p~~~~vIiiTDG~~~ 120 (199)
T cd01457 63 NV--------N--SSKVDQLFAENSP------DGGTNLAAVLQDALNNYFQRKENGATCPEGETFLVITDGAPD 120 (199)
T ss_pred Cc--------C--HHHHHHHHhcCCC------CCcCcHHHHHHHHHHHHHHHHhhccCCCCceEEEEEcCCCCC
Confidence 11 1 4455666655432 244789999998874 33321 3557777777653
No 69
>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=93.56 E-value=15 Score=44.16 Aligned_cols=273 Identities=14% Similarity=0.209 Sum_probs=136.0
Q ss_pred cEEEEEEEcchhHHhh-hHHHHHHHHHHHHHhcCCCCCCceEEEEEe-CCEEEEEecC--CCCCCceEeecCCcccccc-
Q 001219 534 AVFFFLIDVSMNALQT-GATAAACSAISQVISDLPEGPRTMVGIATF-DSTIHFYNLK--RALQQPLMLIVPDVEDVYT- 608 (1121)
Q Consensus 534 p~yvFvIDvS~~av~s-G~l~~v~~aI~~~L~~Lp~~~rt~VGiITF-Ds~Vhfynl~--~~~~~pqmlVvsDldd~fv- 608 (1121)
-=..|+.|+|.+..+. .-|+.+...|.+.|..+-.+ .|+||=+| |+.|.=|-.. ..+..|- .+..+.-.
T Consensus 100 vDLYyLMDlS~SM~ddl~~lk~lg~~L~~~m~~it~n--~rlGfGsFVDK~v~P~~~t~p~~l~~PC----~~~~~~c~p 173 (423)
T smart00187 100 VDLYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSN--FRLGFGSFVDKTVSPFVSTRPEKLENPC----PNYNLTCEP 173 (423)
T ss_pred cceEEEEeCCccHHHHHHHHHHHHHHHHHHHHhcccC--ceeeEEEeecCccCCcccCCHHHhcCCC----cCCCCCcCC
Confidence 3467899999987542 12445555566666666544 89999888 7766433211 0111110 00000001
Q ss_pred CCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcC-----CeEEEEecCCCC--cCcccccc
Q 001219 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG-----GKLLVFQSVLPS--VGIGALSA 681 (1121)
Q Consensus 609 Pl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~G-----GkIivF~sg~Pt--~GpG~L~~ 681 (1121)
|..-.-.++|.+..+.+.+.++... .-.+...++..+-+-+++|+- -+..| -||+||.+-..- .|-|+|..
T Consensus 174 ~f~f~~~L~LT~~~~~F~~~V~~~~-iSgN~D~PEgG~DAimQaaVC-~~~IGWR~~a~rllv~~TDa~fH~AGDGkLaG 251 (423)
T smart00187 174 PYGFKHVLSLTDDTDEFNEEVKKQR-ISGNLDAPEGGFDAIMQAAVC-TEQIGWREDARRLLVFSTDAGFHFAGDGKLAG 251 (423)
T ss_pred CcceeeeccCCCCHHHHHHHHhhce-eecCCcCCcccHHHHHHHHhh-ccccccCCCceEEEEEEcCCCccccCCcceee
Confidence 1111224666666666666666642 233445677777777777742 22232 489999988776 47787655
Q ss_pred cccccCCCCCCCcccccccc-chhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEE-EeCCCCCCCc
Q 001219 682 REAEGRSNISSGEKETHKLL-QPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVY-YYYPFSALSD 759 (1121)
Q Consensus 682 re~~~r~~~~~gt~~e~~ll-~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~-~y~~F~~~~d 759 (1121)
.-.+.....++..+.+.+.. .-...--.+|++++.+++|-+ ||+.+....++. ..|+++-.|... .... .+.+
T Consensus 252 Iv~PNDg~CHL~~~g~Yt~s~~~DYPSi~ql~~kL~e~nI~~-IFAVT~~~~~~Y--~~Ls~lipgs~vg~Ls~--DSsN 326 (423)
T smart00187 252 IVQPNDGQCHLDNNGEYTMSTTQDYPSIGQLNQKLAENNINP-IFAVTKKQVSLY--KELSALIPGSSVGVLSE--DSSN 326 (423)
T ss_pred EecCCCCcceeCCCCCcCccCcCCCCCHHHHHHHHHhcCceE-EEEEcccchhHH--HHHHHhcCcceeeeccc--Ccch
Confidence 32211000111111110000 001112567888888999864 888887766543 333333333322 2221 1223
Q ss_pred hhHHHHHHHHhccCCccccceEEEE-eCCCcEEEeeeCccccCC--CCceeecCCCCCCeEEEEEEec
Q 001219 760 PAKLYNDLRWNITRPQGFEAVMRVR-CSQGIQVQEYHGNFCKRI--PTDIDLPAIDCNKAIMVTLKHD 824 (1121)
Q Consensus 760 ~~~L~~dL~r~ltr~~g~~a~mrVR-~S~GL~V~~~~G~f~~r~--~~~~~lp~id~dtSia~el~~d 824 (1121)
.-+|..+-++.|. -+.+|+.. ..++|+++-.- ++-... ...-...++.-.+.+.|++++.
T Consensus 327 Iv~LI~~aY~~i~----S~V~l~~~~~p~~v~~~y~s-~C~~g~~~~~~~~C~~v~iG~~V~F~v~vt 389 (423)
T smart00187 327 VVELIKDAYNKIS----SRVELEDNSLPEGVSVTYTS-SCPGGVVGPGTRKCEGVKIGDTVSFEVTVT 389 (423)
T ss_pred HHHHHHHHHHhhc----eEEEEecCCCCCcEEEEEEe-eCCCCCcccCCcccCCcccCCEEEEEEEEE
Confidence 3445555444433 24444444 25677766322 221110 1111344566667777777665
No 70
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=93.00 E-value=1.8 Score=45.73 Aligned_cols=133 Identities=18% Similarity=0.278 Sum_probs=86.8
Q ss_pred cEEEEEEEcchhHHhhh----HHHHHHHHHHHHHhc-CCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCcccccc
Q 001219 534 AVFFFLIDVSMNALQTG----ATAAACSAISQVISD-LPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYT 608 (1121)
Q Consensus 534 p~yvFvIDvS~~av~sG----~l~~v~~aI~~~L~~-Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fv 608 (1121)
-+.|.+||-|.-+.+.. .+++-++++..++.. ..+++...||||+... .+|+.
T Consensus 4 EatvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~-----------a~p~v----------- 61 (243)
T COG5148 4 EATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQ-----------AQPNV----------- 61 (243)
T ss_pred ceEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeeccc-----------CCcch-----------
Confidence 36789999998766533 456667777776654 3345567899987421 23332
Q ss_pred CCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc---C--CeEEEEecCCCCcCcccccccc
Q 001219 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---G--GKLLVFQSVLPSVGIGALSARE 683 (1121)
Q Consensus 609 Pl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~---G--GkIivF~sg~Pt~GpG~L~~re 683 (1121)
|..+...+-.|...|..|+- +.+.-++-+|+.|..+|++. | -||++|.+++-
T Consensus 62 ------lsT~T~~~gkilt~lhd~~~------~g~a~~~~~lqiaql~lkhR~nk~q~qriVaFvgSpi----------- 118 (243)
T COG5148 62 ------LSTPTKQRGKILTFLHDIRL------HGGADIMRCLQIAQLILKHRDNKGQRQRIVAFVGSPI----------- 118 (243)
T ss_pred ------hccchhhhhHHHHHhccccc------cCcchHHHHHHHHHHHHhcccCCccceEEEEEecCcc-----------
Confidence 12223345566666766642 33445889999999999863 3 68999988762
Q ss_pred cccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecC
Q 001219 684 AEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQ 729 (1121)
Q Consensus 684 ~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~ 729 (1121)
.+.| +-.-.+|..+.+++|+||++.|+-
T Consensus 119 ----------~ese--------deLirlak~lkknnVAidii~fGE 146 (243)
T COG5148 119 ----------QESE--------DELIRLAKQLKKNNVAIDIIFFGE 146 (243)
T ss_pred ----------cccH--------HHHHHHHHHHHhcCeeEEEEehhh
Confidence 0111 113468889999999999998763
No 71
>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=91.58 E-value=0.69 Score=50.27 Aligned_cols=154 Identities=15% Similarity=0.233 Sum_probs=72.4
Q ss_pred EEEEEEEcchhHHhh-----hHHHHHHHHHHHHHhcC-CCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCcccccc
Q 001219 535 VFFFLIDVSMNALQT-----GATAAACSAISQVISDL-PEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYT 608 (1121)
Q Consensus 535 ~yvFvIDvS~~av~s-----G~l~~v~~aI~~~L~~L-p~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fv 608 (1121)
+.|||||+|.+..+. .-|+.++++|...+.+. -..+...||+|.|++.-.=-. ........+.++.+++-+
T Consensus 1 ~~vflID~s~sM~~~~~~~~~~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~~t~n~-~~~~~~~~i~~l~~l~~~-- 77 (224)
T PF03731_consen 1 ATVFLIDVSPSMFEPSSESESPLEEALKAIEDLMQQKIISSPKDEVGVVLFGTDETNNP-DEDSGYENIFVLQPLDPP-- 77 (224)
T ss_dssp EEEEEEE-SCGGGS-BTTCS-HHHHHHHHHHHHHHHHHHTT---EEEEEEES-SS-BST--TTT-STTEEEEEECC----
T ss_pred CEEEEEECCHHHCCCCCCcchhHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCCCCCCc-ccccCCCceEEeecCCcc--
Confidence 469999999987532 24666666666666542 122336899998864321000 001111223333322211
Q ss_pred CCcccceeehHHhHHHHHHHHhhcCc----cccCCCCCcchHHHHHHHHHHHHHh--c----C-CeEEEEecCCCCcCcc
Q 001219 609 PLQSDIIVPVSECRQHLELLLESIPS----MFQNNRTAESAFGAAVKAAFLALKS--T----G-GKLLVFQSVLPSVGIG 677 (1121)
Q Consensus 609 Pl~~~lLv~l~e~~~~I~~lLd~Lp~----~f~~~~~~~~~lG~AL~aA~~lL~~--~----G-GkIivF~sg~Pt~GpG 677 (1121)
+-+.|..|.+.+.. ........+..+..||.+|..+++. . + -||++||+.- +|-
T Consensus 78 ------------~~~~l~~L~~~~~~~~~~~~~~~~~~~~~l~~al~v~~~~~~~~~~~~k~~~krI~l~Td~d---~p~ 142 (224)
T PF03731_consen 78 ------------SAERLKELEELLKPGDKFENFFSGSDEGDLSDALWVASDMFRERTCKKKKNKKRIFLFTDND---GPH 142 (224)
T ss_dssp ------------BHHHHHHHHTTSHHHHHHHHHC-SSS---HHHHHHHHHHHHHCHCTTS-ECEEEEEEEES-S---STT
T ss_pred ------------CHHHHHHHHHhhcccccccccCCCCCccCHHHHHHHHHHHHHHHhhcccCCCcEEEEEeCCC---CCC
Confidence 12233333333322 0011234456799999999999974 1 2 3677776532 110
Q ss_pred cccccccccCCCCCCCccccccccchhHHHHHH-HHHHHHhcCeEEEEEEe
Q 001219 678 ALSAREAEGRSNISSGEKETHKLLQPADKTLKA-MAIEFAEYQVCVDVFIT 727 (1121)
Q Consensus 678 ~L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~-La~~~~~~gIsVDlFl~ 727 (1121)
. .+++ -..-.++ .+.++...+|.+++|.+
T Consensus 143 ~---------------~~~~------~~~~~~~l~~~Dl~~~~i~~~~~~l 172 (224)
T PF03731_consen 143 E---------------DDDE------LERIIQKLKAKDLQDNGIEIELFFL 172 (224)
T ss_dssp T----------------CCC------HHHHHHHHHHHHHHHHTEEEEEEEC
T ss_pred C---------------CHHH------HHHHHHhhccccchhcCcceeEeec
Confidence 0 0000 0011112 27778899999999987
No 72
>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=91.28 E-value=4.4 Score=46.12 Aligned_cols=81 Identities=19% Similarity=0.164 Sum_probs=55.9
Q ss_pred chHHHHHHHHHHHHHh-----------cCCeEEEEecCCCCcCcccccccccccCCCCCCCccccccccchhHHHHHHHH
Q 001219 644 SAFGAAVKAAFLALKS-----------TGGKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMA 712 (1121)
Q Consensus 644 ~~lG~AL~aA~~lL~~-----------~GGkIivF~sg~Pt~GpG~L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La 712 (1121)
+.+..||..|+-.+.. ..+||+++.++-+ + ...+| -=+-+..
T Consensus 116 s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~-----------d-----------~~~QY-----i~~MN~i 168 (276)
T PF03850_consen 116 SLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSP-----------D-----------SSSQY-----IPLMNCI 168 (276)
T ss_pred hhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCC-----------C-----------ccHHH-----HHHHHHH
Confidence 6788888888877743 2368888633211 1 00111 1134556
Q ss_pred HHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCC
Q 001219 713 IEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYP 753 (1121)
Q Consensus 713 ~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~ 753 (1121)
-.|.+.+|.||++.... -|-.-|.+.+..|||.-+..+.
