Query 002239
Match_columns 948
No_of_seqs 268 out of 771
Neff 5.6
Searched_HMMs 46136
Date Thu Mar 28 19:38:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002239.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002239hhsearch_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 1E-162 2E-167 1400.6 76.0 588 355-946 236-829 (1007)
2 KOG1985 Vesicle coat complex C 100.0 6E-134 1E-138 1161.8 58.5 538 399-945 164-704 (887)
3 COG5028 Vesicle coat complex C 100.0 3E-123 6E-128 1065.7 48.2 544 387-946 133-680 (861)
4 PTZ00395 Sec24-related protein 100.0 5E-122 1E-126 1101.3 60.3 571 356-945 599-1375(1560)
5 PLN00162 transport protein sec 100.0 5E-106 1E-110 974.8 52.8 511 404-945 8-590 (761)
6 KOG1986 Vesicle coat complex C 100.0 1.5E-77 3.2E-82 685.2 43.3 510 403-943 7-571 (745)
7 COG5047 SEC23 Vesicle coat com 100.0 3.8E-70 8.2E-75 610.0 33.7 514 403-943 7-582 (755)
8 cd01479 Sec24-like Sec24-like: 100.0 1.9E-54 4E-59 463.3 25.6 241 531-775 1-244 (244)
9 cd01468 trunk_domain trunk dom 100.0 1.5E-50 3.2E-55 431.6 25.8 235 531-769 1-239 (239)
10 PF04811 Sec23_trunk: Sec23/Se 100.0 2.7E-50 5.9E-55 430.1 20.7 237 531-771 1-243 (243)
11 cd01478 Sec23-like Sec23-like: 100.0 1.9E-45 4.1E-50 398.2 19.8 226 531-762 1-264 (267)
12 PF08033 Sec23_BS: Sec23/Sec24 99.8 4.4E-21 9.6E-26 177.8 9.0 85 776-860 1-96 (96)
13 PF04815 Sec23_helical: Sec23/ 99.7 1.8E-16 4E-21 148.9 9.0 74 872-945 1-74 (103)
14 PF04810 zf-Sec23_Sec24: Sec23 99.5 3.4E-15 7.3E-20 117.2 2.3 40 455-494 1-40 (40)
15 PRK13685 hypothetical protein; 98.8 8.9E-08 1.9E-12 107.6 16.6 173 533-769 88-288 (326)
16 cd01453 vWA_transcription_fact 98.8 1.4E-07 3.1E-12 97.5 16.4 164 535-770 5-178 (183)
17 cd01463 vWA_VGCC_like VWA Volt 98.7 3.7E-07 7.9E-12 94.4 16.3 164 531-753 11-188 (190)
18 cd01467 vWA_BatA_type VWA BatA 98.7 3.8E-07 8.1E-12 92.6 14.6 155 535-753 4-176 (180)
19 cd01451 vWA_Magnesium_chelatas 98.7 6.1E-07 1.3E-11 91.9 16.1 159 535-755 2-168 (178)
20 cd01465 vWA_subgroup VWA subgr 98.7 5.6E-07 1.2E-11 90.1 15.4 156 535-753 2-162 (170)
21 cd01456 vWA_ywmD_type VWA ywmD 98.6 4.4E-07 9.5E-12 95.0 14.3 174 529-748 16-196 (206)
22 cd01466 vWA_C3HC4_type VWA C3H 98.6 5.2E-07 1.1E-11 90.4 14.1 147 536-751 3-154 (155)
23 PF13519 VWA_2: von Willebrand 98.5 1.2E-06 2.6E-11 86.7 13.7 151 536-752 2-159 (172)
24 TIGR03788 marine_srt_targ mari 98.5 1.7E-05 3.8E-10 96.1 25.8 286 530-914 268-558 (596)
25 TIGR00868 hCaCC calcium-activa 98.5 6E-06 1.3E-10 102.4 21.9 168 533-771 304-477 (863)
26 cd01474 vWA_ATR ATR (Anthrax T 98.4 5.9E-06 1.3E-10 85.1 16.5 168 534-771 5-181 (185)
27 cd01472 vWA_collagen von Wille 98.4 8E-06 1.7E-10 82.1 15.5 151 536-753 3-163 (164)
28 TIGR03436 acidobact_VWFA VWFA- 98.4 2.1E-05 4.6E-10 86.9 19.9 158 532-751 52-238 (296)
29 cd01461 vWA_interalpha_trypsin 98.4 1.7E-05 3.6E-10 79.4 17.4 157 533-753 2-161 (171)
30 cd01470 vWA_complement_factors 98.3 1E-05 2.2E-10 84.2 14.4 167 536-754 3-190 (198)
31 cd01452 VWA_26S_proteasome_sub 98.2 2.8E-05 6E-10 81.2 15.4 133 535-734 5-151 (187)
32 PF13768 VWA_3: von Willebrand 98.2 1.8E-05 4E-10 78.6 13.4 150 536-750 3-155 (155)
33 cd01480 vWA_collagen_alpha_1-V 98.2 3.5E-05 7.5E-10 79.6 14.5 157 535-755 4-173 (186)
34 cd01450 vWFA_subfamily_ECM Von 98.1 5.3E-05 1.1E-09 74.4 14.1 144 536-744 3-155 (161)
35 PTZ00441 sporozoite surface pr 98.1 9.8E-05 2.1E-09 87.8 18.4 164 533-755 42-217 (576)
36 cd01475 vWA_Matrilin VWA_Matri 98.1 9.3E-05 2E-09 78.8 15.9 169 534-772 3-184 (224)
37 TIGR02031 BchD-ChlD magnesium 98.0 8E-05 1.7E-09 90.3 16.7 174 532-755 406-584 (589)
38 cd01471 vWA_micronemal_protein 98.0 0.00016 3.5E-09 74.2 16.0 149 536-743 3-160 (186)
39 cd01469 vWA_integrins_alpha_su 98.0 0.00016 3.4E-09 74.2 15.3 156 536-755 3-172 (177)
40 cd01482 vWA_collagen_alphaI-XI 98.0 0.00017 3.7E-09 72.8 14.7 150 536-752 3-162 (164)
41 PRK13406 bchD magnesium chelat 98.0 0.00014 3E-09 88.0 16.3 174 532-767 400-579 (584)
42 PF00092 VWA: von Willebrand f 97.9 0.0001 2.2E-09 73.8 12.5 155 536-755 2-169 (178)
43 cd00198 vWFA Von Willebrand fa 97.9 0.00021 4.5E-09 68.8 14.2 148 535-744 2-155 (161)
44 TIGR02442 Cob-chelat-sub cobal 97.9 8E-05 1.7E-09 91.0 13.9 159 533-751 465-632 (633)
45 cd01477 vWA_F09G8-8_type VWA F 97.9 0.00021 4.5E-09 75.0 14.4 150 534-745 20-186 (193)
46 cd01473 vWA_CTRP CTRP for CS 97.9 0.00048 1E-08 72.0 17.1 150 536-743 3-161 (192)
47 smart00327 VWA von Willebrand 97.9 0.00046 1E-08 68.5 15.6 153 535-750 3-164 (177)
48 COG1240 ChlD Mg-chelatase subu 97.8 0.00019 4E-09 77.6 13.0 166 532-756 77-249 (261)
49 cd01481 vWA_collagen_alpha3-VI 97.8 0.00063 1.4E-08 69.4 14.8 151 536-754 3-165 (165)
50 cd01476 VWA_integrin_invertebr 97.6 0.0015 3.3E-08 65.3 15.4 103 536-673 3-116 (163)
51 cd01464 vWA_subfamily VWA subf 97.5 0.00055 1.2E-08 69.9 10.4 138 536-742 6-159 (176)
52 cd01458 vWA_ku Ku70/Ku80 N-ter 97.4 0.0034 7.4E-08 66.6 15.4 154 535-730 3-173 (218)
53 cd01454 vWA_norD_type norD typ 97.4 0.005 1.1E-07 62.7 15.1 147 535-731 2-154 (174)
54 PF04056 Ssl1: Ssl1-like; Int 97.3 0.0039 8.4E-08 65.6 13.2 165 539-772 1-174 (193)
55 COG4245 TerY Uncharacterized p 97.1 0.0083 1.8E-07 62.2 12.8 98 537-673 7-120 (207)
56 PHA03247 large tegument protei 96.9 2.2 4.8E-05 58.6 35.5 13 552-564 3114-3126(3151)
57 cd01462 VWA_YIEM_type VWA YIEM 96.9 0.026 5.6E-07 55.9 14.4 100 536-671 3-105 (152)
58 KOG2884 26S proteasome regulat 96.8 0.015 3.2E-07 61.4 12.6 155 535-753 5-175 (259)
59 PHA03247 large tegument protei 96.6 5.7 0.00012 55.0 41.1 15 552-566 3111-3125(3151)
60 KOG1924 RhoA GTPase effector D 96.3 0.015 3.3E-07 70.3 9.4 12 419-430 698-709 (1102)
61 TIGR00578 ku70 ATP-dependent D 96.2 0.093 2E-06 64.1 15.7 156 534-728 11-182 (584)
62 cd01457 vWA_ORF176_type VWA OR 95.8 0.088 1.9E-06 55.0 11.6 102 535-673 4-120 (199)
63 cd01460 vWA_midasin VWA_Midasi 95.8 0.22 4.8E-06 55.1 15.1 132 532-729 59-204 (266)
64 COG5148 RPN10 26S proteasome r 95.1 0.36 7.9E-06 50.2 12.7 133 534-729 4-146 (243)
65 PF03731 Ku_N: Ku70/Ku80 N-ter 94.7 0.3 6.6E-06 51.8 11.7 154 535-727 1-172 (224)
66 cd01455 vWA_F11C1-5a_type Von 94.4 1.2 2.7E-05 47.0 15.0 96 622-753 74-174 (191)
67 PF03850 Tfb4: Transcription f 94.0 1.9 4.1E-05 48.1 16.2 81 644-753 116-207 (276)
68 KOG1924 RhoA GTPase effector D 93.9 0.32 7E-06 59.4 10.7 12 704-715 941-952 (1102)
69 TIGR00627 tfb4 transcription f 93.6 2.5 5.4E-05 47.2 16.4 95 642-771 117-221 (279)
70 KOG2807 RNA polymerase II tran 93.5 0.65 1.4E-05 52.0 11.4 148 533-746 60-217 (378)
71 PF00362 Integrin_beta: Integr 93.0 8.1 0.00018 45.7 20.3 268 533-824 102-392 (426)
72 COG2425 Uncharacterized protei 92.9 0.81 1.7E-05 53.8 11.6 144 536-752 275-424 (437)
73 PRK10997 yieM hypothetical pro 92.4 1.8 3.9E-05 51.8 13.7 102 533-671 323-427 (487)
74 KOG1984 Vesicle coat complex C 91.6 21 0.00045 45.2 21.6 57 1-62 1-57 (1007)
75 smart00187 INB Integrin beta s 89.9 49 0.0011 39.2 23.4 271 533-824 99-389 (423)
76 KOG3768 DEAD box RNA helicase 89.5 2.4 5.3E-05 50.8 10.9 32 534-565 2-38 (888)
77 KOG2487 RNA polymerase II tran 87.1 8.6 0.00019 42.5 12.4 55 708-771 185-239 (314)
78 COG4867 Uncharacterized protei 86.3 3 6.5E-05 48.4 8.8 161 533-752 463-634 (652)
79 KOG2353 L-type voltage-depende 85.7 12 0.00026 49.1 14.8 112 519-659 211-322 (1104)
80 PF06707 DUF1194: Protein of u 85.3 22 0.00047 38.2 14.3 114 623-775 78-202 (205)
81 PF11265 Med25_VWA: Mediator c 75.8 32 0.0007 37.4 11.8 102 623-750 90-204 (226)
82 PF05762 VWA_CoxE: VWA domain 72.5 16 0.00036 39.1 8.7 30 641-670 127-159 (222)
83 PF09967 DUF2201: VWA-like dom 70.1 8.6 0.00019 37.8 5.4 44 537-585 2-45 (126)
84 TIGR01053 LSD1 zinc finger dom 70.1 3.6 7.8E-05 31.1 2.1 30 457-490 2-31 (31)
85 COG5242 TFB4 RNA polymerase II 69.1 60 0.0013 35.3 11.5 177 532-753 19-214 (296)
86 PF10058 DUF2296: Predicted in 66.3 3.8 8.2E-05 34.8 1.8 33 456-488 22-54 (54)
87 PF12257 DUF3608: Protein of u 65.8 43 0.00094 37.6 10.3 64 643-733 202-274 (281)
88 COG2888 Predicted Zn-ribbon RN 63.4 2.8 6E-05 36.2 0.4 28 450-487 32-59 (61)
89 PRK00398 rpoP DNA-directed RNA 57.9 7 0.00015 31.7 1.8 30 456-489 3-32 (46)
90 PF09082 DUF1922: Domain of un 55.8 4.4 9.4E-05 36.0 0.4 30 456-491 3-32 (68)
91 COG4548 NorD Nitric oxide redu 55.8 40 0.00087 40.8 8.2 82 644-751 533-617 (637)
92 PRK12860 transcriptional activ 53.2 6.8 0.00015 41.4 1.4 31 452-485 130-161 (189)
93 PRK14890 putative Zn-ribbon RN 51.6 6.1 0.00013 34.1 0.6 26 452-487 32-57 (59)
94 PRK03954 ribonuclease P protei 50.6 8.6 0.00019 37.9 1.5 35 457-491 65-106 (121)
95 PF10138 vWA-TerF-like: vWA fo 49.9 1.5E+02 0.0033 31.8 10.8 145 535-743 3-155 (200)
96 PF02318 FYVE_2: FYVE-type zin 49.5 9.6 0.00021 37.1 1.7 33 457-489 72-105 (118)
97 PRK12722 transcriptional activ 49.2 7.9 0.00017 40.9 1.1 31 453-486 131-162 (187)
98 smart00661 RPOL9 RNA polymeras 47.1 13 0.00027 30.5 1.8 32 458-491 2-33 (52)
99 KOG4849 mRNA cleavage factor I 46.9 3.2E+02 0.0069 31.7 12.9 12 358-369 313-324 (498)
100 COG1198 PriA Primosomal protei 45.9 48 0.001 42.0 7.2 33 456-492 444-476 (730)
101 COG5151 SSL1 RNA polymerase II 45.0 1.7E+02 0.0037 33.3 10.4 61 711-779 212-274 (421)
102 PF13719 zinc_ribbon_5: zinc-r 43.8 13 0.00029 28.9 1.3 33 456-488 2-35 (37)
103 PRK08455 fliL flagellar basal 42.1 45 0.00098 35.1 5.4 71 837-908 92-167 (182)
104 PF09723 Zn-ribbon_8: Zinc rib 41.4 13 0.00029 29.6 1.0 29 457-486 6-34 (42)
105 PF09779 Ima1_N: Ima1 N-termin 40.3 19 0.00042 35.8 2.2 33 457-491 1-33 (131)
106 PRK12380 hydrogenase nickel in 39.3 16 0.00036 35.4 1.5 28 455-488 69-96 (113)
107 PF13717 zinc_ribbon_4: zinc-r 39.1 17 0.00037 28.2 1.2 32 456-487 2-34 (36)
108 TIGR02605 CxxC_CxxC_SSSS putat 36.7 16 0.00036 30.0 0.9 31 457-488 6-36 (52)
109 cd00730 rubredoxin Rubredoxin; 36.5 16 0.00035 30.5 0.8 29 458-486 3-42 (50)
110 TIGR00100 hypA hydrogenase nic 35.4 21 0.00046 34.7 1.6 27 456-488 70-96 (115)
111 COG1096 Predicted RNA-binding 34.3 22 0.00048 37.5 1.6 26 456-487 149-174 (188)
112 PF02905 EBV-NA1: Epstein Barr 34.3 52 0.0011 32.6 4.0 32 553-584 113-145 (146)
113 PF10122 Mu-like_Com: Mu-like 33.8 15 0.00032 31.0 0.2 34 456-491 4-37 (51)
114 PHA03378 EBNA-3B; Provisional 33.6 1.1E+03 0.024 30.0 15.4 8 21-28 689-696 (991)
115 KOG1074 Transcriptional repres 32.8 19 0.00042 45.3 1.0 41 452-492 349-395 (958)
116 cd01121 Sms Sms (bacterial rad 32.7 23 0.0005 41.3 1.6 27 458-492 2-28 (372)
117 PF10221 DUF2151: Cell cycle a 32.7 2.9E+02 0.0063 35.0 10.9 35 552-588 50-84 (695)
118 PF08271 TF_Zn_Ribbon: TFIIB z 32.6 46 0.001 26.5 2.8 27 458-487 2-28 (43)
119 cd00350 rubredoxin_like Rubred 32.4 26 0.00056 26.6 1.3 23 458-486 3-25 (33)
120 PRK03681 hypA hydrogenase nick 32.0 25 0.00055 34.1 1.5 28 456-488 70-97 (114)
121 KOG3572 Uncharacterized conser 30.1 3.6E+02 0.0077 36.4 11.1 38 712-760 479-516 (1701)
122 COG1438 ArgR Arginine represso 29.8 75 0.0016 32.6 4.4 112 709-825 24-137 (150)
123 smart00834 CxxC_CXXC_SSSS Puta 29.5 25 0.00055 27.2 0.9 29 457-486 6-34 (41)
124 PF00301 Rubredoxin: Rubredoxi 29.0 25 0.00055 29.1 0.8 30 458-487 3-43 (47)
125 KOG3799 Rab3 effector RIM1 and 28.9 26 0.00057 35.0 1.0 31 456-490 89-119 (169)
126 COG1580 FliL Flagellar basal b 28.4 1.3E+02 0.0029 31.1 6.1 36 873-908 107-143 (159)
127 KOG1226 Integrin beta subunit 28.4 1.4E+03 0.03 29.5 17.7 301 533-856 132-454 (783)
128 PF11781 RRN7: RNA polymerase 28.3 38 0.00083 26.4 1.6 28 456-488 8-35 (36)
129 COG1996 RPC10 DNA-directed RNA 27.3 31 0.00067 28.9 1.0 27 457-487 7-33 (49)
130 KOG4385 Predicted forkhead tra 27.3 64 0.0014 38.5 3.9 62 855-918 347-413 (581)
131 PF08792 A2L_zn_ribbon: A2L zi 27.3 64 0.0014 24.8 2.6 29 456-488 3-31 (33)
132 PF14803 Nudix_N_2: Nudix N-te 27.0 31 0.00067 26.7 0.9 29 459-487 3-31 (34)
133 TIGR00311 aIF-2beta translatio 25.9 63 0.0014 32.5 3.1 32 456-490 97-130 (133)
134 smart00401 ZnF_GATA zinc finge 25.6 44 0.00095 28.0 1.7 32 456-487 3-34 (52)
135 PRK00564 hypA hydrogenase nick 25.6 28 0.0006 34.0 0.6 28 455-488 70-98 (117)
136 PF07754 DUF1610: Domain of un 25.4 54 0.0012 23.6 1.8 24 459-486 1-24 (24)
137 PF07282 OrfB_Zn_ribbon: Putat 25.3 47 0.001 28.8 1.9 29 456-488 28-56 (69)
138 PF12760 Zn_Tnp_IS1595: Transp 25.1 68 0.0015 26.0 2.6 27 457-486 19-45 (46)
139 KOG2846 Predicted membrane pro 24.6 36 0.00077 38.9 1.2 36 456-491 220-255 (328)
140 smart00132 LIM Zinc-binding do 24.6 51 0.0011 24.4 1.8 29 458-486 1-35 (39)
141 PF06943 zf-LSD1: LSD1 zinc fi 23.7 67 0.0014 23.3 2.0 24 459-486 1-24 (25)
142 PF05280 FlhC: Flagellar trans 22.9 25 0.00055 36.8 -0.3 32 452-486 130-162 (175)
143 COG5415 Predicted integral mem 22.7 48 0.001 35.6 1.7 39 455-493 191-229 (251)
144 PF10963 DUF2765: Protein of u 22.5 1.2E+02 0.0026 28.2 4.0 39 613-664 37-77 (83)
145 COG5002 VicK Signal transducti 22.1 4.5E+02 0.0097 31.0 9.1 91 550-666 342-432 (459)
146 PRK05696 fliL flagellar basal 22.0 1.8E+02 0.0038 30.2 5.7 38 873-910 115-153 (170)
147 PF08766 DEK_C: DEK C terminal 21.9 1.6E+02 0.0035 24.6 4.4 45 863-907 9-53 (54)
148 PF12773 DZR: Double zinc ribb 21.7 50 0.0011 26.8 1.3 32 455-491 11-42 (50)
149 PF13240 zinc_ribbon_2: zinc-r 21.3 47 0.001 23.4 0.8 21 458-486 1-21 (23)
150 PRK00432 30S ribosomal protein 21.2 54 0.0012 27.4 1.3 26 457-487 21-46 (50)
151 TIGR02098 MJ0042_CXXC MJ0042 f 20.4 60 0.0013 25.0 1.4 31 457-487 3-34 (38)
152 PF00641 zf-RanBP: Zn-finger i 20.3 38 0.00082 24.9 0.2 15 477-491 3-17 (30)
153 PRK07021 fliL flagellar basal 20.2 1.8E+02 0.004 29.8 5.3 36 873-908 107-143 (162)
No 1
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.1e-162 Score=1400.60 Aligned_cols=588 Identities=55% Similarity=0.939 Sum_probs=569.6
Q ss_pred CCCCCCCCCCCCCCCcCCCcceeccCC-CCCCCCCCCCCCceeecCCCCCCCCceeeeccccCCChhhhhhcCCccEEEE
Q 002239 355 PASSKIDPQQIPRPVPSSTVVLYDTRE-GNQANPPPPATSEYIVRDMGNCSPRYMRCTISQIPCTNDLLTTSGMQLALLV 433 (948)
Q Consensus 355 ~~~~~idp~~iP~P~~~~~~~~~~t~~-~~~~~~PP~~tt~~~~~D~gN~sP~fiR~T~n~iP~t~~ll~~~~LPLgivV 433 (948)
..++|||+++||+++++.+.+.+.++. .....+||++||+|++.|+|||||||||||+|+||+|.|+++.++||||+||
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 356899999999999886555555554 3344689999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCCCCceecccCCCCCccCCCCCceeccCceEecCCCeEEEccCCCCCCCCcccccCCCCCCCCCCCCCCCCc
Q 002239 434 QPLALPHPSEEPIQIVDFGDMGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRDYHCNLGPDGRRRDADDRPEL 513 (948)
Q Consensus 434 qPfa~~~~~e~pVPvvd~g~~~pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL 513 (948)
+||+.+++.|+++++||+++.+++||+||||||||||+|+++||+|+||||+.+|+++++||++|+++|||+|+++||||
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 002239 514 CRGTVEFVATKEYMVR--DPMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLP-EGPRTMVGIATFDSTIHFYNLKR 590 (948)
Q Consensus 514 ~~gtVEfvap~eY~~R--~p~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP-~~~rtrVGiITFds~VhfynL~~ 590 (948)
++|+|||+|+++||++ ++++++|||+||||++++++|++.++|++|+++|+.|+ ++++++|||||||++|||||+++
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 79999999999999999999999999999999999999 67899999999999999999999
Q ss_pred CCCCceEeeccCccccccCccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc-CCEEEEEec
Q 002239 591 ALQQPLMLIVPDVEDVYTPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-GGKLLVFQS 669 (948)
Q Consensus 591 ~l~qpqmlVvsDldd~FvPl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~-GGkIivF~s 669 (948)
+++|++|+||+|++|+|+|+.++|||+..||+..|+.|||+|+.||.+.+.+++|+|+||++|.++||.. ||||+||++
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-cccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceE
Q 002239 670 VLPSVGIG-ALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQV 748 (948)
Q Consensus 670 g~Pt~GpG-~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v 748 (948)
.+||+|.| +|+.|+|.. +++++||++|+.+++++|++||++|++.|||||||++...|+|+|+|+.+++.|||++
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 99999976 898888766 8899999999999999999999999999999999999999999999999999999999
Q ss_pred EEeCCCCCCchhhHHHHHHHHhccCCccccceeEEEeCCCceEeeeecccccCCCCceeecCCCCCceEEEEEEecCCCC
Q 002239 749 YYYYPFSALSDPAKLYNDLRWNITRPQGFEAVMRVRCSQGIQVQEYHGNFCKRIPTDIDLPAIDCNKAIMVTLKHDDKLQ 828 (948)
Q Consensus 749 ~~y~~F~~~~d~~kL~~dL~r~ltr~~g~da~mrVR~S~GL~V~~~~Gnf~~rst~~~~lp~id~dtSia~el~~d~~L~ 828 (948)
|+|.+|+++.|..+|.+||+|++++++||+|+||||||+||++.+|||||++++++|++|+.+|+||+++++|+|||+|+
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 CCCceeEEEEEEEEecCCcEEEEEEcCcccccCCHhHHHhhCCHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHH
Q 002239 829 DGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSNLSNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALV 908 (948)
Q Consensus 829 ~~~~~yIQ~AlLYT~~~GeRRIRV~Tl~lpVts~l~~vf~saD~eAi~~llaK~a~~~~~~~~l~daR~~L~~~lv~iL~ 908 (948)
++..++||+|||||+.+|||||||||++++|++++.|+||++|.|+++++|+|.|+..+.++.++++|+.|+++|++||+
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 HHHHhccCCCCCCceecchhcchHHHHHHHHhcCcccc
Q 002239 909 SYRKFCATVSSSGQLILPEALKLLPLYTLGKYYNVHSF 946 (948)
Q Consensus 909 ~YRk~ca~~~s~gqLiLPesLKlLPlyilaLlKs~~~~ 946 (948)
+|||+|++.+++|||||||+||+||+|++||+||.++-
T Consensus 792 ~YRk~cas~~ssgQLILPeslKLlPly~la~lKs~~l~ 829 (1007)
T KOG1984|consen 792 SYRKNCASPASSGQLILPESLKLLPLYMLALLKSSALR 829 (1007)
T ss_pred HHHHhhcCCCCcccEechhhhHHHHHHHHHHHHhhccc
Confidence 99999999999999999999999999999999998863
No 2
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=6.2e-134 Score=1161.81 Aligned_cols=538 Identities=41% Similarity=0.743 Sum_probs=513.8
Q ss_pred CCCCCCCCceeeeccccCCChhhhhhcCCccEEEEccCCCCCCCCCCceecccCCCCCccCCCCCceeccCceEecCCCe
Q 002239 399 DMGNCSPRYMRCTISQIPCTNDLLTTSGMQLALLVQPLALPHPSEEPIQIVDFGDMGPVRCSRCKAYINPFMKFIDQGRR 478 (948)
Q Consensus 399 D~gN~sP~fiR~T~n~iP~t~~ll~~~~LPLgivVqPfa~~~~~e~pVPvvd~g~~~pvRC~rCrAYINPf~~f~d~G~~ 478 (948)
+..||+|+|+|+|+++||.++++++|++||||++|+||+++. ++++++++. ...|+||++||+||||||.|+|.||+
T Consensus 164 ~~~nc~p~y~RsTl~~iP~t~sLl~kskLPlglvv~Pf~~~~-d~~~~p~~~--~~~IvRCr~CRtYiNPFV~fid~gr~ 240 (887)
T KOG1985|consen 164 ESSNCSPSYVRSTLSAIPQTQSLLKKSKLPLGLVVHPFAHLD-DIDPLPVIT--STLIVRCRRCRTYINPFVEFIDQGRR 240 (887)
T ss_pred cccCCCHHHHHHHHHhCCccHHHHHhcCCCceEEEeeccccc-ccCCCCccc--CCceeeehhhhhhcCCeEEecCCCce
Confidence 455999999999999999999999999999999999999887 344577654 46799999999999999999999999
Q ss_pred EEEccCCCCCCCCcccccCCCCCCCCCCCCCCCCccCccEEEEeccccccCCCCCcEEEEEEEcchhHHhhhHHHHHHHH
Q 002239 479 FICSLCGFTDETPRDYHCNLGPDGRRRDADDRPELCRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSA 558 (948)
Q Consensus 479 W~CnfC~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL~~gtVEfvap~eY~~R~p~pp~yvFvIDVS~~av~sG~l~~v~~s 558 (948)
|+||+|+..|+||.+|+.+. -.+.+.|..+||||++++|||++|.|||+|+|+|++||||||||.+++|+|+|+++|++
T Consensus 241 WrCNlC~~~NdvP~~f~~~~-~t~~~~~~~~RpEl~~s~vE~iAP~eYmlR~P~Pavy~FliDVS~~a~ksG~L~~~~~s 319 (887)
T KOG1985|consen 241 WRCNLCGRVNDVPDDFDWDP-LTGAYGDPYSRPELTSSVVEFIAPSEYMLRPPQPAVYVFLIDVSISAIKSGYLETVARS 319 (887)
T ss_pred eeechhhhhcCCcHHhhcCc-cccccCCcccCccccceeEEEecCcccccCCCCCceEEEEEEeehHhhhhhHHHHHHHH
Confidence 99999999999999998764 34677899999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccccceeehHHhHHHHHHHHhhccccccC
Q 002239 559 ISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDIIVPVSECRQHLELLLESIPSMFQN 638 (948)
Q Consensus 559 I~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~ 638 (948)
|++.||.|+.++|++|||||||++||||++..++++++||+|+|+||.|+|.+++|||+++|||+.|+.+|++|+.||.+
T Consensus 320 lL~~LD~lpgd~Rt~igfi~fDs~ihfy~~~~~~~qp~mm~vsdl~d~flp~pd~lLv~L~~ck~~i~~lL~~lp~~F~~ 399 (887)
T KOG1985|consen 320 LLENLDALPGDPRTRIGFITFDSTIHFYSVQGDLNQPQMMIVSDLDDPFLPMPDSLLVPLKECKDLIETLLKTLPEMFQD 399 (887)
T ss_pred HHHhhhcCCCCCcceEEEEEeeceeeEEecCCCcCCCceeeeccccccccCCchhheeeHHHHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccHHHHHHHHHHHHHhcCCEEEEEeccCCCCCcccccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhc
Q 002239 639 NRTAESAFGAAVKAAFLALKSTGGKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEY 718 (948)
Q Consensus 639 ~~~~~~alG~AL~aA~~lL~~~GGkIivF~sg~Pt~GpG~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~ 718 (948)
++..++|+|+||++|+++|+.+||||++|++++||+|.|+|+.|||.. ..+++++..|+.+++.|||+||.+|++.
T Consensus 400 ~~~t~~alGpALkaaf~li~~~GGri~vf~s~lPnlG~G~L~~rEdp~----~~~s~~~~qlL~~~t~FYK~~a~~cs~~ 475 (887)
T KOG1985|consen 400 TRSTGSALGPALKAAFNLIGSTGGRISVFQSTLPNLGAGKLKPREDPN----VRSSDEDSQLLSPATDFYKDLALECSKS 475 (887)
T ss_pred ccCcccccCHHHHHHHHHHhhcCCeEEEEeccCCCCCccccccccccc----cccchhhhhccCCCchHHHHHHHHhccC
Confidence 999999999999999999999999999999999999999999998766 6778888899999999999999999999
Q ss_pred CeEEEEEEccCccccccccccccccCcceEEEeCCCCCC--chhhHHHHHHHHhccCCccccceeEEEeCCCceEeeeec
Q 002239 719 QVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSAL--SDPAKLYNDLRWNITRPQGFEAVMRVRCSQGIQVQEYHG 796 (948)
Q Consensus 719 gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~--~d~~kL~~dL~r~ltr~~g~da~mrVR~S~GL~V~~~~G 796 (948)
|||||+|+++.+|+|||+|+.|+++|||++|||++|+.. .|.+||.+||.|+|+|++||||+||||||+||++++|||
T Consensus 476 qI~VDlFl~s~qY~DlAsLs~LskySgG~~y~YP~f~~s~p~~~~Kf~~el~r~Ltr~~~feaVmRiR~S~gl~~~~f~G 555 (887)
T KOG1985|consen 476 QICVDLFLFSEQYTDLASLSCLSKYSGGQVYYYPSFDGSNPHDVLKFARELARYLTRKIGFEAVMRIRCSTGLRMSSFFG 555 (887)
T ss_pred ceEEEEEeecccccchhhhhccccccCceeEEccCCCCCCHHHHHHHHHHHHHHhhhhhhhheeEEeeccccccccceec
Confidence 999999999999999999999999999999999999987 678999999999999999999999999999999999999
Q ss_pred ccccCCCCceeecCCCCCceEEEEEEecCCCCCCCceeEEEEEEEEecCCcEEEEEEcCcccccCCHhHHHhhCCHHHHH
Q 002239 797 NFCKRIPTDIDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSNLSNLYRSADLDTQF 876 (948)
Q Consensus 797 nf~~rst~~~~lp~id~dtSia~el~~d~~L~~~~~~yIQ~AlLYT~~~GeRRIRV~Tl~lpVts~l~~vf~saD~eAi~ 876 (948)
||+.|++|++.++++++|++++|++++|+.+.+ ..++||+|+|||..+|||||||||+++++++++.|||+++|++||+
T Consensus 556 nFF~RStDLla~~~v~~D~sy~~qisiEesl~~-~~~~fQvAlLyT~~~GERRIRV~T~~lpt~~sl~evY~saD~~AI~ 634 (887)
T KOG1985|consen 556 NFFVRSTDLLALPNVNPDQSYAFQISIEESLTT-GFCVFQVALLYTLSKGERRIRVHTLCLPTVSSLNEVYASADQEAIA 634 (887)
T ss_pred ccccCcHHHhcccCCCCCccceEEEEeehhcCC-ceeEEEeeeeecccCCceeEEEEEeeccccccHHHHHhhcCHHHHH
Confidence 999999999999999999999999999999864 5778999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHHHHHhccC-CCCCCceecchhcchHHHHHHHHhcCccc
Q 002239 877 TCFMKQAASEIPSTPLANVREQMMNLCVNALVSYRKFCAT-VSSSGQLILPEALKLLPLYTLGKYYNVHS 945 (948)
Q Consensus 877 ~llaK~a~~~~~~~~l~daR~~L~~~lv~iL~~YRk~ca~-~~s~gqLiLPesLKlLPlyilaLlKs~~~ 945 (948)
.+|+|+|+++.++.++.|+|+.|++.++++|.+|||..+. +.....|.+|.+||+||+|+|||+||++.