T Consensus 169 FaAqk~~v~IDv~~L~~--~~s~fLqQa~d~T~G~y~~~~~ 207 (276)
T PF03850_consen 169 FAAQKQKVPIDVCKLGG--KDSTFLQQASDITGGIYLKVSK 207 (276)
T ss_pred HHHhcCCceeEEEEecC--CchHHHHHHHHHhCceeeccCc
Confidence 67889999999999987 4566789999999998887766
No 73
>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=91.28 E-value=3.6 Score=46.60 Aligned_cols=48 Identities=19% Similarity=0.292 Sum_probs=35.5
Q ss_pred CCcEEEEEEEcchhHHhhh----HHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEE
Q 001219 532 MPAVFFFLIDVSMNALQTG----ATAAACSAISQVISDLPEGPRTMVGIATFDSTI 583 (1121)
Q Consensus 532 ~pp~yvFvIDvS~~av~sG----~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~V 583 (1121)
...-++|+||+|.+..++. .++ .+..|.+.|+.+..+ +|||+.|+..+
T Consensus 59 r~~qIvlaID~S~SM~~~~~~~~ale-ak~lIs~al~~Le~g---~vgVv~Fg~~~ 110 (266)
T cd01460 59 RDYQILIAIDDSKSMSENNSKKLALE-SLCLVSKALTLLEVG---QLGVCSFGEDV 110 (266)
T ss_pred cCceEEEEEecchhcccccccccHHH-HHHHHHHHHHhCcCC---cEEEEEeCCCc
Confidence 4568999999999876543 233 445677778877664 89999998764
No 74
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.10 E-value=7.3 Score=44.44 Aligned_cols=94 Identities=15% Similarity=0.136 Sum_probs=61.5
Q ss_pred CcchHHHHHHHHHHHHHh----------cCCeEEEEecCCCCcCcccccccccccCCCCCCCccccccccchhHHHHHHH
Q 001219 642 AESAFGAAVKAAFLALKS----------TGGKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAM 711 (1121)
Q Consensus 642 ~~~~lG~AL~aA~~lL~~----------~GGkIivF~sg~Pt~GpG~L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~L 711 (1121)
.++.+..||..|+..+.. ..+||+++..+. +. . . +.-=+-+.
T Consensus 117 ~~s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s~-----------~~-~-----------~-----qYi~~mn~ 168 (279)
T TIGR00627 117 SRTVLAGALSDALGYINRSEQSETASEKLKSRILVISITP-----------DM-A-----------L-----QYIPLMNC 168 (279)
T ss_pred ccccchhHHHhhhhhhcccccccccCcCCcceEEEEECCC-----------Cc-h-----------H-----HHHHHHHH
Confidence 466688888888877732 247888886531 10 0 0 11113477
Q ss_pred HHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCCchhHHHHHHHHh
Q 001219 712 AIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYNDLRWN 770 (1121)
Q Consensus 712 a~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~d~~~L~~dL~r~ 770 (1121)
...|.+.+|.||++..+.+ -|..-+.++++.|||......+ .+.|.+.|...
T Consensus 169 Ifaaqk~~I~Idv~~L~~e-~~~~~lqQa~~~TgG~Y~~~~~------~~~L~q~L~~~ 220 (279)
T TIGR00627 169 IFSAQKQNIPIDVVSIGGD-FTSGFLQQAADITGGSYLHVKK------PQGLLQYLMTN 220 (279)
T ss_pred HHHHHHcCceEEEEEeCCc-cccHHHHHHHHHhCCEEeccCC------HhHHHHHHHHh
Confidence 7889999999999988653 4677899999999995444433 23455555443
No 75
>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=90.91 E-value=22 Score=43.06 Aligned_cols=268 Identities=13% Similarity=0.212 Sum_probs=127.5
Q ss_pred EEEEEEEcchhHHhh-hHHHHHHHHHHHHHhcCCCCCCceEEEEEe-CCEEEEEecCCCCCCceEeecCCccccc-----
Q 001219 535 VFFFLIDVSMNALQT-GATAAACSAISQVISDLPEGPRTMVGIATF-DSTIHFYNLKRALQQPLMLIVPDVEDVY----- 607 (1121)
Q Consensus 535 ~yvFvIDvS~~av~s-G~l~~v~~aI~~~L~~Lp~~~rt~VGiITF-Ds~Vhfynl~~~~~~pqmlVvsDldd~f----- 607 (1121)
=..|++|+|.+.... .-|+.+-..|.+.|..+-.+ .|+||=+| |+.|.=|- . ..|. .+.++.
T Consensus 104 DLYyLmDlS~Sm~ddl~~l~~lg~~l~~~~~~it~~--~~~GfGsfvdK~~~P~~--~--~~p~-----~l~~pc~~~~~ 172 (426)
T PF00362_consen 104 DLYYLMDLSYSMKDDLENLKSLGQDLAEEMRNITSN--FRLGFGSFVDKPVMPFV--S--TTPE-----KLKNPCPSKNP 172 (426)
T ss_dssp EEEEEEE-SGGGHHHHHHHCCCCHHHHHHHHTT-SS--EEEEEEEESSSSSTTTS--T---SSH-----CHHSTSCCTTS
T ss_pred eEEEEeechhhhhhhHHHHHHHHHHHHHHHHhcCcc--ceEechhhcccccCCcc--c--CChh-----hhcCcccccCC
Confidence 467899999976432 11344455677777777655 89999998 66552111 0 0010 111111
Q ss_pred ---cCCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHH--HH--hcCCeEEEEecCCCC--cCccc
Q 001219 608 ---TPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLA--LK--STGGKLLVFQSVLPS--VGIGA 678 (1121)
Q Consensus 608 ---vPl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~l--L~--~~GGkIivF~sg~Pt--~GpG~ 678 (1121)
-|..-.-.++|.+....+.+.+++.. +-.+...++..|-+-+++|+-- +. ...-||+||.+-..- .|-|+
T Consensus 173 ~c~~~~~f~~~l~Lt~~~~~F~~~v~~~~-is~n~D~PEgg~dal~Qa~vC~~~igWr~~a~~llv~~TD~~fH~agDg~ 251 (426)
T PF00362_consen 173 NCQPPFSFRHVLSLTDDITEFNEEVNKQK-ISGNLDAPEGGLDALMQAAVCQEEIGWRNEARRLLVFSTDAGFHFAGDGK 251 (426)
T ss_dssp --B---SEEEEEEEES-HHHHHHHHHTS---B--SSSSBSHHHHHHHHHH-HHHHT--STSEEEEEEEESS-B--TTGGG
T ss_pred CCCCCeeeEEeecccchHHHHHHhhhhcc-ccCCCCCCccccchheeeeecccccCcccCceEEEEEEcCCccccccccc
Confidence 11111224667777777777777753 3345567888888888877541 11 123589999887765 57788
Q ss_pred ccccccccCCCCCCCcccccc-ccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccc-cceEEEEeCCCCC
Q 001219 679 LSAREAEGRSNISSGEKETHK-LLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKT-TGGQVYYYYPFSA 756 (1121)
Q Consensus 679 L~~re~~~r~~~~~gt~~e~~-ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~-TGG~v~~y~~F~~ 756 (1121)
|...-.......++..+.+.. -..-...-..+|.+.+.+++|.+ ||+......++. ..|+.+ .|+.+-.... .
T Consensus 252 l~gi~~pnd~~Chl~~~~~y~~~~~~DYPSv~ql~~~l~e~~i~~-IFAVt~~~~~~Y--~~L~~~i~~s~vg~L~~--d 326 (426)
T PF00362_consen 252 LAGIVKPNDGKCHLDDNGMYTASTEQDYPSVGQLVRKLSENNINP-IFAVTKDVYSIY--EELSNLIPGSSVGELSS--D 326 (426)
T ss_dssp GGT--S---SS--BSTTSBBGGGGCS----HHHHHHHHHHTTEEE-EEEEEGGGHHHH--HHHHHHSTTEEEEEEST--T
T ss_pred cceeeecCCCceEECCCCcccccccccCCCHHHHHHHHHHcCCEE-EEEEchhhhhHH--HHHhhcCCCceeccccc--C
Confidence 766433221111222111100 01123345778888888888765 777776655432 222222 3455555543 1
Q ss_pred CCchhHHHHHHHHhccCCccccceEEEE-eCCCcEEEeeeCccccCC--CCceeecCCCCCCeEEEEEEec
Q 001219 757 LSDPAKLYNDLRWNITRPQGFEAVMRVR-CSQGIQVQEYHGNFCKRI--PTDIDLPAIDCNKAIMVTLKHD 824 (1121)
Q Consensus 757 ~~d~~~L~~dL~r~ltr~~g~~a~mrVR-~S~GL~V~~~~G~f~~r~--~~~~~lp~id~dtSia~el~~d 824 (1121)
+...-+|..+-++.|.. .+.|+.. ..++++|+ |..++..+. ...-+..++...+++.|++++.
T Consensus 327 SsNIv~LI~~aY~~i~s----~V~L~~~~~p~~v~v~-y~s~C~~~~~~~~~~~C~~V~iG~~V~F~VtVt 392 (426)
T PF00362_consen 327 SSNIVQLIKEAYNKISS----KVELKHDNAPDGVKVS-YTSNCPNGSTVPGTNECSNVKIGDTVTFNVTVT 392 (426)
T ss_dssp SHTHHHHHHHHHHHHCT----EEEEEECS--TTEEEE-EEEEESSSEEEECCEEECSE-TT-EEEEEEEEE
T ss_pred chhHHHHHHHHHHHHhh----eEEEEecCCCCcEEEE-EEEEccCCcccCcCccccCEecCCEEEEEEEEE
Confidence 22233455555544432 2233321 23456663 333322211 1123445566666666666655
No 76
>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=90.27 E-value=8.2 Score=41.62 Aligned_cols=97 Identities=13% Similarity=0.121 Sum_probs=59.4
Q ss_pred hHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHH-hc--CCeEE-EEecCCCCcCcccccccccccCCCCCCCccc
Q 001219 621 CRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALK-ST--GGKLL-VFQSVLPSVGIGALSAREAEGRSNISSGEKE 696 (1121)
Q Consensus 621 ~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~-~~--GGkIi-vF~sg~Pt~GpG~L~~re~~~r~~~~~gt~~ 696 (1121)
..+.+..+|+.+.--+.. ..++ .||..|++-|+ .. ..||+ +++.|-=|.| +
T Consensus 73 ~~~~l~~~l~~~q~g~ag---~~Ta--dAi~~av~rl~~~~~a~~kvvILLTDG~n~~~-----------------~--- 127 (191)
T cd01455 73 RLETLKMMHAHSQFCWSG---DHTV--EATEFAIKELAAKEDFDEAIVIVLSDANLERY-----------------G--- 127 (191)
T ss_pred HHHHHHHHHHhcccCccC---ccHH--HHHHHHHHHHHhcCcCCCcEEEEEeCCCcCCC-----------------C---
Confidence 346777788876432222 2233 88888888886 42 34554 4444431111 0
Q ss_pred cccccchhHHHHHHH-HHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCC
Q 001219 697 THKLLQPADKTLKAM-AIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYP 753 (1121)
Q Consensus 697 e~~ll~pa~~FYk~L-a~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~ 753 (1121)
..| .++ ++.+.+.||-|..+.++.. |-.++..+++.|||+.|...+
T Consensus 128 ----i~P-----~~aAa~lA~~~gV~iytIgiG~~--d~~~l~~iA~~tgG~~F~A~d 174 (191)
T cd01455 128 ----IQP-----KKLADALAREPNVNAFVIFIGSL--SDEADQLQRELPAGKAFVCMD 174 (191)
T ss_pred ----CCh-----HHHHHHHHHhCCCEEEEEEecCC--CHHHHHHHHhCCCCcEEEeCC
Confidence 011 233 3556678888887777653 667789999999999998765
No 77
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=88.68 E-value=6.6 Score=44.94 Aligned_cols=150 Identities=18% Similarity=0.252 Sum_probs=89.8
Q ss_pred CCcEEEEEEEcchhHHhhh----HHHHHHHHHHHHHhcC-CCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCcccc
Q 001219 532 MPAVFFFLIDVSMNALQTG----ATAAACSAISQVISDL-PEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDV 606 (1121)
Q Consensus 532 ~pp~yvFvIDvS~~av~sG----~l~~v~~aI~~~L~~L-p~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~ 606 (1121)
.-...+.|||+|-.+.+.- .+..+++.+..-+... ..|+-.+||||+.- ++.. -.+.|+..
T Consensus 59 iiRhl~iviD~S~am~e~Df~P~r~a~~~K~le~Fv~eFFdQNPiSQigii~~k---------~g~A----~~lt~ltg- 124 (378)
T KOG2807|consen 59 IIRHLYIVIDCSRAMEEKDFRPSRFANVIKYLEGFVPEFFDQNPISQIGIISIK---------DGKA----DRLTDLTG- 124 (378)
T ss_pred hheeEEEEEEhhhhhhhccCCchHHHHHHHHHHHHHHHHhccCchhheeEEEEe---------cchh----hHHHHhcC-
Confidence 3346788999999877654 3344444444444433 23666789988642 2211 11222211
Q ss_pred ccCCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcCC----eEEEEecCCCCcCccccccc
Q 001219 607 YTPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTGG----KLLVFQSVLPSVGIGALSAR 682 (1121)
Q Consensus 607 fvPl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~GG----kIivF~sg~Pt~GpG~L~~r 682 (1121)
+ -+..|+.|.... .-.....+-.||+.|...|++.-| .|++..+++.|.-||.+
T Consensus 125 ----------n---p~~hI~aL~~~~------~~~g~fSLqNaLe~a~~~Lk~~p~H~sREVLii~sslsT~DPgdi--- 182 (378)
T KOG2807|consen 125 ----------N---PRIHIHALKGLT------ECSGDFSLQNALELAREVLKHMPGHVSREVLIIFSSLSTCDPGDI--- 182 (378)
T ss_pred ----------C---HHHHHHHHhccc------ccCCChHHHHHHHHHHHHhcCCCcccceEEEEEEeeecccCcccH---
Confidence 0 122233322222 124456788999999999997633 45666666766665532
Q ss_pred ccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccce
Q 001219 683 EAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGG 746 (1121)
Q Consensus 683 e~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG 746 (1121)
| +..+.+.+..|-|.++-.+.+ +..-..||+.|||
T Consensus 183 -------------------------~-~tI~~lk~~kIRvsvIgLsaE---v~icK~l~kaT~G 217 (378)
T KOG2807|consen 183 -------------------------Y-ETIDKLKAYKIRVSVIGLSAE---VFICKELCKATGG 217 (378)
T ss_pred -------------------------H-HHHHHHHhhCeEEEEEeechh---HHHHHHHHHhhCC
Confidence 3 333457888999999988754 5566889999999
No 78
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=88.25 E-value=0.73 Score=56.44 Aligned_cols=79 Identities=23% Similarity=0.341 Sum_probs=53.9
Q ss_pred eeEEeecCCCCCCCCCCCCccccccccccCCcEEEEEcCceEEEEecCCCCHHHHHHhhCCCCCCCCCcccccCCCCcHh
Q 001219 976 RMVAIHDLDKGEDGSIIPPFLPLSSEHVSDEGIYLLENGEDALIYIGSSVDSSILHQLFGISSVDEVPTQFVLQQYDNPL 1055 (1121)
Q Consensus 976 rLy~lh~l~~~d~~~~lP~~l~LS~e~L~~dgiYLLD~G~~i~lwvG~~v~~~ll~~lFGv~s~~~i~~~~~lp~~dn~l 1055 (1121)
|||.+|.. |..+--++++|+.++|++.-+||||-|.+||||-|.... +..
T Consensus 623 RlYrv~~~----g~~i~lEPVpl~~tSLDPRf~FlLD~G~~IyiW~G~~s~--------------------------~t~ 672 (1255)
T KOG0444|consen 623 RLYRVGVN----GTAIELEPVPLSVTSLDPRFCFLLDAGETIYIWSGYKSR--------------------------ITV 672 (1255)
T ss_pred hhheeccc----cceeEeeccCccccccCcceEEEEeCCceEEEEeccchh--------------------------ccc
Confidence 45666642 111223578999999999999999999999999997531 234
Q ss_pred HHHHHHHHHHHHH-ccCCcceEEEEecCCC
Q 001219 1056 SKKLNDVVNEIRR-QRCSYLRLKLCKKGDP 1084 (1121)
Q Consensus 1056 s~~l~~iI~~lr~-~r~~y~~l~ivrqg~~ 1084 (1121)
+.|.|-+.++|.+ .|.---.+..+|||.-
T Consensus 673 ~~KARLfAEkinK~eRKgK~EI~l~rQg~e 702 (1255)
T KOG0444|consen 673 SNKARLFAEKINKRERKGKSEIELCRQGRE 702 (1255)
T ss_pred chHHHHHHHHhhhhhccCceeeehhhhcCC
Confidence 4455666666644 3433456788888854
No 79
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=88.00 E-value=4.4 Score=48.77 Aligned_cols=149 Identities=17% Similarity=0.193 Sum_probs=87.9
Q ss_pred CcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCcc
Q 001219 533 PAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQS 612 (1121)
Q Consensus 533 pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~ 612 (1121)
.| ++.|||.|.+. .|..+.+..++.-+|-.+.--.+.++.++.||+.++=|.+...
T Consensus 273 Gp-villlD~SGSM--~G~~e~~AKAvalAl~~~alaenR~~~~~lF~s~~~~~el~~k--------------------- 328 (437)
T COG2425 273 GP-VILLLDKSGSM--SGFKEQWAKAVALALMRIALAENRDCYVILFDSEVIEYELYEK--------------------- 328 (437)
T ss_pred CC-EEEEEeCCCCc--CCcHHHHHHHHHHHHHHHHHHhccceEEEEecccceeeeecCC---------------------
Confidence 44 45599999987 3545544555555554322212378999999994433332221
Q ss_pred cceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh---cCCeEEEEecCCCCcCcccccccccccCCC
Q 001219 613 DIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---TGGKLLVFQSVLPSVGIGALSAREAEGRSN 689 (1121)
Q Consensus 613 ~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~---~GGkIivF~sg~Pt~GpG~L~~re~~~r~~ 689 (1121)
.-.++.+|+.|...|..+ +-+-.||..|++.++. .++.|++.|+|-.
T Consensus 329 ---------~~~~~e~i~fL~~~f~GG----TD~~~~l~~al~~~k~~~~~~adiv~ITDg~~----------------- 378 (437)
T COG2425 329 ---------KIDIEELIEFLSYVFGGG----TDITKALRSALEDLKSRELFKADIVVITDGED----------------- 378 (437)
T ss_pred ---------ccCHHHHHHHHhhhcCCC----CChHHHHHHHHHHhhcccccCCCEEEEeccHh-----------------
Confidence 001344566665555543 4577888999999985 4588888776531
Q ss_pred CCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCc-cCcccccccccccceEEEEeCC
Q 001219 690 ISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTY-VDIASISVIPKTTGGQVYYYYP 753 (1121)
Q Consensus 690 ~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~-~dlatL~~La~~TGG~v~~y~~ 753 (1121)
.+ .+.|-.+..+...+.+.=|.-.+++... -++..|.. .+ +|.+++
T Consensus 379 ---------~~---~~~~~~~v~e~~k~~~~rl~aV~I~~~~~~~l~~Isd---~~---i~~~~~ 425 (437)
T COG2425 379 ---------ER---LDDFLRKVKELKKRRNARLHAVLIGGYGKPGLMRISD---HI---IYRVEP 425 (437)
T ss_pred ---------hh---hhHHHHHHHHHHHHhhceEEEEEecCCCCcccceeee---ee---EEeeCc
Confidence 11 1456666666666677777777766543 45544443 43 666653
No 80
>PF06707 DUF1194: Protein of unknown function (DUF1194); InterPro: IPR010607 This family consists of several hypothetical Rhizobiales specific proteins of around 270 residues in length. The function of this family is unknown.
Probab=85.49 E-value=16 Score=39.83 Aligned_cols=115 Identities=14% Similarity=0.072 Sum_probs=62.7
Q ss_pred HHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc---CCeEEEEecC--CCCcCcccccccccccCCCCCCCccc
Q 001219 622 RQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---GGKLLVFQSV--LPSVGIGALSAREAEGRSNISSGEKE 696 (1121)
Q Consensus 622 ~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~---GGkIivF~sg--~Pt~GpG~L~~re~~~r~~~~~gt~~ 696 (1121)
.+.+-.-|...+..+ ... +++|.||..+..+|+.. +.|-++=.|| .-|.|+
T Consensus 77 a~a~A~~l~~~~r~~---~~~-Taig~Al~~a~~ll~~~~~~~~RrVIDvSGDG~~N~G~-------------------- 132 (205)
T PF06707_consen 77 AEAFAARLRAAPRRF---GGR-TAIGSALDFAAALLAQNPFECWRRVIDVSGDGPNNQGP-------------------- 132 (205)
T ss_pred HHHHHHHHHhCCCCC---CCC-chHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCCCCC--------------------
Confidence 334444455555432 233 89999999999999863 4555555553 111221
Q ss_pred cccccchhHHHHHHHHHHHHhcCeEEEEEEecCCcc----Cccccccccccc--ceEEEEeCCCCCCCchhHHHHHHHHh
Q 001219 697 THKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYV----DIASISVIPKTT--GGQVYYYYPFSALSDPAKLYNDLRWN 770 (1121)
Q Consensus 697 e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~----dlatL~~La~~T--GG~v~~y~~F~~~~d~~~L~~dL~r~ 770 (1121)
.|.+ ..-..+...||+||=+.+....- +|...-.=+-.+ |..|..-.. .+.|.+-++|-
T Consensus 133 -----~p~~----~ard~~~~~GitINgL~I~~~~~~~~~~L~~yy~~~VIgGpgAFV~~a~~------~~df~~AirrK 197 (205)
T PF06707_consen 133 -----RPVT----SARDAAVAAGITINGLAILDDDPFGGADLDAYYRRCVIGGPGAFVETARG------FEDFAEAIRRK 197 (205)
T ss_pred -----CccH----HHHHHHHHCCeEEeeeEecCCCCCccccHHHHHhhhcccCCCceEEEcCC------HHHHHHHHHHH
Confidence 1111 12233556899999998877655 555443322222 223333333 34566666665
Q ss_pred ccCCc
Q 001219 771 ITRPQ 775 (1121)
Q Consensus 771 ltr~~ 775 (1121)
|.||+
T Consensus 198 L~rEi 202 (205)
T PF06707_consen 198 LIREI 202 (205)
T ss_pred HHHHh
Confidence 55554
No 81
>PRK10997 yieM hypothetical protein; Provisional
Probab=80.10 E-value=6.2 Score=48.26 Aligned_cols=149 Identities=11% Similarity=0.141 Sum_probs=82.6
Q ss_pred cEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCccc
Q 001219 534 AVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSD 613 (1121)
Q Consensus 534 p~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~ 613 (1121)
--+++|||+|.+.. |.-+....++..+|-.+....+.++++|.|++.+..|.+... +
T Consensus 324 GpiII~VDtSGSM~--G~ke~~AkalAaAL~~iAl~q~dr~~li~Fs~~i~~~~l~~~--------------------~- 380 (487)
T PRK10997 324 GPFIVCVDTSGSMG--GFNEQCAKAFCLALMRIALAENRRCYIMLFSTEVVTYELTGP--------------------D- 380 (487)
T ss_pred CcEEEEEECCCCCC--CCHHHHHHHHHHHHHHHHHhcCCCEEEEEecCCceeeccCCc--------------------c-
Confidence 35788999999874 443444445555544433223368999999988766643221 0
Q ss_pred ceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc---CCeEEEEecCCCCcCcccccccccccCCCC
Q 001219 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---GGKLLVFQSVLPSVGIGALSAREAEGRSNI 690 (1121)
Q Consensus 614 lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~---GGkIivF~sg~Pt~GpG~L~~re~~~r~~~ 690 (1121)
.+..+..+|+. .+ ..++.+..||+.+...++.. .+-|+++.+.....
T Consensus 381 -------gl~~ll~fL~~---~f----~GGTDl~~aL~~al~~l~~~~~r~adIVVISDF~~~~---------------- 430 (487)
T PRK10997 381 -------GLEQAIRFLSQ---SF----RGGTDLAPCLRAIIEKMQGREWFDADAVVISDFIAQR---------------- 430 (487)
T ss_pred -------CHHHHHHHHHH---hc----CCCCcHHHHHHHHHHHHcccccCCceEEEECCCCCCC----------------
Confidence 11122223332 22 34567889999888888652 46677765543100
Q ss_pred CCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCC
Q 001219 691 SSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYP 753 (1121)
Q Consensus 691 ~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~ 753 (1121)
..+++.+.+...-.+.+.-+...+++.. +-..+..++. +++.|+.
T Consensus 431 ------------~~eel~~~L~~Lk~~~~~rf~~l~i~~~--~~p~l~~ifD----~~W~~d~ 475 (487)
T PRK10997 431 ------------LPDELVAKVKELQRQHQHRFHAVAMSAH--GKPGIMRIFD----HIWRFDT 475 (487)
T ss_pred ------------ChHHHHHHHHHHHHhcCcEEEEEEeCCC--CCchHHHhcC----eeeEecC
Confidence 0134444444433346777777777642 2233444443 3666654
No 82
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=75.95 E-value=33 Score=38.69 Aligned_cols=54 Identities=13% Similarity=-0.024 Sum_probs=39.8
Q ss_pred HHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCCCCCCCchhHHHHHHHHh
Q 001219 708 LKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYNDLRWN 770 (1121)
Q Consensus 708 Yk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~F~~~~d~~~L~~dL~r~ 770 (1121)
|-+.--.+.+++|.||++.+..+ -..|.+.|..|||...+.+.- +.|.+.|-..