T Consensus 635 ~lla~~Av~ksl~ssL~dardal~~~~~D~l~aYk~~~~~~~~~~~~l~~p~~LrllPllvlALlK~~~f 704 (887)
T KOG1985|consen 635 SLLAKKAVEKSLSSSLSDARDALTNAVVDILNAYKKLVSNQNGQGITLSLPASLRLLPLLVLALLKHPAF 704 (887)
T ss_pred HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhcccccCCcceecCcchhhhHHHHHHHhcCCcc
Confidence 9999999999999999999999999999999999996544 34556799999999999999999999986
No 3
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=100.00 E-value=2.7e-123 Score=1065.69 Aligned_cols=544 Identities=40% Similarity=0.696 Sum_probs=523.3
Q ss_pred CCCCCCCceeecCCCCCCCCceeeeccccCCChhhhhhcCCccEEEEccCCCCCCCCCCceecccCCCCCccCCCCCcee
Q 002239 387 PPPPATSEYIVRDMGNCSPRYMRCTISQIPCTNDLLTTSGMQLALLVQPLALPHPSEEPIQIVDFGDMGPVRCSRCKAYI 466 (948)
Q Consensus 387 ~PP~~tt~~~~~D~gN~sP~fiR~T~n~iP~t~~ll~~~~LPLgivVqPfa~~~~~e~pVPvvd~g~~~pvRC~rCrAYI 466 (948)
.||+ ++.++..|++||+|+|||+|+|+||.+.+++++++||||+||+||.++.++|.++|+++. ..|+||+|||+||
T Consensus 133 ~ppl-tt~~~~~e~~n~~p~yvrsT~yaiP~t~dl~~~skiPfgLVI~Pf~~l~~e~~~vpl~~d--~~ivRCrrCrsYi 209 (861)
T COG5028 133 VPPL-TTNFVGSEQSNCSPKYVRSTMYAIPETNDLLKKSKIPFGLVIRPFLELYPEEDPVPLVED--GSIVRCRRCRSYI 209 (861)
T ss_pred CCCc-ccceeeeccCCCCHHHHHHHHhhCCCchhHHHhcCCCceEEeehhhhcCccCCCCccCCC--CcchhhhhhHhhc
Confidence 4666 999999999999999999999999999999999999999999999999988888998765 3489999999999
Q ss_pred ccCceEecCCCeEEEccCCCCCCCCcccccCCCCCCCCCCCCCCCCccCccEEEEeccccccCCCCCcEEEEEEEcchhH
Q 002239 467 NPFMKFIDQGRRFICSLCGFTDETPRDYHCNLGPDGRRRDADDRPELCRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNA 546 (948)
Q Consensus 467 NPf~~f~d~G~~W~CnfC~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL~~gtVEfvap~eY~~R~p~pp~yvFvIDVS~~a 546 (948)
|||++|+++|++|+||+|+.+|+++.+|+.....++.|.|+++|+||++++|||++|+||++|.+.|++|||+||||.++
T Consensus 210 NPfv~fi~~g~kw~CNiC~~kN~vp~~~~~~~~~~~~r~d~~~r~El~~~vvdf~ap~~Y~~~~p~P~~yvFlIDVS~~a 289 (861)
T COG5028 210 NPFVQFIEQGRKWRCNICRSKNDVPEGFDNPSGPNDPRSDRYSRPELKSGVVDFLAPKEYSLRQPPPPVYVFLIDVSFEA 289 (861)
T ss_pred CceEEEecCCcEEEEeeccccccCcccccCcCCCCCccccccccchhhceeeEEecccceeeccCCCCEEEEEEEeehHh
Confidence 99999999999999999999999999999888889999999999999999999999999999999999999999999999
Q ss_pred HhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCcc-ccceeehHHhHHH
Q 002239 547 LQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQ-SDIIVPVSECRQH 624 (948)
Q Consensus 547 v~sG~l~~v~~sI~~~L~~LP~-~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~-~~lLv~l~Esr~~ 624 (948)
+++|++.++.++|++.|+.+++ ++|+||+||.||++||||+++.+++ .+|++|+|+||+|+|.+ .+|++++++|+..
T Consensus 290 ~~~g~~~a~~r~Il~~l~~~~~~dpr~kIaii~fD~sl~ffk~s~d~~-~~~~~vsdld~pFlPf~s~~fv~pl~~~k~~ 368 (861)
T COG5028 290 IKNGLVKAAIRAILENLDQIPNFDPRTKIAIICFDSSLHFFKLSPDLD-EQMLIVSDLDEPFLPFPSGLFVLPLKSCKQI 368 (861)
T ss_pred hhcchHHHHHHHHHhhccCCCCCCCcceEEEEEEcceeeEEecCCCCc-cceeeecccccccccCCcchhcccHHHHHHH
Confidence 9999999999999999999964 7899999999999999999998873 38999999999999998 6788999999999
Q ss_pred HHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhcCCEEEEEeccCCCCCcccccccccccCCCCCCCccccccccchh
Q 002239 625 LELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTGGKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQPA 704 (948)
Q Consensus 625 I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~GGkIivF~sg~Pt~GpG~L~~red~~rsn~~~gt~ke~~Ll~pa 704 (948)
++.||+.++.+|.+++.++.|+|.||++|..+++.+||||++|.+++||.|.|+|..|+| +|+.|+++.
T Consensus 369 ~etLl~~~~~If~d~~~pk~~~G~aLk~a~~l~g~~GGkii~~~stlPn~G~Gkl~~r~d-----------~e~~ll~c~ 437 (861)
T COG5028 369 IETLLDRVPRIFQDNKSPKNALGPALKAAKSLIGGTGGKIIVFLSTLPNMGIGKLQLRED-----------KESSLLSCK 437 (861)
T ss_pred HHHHHHHhhhhhcccCCCccccCHHHHHHHHHhhccCceEEEEeecCCCccccccccccc-----------chhhhcccc
Confidence 999999999999999999999999999999999999999999999999999999999865 455689999
Q ss_pred HHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCc--hhhHHHHHHHHhccCCccccceeE
Q 002239 705 DKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALS--DPAKLYNDLRWNITRPQGFEAVMR 782 (948)
Q Consensus 705 ~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~--d~~kL~~dL~r~ltr~~g~da~mr 782 (948)
+.|||+|+.+|++.||+||+|+++.+|+|++|++.|+++|||++|||++|+.++ |..||.+||.+++++++||+++||
T Consensus 438 d~fYk~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~~Yp~f~~~~~~d~~kl~~dL~~~ls~~~gy~~~~r 517 (861)
T COG5028 438 DSFYKEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTYFYPNFSATRPNDATKLANDLVSHLSMEIGYEAVMR 517 (861)
T ss_pred chHHHHHHHHHHHhcceEEEEeccccccchhhhcchhhccCcceEEcCCcccCCchhHHHHHHHHHHhhhhhhhhheeeE
Confidence 999999999999999999999999999999999999999999999999999998 999999999999999999999999
Q ss_pred EEeCCCceEeeeecccccCCCCceeecCCCCCceEEEEEEecCCCCCCCceeEEEEEEEEecCCcEEEEEEcCcccccCC
Q 002239 783 VRCSQGIQVQEYHGNFCKRIPTDIDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSN 862 (948)
Q Consensus 783 VR~S~GL~V~~~~Gnf~~rst~~~~lp~id~dtSia~el~~d~~L~~~~~~yIQ~AlLYT~~~GeRRIRV~Tl~lpVts~ 862 (948)
||||+||++++|||||+.|+.++++|+.+++|+++.|+|++|++|.. ..+|||+|+|||+.+|||||||+|++++++++
T Consensus 518 vR~S~glr~s~fyGnf~~rs~dl~~F~tm~rd~Sl~~~~sid~~l~~-~~v~fQvAlL~T~~~GeRRiRVvn~s~~~ss~ 596 (861)
T COG5028 518 VRCSTGLRVSSFYGNFFNRSSDLCAFSTMPRDTSLLVEFSIDEKLMT-SDVYFQVALLYTLNDGERRIRVVNLSLPTSSS 596 (861)
T ss_pred eeccCceehhhhhccccccCcccccccccCCCceEEEEEEecccccC-CceEEEEEEEeeccCCceEEEEEEeccccchh
Confidence 99999999999999999999999999999999999999999999986 89999999999999999999999999999999
Q ss_pred HhHHHhhCCHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHHHHHhccCCCCCCceecchhcchHHHHHHHHhcC
Q 002239 863 LSNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYRKFCATVSSSGQLILPEALKLLPLYTLGKYYN 942 (948)
Q Consensus 863 l~~vf~saD~eAi~~llaK~a~~~~~~~~l~daR~~L~~~lv~iL~~YRk~ca~~~s~gqLiLPesLKlLPlyilaLlKs 942 (948)
+.|+|+++|+++|+.+|+|+|+.++.+..++++|+.|++.+++||++|||.|+...+++||+||++||+||+||+||+||
T Consensus 597 ~~evyasadq~aIa~~lak~a~~~~~~~s~~~~r~~i~~s~~~IL~~Ykk~~~~snt~tql~Lp~nL~lLPll~lal~Ks 676 (861)
T COG5028 597 IREVYASADQLAIACILAKKASTKALNSSLKEARVLINKSMVDILKAYKKELVKSNTSTQLPLPANLKLLPLLMLALLKS 676 (861)
T ss_pred HHHHHHhccHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhccCCccccchhhhHHHHHHHHHHhhh
Confidence 99999999999999999999999999999999999999999999999999888888889999999999999999999999
Q ss_pred cccc
Q 002239 943 VHSF 946 (948)
Q Consensus 943 ~~~~ 946 (948)
.++-
T Consensus 677 ~~~r 680 (861)
T COG5028 677 SAFR 680 (861)
T ss_pred cccc
Confidence 9863
No 4
>PTZ00395 Sec24-related protein; Provisional
Probab=100.00 E-value=4.6e-122 Score=1101.33 Aligned_cols=571 Identities=25% Similarity=0.460 Sum_probs=514.5
Q ss_pred CCCCCCCCCCCCCCcCCC-------cceeccCCCCCCCCCCCCCCceeecCCCCCCCCceeeeccccCCChhhhhhcCCc
Q 002239 356 ASSKIDPQQIPRPVPSST-------VVLYDTREGNQANPPPPATSEYIVRDMGNCSPRYMRCTISQIPCTNDLLTTSGMQ 428 (948)
Q Consensus 356 ~~~~idp~~iP~P~~~~~-------~~~~~t~~~~~~~~PP~~tt~~~~~D~gN~sP~fiR~T~n~iP~t~~ll~~~~LP 428 (948)
...|||+++|||||...+ .++|+|+++ ..||+.+++|+++|+|||+|+|||+|||+||.+.++++.++||
T Consensus 599 ~~~ri~~~~ip~p~~~~~~~~~~~~~~~~~t~k~---~~pp~~~~~~~~~dtgn~dP~~~r~tmY~iP~~~~~~~~~~iP 675 (1560)
T PTZ00395 599 TINRIDMNKIPRPIINTQEKKKKKNLKVFETCKY---ISPPSYYQPYISIDTGKADPRFLKSTLYQIPLFSETLKLSQIP 675 (1560)
T ss_pred cccccCcccCCCcccccccccccccchhhhhccC---CCCCCCCCceEEeecCCCChhhhhhhhhcCcchHHHHHhcCCC
Confidence 446999999999997643 468999966 3589999999999999999999999999999999999999999
Q ss_pred cEEEEccCCCCCCCCCCceecccC--------CCCCccCCCCCceeccCceEecCCCeEEEccCCCCCCCCcc-------
Q 002239 429 LALLVQPLALPHPSEEPIQIVDFG--------DMGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRD------- 493 (948)
Q Consensus 429 LgivVqPfa~~~~~e~pVPvvd~g--------~~~pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~vP~~------- 493 (948)
|||||+||+.+.++|. |+++|.. ..+++||.+|++|+|+++.|+-. ++++||||+..+.+-++
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 9999999999988775 8887764 24789999999999999998765 89999999999987532
Q ss_pred cccCCCCCCCCCCCCCC----CCccCccEEEEecccccc-----------------------------------------
Q 002239 494 YHCNLGPDGRRRDADDR----PELCRGTVEFVATKEYMV----------------------------------------- 528 (948)
Q Consensus 494 Y~~~ld~~g~R~D~~~r----PEL~~gtVEfvap~eY~~----------------------------------------- 528 (948)
|-..+.+ +..|.+++ --|.+|+||+++|..|..
T Consensus 754 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 831 (1560)
T PTZ00395 754 YNEKIGH--KESDHNEHGNSLSPLLKGSVDIIIPPIYYHNVNKFKLTYTYLNKNINQTAFMITNKIMSFTKHISNSLVAN 831 (1560)
T ss_pred Hhhhhcc--ccccccccccccchhhcCceeEEccchhhccCCccceeeehhhcchhhhhhhhhhhhhhhhhhhcchheec
Confidence 2111211 11222221 136688888888754420
Q ss_pred --------------------------------------------------------------------------------
Q 002239 529 -------------------------------------------------------------------------------- 528 (948)
Q Consensus 529 -------------------------------------------------------------------------------- 528 (948)
T Consensus 832 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 911 (1560)
T PTZ00395 832 DSKGGNKATSASAFGDSGDANFLAGGGYTNYGGAGGYNTYDNQSGYNNHDVVNNRGGSGAGNHLYGKDHDVQNFDNVMDN 911 (1560)
T ss_pred ccccccccchhhhcccccccccccccccccccccccccccccccccccccccccccccCcCcccccCcccccchhhhccC
Confidence
Q ss_pred ------------------------------------CCCCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCc
Q 002239 529 ------------------------------------RDPMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRT 572 (948)
Q Consensus 529 ------------------------------------R~p~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rt 572 (948)
+.++|++||||||||+.||++|+++++|++|+++|+.|+ ++|+
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 125689999999999999999999999999999999997 5789
Q ss_pred eEEEEEeCCeEEEEecCcC-------------CCCceEeeccCccccccCcc-ccceeehHHhHHHHHHHHhhccccccC
Q 002239 573 MVGIATFDSTIHFYNLKRA-------------LQQPLMLIVPDVEDVYTPLQ-SDIIVPVSECRQHLELLLESIPSMFQN 638 (948)
Q Consensus 573 rVGiITFds~VhfynL~~~-------------l~qpqmlVvsDldd~FvPl~-~~lLv~l~Esr~~I~~lLd~Lp~~f~~ 638 (948)
||||||||++||||+|+.. ++++||+||+||||+|+|++ ++|||++.|+|+.|++|||+|+++|.+
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 CCCCcccHHHHHHHHHHHHHhcC--CEEEEEeccCCCCCcccccccccccCCCCCCCccccccccchhHHHHHHHHHHHH
Q 002239 639 NRTAESAFGAAVKAAFLALKSTG--GKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFA 716 (948)
Q Consensus 639 ~~~~~~alG~AL~aA~~lL~~~G--GkIivF~sg~Pt~GpG~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~ 716 (948)
....++|+|+||++|+++|+..| |||++|++++|++|+|+|+.|++ +.+|+.|+.++++|||+||.+|+
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 98999999999999999999886 99999999999999999997652 23567788999999999999999
Q ss_pred hcCeEEEEEEccCcccc--ccccccccccCcceEEEeCCCCCCchhhHHHHHHHHhccC-CccccceeEEEeCCCceEee
Q 002239 717 EYQVCVDVFITTQTYVD--IASISVIPKTTGGQVYYYYPFSALSDPAKLYNDLRWNITR-PQGFEAVMRVRCSQGIQVQE 793 (948)
Q Consensus 717 ~~gIsVDlFl~s~~~vD--latL~~Ls~~TGG~v~~y~~F~~~~d~~kL~~dL~r~ltr-~~g~da~mrVR~S~GL~V~~ 793 (948)
+++|+||||+++..|+| |++|+.|+++|||+||||+.|+.++|..+|.+||.+.|++ ++||||+||||||+||+|++
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 7999999999999999999999999999999999999997 69999999999999999999
Q ss_pred ee--cccc--cCCCCceeecCCCCCceEEEEEEecCCCCCCCceeEEEEEEEEecCCcEEEEEEcCcccccCCHhHHHhh
Q 002239 794 YH--GNFC--KRIPTDIDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSNLSNLYRS 869 (948)
Q Consensus 794 ~~--Gnf~--~rst~~~~lp~id~dtSia~el~~d~~L~~~~~~yIQ~AlLYT~~~GeRRIRV~Tl~lpVts~l~~vf~s 869 (948)
|| |+++ .+++++++|++|++|++|+|+|+||++|.+...+|||+|||||+.+|||||||||++|+|++++.+||++
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 3688999999999999999999999999878899999999999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHHHHHhccCCCCCCceecchhcchHHHHHHHHhcCccc
Q 002239 870 ADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYRKFCATVSSSGQLILPEALKLLPLYTLGKYYNVHS 945 (948)
Q Consensus 870 aD~eAi~~llaK~a~~~~~~~~l~daR~~L~~~lv~iL~~YRk~ca~~~s~gqLiLPesLKlLPlyilaLlKs~~~ 945 (948)
+|+||++.+|+|+|+.+++++ .++|+.|.++|++||.+|||+|+...+.+||||||+||+||||+||||||.++
T Consensus 1302 ADqdAIvslLAK~AV~~aLss--sdARe~L~dklVdILtaYRK~CAsssssgQLILPESLKLLPLYILSLLKS~Af 1375 (1560)
T PTZ00395 1302 TDAEALMNILIKQLCTNILHN--DNYSKIIIDNLAAILFSYRINCASSAHSGQLILPDTLKLLPLFTSSLLKHNVT 1375 (1560)
T ss_pred hcHHHHHHHHHHHHHHHhccc--HHHHHHHHHHHHHHHHHHHHHhhccCCCccccchhHHHHHHHHHHHHhccccc
Confidence 999999999999999999987 49999999999999999999999888899999999999999999999999975
No 5
>PLN00162 transport protein sec23; Provisional
Probab=100.00 E-value=4.7e-106 Score=974.85 Aligned_cols=511 Identities=22% Similarity=0.318 Sum_probs=458.1
Q ss_pred CCCceeeeccccCCChhhhhhcCCccEEEEccCCCCCCCCCCceecccCCCCCccCCCCCceeccCceEecCCCeEEEcc
Q 002239 404 SPRYMRCTISQIPCTNDLLTTSGMQLALLVQPLALPHPSEEPIQIVDFGDMGPVRCSRCKAYINPFMKFIDQGRRFICSL 483 (948)
Q Consensus 404 sP~fiR~T~n~iP~t~~ll~~~~LPLgivVqPfa~~~~~e~pVPvvd~g~~~pvRC~rCrAYINPf~~f~d~G~~W~Cnf 483 (948)
+-+.||+|||+||.|++++++++|||||+|+||+... ++|++++ +|+||++|||||||||+|+++|++|+|||
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 3578999999999999999999999999999998753 3888875 69999999999999999999999999999
Q ss_pred CCCCCCCCcccccCCCCCCCCCCCCCCCCc--cCccEEEEeccccccCCCCCcEEEEEEEcchhHHhhhHHHHHHHHHHH
Q 002239 484 CGFTDETPRDYHCNLGPDGRRRDADDRPEL--CRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAISQ 561 (948)
Q Consensus 484 C~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL--~~gtVEfvap~eY~~R~p~pp~yvFvIDVS~~av~sG~l~~v~~sI~~ 561 (948)
|+..|++|.+|+ +++.+ +.++|| .++||||++++ |+.+++.+|+||||||+|..+++ ++.++++|++
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 44433 468999 89999999998 99999999999999999999988 5678899999
Q ss_pred HHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeecc--------Cccc----------------------cccCcc
Q 002239 562 VISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVP--------DVED----------------------VYTPLQ 611 (948)
Q Consensus 562 ~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvs--------Dldd----------------------~FvPl~ 611 (948)
+|+.||++ ++|||||||++||||+|+... .++++|+. |++| .|+|..
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 99999977 899999999999999998653 57777765 2222 234566
Q ss_pred ccceeehHHhHHHHHHHHhhcccc---ccCCCCCcccHHHHHHHHHHHHH----hcCCEEEEEeccCCCCCcccccccc-
Q 002239 612 SDIIVPVSECRQHLELLLESIPSM---FQNNRTAESAFGAAVKAAFLALK----STGGKLLVFQSVLPSVGIGALSARE- 683 (948)
Q Consensus 612 ~~lLv~l~Esr~~I~~lLd~Lp~~---f~~~~~~~~alG~AL~aA~~lL~----~~GGkIivF~sg~Pt~GpG~L~~re- 683 (948)
++||++++||++.|+++||+|+.+ +.+++++.+|+|+||++|..+|+ .+||||++|++|+||+|||+|+.|+
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 899999999999999999999876 36678899999999999999998 6799999999999999999999886
Q ss_pred -cccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchhhH
Q 002239 684 -AEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAK 762 (948)
Q Consensus 684 -d~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~~k 762 (948)
+..|+|+++ .+++++|++++.+||++||++|+++||+||||+++.+|+||++|+.|++.|||.+++|++|+. ++
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 566776444 455667999999999999999999999999999999999999999999999999999999965 57
Q ss_pred HHHHHHHhccCC------ccccceeEEEeCCCceEeeeeccccc---------------CCCCceeecCCCCCceEEEEE
Q 002239 763 LYNDLRWNITRP------QGFEAVMRVRCSQGIQVQEYHGNFCK---------------RIPTDIDLPAIDCNKAIMVTL 821 (948)
Q Consensus 763 L~~dL~r~ltr~------~g~da~mrVR~S~GL~V~~~~Gnf~~---------------rst~~~~lp~id~dtSia~el 821 (948)
|.++|+|.++|+ +||||+||||||+||+|.++|||++. +++++|+++++|+|++|+|+|
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 888888888864 89999999999999999999999862 357889999999999999999
Q ss_pred EecCCC-----CCCCceeEEEEEEEEecCCcEEEEEEcCcccccC--CHhHHHhhCCHHHHHHHHHHHHHHhcCCCChHH
Q 002239 822 KHDDKL-----QDGSECAFQCALLYTTVYGQRRIRVTTLSLPCTS--NLSNLYRSADLDTQFTCFMKQAASEIPSTPLAN 894 (948)
Q Consensus 822 ~~d~~L-----~~~~~~yIQ~AlLYT~~~GeRRIRV~Tl~lpVts--~l~~vf~saD~eAi~~llaK~a~~~~~~~~l~d 894 (948)
+++++. .++..+|||+|++||+.+|+|||||||++++++. ++.+||+++|+||++++|+|+|+++++++++.|
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 3456799999999999999999999999999754 789999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH---HHHHHhccCCCCCCceecchhcchHHHHHHHHhcCccc
Q 002239 895 VREQMMNLCVNAL---VSYRKFCATVSSSGQLILPEALKLLPLYTLGKYYNVHS 945 (948)
Q Consensus 895 aR~~L~~~lv~iL---~~YRk~ca~~~s~gqLiLPesLKlLPlyilaLlKs~~~ 945 (948)
+|+||+++|++++ ..|||.+ +++|+||++||+||+||++|+||..+
T Consensus 542 ~~r~ld~~li~~~~~f~~Yrk~~-----~~s~~Lp~~~~~lP~f~~~LrRS~~l 590 (761)
T PLN00162 542 ATRWLDRALIRLCSKFGDYRKDD-----PSSFRLSPNFSLYPQFMFNLRRSQFV 590 (761)
T ss_pred HHHHHHHHHHHHHHHHhhhcccC-----CccccCCHHHHHHHHHHHHHhhhhhc
Confidence 9999999999985 6788866 33699999999999999999999875
No 6
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.5e-77 Score=685.16 Aligned_cols=510 Identities=21% Similarity=0.310 Sum_probs=439.4
Q ss_pred CCCCceeeeccccCCChhhhhhcCCccEEEEccCCCCCCCCCCceecccCCCCCccCCCCCceeccCceEecCCCeEEEc
Q 002239 403 CSPRYMRCTISQIPCTNDLLTTSGMQLALLVQPLALPHPSEEPIQIVDFGDMGPVRCSRCKAYINPFMKFIDQGRRFICS 482 (948)
Q Consensus 403 ~sP~fiR~T~n~iP~t~~ll~~~~LPLgivVqPfa~~~~~e~pVPvvd~g~~~pvRC~rCrAYINPf~~f~d~G~~W~Cn 482 (948)
-.-+-||+|||.||.++....++.+|++++++||.+..+ ++++. ++|+||++|+||+||||.++.+.+.|.|+
T Consensus 7 e~~dGvR~twnvwPs~~~~~~~~vvPla~lytPl~e~~~----~~~~~---y~P~~C~~C~AvlNPyc~vd~~a~~W~Cp 79 (745)
T KOG1986|consen 7 EEIDGVRFTWNVWPSTRAEASRTVVPLACLYTPLKERPD----LPPIQ---YDPLRCSKCGAVLNPYCSVDFRAKSWICP 79 (745)
T ss_pred ccCCCcccccccCCCcccccccccccHHHhccccccCCC----CCccC---CCCchhccchhhcCcceeecccCceEecc
Confidence 344679999999999999999999999999999986432 45554 57999999999999999999999999999
Q ss_pred cCCCCCCCCcccccCCCCCCCCCCCCCCCCc--cCccEEEEeccccccCCCCCcEEEEEEEcchhHHhhhHHHHHHHHHH
Q 002239 483 LCGFTDETPRDYHCNLGPDGRRRDADDRPEL--CRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAIS 560 (948)
Q Consensus 483 fC~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL--~~gtVEfvap~eY~~R~p~pp~yvFvIDVS~~av~sG~l~~v~~sI~ 560 (948)
||+..|.+|.+|.. +..+ +.-+|| .+.||||+.++.. ..+++||||||++....+ |+.++++|+
T Consensus 80 fC~qrN~~p~~Y~~-is~~------n~P~el~Pq~stvEy~l~~~~----~~ppvf~fVvDtc~~eee---L~~LkssL~ 145 (745)
T KOG1986|consen 80 FCNQRNPFPPHYSG-ISEN------NLPPELLPQYSTVEYTLSPGR----VSPPVFVFVVDTCMDEEE---LQALKSSLK 145 (745)
T ss_pred ccccCCCCChhhcc-cCcc------CCChhhcCCcceeEEecCCCC----CCCceEEEEEeeccChHH---HHHHHHHHH
Confidence 99999999999864 3322 344588 7899999998652 458999999999999977 889999999
Q ss_pred HHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeecc---Ccc-----ccc------------cCccccceeehHH
Q 002239 561 QVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVP---DVE-----DVY------------TPLQSDIIVPVSE 620 (948)
Q Consensus 561 ~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvs---Dld-----d~F------------vPl~~~lLv~l~E 620 (948)
.+|+.||++ ++||||||++.||+|+|+... ..+..|.. |+. |.. -.....||.++.|
T Consensus 146 ~~l~lLP~~--alvGlItfg~~v~v~el~~~~-~sk~~VF~G~ke~s~~q~~~~L~~~~~~~~~~~~~~~~~rFL~P~~~ 222 (745)
T KOG1986|consen 146 QSLSLLPEN--ALVGLITFGTMVQVHELGFEE-CSKSYVFSGNKEYSAKQLLDLLGLSGGAGKGSENQSASNRFLLPAQE 222 (745)
T ss_pred HHHhhCCCc--ceEEEEEecceEEEEEcCCCc-ccceeEEeccccccHHHHHHHhcCCcccccCCcccccchhhhccHHH
Confidence 999999998 999999999999999998642 22333432 211 110 0011479999999
Q ss_pred hHHHHHHHHhhccc---cccCCCCCcccHHHHHHHHHHHHHh----cCCEEEEEeccCCCCCcccccccc--cccCCCCC
Q 002239 621 CRQHLELLLESIPS---MFQNNRTAESAFGAAVKAAFLALKS----TGGKLLVFQSVLPSVGIGALSARE--AEGRSNIS 691 (948)
Q Consensus 621 sr~~I~~lLd~Lp~---~f~~~~~~~~alG~AL~aA~~lL~~----~GGkIivF~sg~Pt~GpG~L~~re--d~~rsn~~ 691 (948)
|...+.++||+|.. -+...++..||+|.||.+|+.||+. +|+||++|++|+||.|||++..+| +.+|+||+
T Consensus 223 c~~~L~~lle~L~~d~wpV~~g~Rp~RcTG~Al~iA~~Ll~~c~p~~g~rIv~f~gGPcT~GpG~vv~~el~~piRshhd 302 (745)
T KOG1986|consen 223 CEFKLTNLLEELQPDPWPVPPGHRPLRCTGVALSIASGLLEGCFPNTGARIVLFAGGPCTRGPGTVVSRELKEPIRSHHD 302 (745)
T ss_pred HHHHHHHHHHHhcCCCCCCCCCCCcccchhHHHHHHHHHhcccCCCCcceEEEeccCCCCcCCceecchhhcCCCcCccc
Confidence 99999999999954 5677889999999999999999985 799999999999999999999987 88999966
Q ss_pred CCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchhhHHHHHHHHhc
Q 002239 692 SGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYNDLRWNI 771 (948)
Q Consensus 692 ~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~~kL~~dL~r~l 771 (948)
+ +++...|++++.|||++||++++.+|++||||+++.++++|.+|+.|++.|||.+...++|+.+.++ ..++|.+
T Consensus 303 i-~~d~a~y~kKa~KfY~~La~r~~~~ghvlDifa~~lDQvGi~EMk~l~~~TGG~lvl~dsF~~s~Fk----~sfqR~f 377 (745)
T KOG1986|consen 303 I-EKDNAPYYKKAIKFYEKLAERLANQGHVLDIFAAALDQVGILEMKPLVESTGGVLVLGDSFNTSIFK----QSFQRIF 377 (745)
T ss_pred c-cCcchHHHHHHHHHHHHHHHHHHhCCceEeeeeeeccccchHHHHHHhhcCCcEEEEecccchHHHH----HHHHHHh
Confidence 6 5566779999999999999999999999999999999999999999999999999999999876544 4455555
Q ss_pred c------CCccccceeEEEeCCCceEeeeeccccc---------------CCCCceeecCCCCCceEEEEEEecCC--CC
Q 002239 772 T------RPQGFEAVMRVRCSQGIQVQEYHGNFCK---------------RIPTDIDLPAIDCNKAIMVTLKHDDK--LQ 828 (948)
Q Consensus 772 t------r~~g~da~mrVR~S~GL~V~~~~Gnf~~---------------rst~~~~lp~id~dtSia~el~~d~~--L~ 828 (948)
+ ...||++.|+|+||++|+|++.+|++.. +++..|+++.++..+++++.|++..+ ++
T Consensus 378 ~~d~~~~l~~~fn~~leV~tSkdlkI~g~IGp~~Sl~~k~~~vsdt~ig~g~t~~wkm~~ls~~t~~s~~fei~~~~~~~ 457 (745)
T KOG1986|consen 378 TRDGEGDLKMGFNGTLEVKTSKDLKIQGVIGPCVSLNKKGPNVSDTEIGEGNTSAWKMCGLSPSTTLSLFFEISNQHNIP 457 (745)
T ss_pred ccccccchhhhcCceEEEEecCCcEEEecccccccccCCCCccccceeccccccceeeeccCCCceEEEEEEeccccCCC
Confidence 5 4689999999999999999999998653 35678999999999999999998753 34
Q ss_pred CCCceeEEEEEEEEecCCcEEEEEEcCcccccCCH-hHHHhhCCHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHH
Q 002239 829 DGSECAFQCALLYTTVYGQRRIRVTTLSLPCTSNL-SNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNAL 907 (948)
Q Consensus 829 ~~~~~yIQ~AlLYT~~~GeRRIRV~Tl~lpVts~l-~~vf~saD~eAi~~llaK~a~~~~~~~~l~daR~~L~~~lv~iL 907 (948)
.+..+||||++.|.+.+|++||||+|+++++++.. .++-.++|+||.+++|||+++.++.++.-.|+++|+|+.|++++
T Consensus 458 ~~~~~~iQFiT~Yq~s~g~~riRVtT~~r~~~d~~~~~i~~~FDqEaaAV~mAR~~~~kae~e~~~d~~rwlDr~Lirlc 537 (745)
T KOG1986|consen 458 QSGQGYIQFITQYQHSSGQKRIRVTTLARPWADSGSPEISQSFDQEAAAVLMARLALLKAETEDGPDVLRWLDRNLIRLC 537 (745)
T ss_pred CCCeeEEEEEEEEEcCCCcEEEEEEEeehhhccccchHhhhccchHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHH
Confidence 45689999999999999999999999999999886 58889999999999999999999999988899999999999998
Q ss_pred HHHHHhccCCCCCCceecchhcchHHHHHHHHhcCc
Q 002239 908 VSYRKFCATVSSSGQLILPEALKLLPLYTLGKYYNV 943 (948)
Q Consensus 908 ~~YRk~ca~~~s~gqLiLPesLKlLPlyilaLlKs~ 943 (948)
..|..+...+ +.++.|+++|.++|.||+-|+||+
T Consensus 538 ~kFg~y~k~d--Pssf~l~~~fsl~PQfmfhLRRS~ 571 (745)
T KOG1986|consen 538 QKFGDYRKDD--PSSFRLSPNFSLYPQFMFHLRRSP 571 (745)
T ss_pred HHHhccCCCC--chhhcCChhhhhhHHHHHhhccch
Confidence 8766655443 346999999999999999999986
No 7
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=100.00 E-value=3.8e-70 Score=609.99 Aligned_cols=514 Identities=20% Similarity=0.298 Sum_probs=434.7
Q ss_pred CCCCceeeeccccCCChhhhhhcCCccEEEEccCCCCCCCCCCceecccCCCCCccCCC-CCceeccCceEecCCCeEEE
Q 002239 403 CSPRYMRCTISQIPCTNDLLTTSGMQLALLVQPLALPHPSEEPIQIVDFGDMGPVRCSR-CKAYINPFMKFIDQGRRFIC 481 (948)
Q Consensus 403 ~sP~fiR~T~n~iP~t~~ll~~~~LPLgivVqPfa~~~~~e~pVPvvd~g~~~pvRC~r-CrAYINPf~~f~d~G~~W~C 481 (948)
-.-+-||+|||+||.|+....++.+|++++|+||++.. + +.+. .+.++.|.. |+||+||||.++.+.+.|+|
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 EENDGIRLTWNVFPATRGDATRTVIPIACLYTPLHEDD---A-LTVN---YYEPVKCTAPCKAVLNPYCHIDERNQSWIC 79 (755)
T ss_pred ccccceEEEEecccCCccccccccccHHHhcccccccc---c-cCcc---cCCCceecccchhhcCcceeeccCCceEec
Confidence 34567999999999999999999999999999998642 1 4443 357999999 99999999999998889999
Q ss_pred ccCCCCCCCCcccccCCCCCCCCCCCCCCCCc--cCccEEEEeccccccCCCCCcEEEEEEEcchhHHhhhHHHHHHHHH
Q 002239 482 SLCGFTDETPRDYHCNLGPDGRRRDADDRPEL--CRGTVEFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAI 559 (948)
Q Consensus 482 nfC~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL--~~gtVEfvap~eY~~R~p~pp~yvFvIDVS~~av~sG~l~~v~~sI 559 (948)
.||+..|.+|.+|.. +.. .+...|| .+.||||+..++ .-.+++|+||||+++...+ |.+++++|
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 999999999998853 332 2445588 799999999975 4578999999999998877 89999999
Q ss_pred HHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeecc--------Cccccc------cC-------------ccc
Q 002239 560 SQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVP--------DVEDVY------TP-------------LQS 612 (948)
Q Consensus 560 ~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvs--------Dldd~F------vP-------------l~~ 612 (948)
+..|..||.+ +.||||||++.||+|+++... ..+-.|.. .|++.. .+ ...