T Consensus 185 ~MNciFaAqKq~I~Idv~~l~~~---s~~LqQa~D~TGG~YL~v~~~------~gLLqyLlt~ 238 (314)
T KOG2487|consen 185 YMNCIFAAQKQNIPIDVVSLGGD---SGFLQQACDITGGDYLHVEKP------DGLLQYLLTL 238 (314)
T ss_pred HHHHHHHHHhcCceeEEEEecCC---chHHHHHHhhcCCeeEecCCc------chHHHHHHHH
Confidence 45556678899999999998876 456789999999998887752 3455555443
No 83
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=75.69 E-value=28 Score=46.67 Aligned_cols=117 Identities=17% Similarity=0.283 Sum_probs=74.5
Q ss_pred cCccEEEEec---cccccCCCCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCC
Q 001219 514 CRGTVEFVAT---KEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKR 590 (1121)
Q Consensus 514 ~~gtVEyvap---~eY~~r~p~pp~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~ 590 (1121)
...++|+... +-|+.....+--.+|++|+|.+.-. -.+..++..+.++|+.|.++ ..|-++||++.++.-
T Consensus 203 ~~~~idl~D~R~r~Wyi~aAt~pKdiviLlD~SgSm~g-~~~~lak~tv~~iLdtLs~~--Dfvni~tf~~~~~~v---- 275 (1104)
T KOG2353|consen 203 TDNSIDLYDCRNRSWYIQAATSPKDIVILLDVSGSMSG-LRLDLAKQTVNEILDTLSDN--DFVNILTFNSEVNPV---- 275 (1104)
T ss_pred CCCcceeeecccccccccccCCccceEEEEeccccccc-hhhHHHHHHHHHHHHhcccC--CeEEEEeeccccCcc----
Confidence 4445554433 4466666788899999999987532 24667788888899988876 689999999877532
Q ss_pred CCCCceEeecCCccccccCCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh
Q 001219 591 ALQQPLMLIVPDVEDVYTPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS 659 (1121)
Q Consensus 591 ~~~~pqmlVvsDldd~fvPl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~ 659 (1121)
+++.. ..|+----..++.|.++++.|. .+ ...-+-.|+..|+.+|..
T Consensus 276 ---------~pc~~-------~~lvqAt~~nk~~~~~~i~~l~--~k----~~a~~~~~~e~aF~lL~~ 322 (1104)
T KOG2353|consen 276 ---------SPCFN-------GTLVQATMRNKKVFKEAIETLD--AK----GIANYTAALEYAFSLLRD 322 (1104)
T ss_pred ---------ccccc-------CceeecchHHHHHHHHHHhhhc--cc----cccchhhhHHHHHHHHHH
Confidence 22211 1222222345666777777774 11 122355778888888864
No 84
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=74.87 E-value=6.1 Score=48.92 Aligned_cols=54 Identities=17% Similarity=0.285 Sum_probs=37.1
Q ss_pred hcccceeEEeecCCCCCCCCCCCC-----ccccccccccCCcEEEEEcCceEEEEecCCCCH
Q 001219 971 PFVYPRMVAIHDLDKGEDGSIIPP-----FLPLSSEHVSDEGIYLLENGEDALIYIGSSVDS 1027 (1121)
Q Consensus 971 ~~lYPrLy~lh~l~~~d~~~~lP~-----~l~LS~e~L~~dgiYLLD~G~~i~lwvG~~v~~ 1027 (1121)
.-..|+||.+.--- |...+|+ ...|-.+-|.+.++|+||+...+|||+|+..+.
T Consensus 730 ~p~qpkLYkV~lGm---GyLELPQvel~P~~~l~q~lL~sk~VyiLDc~sDiF~W~GkKs~R 788 (1255)
T KOG0444|consen 730 VPEQPKLYKVNLGM---GYLELPQVELLPKGILKQDLLGSKGVYILDCNSDIFLWIGKKSNR 788 (1255)
T ss_pred CCCCcceEEEcccc---ceeecchhhhchhhHHHHHhhcCCeEEEEecCCceEEEecccchH
Confidence 45678998875310 1112332 234556678899999999999999999998654
No 85
>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=70.88 E-value=3.5 Score=31.54 Aligned_cols=30 Identities=20% Similarity=0.476 Sum_probs=23.4
Q ss_pred cccCCCCceecCceEEEecCCeEEecCCCCCCCC
Q 001219 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGFTDET 490 (1121)
Q Consensus 457 vRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~v 490 (1121)
++|..|++.+-- -.+-++|+|.+|...|.+
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 579999997642 356779999999988754
No 86
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=70.59 E-value=23 Score=42.10 Aligned_cols=160 Identities=16% Similarity=0.186 Sum_probs=95.8
Q ss_pred cEEEEEEEcchhHHhhhHHHHHHH---HHHHHHh-cCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccC
Q 001219 534 AVFFFLIDVSMNALQTGATAAACS---AISQVIS-DLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTP 609 (1121)
Q Consensus 534 p~yvFvIDvS~~av~sG~l~~v~~---aI~~~L~-~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvP 609 (1121)
.+.+.++|+|++.+-.|..--+++ +|...+. ..+.+ -+.||+|...- +.
T Consensus 464 aAvallvDtS~SM~~eGRw~PmKQtALALhHLv~TrfrGD---~l~~i~Fgr~A------------~~------------ 516 (652)
T COG4867 464 AAVALLVDTSFSMVMEGRWLPMKQTALALHHLVCTRFRGD---ALQIIAFGRYA------------RT------------ 516 (652)
T ss_pred cceeeeeeccHHHHHhccCCchHHHHHHHHHHHHhcCCCc---ceEEEeccchh------------cc------------
Confidence 467899999999988774332222 3333333 23333 57888875321 10
Q ss_pred CcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcC---CeEEEEecCCCCc----Cccccccc
Q 001219 610 LQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG---GKLLVFQSVLPSV----GIGALSAR 682 (1121)
Q Consensus 610 l~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~G---GkIivF~sg~Pt~----GpG~L~~r 682 (1121)
|+++| |-.++.+. ...+.+--||..|..+|+... -.|++.+.|-||. |-|.+..
T Consensus 517 ------v~v~e--------Lt~l~~v~----eqgTNlhhaL~LA~r~l~Rh~~~~~~il~vTDGePtAhle~~DG~~~~- 577 (652)
T COG4867 517 ------VTAAE--------LTGLAGVY----EQGTNLHHALALAGRHLRRHAGAQPVVLVVTDGEPTAHLEDGDGTSVF- 577 (652)
T ss_pred ------cCHHH--------HhcCCCcc----ccccchHHHHHHHHHHHHhCcccCceEEEEeCCCccccccCCCCceEe-
Confidence 11111 23333222 233456778888999998543 4788999999984 2332211
Q ss_pred ccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeC
Q 001219 683 EAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYY 752 (1121)
Q Consensus 683 e~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~ 752 (1121)
..|+++-+. +.+ -.+++ ..|.+.|+-|++|....+.-=..-+..+++.|+|++|+-+
T Consensus 578 -------f~yp~DP~t-~~~----Tvr~~-d~~~r~G~q~t~FrLg~DpgL~~Fv~qva~rv~G~vv~pd 634 (652)
T COG4867 578 -------FDYPPDPRT-IAH----TVRGF-DDMARLGAQVTIFRLGSDPGLARFIDQVARRVQGRVVVPD 634 (652)
T ss_pred -------cCCCCChhH-HHH----HHHHH-HHHHhccceeeEEeecCCHhHHHHHHHHHHHhCCeEEecC
Confidence 145444321 221 12333 3589999999999998875444456789999999998743
No 87
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=70.02 E-value=32 Score=42.40 Aligned_cols=32 Identities=28% Similarity=0.344 Sum_probs=25.1
Q ss_pred cEEEEEEEcchhHHh-----hhHHHHHHHHHHHHHhc
Q 001219 534 AVFFFLIDVSMNALQ-----TGATAAACSAISQVISD 565 (1121)
Q Consensus 534 p~yvFvIDvS~~av~-----sG~l~~v~~aI~~~L~~ 565 (1121)
|+|+|+||+|.+..+ .-+|+.++.+|.+-|+.
T Consensus 2 pi~lFllDTS~SM~qrah~~~tylD~AKgaVEtFiK~ 38 (888)
T KOG3768|consen 2 PIFLFLLDTSGSMSQRAHPQFTYLDLAKGAVETFIKQ 38 (888)
T ss_pred ceEEEEEecccchhhhccCCchhhHHHHHHHHHHHHH
Confidence 689999999998644 34778888888887764
No 88
>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=65.92 E-value=3.9 Score=35.22 Aligned_cols=34 Identities=21% Similarity=0.327 Sum_probs=24.4
Q ss_pred CCcccCCCCceecCceEEEecCCeEEecCCCCCC
Q 001219 455 GPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (1121)
Q Consensus 455 ~pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N 488 (1121)
-.+-|++|+.--.-+-+-....-+|+|..|++.|
T Consensus 21 ~aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 21 YALICSKCFSHNGLAPKEEFEEIQYRCPYCGALN 54 (54)
T ss_pred eeEECcccchhhcccccccCCceEEEcCCCCCcC
Confidence 3677999998644443444444589999999987
No 89
>PHA03378 EBNA-3B; Provisional
Probab=62.15 E-value=1.9e+02 Score=36.64 Aligned_cols=9 Identities=22% Similarity=0.445 Sum_probs=3.6
Q ss_pred CCCCCCCCC
Q 001219 20 NYNPNLQQN 28 (1121)
Q Consensus 20 ~~~~~~~~~ 28 (1121)
.++|+..+.
T Consensus 688 ~~ap~~~~p 696 (991)
T PHA03378 688 QWAPGTMQP 696 (991)
T ss_pred ccCccccCC
Confidence 333444443
No 90
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=62.13 E-value=14 Score=37.05 Aligned_cols=93 Identities=15% Similarity=0.171 Sum_probs=58.1
Q ss_pred EEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCceEeecCCccccccCCccccee
Q 001219 537 FFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDIIV 616 (1121)
Q Consensus 537 vFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~pqmlVvsDldd~fvPl~~~lLv 616 (1121)
+++||+|.+.-+ ..|+.++..|..+++... .+|-+|.||..|+-.. .+.+.++.
T Consensus 2 ~vaiDtSGSis~-~~l~~fl~ev~~i~~~~~----~~v~vi~~D~~v~~~~-----------~~~~~~~~---------- 55 (126)
T PF09967_consen 2 VVAIDTSGSISD-EELRRFLSEVAGILRRFP----AEVHVIQFDAEVQDVQ-----------VFRSLEDE---------- 55 (126)
T ss_pred EEEEECCCCCCH-HHHHHHHHHHHHHHHhCC----CCEEEEEECCEeeeee-----------EEeccccc----------
Confidence 689999997633 357778888888887762 5699999999986321 11110100
Q ss_pred ehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhcCCeEEEEecCCC
Q 001219 617 PVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTGGKLLVFQSVLP 672 (1121)
Q Consensus 617 ~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~GGkIivF~sg~P 672 (1121)
+..+ .-..+.++++.++++.+.+.. ....-|++||.+-.
T Consensus 56 ------------~~~~----~~~GgGGTdf~pvf~~~~~~~-~~~~~vi~fTDg~~ 94 (126)
T PF09967_consen 56 ------------LRDI----KLKGGGGTDFRPVFEYLEENR-PRPSVVIYFTDGEG 94 (126)
T ss_pred ------------cccc----ccCCCCCCcchHHHHHHHhcC-CCCCEEEEEeCCCC
Confidence 0111 112456778888888766543 23566778998754
No 91
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=58.61 E-value=4 Score=35.62 Aligned_cols=28 Identities=32% Similarity=1.012 Sum_probs=20.1
Q ss_pred cCCCCCCcccCCCCceecCceEEEecCCeEEecCCCCC
Q 001219 450 DFGDMGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (1121)
Q Consensus 450 d~g~~~pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~ 487 (1121)
+.|+..|.||.+||-. |..|+|.-||+.
T Consensus 32 nCGe~~I~Rc~~CRk~----------g~~Y~Cp~CGF~ 59 (61)
T COG2888 32 NCGEVEIYRCAKCRKL----------GNPYRCPKCGFE 59 (61)
T ss_pred CCCceeeehhhhHHHc----------CCceECCCcCcc
Confidence 5566678888888864 445678888864
No 92
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=57.87 E-value=7.6 Score=31.97 Aligned_cols=29 Identities=24% Similarity=0.723 Sum_probs=20.5
Q ss_pred CcccCCCCceecCceEEEecCCeEEecCCCCCC
Q 001219 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (1121)
Q Consensus 456 pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N 488 (1121)
..+|.+|++-+- +++....++|+.||...
T Consensus 3 ~y~C~~CG~~~~----~~~~~~~~~Cp~CG~~~ 31 (46)
T PRK00398 3 EYKCARCGREVE----LDEYGTGVRCPYCGYRI 31 (46)
T ss_pred EEECCCCCCEEE----ECCCCCceECCCCCCeE
Confidence 468999999542 23333379999999654
No 93
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=57.63 E-value=1.7e+02 Score=34.29 Aligned_cols=6 Identities=33% Similarity=0.728 Sum_probs=2.9
Q ss_pred CCCCCC
Q 001219 16 PPPPNY 21 (1121)
Q Consensus 16 ~~~~~~ 21 (1121)
.+||+|
T Consensus 214 ~GPPP~ 219 (498)
T KOG4849|consen 214 SGPPPL 219 (498)
T ss_pred CCCCCc
Confidence 344555
No 94
>KOG1226 consensus Integrin beta subunit (N-terminal portion of extracellular region) [Signal transduction mechanisms; Extracellular structures]
Probab=56.06 E-value=3.3e+02 Score=35.22 Aligned_cols=139 Identities=19% Similarity=0.322 Sum_probs=73.7
Q ss_pred EEEEEEEcchhHHhh-hHHHHHHHHHHHHHhcCCCCCCceEEEEEe-CCEEEEEecCC--CCCCceEeecCCccccccCC
Q 001219 535 VFFFLIDVSMNALQT-GATAAACSAISQVISDLPEGPRTMVGIATF-DSTIHFYNLKR--ALQQPLMLIVPDVEDVYTPL 610 (1121)
Q Consensus 535 ~yvFvIDvS~~av~s-G~l~~v~~aI~~~L~~Lp~~~rt~VGiITF-Ds~Vhfynl~~--~~~~pqmlVvsDldd~fvPl 610 (1121)
=..+++|+|+++.+. .-|+.+=..|.+.|..|-.+ -||||=.| |++|.=|-... .+..| -++..+-..|.
T Consensus 134 DLYyLMDlS~SM~DDl~~l~~LG~~L~~~m~~lT~n--frlGFGSFVDK~v~P~i~~~pekl~np----c~~~~~C~ppf 207 (783)
T KOG1226|consen 134 DLYYLMDLSYSMKDDLENLKSLGTDLAREMRKLTSN--FRLGFGSFVDKTVSPYISTTPEKLRNP----CPNYKNCAPPF 207 (783)
T ss_pred eEEEEeecchhhhhhHHHHHHHHHHHHHHHHHHhcc--CCccccchhccccccccccCcHHhcCC----CCCcccCCCCc
Confidence 356689999987543 12455556677777777665 78999888 77775442211 11111 01111111121
Q ss_pred cccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc-----CCeEEEEecCCCC--cCcccccc
Q 001219 611 QSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-----GGKLLVFQSVLPS--VGIGALSA 681 (1121)
Q Consensus 611 ~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~-----GGkIivF~sg~Pt--~GpG~L~~ 681 (1121)
.-.-.+.|.+..+.+++.+++= ++-.+-..++-.|-+-+++|+- =+.. .-|++||.+-.=. .|-|+|..
T Consensus 208 gfkhvLsLT~~~~~F~~~V~~q-~ISgNlDaPEGGfDAimQaavC-~~~IGWR~~a~~lLVF~td~~~H~a~DgkLaG 283 (783)
T KOG1226|consen 208 GFKHVLSLTNDAEEFNEEVGKQ-RISGNLDAPEGGFDAIMQAAVC-TEKIGWRNDATRLLVFSTDAGFHFAGDGKLAG 283 (783)
T ss_pred ccceeeecCCChHHHHHHHhhc-eeccCCCCCCchHHHHHhhhhc-cccccccccceeEEEEEcCcceeeecccceee
Confidence 1122455666555555544432 1223334566667677776642 2223 3689999775433 46666654
No 95
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=54.61 E-value=7.2e+02 Score=34.23 Aligned_cols=6 Identities=50% Similarity=0.678 Sum_probs=2.3
Q ss_pred CCCCCC
Q 001219 143 SSAFPS 148 (1121)
Q Consensus 143 ~~~~~~ 148 (1121)
|.+|++
T Consensus 1802 sp~~~~ 1807 (1958)
T KOG0391|consen 1802 SPTFQS 1807 (1958)
T ss_pred CCCCcc
Confidence 333443
No 96
>PRK12860 transcriptional activator FlhC; Provisional
Probab=50.06 E-value=8.2 Score=41.49 Aligned_cols=30 Identities=30% Similarity=0.790 Sum_probs=21.7
Q ss_pred CCCCcccCCCCc-eecCceEEEecCCeEEecCCC
Q 001219 453 DMGPVRCSRCKA-YINPFMKFIDQGRRFICSLCG 485 (1121)
Q Consensus 453 ~~~pvRC~rCrA-YiNPf~~f~~~g~~W~CnfC~ 485 (1121)
.-...+|++|++ ||-. ..+....|+|.||.
T Consensus 131 ~L~l~~C~~Cgg~fv~~---~~e~~~~f~CplC~ 161 (189)
T PRK12860 131 MLQLARCCRCGGKFVTH---AHDLRHNFVCGLCQ 161 (189)
T ss_pred CeeeccCCCCCCCeecc---ccccCCCCcCCCCC
Confidence 346899999997 5522 22445679999999
No 97
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=49.65 E-value=8.9e+02 Score=33.48 Aligned_cols=7 Identities=57% Similarity=0.975 Sum_probs=3.1
Q ss_pred CCCCCCC
Q 001219 44 PVSMPNS 50 (1121)
Q Consensus 44 ~~~~~~~ 50 (1121)
|..+|++
T Consensus 1663 p~~~p~s 1669 (1958)
T KOG0391|consen 1663 PAHTPNS 1669 (1958)
T ss_pred CCCCCcc
Confidence 3444444
No 98
>PRK03954 ribonuclease P protein component 4; Validated
Probab=49.55 E-value=10 Score=38.04 Aligned_cols=35 Identities=23% Similarity=0.616 Sum_probs=24.7
Q ss_pred cccCCCCceecC----ceEEEecC---CeEEecCCCCCCCCC
Q 001219 457 VRCSRCKAYINP----FMKFIDQG---RRFICSLCGFTDETP 491 (1121)
Q Consensus 457 vRC~rCrAYiNP----f~~f~~~g---~~W~CnfC~~~N~vP 491 (1121)
--|++|.+|+=| -+++..++ -.++|..||+..-+|
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 459999999865 33344332 234999999988776
No 99
>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=47.18 E-value=8.3 Score=34.70 Aligned_cols=30 Identities=27% Similarity=0.598 Sum_probs=19.9
Q ss_pred CcccCCCCceecCceEEEecCCeEEecCCCCCCCCC
Q 001219 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETP 491 (1121)
Q Consensus 456 pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~vP 491 (1121)
+.|| +|+.|+ --.++.+.-+| .||....|-
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 799976 24566778899 999887664
No 100
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=45.88 E-value=46 Score=42.92 Aligned_cols=33 Identities=18% Similarity=0.680 Sum_probs=23.2
Q ss_pred CcccCCCCceecCceEEEecCCeEEecCCCCCCCCCc
Q 001219 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPR 492 (1121)
Q Consensus 456 pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~vP~ 492 (1121)
+.+|.+|..+ +++-...+.-+|..||+.-.+|.
T Consensus 444 v~~Cp~Cd~~----lt~H~~~~~L~CH~Cg~~~~~p~ 476 (730)
T COG1198 444 IAECPNCDSP----LTLHKATGQLRCHYCGYQEPIPQ 476 (730)
T ss_pred cccCCCCCcc----eEEecCCCeeEeCCCCCCCCCCC
Confidence 4556666554 34555667899999999977763
No 101
>PRK12722 transcriptional activator FlhC; Provisional
Probab=45.86 E-value=9.4 Score=40.99 Aligned_cols=31 Identities=23% Similarity=0.562 Sum_probs=21.9
Q ss_pred CCCCcccCCCCc-eecCceEEEecCCeEEecCCCC
Q 001219 453 DMGPVRCSRCKA-YINPFMKFIDQGRRFICSLCGF 486 (1121)
Q Consensus 453 ~~~pvRC~rCrA-YiNPf~~f~~~g~~W~CnfC~~ 486 (1121)
.-...+|++|++ ||-.. .+....|+|.||+-
T Consensus 131 ~L~l~~C~~Cgg~fv~~~---~e~~~~f~CplC~~ 162 (187)
T PRK12722 131 MLQLSSCNCCGGHFVTHA---HDPVGSFVCGLCQP 162 (187)
T ss_pred cEeeccCCCCCCCeeccc---cccCCCCcCCCCCC
Confidence 345789999997 55222 24456799999986
No 102
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=43.23 E-value=5.1e+02 Score=28.87 Aligned_cols=177 Identities=15% Similarity=0.244 Sum_probs=90.4
Q ss_pred CcEEEEEEEcchhH----HhhhHHHHHHHHHHHHHhc-CCCCCCceEEEE-EeCCEEEEEecCCCCCCceEeecCCccc-
Q 001219 533 PAVFFFLIDVSMNA----LQTGATAAACSAISQVISD-LPEGPRTMVGIA-TFDSTIHFYNLKRALQQPLMLIVPDVED- 605 (1121)
Q Consensus 533 pp~yvFvIDvS~~a----v~sG~l~~v~~aI~~~L~~-Lp~~~rt~VGiI-TFDs~Vhfynl~~~~~~pqmlVvsDldd- 605 (1121)
|...+.+||..-.. -+.|-..-+++.|.--|+. |.-+.+-||++| .|+..+.+.--+... .+-+++.|.
T Consensus 20 pslL~viid~~p~~W~~~~ek~~~~kvl~di~VFLNAhlaf~~~NrVaVva~~s~~~~yLypss~s----~~k~se~e~t 95 (296)
T COG5242 20 PSLLFVIIDLEPENWELTTEKGSRDKVLNDIVVFLNAHLAFSRNNRVAVVAGYSQGKTYLYPSSES----ALKASESENT 95 (296)
T ss_pred CceEEEEEecChhhcccccccccHHHHHHHHHHHHHHHHhhccCCeEEEEEeccCceEEeccCcch----hhhhhcccCc
Confidence 44566677865542 2334444555555544442 222233578776 566666543322221 122333332
Q ss_pred ----cccCCcccceeehHH-hHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHh------cCCeEEEEecCCCCc
Q 001219 606 ----VYTPLQSDIIVPVSE-CRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS------TGGKLLVFQSVLPSV 674 (1121)
Q Consensus 606 ----~fvPl~~~lLv~l~e-~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~------~GGkIivF~sg~Pt~ 674 (1121)
+|.- +-++.| ..+.|..|++.- .......-+|-|+.+++....+ .-.||++|+.+
T Consensus 96 r~sd~yrr-----fr~vde~~i~eiyrl~e~~-----~k~sqr~~v~gams~glay~n~~~~e~slkSriliftls---- 161 (296)
T COG5242 96 RNSDMYRR-----FRNVDETDITEIYRLIEHP-----HKNSQRYDVGGAMSLGLAYCNHRDEETSLKSRILIFTLS---- 161 (296)
T ss_pred cchhhhhh-----hcccchHHHHHHHHHHhCc-----ccccceeehhhhhhhhHHHHhhhcccccccceEEEEEec----
Confidence 2211 111211 112233333321 1123344678888888887753 34899999762
Q ss_pred CcccccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEEeCC
Q 001219 675 GIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYP 753 (1121)
Q Consensus 675 GpG~L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~y~~ 753 (1121)
| ||..- +| .| |-+-.-.+.+.+|-||+|-+... -..|.+.|..|||.-...++
T Consensus 162 G------~d~~~------------qY-ip----~mnCiF~Aqk~~ipI~v~~i~g~---s~fl~Q~~daTgG~Yl~ve~ 214 (296)
T COG5242 162 G------RDRKD------------QY-IP----YMNCIFAAQKFGIPISVFSIFGN---SKFLLQCCDATGGDYLTVED 214 (296)
T ss_pred C------chhhh------------hh-ch----hhhheeehhhcCCceEEEEecCc---cHHHHHHhhccCCeeEeecC
Confidence 1 22110 01 11 22222335567899999977655 34577889999998777665
No 103
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=42.73 E-value=13 Score=29.46 Aligned_cols=33 Identities=27% Similarity=0.627 Sum_probs=23.3
Q ss_pred CcccCCCCceec-CceEEEecCCeEEecCCCCCC
Q 001219 456 PVRCSRCKAYIN-PFMKFIDQGRRFICSLCGFTD 488 (1121)
Q Consensus 456 pvRC~rCrAYiN-Pf~~f~~~g~~W~CnfC~~~N 488 (1121)
.++|.+|++-.+ +-.++...|++.+|.-|++.-
T Consensus 2 ~i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 2 IITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EEECCCCCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 468888888655 333455668888999988753
No 104
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=40.99 E-value=17 Score=30.24 Aligned_cols=32 Identities=28% Similarity=0.742 Sum_probs=21.0
Q ss_pred ccCCCCceecCceEEEecCCeEEecCCCCCCCCC
Q 001219 458 RCSRCKAYINPFMKFIDQGRRFICSLCGFTDETP 491 (1121)
Q Consensus 458 RC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~vP 491 (1121)
.|.+|+..+-+- -.+++.+|+|.-|++.-.+.