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 899999999999999997542 12222221 111110 01 113
Q ss_pred cceeehHHhHHHHHHHHhhcc---ccccCCCCCcccHHHHHHHHHHHHHh----cCCEEEEEeccCCCCCcccccccc--
Q 002239 613 DIIVPVSECRQHLELLLESIP---SMFQNNRTAESAFGAAVKAAFLALKS----TGGKLLVFQSVLPSVGIGALSARE-- 683 (948)
Q Consensus 613 ~lLv~l~Esr~~I~~lLd~Lp---~~f~~~~~~~~alG~AL~aA~~lL~~----~GGkIivF~sg~Pt~GpG~L~~re-- 683 (948)
.||.++.+|...+.++||+|. +.....+++.||+|+||++|..||+. .|+||++|++|+||+|||++..+|
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 489999999999999999995 34666789999999999999999985 699999999999999999999886
Q ss_pred cccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchhhHH
Q 002239 684 AEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKL 763 (948)
Q Consensus 684 d~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~~kL 763 (948)
|.+|+||++..|+ .++.+++.+||++|+++.+.+|+++|+|+.+.++++|-+|+.|...|||.+...++|+.+++...|
T Consensus 303 EpmRshH~ie~d~-aqh~kka~KFY~~laeR~a~~gh~~DifagcldqIGI~eM~~L~~sTgg~lvlsdsF~t~ifkqSf 381 (755)
T COG5047 303 EPMRSHHDIESDS-AQHSKKATKFYKGLAERVANQGHALDIFAGCLDQIGIMEMEPLTTSTGGALVLSDSFTTSIFKQSF 381 (755)
T ss_pred ccccccccccccc-hhhccchHHHHHHHHHHHhccchhHHHHHHHHHhhhhhcchhhccCCcceEEEeccccHHHHHHHH
Confidence 8899997664443 678999999999999999999999999999999999999999999999999999999987777776
Q ss_pred HHHHHHhcc--CCccccceeEEEeCCCceEeeeeccccc---------------CCCCceeecCCCCCceEEEEEEecCC
Q 002239 764 YNDLRWNIT--RPQGFEAVMRVRCSQGIQVQEYHGNFCK---------------RIPTDIDLPAIDCNKAIMVTLKHDDK 826 (948)
Q Consensus 764 ~~dL~r~lt--r~~g~da~mrVR~S~GL~V~~~~Gnf~~---------------rst~~~~lp~id~dtSia~el~~d~~ 826 (948)
.+.|.+.-. ...||+|.|+|.||++|+|++++||... +.++.|.++.+.+.++|++.|++...
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 665544322 2489999999999999999999998642 24567999999999999999998754
Q ss_pred CCC-----CCceeEEEEEEEEecCCcEEEEEEcCcccccCC-HhHHHhhCCHHHHHHHHHHHHHHhcCCCChHHHHHHHH
Q 002239 827 LQD-----GSECAFQCALLYTTVYGQRRIRVTTLSLPCTSN-LSNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMM 900 (948)
Q Consensus 827 L~~-----~~~~yIQ~AlLYT~~~GeRRIRV~Tl~lpVts~-l~~vf~saD~eAi~~llaK~a~~~~~~~~l~daR~~L~ 900 (948)
-.. ...+|||+.++|.+.+|.-||||+|++...++. ...+++++|+||.++++||+++.++..++..|+-+|++
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 332 257899999999999999999999999888764 46688899999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhccCCCCCCceecchhcchHHHHHHHHhcCc
Q 002239 901 NLCVNALVSYRKFCATVSSSGQLILPEALKLLPLYTLGKYYNV 943 (948)
Q Consensus 901 ~~lv~iL~~YRk~ca~~~s~gqLiLPesLKlLPlyilaLlKs~ 943 (948)
+.++++++.|-.+-... +.++.|+.++.++|.||+-|+||+
T Consensus 542 r~lirlcq~fa~y~k~d--pssfrl~~~f~lypqf~y~lrRSp 582 (755)
T COG5047 542 RNLIRLCQKFADYRKDD--PSSFRLDPNFTLYPQFMYHLRRSP 582 (755)
T ss_pred HHHHHHHHHHHhcCCCC--chhhcCCcchhhhhHHHhhhhccc
Confidence 99999977655544333 346999999999999999999997
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=1.9e-54 Score=463.30 Aligned_cols=241 Identities=47% Similarity=0.800 Sum_probs=230.4
Q ss_pred CCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC-CCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccC
Q 002239 531 PMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEG-PRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTP 609 (948)
Q Consensus 531 p~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~-~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvP 609 (948)
|+||+||||||||..++++|+++.+|++|+++|+.||++ +|++|||||||+.||||+++..+++++|++++|++|+|+|
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 ccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhcCCEEEEEeccCCCCCcccccccccccCCC
Q 002239 610 LQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTGGKLLVFQSVLPSVGIGALSAREAEGRSN 689 (948)
Q Consensus 610 l~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~GGkIivF~sg~Pt~GpG~L~~red~~rsn 689 (948)
++++||++++||++.|+++||+|++++.++++.++|+|+||++|..+|+..||||++|++|+||+|+|+|+.|++..
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 99999999999999999999999999999999999999999999999999999999999999999999999987544
Q ss_pred CCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeC--CCCCCchhhHHHHHH
Q 002239 690 ISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYY--PFSALSDPAKLYNDL 767 (948)
Q Consensus 690 ~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~--~F~~~~d~~kL~~dL 767 (948)
..++++|+++++++++||++||.+|+++||+||||+++.+|+||++|+.|+++|||.+++|+ +|+..+|.++|++||
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 45677888999999999999999999999999999999999999999999999999999999 777789999999999
Q ss_pred HHhccCCc
Q 002239 768 RWNITRPQ 775 (948)
Q Consensus 768 ~r~ltr~~ 775 (948)
+|+++|++
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=1.5e-50 Score=431.62 Aligned_cols=235 Identities=43% Similarity=0.748 Sum_probs=223.6
Q ss_pred CCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCc
Q 002239 531 PMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPL 610 (948)
Q Consensus 531 p~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl 610 (948)
|+||+||||||+|++++++|+++.+|++|+++|+.||++++++|||||||++||||+++....+++|+|+.|++|.|+|.
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 57999999999999999999999999999999999996677999999999999999999887778999999999999999
Q ss_pred cccceeehHHhHHHHHHHHhhccccccC--CCCCcccHHHHHHHHHHHHHhc--CCEEEEEeccCCCCCccccccccccc
Q 002239 611 QSDIIVPVSECRQHLELLLESIPSMFQN--NRTAESAFGAAVKAAFLALKST--GGKLLVFQSVLPSVGIGALSAREAEG 686 (948)
Q Consensus 611 ~~~lLv~l~Esr~~I~~lLd~Lp~~f~~--~~~~~~alG~AL~aA~~lL~~~--GGkIivF~sg~Pt~GpG~L~~red~~ 686 (948)
+++||++++|+++.|+++|++|+.++.. +++.++|+|+||++|..+|+.. ||||++|++|+||+|||+|+.|++..
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 8889999999999999999998 99999999999999999999987544
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchhhHHHHH
Q 002239 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYND 766 (948)
Q Consensus 687 rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~~kL~~d 766 (948)
.+++++|+++++++++||++||++|++++|+||||+++.+++||++|+.|++.|||++++|++|+..+|.++|.+|
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 5567789999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHH
Q 002239 767 LRW 769 (948)
Q Consensus 767 L~r 769 (948)
|+|
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=2.7e-50 Score=430.12 Aligned_cols=237 Identities=41% Similarity=0.724 Sum_probs=205.0
Q ss_pred CCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCc
Q 002239 531 PMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPL 610 (948)
Q Consensus 531 p~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl 610 (948)
|+||+||||||+|.+++++|+++.+|++|+++|+.|+.+++++|||||||++||||+++....+++++|++|+||+|+|+
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 57999999999999999999999999999999999997778999999999999999999988889999999999999999
Q ss_pred cccceeehHHhHHHHHHHHhhccccccCC--CCCcccHHHHHHHHHHHHH--hcCCEEEEEeccCCCCCc-ccccccccc
Q 002239 611 QSDIIVPVSECRQHLELLLESIPSMFQNN--RTAESAFGAAVKAAFLALK--STGGKLLVFQSVLPSVGI-GALSAREAE 685 (948)
Q Consensus 611 ~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~--~~~~~alG~AL~aA~~lL~--~~GGkIivF~sg~Pt~Gp-G~L~~red~ 685 (948)
+++||+++.|+++.|+++|++|++++... ++.++|+|+||++|..+|+ ..||||++|++|+||+|+ |+|+.+++.
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 99999999999999999999999988877 8899999999999999999 899999999999999999 788877655
Q ss_pred cCCCCCCCcccc-ccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchhhHHH
Q 002239 686 GRSNISSGEKET-HKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLY 764 (948)
Q Consensus 686 ~rsn~~~gt~ke-~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~~kL~ 764 (948)
. .+++++| +.++.++++||++||++|+++||+||||+++.+|+|+++|+.|++.|||.+|+|++|+.++|.++|+
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 4556666 6678888999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhc
Q 002239 765 NDLRWNI 771 (948)
Q Consensus 765 ~dL~r~l 771 (948)
+||+|++
T Consensus 237 ~dl~r~~ 243 (243)
T PF04811_consen 237 QDLKRLV 243 (243)
T ss_dssp HHHHHHH
T ss_pred HHHHHhC
Confidence 9999864
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=1.9e-45 Score=398.23 Aligned_cols=226 Identities=26% Similarity=0.353 Sum_probs=195.1
Q ss_pred CCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCC---------------CCc
Q 002239 531 PMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRAL---------------QQP 595 (948)
Q Consensus 531 p~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l---------------~qp 595 (948)
|.||+||||||+|..+++ ++.++++|+++|+.||++ ++|||||||++||||||+... ++.
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 568999999999999998 788999999999999987 899999999999999998541 111
Q ss_pred -eEe------------eccCccccccCcc-ccceeehHHhHHHHHHHHhhcccc---ccCCCCCcccHHHHHHHHHHHHH
Q 002239 596 -LML------------IVPDVEDVYTPLQ-SDIIVPVSECRQHLELLLESIPSM---FQNNRTAESAFGAAVKAAFLALK 658 (948)
Q Consensus 596 -qml------------VvsDldd~FvPl~-~~lLv~l~Esr~~I~~lLd~Lp~~---f~~~~~~~~alG~AL~aA~~lL~ 658 (948)
+|+ +.+|++|.|+|.+ ++||++++||++.|+++||+|+.+ +.+++++++|+|+||++|..+|+
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 2245788999866 699999999999999999999875 46678899999999999999998
Q ss_pred ----hcCCEEEEEeccCCCCCcccccccc--cccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccc
Q 002239 659 ----STGGKLLVFQSVLPSVGIGALSARE--AEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYV 732 (948)
Q Consensus 659 ----~~GGkIivF~sg~Pt~GpG~L~~re--d~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~v 732 (948)
.+||||++|++|+||+|||+|+.|+ +..|+|.+. .+++.++++++++||++||.+|+++||+||||+++.+|+
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 5799999999999999999999886 556655322 333456999999999999999999999999999999999
Q ss_pred cccccccccccCcceEEEeCCCCCCchhhH
Q 002239 733 DIASISVIPKTTGGQVYYYYPFSALSDPAK 762 (948)
Q Consensus 733 DlatL~~Ls~~TGG~v~~y~~F~~~~d~~k 762 (948)
||++|+.|++.|||.+|+|++|+.+.+.+.
T Consensus 235 glaem~~l~~~TGG~v~~~~~f~~~~f~~s 264 (267)
T cd01478 235 GLLEMKVLVNSTGGHVVLSDSFTTSIFKQS 264 (267)
T ss_pred CHHHHHHHHHhcCcEEEEeCCcchHHHHHH
Confidence 999999999999999999999987544433
No 12
>PF08033 Sec23_BS: Sec23/Sec24 beta-sandwich domain; InterPro: IPR012990 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes part of the Sec23/24 beta-barrel domain, which is formed from approximately 180 residues from three segments of the polypeptide. The strands of the barrel are oriented roughly parallel to the membrane such that one end of the barrel forms part of the inner surface of the coat and the other end part of the membrane-distal surface. The barrel is constructed from two opposed sheets: a six-stranded beta sheet facing partly towards the zinc finger domain and partly towards the solvent, and a five-stranded beta sheet facing the helical domain.; PDB: 3EFO_B 3EG9_B 1PD0_A 1PD1_A 1M2V_B 1PCX_A 3EH2_C 3EGD_A 2NUP_A 3EGX_A ....
Probab=99.84 E-value=4.4e-21 Score=177.78 Aligned_cols=85 Identities=46% Similarity=0.734 Sum_probs=77.1
Q ss_pred cccceeEEEeCCCceEeeeecccccCC---------CCc--eeecCCCCCceEEEEEEecCCCCCCCceeEEEEEEEEec
Q 002239 776 GFEAVMRVRCSQGIQVQEYHGNFCKRI---------PTD--IDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTV 844 (948)
Q Consensus 776 g~da~mrVR~S~GL~V~~~~Gnf~~rs---------t~~--~~lp~id~dtSia~el~~d~~L~~~~~~yIQ~AlLYT~~ 844 (948)
||||+||||||+||+|++++||++.++ .+. |+++++++|++|+|+|++++++.+...+|||+|++||+.
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 999999999999999999999887789999999999999
Q ss_pred CCcEEEEEEcCccccc
Q 002239 845 YGQRRIRVTTLSLPCT 860 (948)
Q Consensus 845 ~GeRRIRV~Tl~lpVt 860 (948)
+|+|||||+|++++||
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 13
>PF04815 Sec23_helical: Sec23/Sec24 helical domain; InterPro: IPR006900 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region, and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the all-helical domain, which forms an approximately 105-residue segment with the C-terminal 30 residues. The linker between alpha-M and alpha-N contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_B 2NUP_B 2NUT_B 3EGX_B 3EH2_C 3EH1_A 3EFO_B 3EG9_B 2QTV_A 1M2O_C ....
Probab=99.66 E-value=1.8e-16 Score=148.86 Aligned_cols=74 Identities=46% Similarity=0.600 Sum_probs=71.2
Q ss_pred HHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHHHHHhccCCCCCCceecchhcchHHHHHHHHhcCccc
Q 002239 872 LDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYRKFCATVSSSGQLILPEALKLLPLYTLGKYYNVHS 945 (948)
Q Consensus 872 ~eAi~~llaK~a~~~~~~~~l~daR~~L~~~lv~iL~~YRk~ca~~~s~gqLiLPesLKlLPlyilaLlKs~~~ 945 (948)
|||++++|+|++++++.+++++|+|++|+++|+++|.+||++|+..++++||+|||+||+||+|++||+||+++
T Consensus 1 Qda~~~llak~ai~~~~~~~l~~~r~~l~~~~v~il~~Yr~~~~~~~~~~qLilPe~lklLPly~l~llKs~al 74 (103)
T PF04815_consen 1 QDAITSLLAKQAIDKALSSSLKDARESLDNRLVDILAAYRKNCASSSSSGQLILPESLKLLPLYILALLKSPAL 74 (103)
T ss_dssp HHHHHHHHHHHHHHHHCCS-HHHHHHHHHHHHHHHHHHHHHHCTTECCCTEEEEEGGGTTHHHHHHHHHTSTTT
T ss_pred CHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHhhccCCCCchhhhCCHHHHHHHHHHHHHHcchhh
Confidence 79999999999999999999999999999999999999999999998889999999999999999999999986
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=99.52 E-value=3.4e-15 Score=117.16 Aligned_cols=40 Identities=53% Similarity=1.280 Sum_probs=29.1
Q ss_pred CCccCCCCCceeccCceEecCCCeEEEccCCCCCCCCccc
Q 002239 455 GPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRDY 494 (948)
Q Consensus 455 ~pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~vP~~Y 494 (948)
+|+||++|+||||||++|++++++|+|+||++.|++|.+|
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=98.81 E-value=8.9e-08 Score=107.58 Aligned_cols=173 Identities=20% Similarity=0.245 Sum_probs=121.0
Q ss_pred CcEEEEEEEcchhHHhh----hHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCcccccc
Q 002239 533 PAVFFFLIDVSMNALQT----GATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYT 608 (948)
Q Consensus 533 pp~yvFvIDVS~~av~s----G~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~Fv 608 (948)
.-.+|||||+|.++... ..++.+++++++.|+.+.++ .+||+|+|++..++. +
T Consensus 88 ~~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l~~~--d~vglv~Fa~~a~~~---------------------~ 144 (326)
T PRK13685 88 RAVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADELTPG--INLGLIAFAGTATVL---------------------V 144 (326)
T ss_pred CceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhCCCC--CeEEEEEEcCceeec---------------------C
Confidence 34689999999998542 46899999999999998654 689999999876521 1
Q ss_pred CccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc-----------CCEEEEEeccCCCCCcc
Q 002239 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-----------GGKLLVFQSVLPSVGIG 677 (948)
Q Consensus 609 Pl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~-----------GGkIivF~sg~Pt~GpG 677 (948)
| +.+.++.+.+.|+.|.. ...+++|.||..|++.++.. .++|+++++|.-+.|..
T Consensus 145 p--------~t~d~~~l~~~l~~l~~------~~~T~~g~al~~A~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~ 210 (326)
T PRK13685 145 S--------PTTNREATKNAIDKLQL------ADRTATGEAIFTALQAIATVGAVIGGGDTPPPARIVLMSDGKETVPTN 210 (326)
T ss_pred C--------CCCCHHHHHHHHHhCCC------CCCcchHHHHHHHHHHHHhhhcccccccCCCCCEEEEEcCCCCCCCCC
Confidence 1 12346677888888863 24567899999999887621 36799999988665421
Q ss_pred cccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCc-------------cccccccccccccC
Q 002239 678 ALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQT-------------YVDIASISVIPKTT 744 (948)
Q Consensus 678 ~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~-------------~vDlatL~~Ls~~T 744 (948)
.. + . + .. .+.++.+.+.||.|+.+.++.+ ..|-..|..+++.|
T Consensus 211 ~~----~---------~--~-------~~--~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~~~~d~~~L~~iA~~t 266 (326)
T PRK13685 211 PD----N---------P--R-------GA--YTAARTAKDQGVPISTISFGTPYGSVEINGQRQPVPVDDESLKKIAQLS 266 (326)
T ss_pred CC----C---------c--c-------cH--HHHHHHHHHcCCeEEEEEECCCCCCcCcCCceeeecCCHHHHHHHHHhc
Confidence 10 0 0 0 00 1345667789999999998864 25778999999999
Q ss_pred cceEEEeCCCCCCchhhHHHHHHHH
Q 002239 745 GGQVYYYYPFSALSDPAKLYNDLRW 769 (948)
Q Consensus 745 GG~v~~y~~F~~~~d~~kL~~dL~r 769 (948)
||+.|+..+- .+-++.+++|.+
T Consensus 267 gG~~~~~~~~---~~L~~if~~I~~ 288 (326)
T PRK13685 267 GGEFYTAASL---EELRAVYATLQQ 288 (326)
T ss_pred CCEEEEcCCH---HHHHHHHHHHHH
Confidence 9988877541 233445555544
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=98.80 E-value=1.4e-07 Score=97.52 Aligned_cols=164 Identities=16% Similarity=0.154 Sum_probs=109.7
Q ss_pred EEEEEEEcchhHHhh----hHHHHHHHHHHHHHhcCC-CCCCceEEEEEe-CCeEEEEecCcCCCCceEeeccCcccccc
Q 002239 535 VFFFLIDVSMNALQT----GATAAACSAISQVISDLP-EGPRTMVGIATF-DSTIHFYNLKRALQQPLMLIVPDVEDVYT 608 (948)
Q Consensus 535 ~yvFvIDVS~~av~s----G~l~~v~~sI~~~L~~LP-~~~rtrVGiITF-ds~VhfynL~~~l~qpqmlVvsDldd~Fv 608 (948)
..+|+||+|.++.++ -.|+.+++.+.+.++.+. .++..+||||+| ++.-|+. +
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 368999999998643 368899999988887652 223369999999 5544331 1
Q ss_pred CccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc----CCEEEEEeccCCCCCccccccccc
Q 002239 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST----GGKLLVFQSVLPSVGIGALSAREA 684 (948)
Q Consensus 609 Pl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~----GGkIivF~sg~Pt~GpG~L~~red 684 (948)
|+ ....+.+...|+.+ +. ....++++.||+.|..+|+.. .++|+++.++.-+..+
T Consensus 64 Pl--------T~D~~~~~~~L~~~--~~---~~G~t~l~~aL~~A~~~l~~~~~~~~~~iiil~sd~~~~~~-------- 122 (183)
T cd01453 64 DL--------TGNPRKHIQALKTA--RE---CSGEPSLQNGLEMALESLKHMPSHGSREVLIIFSSLSTCDP-------- 122 (183)
T ss_pred CC--------CCCHHHHHHHhhcc--cC---CCCchhHHHHHHHHHHHHhcCCccCceEEEEEEcCCCcCCh--------
Confidence 11 11122344455554 11 234579999999999999752 3568877764211000
Q ss_pred ccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchhhHHH
Q 002239 685 EGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLY 764 (948)
Q Consensus 685 ~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~~kL~ 764 (948)
.-+.++++++.+.+|.|+++.++. ++..|..+|+.|||+.|.-.+ .+.|.
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 112467888999999999999974 456899999999999987643 45666
Q ss_pred HHHHHh
Q 002239 765 NDLRWN 770 (948)
Q Consensus 765 ~dL~r~ 770 (948)
..|.+.
T Consensus 173 ~~~~~~ 178 (183)
T cd01453 173 ELLLEH 178 (183)
T ss_pred HHHHhc
Confidence 655553
No 17
>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=98.71 E-value=3.7e-07 Score=94.39 Aligned_cols=164 Identities=15% Similarity=0.180 Sum_probs=109.5
Q ss_pred CCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEe-cCcCCCCceEeeccCccccccC
Q 002239 531 PMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYN-LKRALQQPLMLIVPDVEDVYTP 609 (948)
Q Consensus 531 p~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~Vhfyn-L~~~l~qpqmlVvsDldd~FvP 609 (948)
..+-..+||||+|.++... .++.++++++..|+.|.++ .+|+||+|++.++.+- +..
T Consensus 11 ~~p~~vv~llD~SgSM~~~-~l~~ak~~~~~ll~~l~~~--d~v~lv~F~~~~~~~~~~~~------------------- 68 (190)
T cd01463 11 TSPKDIVILLDVSGSMTGQ-RLHLAKQTVSSILDTLSDN--DFFNIITFSNEVNPVVPCFN------------------- 68 (190)
T ss_pred cCCceEEEEEECCCCCCcH-HHHHHHHHHHHHHHhCCCC--CEEEEEEeCCCeeEEeeecc-------------------
Confidence 3567789999999988543 4788999999999999865 6899999999887531 100
Q ss_pred ccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHh---c-------C--CEEEEEeccCCCCCcc
Q 002239 610 LQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---T-------G--GKLLVFQSVLPSVGIG 677 (948)
Q Consensus 610 l~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~---~-------G--GkIivF~sg~Pt~GpG 677 (948)
..++....+.++.+.+.|+.|.. ...+.++.||+.|+..|+. . + ..|+++++|.++.+.
T Consensus 69 --~~~~~~~~~~~~~~~~~l~~l~~------~G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~- 139 (190)
T cd01463 69 --DTLVQATTSNKKVLKEALDMLEA------KGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPENYK- 139 (190)
T ss_pred --cceEecCHHHHHHHHHHHhhCCC------CCcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCcHh-
Confidence 11111122345555556666552 3346799999999988875 1 1 358889998865310
Q ss_pred cccccccccCCCCCCCccccccccchhHHHHHHHHH-HHHhcCeEEEEEEccCccccccccccccccCcceEEEeCC
Q 002239 678 ALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAI-EFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYP 753 (948)
Q Consensus 678 ~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~-~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~ 753 (948)
+.++.+.. ...+.+|.|..|.++.+..|...|..|+..+||..++.++
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 1112356666676776666888999999999999998865
No 18
>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=98.67 E-value=3.8e-07 Score=92.61 Aligned_cols=155 Identities=21% Similarity=0.240 Sum_probs=105.3
Q ss_pred EEEEEEEcchhHHhh-----hHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccC
Q 002239 535 VFFFLIDVSMNALQT-----GATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTP 609 (948)
Q Consensus 535 ~yvFvIDVS~~av~s-----G~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvP 609 (948)
-++||||+|.++-.. -.++.+++.+...+...++ .+||||+|++.++.. ++
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 479999999987432 1467777777777776553 599999999876431 01
Q ss_pred ccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc---CCEEEEEeccCCCCCccccccccccc
Q 002239 610 LQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---GGKLLVFQSVLPSVGIGALSAREAEG 686 (948)
Q Consensus 610 l~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~---GGkIivF~sg~Pt~GpG~L~~red~~ 686 (948)
+...+..++++|+.|.... ....+.++.||..|.+++... ...|+++++|..+.|. ..
T Consensus 60 --------~~~~~~~~~~~l~~l~~~~---~~g~T~l~~al~~a~~~l~~~~~~~~~iiliTDG~~~~g~--~~------ 120 (180)
T cd01467 60 --------LTLDRESLKELLEDIKIGL---AGQGTAIGDAIGLAIKRLKNSEAKERVIVLLTDGENNAGE--ID------ 120 (180)
T ss_pred --------CCccHHHHHHHHHHhhhcc---cCCCCcHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCCCC--CC------
Confidence 1112444566667665211 234567899999999988653 2468888888765421 00
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCc----------cccccccccccccCcceEEEeCC
Q 002239 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQT----------YVDIASISVIPKTTGGQVYYYYP 753 (948)
Q Consensus 687 rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~----------~vDlatL~~Ls~~TGG~v~~y~~ 753 (948)
..+.+..+.+.+|.|+.+.+... ..|...|..|++.|||.+|+..+
T Consensus 121 ---------------------~~~~~~~~~~~gi~i~~i~ig~~~~~~~~~~~~~~~~~~l~~la~~tgG~~~~~~~ 176 (180)
T cd01467 121 ---------------------PATAAELAKNKGVRIYTIGVGKSGSGPKPDGSTILDEDSLVEIADKTGGRIFRALD 176 (180)
T ss_pred ---------------------HHHHHHHHHHCCCEEEEEEecCCCCCcCCCCcccCCHHHHHHHHHhcCCEEEEecC
Confidence 12233455678999999998862 46788899999999999998754
No 19
>cd01451 vWA_Magnesium_chelatase Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is a three sub-unit (BchI, BchD and BchH) enzyme with a novel arrangement of domains: the C-terminal helical domain is located behind the nucleotide binding site. The BchD domain contains a AAA domain at its N-terminus and a VWA domain at its C-terminus. The VWA domain has been speculated to be involved in mediating protein-protein interactions.
Probab=98.67 E-value=6.1e-07 Score=91.87 Aligned_cols=159 Identities=19% Similarity=0.205 Sum_probs=109.5
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCe-EEEEecCcCCCCceEeeccCccccccCcccc
Q 002239 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDST-IHFYNLKRALQQPLMLIVPDVEDVYTPLQSD 613 (948)
Q Consensus 535 ~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~-VhfynL~~~l~qpqmlVvsDldd~FvPl~~~ 613 (948)
.++||||+|.++.....++.+++++...++.+.. .+.+||||+|+++ .++. +|
T Consensus 2 ~v~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~~~-~~d~v~lv~F~~~~~~~~---------------------~~---- 55 (178)
T cd01451 2 LVIFVVDASGSMAARHRMAAAKGAVLSLLRDAYQ-RRDKVALIAFRGTEAEVL---------------------LP---- 55 (178)
T ss_pred eEEEEEECCccCCCccHHHHHHHHHHHHHHHhhc-CCCEEEEEEECCCCceEE---------------------eC----
Confidence 3689999999886433578888888888865432 1369999999864 3211 01
Q ss_pred ceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHH-h---cC--CEEEEEeccCCCCCcccccccccccC
Q 002239 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALK-S---TG--GKLLVFQSVLPSVGIGALSAREAEGR 687 (948)
Q Consensus 614 lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~-~---~G--GkIivF~sg~Pt~GpG~L~~red~~r 687 (948)
..+.++.+...|+.|+. ...+.++.||..|...++ . .+ ..|+++++|..+.|...
T Consensus 56 ----~t~~~~~~~~~l~~l~~------~G~T~l~~aL~~a~~~l~~~~~~~~~~~~ivliTDG~~~~g~~~--------- 116 (178)
T cd01451 56 ----PTRSVELAKRRLARLPT------GGGTPLAAGLLAAYELAAEQARDPGQRPLIVVITDGRANVGPDP--------- 116 (178)
T ss_pred ----CCCCHHHHHHHHHhCCC------CCCCcHHHHHHHHHHHHHHHhcCCCCceEEEEECCCCCCCCCCc---------
Confidence 11122334556666642 456789999999999882 1 12 46888899887764210
Q ss_pred CCCCCCccccccccchhHHHH-HHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCC
Q 002239 688 SNISSGEKETHKLLQPADKTL-KAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFS 755 (948)
Q Consensus 688 sn~~~gt~ke~~Ll~pa~~FY-k~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~ 755 (948)
...- .+++.++.+.+|.|..+.+...+.|-..|..|++.|||+.|+.++.+
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 56677888999998777776666788889999999999999988754
No 20
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if n
Probab=98.66 E-value=5.6e-07 Score=90.11 Aligned_cols=156 Identities=14% Similarity=0.161 Sum_probs=111.0
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccccc
Q 002239 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDI 614 (948)
Q Consensus 535 ~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~l 614 (948)
.++||||+|.++-... ++.+++++...++.|..+ .+|+||+|++..+.+- +.. .