T Consensus 2 FCp~Cg~~l~~~--~~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPK--EGKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCccccc--cCCCCCEEECCcCCCeEECC
Confidence 489999966322 12223489999999765443
No 105
>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=40.65 E-value=13 Score=36.77 Aligned_cols=34 Identities=18% Similarity=0.390 Sum_probs=27.4
Q ss_pred CcccCCCCceecCceEEEe-cCCeEEecCCCCCCC
Q 001219 456 PVRCSRCKAYINPFMKFID-QGRRFICSLCGFTDE 489 (1121)
Q Consensus 456 pvRC~rCrAYiNPf~~f~~-~g~~W~CnfC~~~N~ 489 (1121)
-..|..|+-.+..-|.+.. ....|.|++|....+
T Consensus 71 ~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~re 105 (118)
T PF02318_consen 71 GRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQRE 105 (118)
T ss_dssp CEEETTTTEEEETTSEEETSSSCCEEEHHHHHHHH
T ss_pred CCcCCcCCccccCccCCcCCCCCCEEChhhHHHHH
Confidence 3889999999999998874 456899999976543
No 106
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=40.26 E-value=1.7e+02 Score=35.10 Aligned_cols=13 Identities=38% Similarity=0.646 Sum_probs=5.6
Q ss_pred CCCCCCCCCCCCC
Q 001219 95 PPNVAPVRPFGPP 107 (1121)
Q Consensus 95 ~~~~~~~~~~~~~ 107 (1121)
+|..+|.||-+++
T Consensus 332 ~p~~Pp~~~l~Pp 344 (487)
T KOG4672|consen 332 PPYGPPPGMLFPP 344 (487)
T ss_pred CCCCCCCcccCCC
Confidence 4444444433333
No 107
>PF11265 Med25_VWA: Mediator complex subunit 25 von Willebrand factor type A; InterPro: IPR021419 The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain which is this one, an SD2 domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This VWA or von Willebrand factor type A domain when bound to RAR and the histone acetyltransferase CBP is responsible for recruiting Med1 to the rest of the Mediator complex [].
Probab=40.05 E-value=5.8e+02 Score=28.56 Aligned_cols=102 Identities=14% Similarity=0.202 Sum_probs=60.7
Q ss_pred HHHHHHHhhcCccccCCCCCcch-HHHHHHHHHHHHHh------c-C-----CeEEEEecCCCCcCcccccccccccCCC
Q 001219 623 QHLELLLESIPSMFQNNRTAESA-FGAAVKAAFLALKS------T-G-----GKLLVFQSVLPSVGIGALSAREAEGRSN 689 (1121)
Q Consensus 623 ~~I~~lLd~Lp~~f~~~~~~~~~-lG~AL~aA~~lL~~------~-G-----GkIivF~sg~Pt~GpG~L~~re~~~r~~ 689 (1121)
+.+.+.|++|. |..+.-.++| +.-+|..|+.++.. . + -+.|+...++|..=| ..
T Consensus 90 ~~fl~~L~~I~--f~GGG~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nSpP~~~p----~~------- 156 (226)
T PF11265_consen 90 QKFLQWLDAIQ--FSGGGFESCAAIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNSPPYRLP----VN------- 156 (226)
T ss_pred HHHHHHHHccC--cCCCCcccchhHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCCCCcccc----cc-------
Confidence 34566778875 3333433444 77788888888762 1 1 234555555653211 11
Q ss_pred CCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEecCCccCcccccccccccceEEEE
Q 001219 690 ISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYY 750 (1121)
Q Consensus 690 ~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsVDlFl~s~~~~dlatL~~La~~TGG~v~~ 750 (1121)
+..++ ....+++++..+.+++|.+.++.= . -+..|..|-+..+|....
T Consensus 157 ------~~~~~---~~~~~d~la~~~~~~~I~LSiisP-r---klP~l~~Lfeka~~~~~~ 204 (226)
T PF11265_consen 157 ------ECPQY---SGKTCDQLAVLISERNISLSIISP-R---KLPSLRSLFEKAKGNPRA 204 (226)
T ss_pred ------CCCcc---cCCCHHHHHHHHHhcCceEEEEcC-c---cCHHHHHHHHhcCCCccc
Confidence 11111 224578999999999999998852 2 356667777777776655
No 108
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=38.38 E-value=17 Score=29.56 Aligned_cols=30 Identities=23% Similarity=0.545 Sum_probs=25.0
Q ss_pred cccCCCCceecCceEEEecCCeEEecCCCCC
Q 001219 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (1121)
Q Consensus 457 vRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~ 487 (1121)
-||..|+....-+..+.+ .....|.-|+..
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 589999998888887777 667999999973
No 109
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=37.94 E-value=21 Score=36.23 Aligned_cols=33 Identities=15% Similarity=0.393 Sum_probs=24.1
Q ss_pred cccCCCCceecCceEEEecCCeEEecCCCCCCCCC
Q 001219 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETP 491 (1121)
Q Consensus 457 vRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~vP 491 (1121)
++|.-|+.. -.+.+....+.|.|.-|+..|-+.
T Consensus 1 v~C~fC~~~--s~~~~~~~~~~w~C~~C~q~N~f~ 33 (131)
T PF09779_consen 1 VNCWFCGQN--SKVPYDNRNSNWTCPHCEQYNGFD 33 (131)
T ss_pred CeeccCCCC--CCCCCCCCCCeeECCCCCCccCcc
Confidence 578889874 344445555669999999999764
No 110
>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=36.87 E-value=50 Score=36.21 Aligned_cols=46 Identities=15% Similarity=0.171 Sum_probs=27.0
Q ss_pred CCCc-EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEE
Q 001219 531 PMPA-VFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTI 583 (1121)
Q Consensus 531 p~pp-~yvFvIDvS~~av~sG~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~V 583 (1121)
+..+ .+|+|+|||.+... +...++..+..+.+.. .+|.++.|++.|
T Consensus 54 ~~~~~~lvvl~DvSGSM~~--~s~~~l~~~~~l~~~~-----~~~~~f~F~~~l 100 (222)
T PF05762_consen 54 PRKPRRLVVLCDVSGSMAG--YSEFMLAFLYALQRQF-----RRVRVFVFSTRL 100 (222)
T ss_pred cCCCccEEEEEeCCCChHH--HHHHHHHHHHHHHHhC-----CCEEEEEEeeeh
Confidence 3444 89999999998754 3333333333333322 256777777654
No 111
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=36.54 E-value=20 Score=35.42 Aligned_cols=28 Identities=14% Similarity=0.256 Sum_probs=20.2
Q ss_pred CCcccCCCCceecCceEEEecCCeEEecCCCCCC
Q 001219 455 GPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (1121)
Q Consensus 455 ~pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N 488 (1121)
.-.||..|+.. |......|.|+-||..+
T Consensus 69 ~~~~C~~Cg~~------~~~~~~~~~CP~Cgs~~ 96 (113)
T PRK12380 69 AQAWCWDCSQV------VEIHQHDAQCPHCHGER 96 (113)
T ss_pred cEEEcccCCCE------EecCCcCccCcCCCCCC
Confidence 35899999954 33334568899999764
No 112
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=34.91 E-value=19 Score=28.35 Aligned_cols=32 Identities=31% Similarity=0.632 Sum_probs=20.4
Q ss_pred CcccCCCCceecC-ceEEEecCCeEEecCCCCC
Q 001219 456 PVRCSRCKAYINP-FMKFIDQGRRFICSLCGFT 487 (1121)
Q Consensus 456 pvRC~rCrAYiNP-f~~f~~~g~~W~CnfC~~~ 487 (1121)
.++|.+|++-.+- =-++-..|++.+|.-|++.
T Consensus 2 ~i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~ 34 (36)
T PF13717_consen 2 IITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHV 34 (36)
T ss_pred EEECCCCCCEEeCCHHHCCCCCcEEECCCCCCE
Confidence 3678888875442 2223456778888888864
No 113
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=34.80 E-value=22 Score=38.14 Aligned_cols=25 Identities=44% Similarity=0.929 Sum_probs=20.6
Q ss_pred cccCCCCceecCceEEEecCCeEEecCCCCC
Q 001219 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (1121)
Q Consensus 457 vRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~ 487 (1121)
.||.||++-|=. .++..+|.-|+..
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 799999996633 6778999999965
No 114
>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=34.75 E-value=14 Score=31.42 Aligned_cols=34 Identities=18% Similarity=0.510 Sum_probs=23.8
Q ss_pred CcccCCCCceecCceEEEecCCeEEecCCCCCCCCC
Q 001219 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETP 491 (1121)
Q Consensus 456 pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~vP 491 (1121)
-+||.+|+=.+----.+.. -.-+|.=|++.|.+-
T Consensus 4 eiRC~~CnklLa~~g~~~~--leIKCpRC~tiN~~~ 37 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVIE--LEIKCPRCKTINHVR 37 (51)
T ss_pred ceeccchhHHHhhhcCccE--EEEECCCCCccceEe
Confidence 3899999876654322222 147999999999874
No 115
>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=34.71 E-value=20 Score=30.09 Aligned_cols=31 Identities=26% Similarity=0.529 Sum_probs=22.4
Q ss_pred cccCCCCceecCceEEEecCCeEEecCCCCCC
Q 001219 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (1121)
Q Consensus 457 vRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N 488 (1121)
-||.+|+....-+..+.+ .....|.-|+..+
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~ 36 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMSD-DPLATCPECGGEK 36 (52)
T ss_pred EEeCCCCCEeEEEEecCC-CCCCCCCCCCCCc
Confidence 489999987666655544 4467899999743
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=34.46 E-value=27 Score=27.64 Aligned_cols=28 Identities=21% Similarity=0.543 Sum_probs=20.1
Q ss_pred CcccCCCCceecCceEEEecCCeEEecCCCCCC
Q 001219 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (1121)
Q Consensus 456 pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N 488 (1121)
..+|..|+++ +...++ ..|.|.-||+.-
T Consensus 8 ~~~C~~C~~~---~~~~~d--G~~yC~~cG~~~ 35 (36)
T PF11781_consen 8 NEPCPVCGSR---WFYSDD--GFYYCDRCGHQS 35 (36)
T ss_pred CCcCCCCCCe---EeEccC--CEEEhhhCceEc
Confidence 3679999998 433333 379999999753
No 117
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=34.26 E-value=43 Score=27.18 Aligned_cols=27 Identities=22% Similarity=0.730 Sum_probs=20.1
Q ss_pred ccCCCCceecCceEEEecCCeEEecCCCCC
Q 001219 458 RCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (1121)
Q Consensus 458 RC~rCrAYiNPf~~f~~~g~~W~CnfC~~~ 487 (1121)
+|.+|++-- ..++.....++|.-||..
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 699999843 456666678999999975
No 118
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=33.86 E-value=16 Score=32.06 Aligned_cols=28 Identities=32% Similarity=0.901 Sum_probs=18.2
Q ss_pred cCCCCCCcccCCCCceecCceEEEecCCeEEecCCCCC
Q 001219 450 DFGDMGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (1121)
Q Consensus 450 d~g~~~pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~ 487 (1121)
+.|+..|.||.+||-.-| .|+|+-||+.
T Consensus 30 nCG~~~I~RC~~CRk~~~----------~Y~CP~CGF~ 57 (59)
T PRK14890 30 NCGEVIIYRCEKCRKQSN----------PYTCPKCGFE 57 (59)
T ss_pred CCCCeeEeechhHHhcCC----------ceECCCCCCc
Confidence 334445788888876444 4578888764
No 119
>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=33.43 E-value=25 Score=34.88 Aligned_cols=27 Identities=19% Similarity=0.498 Sum_probs=20.1
Q ss_pred CcccCCCCceecCceEEEecCCeEEecCCCCCC
Q 001219 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (1121)
Q Consensus 456 pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N 488 (1121)
-.||.+|+.+... ....|.|+-||..+
T Consensus 70 ~~~C~~Cg~~~~~------~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 70 ECECEDCSEEVSP------EIDLYRCPKCHGIM 96 (115)
T ss_pred EEEcccCCCEEec------CCcCccCcCCcCCC
Confidence 5899999965443 23368999999775
No 120
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.44 E-value=24 Score=35.71 Aligned_cols=33 Identities=21% Similarity=0.542 Sum_probs=22.6
Q ss_pred CCCcccCCCCceecCceEEEecCCeEEecCCCCCCCC
Q 001219 454 MGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDET 490 (1121)
Q Consensus 454 ~~pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~v 490 (1121)
..+--|.||++-+. ...+.-+|+||+|-..-++
T Consensus 87 Cq~r~CARCGGrv~----lrsNKv~wvcnlc~k~q~i 119 (169)
T KOG3799|consen 87 CQTRFCARCGGRVS----LRSNKVMWVCNLCRKQQEI 119 (169)
T ss_pred hhhhHHHhcCCeee----eccCceEEeccCCcHHHHH
Confidence 34566788888654 3345568999999876543
No 121
>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=32.20 E-value=27 Score=26.82 Aligned_cols=23 Identities=22% Similarity=0.657 Sum_probs=14.7
Q ss_pred ccCCCCceecCceEEEecCCeEEecCCCC
Q 001219 458 RCSRCKAYINPFMKFIDQGRRFICSLCGF 486 (1121)
Q Consensus 458 RC~rCrAYiNPf~~f~~~g~~W~CnfC~~ 486 (1121)
+|..|+=...+- ...|+|+.|+.
T Consensus 3 ~C~~CGy~y~~~------~~~~~CP~Cg~ 25 (33)
T cd00350 3 VCPVCGYIYDGE------EAPWVCPVCGA 25 (33)
T ss_pred ECCCCCCEECCC------cCCCcCcCCCC
Confidence 577777443432 14688888886
No 122
>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=30.60 E-value=22 Score=30.25 Aligned_cols=30 Identities=27% Similarity=0.697 Sum_probs=19.3
Q ss_pred ccCCCCceecCc-----------eEEEecCCeEEecCCCCC
Q 001219 458 RCSRCKAYINPF-----------MKFIDQGRRFICSLCGFT 487 (1121)
Q Consensus 458 RC~rCrAYiNPf-----------~~f~~~g~~W~CnfC~~~ 487 (1121)
+|..|+-..++- +.|.+--..|+|+.|+..
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 688888666653 234343446999999853
No 123
>KOG0445 consensus Actin regulatory protein supervillin (gelsolin/villin family) [Cytoskeleton]
Probab=30.52 E-value=61 Score=40.75 Aligned_cols=42 Identities=10% Similarity=0.286 Sum_probs=35.1
Q ss_pred ccccccccCCcEEEEEcCceEEEEecCCCCH-------HHHHHhhCCCC
Q 001219 997 PLSSEHVSDEGIYLLENGEDALIYIGSSVDS-------SILHQLFGISS 1038 (1121)
Q Consensus 997 ~LS~e~L~~dgiYLLD~G~~i~lwvG~~v~~-------~ll~~lFGv~s 1038 (1121)
.++.+-|++..+++.|-|..||||.|+.++. ++.+.+||.+.
T Consensus 362 ipk~~~l~p~eVLvFDFGSEvYVW~Gk~~~~~~~~~A~~lAk~l~~~dy 410 (919)
T KOG0445|consen 362 IPKCSLLQPKEVLVFDFGSEVYVWHGKEVTLAQRKIAFQLAKHLWNFDY 410 (919)
T ss_pred cccccccCcceEEEEecCceEEEEcCccCchHHHHHHHHHHHHHhCCCc
Confidence 3466778999999999999999999999765 57788888654
No 124
>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=30.11 E-value=70 Score=32.15 Aligned_cols=33 Identities=24% Similarity=0.330 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHhcCCC-CCCceEEEEEeCCEEE
Q 001219 552 TAAACSAISQVISDLPE-GPRTMVGIATFDSTIH 584 (1121)
Q Consensus 552 l~~v~~aI~~~L~~Lp~-~~rt~VGiITFDs~Vh 584 (1121)
.+.++++|+..+..-|. ..+++|-+++||+.|-
T Consensus 112 Ae~vkDAi~Dyi~T~P~PT~~~~Vt~~~Fd~~V~ 145 (146)
T PF02905_consen 112 AECVKDAIRDYIMTRPQPTCNTQVTVCSFDDGVM 145 (146)
T ss_dssp HHHHHHHHHHHHCTS-TTGGGEEEEEEEEEEEE-
T ss_pred HHHHHHHHHHHhcCCCCCCcceEEEEEeCCCCCc
Confidence 35789999998877654 2358999999998774
No 125
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=29.93 E-value=31 Score=34.20 Aligned_cols=28 Identities=18% Similarity=0.387 Sum_probs=19.4
Q ss_pred CCcccCCCCceecCceEEEecCC-eEEecCCCCCC
Q 001219 455 GPVRCSRCKAYINPFMKFIDQGR-RFICSLCGFTD 488 (1121)
Q Consensus 455 ~pvRC~rCrAYiNPf~~f~~~g~-~W~CnfC~~~N 488 (1121)
.-.||..|+.+. ..... .|.|+-||..+
T Consensus 69 ~~~~C~~Cg~~~------~~~~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 69 AECWCETCQQYV------TLLTQRVRRCPQCHGDM 97 (114)
T ss_pred cEEEcccCCCee------ecCCccCCcCcCcCCCC
Confidence 358999999643 22222 38899999765
No 126
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=28.99 E-value=63 Score=25.14 Aligned_cols=30 Identities=20% Similarity=0.435 Sum_probs=20.3
Q ss_pred CCcccCCCCceecCceEEEecCCeEEecCCCCCC
Q 001219 455 GPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (1121)
Q Consensus 455 ~pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N 488 (1121)
.+.+|..|++-+ .+.......+|.+|+...
T Consensus 2 ~~~~C~~C~~~~----i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 2 NLKKCSKCGGNG----IVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred CceEcCCCCCCe----EEEecCCeEEcccCCcEe
Confidence 367899999854 231333368999999754
No 127
>PF12257 DUF3608: Protein of unknown function (DUF3608); InterPro: IPR022046 This domain family is found in eukaryotes, and is approximately 280 amino acids in length. The family is found in association with PF00610 from PFAM.
Probab=28.59 E-value=5.9e+02 Score=29.38 Aligned_cols=63 Identities=13% Similarity=0.226 Sum_probs=41.6
Q ss_pred cchHHHHHHHHHHHHHh---------cCCeEEEEecCCCCcCcccccccccccCCCCCCCccccccccchhHHHHHHHHH
Q 001219 643 ESAFGAAVKAAFLALKS---------TGGKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAI 713 (1121)
Q Consensus 643 ~~~lG~AL~aA~~lL~~---------~GGkIivF~sg~Pt~GpG~L~~re~~~r~~~~~gt~~e~~ll~pa~~FYk~La~ 713 (1121)
+..+--||..|+..+.. +|-.|++-+.| .|-. .-..+.++...+
T Consensus 202 ~gNiLEaINlaln~~~~~~idRdl~rTG~~iivITpG-----~Gvf----------------------~Vd~~ll~~T~~ 254 (281)
T PF12257_consen 202 KGNILEAINLALNQFDKHYIDRDLRRTGQSIIVITPG-----TGVF----------------------EVDYDLLRLTTQ 254 (281)
T ss_pred cccHHHHHHHHhhhcccccccCcccccCceEEEEcCC-----CceE----------------------EECHHHHHHHHH
Confidence 34566777777777753 56666665443 3322 112344577788
Q ss_pred HHHhcCeEEEEEEecCCcc
Q 001219 714 EFAEYQVCVDVFITTQTYV 732 (1121)
Q Consensus 714 ~~~~~gIsVDlFl~s~~~~ 732 (1121)
++..+||++|+.+.+..-.
T Consensus 255 rl~~~gi~~DlIcL~~~PL 273 (281)
T PF12257_consen 255 RLLDNGIGIDLICLSKPPL 273 (281)
T ss_pred HHHhcCccEEEEEcCCCCc
Confidence 8999999999999876543
No 128
>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=27.38 E-value=30 Score=27.24 Aligned_cols=29 Identities=28% Similarity=0.541 Sum_probs=21.8
Q ss_pred cccCCCCceecCceEEEecCCeEEecCCCC
Q 001219 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGF 486 (1121)
Q Consensus 457 vRC~rCrAYiNPf~~f~~~g~~W~CnfC~~ 486 (1121)
.||..|+..+.-...+.+ +....|.-||.
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKISD-DPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecCC-CCCCCCCCCCC
Confidence 489999997766655544 56788999997
No 129
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=27.20 E-value=2e+02 Score=37.01 Aligned_cols=16 Identities=6% Similarity=-0.118 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHhcC
Q 001219 551 ATAAACSAISQVISDL 566 (1121)
Q Consensus 551 ~l~~v~~aI~~~L~~L 566 (1121)
.++.|.+-|+.....+
T Consensus 562 ~lr~VleiILA~gNym 577 (830)
T KOG1923|consen 562 KLRPVLEIILAFGNYM 577 (830)
T ss_pred HHHHHHHHHHHhhccC
Confidence 4555555555544443
No 130
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=26.55 E-value=35 Score=28.98 Aligned_cols=27 Identities=26% Similarity=0.732 Sum_probs=18.9
Q ss_pred cccCCCCceecCceEEEecCCeEEecCCCCC
Q 001219 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (1121)
Q Consensus 457 vRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~ 487 (1121)
=+|.+|++-+ ..+......+|.-||+.
T Consensus 7 Y~C~~Cg~~~----~~~~~~~~irCp~Cg~r 33 (49)
T COG1996 7 YKCARCGREV----ELDQETRGIRCPYCGSR 33 (49)
T ss_pred EEhhhcCCee----ehhhccCceeCCCCCcE
Confidence 4788888876 43445556788888865
No 131
>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=26.29 E-value=41 Score=29.81 Aligned_cols=28 Identities=36% Similarity=0.804 Sum_probs=22.5
Q ss_pred CcccCCCCceecCceEEEecCCeEEecCCCCC
Q 001219 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (1121)
Q Consensus 456 pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~ 487 (1121)
--.|..|+...-- ...++.|+|.-||..
T Consensus 28 Sq~C~~CG~~~~~----~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 28 SQTCPRCGHRNKK----RRSGRVFTCPNCGFE 55 (69)
T ss_pred ccCccCccccccc----ccccceEEcCCCCCE
Confidence 4679999987665 456789999999976
No 132
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=25.02 E-value=7e+02 Score=27.94 Aligned_cols=7 Identities=43% Similarity=0.729 Sum_probs=2.9
Q ss_pred CCCCCCC
Q 001219 70 PPMSRPG 76 (1121)
Q Consensus 70 ~~~~~~~ 76 (1121)
||+..+|
T Consensus 135 pp~~~~g 141 (341)
T KOG2893|consen 135 PPSMAYG 141 (341)
T ss_pred CcccccC
Confidence 3444443
No 133
>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=24.95 E-value=57 Score=24.66 Aligned_cols=30 Identities=30% Similarity=0.625 Sum_probs=18.6
Q ss_pred ccCCCCceecCc-eEEEecCCe-----EEecCCCCC
Q 001219 458 RCSRCKAYINPF-MKFIDQGRR-----FICSLCGFT 487 (1121)
Q Consensus 458 RC~rCrAYiNPf-~~f~~~g~~-----W~CnfC~~~ 487 (1121)
||.+|+-.|-.- ..+...++. |+|..|+..
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~ 36 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKP 36 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCCCCcccCCc
Confidence 688998888774 223333333 577777653
No 134
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=24.84 E-value=34 Score=39.67 Aligned_cols=36 Identities=19% Similarity=0.268 Sum_probs=24.8
Q ss_pred CcccCCCCceecCceEEEecCCeEEecCCCCCCCCC
Q 001219 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETP 491 (1121)
Q Consensus 456 pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~vP 491 (1121)
-.-|+.|+.-=+-+-.=...--.|+|.+|++.|.-.
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 477999988655443322233479999999999754
No 135
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=24.69 E-value=73 Score=32.57 Aligned_cols=32 Identities=31% Similarity=0.650 Sum_probs=26.8
Q ss_pred CcccCCCCceecCceEEEecCCeE--EecCCCCCCCC
Q 001219 456 PVRCSRCKAYINPFMKFIDQGRRF--ICSLCGFTDET 490 (1121)
Q Consensus 456 pvRC~rCrAYiNPf~~f~~~g~~W--~CnfC~~~N~v 490 (1121)
=|-|..|+. |=..++.+++.| +|+-||..-.|
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 489999995 888888888876 89999988765
No 136
>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=24.43 E-value=79 Score=26.06 Aligned_cols=27 Identities=19% Similarity=0.594 Sum_probs=19.3
Q ss_pred cccCCCCceecCceEEEecCCeEEecCCCC
Q 001219 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGF 486 (1121)
Q Consensus 457 vRC~rCrAYiNPf~~f~~~g~~W~CnfC~~ 486 (1121)
+.|.+|+.- ..| +......|+|.-|++
T Consensus 19 ~~CP~Cg~~-~~~--~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST-KHY--RLKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCe-eeE--EeCCCCeEECCCCCC
Confidence 669999987 322 333356899999985
No 137
>COG4548 NorD Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]
Probab=23.79 E-value=3.5e+02 Score=33.82 Aligned_cols=165 Identities=20% Similarity=0.195 Sum_probs=81.4
Q ss_pred CCcEEEEEEEcchhHHhhh-HHHHHHHHHHHHHhcCCCCCCceEEEEEeCCEEEEEecCCCCCCc--eEeecCCcccccc
Q 001219 532 MPAVFFFLIDVSMNALQTG-ATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQP--LMLIVPDVEDVYT 608 (1121)
Q Consensus 532 ~pp~yvFvIDvS~~av~sG-~l~~v~~aI~~~L~~Lp~~~rt~VGiITFDs~Vhfynl~~~~~~p--qmlVvsDldd~fv 608 (1121)
...+|.++||||.+....= =..-++..++++|..|... ..++.|...| |+..+. .++ ..-+|-|.|+.+-
T Consensus 445 ~Dla~TLLvD~S~St~a~mdetrRvidl~~eaL~~la~~----~qa~gd~~~~--~~fts~-rr~~vri~tvk~FDes~~ 517 (637)
T COG4548 445 HDLAFTLLVDVSASTDAKMDETRRVIDLFHEALLVLAHG----HQALGDSEDI--LDFTSR-RRPWVRINTVKDFDESMG 517 (637)
T ss_pred ccceeEEEeecccchHHHhhhhhhhHHHHHHHHHHhhch----hhhhCCHHHh--cCchhh-cCcceeeeeeeccccccc
Confidence 3468999999999864310 0123455566666655432 1111121111 111111 122 2334556665543
Q ss_pred CCcccceeehHHhHHHHHHHHhhcCccccCCCCCcchHHHHHHHHHHHHHhc---CCeEEEEecCCCCcCcccccccccc
Q 001219 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---GGKLLVFQSVLPSVGIGALSAREAE 685 (1121)
Q Consensus 609 Pl~~~lLv~l~e~~~~I~~lLd~Lp~~f~~~~~~~~~lG~AL~aA~~lL~~~---GGkIivF~sg~Pt~GpG~L~~re~~ 685 (1121)
..- .--|-.|. -.-.+-.|.||..|..-|-+. -==+|||+.|-||- +.. .+
T Consensus 518 ~~~--------------~~RImALe------Pg~ytR~G~AIR~As~kL~~rpq~qklLivlSDGkPnd----~d~--YE 571 (637)
T COG4548 518 ETV--------------GPRIMALE------PGYYTRDGAAIRHASAKLMERPQRQKLLIVLSDGKPND----FDH--YE 571 (637)
T ss_pred ccc--------------chhheecC------ccccccccHHHHHHHHHHhcCcccceEEEEecCCCccc----ccc--cc
Confidence 311 11111221 122345799999998877532 23478899988862 110 01
Q ss_pred cCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEE-EEEEecCCccCcccccccccccceEEEE
Q 001219 686 GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCV-DVFITTQTYVDIASISVIPKTTGGQVYY 750 (1121)
Q Consensus 686 ~r~~~~~gt~~e~~ll~pa~~FYk~La~~~~~~gIsV-DlFl~s~~~~dlatL~~La~~TGG~v~~ 750 (1121)
. .+|-. +-| +-..++.+.||.| +||+ . =..+..+..+||-..|.