T Consensus 2 ~~~~vlD~S~SM~~~~-~~~~k~a~~~~~~~l~~~--~~v~li~f~~~~~~~~--------------~~~-------~-- 55 (170)
T cd01465 2 NLVFVIDRSGSMDGPK-LPLVKSALKLLVDQLRPD--DRLAIVTYDGAAETVL--------------PAT-------P-- 55 (170)
T ss_pred cEEEEEECCCCCCChh-HHHHHHHHHHHHHhCCCC--CEEEEEEecCCccEEe--------------cCc-------c--
Confidence 3789999999885433 788889999999998765 6999999998754321 000 0
Q ss_pred eeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc---C--CEEEEEeccCCCCCcccccccccccCCC
Q 002239 615 IVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---G--GKLLVFQSVLPSVGIGALSAREAEGRSN 689 (948)
Q Consensus 615 Lv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~---G--GkIivF~sg~Pt~GpG~L~~red~~rsn 689 (948)
...++.+.+.|+++.. ...+.++.||+.|+..++.. + .+|++|++|.++.|...
T Consensus 56 ----~~~~~~l~~~l~~~~~------~g~T~~~~al~~a~~~~~~~~~~~~~~~ivl~TDG~~~~~~~~----------- 114 (170)
T cd01465 56 ----VRDKAAILAAIDRLTA------GGSTAGGAGIQLGYQEAQKHFVPGGVNRILLATDGDFNVGETD----------- 114 (170)
T ss_pred ----cchHHHHHHHHHcCCC------CCCCCHHHHHHHHHHHHHhhcCCCCeeEEEEEeCCCCCCCCCC-----------
Confidence 0123444555665542 34567899999999988642 2 56999999988764310
Q ss_pred CCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCC
Q 002239 690 ISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYP 753 (948)
Q Consensus 690 ~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~ 753 (948)
.+-++++...+.+.+|.|+.|.++ ...|...|..+++.++|..++.++
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 678889999999999999887755
No 21
>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=98.63 E-value=4.4e-07 Score=94.97 Aligned_cols=174 Identities=20% Similarity=0.197 Sum_probs=111.5
Q ss_pred CCCCCcEEEEEEEcchhHHh-----hhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCc
Q 002239 529 RDPMPAVFFFLIDVSMNALQ-----TGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDV 603 (948)
Q Consensus 529 R~p~pp~yvFvIDVS~~av~-----sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDl 603 (948)
+...+..++||||+|.++.. ...++.++++|...|+.|+++ .+||||+|++.++-. .. ... +++
T Consensus 16 ~~~~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l~~~--~~v~lv~F~~~~~~~--~~----~~~-~~p-- 84 (206)
T cd01456 16 EPQLPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDG--TRLGLWTFSGDGDNP--LD----VRV-LVP-- 84 (206)
T ss_pred ccCCCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhCCCC--ceEEEEEecCCCCCC--cc----ccc-ccc--
Confidence 34567789999999999862 236889999999999999765 799999999865310 00 000 000
Q ss_pred cccccCccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhcC-CEEEEEeccCCCCCccccccc
Q 002239 604 EDVYTPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG-GKLLVFQSVLPSVGIGALSAR 682 (948)
Q Consensus 604 dd~FvPl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~G-GkIivF~sg~Pt~GpG~L~~r 682 (948)
..+....+--.....++.+.+.|+.|.. ....+.++.||+.|..+++... ..||++++|..+.+...
T Consensus 85 ---~~~~~~~~~~~~~~~~~~l~~~i~~i~~-----~~G~T~l~~aL~~a~~~l~~~~~~~iillTDG~~~~~~~~---- 152 (206)
T cd01456 85 ---KGCLTAPVNGFPSAQRSALDAALNSLQT-----PTGWTPLAAALAEAAAYVDPGRVNVVVLITDGEDTCGPDP---- 152 (206)
T ss_pred ---ccccccccCCCCcccHHHHHHHHHhhcC-----CCCcChHHHHHHHHHHHhCCCCcceEEEEcCCCccCCCCH----
Confidence 0011000000001246667777777761 2456789999999999996222 57999999887643200
Q ss_pred ccccCCCCCCCccccccccchhHHHHHHHHHHH-HhcCeEEEEEEccCccccccccccccccCcceE
Q 002239 683 EAEGRSNISSGEKETHKLLQPADKTLKAMAIEF-AEYQVCVDVFITTQTYVDIASISVIPKTTGGQV 748 (948)
Q Consensus 683 ed~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~-~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v 748 (948)
.+..+++..+. .+.+|.|+++.++.+ .|...|..|++.|||..
T Consensus 153 ----------------------~~~~~~~~~~~~~~~~i~i~~igiG~~-~~~~~l~~iA~~tgG~~ 196 (206)
T cd01456 153 ----------------------CEVARELAKRRTPAPPIKVNVIDFGGD-ADRAELEAIAEATGGTY 196 (206)
T ss_pred ----------------------HHHHHHHHHhcCCCCCceEEEEEecCc-ccHHHHHHHHHhcCCeE
Confidence 00112222110 225899999999865 67789999999999988
No 22
>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=98.63 E-value=5.2e-07 Score=90.43 Aligned_cols=147 Identities=16% Similarity=0.198 Sum_probs=104.9
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccccce
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDII 615 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~lL 615 (948)
.+||||+|.++.. ..++.++++|...++.|+++ .+||||+|++..+.+. .+.+.
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 5799999998843 35788999999999999865 6899999998765321 00000
Q ss_pred eehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc-----CCEEEEEeccCCCCCcccccccccccCCCC
Q 002239 616 VPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-----GGKLLVFQSVLPSVGIGALSAREAEGRSNI 690 (948)
Q Consensus 616 v~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~-----GGkIivF~sg~Pt~GpG~L~~red~~rsn~ 690 (948)
-.+.++.+.++|+.|. ....++++.||+.|..+++.. ...||++++|.++.|. . .
T Consensus 57 --~~~~~~~~~~~i~~~~------~~g~T~~~~al~~a~~~~~~~~~~~~~~~iillTDG~~~~~~-----~---~---- 116 (155)
T cd01466 57 --TAKGKRSAKRVVDGLQ------AGGGTNVVGGLKKALKVLGDRRQKNPVASIMLLSDGQDNHGA-----V---V---- 116 (155)
T ss_pred --CHHHHHHHHHHHHhcc------CCCCccHHHHHHHHHHHHhhcccCCCceEEEEEcCCCCCcch-----h---h----
Confidence 0123556667777763 245679999999999998743 2579999999876540 0 0
Q ss_pred CCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEe
Q 002239 691 SSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYY 751 (948)
Q Consensus 691 ~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y 751 (948)
.++.+.+|.|..+.++. ..|..+|..|+..|||+.|+.
T Consensus 117 ----------------------~~~~~~~v~v~~igig~-~~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 117 ----------------------LRADNAPIPIHTFGLGA-SHDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred ----------------------hcccCCCceEEEEecCC-CCCHHHHHHHHhccCceEEEe
Confidence 01124678888888864 467789999999999999875
No 23
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=98.54 E-value=1.2e-06 Score=86.72 Aligned_cols=151 Identities=14% Similarity=0.163 Sum_probs=102.5
Q ss_pred EEEEEEcchhHHhhh----HHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCcc
Q 002239 536 FFFLIDVSMNALQTG----ATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQ 611 (948)
Q Consensus 536 yvFvIDVS~~av~sG----~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~ 611 (948)
+|||||+|.++...+ .++.+++++...++.+++ .+|+|++|++..++.
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 689999999986542 588899999999998874 499999999754211
Q ss_pred ccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhcC---CEEEEEeccCCCCCcccccccccccCC
Q 002239 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG---GKLLVFQSVLPSVGIGALSAREAEGRS 688 (948)
Q Consensus 612 ~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~G---GkIivF~sg~Pt~GpG~L~~red~~rs 688 (948)
.++...++.+.+.|+++.... ......+++.||..|.++++... ..|++|++|.++ ..
T Consensus 54 ----~~~t~~~~~~~~~l~~~~~~~--~~~~~t~~~~al~~a~~~~~~~~~~~~~iv~iTDG~~~-----------~~-- 114 (172)
T PF13519_consen 54 ----SPLTSDKDELKNALNKLSPQG--MPGGGTNLYDALQEAAKMLASSDNRRRAIVLITDGEDN-----------SS-- 114 (172)
T ss_dssp ----EEEESSHHHHHHHHHTHHHHG----SSS--HHHHHHHHHHHHHC-SSEEEEEEEEES-TTH-----------CH--
T ss_pred ----ccccccHHHHHHHhhcccccc--cCccCCcHHHHHHHHHHHHHhCCCCceEEEEecCCCCC-----------cc--
Confidence 011123555666666665321 12445789999999999998653 356777776432 00
Q ss_pred CCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeC
Q 002239 689 NISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYY 752 (948)
Q Consensus 689 n~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~ 752 (948)
..+.+.++.+.+|.|.++.+..+...-..|..|++.|||..+...
T Consensus 115 -------------------~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~~~~ 159 (172)
T PF13519_consen 115 -------------------DIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGRYFHVD 159 (172)
T ss_dssp -------------------HHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEEEEEE-
T ss_pred -------------------hhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCEEEEec
Confidence 012566788999999999998877766789999999999988873
No 24
>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=98.52 E-value=1.7e-05 Score=96.10 Aligned_cols=286 Identities=11% Similarity=0.073 Sum_probs=164.3
Q ss_pred CCCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccC
Q 002239 530 DPMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTP 609 (948)
Q Consensus 530 ~p~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvP 609 (948)
...+..++||||+|.++.. ..++.++++|..+|+.|.++ .+|+||+||+.++.+.-. .+ +
T Consensus 268 ~~~p~~vvfvlD~SgSM~g-~~i~~ak~al~~~l~~L~~~--d~~~ii~F~~~~~~~~~~--------~~---------~ 327 (596)
T TIGR03788 268 QVLPRELVFVIDTSGSMAG-ESIEQAKSALLLALDQLRPG--DRFNIIQFDSDVTLLFPV--------PV---------P 327 (596)
T ss_pred cCCCceEEEEEECCCCCCC-ccHHHHHHHHHHHHHhCCCC--CEEEEEEECCcceEeccc--------cc---------c
Confidence 3456789999999998853 34678899999999999865 699999999998754210 00 0
Q ss_pred ccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc-C---CEEEEEeccCCCCCcccccccccc
Q 002239 610 LQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-G---GKLLVFQSVLPSVGIGALSAREAE 685 (948)
Q Consensus 610 l~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~-G---GkIivF~sg~Pt~GpG~L~~red~ 685 (948)
. -.+.++.+..+|+.|.. ...+.+..||+.|+...... . -+||++++|..+-
T Consensus 328 ~-------~~~~~~~a~~~i~~l~a------~GgT~l~~aL~~a~~~~~~~~~~~~~~iillTDG~~~~----------- 383 (596)
T TIGR03788 328 A-------TAHNLARARQFVAGLQA------DGGTEMAGALSAALRDDGPESSGALRQVVFLTDGAVGN----------- 383 (596)
T ss_pred C-------CHHHHHHHHHHHhhCCC------CCCccHHHHHHHHHHhhcccCCCceeEEEEEeCCCCCC-----------
Confidence 0 01233444455665542 35578999999998875332 1 2588888875210
Q ss_pred cCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchhhHHHH
Q 002239 686 GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYN 765 (948)
Q Consensus 686 ~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~~kL~~ 765 (948)
+ ...++.+. ....++.|..|.++.+ .|-..|..|++.+||..++..+ .+...+++.+
T Consensus 384 -----------~-------~~~~~~~~--~~~~~~ri~tvGiG~~-~n~~lL~~lA~~g~G~~~~i~~--~~~~~~~~~~ 440 (596)
T TIGR03788 384 -----------E-------DALFQLIR--TKLGDSRLFTVGIGSA-PNSYFMRKAAQFGRGSFTFIGS--TDEVQRKMSQ 440 (596)
T ss_pred -----------H-------HHHHHHHH--HhcCCceEEEEEeCCC-cCHHHHHHHHHcCCCEEEECCC--HHHHHHHHHH
Confidence 0 01122221 1234577777777654 5678899999999998776643 2222334444
Q ss_pred HHHHhccCCccccceeEEEeCCCceEeeeecccccCCCCceeecCCCCCceEEEEEEecCCCCCCCceeEEEEEEEEecC
Q 002239 766 DLRWNITRPQGFEAVMRVRCSQGIQVQEYHGNFCKRIPTDIDLPAIDCNKAIMVTLKHDDKLQDGSECAFQCALLYTTVY 845 (948)
Q Consensus 766 dL~r~ltr~~g~da~mrVR~S~GL~V~~~~Gnf~~rst~~~~lp~id~dtSia~el~~d~~L~~~~~~yIQ~AlLYT~~~ 845 (948)
.|.+ +.....-+..+++.. ..+..++ .-.++.+.....+.+..++... ...+ .+..+..+
T Consensus 441 ~l~~-~~~p~l~~v~v~~~~---~~~~~v~---------P~~~p~L~~g~~l~v~g~~~~~---~~~i----~v~g~~~~ 500 (596)
T TIGR03788 441 LFAK-LEQPALTDIALTFDN---GNAADVY---------PSPIPDLYRGEPLQIAIKLQQA---AGEL----QLTGRTGS 500 (596)
T ss_pred HHHh-hcCeEEEEEEEEEcC---Cccceec---------cCCCccccCCCEEEEEEEecCC---CCeE----EEEEEcCC
Confidence 4433 555566666666532 2222222 2245566667777777765331 1122 23333232
Q ss_pred CcEEEEEEcCcccccCCHhHHHhhCCHHHHHHHHHHHHHHhcCCCCh-HHHHHHHHHHHHHHHHHHHHhc
Q 002239 846 GQRRIRVTTLSLPCTSNLSNLYRSADLDTQFTCFMKQAASEIPSTPL-ANVREQMMNLCVNALVSYRKFC 914 (948)
Q Consensus 846 GeRRIRV~Tl~lpVts~l~~vf~saD~eAi~~llaK~a~~~~~~~~l-~daR~~L~~~lv~iL~~YRk~c 914 (948)
+. .+ ..+.+... .+-..+-.++||+-+..+..... ..-++.+.++++++=.+|+-.|
T Consensus 501 ~~--~~---~~~~~~~~-------~~~~~l~~lwA~~~I~~L~~~~~~~~~~~~~~~~Ii~Lsl~y~lvT 558 (596)
T TIGR03788 501 QP--WS---QQLDLDSA-------APGKGIDKLWARRKIDSLEDSLRYGANEEKVKDQVTALALNHHLVS 558 (596)
T ss_pred ce--EE---EEEecCCC-------CCcchHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHhCCCC
Confidence 22 21 22222211 13344677788877776653211 0112457778888877887655
No 25
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.52 E-value=6e-06 Score=102.39 Aligned_cols=168 Identities=17% Similarity=0.219 Sum_probs=110.3
Q ss_pred CcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhc-CCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCcc
Q 002239 533 PAVFFFLIDVSMNALQTGATAAACSAISQVISD-LPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQ 611 (948)
Q Consensus 533 pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~-LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~ 611 (948)
...++||||+|.++.....++.++++++..|.. |..+ .+||||+||+..++.. + +.++.
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 456899999999985434577788888876654 4433 6999999999875421 0 01110
Q ss_pred ccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHh-----cCCEEEEEeccCCCCCccccccccccc
Q 002239 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS-----TGGKLLVFQSVLPSVGIGALSAREAEG 686 (948)
Q Consensus 612 ~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~-----~GGkIivF~sg~Pt~GpG~L~~red~~ 686 (948)
+ ...++.|...|... ....++++.||+.|+++|+. .+..||++++|..+.+
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 11233333333311 24578999999999999975 2467888887753210
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchhhHHHHH
Q 002239 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYND 766 (948)
Q Consensus 687 rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~~kL~~d 766 (948)
+++..++.+++|.|+.|.++.+.- ..|..|++.|||..|+..+= .+...|...
T Consensus 420 ----------------------~~~l~~lk~~gVtI~TIg~G~dad--~~L~~IA~~TGG~~f~asd~---~dl~~L~dA 472 (863)
T TIGR00868 420 ----------------------SSCFEEVKQSGAIIHTIALGPSAA--KELEELSDMTGGLRFYASDQ---ADNNGLIDA 472 (863)
T ss_pred ----------------------HHHHHHHHHcCCEEEEEEeCCChH--HHHHHHHHhcCCEEEEeCCH---HHHHHHHHH
Confidence 123445667899999999987643 35899999999999988641 233456655
Q ss_pred HHHhc
Q 002239 767 LRWNI 771 (948)
Q Consensus 767 L~r~l 771 (948)
|.++.
T Consensus 473 F~~is 477 (863)
T TIGR00868 473 FGALS 477 (863)
T ss_pred HHHHh
Confidence 55543
No 26
>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=98.45 E-value=5.9e-06 Score=85.08 Aligned_cols=168 Identities=11% Similarity=0.067 Sum_probs=98.7
Q ss_pred cEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEE-ecCcCCCCceEeeccCccccccCccc
Q 002239 534 AVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDVYTPLQS 612 (948)
Q Consensus 534 p~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~Vhfy-nL~~~l~qpqmlVvsDldd~FvPl~~ 612 (948)
.-.+||||+|.+.-.. ....++.+++.++.+.. ++.+||||+|++..++. .+..
T Consensus 5 ~Dvv~llD~SgSm~~~--~~~~~~~~~~l~~~~~~-~~~rvglv~Fs~~~~~~~~l~~---------------------- 59 (185)
T cd01474 5 FDLYFVLDKSGSVAAN--WIEIYDFVEQLVDRFNS-PGLRFSFITFSTRATKILPLTD---------------------- 59 (185)
T ss_pred eeEEEEEeCcCchhhh--HHHHHHHHHHHHHHcCC-CCcEEEEEEecCCceEEEeccc----------------------
Confidence 3579999999987542 23344666666666532 34899999999875431 1110
Q ss_pred cceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHH--hcCCE-----EEEEeccCCCCCcccccccccc
Q 002239 613 DIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALK--STGGK-----LLVFQSVLPSVGIGALSAREAE 685 (948)
Q Consensus 613 ~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~--~~GGk-----IivF~sg~Pt~GpG~L~~red~ 685 (948)
..+.+.+.|+.|..+.. ...+++|.||+.|.+.|. ..||+ ||++++|..+-..
T Consensus 60 --------~~~~~~~~l~~l~~~~~---~g~T~~~~aL~~a~~~l~~~~~~~r~~~~~villTDG~~~~~~--------- 119 (185)
T cd01474 60 --------DSSAIIKGLEVLKKVTP---SGQTYIHEGLENANEQIFNRNGGGRETVSVIIALTDGQLLLNG--------- 119 (185)
T ss_pred --------cHHHHHHHHHHHhccCC---CCCCcHHHHHHHHHHHHHhhccCCCCCCeEEEEEcCCCcCCCC---------
Confidence 01123344444544322 356899999999998773 33442 7888888653100
Q ss_pred cCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEE-EeCCCCCCchhhHHH
Q 002239 686 GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVY-YYYPFSALSDPAKLY 764 (948)
Q Consensus 686 ~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~-~y~~F~~~~d~~kL~ 764 (948)
. .+ -...+.++.+.||.|..+.+ ...|..+|..++..++ .+| ...+|+ .-..+.
T Consensus 120 ~-------~~------------~~~~a~~l~~~gv~i~~vgv--~~~~~~~L~~iA~~~~-~~f~~~~~~~---~l~~~~ 174 (185)
T cd01474 120 H-------KY------------PEHEAKLSRKLGAIVYCVGV--TDFLKSQLINIADSKE-YVFPVTSGFQ---ALSGII 174 (185)
T ss_pred C-------cc------------hHHHHHHHHHcCCEEEEEee--chhhHHHHHHHhCCCC-eeEecCccHH---HHHHHH
Confidence 0 00 01234566678887666665 5568888999998775 444 334443 223445
Q ss_pred HHHHHhc
Q 002239 765 NDLRWNI 771 (948)
Q Consensus 765 ~dL~r~l 771 (948)
++|.+.+
T Consensus 175 ~~~~~~~ 181 (185)
T cd01474 175 ESVVKKA 181 (185)
T ss_pred HHHHHhh
Confidence 5555444
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=98.39 E-value=8e-06 Score=82.11 Aligned_cols=151 Identities=15% Similarity=0.126 Sum_probs=97.4
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC-CCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccccc
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEG-PRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDI 614 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~-~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~l 614 (948)
.+||||+|.+.... -++.++++++..+..|... .+.+||||+|++..+..- . +.+
T Consensus 3 vv~vlD~SgSm~~~-~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~~~-~----------~~~------------ 58 (164)
T cd01472 3 IVFLVDGSESIGLS-NFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRTEF-Y----------LNT------------ 58 (164)
T ss_pred EEEEEeCCCCCCHH-HHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCceeEEE-e----------cCC------------
Confidence 58999999987553 4678888899888887522 347999999998766421 0 000
Q ss_pred eeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc------C--CEEEEEeccCCCCCccccccccccc
Q 002239 615 IVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST------G--GKLLVFQSVLPSVGIGALSAREAEG 686 (948)
Q Consensus 615 Lv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~------G--GkIivF~sg~Pt~GpG~L~~red~~ 686 (948)
...++.+.+.|+.|... ...+.+|.||..|.+.|... + ..||++++|.++.+
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 01234455567777642 34568999999999988641 1 34677777643210
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcc-eEEEeCC
Q 002239 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGG-QVYYYYP 753 (948)
Q Consensus 687 rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG-~v~~y~~ 753 (948)
....+.++.+.||.|..+.+... |...|..|+..++| .++.+.+
T Consensus 119 ---------------------~~~~~~~l~~~gv~i~~ig~g~~--~~~~L~~ia~~~~~~~~~~~~~ 163 (164)
T cd01472 119 ---------------------VEEPAVELKQAGIEVFAVGVKNA--DEEELKQIASDPKELYVFNVAD 163 (164)
T ss_pred ---------------------HHHHHHHHHHCCCEEEEEECCcC--CHHHHHHHHCCCchheEEeccC
Confidence 01123345567776665555543 88999999999987 5555543
No 28
>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=98.38 E-value=2.1e-05 Score=86.89 Aligned_cols=158 Identities=18% Similarity=0.216 Sum_probs=102.4
Q ss_pred CCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhc-CCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCc
Q 002239 532 MPAVFFFLIDVSMNALQTGATAAACSAISQVISD-LPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPL 610 (948)
Q Consensus 532 ~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~-LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl 610 (948)
.|...+||||+|.++.. .++.++++++..|+. +.. +.+|+||+|++.+++.. ++
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 47789999999998854 477888888888877 543 37999999998776421 10
Q ss_pred cccceeehHHhHHHHHHHHhhcccccc---------CCCCCcccHHHHHHHH-HHHHHhc-----CCE-EEEEeccCCCC
Q 002239 611 QSDIIVPVSECRQHLELLLESIPSMFQ---------NNRTAESAFGAAVKAA-FLALKST-----GGK-LLVFQSVLPSV 674 (948)
Q Consensus 611 ~~~lLv~l~Esr~~I~~lLd~Lp~~f~---------~~~~~~~alG~AL~aA-~~lL~~~-----GGk-IivF~sg~Pt~ 674 (948)
...++.|.+.|+.|..... ......+++..||..| ..++... |-| ||+|++|.-+
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 1124456666777653110 0114556788887544 4555432 323 6666665311
Q ss_pred CcccccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCcc------------ccccccccccc
Q 002239 675 GIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTY------------VDIASISVIPK 742 (948)
Q Consensus 675 GpG~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~------------vDlatL~~Ls~ 742 (948)
....-++++...|.+++|.|..+.+.... .+-..|..|++
T Consensus 178 ----------------------------~~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L~~iA~ 229 (296)
T TIGR03436 178 ----------------------------RSRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEALERLAE 229 (296)
T ss_pred ----------------------------chHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHHHHHHH
Confidence 01123567778888999999888775321 24467999999
Q ss_pred cCcceEEEe
Q 002239 743 TTGGQVYYY 751 (948)
Q Consensus 743 ~TGG~v~~y 751 (948)
.|||+.++.
T Consensus 230 ~TGG~~~~~ 238 (296)
T TIGR03436 230 ETGGRAFYV 238 (296)
T ss_pred HhCCeEecc
Confidence 999997664
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=98.38 E-value=1.7e-05 Score=79.44 Aligned_cols=157 Identities=16% Similarity=0.177 Sum_probs=102.8
Q ss_pred CcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccc
Q 002239 533 PAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQS 612 (948)
Q Consensus 533 pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~ 612 (948)
|..++||||+|.++.. ..++.++++|...|+.|+.+ .+|+||+|++.++.+- .. +.+
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 4568999999999853 23778899999999999765 6899999998876431 00 000
Q ss_pred cceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHh---cCCEEEEEeccCCCCCcccccccccccCCC
Q 002239 613 DIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---TGGKLLVFQSVLPSVGIGALSAREAEGRSN 689 (948)
Q Consensus 613 ~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~---~GGkIivF~sg~Pt~GpG~L~~red~~rsn 689 (948)
.+ .+.+..+.+.|+.+.. ...+.+..||..|...++. ....|++|++|..+.
T Consensus 59 ---~~-~~~~~~~~~~l~~~~~------~g~T~l~~al~~a~~~l~~~~~~~~~iillTDG~~~~--------------- 113 (171)
T cd01461 59 ---AT-AENVAAAIEYVNRLQA------LGGTNMNDALEAALELLNSSPGSVPQIILLTDGEVTN--------------- 113 (171)
T ss_pred ---CC-HHHHHHHHHHHHhcCC------CCCcCHHHHHHHHHHhhccCCCCccEEEEEeCCCCCC---------------
Confidence 00 1122233344444432 3456789999999998874 225677777765210
Q ss_pred CCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCC
Q 002239 690 ISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYP 753 (948)
Q Consensus 690 ~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~ 753 (948)
..+++ +..+++.+.+|.|..+.++. ..|-..|..|++.|||..++..+
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 01222 33444555588888777764 35667899999999999999875
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=98.31 E-value=1e-05 Score=84.15 Aligned_cols=167 Identities=14% Similarity=0.131 Sum_probs=102.7
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC-CCceEEEEEeCCeEEEE-ecCcCCCCceEeeccCccccccCcccc
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEG-PRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDVYTPLQSD 613 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~-~rtrVGiITFds~Vhfy-nL~~~l~qpqmlVvsDldd~FvPl~~~ 613 (948)
++||||+|.++-.. -++.++++|+..++.|... .+.+||||+|++.++.. .+...
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 78999999987544 3688999999999988642 24799999999876532 22110
Q ss_pred ceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHh---------cCC--EEEEEeccCCCCCccccccc
Q 002239 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---------TGG--KLLVFQSVLPSVGIGALSAR 682 (948)
Q Consensus 614 lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~---------~GG--kIivF~sg~Pt~GpG~L~~r 682 (948)
....++.+...|+.+..... .....+.++.||+.+.+.|.. .++ .||+|++|.++.|... +
T Consensus 60 ----~~~~~~~~~~~l~~~~~~~~-~~~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~~---~ 131 (198)
T cd01470 60 ----NSNDADDVIKRLEDFNYDDH-GDKTGTNTAAALKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGGSP---L 131 (198)
T ss_pred ----CCCCHHHHHHHHHhCCcccc-cCccchhHHHHHHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCCCh---h
Confidence 00112334445666543211 112457889999998876631 012 3789999998865210 0
Q ss_pred ccccCCCCCCCccccccccchhHHHHHHHHH------HHHhcCeEEEEEEccCccccccccccccccCcce--EEEeCCC
Q 002239 683 EAEGRSNISSGEKETHKLLQPADKTLKAMAI------EFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQ--VYYYYPF 754 (948)
Q Consensus 683 ed~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~------~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~--v~~y~~F 754 (948)
...+.++++.. .+.+.+|+|..|.++. .+|..+|..|+..|||+ +|+..+|
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 00112222211 1234567776666654 46889999999999994 5555554
No 31
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=98.23 E-value=2.8e-05 Score=81.17 Aligned_cols=133 Identities=18% Similarity=0.218 Sum_probs=91.8
Q ss_pred EEEEEEEcchhHHhh----hHHHHHHHHHHHHH----hcCCCCCCceEEEEEeCC-eEEEEecCcCCCCceEeeccCccc
Q 002239 535 VFFFLIDVSMNALQT----GATAAACSAISQVI----SDLPEGPRTMVGIATFDS-TIHFYNLKRALQQPLMLIVPDVED 605 (948)
Q Consensus 535 ~yvFvIDVS~~av~s----G~l~~v~~sI~~~L----~~LP~~~rtrVGiITFds-~VhfynL~~~l~qpqmlVvsDldd 605 (948)
+.+|+||+|.++.+. ..|++.++++...+ +..++ .+||||+|.+ .-++
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 568999999987542 36888888888764 55555 5999999986 3322
Q ss_pred cccCccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc-----CCEEEEEeccCCCCCccccc
Q 002239 606 VYTPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-----GGKLLVFQSVLPSVGIGALS 680 (948)
Q Consensus 606 ~FvPl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~-----GGkIivF~sg~Pt~GpG~L~ 680 (948)
++++......+...|+.+.. ..+..++.||+.|..+|++. ..||++|.++.-+.
T Consensus 62 ---------~~plT~D~~~~~~~L~~i~~------~g~~~l~~AL~~A~~~L~~~~~~~~~~rivi~v~S~~~~------ 120 (187)
T cd01452 62 ---------LVTLTNDQGKILSKLHDVQP------KGKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIEE------ 120 (187)
T ss_pred ---------EECCCCCHHHHHHHHHhCCC------CCcchHHHHHHHHHHHHhcCCCcCCcceEEEEEecCCcC------
Confidence 12223335566677776652 25567999999999999742 25889998865221
Q ss_pred ccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccc
Q 002239 681 AREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDI 734 (948)
Q Consensus 681 ~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDl 734 (948)
.+ .+ ..++++++.+++|.||++.++...-+.
T Consensus 121 ---------------d~-------~~-i~~~~~~lkk~~I~v~vI~~G~~~~~~ 151 (187)
T cd01452 121 ---------------DE-------KD-LVKLAKRLKKNNVSVDIINFGEIDDNT 151 (187)
T ss_pred ---------------CH-------HH-HHHHHHHHHHcCCeEEEEEeCCCCCCH
Confidence 01 12 346899999999999999987653333
No 32
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.22 E-value=1.8e-05 Score=78.64 Aligned_cols=150 Identities=19% Similarity=0.277 Sum_probs=99.8
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccccce
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDII 615 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~lL 615 (948)
.|||||+|.++... .+.++++|+.+|+.|.++ .++.||+||+.++.|.-. +
T Consensus 3 vvilvD~S~Sm~g~--~~~~k~al~~~l~~L~~~--d~fnii~f~~~~~~~~~~-------------------------~ 53 (155)
T PF13768_consen 3 VVILVDTSGSMSGE--KELVKDALRAILRSLPPG--DRFNIIAFGSSVRPLFPG-------------------------L 53 (155)
T ss_pred EEEEEeCCCCCCCc--HHHHHHHHHHHHHhCCCC--CEEEEEEeCCEeeEcchh-------------------------H
Confidence 68999999988543 288999999999999876 799999999987754311 1
Q ss_pred eehH-HhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHh--cCCEEEEEeccCCCCCcccccccccccCCCCCC
Q 002239 616 VPVS-ECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS--TGGKLLVFQSVLPSVGIGALSAREAEGRSNISS 692 (948)
Q Consensus 616 v~l~-Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~--~GGkIivF~sg~Pt~GpG~L~~red~~rsn~~~ 692 (948)
+..+ +.++.+.+.|+++.. ....+.+..||+.|+..+.. .--.|+++++|.++.+.
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 223334444444432 14557899999999988733 33578888888763211
Q ss_pred CccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEE
Q 002239 693 GEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYY 750 (948)
Q Consensus 693 gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~ 750 (948)
+...+.+ .++ ...+.|+.|.++. ..+-..|..|++.|||..++
T Consensus 113 ------------~~i~~~v-~~~-~~~~~i~~~~~g~-~~~~~~L~~LA~~~~G~~~f 155 (155)
T PF13768_consen 113 ------------EEILDLV-RRA-RGHIRIFTFGIGS-DADADFLRELARATGGSFHF 155 (155)
T ss_pred ------------HHHHHHH-Hhc-CCCceEEEEEECC-hhHHHHHHHHHHcCCCEEEC
Confidence 1112222 122 2457788887766 35568899999999998764
No 33
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=98.16 E-value=3.5e-05 Score=79.62 Aligned_cols=157 Identities=14% Similarity=0.089 Sum_probs=101.6
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-------CCCceEEEEEeCCeEEEE-ecCcCCCCceEeeccCcccc
Q 002239 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPE-------GPRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDV 606 (948)
Q Consensus 535 ~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~-------~~rtrVGiITFds~Vhfy-nL~~~l~qpqmlVvsDldd~ 606 (948)
-.+||||.|.+.-.+. ++.+++.++..++.|.. ....+||||+|++..++. .+..
T Consensus 4 dvv~vlD~S~Sm~~~~-~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~~~~~l~~---------------- 66 (186)
T cd01480 4 DITFVLDSSESVGLQN-FDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQEVEAGFLR---------------- 66 (186)
T ss_pred eEEEEEeCCCccchhh-HHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCceeeEeccc----------------
Confidence 4689999999875444 56677777777777621 124799999999875431 1100
Q ss_pred ccCccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHh---cC--CEEEEEeccCCCCCcccccc
Q 002239 607 YTPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---TG--GKLLVFQSVLPSVGIGALSA 681 (948)
Q Consensus 607 FvPl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~---~G--GkIivF~sg~Pt~GpG~L~~ 681 (948)
. ...++.+.+.|++|... ...+++|.||+.|...+.. .+ -.||++++|..+.+.
T Consensus 67 ------~-----~~~~~~l~~~i~~l~~~-----gg~T~~~~AL~~a~~~l~~~~~~~~~~~iillTDG~~~~~~----- 125 (186)
T cd01480 67 ------D-----IRNYTSLKEAVDNLEYI-----GGGTFTDCALKYATEQLLEGSHQKENKFLLVITDGHSDGSP----- 125 (186)
T ss_pred ------c-----cCCHHHHHHHHHhCccC-----CCCccHHHHHHHHHHHHhccCCCCCceEEEEEeCCCcCCCc-----
Confidence 0 02355566777777531 3457899999999998864 12 356777776542100
Q ss_pred cccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCC
Q 002239 682 REAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFS 755 (948)
Q Consensus 682 red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~ 755 (948)
..-.++.+.++.+.||.|-.+.++. .|...|..++...+|. |+-.+|.
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 0112445667778898877776655 6777899998877775 5555553
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=98.12 E-value=5.3e-05 Score=74.41 Aligned_cols=144 Identities=17% Similarity=0.154 Sum_probs=98.6
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCeEEEE-ecCcCCCCceEeeccCccccccCcccc
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDVYTPLQSD 613 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~-~~rtrVGiITFds~Vhfy-nL~~~l~qpqmlVvsDldd~FvPl~~~ 613 (948)
++||||+|.++-.. .++.+++.|...++.+.. +.+.+|+||+|++..+.. ++.. .
T Consensus 3 i~~llD~S~Sm~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~~~~~~~----------------------~ 59 (161)
T cd01450 3 IVFLLDGSESVGPE-NFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEFSLND----------------------Y 59 (161)
T ss_pred EEEEEeCCCCcCHH-HHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceEEEECCC----------------------C
Confidence 57999999987542 577888888888888763 245899999999854431 1110 0
Q ss_pred ceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhcC-------CEEEEEeccCCCCCccccccccccc
Q 002239 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG-------GKLLVFQSVLPSVGIGALSAREAEG 686 (948)
Q Consensus 614 lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~G-------GkIivF~sg~Pt~GpG~L~~red~~ 686 (948)
. .++.+.+.|+.+.... ...+.++.||+.|.+.+.... ..|++|++|.++.+.
T Consensus 60 ~------~~~~~~~~i~~~~~~~----~~~t~~~~al~~a~~~~~~~~~~~~~~~~~iiliTDG~~~~~~---------- 119 (161)
T cd01450 60 K------SKDDLLKAVKNLKYLG----GGGTNTGKALQYALEQLFSESNARENVPKVIIVLTDGRSDDGG---------- 119 (161)
T ss_pred C------CHHHHHHHHHhcccCC----CCCccHHHHHHHHHHHhcccccccCCCCeEEEEECCCCCCCCc----------
Confidence 0 2344555666654321 146789999999999887542 358888888765421
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccC
Q 002239 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTT 744 (948)
Q Consensus 687 rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~T 744 (948)
-.+++.+++.+.+|.|..+.++. .|...|..|+..|
T Consensus 120 --------------------~~~~~~~~~~~~~v~v~~i~~g~--~~~~~l~~la~~~ 155 (161)
T cd01450 120 --------------------DPKEAAAKLKDEGIKVFVVGVGP--ADEEELREIASCP 155 (161)
T ss_pred --------------------chHHHHHHHHHCCCEEEEEeccc--cCHHHHHHHhCCC
Confidence 12455667777899888888766 6777888888887
No 35
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=98.11 E-value=9.8e-05 Score=87.78 Aligned_cols=164 Identities=9% Similarity=0.092 Sum_probs=100.2
Q ss_pred CcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCeEE-EEecCcCCCCceEeeccCccccccCc
Q 002239 533 PAVFFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIH-FYNLKRALQQPLMLIVPDVEDVYTPL 610 (948)
Q Consensus 533 pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~-~~rtrVGiITFds~Vh-fynL~~~l~qpqmlVvsDldd~FvPl 610 (948)
..-++||||+|.+.-...+++.++..|+.+++.+.. ..+++|++|+|++..+ ++.+.....
T Consensus 42 ~lDIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r~vfpL~s~~s----------------- 104 (576)
T PTZ00441 42 EVDLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTTELIRLGSGAS----------------- 104 (576)
T ss_pred CceEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCceEEEecCCCcc-----------------
Confidence 345899999999886666777788888888888753 2358899999998754 333332100
Q ss_pred cccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhcC------CEEEEEeccCCCCCccccccccc
Q 002239 611 QSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG------GKLLVFQSVLPSVGIGALSAREA 684 (948)
Q Consensus 611 ~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~G------GkIivF~sg~Pt~GpG~L~~red 684 (948)
.+ ++.+...|..|..... ....+.++.||..|...|...+ +.||||++|..+.+ +
T Consensus 105 -----~D----k~~aL~~I~sL~~~~~--pgGgTnig~AL~~Aae~L~sr~~R~nvpKVVILLTDG~sns~-------~- 165 (576)
T PTZ00441 105 -----KD----KEQALIIVKSLRKTYL--PYGKTNMTDALLEVRKHLNDRVNRENAIQLVILMTDGIPNSK-------Y- 165 (576)
T ss_pred -----cc----HHHHHHHHHHHHhhcc--CCCCccHHHHHHHHHHHHhhcccccCCceEEEEEecCCCCCc-------c-
Confidence 01 1222223333322111 1345779999999988887543 56888888775310 0
Q ss_pred ccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCcccccccccccc----ccCcceEEEeCCCC
Q 002239 685 EGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIP----KTTGGQVYYYYPFS 755 (948)
Q Consensus 685 ~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls----~~TGG~v~~y~~F~ 755 (948)
+ ..+.+..+.+.||.|-+|.++. .+|...+..|+ ..++|.+|.+.+|+
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 0133556777888777776654 45544444444 33456777777874
No 36
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=98.07 E-value=9.3e-05 Score=78.76 Aligned_cols=169 Identities=18% Similarity=0.205 Sum_probs=105.9
Q ss_pred cEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC-CCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccc
Q 002239 534 AVFFFLIDVSMNALQTGATAAACSAISQVISDLPEG-PRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQS 612 (948)
Q Consensus 534 p~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~-~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~ 612 (948)
.-.+||||.|.+.-... ++.+++.|++.++.|.-. ..++||||+|++.+++.- ++.+.
T Consensus 3 ~DlvfllD~S~Sm~~~~-~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~~~~--------------~l~~~------ 61 (224)
T cd01475 3 TDLVFLIDSSRSVRPEN-FELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQEF--------------PLGRF------ 61 (224)
T ss_pred ccEEEEEeCCCCCCHHH-HHHHHHHHHHHHHhcccCCCccEEEEEEecCceeEEe--------------ccccc------
Confidence 34799999999864433 678899999988887532 358999999999876420 11100
Q ss_pred cceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHH-Hh-cC--------CE-EEEEeccCCCCCcccccc
Q 002239 613 DIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLAL-KS-TG--------GK-LLVFQSVLPSVGIGALSA 681 (948)
Q Consensus 613 ~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL-~~-~G--------Gk-IivF~sg~Pt~GpG~L~~ 681 (948)
.+++.|.+.|+.|..+ ...+.+|.||+.|...+ .. .| -| ||+|++|..+-
T Consensus 62 -------~~~~~l~~~i~~i~~~-----~~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvvillTDG~s~~------- 122 (224)
T cd01475 62 -------KSKADLKRAVRRMEYL-----ETGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVGIVVTDGRPQD------- 122 (224)
T ss_pred -------CCHHHHHHHHHhCcCC-----CCCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEEEEEcCCCCcc-------
Confidence 1234456667766542 23457899999988643 21 11 13 56777664310
Q ss_pred cccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcc-eEEEeCCCCCCchh
Q 002239 682 REAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGG-QVYYYYPFSALSDP 760 (948)
Q Consensus 682 red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG-~v~~y~~F~~~~d~ 760 (948)
-+++++.++.+.||.|-.+.++ ..|...|..|+..+++ .+++..+|+ +.
T Consensus 123 -------------------------~~~~~a~~lk~~gv~i~~VgvG--~~~~~~L~~ias~~~~~~~f~~~~~~---~l 172 (224)
T cd01475 123 -------------------------DVSEVAAKARALGIEMFAVGVG--RADEEELREIASEPLADHVFYVEDFS---TI 172 (224)
T ss_pred -------------------------cHHHHHHHHHHCCcEEEEEeCC--cCCHHHHHHHhCCCcHhcEEEeCCHH---HH
Confidence 0245677788888765555444 4678899999987654 566666664 23
Q ss_pred hHHHHHHHHhcc
Q 002239 761 AKLYNDLRWNIT 772 (948)
Q Consensus 761 ~kL~~dL~r~lt 772 (948)
+++.++|...+.
T Consensus 173 ~~~~~~l~~~~C 184 (224)
T cd01475 173 EELTKKFQGKIC 184 (224)
T ss_pred HHHhhhcccccC
Confidence 455555554443
No 37
>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=98.05 E-value=8e-05 Score=90.26 Aligned_cols=174 Identities=17% Similarity=0.213 Sum_probs=117.7
Q ss_pred CCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCcc
Q 002239 532 MPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQ 611 (948)
Q Consensus 532 ~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~ 611 (948)
....++||||+|.++. ...++.+++++...|..+-. .+-+||||+|++...-+-+ |.
T Consensus 406 ~~~~v~fvvD~SGSM~-~~rl~~aK~av~~Ll~~~~~-~~D~v~Li~F~~~~a~~~l--------------------p~- 462 (589)
T TIGR02031 406 SGRLLIFVVDASGSAA-VARMSEAKGAVELLLGEAYV-HRDQVSLIAFRGTAAEVLL--------------------PP- 462 (589)
T ss_pred cCceEEEEEECCCCCC-hHHHHHHHHHHHHHHHhhcc-CCCEEEEEEECCCCceEEC--------------------CC-
Confidence 4567889999999884 34588899999988876422 1258999999854311101 10
Q ss_pred ccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHh---cCC--EEEEEeccCCCCCccccccccccc
Q 002239 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---TGG--KLLVFQSVLPSVGIGALSAREAEG 686 (948)
Q Consensus 612 ~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~---~GG--kIivF~sg~Pt~GpG~L~~red~~ 686 (948)
..+++.+...|+.|+. ...+.++.||..|..+++. .++ .|+++++|..|+|.+....-+...
T Consensus 463 -------t~~~~~~~~~L~~l~~------gGgTpL~~gL~~A~~~~~~~~~~~~~~~ivllTDG~~nv~~~~~~~~~~~~ 529 (589)
T TIGR02031 463 -------SRSVEQAKRRLDVLPG------GGGTPLAAGLAAAFQTALQARSSGGTPTIVLITDGRGNIPLDGDPESIKAD 529 (589)
T ss_pred -------CCCHHHHHHHHhcCCC------CCCCcHHHHHHHHHHHHHHhcccCCceEEEEECCCCCCCCCCccccccccc
Confidence 1123334456777753 4557899999999999874 233 699999999998753110000000
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCC
Q 002239 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFS 755 (948)
Q Consensus 687 rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~ 755 (948)
.....+-...++.++.+.||.+-++-+...+.+..-+..|++..||..|+.++-+
T Consensus 530 --------------~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~y~~l~~~~ 584 (589)
T TIGR02031 530 --------------REQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAHYIYLPNAT 584 (589)
T ss_pred --------------chhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCcEEeCCCCC
Confidence 1112333466788899999888777777777777778899999999999998754
No 38
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell. In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners.
Probab=98.02 E-value=0.00016 Score=74.17 Aligned_cols=149 Identities=13% Similarity=0.108 Sum_probs=93.0
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCeEEE-EecCcCCCCceEeeccCccccccCcccc
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHF-YNLKRALQQPLMLIVPDVEDVYTPLQSD 613 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~-~~rtrVGiITFds~Vhf-ynL~~~l~qpqmlVvsDldd~FvPl~~~ 613 (948)
++||||+|.++-....++.+++.++..++.+.- ..+.+||||+|++..+. +++...
T Consensus 3 v~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~~~l~~~---------------------- 60 (186)
T cd01471 3 LYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELIRLSSP---------------------- 60 (186)
T ss_pred EEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEEEECCCc----------------------
Confidence 689999999987665578889989999988752 23489999999987653 222211
Q ss_pred ceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc-C------CEEEEEeccCCCCCccccccccccc
Q 002239 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-G------GKLLVFQSVLPSVGIGALSAREAEG 686 (948)
Q Consensus 614 lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~-G------GkIivF~sg~Pt~GpG~L~~red~~ 686 (948)
....++.+.++++.|..... ....+.++.||..|.+.+... + ..|+++++|.++.+.
T Consensus 61 ----~~~~~~~~~~~i~~l~~~~~--~~G~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~~~~---------- 124 (186)
T cd01471 61 ----NSTNKDLALNAIRALLSLYY--PNGSTNTTSALLVVEKHLFDTRGNRENAPQLVIIMTDGIPDSKF---------- 124 (186)
T ss_pred ----cccchHHHHHHHHHHHhCcC--CCCCccHHHHHHHHHHHhhccCCCcccCceEEEEEccCCCCCCc----------
Confidence 00112222334444332211 244578999999999999652 1 257888888754210
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCcccccccccccccc
Q 002239 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKT 743 (948)
Q Consensus 687 rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~ 743 (948)
+ . .+.++++.+.||.|-++.++. ..|...|..|+..
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 124556667788777766653 4666666666543
No 39
>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=97.99 E-value=0.00016 Score=74.22 Aligned_cols=156 Identities=14% Similarity=0.172 Sum_probs=100.2
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC-CCceEEEEEeCCeEEEE-ecCcCCCCceEeeccCccccccCcccc
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEG-PRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDVYTPLQSD 613 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~-~rtrVGiITFds~Vhfy-nL~~~l~qpqmlVvsDldd~FvPl~~~ 613 (948)
++|+||.|.+.-... ++.+++.++..++.|..+ ..+|||+|+|++..++. +|. |.
T Consensus 3 i~fvlD~S~S~~~~~-f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~~~~~l~------------~~---------- 59 (177)
T cd01469 3 IVFVLDGSGSIYPDD-FQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFRTEFTLN------------EY---------- 59 (177)
T ss_pred EEEEEeCCCCCCHHH-HHHHHHHHHHHHHHcCcCCCCcEEEEEEECCceeEEEecC------------cc----------
Confidence 689999999864433 678888899999888743 35899999999986532 221 11
Q ss_pred ceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHH--HhcCC------EEEEEeccCCCCCcccccccccc
Q 002239 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLAL--KSTGG------KLLVFQSVLPSVGIGALSAREAE 685 (948)
Q Consensus 614 lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL--~~~GG------kIivF~sg~Pt~GpG~L~~red~ 685 (948)
.+.+.+.++|+.+... ...+.+|.||+.|...+ ...|. .|+++++|..+.+.
T Consensus 60 ------~~~~~~~~~i~~~~~~-----~g~T~~~~AL~~a~~~l~~~~~g~R~~~~kv~illTDG~~~~~~--------- 119 (177)
T cd01469 60 ------RTKEEPLSLVKHISQL-----LGLTNTATAIQYVVTELFSESNGARKDATKVLVVITDGESHDDP--------- 119 (177)
T ss_pred ------CCHHHHHHHHHhCccC-----CCCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEeCCCCCCcc---------
Confidence 0122234455555532 22378999999998876 22232 37777777643211
Q ss_pred cCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCcc---ccccccccccccCcc-eEEEeCCCC
Q 002239 686 GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTY---VDIASISVIPKTTGG-QVYYYYPFS 755 (948)
Q Consensus 686 ~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~---vDlatL~~Ls~~TGG-~v~~y~~F~ 755 (948)
. .++.+.++.+.||.|-.+.+...+ .+..+|..++..+++ ++|...+|+
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 033455677789888777776643 346788888888764 566666663
No 40
>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=97.97 E-value=0.00017 Score=72.78 Aligned_cols=150 Identities=13% Similarity=0.154 Sum_probs=93.2
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccccc
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDI 614 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~-~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~l 614 (948)
.+||||.|.+.-+.+ ++.+++.|+..++.+.- ..+.+||||+|++..+..- ++++ +
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 689999999886544 57788888888887742 2358999999998764320 0110 0
Q ss_pred eeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHH-HHhc-C------CEEEEEeccCCCCCccccccccccc
Q 002239 615 IVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLA-LKST-G------GKLLVFQSVLPSVGIGALSAREAEG 686 (948)
Q Consensus 615 Lv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~l-L~~~-G------GkIivF~sg~Pt~GpG~L~~red~~ 686 (948)
.+++.+.+.|++|.. ....+.+|.||..|... ++.. | ..|++|++|.++.
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 113334455666643 23456799999987754 4321 1 2477777775321
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcc-eEEEeC
Q 002239 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGG-QVYYYY 752 (948)
Q Consensus 687 rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG-~v~~y~ 752 (948)
-.++.+.++.+.||.|-.+.+ +..+...|..|+..+.. +++...
T Consensus 118 --------------------~~~~~a~~lk~~gi~i~~ig~--g~~~~~~L~~ia~~~~~~~~~~~~ 162 (164)
T cd01482 118 --------------------DVELPARVLRNLGVNVFAVGV--KDADESELKMIASKPSETHVFNVA 162 (164)
T ss_pred --------------------hHHHHHHHHHHCCCEEEEEec--CcCCHHHHHHHhCCCchheEEEcC
Confidence 024567777788876555544 34567788888887643 444443
No 41
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=97.96 E-value=0.00014 Score=87.97 Aligned_cols=174 Identities=14% Similarity=0.152 Sum_probs=114.7
Q ss_pred CCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCe-EEEEecCcCCCCceEeeccCccccccCc
Q 002239 532 MPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDST-IHFYNLKRALQQPLMLIVPDVEDVYTPL 610 (948)
Q Consensus 532 ~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~-VhfynL~~~l~qpqmlVvsDldd~FvPl 610 (948)
..-.++||||+|.++.. ..+..++.+++..|+..-. .+-+|+||+|++. .++ + +|
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 35788999999999843 3688999999988876432 2358999999754 321 1 11
Q ss_pred cccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc---C--CEEEEEeccCCCCCcccccccccc
Q 002239 611 QSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---G--GKLLVFQSVLPSVGIGALSAREAE 685 (948)
Q Consensus 611 ~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~---G--GkIivF~sg~Pt~GpG~L~~red~ 685 (948)
...+.+.+...|+.|+. ...+.++.||..|.++++.. | -.|+++++|..|.|.+.-..+...
T Consensus 456 -------pT~~~~~~~~~L~~l~~------gGgTpL~~gL~~A~~~l~~~~~~~~~~~iVLlTDG~~n~~~~~~~~~~~~ 522 (584)
T PRK13406 456 -------PTRSLVRAKRSLAGLPG------GGGTPLAAGLDAAAALALQVRRKGMTPTVVLLTDGRANIARDGTAGRAQA 522 (584)
T ss_pred -------CCcCHHHHHHHHhcCCC------CCCChHHHHHHHHHHHHHHhccCCCceEEEEEeCCCCCCCccccccccch
Confidence 11123344556666653 46788999999999988642 2 478999999998865321111100
Q ss_pred cCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchhhHHHH
Q 002239 686 GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYN 765 (948)
Q Consensus 686 ~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~~kL~~ 765 (948)
. .+ =..++..+.+.+|.+-++-+.... ...+..|++.+||..|..++-+ .+.|.+
T Consensus 523 ~------------------~~-~~~~a~~~~~~gi~~~vId~g~~~--~~~~~~LA~~~gg~y~~l~~~~----a~~~~~ 577 (584)
T PRK13406 523 E------------------ED-ALAAARALRAAGLPALVIDTSPRP--QPQARALAEAMGARYLPLPRAD----AGRLSQ 577 (584)
T ss_pred h------------------hH-HHHHHHHHHhcCCeEEEEecCCCC--cHHHHHHHHhcCCeEEECCCCC----HHHHHH
Confidence 0 00 134577788888877666666544 3357899999999999998744 345544
Q ss_pred HH
Q 002239 766 DL 767 (948)
Q Consensus 766 dL 767 (948)
-.
T Consensus 578 ~v 579 (584)
T PRK13406 578 AV 579 (584)
T ss_pred HH
Confidence 33
No 42
>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=97.94 E-value=0.0001 Score=73.76 Aligned_cols=155 Identities=23% Similarity=0.285 Sum_probs=94.4
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCC-CCCCceEEEEEeCCeEEEE-ecCcCCCCceEeeccCccccccCcccc
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLP-EGPRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDVYTPLQSD 613 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP-~~~rtrVGiITFds~Vhfy-nL~~~l~qpqmlVvsDldd~FvPl~~~ 613 (948)
.+||||.|.+.-..+ ++.+++.|...++.+. ...+.|||||+|++..+.+ ++...
T Consensus 2 ivflvD~S~sm~~~~-~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~~~~~~~~~---------------------- 58 (178)
T PF00092_consen 2 IVFLVDTSGSMSGDN-FEKAKQFVKSIISRLSISNNGTRVGIVTFSDSARVLFSLTDY---------------------- 58 (178)
T ss_dssp EEEEEE-STTSCHHH-HHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEEEEEETTSH----------------------
T ss_pred EEEEEeCCCCCchHH-HHHHHHHHHHHHHhhhccccccccceeeeecccccccccccc----------------------
Confidence 589999999875533 6679999999998773 3456999999999988632 22110
Q ss_pred ceeehHHhHHHHHHHH-hhccccccCCCCCcccHHHHHHHHHHHHHhc--C------CEEEEEeccCCCCCccccccccc
Q 002239 614 IIVPVSECRQHLELLL-ESIPSMFQNNRTAESAFGAAVKAAFLALKST--G------GKLLVFQSVLPSVGIGALSAREA 684 (948)
Q Consensus 614 lLv~l~Esr~~I~~lL-d~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~--G------GkIivF~sg~Pt~GpG~L~~red 684 (948)
++++.+.+.+ +.+.. ....+.+|.||+.|...+... | .-||++++|.++.+.
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 1122222233 33332 345567999999999998643 2 237777777654311
Q ss_pred ccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCcccccccccccccc--CcceEEEeCCCC
Q 002239 685 EGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKT--TGGQVYYYYPFS 755 (948)
Q Consensus 685 ~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~--TGG~v~~y~~F~ 755 (948)
. ....+..+.+. ..|.+|.++.+..|...|..|+.. ..+.+++..+|+
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 01111122222 456666666566788888888855 447788877753
No 43
>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=97.94 E-value=0.00021 Score=68.82 Aligned_cols=148 Identities=21% Similarity=0.237 Sum_probs=97.2
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCcccc
Q 002239 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSD 613 (948)
Q Consensus 535 ~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~-~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~ 613 (948)
.++|+||+|.++ ....++.+++.+...++.+.. ....+|+++.|+...+.+- ++.+.
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 478999999987 335688889999999988875 2347999999997443221 00000
Q ss_pred ceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc-----CCEEEEEeccCCCCCcccccccccccCC
Q 002239 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-----GGKLLVFQSVLPSVGIGALSAREAEGRS 688 (948)
Q Consensus 614 lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~-----GGkIivF~sg~Pt~GpG~L~~red~~rs 688 (948)
..++.+...|+.+.. .......+..||..+.+.+... ...|++|++|..+.+.
T Consensus 60 ------~~~~~~~~~~~~~~~----~~~~~t~~~~al~~~~~~~~~~~~~~~~~~lvvitDg~~~~~~------------ 117 (161)
T cd00198 60 ------TDKADLLEAIDALKK----GLGGGTNIGAALRLALELLKSAKRPNARRVIILLTDGEPNDGP------------ 117 (161)
T ss_pred ------CCHHHHHHHHHhccc----CCCCCccHHHHHHHHHHHhcccCCCCCceEEEEEeCCCCCCCc------------
Confidence 123445556666643 2345567889999999999753 4567888877654321
Q ss_pred CCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccC
Q 002239 689 NISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTT 744 (948)
Q Consensus 689 n~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~T 744 (948)
.-.++...++.+.+|.|+++.+.. ..+...+..|+..|
T Consensus 118 -----------------~~~~~~~~~~~~~~v~v~~v~~g~-~~~~~~l~~l~~~~ 155 (161)
T cd00198 118 -----------------ELLAEAARELRKLGITVYTIGIGD-DANEDELKEIADKT 155 (161)
T ss_pred -----------------chhHHHHHHHHHcCCEEEEEEcCC-CCCHHHHHHHhccc
Confidence 001334556667799998888876 34455677777776
No 44
>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=97.93 E-value=8e-05 Score=91.05 Aligned_cols=159 Identities=20% Similarity=0.274 Sum_probs=109.4
Q ss_pred CcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCe-EEEEecCcCCCCceEeeccCccccccCcc
Q 002239 533 PAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDST-IHFYNLKRALQQPLMLIVPDVEDVYTPLQ 611 (948)
Q Consensus 533 pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~-VhfynL~~~l~qpqmlVvsDldd~FvPl~ 611 (948)
...++||||+|.++...+.++.++.++...|..... .+.+||||+|++. ..+
T Consensus 465 ~~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~a~~-~~D~v~lI~F~g~~a~~-------------------------- 517 (633)
T TIGR02442 465 GNLVIFVVDASGSMAARGRMAAAKGAVLSLLRDAYQ-KRDKVALITFRGEEAEV-------------------------- 517 (633)
T ss_pred CceEEEEEECCccCCCccHHHHHHHHHHHHHHHhhc-CCCEEEEEEECCCCceE--------------------------
Confidence 457889999999986545677888888877765432 2369999999753 221
Q ss_pred ccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHh-------cCCEEEEEeccCCCCC-cccccccc
Q 002239 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS-------TGGKLLVFQSVLPSVG-IGALSARE 683 (948)
Q Consensus 612 ~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~-------~GGkIivF~sg~Pt~G-pG~L~~re 683 (948)
+++....++.+...|+.|+. ...+.++.||..|..+++. ..+.|+++++|..|.+ .|.
T Consensus 518 ---~~p~t~~~~~~~~~L~~l~~------gG~Tpl~~aL~~A~~~l~~~~~~~~~~~~~vvliTDG~~n~~~~~~----- 583 (633)
T TIGR02442 518 ---LLPPTSSVELAARRLEELPT------GGRTPLAAGLLKAAEVLSNELLRDDDGRPLLVVITDGRANVADGGE----- 583 (633)
T ss_pred ---EcCCCCCHHHHHHHHHhCCC------CCCCCHHHHHHHHHHHHHHhhccCCCCceEEEEECCCCCCCCCCCC-----
Confidence 11112234445567777753 4567899999999999883 2356999999998875 120
Q ss_pred cccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEe
Q 002239 684 AEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYY 751 (948)
Q Consensus 684 d~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y 751 (948)
+. ..+ -..++..+.+.+|.+.++-+...+++...+..|++.+||+.|+.
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 14567777777887777766667777888999999999998864
No 45
>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=97.90 E-value=0.00021 Score=74.98 Aligned_cols=150 Identities=19% Similarity=0.227 Sum_probs=88.8
Q ss_pred cEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-------CCCceEEEEEeCCeEEEE-ecCcCCCCceEeeccCccc
Q 002239 534 AVFFFLIDVSMNALQTGATAAACSAISQVISDLPE-------GPRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVED 605 (948)
Q Consensus 534 p~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~-------~~rtrVGiITFds~Vhfy-nL~~~l~qpqmlVvsDldd 605 (948)
.-.|||||.|.+.-..+ ++.+++.|+..++.+.. ...+|||||+|++..|+. +|. |..
T Consensus 20 ~DivfvlD~S~Sm~~~~-f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~~~~L~------------d~~- 85 (193)
T cd01477 20 LDIVFVVDNSKGMTQGG-LWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATVVADLN------------DLQ- 85 (193)
T ss_pred eeEEEEEeCCCCcchhh-HHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEEEEecc------------ccc-
Confidence 34799999999875433 67788888887776543 124899999999986542 221 110
Q ss_pred cccCccccceeehHHhHHHHHHHHhh-ccccccCCCCCcccHHHHHHHHHHHHHhc--C-----CE-EEEEeccCCCCCc
Q 002239 606 VYTPLQSDIIVPVSECRQHLELLLES-IPSMFQNNRTAESAFGAAVKAAFLALKST--G-----GK-LLVFQSVLPSVGI 676 (948)
Q Consensus 606 ~FvPl~~~lLv~l~Esr~~I~~lLd~-Lp~~f~~~~~~~~alG~AL~aA~~lL~~~--G-----Gk-IivF~sg~Pt~Gp 676 (948)
.++.+.+.|+. +..+. ....+.+|.||+.|.++|... + -| ||+++++--+.+
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 36 555555521100
Q ss_pred ccccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCc
Q 002239 677 GALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTG 745 (948)
Q Consensus 677 G~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TG 745 (948)
. .+ ..+.++++.+.||.|..+.++. +.|...|..|++..+
T Consensus 147 -----------------~-~~----------~~~~a~~l~~~GI~i~tVGiG~-~~d~~~~~~L~~ias 186 (193)
T cd01477 147 -----------------S-ND----------PRPIAARLKSTGIAIITVAFTQ-DESSNLLDKLGKIAS 186 (193)
T ss_pred -----------------C-CC----------HHHHHHHHHHCCCEEEEEEeCC-CCCHHHHHHHHHhcC
Confidence 0 00 2457888899999999998876 344333444444433
No 46
>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=97.90 E-value=0.00048 Score=72.00 Aligned_cols=150 Identities=13% Similarity=0.151 Sum_probs=93.6
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCeEEEE-ecCcCCCCceEeeccCccccccCcccc
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDVYTPLQSD 613 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~-~~rtrVGiITFds~Vhfy-nL~~~l~qpqmlVvsDldd~FvPl~~~ 613 (948)
.+|+||.|.+.-+..+-..+++.++..++.|.- ..++|||+|+|++..+++ .+...
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 589999999886555444577788888888763 235899999999876542 22110
Q ss_pred ceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhcCC------E-EEEEeccCCCCCccccccccccc
Q 002239 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTGG------K-LLVFQSVLPSVGIGALSAREAEG 686 (948)
Q Consensus 614 lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~GG------k-IivF~sg~Pt~GpG~L~~red~~ 686 (948)
....++.+.+.|++|...+. ....+.+|.||+.|.+.+...+| | +|++++|..+.+
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 00113344555666653221 13466799999999888754322 2 666776653210
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCcccccccccccccc
Q 002239 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKT 743 (948)
Q Consensus 687 rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~ 743 (948)
.+ .--.+.++++.+.||.|-.+.++. .+..+|..|+..
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 012456778889999888887765 355677777653
No 47
>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=97.86 E-value=0.00046 Score=68.54 Aligned_cols=153 Identities=20% Similarity=0.157 Sum_probs=104.6
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCcccc
Q 002239 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSD 613 (948)
Q Consensus 535 ~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~-~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~ 613 (948)
.++||||+|.++- ...++.+++.|...+..+.. ++..+|+||+|++..+.+.- +.
T Consensus 3 ~v~l~vD~S~SM~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~~~~-----------~~------------ 58 (177)
T smart00327 3 DVVFLLDGSGSMG-PNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATVLFP-----------LN------------ 58 (177)
T ss_pred cEEEEEeCCCccc-hHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceEEEc-----------cc------------
Confidence 4789999999884 24578888888888888864 23489999999985443210 00
Q ss_pred ceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHh---c-----CCEEEEEeccCCCCCcccccccccc
Q 002239 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---T-----GGKLLVFQSVLPSVGIGALSAREAE 685 (948)
Q Consensus 614 lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~---~-----GGkIivF~sg~Pt~GpG~L~~red~ 685 (948)
....++.+...|+.+... .....-++.||+.+...++. . .-.|++|++|.++.+
T Consensus 59 ----~~~~~~~~~~~i~~~~~~----~~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~iviitDg~~~~~---------- 120 (177)
T smart00327 59 ----DSRSKDALLEALASLSYK----LGGGTNLGAALQYALENLFSKSAGSRRGAPKVLILITDGESNDG---------- 120 (177)
T ss_pred ----ccCCHHHHHHHHHhcCCC----CCCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEEcCCCCCCC----------
Confidence 012244556666666531 23446789999999998852 1 125777777765432
Q ss_pred cCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEE
Q 002239 686 GRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYY 750 (948)
Q Consensus 686 ~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~ 750 (948)
..+++...++.+.+|.|..+.+.... +...+..+++.++|...+
T Consensus 121 --------------------~~~~~~~~~~~~~~i~i~~i~~~~~~-~~~~l~~~~~~~~~~~~~ 164 (177)
T smart00327 121 --------------------GDLLKAAKELKRSGVKVFVVGVGNDV-DEEELKKLASAPGGVYVF 164 (177)
T ss_pred --------------------ccHHHHHHHHHHCCCEEEEEEccCcc-CHHHHHHHhCCCcceEEe
Confidence 12456677788889888888887653 677889999999887655
No 48
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.84 E-value=0.00019 Score=77.59 Aligned_cols=166 Identities=19% Similarity=0.246 Sum_probs=119.1
Q ss_pred CCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCcc
Q 002239 532 MPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQ 611 (948)
Q Consensus 532 ~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~ 611 (948)
...-+|||||.|.++.-....++++-++...|.+=-. .|-||++|+|..+ +
T Consensus 77 ~g~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq-~RdkvavI~F~G~-----------~----------------- 127 (261)
T COG1240 77 AGNLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQ-RRDKVAVIAFRGE-----------K----------------- 127 (261)
T ss_pred cCCcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHH-ccceEEEEEecCC-----------c-----------------
Confidence 3567999999999987666788888888888865432 2569999988621 1
Q ss_pred ccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhcC-------CEEEEEeccCCCCCccccccccc
Q 002239 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG-------GKLLVFQSVLPSVGIGALSAREA 684 (948)
Q Consensus 612 ~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~G-------GkIivF~sg~Pt~GpG~L~~red 684 (948)
..++++...+.+.+++.|+.|+. ...+=+..||+.|.+++.... -.+++.++|.+|.+.+.=.