T Consensus 572 g----r~gIe----------DTr-~AV~eaRk~Gi~VF~Vtl-d-----~ea~~y~p~~fgqngYa 616 (637)
T COG4548 572 G----RFGIE----------DTR-EAVIEARKSGIEVFNVTL-D-----REAISYLPALFGQNGYA 616 (637)
T ss_pred c----ccchh----------hHH-HHHHHHHhcCceEEEEEe-c-----chhhhhhHHHhccCceE
Confidence 1 11111 122 4456788899874 3433 2 23466677777766664
No 138
>KOG3355 consensus Mitochondrial sulfhydryl oxidase involved in the biogenesis of cytosolic Fe/S proteins [Posttranslational modification, protein turnover, chaperones]
Probab=23.46 E-value=59 Score=34.45 Aligned_cols=34 Identities=12% Similarity=0.343 Sum_probs=23.6
Q ss_pred HHHhhcccCC-CCCCCCCHHHHHHHHHHHHHhhhC
Q 001219 1088 VFFSYLVEDK-IPTGGQSYVEFLINIHRQIQLKMS 1121 (1121)
Q Consensus 1088 ~f~~~LVED~-~~~~~~SY~dFL~~lHk~I~~~l~ 1121 (1121)
.|...|-+-. -+.....+..|||++|.+|.+||+
T Consensus 119 dl~K~l~~nppq~~SRe~~~~W~C~vHN~VNekLg 153 (177)
T KOG3355|consen 119 DLRKILRKNPPQTSSREAFTQWLCHVHNKVNEKLG 153 (177)
T ss_pred HHHHHHHhCCCCcchHHHHHHHHHHHHHHHHHHcC
Confidence 4444443322 034567899999999999999985
No 139
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.05 E-value=33 Score=34.14 Aligned_cols=28 Identities=18% Similarity=0.654 Sum_probs=18.5
Q ss_pred CCcccCCCCceecCceEEEecCCeE-EecCCCCCC
Q 001219 455 GPVRCSRCKAYINPFMKFIDQGRRF-ICSLCGFTD 488 (1121)
Q Consensus 455 ~pvRC~rCrAYiNPf~~f~~~g~~W-~CnfC~~~N 488 (1121)
...||..|+.+... ....| +|+-||..+
T Consensus 70 ~~~~C~~Cg~~~~~------~~~~~~~CP~Cgs~~ 98 (117)
T PRK00564 70 VELECKDCSHVFKP------NALDYGVCEKCHSKN 98 (117)
T ss_pred CEEEhhhCCCcccc------CCccCCcCcCCCCCc
Confidence 36899999954322 22234 599999775
No 140
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=22.88 E-value=64 Score=28.20 Aligned_cols=26 Identities=31% Similarity=0.778 Sum_probs=21.2
Q ss_pred CCcccCCCCceecCceEEEecCCeEEecCCCCCCC
Q 001219 455 GPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDE 489 (1121)
Q Consensus 455 ~pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~ 489 (1121)
.++.|..|+.+.=++ ..|..||+.+.
T Consensus 26 ~l~~C~~CG~~~~~H---------~vC~~CG~Y~g 51 (57)
T PRK12286 26 GLVECPNCGEPKLPH---------RVCPSCGYYKG 51 (57)
T ss_pred cceECCCCCCccCCe---------EECCCCCcCCC
Confidence 478999999988774 78999997653
No 141
>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=22.64 E-value=79 Score=23.24 Aligned_cols=24 Identities=17% Similarity=0.606 Sum_probs=15.2
Q ss_pred cCCCCceecCceEEEecCCeEEecCCCC
Q 001219 459 CSRCKAYINPFMKFIDQGRRFICSLCGF 486 (1121)
Q Consensus 459 C~rCrAYiNPf~~f~~~g~~W~CnfC~~ 486 (1121)
|.+||..+. +-.+-..++|..|++
T Consensus 1 C~~Cr~~L~----yp~GA~sVrCa~C~~ 24 (25)
T PF06943_consen 1 CGGCRTLLM----YPRGAPSVRCACCHT 24 (25)
T ss_pred CCCCCceEE----cCCCCCCeECCccCc
Confidence 667777653 223556788888864
No 142
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=22.29 E-value=26 Score=27.45 Aligned_cols=30 Identities=27% Similarity=0.679 Sum_probs=14.7
Q ss_pred ccCCCCceecCceEEEecCCeEEecCCCCC
Q 001219 458 RCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (1121)
Q Consensus 458 RC~rCrAYiNPf~~f~~~g~~W~CnfC~~~ 487 (1121)
-|..|++=+.--.--.++..+|+|.-|+..
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 388888866433222245568999999864
No 143
>COG3285 Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]
Probab=21.78 E-value=4.2e+02 Score=30.70 Aligned_cols=19 Identities=11% Similarity=0.406 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHhcCCeEEE
Q 001219 648 AAVKAAFLALKSTGGKLLV 666 (1121)
Q Consensus 648 ~AL~aA~~lL~~~GGkIiv 666 (1121)
+.+..+....++.+|||++
T Consensus 202 Pd~~tt~~~K~~R~grIFl 220 (299)
T COG3285 202 PDLFTTTMGKENRGGRIFL 220 (299)
T ss_pred hHHHHHHhhHhhcCCcEEE
Confidence 3455555566678899876
No 144
>smart00401 ZnF_GATA zinc finger binding to DNA consensus sequence [AT]GATA[AG].
Probab=21.54 E-value=54 Score=27.94 Aligned_cols=32 Identities=25% Similarity=0.623 Sum_probs=25.7
Q ss_pred CcccCCCCceecCceEEEecCCeEEecCCCCC
Q 001219 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (1121)
Q Consensus 456 pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~ 487 (1121)
+.+|.+|++--.+..+-...|....||-|+..
T Consensus 3 ~~~C~~C~~~~T~~WR~g~~g~~~LCnaCgl~ 34 (52)
T smart00401 3 GRSCSNCGTTETPLWRRGPSGNKTLCNACGLY 34 (52)
T ss_pred CCCcCCCCCCCCCccccCCCCCCcEeecccHH
Confidence 57899999988887666666777999999953
No 145
>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=21.03 E-value=82 Score=22.96 Aligned_cols=24 Identities=42% Similarity=0.957 Sum_probs=17.6
Q ss_pred cCCCCceecCceEEEecCCeEEecCCCC
Q 001219 459 CSRCKAYINPFMKFIDQGRRFICSLCGF 486 (1121)
Q Consensus 459 C~rCrAYiNPf~~f~~~g~~W~CnfC~~ 486 (1121)
|.+|+.-|-|. +.+..|.|+-||.
T Consensus 1 C~sC~~~i~~r----~~~v~f~CPnCG~ 24 (24)
T PF07754_consen 1 CTSCGRPIAPR----EQAVPFPCPNCGF 24 (24)
T ss_pred CccCCCcccCc----ccCceEeCCCCCC
Confidence 77888877764 2356799999984
No 146
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=20.45 E-value=49 Score=23.60 Aligned_cols=21 Identities=43% Similarity=0.865 Sum_probs=12.5
Q ss_pred ccCCCCceecCceEEEecCCeEEecCCCC
Q 001219 458 RCSRCKAYINPFMKFIDQGRRFICSLCGF 486 (1121)
Q Consensus 458 RC~rCrAYiNPf~~f~~~g~~W~CnfC~~ 486 (1121)
+|.+|++-|..-.+| |.-||+
T Consensus 1 ~Cp~CG~~~~~~~~f--------C~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKF--------CPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcc--------hhhhCC
Confidence 477777765543322 777765
No 147
>PF12773 DZR: Double zinc ribbon
Probab=20.37 E-value=56 Score=27.03 Aligned_cols=32 Identities=19% Similarity=0.450 Sum_probs=24.9
Q ss_pred CCcccCCCCceecCceEEEecCCeEEecCCCCCCCCC
Q 001219 455 GPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETP 491 (1121)
Q Consensus 455 ~pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~vP 491 (1121)
+-..|.+|++-+. ......++|.-|++.|+..
T Consensus 11 ~~~fC~~CG~~l~-----~~~~~~~~C~~Cg~~~~~~ 42 (50)
T PF12773_consen 11 DAKFCPHCGTPLP-----PPDQSKKICPNCGAENPPN 42 (50)
T ss_pred cccCChhhcCChh-----hccCCCCCCcCCcCCCcCC
Confidence 4688999999887 4455679999999987654
No 148
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=20.36 E-value=56 Score=39.94 Aligned_cols=29 Identities=17% Similarity=0.304 Sum_probs=21.9
Q ss_pred CcccCCCCceecCceEEEecCCeEEecCCCCCCCCCc
Q 001219 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPR 492 (1121)
Q Consensus 456 pvRC~rCrAYiNPf~~f~~~g~~W~CnfC~~~N~vP~ 492 (1121)
.-+|++|+.-- ..-.|+|+-|+..|.+-.
T Consensus 7 ~y~C~~Cg~~~--------~~~~g~Cp~C~~w~t~~~ 35 (454)
T TIGR00416 7 KFVCQHCGADS--------PKWQGKCPACHAWNTITE 35 (454)
T ss_pred eEECCcCCCCC--------ccccEECcCCCCccccch
Confidence 46888888633 333699999999998864
No 149
>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=20.30 E-value=31 Score=28.97 Aligned_cols=30 Identities=27% Similarity=0.702 Sum_probs=14.4
Q ss_pred ccCCCCceecCce-----------EEEecCCeEEecCCCCC
Q 001219 458 RCSRCKAYINPFM-----------KFIDQGRRFICSLCGFT 487 (1121)
Q Consensus 458 RC~rCrAYiNPf~-----------~f~~~g~~W~CnfC~~~ 487 (1121)
+|..|+-..++-. .|.+--..|+|+.|+..
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 5777775444432 23332335888888754
No 150
>PF05280 FlhC: Flagellar transcriptional activator (FlhC); InterPro: IPR007944 This family consists of several bacterial flagellar transcriptional activator (FlhC) proteins. FlhC combines with FlhD to form a regulatory complex in Escherichia coli, this complex has been shown to be a global regulator involved in many cellular processes as well as a flagellar transcriptional activator [].; GO: 0003677 DNA binding, 0030092 regulation of flagellum assembly, 0045893 positive regulation of transcription, DNA-dependent; PDB: 2AVU_E.
Probab=20.29 E-value=30 Score=36.94 Aligned_cols=31 Identities=23% Similarity=0.649 Sum_probs=12.1
Q ss_pred CCCCcccCCCCc-eecCceEEEecCCeEEecCCCC
Q 001219 453 DMGPVRCSRCKA-YINPFMKFIDQGRRFICSLCGF 486 (1121)
Q Consensus 453 ~~~pvRC~rCrA-YiNPf~~f~~~g~~W~CnfC~~ 486 (1121)
.....+|.+|++ ||... .+....++|.||+-
T Consensus 131 ~l~l~~C~~C~~~fv~~~---~~~~~~~~Cp~C~~ 162 (175)
T PF05280_consen 131 MLQLAPCRRCGGHFVTHA---HDPRHSFVCPFCQP 162 (175)
T ss_dssp SEEEEE-TTT--EEEEES---S--SS----TT---
T ss_pred CccccCCCCCCCCeECcC---CCCCcCcCCCCCCC
Confidence 445789999997 44321 12256799999993
No 151
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=20.13 E-value=72 Score=26.43 Aligned_cols=22 Identities=23% Similarity=0.659 Sum_probs=15.7
Q ss_pred cccCCCCceecCceEEEecCCeEEecCCC
Q 001219 457 VRCSRCKAYINPFMKFIDQGRRFICSLCG 485 (1121)
Q Consensus 457 vRC~rCrAYiNPf~~f~~~g~~W~CnfC~ 485 (1121)
+.|..|+- .|. .|.+|+|..|.
T Consensus 1 I~CDgCg~--~PI-----~G~RykC~~C~ 22 (43)
T cd02342 1 IQCDGCGV--LPI-----TGPRYKSKVKE 22 (43)
T ss_pred CCCCCCCC--Ccc-----cccceEeCCCC
Confidence 46788874 444 37789999885
Done!