T Consensus 128 A~lll~pT~sv~~~~~~L~~l~~------GG~TPL~~aL~~a~ev~~r~~r~~p~~~~~~vviTDGr~n~~~~~~~---- 197 (261)
T COG1240 128 AELLLPPTSSVELAERALERLPT------GGKTPLADALRQAYEVLAREKRRGPDRRPVMVVITDGRANVPIPLGP---- 197 (261)
T ss_pred ceEEeCCcccHHHHHHHHHhCCC------CCCCchHHHHHHHHHHHHHhhccCCCcceEEEEEeCCccCCCCCCch----
Confidence 12445555566777888888884 445568999999999997532 4689999999887643210
Q ss_pred ccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCC
Q 002239 685 EGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSA 756 (948)
Q Consensus 685 ~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~ 756 (948)
+.| -.+.+.++...++-+=+.=+...++.+.-...||+..||++|+.+..+.
T Consensus 198 ----------~~e----------~~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~~~L~~l~~ 249 (261)
T COG1240 198 ----------KAE----------TLEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEYYHLDDLSD 249 (261)
T ss_pred ----------HHH----------HHHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeEEecccccc
Confidence 011 1245566667777666666777788787889999999999999987653
No 49
>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=97.75 E-value=0.00063 Score=69.38 Aligned_cols=151 Identities=17% Similarity=0.185 Sum_probs=93.0
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCC-CCCceEEEEEeCCeEEEE-ecCcCCCCceEeeccCccccccCcccc
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPE-GPRTMVGIATFDSTIHFY-NLKRALQQPLMLIVPDVEDVYTPLQSD 613 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~-~~rtrVGiITFds~Vhfy-nL~~~l~qpqmlVvsDldd~FvPl~~~ 613 (948)
.+|+||.|.+--+.+ ++.+++-|+..++.+.- ...+|||+|+|++..+.. +|.. .
T Consensus 3 ivfllD~S~Si~~~~-f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~~~~~l~~---------------~------- 59 (165)
T cd01481 3 IVFLIDGSDNVGSGN-FPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPRPEFYLNT---------------H------- 59 (165)
T ss_pred EEEEEeCCCCcCHHH-HHHHHHHHHHHHhhccCCCCCcEEEEEEecCCeeEEEeccc---------------c-------
Confidence 589999998764333 67888889999988863 235899999999865431 2211 0
Q ss_pred ceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHH-Hh-cCC-------E-EEEEeccCCCCCcccccccc
Q 002239 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLAL-KS-TGG-------K-LLVFQSVLPSVGIGALSARE 683 (948)
Q Consensus 614 lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL-~~-~GG-------k-IivF~sg~Pt~GpG~L~~re 683 (948)
.+++.|.+.|++|+.+ ....+.+|.||+.+.+.+ .. .|+ | ++++++|..+
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 0233345556666432 122356899999887644 32 232 3 4566665421
Q ss_pred cccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCC
Q 002239 684 AEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPF 754 (948)
Q Consensus 684 d~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F 754 (948)
++ +++-|.++.+.|| .+|..+....|..+|..|+..- -.+|...+|
T Consensus 120 ---------------------d~-~~~~a~~lr~~gv--~i~~vG~~~~~~~eL~~ias~p-~~vf~v~~f 165 (165)
T cd01481 120 ---------------------DD-VERPAVALKRAGI--VPFAIGARNADLAELQQIAFDP-SFVFQVSDF 165 (165)
T ss_pred ---------------------ch-HHHHHHHHHHCCc--EEEEEeCCcCCHHHHHHHhCCC-ccEEEecCC
Confidence 01 2456777888885 4566666667888888877654 355555443
No 50
>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=97.64 E-value=0.0015 Score=65.32 Aligned_cols=103 Identities=19% Similarity=0.252 Sum_probs=67.9
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC-CCceEEEEEeCC--eEEEE-ecCcCCCCceEeeccCccccccCcc
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEG-PRTMVGIATFDS--TIHFY-NLKRALQQPLMLIVPDVEDVYTPLQ 611 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~-~rtrVGiITFds--~Vhfy-nL~~~l~qpqmlVvsDldd~FvPl~ 611 (948)
++|+||+|.+.-. .++..++.+++.|+.|... .+.+||||+|++ ..++. .+..
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 6899999998753 3677788888888887632 248999999998 34321 1110
Q ss_pred ccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc-C------CEEEEEeccCCC
Q 002239 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-G------GKLLVFQSVLPS 673 (948)
Q Consensus 612 ~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~-G------GkIivF~sg~Pt 673 (948)
...++.+...|+.|.. ....+.+|.||+.|.++|... + ..|+++++|..+
T Consensus 60 -------~~~~~~l~~~i~~l~~-----~gg~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~ 116 (163)
T cd01476 60 -------HNDGEELLEKVDNLRF-----IGGTTATGAAIEVALQQLDPSEGRREGIPKVVVVLTDGRSH 116 (163)
T ss_pred -------CCCHHHHHHHHHhCcc-----CCCCccHHHHHHHHHHHhccccCCCCCCCeEEEEECCCCCC
Confidence 0123445556666642 134578999999999999521 1 347777777543
No 51
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=97.52 E-value=0.00055 Score=69.90 Aligned_cols=138 Identities=14% Similarity=0.194 Sum_probs=85.3
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC----CCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCcc
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEG----PRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQ 611 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~----~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~ 611 (948)
++||||+|.++... -++.++++++..++.|..+ ++.+|+||+|++..+..- . +.++++.
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 68999999987443 3667888888888887643 357999999999775421 0 0010000
Q ss_pred ccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc-----C-------CEEEEEeccCCCCCcccc
Q 002239 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-----G-------GKLLVFQSVLPSVGIGAL 679 (948)
Q Consensus 612 ~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~-----G-------GkIivF~sg~Pt~GpG~L 679 (948)
.++.| .....++++.||+.|.+.|+.. + ..|+++++|.++.+..
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 1588888887642110
Q ss_pred cccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccc
Q 002239 680 SAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPK 742 (948)
Q Consensus 680 ~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~ 742 (948)
... +...++.+.++.|..|.++. .+|...|..|+.
T Consensus 125 -----------------------~~~----~~~~~~~~~~~~i~~igiG~-~~~~~~L~~ia~ 159 (176)
T cd01464 125 -----------------------AAI----ERIKEARDSKGRIVACAVGP-KADLDTLKQITE 159 (176)
T ss_pred -----------------------HHH----HHHHhhcccCCcEEEEEecc-ccCHHHHHHHHC
Confidence 001 12223334567777777776 577777777664
No 52
>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=97.43 E-value=0.0034 Score=66.58 Aligned_cols=154 Identities=16% Similarity=0.245 Sum_probs=91.7
Q ss_pred EEEEEEEcchhHHhh------hHHHHHHHHHHHHHhcCC-CCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccc
Q 002239 535 VFFFLIDVSMNALQT------GATAAACSAISQVISDLP-EGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVY 607 (948)
Q Consensus 535 ~yvFvIDVS~~av~s------G~l~~v~~sI~~~L~~LP-~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~F 607 (948)
..+|+||+|.++.+. ..|+.+++.|...+...- ..+..+||||.|++.-+-.. ....++.++.++...
T Consensus 3 ~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~----~~~~~i~v~~~l~~~- 77 (218)
T cd01458 3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNP----VGYENIYVLLDLDTP- 77 (218)
T ss_pred EEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCc----CCCCceEEeecCCCC-
Confidence 479999999988522 368888888888888621 11225899999987532110 112234444433211
Q ss_pred cCccccceeehHHhHHHHHHHHhhcccc-c----cCCCCCcccHHHHHHHHHHHHHh-----cCCEEEEEeccCCCCCcc
Q 002239 608 TPLQSDIIVPVSECRQHLELLLESIPSM-F----QNNRTAESAFGAAVKAAFLALKS-----TGGKLLVFQSVLPSVGIG 677 (948)
Q Consensus 608 vPl~~~lLv~l~Esr~~I~~lLd~Lp~~-f----~~~~~~~~alG~AL~aA~~lL~~-----~GGkIivF~sg~Pt~GpG 677 (948)
..+.|+.+++.+..- . ......+..++.||.+|..++.. ..-+|++|+++--..| |
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 123334444433211 0 00123567899999999999985 1246999998653222 0
Q ss_pred cccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCc
Q 002239 678 ALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQT 730 (948)
Q Consensus 678 ~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~ 730 (948)
+ . -...-+.+++.++.+.||.|.+|.+...
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 0112356788899999999999986543
No 53
>cd01454 vWA_norD_type norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial denitrification has been established as NO3- ------ NO2- ------ NO ------- N2O --------- N2. This reaction generally occurs under oxygen limiting conditions. Genetic and biochemical studies have shown that the first srep of the biochemical pathway is catalyzed by periplasmic nitrate reductases. This family is widely present in proteobacteria and firmicutes. This version of the domain is also present in some archaeal members. The function of the vWA domain in this sub-group is not known. Members of this subgroup have a conserved MIDAS motif.
Probab=97.36 E-value=0.005 Score=62.66 Aligned_cols=147 Identities=16% Similarity=0.090 Sum_probs=87.9
Q ss_pred EEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccccc
Q 002239 535 VFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDI 614 (948)
Q Consensus 535 ~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~l 614 (948)
.++|+||+|.++.....++.+++++...++.|.+ .+.+++|++|++... .. .....+...+.++. +
T Consensus 2 ~v~~llD~SgSM~~~~kl~~ak~a~~~l~~~l~~-~~d~~~l~~F~~~~~---~~---~~~~~~~~~~~~~~-------~ 67 (174)
T cd01454 2 AVTLLLDLSGSMRSDRRIDVAKKAAVLLAEALEA-CGVPHAILGFTTDAG---GR---ERVRWIKIKDFDES-------L 67 (174)
T ss_pred EEEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHH-cCCcEEEEEecCCCC---Cc---cceEEEEecCcccc-------c
Confidence 4789999999986434688888888877777654 236899999998630 00 00011111111111 0
Q ss_pred eeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHh---cCCEEEEEeccCCCCCcccccccccccCCCCC
Q 002239 615 IVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---TGGKLLVFQSVLPSVGIGALSAREAEGRSNIS 691 (948)
Q Consensus 615 Lv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~---~GGkIivF~sg~Pt~GpG~L~~red~~rsn~~ 691 (948)
...+...|+.+.. ...+.+|.||..|...|.. ....||++++|.++.+...- .
T Consensus 68 -------~~~~~~~l~~~~~------~g~T~~~~al~~a~~~l~~~~~~~~~iiliTDG~~~~~~~~~------~----- 123 (174)
T cd01454 68 -------HERARKRLAALSP------GGNTRDGAAIRHAAERLLARPEKRKILLVISDGEPNDLDYYE------G----- 123 (174)
T ss_pred -------chhHHHHHHccCC------CCCCcHHHHHHHHHHHHhcCCCcCcEEEEEeCCCcCcccccC------c-----
Confidence 0122334444432 2357899999999999874 34568899999987642100 0
Q ss_pred CCccccccccchhHHHHHH---HHHHHHhcCeEEEEEEccCcc
Q 002239 692 SGEKETHKLLQPADKTLKA---MAIEFAEYQVCVDVFITTQTY 731 (948)
Q Consensus 692 ~gt~ke~~Ll~pa~~FYk~---LA~~~~~~gIsVDlFl~s~~~ 731 (948)
. + ...++ .++++.+.||.|..+.+..+-
T Consensus 124 --~-----~-----~~~~~~~~~~~~~~~~gi~v~~igig~~~ 154 (174)
T cd01454 124 --N-----V-----FATEDALRAVIEARKLGIEVFGITIDRDA 154 (174)
T ss_pred --c-----h-----hHHHHHHHHHHHHHhCCcEEEEEEecCcc
Confidence 0 0 01122 377888899998877776553
No 54
>PF04056 Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like proteins are 40 kDa subunits of the transcription factor II H complex. This domain is often found associated with the C2H2 type Zn-finger (IPR007087 from INTERPRO).; GO: 0008270 zinc ion binding, 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent
Probab=97.26 E-value=0.0039 Score=65.55 Aligned_cols=165 Identities=17% Similarity=0.201 Sum_probs=103.6
Q ss_pred EEEcchhHHhhh----HHHHHHHHHHHHHhcC-CCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCcccc
Q 002239 539 LIDVSMNALQTG----ATAAACSAISQVISDL-PEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSD 613 (948)
Q Consensus 539 vIDVS~~av~sG----~l~~v~~sI~~~L~~L-P~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~ 613 (948)
|||.|..+.+.- .+.++++.+..-+++. ..|+-++||||+.-+.+- ..+.++
T Consensus 1 viD~S~~m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a-------------~~ls~l---------- 57 (193)
T PF04056_consen 1 VIDMSEAMREKDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRA-------------ERLSEL---------- 57 (193)
T ss_pred CeechHhHHhCcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeeccee-------------EEeeec----------
Confidence 689998876532 5677777777776653 346678999987654321 111121
Q ss_pred ceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc---CC-EEEEEeccCCCCCcccccccccccCCC
Q 002239 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---GG-KLLVFQSVLPSVGIGALSAREAEGRSN 689 (948)
Q Consensus 614 lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~---GG-kIivF~sg~Pt~GpG~L~~red~~rsn 689 (948)
+.+-....+.|+++.+ ..-..+..+-.||+.|..+|++. +. .|+++.+++-|.-||.
T Consensus 58 -----sgn~~~h~~~L~~~~~---~~~~G~~SLqN~Le~A~~~L~~~p~~~srEIlvi~gSl~t~Dp~d----------- 118 (193)
T PF04056_consen 58 -----SGNPQEHIEALKKLRK---LEPSGEPSLQNGLEMARSSLKHMPSHGSREILVIFGSLTTCDPGD----------- 118 (193)
T ss_pred -----CCCHHHHHHHHHHhcc---CCCCCChhHHHHHHHHHHHHhhCccccceEEEEEEeecccCCchh-----------
Confidence 1111122233444432 23456678999999999999863 44 4666666664443321
Q ss_pred CCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchhhHHHHHHHH
Q 002239 690 ISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYNDLRW 769 (948)
Q Consensus 690 ~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~~kL~~dL~r 769 (948)
+.+..+.+.+.+|-||++.++.+ +..+..||+.|||..+..- |.+.|...|..
T Consensus 119 ------------------i~~ti~~l~~~~IrvsvI~laaE---v~I~k~i~~~T~G~y~V~l------de~H~~~lL~~ 171 (193)
T PF04056_consen 119 ------------------IHETIESLKKENIRVSVISLAAE---VYICKKICKETGGTYGVIL------DEDHFKELLME 171 (193)
T ss_pred ------------------HHHHHHHHHHcCCEEEEEEEhHH---HHHHHHHHHhhCCEEEEec------CHHHHHHHHHh
Confidence 23567789999999999999864 7778999999999555442 34456555554
Q ss_pred hcc
Q 002239 770 NIT 772 (948)
Q Consensus 770 ~lt 772 (948)
.+.
T Consensus 172 ~~~ 174 (193)
T PF04056_consen 172 HVP 174 (193)
T ss_pred hCC
Confidence 443
No 55
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=97.06 E-value=0.0083 Score=62.22 Aligned_cols=98 Identities=18% Similarity=0.312 Sum_probs=65.1
Q ss_pred EEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCC----CCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccc
Q 002239 537 FFLIDVSMNALQTGATAAACSAISQVISDLPEG----PRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQS 612 (948)
Q Consensus 537 vFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~----~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~ 612 (948)
+|++|+|.+++.. -++++...|+..++.|..+ ++..|+|||||+.++.|.- ..|++..+
T Consensus 7 ~lllDtSgSM~Ge-~IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~~a~~~~p-----------f~~~~nF~----- 69 (207)
T COG4245 7 YLLLDTSGSMIGE-PIEALNAGLQMMIDTLKQDPYALERVELSIVTFGGPARVIQP-----------FTDAANFN----- 69 (207)
T ss_pred EEEEecCcccccc-cHHHHHHHHHHHHHHHHhChhhhheeEEEEEEecCcceEEec-----------hhhHhhcC-----
Confidence 5799999988643 3677888888888887655 4679999999997776521 11222111
Q ss_pred cceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc------CC------EEEEEeccCCC
Q 002239 613 DIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST------GG------KLLVFQSVLPS 673 (948)
Q Consensus 613 ~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~------GG------kIivF~sg~Pt 673 (948)
.+.++ ....+.+|+||+.|.++++.. .| -|++.++|-||
T Consensus 70 -------------------~p~L~---a~GgT~lGaAl~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiTDG~Pt 120 (207)
T COG4245 70 -------------------PPILT---AQGGTPLGAALTLALDMIEERKRKYDANGKGDYRPWVFLITDGEPT 120 (207)
T ss_pred -------------------CCcee---cCCCCchHHHHHHHHHHHHHHHhhcccCCccccceEEEEecCCCcc
Confidence 11112 135678999999999999641 12 36777777664
No 56
>PHA03247 large tegument protein UL36; Provisional
Probab=96.93 E-value=2.2 Score=58.62 Aligned_cols=13 Identities=23% Similarity=0.447 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHh
Q 002239 552 TAAACSAISQVIS 564 (948)
Q Consensus 552 l~~v~~sI~~~L~ 564 (948)
|-.+|+.|...|.
T Consensus 3114 Li~ACr~i~r~lr 3126 (3151)
T PHA03247 3114 LIEACRRIRRQLR 3126 (3151)
T ss_pred HHHHHHHHHHHHH
Confidence 4455555555553
No 57
>cd01462 VWA_YIEM_type VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=96.87 E-value=0.026 Score=55.93 Aligned_cols=100 Identities=12% Similarity=0.118 Sum_probs=61.4
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccccce
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDII 615 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~lL 615 (948)
++|+||+|.++... .++.++..+...++.+.. .+.+|+||+|++..+.+.+..
T Consensus 3 v~illD~SgSM~~~-k~~~a~~~~~~l~~~~~~-~~~~v~li~F~~~~~~~~~~~------------------------- 55 (152)
T cd01462 3 VILLVDQSGSMYGA-PEEVAKAVALALLRIALA-ENRDTYLILFDSEFQTKIVDK------------------------- 55 (152)
T ss_pred EEEEEECCCCCCCC-HHHHHHHHHHHHHHHHHH-cCCcEEEEEeCCCceEEecCC-------------------------
Confidence 68999999988532 344556666666655542 125899999998833221110
Q ss_pred eehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc---CCEEEEEeccC
Q 002239 616 VPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---GGKLLVFQSVL 671 (948)
Q Consensus 616 v~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~---GGkIivF~sg~ 671 (948)
+..+..+++.|..+. ....+.++.||..+.+.++.. ...|++|++|.
T Consensus 56 ------~~~~~~~~~~l~~~~---~~ggT~l~~al~~a~~~l~~~~~~~~~ivliTDG~ 105 (152)
T cd01462 56 ------TDDLEEPVEFLSGVQ---LGGGTDINKALRYALELIERRDPRKADIVLITDGY 105 (152)
T ss_pred ------cccHHHHHHHHhcCC---CCCCcCHHHHHHHHHHHHHhcCCCCceEEEECCCC
Confidence 001122333333221 245678999999999998763 46788888875
No 58
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=96.84 E-value=0.015 Score=61.39 Aligned_cols=155 Identities=19% Similarity=0.247 Sum_probs=95.8
Q ss_pred EEEEEEEcchhHHhhh----HHHHHHHHHHHHHh-cCCCCCCceEEEEEeCC-eEEEEecCcCCCCceEeeccCcccccc
Q 002239 535 VFFFLIDVSMNALQTG----ATAAACSAISQVIS-DLPEGPRTMVGIATFDS-TIHFYNLKRALQQPLMLIVPDVEDVYT 608 (948)
Q Consensus 535 ~yvFvIDVS~~av~sG----~l~~v~~sI~~~L~-~LP~~~rtrVGiITFds-~VhfynL~~~l~qpqmlVvsDldd~Fv 608 (948)
..++|||-|..+.+.- .|++=+++|.-+.. .+..++...|||||... .+.+..
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 4688999998775432 34555555544432 33445556899998765 443321
Q ss_pred CccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc---C--CEEEEEeccCCCCCcccccccc
Q 002239 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---G--GKLLVFQSVLPSVGIGALSARE 683 (948)
Q Consensus 609 Pl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~---G--GkIivF~sg~Pt~GpG~L~~re 683 (948)
.+...+-.|...|..|.- ..+..+..+|+.|..+||+. + -||++|.+++-.
T Consensus 64 --------T~T~d~gkils~lh~i~~------~g~~~~~~~i~iA~lalkhRqnk~~~~riVvFvGSpi~---------- 119 (259)
T KOG2884|consen 64 --------TLTSDRGKILSKLHGIQP------HGKANFMTGIQIAQLALKHRQNKNQKQRIVVFVGSPIE---------- 119 (259)
T ss_pred --------eccccchHHHHHhcCCCc------CCcccHHHHHHHHHHHHHhhcCCCcceEEEEEecCcch----------
Confidence 111113334444555542 34556899999999999973 2 689999987621
Q ss_pred cccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcc-----eEEEeCC
Q 002239 684 AEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGG-----QVYYYYP 753 (948)
Q Consensus 684 d~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG-----~v~~y~~ 753 (948)
+.| +-.-++|+++.+++|.|||+-|+....+-.-+......++| ++...+.
T Consensus 120 -----------e~e--------keLv~~akrlkk~~Vaidii~FGE~~~~~e~l~~fida~N~~~~gshlv~Vpp 175 (259)
T KOG2884|consen 120 -----------ESE--------KELVKLAKRLKKNKVAIDIINFGEAENNTEKLFEFIDALNGKGDGSHLVSVPP 175 (259)
T ss_pred -----------hhH--------HHHHHHHHHHHhcCeeEEEEEeccccccHHHHHHHHHHhcCCCCCceEEEeCC
Confidence 111 12357899999999999999998766553334444444444 3666654
No 59
>PHA03247 large tegument protein UL36; Provisional
Probab=96.64 E-value=5.7 Score=54.98 Aligned_cols=15 Identities=20% Similarity=0.160 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHhcC
Q 002239 552 TAAACSAISQVISDL 566 (948)
Q Consensus 552 l~~v~~sI~~~L~~L 566 (948)
|..++++-+.+..+|
T Consensus 3111 lAlLi~ACr~i~r~l 3125 (3151)
T PHA03247 3111 LAVLIEACRRIRRQL 3125 (3151)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444444444444444
No 60
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=96.28 E-value=0.015 Score=70.33 Aligned_cols=12 Identities=8% Similarity=0.061 Sum_probs=6.3
Q ss_pred hhhhhhcCCccE
Q 002239 419 NDLLTTSGMQLA 430 (948)
Q Consensus 419 ~~ll~~~~LPLg 430 (948)
..++++..|=||
T Consensus 698 sKtaQnLsIflg 709 (1102)
T KOG1924|consen 698 SKTAQNLSIFLG 709 (1102)
T ss_pred hHHHHHHHHHHh
Confidence 344555555555
No 61
>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=96.16 E-value=0.093 Score=64.07 Aligned_cols=156 Identities=9% Similarity=0.190 Sum_probs=88.1
Q ss_pred cEEEEEEEcchhHHh-------hhHHHHHHHHHHHHHhcC-CCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccc
Q 002239 534 AVFFFLIDVSMNALQ-------TGATAAACSAISQVISDL-PEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVED 605 (948)
Q Consensus 534 p~yvFvIDVS~~av~-------sG~l~~v~~sI~~~L~~L-P~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd 605 (948)
-..|||||+|.++.+ ..-++.++++|...+.+. --+++..|||+.|++.=+ ++.+.-.+++|+.||+.
T Consensus 11 eailflIDvs~sM~~~~~~~~~~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t----~n~~~~~~i~v~~~L~~ 86 (584)
T TIGR00578 11 DSLIFLVDASKAMFEESQGEDELTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKD----KNSVNFKNIYVLQELDN 86 (584)
T ss_pred eEEEEEEECCHHHcCCCcCcCcCChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCC----CCccCCCceEEEeeCCC
Confidence 358999999999764 123556666777776653 234557999999876432 22223346677777663
Q ss_pred cccCccccceeehHHhHHHHHHHHhh-ccccccC--CCCCcccHHHHHHHHHHHHHh----cC-CEEEEEeccCCCCCcc
Q 002239 606 VYTPLQSDIIVPVSECRQHLELLLES-IPSMFQN--NRTAESAFGAAVKAAFLALKS----TG-GKLLVFQSVLPSVGIG 677 (948)
Q Consensus 606 ~FvPl~~~lLv~l~Esr~~I~~lLd~-Lp~~f~~--~~~~~~alG~AL~aA~~lL~~----~G-GkIivF~sg~Pt~GpG 677 (948)
+-. +....|++|++. -...|.. .......+..||.+|..++.. .+ =||++||+.---.+-
T Consensus 87 p~a-----------~~i~~L~~l~~~~~~~~~~~~~~~~~~~~l~daL~~~~~~f~~~~~k~~~kRI~lfTd~D~P~~~- 154 (584)
T TIGR00578 87 PGA-----------KRILELDQFKGDQGPKKFRDTYGHGSDYSLSEVLWVCANLFSDVQFRMSHKRIMLFTNEDNPHGN- 154 (584)
T ss_pred CCH-----------HHHHHHHHHhhccCccchhhccCCCCCCcHHHHHHHHHHHHHhcchhhcCcEEEEECCCCCCCCC-
Confidence 311 111222333332 1111111 112234789999999999975 23 369999964221110
Q ss_pred cccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEcc
Q 002239 678 ALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITT 728 (948)
Q Consensus 678 ~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s 728 (948)
. ..++ .-=...+.++.+.||.|++|.++
T Consensus 155 --------------~-~~~~--------~~a~~~a~dl~~~gi~ielf~l~ 182 (584)
T TIGR00578 155 --------------D-SAKA--------SRARTKAGDLRDTGIFLDLMHLK 182 (584)
T ss_pred --------------c-hhHH--------HHHHHHHHHHHhcCeEEEEEecC
Confidence 0 0000 01123578888999999999754
No 62
>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=95.79 E-value=0.088 Score=55.02 Aligned_cols=102 Identities=16% Similarity=0.203 Sum_probs=61.4
Q ss_pred EEEEEEEcchhHHhh----h--HHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCcccccc
Q 002239 535 VFFFLIDVSMNALQT----G--ATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYT 608 (948)
Q Consensus 535 ~yvFvIDVS~~av~s----G--~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~Fv 608 (948)
-++|+||+|.++... + .++.+++++..+++.+.+....+|++++|++..+-+ .
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 489999999998532 1 356677777776665443223468888886553211 0
Q ss_pred CccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHH-HHHhc--------CCEEEEEeccCCC
Q 002239 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFL-ALKST--------GGKLLVFQSVLPS 673 (948)
Q Consensus 609 Pl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~-lL~~~--------GGkIivF~sg~Pt 673 (948)
+ +. +..+.++++++.. ...+.++.+|+.+++ +++.. +..||+++.|.++
T Consensus 63 ~--------~~--~~~v~~~~~~~~p------~G~T~l~~~l~~a~~~~~~~~~~~~~~p~~~~vIiiTDG~~~ 120 (199)
T cd01457 63 N--------VN--SSKVDQLFAENSP------DGGTNLAAVLQDALNNYFQRKENGATCPEGETFLVITDGAPD 120 (199)
T ss_pred C--------cC--HHHHHHHHhcCCC------CCcCcHHHHHHHHHHHHHHHHhhccCCCCceEEEEEcCCCCC
Confidence 1 11 4445566655432 244788999998874 33321 3557778888764
No 63
>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=95.78 E-value=0.22 Score=55.08 Aligned_cols=132 Identities=16% Similarity=0.193 Sum_probs=79.1
Q ss_pred CCcEEEEEEEcchhHHhhh----HHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccc
Q 002239 532 MPAVFFFLIDVSMNALQTG----ATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVY 607 (948)
Q Consensus 532 ~pp~yvFvIDVS~~av~sG----~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~F 607 (948)
....++|+||+|.++.++. .++ .+..|.++|+.|..+ +|||+.|+..+.+ +.++++.|
T Consensus 59 r~~qIvlaID~S~SM~~~~~~~~ale-ak~lIs~al~~Le~g---~vgVv~Fg~~~~~--------------v~Plt~d~ 120 (266)
T cd01460 59 RDYQILIAIDDSKSMSENNSKKLALE-SLCLVSKALTLLEVG---QLGVCSFGEDVQI--------------LHPFDEQF 120 (266)
T ss_pred cCceEEEEEecchhcccccccccHHH-HHHHHHHHHHhCcCC---cEEEEEeCCCceE--------------eCCCCCCc
Confidence 3578899999999986643 244 455677788888765 8999999986532 22222221
Q ss_pred cCccccceeehHHhHHHHHHHHhhccc-cccCCCCCcccHHHHHHHHHHHHHhc-----C----CEEEEEeccCCCCCcc
Q 002239 608 TPLQSDIIVPVSECRQHLELLLESIPS-MFQNNRTAESAFGAAVKAAFLALKST-----G----GKLLVFQSVLPSVGIG 677 (948)
Q Consensus 608 vPl~~~lLv~l~Esr~~I~~lLd~Lp~-~f~~~~~~~~alG~AL~aA~~lL~~~-----G----GkIivF~sg~Pt~GpG 677 (948)
.. +..++.+.. .|. ..++.++.||..|..+++.. + .-|+++++|.+..
T Consensus 121 ---------------~~-~a~~~~l~~~~f~---~~~Tni~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~--- 178 (266)
T cd01460 121 ---------------SS-QSGPRILNQFTFQ---QDKTDIANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGRGEF--- 178 (266)
T ss_pred ---------------hh-hHHHHHhCcccCC---CCCCcHHHHHHHHHHHHHhhhccccccccccEEEEEECCCccc---
Confidence 11 223333332 222 23456899999999988754 3 3355555554211
Q ss_pred cccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccC
Q 002239 678 ALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQ 729 (948)
Q Consensus 678 ~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~ 729 (948)
| ... -+.++.++.+.+|.|-.+++=.
T Consensus 179 -----------~----e~~-----------~~~~~r~a~e~~i~l~~I~ld~ 204 (266)
T cd01460 179 -----------S----EGA-----------QKVRLREAREQNVFVVFIIIDN 204 (266)
T ss_pred -----------C----ccH-----------HHHHHHHHHHcCCeEEEEEEcC
Confidence 0 000 1234778889998887776543
No 64
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=95.08 E-value=0.36 Score=50.22 Aligned_cols=133 Identities=19% Similarity=0.278 Sum_probs=86.9
Q ss_pred cEEEEEEEcchhHHhhh----HHHHHHHHHHHHHhc-CCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCcccccc
Q 002239 534 AVFFFLIDVSMNALQTG----ATAAACSAISQVISD-LPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYT 608 (948)
Q Consensus 534 p~yvFvIDVS~~av~sG----~l~~v~~sI~~~L~~-LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~Fv 608 (948)
-+.|.+||-|..+.+.- .+++-++++..++.. ..+++...||||+... .+++++
T Consensus 4 EatvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~-----------a~p~vl---------- 62 (243)
T COG5148 4 EATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQ-----------AQPNVL---------- 62 (243)
T ss_pred ceEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeeccc-----------CCcchh----------
Confidence 35789999998775532 466777777766654 3345557899986431 233322
Q ss_pred CccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc---C--CEEEEEeccCCCCCcccccccc
Q 002239 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---G--GKLLVFQSVLPSVGIGALSARE 683 (948)
Q Consensus 609 Pl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~---G--GkIivF~sg~Pt~GpG~L~~re 683 (948)
..+...+-.|...|..|+- +.+.-++-+|+.|..+|++. | -||++|.+++-.
T Consensus 63 -------sT~T~~~gkilt~lhd~~~------~g~a~~~~~lqiaql~lkhR~nk~q~qriVaFvgSpi~---------- 119 (243)
T COG5148 63 -------STPTKQRGKILTFLHDIRL------HGGADIMRCLQIAQLILKHRDNKGQRQRIVAFVGSPIQ---------- 119 (243)
T ss_pred -------ccchhhhhHHHHHhccccc------cCcchHHHHHHHHHHHHhcccCCccceEEEEEecCccc----------
Confidence 2222335556666666652 33445789999999999863 3 689999987621
Q ss_pred cccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccC
Q 002239 684 AEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQ 729 (948)
Q Consensus 684 d~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~ 729 (948)
+.| +-.-.+++.+.+++|.|||+-|+.
T Consensus 120 -----------ese--------deLirlak~lkknnVAidii~fGE 146 (243)
T COG5148 120 -----------ESE--------DELIRLAKQLKKNNVAIDIIFFGE 146 (243)
T ss_pred -----------ccH--------HHHHHHHHHHHhcCeeEEEEehhh
Confidence 111 112368899999999999998764
No 65
>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=94.68 E-value=0.3 Score=51.78 Aligned_cols=154 Identities=15% Similarity=0.232 Sum_probs=75.0
Q ss_pred EEEEEEEcchhHHhh-----hHHHHHHHHHHHHHhcCC-CCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCcccccc
Q 002239 535 VFFFLIDVSMNALQT-----GATAAACSAISQVISDLP-EGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYT 608 (948)
Q Consensus 535 ~yvFvIDVS~~av~s-----G~l~~v~~sI~~~L~~LP-~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~Fv 608 (948)
+.|||||+|.++.+. ..|+.++++|...|.+.- ..+...||||.|++.-.=-. .+......+.++.+++-+
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 369999999988632 246667777776665421 22236899998885432100 011122334443333211
Q ss_pred CccccceeehHHhHHHHHHHHhhccc----cccCCCCCcccHHHHHHHHHHHHHh--c----C-CEEEEEeccCCCCCcc
Q 002239 609 PLQSDIIVPVSECRQHLELLLESIPS----MFQNNRTAESAFGAAVKAAFLALKS--T----G-GKLLVFQSVLPSVGIG 677 (948)
Q Consensus 609 Pl~~~lLv~l~Esr~~I~~lLd~Lp~----~f~~~~~~~~alG~AL~aA~~lL~~--~----G-GkIivF~sg~Pt~GpG 677 (948)
+-+.|..|.+.+.. ........+..+..||.+|..+++. . . -||++||..- +|-
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 12333333333322 0011233456789999999999975 1 1 3677777532 110
Q ss_pred cccccccccCCCCCCCccccccccchhHHHHHH-HHHHHHhcCeEEEEEEc
Q 002239 678 ALSAREAEGRSNISSGEKETHKLLQPADKTLKA-MAIEFAEYQVCVDVFIT 727 (948)
Q Consensus 678 ~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~-LA~~~~~~gIsVDlFl~ 727 (948)
. .+++. +.-.++ .+.++...+|.+++|.+
T Consensus 143 ~---------------~~~~~------~~~~~~l~~~Dl~~~~i~~~~~~l 172 (224)
T PF03731_consen 143 E---------------DDDEL------ERIIQKLKAKDLQDNGIEIELFFL 172 (224)
T ss_dssp T----------------CCCH------HHHHHHHHHHHHHHHTEEEEEEEC
T ss_pred C---------------CHHHH------HHHHHhhccccchhcCcceeEeec
Confidence 0 00000 011111 27778899999999987
No 66
>cd01455 vWA_F11C1-5a_type Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=94.39 E-value=1.2 Score=46.96 Aligned_cols=96 Identities=14% Similarity=0.130 Sum_probs=59.7
Q ss_pred HHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHH-hc--CCE-EEEEeccCCCCCcccccccccccCCCCCCCcccc
Q 002239 622 RQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALK-ST--GGK-LLVFQSVLPSVGIGALSAREAEGRSNISSGEKET 697 (948)
Q Consensus 622 r~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~-~~--GGk-IivF~sg~Pt~GpG~L~~red~~rsn~~~gt~ke 697 (948)
.+.+..+|+.+.--+.. ..++ .||..|++.|+ .. ..| ||++++|-=|.| +
T Consensus 74 ~~~l~~~l~~~q~g~ag---~~Ta--dAi~~av~rl~~~~~a~~kvvILLTDG~n~~~-----------------~---- 127 (191)
T cd01455 74 LETLKMMHAHSQFCWSG---DHTV--EATEFAIKELAAKEDFDEAIVIVLSDANLERY-----------------G---- 127 (191)
T ss_pred HHHHHHHHHhcccCccC---ccHH--HHHHHHHHHHHhcCcCCCcEEEEEeCCCcCCC-----------------C----
Confidence 46677788776542221 2233 88888888886 42 244 555565542211 0
Q ss_pred ccccchhHHHHHHH-HHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCC
Q 002239 698 HKLLQPADKTLKAM-AIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYP 753 (948)
Q Consensus 698 ~~Ll~pa~~FYk~L-A~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~ 753 (948)
..| .++ ++.+.+.||-|..+.++.. |-.++..+++.|||+.|.-.+
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 3455678888888877653 567788999999999998754
No 67
>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=93.96 E-value=1.9 Score=48.12 Aligned_cols=81 Identities=19% Similarity=0.160 Sum_probs=55.0
Q ss_pred ccHHHHHHHHHHHHHh-----------cCCEEEEEeccCCCCCcccccccccccCCCCCCCccccccccchhHHHHHHHH
Q 002239 644 SAFGAAVKAAFLALKS-----------TGGKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMA 712 (948)
Q Consensus 644 ~alG~AL~aA~~lL~~-----------~GGkIivF~sg~Pt~GpG~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA 712 (948)
+.+..||..|+-.+.. ..+||+++.++-+ |.. ..| -=+-+..
T Consensus 116 s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~-----------d~~-----------~QY-----i~~MN~i 168 (276)
T PF03850_consen 116 SLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSP-----------DSS-----------SQY-----IPLMNCI 168 (276)
T ss_pred hhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCC-----------Ccc-----------HHH-----HHHHHHH
Confidence 6788888888877643 2368888633221 111 011 1123445
Q ss_pred HHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCC
Q 002239 713 IEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYP 753 (948)
Q Consensus 713 ~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~ 753 (948)
-.+.+.+|.||++.... -|-.-|...+..|||.-+..+.
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 57889999999999887 4566789999999998888765
No 68
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=93.94 E-value=0.32 Score=59.44 Aligned_cols=12 Identities=8% Similarity=0.086 Sum_probs=5.3
Q ss_pred hHHHHHHHHHHH
Q 002239 704 ADKTLKAMAIEF 715 (948)
Q Consensus 704 a~~FYk~LA~~~ 715 (948)
+.+-|.+|+..|
T Consensus 941 a~eq~~~ls~M~ 952 (1102)
T KOG1924|consen 941 AREQYSKLSSMH 952 (1102)
T ss_pred HHHHHHHHHHHH
Confidence 334444444444
No 69
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.63 E-value=2.5 Score=47.24 Aligned_cols=95 Identities=15% Similarity=0.127 Sum_probs=62.0
Q ss_pred CcccHHHHHHHHHHHHHh----------cCCEEEEEeccCCCCCcccccccccccCCCCCCCccccccccchhHHHHHHH
Q 002239 642 AESAFGAAVKAAFLALKS----------TGGKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAM 711 (948)
Q Consensus 642 ~~~alG~AL~aA~~lL~~----------~GGkIivF~sg~Pt~GpG~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~L 711 (948)
.++.+..||..|+-.+.. ..+||+++..+. |.. .+.-=+-+.
T Consensus 117 ~~s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s~------------~~~----------------~qYi~~mn~ 168 (279)
T TIGR00627 117 SRTVLAGALSDALGYINRSEQSETASEKLKSRILVISITP------------DMA----------------LQYIPLMNC 168 (279)
T ss_pred ccccchhHHHhhhhhhcccccccccCcCCcceEEEEECCC------------Cch----------------HHHHHHHHH
Confidence 456678888888877742 247888887642 100 011113367
Q ss_pred HHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchhhHHHHHHHHhc
Q 002239 712 AIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYNDLRWNI 771 (948)
Q Consensus 712 A~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~~kL~~dL~r~l 771 (948)
...|.+.+|.||++..+.+ -|+.-+..+++.|||......+ .+.|...|...+
T Consensus 169 Ifaaqk~~I~Idv~~L~~e-~~~~~lqQa~~~TgG~Y~~~~~------~~~L~q~L~~~~ 221 (279)
T TIGR00627 169 IFSAQKQNIPIDVVSIGGD-FTSGFLQQAADITGGSYLHVKK------PQGLLQYLMTNM 221 (279)
T ss_pred HHHHHHcCceEEEEEeCCc-cccHHHHHHHHHhCCEEeccCC------HhHHHHHHHHhc
Confidence 7789999999999988643 4677899999999995544443 334555554443
No 70
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=93.51 E-value=0.65 Score=51.99 Aligned_cols=148 Identities=18% Similarity=0.282 Sum_probs=90.5
Q ss_pred CcEEEEEEEcchhHHhhh----HHHHHHHHHHHHHhcC-CCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccc
Q 002239 533 PAVFFFLIDVSMNALQTG----ATAAACSAISQVISDL-PEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVY 607 (948)
Q Consensus 533 pp~yvFvIDVS~~av~sG----~l~~v~~sI~~~L~~L-P~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~F 607 (948)
-.+.++|||+|-.+.+.- .+..+++.+..-+.+. .+|+-.+||||+.-+.+ .
T Consensus 60 iRhl~iviD~S~am~e~Df~P~r~a~~~K~le~Fv~eFFdQNPiSQigii~~k~g~---------A-------------- 116 (378)
T KOG2807|consen 60 IRHLYIVIDCSRAMEEKDFRPSRFANVIKYLEGFVPEFFDQNPISQIGIISIKDGK---------A-------------- 116 (378)
T ss_pred heeEEEEEEhhhhhhhccCCchHHHHHHHHHHHHHHHHhccCchhheeEEEEecch---------h--------------
Confidence 356788999999887653 3455555555555543 24566789988633211 0
Q ss_pred cCccccceeehHHh-HHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhcCC----EEEEEeccCCCCCccccccc
Q 002239 608 TPLQSDIIVPVSEC-RQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTGG----KLLVFQSVLPSVGIGALSAR 682 (948)
Q Consensus 608 vPl~~~lLv~l~Es-r~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~GG----kIivF~sg~Pt~GpG~L~~r 682 (948)
+.+.++..+ +..|+.| ..+. .-..+..|-.||+.|...|++.-| .|++..+++.|.-||.
T Consensus 117 -----~~lt~ltgnp~~hI~aL-~~~~-----~~~g~fSLqNaLe~a~~~Lk~~p~H~sREVLii~sslsT~DPgd---- 181 (378)
T KOG2807|consen 117 -----DRLTDLTGNPRIHIHAL-KGLT-----ECSGDFSLQNALELAREVLKHMPGHVSREVLIIFSSLSTCDPGD---- 181 (378)
T ss_pred -----hHHHHhcCCHHHHHHHH-hccc-----ccCCChHHHHHHHHHHHHhcCCCcccceEEEEEEeeecccCccc----
Confidence 111122211 2223322 2222 123456788999999999998632 3566666676665543
Q ss_pred ccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcc
Q 002239 683 EAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGG 746 (948)
Q Consensus 683 ed~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG 746 (948)
.|+ .-+.+.+..|-|.++..+.+ +..-..||+.|||
T Consensus 182 ------------------------i~~-tI~~lk~~kIRvsvIgLsaE---v~icK~l~kaT~G 217 (378)
T KOG2807|consen 182 ------------------------IYE-TIDKLKAYKIRVSVIGLSAE---VFICKELCKATGG 217 (378)
T ss_pred ------------------------HHH-HHHHHHhhCeEEEEEeechh---HHHHHHHHHhhCC
Confidence 233 34567888999999988754 6666899999999
No 71
>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=93.04 E-value=8.1 Score=45.74 Aligned_cols=268 Identities=13% Similarity=0.236 Sum_probs=124.4
Q ss_pred CcEEEEEEEcchhHHhh-hHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCe-EEEEecCcCCCCceEeeccCccccc---
Q 002239 533 PAVFFFLIDVSMNALQT-GATAAACSAISQVISDLPEGPRTMVGIATFDST-IHFYNLKRALQQPLMLIVPDVEDVY--- 607 (948)
Q Consensus 533 pp~yvFvIDVS~~av~s-G~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~-VhfynL~~~l~qpqmlVvsDldd~F--- 607 (948)
|-=..|++|+|.++... .-|+.+-..|.+.|.+|-.+ .|+||=+|=.. |.=|- . ..+ ..+.++.
T Consensus 102 PvDLYyLmDlS~Sm~ddl~~l~~lg~~l~~~~~~it~~--~~~GfGsfvdK~~~P~~--~--~~p-----~~l~~pc~~~ 170 (426)
T PF00362_consen 102 PVDLYYLMDLSYSMKDDLENLKSLGQDLAEEMRNITSN--FRLGFGSFVDKPVMPFV--S--TTP-----EKLKNPCPSK 170 (426)
T ss_dssp -EEEEEEEE-SGGGHHHHHHHCCCCHHHHHHHHTT-SS--EEEEEEEESSSSSTTTS--T---SS-----HCHHSTSCCT
T ss_pred ceeEEEEeechhhhhhhHHHHHHHHHHHHHHHHhcCcc--ceEechhhcccccCCcc--c--CCh-----hhhcCccccc
Confidence 45578899999987542 12444555677778888665 78999887543 21000 0 000 0111111
Q ss_pred -----cCccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHH--HHH--hcCCEEEEEeccCCC--CCc
Q 002239 608 -----TPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFL--ALK--STGGKLLVFQSVLPS--VGI 676 (948)
Q Consensus 608 -----vPl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~--lL~--~~GGkIivF~sg~Pt--~Gp 676 (948)
-|..-.-.++|.+..+.+++.+++.. +-.+...++..|-+-+++|+- .+. ...-||+||.+-..- .|-
T Consensus 171 ~~~c~~~~~f~~~l~Lt~~~~~F~~~v~~~~-is~n~D~PEgg~dal~Qa~vC~~~igWr~~a~~llv~~TD~~fH~agD 249 (426)
T PF00362_consen 171 NPNCQPPFSFRHVLSLTDDITEFNEEVNKQK-ISGNLDAPEGGLDALMQAAVCQEEIGWRNEARRLLVFSTDAGFHFAGD 249 (426)
T ss_dssp TS--B---SEEEEEEEES-HHHHHHHHHTS---B--SSSSBSHHHHHHHHHH-HHHHT--STSEEEEEEEESS-B--TTG
T ss_pred CCCCCCCeeeEEeecccchHHHHHHhhhhcc-ccCCCCCCccccchheeeeecccccCcccCceEEEEEEcCCccccccc
Confidence 01111234566666666777776653 334456778788777777653 111 123589999887764 488
Q ss_pred ccccccc--cccCCCCCCCccccc-cccchhHHHHHHHHHHHHhcCeEEEEEEccCcccccc-ccccccccCcceEEEeC
Q 002239 677 GALSARE--AEGRSNISSGEKETH-KLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIA-SISVIPKTTGGQVYYYY 752 (948)
Q Consensus 677 G~L~~re--d~~rsn~~~gt~ke~-~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDla-tL~~Ls~~TGG~v~~y~ 752 (948)
|+|...- +..+-| +..+.+. .-..-+..-...|.+.+.+++|.+ ||+......++. .|..+. .|+.+-...
T Consensus 250 g~l~gi~~pnd~~Ch--l~~~~~y~~~~~~DYPSv~ql~~~l~e~~i~~-IFAVt~~~~~~Y~~L~~~i--~~s~vg~L~ 324 (426)
T PF00362_consen 250 GKLAGIVKPNDGKCH--LDDNGMYTASTEQDYPSVGQLVRKLSENNINP-IFAVTKDVYSIYEELSNLI--PGSSVGELS 324 (426)
T ss_dssp GGGGT--S---SS----BSTTSBBGGGGCS----HHHHHHHHHHTTEEE-EEEEEGGGHHHHHHHHHHS--TTEEEEEES
T ss_pred cccceeeecCCCceE--ECCCCcccccccccCCCHHHHHHHHHHcCCEE-EEEEchhhhhHHHHHhhcC--CCceecccc
Confidence 8887543 222233 2111110 011123345677888888888876 565555544432 222222 244444444
Q ss_pred CCCCCchhhHHHHHHHHhccCCccccceeEE-EeCCCceEeeeecccccCC--CCceeecCCCCCceEEEEEEec
Q 002239 753 PFSALSDPAKLYNDLRWNITRPQGFEAVMRV-RCSQGIQVQEYHGNFCKRI--PTDIDLPAIDCNKAIMVTLKHD 824 (948)
Q Consensus 753 ~F~~~~d~~kL~~dL~r~ltr~~g~da~mrV-R~S~GL~V~~~~Gnf~~rs--t~~~~lp~id~dtSia~el~~d 824 (948)
. .+...-+|.++-++.+.. ...|+. ...++++|+ |..++..+. ...-+..++...+++.|++.++
T Consensus 325 ~--dSsNIv~LI~~aY~~i~s----~V~L~~~~~p~~v~v~-y~s~C~~~~~~~~~~~C~~V~iG~~V~F~VtVt 392 (426)
T PF00362_consen 325 S--DSSNIVQLIKEAYNKISS----KVELKHDNAPDGVKVS-YTSNCPNGSTVPGTNECSNVKIGDTVTFNVTVT 392 (426)
T ss_dssp T--TSHTHHHHHHHHHHHHCT----EEEEEECS--TTEEEE-EEEEESSSEEEECCEEECSE-TT-EEEEEEEEE
T ss_pred c--CchhHHHHHHHHHHHHhh----eEEEEecCCCCcEEEE-EEEEccCCcccCcCccccCEecCCEEEEEEEEE
Confidence 3 222334555555554432 223331 123456653 333322210 1123444555566666555544
No 72
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=92.90 E-value=0.81 Score=53.85 Aligned_cols=144 Identities=17% Similarity=0.202 Sum_probs=88.7
Q ss_pred EEEEEEcchhHHhhhHHHHHHHHHHHHHhcC--CCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCcccc
Q 002239 536 FFFLIDVSMNALQTGATAAACSAISQVISDL--PEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSD 613 (948)
Q Consensus 536 yvFvIDVS~~av~sG~l~~v~~sI~~~L~~L--P~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~ 613 (948)
++.|||.|.++ .|..+.+..++..+|-.+ .++ .++.++.||+.++=|.+...
T Consensus 275 villlD~SGSM--~G~~e~~AKAvalAl~~~alaen--R~~~~~lF~s~~~~~el~~k---------------------- 328 (437)
T COG2425 275 VILLLDKSGSM--SGFKEQWAKAVALALMRIALAEN--RDCYVILFDSEVIEYELYEK---------------------- 328 (437)
T ss_pred EEEEEeCCCCc--CCcHHHHHHHHHHHHHHHHHHhc--cceEEEEecccceeeeecCC----------------------
Confidence 55699999998 455555555555555443 344 78999999994433333221
Q ss_pred ceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHh---cCCEEEEEeccCCCCCcccccccccccCCCC
Q 002239 614 IIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS---TGGKLLVFQSVLPSVGIGALSAREAEGRSNI 690 (948)
Q Consensus 614 lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~---~GGkIivF~sg~Pt~GpG~L~~red~~rsn~ 690 (948)
.-.++++|+.|...|..+ +-+-.||..|++.++. .++.|++.|+|-.-
T Consensus 329 --------~~~~~e~i~fL~~~f~GG----TD~~~~l~~al~~~k~~~~~~adiv~ITDg~~~----------------- 379 (437)
T COG2425 329 --------KIDIEELIEFLSYVFGGG----TDITKALRSALEDLKSRELFKADIVVITDGEDE----------------- 379 (437)
T ss_pred --------ccCHHHHHHHHhhhcCCC----CChHHHHHHHHHHhhcccccCCCEEEEeccHhh-----------------
Confidence 001345666666655433 5677889999999985 45788888776421
Q ss_pred CCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCcc-ccccccccccccCcceEEEeC
Q 002239 691 SSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTY-VDIASISVIPKTTGGQVYYYY 752 (948)
Q Consensus 691 ~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~-vDlatL~~Ls~~TGG~v~~y~ 752 (948)
+ .+.|-.+..+...+.+.=|.-++++... -++..| +..+ +|.++
T Consensus 380 ---------~---~~~~~~~v~e~~k~~~~rl~aV~I~~~~~~~l~~I---sd~~---i~~~~ 424 (437)
T COG2425 380 ---------R---LDDFLRKVKELKKRRNARLHAVLIGGYGKPGLMRI---SDHI---IYRVE 424 (437)
T ss_pred ---------h---hhHHHHHHHHHHHHhhceEEEEEecCCCCccccee---eeee---EEeeC
Confidence 0 1455566666666777777777776544 444444 4433 66665
No 73
>PRK10997 yieM hypothetical protein; Provisional
Probab=92.36 E-value=1.8 Score=51.82 Aligned_cols=102 Identities=13% Similarity=0.202 Sum_probs=61.9
Q ss_pred CcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccc
Q 002239 533 PAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQS 612 (948)
Q Consensus 533 pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~ 612 (948)
.--+++|||+|.++. |.-+....+|..+|-.+....+.++++|.|++.+..|.+... +
T Consensus 323 kGpiII~VDtSGSM~--G~ke~~AkalAaAL~~iAl~q~dr~~li~Fs~~i~~~~l~~~--------------------~ 380 (487)
T PRK10997 323 RGPFIVCVDTSGSMG--GFNEQCAKAFCLALMRIALAENRRCYIMLFSTEVVTYELTGP--------------------D 380 (487)
T ss_pred CCcEEEEEECCCCCC--CCHHHHHHHHHHHHHHHHHhcCCCEEEEEecCCceeeccCCc--------------------c
Confidence 345889999999884 443444445555554443222368999999998876644321 1
Q ss_pred cceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc---CCEEEEEeccC
Q 002239 613 DIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---GGKLLVFQSVL 671 (948)
Q Consensus 613 ~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~---GGkIivF~sg~ 671 (948)
+ +..+.++|+. .+ ..++.+..||+.++..++.. .+-|++++++.
T Consensus 381 g--------l~~ll~fL~~---~f----~GGTDl~~aL~~al~~l~~~~~r~adIVVISDF~ 427 (487)
T PRK10997 381 G--------LEQAIRFLSQ---SF----RGGTDLAPCLRAIIEKMQGREWFDADAVVISDFI 427 (487)
T ss_pred C--------HHHHHHHHHH---hc----CCCCcHHHHHHHHHHHHcccccCCceEEEECCCC
Confidence 1 1122223332 22 34567889999998888752 46777777654
No 74
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.62 E-value=21 Score=45.22 Aligned_cols=57 Identities=39% Similarity=0.715 Sum_probs=44.7
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccccccCCCCCCCCCCCCCCCCCCCCCCC
Q 002239 1 MAASVPPGAPRQQPPPPPPNYNPNLQQNPNSLSDNFQNLNLNRPVSMPNSGPRPTPFAQSPQ 62 (948)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 62 (948)
|.+.+|||+||++ .++|+|+++. .++++++++|++++-+++|+..++++.|-|++|+
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 7788999999886 4488888877 6779999999999987777776666655555554
No 75
>smart00187 INB Integrin beta subunits (N-terminal portion of extracellular region). Portion of beta integrins that lies N-terminal to their EGF-like repeats. Integrins are cell adhesion molecules that mediate cell-extracellular matrix and cell-cell interactions. They contain both alpha and beta subunits. Beta integrins are proposed to have a von Willebrand factor type-A "insert" or "I" -like domain (although this remains to be confirmed).
Probab=89.88 E-value=49 Score=39.23 Aligned_cols=271 Identities=15% Similarity=0.244 Sum_probs=134.3
Q ss_pred CcEEEEEEEcchhHHhh-hHHHHHHHHHHHHHhcCCCCCCceEEEEEeCC-eEEEE-ecC-cCCCCceEeeccCcccccc
Q 002239 533 PAVFFFLIDVSMNALQT-GATAAACSAISQVISDLPEGPRTMVGIATFDS-TIHFY-NLK-RALQQPLMLIVPDVEDVYT 608 (948)
Q Consensus 533 pp~yvFvIDVS~~av~s-G~l~~v~~sI~~~L~~LP~~~rtrVGiITFds-~Vhfy-nL~-~~l~qpqmlVvsDldd~Fv 608 (948)
|-=..|+.|+|.++... .-|+.+...|.+.|..+-.+ .|+||=+|=+ .|.=| +.. +.+..|- .+..+.-.
T Consensus 99 PvDLYyLMDlS~SM~ddl~~lk~lg~~L~~~m~~it~n--~rlGfGsFVDK~v~P~~~t~p~~l~~PC----~~~~~~c~ 172 (423)
T smart00187 99 PVDLYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSN--FRLGFGSFVDKTVSPFVSTRPEKLENPC----PNYNLTCE 172 (423)
T ss_pred ccceEEEEeCCccHHHHHHHHHHHHHHHHHHHHhcccC--ceeeEEEeecCccCCcccCCHHHhcCCC----cCCCCCcC
Confidence 44578899999988542 22555556666666666555 7899977653 33212 111 0011110 00000111
Q ss_pred C-ccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhcC-----CEEEEEeccCCCC--Cccccc
Q 002239 609 P-LQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG-----GKLLVFQSVLPSV--GIGALS 680 (948)
Q Consensus 609 P-l~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~G-----GkIivF~sg~Pt~--GpG~L~ 680 (948)
| ..-.-.++|.+..+.+.+.+++.. +-.+...+|..|-+-+++|+- -+..| -||+||.+-.... |-|+|-
T Consensus 173 p~f~f~~~L~LT~~~~~F~~~V~~~~-iSgN~D~PEgG~DAimQaaVC-~~~IGWR~~a~rllv~~TDa~fH~AGDGkLa 250 (423)
T smart00187 173 PPYGFKHVLSLTDDTDEFNEEVKKQR-ISGNLDAPEGGFDAIMQAAVC-TEQIGWREDARRLLVFSTDAGFHFAGDGKLA 250 (423)
T ss_pred CCcceeeeccCCCCHHHHHHHHhhce-eecCCcCCcccHHHHHHHHhh-ccccccCCCceEEEEEEcCCCccccCCccee
Confidence 1 111224566666666666666543 223345677777777777741 12232 4899999887754 888876
Q ss_pred ccc--cccCCCCCCCccccccc-cchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEE-EeCCCCC
Q 002239 681 ARE--AEGRSNISSGEKETHKL-LQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVY-YYYPFSA 756 (948)
Q Consensus 681 ~re--d~~rsn~~~gt~ke~~L-l~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~-~y~~F~~ 756 (948)
..- +..+-| +. .+.+.+- ..-+..--..|++++.+++|-+ ||+.+....++. ..|+++-.|... .... .
T Consensus 251 GIv~PNDg~CH-L~-~~g~Yt~s~~~DYPSi~ql~~kL~e~nI~~-IFAVT~~~~~~Y--~~Ls~lipgs~vg~Ls~--D 323 (423)
T smart00187 251 GIVQPNDGQCH-LD-NNGEYTMSTTQDYPSIGQLNQKLAENNINP-IFAVTKKQVSLY--KELSALIPGSSVGVLSE--D 323 (423)
T ss_pred eEecCCCCcce-eC-CCCCcCccCcCCCCCHHHHHHHHHhcCceE-EEEEcccchhHH--HHHHHhcCcceeeeccc--C
Confidence 532 223333 11 1111100 0001112467888889999865 666666655543 333333333322 2211 2
Q ss_pred CchhhHHHHHHHHhccCCccccceeEEE-eCCCceEeeeecccccCC---CCceeecCCCCCceEEEEEEec
Q 002239 757 LSDPAKLYNDLRWNITRPQGFEAVMRVR-CSQGIQVQEYHGNFCKRI---PTDIDLPAIDCNKAIMVTLKHD 824 (948)
Q Consensus 757 ~~d~~kL~~dL~r~ltr~~g~da~mrVR-~S~GL~V~~~~Gnf~~rs---t~~~~lp~id~dtSia~el~~d 824 (948)
+.+.-+|.++-++.|. -+.+|+.. ..++|+|+-. -+ +..+ ...-...++.-.+.+.|++++.
T Consensus 324 SsNIv~LI~~aY~~i~----S~V~l~~~~~p~~v~~~y~-s~-C~~g~~~~~~~~C~~v~iG~~V~F~v~vt 389 (423)
T smart00187 324 SSNVVELIKDAYNKIS----SRVELEDNSLPEGVSVTYT-SS-CPGGVVGPGTRKCEGVKIGDTVSFEVTVT 389 (423)
T ss_pred cchHHHHHHHHHHhhc----eEEEEecCCCCCcEEEEEE-ee-CCCCCcccCCcccCCcccCCEEEEEEEEE
Confidence 2334456555555443 34444444 3567776522 22 2111 1111344566666666666655
No 76
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=89.50 E-value=2.4 Score=50.84 Aligned_cols=32 Identities=28% Similarity=0.344 Sum_probs=25.6
Q ss_pred cEEEEEEEcchhHHh-----hhHHHHHHHHHHHHHhc
Q 002239 534 AVFFFLIDVSMNALQ-----TGATAAACSAISQVISD 565 (948)
Q Consensus 534 p~yvFvIDVS~~av~-----sG~l~~v~~sI~~~L~~ 565 (948)
++|+|+||+|.++-+ .-+|+.++.++..-|+.
T Consensus 2 pi~lFllDTS~SM~qrah~~~tylD~AKgaVEtFiK~ 38 (888)
T KOG3768|consen 2 PIFLFLLDTSGSMSQRAHPQFTYLDLAKGAVETFIKQ 38 (888)
T ss_pred ceEEEEEecccchhhhccCCchhhHHHHHHHHHHHHH
Confidence 689999999998754 34788888888888765
No 77
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=87.09 E-value=8.6 Score=42.52 Aligned_cols=55 Identities=15% Similarity=0.062 Sum_probs=40.3
Q ss_pred HHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchhhHHHHHHHHhc
Q 002239 708 LKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDPAKLYNDLRWNI 771 (948)
Q Consensus 708 Yk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~~kL~~dL~r~l 771 (948)
|-+.--.+.+.+|.||++.+..+ -..|.+.|..|||...+.+. .+.|.+.|...+
T Consensus 185 ~MNciFaAqKq~I~Idv~~l~~~---s~~LqQa~D~TGG~YL~v~~------~~gLLqyLlt~~ 239 (314)
T KOG2487|consen 185 YMNCIFAAQKQNIPIDVVSLGGD---SGFLQQACDITGGDYLHVEK------PDGLLQYLLTLL 239 (314)
T ss_pred HHHHHHHHHhcCceeEEEEecCC---chHHHHHHhhcCCeeEecCC------cchHHHHHHHHh
Confidence 34555577899999999998877 34678999999999888775 234555555443
No 78
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=86.26 E-value=3 Score=48.40 Aligned_cols=161 Identities=15% Similarity=0.174 Sum_probs=98.7
Q ss_pred CcEEEEEEEcchhHHhhhHHHHHHHH---HHHHHh-cCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCcccccc
Q 002239 533 PAVFFFLIDVSMNALQTGATAAACSA---ISQVIS-DLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYT 608 (948)
Q Consensus 533 pp~yvFvIDVS~~av~sG~l~~v~~s---I~~~L~-~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~Fv 608 (948)
-...+.++|+|++++-.|.+--+++. |...+. ..+.+ -|.||+|...-. .
T Consensus 463 ~aAvallvDtS~SM~~eGRw~PmKQtALALhHLv~TrfrGD---~l~~i~Fgr~A~------------~----------- 516 (652)
T COG4867 463 QAAVALLVDTSFSMVMEGRWLPMKQTALALHHLVCTRFRGD---ALQIIAFGRYAR------------T----------- 516 (652)
T ss_pred ccceeeeeeccHHHHHhccCCchHHHHHHHHHHHHhcCCCc---ceEEEeccchhc------------c-----------
Confidence 45678999999999887754434433 333332 23333 588888764321 0
Q ss_pred CccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhcC---CEEEEEeccCCCC----Ccccccc
Q 002239 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTG---GKLLVFQSVLPSV----GIGALSA 681 (948)
Q Consensus 609 Pl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~G---GkIivF~sg~Pt~----GpG~L~~ 681 (948)
|+++| |..++.+. .-.+.+--||..|-.+|+... -.|++.+.|-||. |-|.+..
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 33444332 223456788999999998643 4789999999974 2232211
Q ss_pred cccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeC
Q 002239 682 REAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYY 752 (948)
Q Consensus 682 red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~ 752 (948)
+ .|+++-+. +.+. .+++ .+|.+.|+-|++|....+.-=..-|..+++.++|.+|+-+
T Consensus 578 -------f-~yp~DP~t-~~~T----vr~~-d~~~r~G~q~t~FrLg~DpgL~~Fv~qva~rv~G~vv~pd 634 (652)
T COG4867 578 -------F-DYPPDPRT-IAHT----VRGF-DDMARLGAQVTIFRLGSDPGLARFIDQVARRVQGRVVVPD 634 (652)
T ss_pred -------c-CCCCChhH-HHHH----HHHH-HHHHhccceeeEEeecCCHhHHHHHHHHHHHhCCeEEecC
Confidence 1 45444331 2211 2222 3689999999999998875444557889999999998754
No 79
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=85.70 E-value=12 Score=49.11 Aligned_cols=112 Identities=18% Similarity=0.289 Sum_probs=72.7
Q ss_pred EEEeccccccCCCCCcEEEEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEe
Q 002239 519 EFVATKEYMVRDPMPAVFFFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLML 598 (948)
Q Consensus 519 Efvap~eY~~R~p~pp~yvFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqml 598 (948)
|..--+-|+.....+--.+|++|+|.+... -.++.++..+.++|+.|-++ ..|-|+||++.++.-.
T Consensus 211 D~R~r~Wyi~aAt~pKdiviLlD~SgSm~g-~~~~lak~tv~~iLdtLs~~--Dfvni~tf~~~~~~v~----------- 276 (1104)
T KOG2353|consen 211 DCRNRSWYIQAATSPKDIVILLDVSGSMSG-LRLDLAKQTVNEILDTLSDN--DFVNILTFNSEVNPVS----------- 276 (1104)
T ss_pred ecccccccccccCCccceEEEEeccccccc-hhhHHHHHHHHHHHHhcccC--CeEEEEeeccccCccc-----------
Confidence 333344566666788889999999997732 24678888889999999876 6899999999886432
Q ss_pred eccCccccccCccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHh
Q 002239 599 IVPDVEDVYTPLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKS 659 (948)
Q Consensus 599 VvsDldd~FvPl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~ 659 (948)
++.. ..|+----..++.|.++++.|.. + ...-+-.|++.|+++|..
T Consensus 277 --pc~~-------~~lvqAt~~nk~~~~~~i~~l~~--k----~~a~~~~~~e~aF~lL~~ 322 (1104)
T KOG2353|consen 277 --PCFN-------GTLVQATMRNKKVFKEAIETLDA--K----GIANYTAALEYAFSLLRD 322 (1104)
T ss_pred --cccc-------CceeecchHHHHHHHHHHhhhcc--c----cccchhhhHHHHHHHHHH
Confidence 2211 12222122345666666666651 1 112345788888888864
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=85.34 E-value=22 Score=38.18 Aligned_cols=114 Identities=14% Similarity=0.088 Sum_probs=60.6
Q ss_pred HHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc---CCEEEEEec--cCCCCCcccccccccccCCCCCCCcccc
Q 002239 623 QHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST---GGKLLVFQS--VLPSVGIGALSAREAEGRSNISSGEKET 697 (948)
Q Consensus 623 ~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~---GGkIivF~s--g~Pt~GpG~L~~red~~rsn~~~gt~ke 697 (948)
+.+-..|+..+..+ ... +++|.||..+..+|+.. +.|-++=.| |.-|.|+.
T Consensus 78 ~a~A~~l~~~~r~~---~~~-Taig~Al~~a~~ll~~~~~~~~RrVIDvSGDG~~N~G~~-------------------- 133 (205)
T PF06707_consen 78 EAFAARLRAAPRRF---GGR-TAIGSALDFAAALLAQNPFECWRRVIDVSGDGPNNQGPR-------------------- 133 (205)
T ss_pred HHHHHHHHhCCCCC---CCC-chHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCCCCCC--------------------
Confidence 33444455554322 233 89999999999999874 334333333 22222221
Q ss_pred ccccchhHHHHHHHHHHHHhcCeEEEEEEccCccc----ccccccc--ccccCcceEEEeCCCCCCchhhHHHHHHHHhc
Q 002239 698 HKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYV----DIASISV--IPKTTGGQVYYYYPFSALSDPAKLYNDLRWNI 771 (948)
Q Consensus 698 ~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~v----DlatL~~--Ls~~TGG~v~~y~~F~~~~d~~kL~~dL~r~l 771 (948)
+.+ ..-..+...||+||=+.+....- +|...-. +..=.|..|..-.. .+.|.+-|+|.|
T Consensus 134 -----p~~----~ard~~~~~GitINgL~I~~~~~~~~~~L~~yy~~~VIgGpgAFV~~a~~------~~df~~AirrKL 198 (205)
T PF06707_consen 134 -----PVT----SARDAAVAAGITINGLAILDDDPFGGADLDAYYRRCVIGGPGAFVETARG------FEDFAEAIRRKL 198 (205)
T ss_pred -----ccH----HHHHHHHHCCeEEeeeEecCCCCCccccHHHHHhhhcccCCCceEEEcCC------HHHHHHHHHHHH
Confidence 111 12234557899999998877655 5554432 22222333433333 345666666655
Q ss_pred cCCc
Q 002239 772 TRPQ 775 (948)
Q Consensus 772 tr~~ 775 (948)
.||+
T Consensus 199 ~rEi 202 (205)
T PF06707_consen 199 IREI 202 (205)
T ss_pred HHHh
Confidence 5553
No 81
>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=75.81 E-value=32 Score=37.45 Aligned_cols=102 Identities=14% Similarity=0.157 Sum_probs=60.6
Q ss_pred HHHHHHHhhccccccCCCCCccc-HHHHHHHHHHHHHhc-------C-----CEEEEEeccCCCCCcccccccccccCCC
Q 002239 623 QHLELLLESIPSMFQNNRTAESA-FGAAVKAAFLALKST-------G-----GKLLVFQSVLPSVGIGALSAREAEGRSN 689 (948)
Q Consensus 623 ~~I~~lLd~Lp~~f~~~~~~~~a-lG~AL~aA~~lL~~~-------G-----GkIivF~sg~Pt~GpG~L~~red~~rsn 689 (948)
+.+.+.|++|+- ..+.-.+++ +.-+|.+|+.++... + -+.|+...+.|..=| ..+
T Consensus 90 ~~fl~~L~~I~f--~GGG~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nSpP~~~p----~~~------ 157 (226)
T PF11265_consen 90 QKFLQWLDAIQF--SGGGFESCAAIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNSPPYRLP----VNE------ 157 (226)
T ss_pred HHHHHHHHccCc--CCCCcccchhHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCCCCcccc----ccC------
Confidence 344556777763 333333444 777888888877631 1 245666666664311 111
Q ss_pred CCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEE
Q 002239 690 ISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYY 750 (948)
Q Consensus 690 ~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~ 750 (948)
.. .-....+++++..+.+++|.+.++.- . -+..|..|-+..+|....
T Consensus 158 -------~~---~~~~~~~d~la~~~~~~~I~LSiisP-r---klP~l~~Lfeka~~~~~~ 204 (226)
T PF11265_consen 158 -------CP---QYSGKTCDQLAVLISERNISLSIISP-R---KLPSLRSLFEKAKGNPRA 204 (226)
T ss_pred -------CC---cccCCCHHHHHHHHHhcCceEEEEcC-c---cCHHHHHHHHhcCCCccc
Confidence 11 11234578999999999999998852 2 255666777777766655
No 82
>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=72.52 E-value=16 Score=39.13 Aligned_cols=30 Identities=7% Similarity=0.158 Sum_probs=21.2
Q ss_pred CCcccHHHHHHHHHHHHHhc---CCEEEEEecc
Q 002239 641 TAESAFGAAVKAAFLALKST---GGKLLVFQSV 670 (948)
Q Consensus 641 ~~~~alG~AL~aA~~lL~~~---GGkIivF~sg 670 (948)
...+.+|.||..+...+... ...|+++++|
T Consensus 127 ~GgTdi~~aL~~~~~~~~~~~~~~t~vvIiSDg 159 (222)
T PF05762_consen 127 GGGTDIGQALREFLRQYARPDLRRTTVVIISDG 159 (222)
T ss_pred CCccHHHHHHHHHHHHhhcccccCcEEEEEecc
Confidence 45677899999988877632 3457777765
No 83
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=70.11 E-value=8.6 Score=37.79 Aligned_cols=44 Identities=18% Similarity=0.259 Sum_probs=34.5
Q ss_pred EEEEEcchhHHhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEE
Q 002239 537 FFLIDVSMNALQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHF 585 (948)
Q Consensus 537 vFvIDVS~~av~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~Vhf 585 (948)
+++||+|.+.-+ ..|+.++..|..+++... .+|-||.||..|+-
T Consensus 2 ~vaiDtSGSis~-~~l~~fl~ev~~i~~~~~----~~v~vi~~D~~v~~ 45 (126)
T PF09967_consen 2 VVAIDTSGSISD-EELRRFLSEVAGILRRFP----AEVHVIQFDAEVQD 45 (126)
T ss_pred EEEEECCCCCCH-HHHHHHHHHHHHHHHhCC----CCEEEEEECCEeee
Confidence 689999997743 357778888888887762 56999999999863
No 84
>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=70.10 E-value=3.6 Score=31.08 Aligned_cols=30 Identities=20% Similarity=0.476 Sum_probs=23.2
Q ss_pred ccCCCCCceeccCceEecCCCeEEEccCCCCCCC
Q 002239 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGFTDET 490 (948)
Q Consensus 457 vRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~v 490 (948)
++|..||+.+-- -.+-.+|+|.+|+..|.+
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 356689999999988753
No 85
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=69.09 E-value=60 Score=35.30 Aligned_cols=177 Identities=15% Similarity=0.243 Sum_probs=91.7
Q ss_pred CCcEEEEEEEcchhH----HhhhHHHHHHHHHHHHHhc-CCCCCCceEEEE-EeCCeEEEEecCcCCCCceEeeccCccc
Q 002239 532 MPAVFFFLIDVSMNA----LQTGATAAACSAISQVISD-LPEGPRTMVGIA-TFDSTIHFYNLKRALQQPLMLIVPDVED 605 (948)
Q Consensus 532 ~pp~yvFvIDVS~~a----v~sG~l~~v~~sI~~~L~~-LP~~~rtrVGiI-TFds~VhfynL~~~l~qpqmlVvsDldd 605 (948)
.|...+.+||.--.. -+.|-..-+++.|.--|+. |.-+.+.||++| .|+..+.+.--+... .+-+++.|.
T Consensus 19 spslL~viid~~p~~W~~~~ek~~~~kvl~di~VFLNAhlaf~~~NrVaVva~~s~~~~yLypss~s----~~k~se~e~ 94 (296)
T COG5242 19 SPSLLFVIIDLEPENWELTTEKGSRDKVLNDIVVFLNAHLAFSRNNRVAVVAGYSQGKTYLYPSSES----ALKASESEN 94 (296)
T ss_pred CCceEEEEEecChhhcccccccccHHHHHHHHHHHHHHHHhhccCCeEEEEEeccCceEEeccCcch----hhhhhcccC
Confidence 355666777875443 1334444555555555543 222223578876 466666543222211 122333331
Q ss_pred -----cccCccccceeehHHhHHHHHHHHhhccccccCC--CCCcccHHHHHHHHHHHHHh------cCCEEEEEeccCC
Q 002239 606 -----VYTPLQSDIIVPVSECRQHLELLLESIPSMFQNN--RTAESAFGAAVKAAFLALKS------TGGKLLVFQSVLP 672 (948)
Q Consensus 606 -----~FvPl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~--~~~~~alG~AL~aA~~lL~~------~GGkIivF~sg~P 672 (948)
++. + +-++. +.+|+.|..+++.. .....-+|-|+.+++.+..+ .-.||++|+.+
T Consensus 95 tr~sd~yr----r-fr~vd------e~~i~eiyrl~e~~~k~sqr~~v~gams~glay~n~~~~e~slkSriliftls-- 161 (296)
T COG5242 95 TRNSDMYR----R-FRNVD------ETDITEIYRLIEHPHKNSQRYDVGGAMSLGLAYCNHRDEETSLKSRILIFTLS-- 161 (296)
T ss_pred ccchhhhh----h-hcccc------hHHHHHHHHHHhCcccccceeehhhhhhhhHHHHhhhcccccccceEEEEEec--
Confidence 111 1 11221 22344444333322 22334578889888887754 34899999862
Q ss_pred CCCcccccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeC
Q 002239 673 SVGIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYY 752 (948)
Q Consensus 673 t~GpG~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~ 752 (948)
| |+... . +.+ |-+---.+.+.+|-||+|-+... -..|...+..|||.....+
T Consensus 162 --G------~d~~~----q---------Yip----~mnCiF~Aqk~~ipI~v~~i~g~---s~fl~Q~~daTgG~Yl~ve 213 (296)
T COG5242 162 --G------RDRKD----Q---------YIP----YMNCIFAAQKFGIPISVFSIFGN---SKFLLQCCDATGGDYLTVE 213 (296)
T ss_pred --C------chhhh----h---------hch----hhhheeehhhcCCceEEEEecCc---cHHHHHHhhccCCeeEeec
Confidence 1 22111 0 111 22222345578999999976654 3456788999999877776
Q ss_pred C
Q 002239 753 P 753 (948)
Q Consensus 753 ~ 753 (948)
+
T Consensus 214 ~ 214 (296)
T COG5242 214 D 214 (296)
T ss_pred C
Confidence 5
No 86
>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=66.31 E-value=3.8 Score=34.77 Aligned_cols=33 Identities=21% Similarity=0.377 Sum_probs=23.7
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N 488 (948)
.+-|++|+.--.-+-+-+...-+|+|..|+..|
T Consensus 22 aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 22 ALICSKCFSHNGLAPKEEFEEIQYRCPYCGALN 54 (54)
T ss_pred eEECcccchhhcccccccCCceEEEcCCCCCcC
Confidence 566999998654442333344599999999887
No 87
>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=65.79 E-value=43 Score=37.63 Aligned_cols=64 Identities=13% Similarity=0.221 Sum_probs=42.6
Q ss_pred cccHHHHHHHHHHHHHh---------cCCEEEEEeccCCCCCcccccccccccCCCCCCCccccccccchhHHHHHHHHH
Q 002239 643 ESAFGAAVKAAFLALKS---------TGGKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAI 713 (948)
Q Consensus 643 ~~alG~AL~aA~~lL~~---------~GGkIivF~sg~Pt~GpG~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~ 713 (948)
+.++--||..|+..++. +|-.|++.+.|. |-. .-..+.++...+
T Consensus 202 ~gNiLEaINlaln~~~~~~idRdl~rTG~~iivITpG~-----Gvf----------------------~Vd~~ll~~T~~ 254 (281)
T PF12257_consen 202 KGNILEAINLALNQFDKHYIDRDLRRTGQSIIVITPGT-----GVF----------------------EVDYDLLRLTTQ 254 (281)
T ss_pred cccHHHHHHHHhhhcccccccCcccccCceEEEEcCCC-----ceE----------------------EECHHHHHHHHH
Confidence 34566777777777753 566677666543 322 122345677788
Q ss_pred HHHhcCeEEEEEEccCcccc
Q 002239 714 EFAEYQVCVDVFITTQTYVD 733 (948)
Q Consensus 714 ~~~~~gIsVDlFl~s~~~vD 733 (948)
++...||++||.+.+..-..
T Consensus 255 rl~~~gi~~DlIcL~~~PLH 274 (281)
T PF12257_consen 255 RLLDNGIGIDLICLSKPPLH 274 (281)
T ss_pred HHHhcCccEEEEEcCCCCcc
Confidence 99999999999998765443
No 88
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=63.39 E-value=2.8 Score=36.15 Aligned_cols=28 Identities=32% Similarity=0.993 Sum_probs=19.8
Q ss_pred ccCCCCCccCCCCCceeccCceEecCCCeEEEccCCCC
Q 002239 450 DFGDMGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (948)
Q Consensus 450 d~g~~~pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~ 487 (948)
+.|+..|.||.+||- .|..|+|.-||+.
T Consensus 32 nCGe~~I~Rc~~CRk----------~g~~Y~Cp~CGF~ 59 (61)
T COG2888 32 NCGEVEIYRCAKCRK----------LGNPYRCPKCGFE 59 (61)
T ss_pred CCCceeeehhhhHHH----------cCCceECCCcCcc
Confidence 456667888888874 3456778888764
No 89
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=57.91 E-value=7 Score=31.67 Aligned_cols=30 Identities=23% Similarity=0.668 Sum_probs=20.8
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDE 489 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~ 489 (948)
..+|.+|++-+- +++....++|+.||....
T Consensus 3 ~y~C~~CG~~~~----~~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVE----LDEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEE----ECCCCCceECCCCCCeEE
Confidence 468999999543 233333799999996543
No 90
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=55.83 E-value=4.4 Score=35.96 Aligned_cols=30 Identities=27% Similarity=0.606 Sum_probs=20.1
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCCCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETP 491 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~vP 491 (948)
|.|| +|+.|+= -.++.+.-+| .||....|-
T Consensus 3 ifrC-~Cgr~ly----a~e~~kTkkC-~CG~~l~vk 32 (68)
T PF09082_consen 3 IFRC-DCGRYLY----AKEGAKTKKC-VCGKTLKVK 32 (68)
T ss_dssp EEEE-TTS--EE----EETT-SEEEE-TTTEEEE--
T ss_pred EEEe-cCCCEEE----ecCCcceeEe-cCCCeeeee
Confidence 6899 7999863 2566788999 999887764
No 91
>COG4548 NorD Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]
Probab=55.82 E-value=40 Score=40.79 Aligned_cols=82 Identities=26% Similarity=0.265 Sum_probs=47.1
Q ss_pred ccHHHHHHHHHHHHHhcC---CEEEEEeccCCCCCcccccccccccCCCCCCCccccccccchhHHHHHHHHHHHHhcCe
Q 002239 644 SAFGAAVKAAFLALKSTG---GKLLVFQSVLPSVGIGALSAREAEGRSNISSGEKETHKLLQPADKTLKAMAIEFAEYQV 720 (948)
Q Consensus 644 ~alG~AL~aA~~lL~~~G---GkIivF~sg~Pt~GpG~L~~red~~rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gI 720 (948)
+-.|+||..|..-|-+.. ==+|||+.|.||- +..-+ .| +|.. +.| +-..++.+.||
T Consensus 533 tR~G~AIR~As~kL~~rpq~qklLivlSDGkPnd----~d~YE--gr----~gIe----------DTr-~AV~eaRk~Gi 591 (637)
T COG4548 533 TRDGAAIRHASAKLMERPQRQKLLIVLSDGKPND----FDHYE--GR----FGIE----------DTR-EAVIEARKSGI 591 (637)
T ss_pred ccccHHHHHHHHHHhcCcccceEEEEecCCCccc----ccccc--cc----cchh----------hHH-HHHHHHHhcCc
Confidence 346999999988775422 2388999999873 11000 11 1111 223 34567888898
Q ss_pred EEEEEEccCccccccccccccccCcceEEEe
Q 002239 721 CVDVFITTQTYVDIASISVIPKTTGGQVYYY 751 (948)
Q Consensus 721 sVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y 751 (948)
.|=-+.... ..+.++..+||-..|.+
T Consensus 592 ~VF~Vtld~-----ea~~y~p~~fgqngYa~ 617 (637)
T COG4548 592 EVFNVTLDR-----EAISYLPALFGQNGYAF 617 (637)
T ss_pred eEEEEEecc-----hhhhhhHHHhccCceEE
Confidence 753332232 34566777777666643
No 92
>PRK12860 transcriptional activator FlhC; Provisional
Probab=53.17 E-value=6.8 Score=41.38 Aligned_cols=31 Identities=32% Similarity=0.835 Sum_probs=22.3
Q ss_pred CCCCCccCCCCCc-eeccCceEecCCCeEEEccCC
Q 002239 452 GDMGPVRCSRCKA-YINPFMKFIDQGRRFICSLCG 485 (948)
Q Consensus 452 g~~~pvRC~rCrA-YINPf~~f~d~G~~W~CnfC~ 485 (948)
+.....+|++|++ ||-. ..+....|+|.||.
T Consensus 130 ~~L~l~~C~~Cgg~fv~~---~~e~~~~f~CplC~ 161 (189)
T PRK12860 130 GMLQLARCCRCGGKFVTH---AHDLRHNFVCGLCQ 161 (189)
T ss_pred CCeeeccCCCCCCCeecc---ccccCCCCcCCCCC
Confidence 3456899999997 5522 22445789999999
No 93
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=51.60 E-value=6.1 Score=34.12 Aligned_cols=26 Identities=35% Similarity=0.991 Sum_probs=16.6
Q ss_pred CCCCCccCCCCCceeccCceEecCCCeEEEccCCCC
Q 002239 452 GDMGPVRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (948)
Q Consensus 452 g~~~pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~ 487 (948)
|+..|.||.+||- .+..|+|+-||+.
T Consensus 32 G~~~I~RC~~CRk----------~~~~Y~CP~CGF~ 57 (59)
T PRK14890 32 GEVIIYRCEKCRK----------QSNPYTCPKCGFE 57 (59)
T ss_pred CCeeEeechhHHh----------cCCceECCCCCCc
Confidence 4444777777764 3355777778764
No 94
>PRK03954 ribonuclease P protein component 4; Validated
Probab=50.64 E-value=8.6 Score=37.91 Aligned_cols=35 Identities=23% Similarity=0.616 Sum_probs=24.5
Q ss_pred ccCCCCCceecc----CceEecCC---CeEEEccCCCCCCCC
Q 002239 457 VRCSRCKAYINP----FMKFIDQG---RRFICSLCGFTDETP 491 (948)
Q Consensus 457 vRC~rCrAYINP----f~~f~d~G---~~W~CnfC~~~N~vP 491 (948)
--|++|.+||=| -+++..+. -.++|..||+..-+|
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 349999999855 34444332 234999999988776
No 95
>PF10138 vWA-TerF-like: vWA found in TerF C terminus ; InterPro: IPR019303 This entry represents the N-terminal domain of a family of proteins that confer resistance to the metalloid element tellurium and its salts.
Probab=49.94 E-value=1.5e+02 Score=31.77 Aligned_cols=145 Identities=10% Similarity=0.199 Sum_probs=83.7
Q ss_pred EEEEEEEcchhH---HhhhHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCcc
Q 002239 535 VFFFLIDVSMNA---LQTGATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQ 611 (948)
Q Consensus 535 ~yvFvIDVS~~a---v~sG~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~ 611 (948)
...+|||.|.++ -++|.++.+.+.|...=..|.++ ..|=+.+|++..+=+ .|
T Consensus 3 rV~LVLD~SGSM~~~yk~G~vQ~~~Er~lalA~~~DdD--G~i~v~~Fs~~~~~~--------------~~--------- 57 (200)
T PF10138_consen 3 RVYLVLDISGSMRPLYKDGTVQRVVERILALAAQFDDD--GEIDVWFFSTEFDRL--------------PD--------- 57 (200)
T ss_pred EEEEEEeCCCCCchhhhCccHHHHHHHHHHHHhhcCCC--CceEEEEeCCCCCcC--------------CC---------
Confidence 357899999987 45788888888888776666554 445555555543211 11
Q ss_pred ccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc-C----CEEEEEeccCCCCCccccccccccc
Q 002239 612 SDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-G----GKLLVFQSVLPSVGIGALSAREAEG 686 (948)
Q Consensus 612 ~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~-G----GkIivF~sg~Pt~GpG~L~~red~~ 686 (948)
|.+.+....|+.+...+..+ .+...+....||+.+++-.... + .-|+.+|.|-|+- +
T Consensus 58 ----vt~~~~~~~v~~~~~~~~~~---~~~G~t~y~~vm~~v~~~y~~~~~~~~P~~VlFiTDG~~~~-------~---- 119 (200)
T PF10138_consen 58 ----VTLDNYEGYVDELHAGLPDW---GRMGGTNYAPVMEDVLDHYFKREPSDAPALVLFITDGGPDD-------R---- 119 (200)
T ss_pred ----cCHHHHHHHHHHHhcccccc---CCCCCcchHHHHHHHHHHHhhcCCCCCCeEEEEEecCCccc-------h----
Confidence 12223334444444443222 2233467889999988877632 1 2355556655421 1
Q ss_pred CCCCCCCccccccccchhHHHHHHHHHHHHhcCeEEEEEEccCcccccccccccccc
Q 002239 687 RSNISSGEKETHKLLQPADKTLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPKT 743 (948)
Q Consensus 687 rsn~~~gt~ke~~Ll~pa~~FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~ 743 (948)
+--+++-.+++...|-.-+..++.+..+ -|..|-.+
T Consensus 120 -------------------~~~~~~i~~as~~pifwqFVgiG~~~f~--fL~kLD~l 155 (200)
T PF10138_consen 120 -------------------RAIEKLIREASDEPIFWQFVGIGDSNFG--FLEKLDDL 155 (200)
T ss_pred -------------------HHHHHHHHhccCCCeeEEEEEecCCcch--HHHHhhcc
Confidence 1114555666777888888878776644 34555553
No 96
>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=49.48 E-value=9.6 Score=37.07 Aligned_cols=33 Identities=18% Similarity=0.418 Sum_probs=26.9
Q ss_pred ccCCCCCceeccCceEec-CCCeEEEccCCCCCC
Q 002239 457 VRCSRCKAYINPFMKFID-QGRRFICSLCGFTDE 489 (948)
Q Consensus 457 vRC~rCrAYINPf~~f~d-~G~~W~CnfC~~~N~ 489 (948)
..|..|+-++.--|.+.. +...|.|++|....+
T Consensus 72 ~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~re 105 (118)
T PF02318_consen 72 RVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQRE 105 (118)
T ss_dssp EEETTTTEEEETTSEEETSSSCCEEEHHHHHHHH
T ss_pred CcCCcCCccccCccCCcCCCCCCEEChhhHHHHH
Confidence 789999999999888774 467999999976543
No 97
>PRK12722 transcriptional activator FlhC; Provisional
Probab=49.21 E-value=7.9 Score=40.86 Aligned_cols=31 Identities=23% Similarity=0.562 Sum_probs=22.2
Q ss_pred CCCCccCCCCCc-eeccCceEecCCCeEEEccCCC
Q 002239 453 DMGPVRCSRCKA-YINPFMKFIDQGRRFICSLCGF 486 (948)
Q Consensus 453 ~~~pvRC~rCrA-YINPf~~f~d~G~~W~CnfC~~ 486 (948)
.....+|++|++ ||-.. .+-...|+|.||+-
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 24457899999986
No 98
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=47.13 E-value=13 Score=30.46 Aligned_cols=32 Identities=31% Similarity=0.809 Sum_probs=21.0
Q ss_pred cCCCCCceeccCceEecCCCeEEEccCCCCCCCC
Q 002239 458 RCSRCKAYINPFMKFIDQGRRFICSLCGFTDETP 491 (948)
Q Consensus 458 RC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~vP 491 (948)
.|.+|+..|-+ +-.++..+|+|.-|++.-.+.
T Consensus 2 FCp~Cg~~l~~--~~~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIP--KEGKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCcccc--ccCCCCCEEECCcCCCeEECC
Confidence 48999996632 212223599999999765543
No 99
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=46.88 E-value=3.2e+02 Score=31.73 Aligned_cols=12 Identities=25% Similarity=0.529 Sum_probs=7.6
Q ss_pred CCCCCCCCCCCC
Q 002239 358 SKIDPQQIPRPV 369 (948)
Q Consensus 358 ~~idp~~iP~P~ 369 (948)
.-+++.+.|.|.
T Consensus 313 ph~NpaffpPP~ 324 (498)
T KOG4849|consen 313 PHNNPAFFPPPQ 324 (498)
T ss_pred cccCcccCCCCC
Confidence 456677777664
No 100
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=45.88 E-value=48 Score=42.01 Aligned_cols=33 Identities=18% Similarity=0.680 Sum_probs=22.4
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCCCCCCc
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPR 492 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~vP~ 492 (948)
+.+|.+|-.++ ++-...+.-+|..||+.-.+|.
T Consensus 444 v~~Cp~Cd~~l----t~H~~~~~L~CH~Cg~~~~~p~ 476 (730)
T COG1198 444 IAECPNCDSPL----TLHKATGQLRCHYCGYQEPIPQ 476 (730)
T ss_pred cccCCCCCcce----EEecCCCeeEeCCCCCCCCCCC
Confidence 45555555543 3444568999999999977763
No 101
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=44.95 E-value=1.7e+02 Score=33.31 Aligned_cols=61 Identities=23% Similarity=0.372 Sum_probs=36.6
Q ss_pred HHHHHHhcCeEEEEEEccCccccccccccccccCcc--eEEEeCCCCCCchhhHHHHHHHHhccCCccccc
Q 002239 711 MAIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGG--QVYYYYPFSALSDPAKLYNDLRWNITRPQGFEA 779 (948)
Q Consensus 711 LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG--~v~~y~~F~~~~d~~kL~~dL~r~ltr~~g~da 779 (948)
....++..+|-|.++..+.+ ++.-..||+.|+- +-+||=. .|...| ++|.+-++.+..+|.
T Consensus 212 tid~Lv~~~IrV~~igL~ae---vaicKeickaTn~~~e~~y~v~----vde~Hl-~el~~E~~~P~~~n~ 274 (421)
T COG5151 212 TIDKLVAYNIRVHFIGLCAE---VAICKEICKATNSSTEGRYYVP----VDEGHL-SELMRELSHPTDFNG 274 (421)
T ss_pred HHHHHHhhceEEEEEeehhH---HHHHHHHHhhcCcCcCceeEee----ecHHHH-HHHHHhcCCCCCCCc
Confidence 34457788999999887654 6777888888832 2222222 233344 445555666666664
No 102
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=43.84 E-value=13 Score=28.91 Aligned_cols=33 Identities=24% Similarity=0.539 Sum_probs=22.4
Q ss_pred CccCCCCCceeccC-ceEecCCCeEEEccCCCCC
Q 002239 456 PVRCSRCKAYINPF-MKFIDQGRRFICSLCGFTD 488 (948)
Q Consensus 456 pvRC~rCrAYINPf-~~f~d~G~~W~CnfC~~~N 488 (948)
.++|.+|++..+== .++...|++.+|.-|++.-
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 46788888865432 2344567888888888653
No 103
>PRK08455 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=42.11 E-value=45 Score=35.11 Aligned_cols=71 Identities=11% Similarity=0.226 Sum_probs=40.5
Q ss_pred EEEEEEecCCcEEEEEEcCcccccCC--HhHHHhhCC--HHHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHHHHHH
Q 002239 837 CALLYTTVYGQRRIRVTTLSLPCTSN--LSNLYRSAD--LDTQFTCFMKQAASEIPST-PLANVREQMMNLCVNALV 908 (948)
Q Consensus 837 ~AlLYT~~~GeRRIRV~Tl~lpVts~--l~~vf~saD--~eAi~~llaK~a~~~~~~~-~l~daR~~L~~~lv~iL~ 908 (948)
|.+.+.+.+|.|++|| ++.|.+.+. ..++-+... .|+++.+|..+..+.+.+. +...+|+.|.+++-++|.
T Consensus 92 fvVNL~~~~~~ryLkv-~i~Le~~~~~~~~el~~~~p~IRD~ii~~Ls~kt~~dL~t~~Gk~~Lk~ei~~~iN~~L~ 167 (182)
T PRK08455 92 FTVNLLSQSGRRYLKT-SISLELSNEKLKPELDKKDPVIRDIIIRILSSKTVEEVSTNKGKERLKDEIVGKLNEFLI 167 (182)
T ss_pred EEEEccCCCCceEEEE-EEEEEECCHhHHHHHHhhhhHHHHHHHHHHHcCCHHHhcCHHHHHHHHHHHHHHHHHHhc
Confidence 3444555556666776 333333332 234444444 3788888877777766653 455666667666666654
No 104
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=41.37 E-value=13 Score=29.64 Aligned_cols=29 Identities=21% Similarity=0.535 Sum_probs=24.8
Q ss_pred ccCCCCCceeccCceEecCCCeEEEccCCC
Q 002239 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGF 486 (948)
Q Consensus 457 vRC~rCrAYINPf~~f~d~G~~W~CnfC~~ 486 (948)
-||..|+....-+..+.+ .....|.-||.
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred EEeCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 489999988888887777 67899999997
No 105
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=40.30 E-value=19 Score=35.81 Aligned_cols=33 Identities=15% Similarity=0.393 Sum_probs=23.7
Q ss_pred ccCCCCCceeccCceEecCCCeEEEccCCCCCCCC
Q 002239 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETP 491 (948)
Q Consensus 457 vRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~vP 491 (948)
++|.-|+.. -.+.+....+.|.|.-|+..|-+.
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 234444445569999999999764
No 106
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=39.27 E-value=16 Score=35.37 Aligned_cols=28 Identities=14% Similarity=0.292 Sum_probs=20.1
Q ss_pred CCccCCCCCceeccCceEecCCCeEEEccCCCCC
Q 002239 455 GPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (948)
Q Consensus 455 ~pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N 488 (948)
.-.||+.|+... ......|.|+-||..+
T Consensus 69 ~~~~C~~Cg~~~------~~~~~~~~CP~Cgs~~ 96 (113)
T PRK12380 69 AQAWCWDCSQVV------EIHQHDAQCPHCHGER 96 (113)
T ss_pred cEEEcccCCCEE------ecCCcCccCcCCCCCC
Confidence 368999999533 3333678899999765
No 107
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=39.14 E-value=17 Score=28.24 Aligned_cols=32 Identities=31% Similarity=0.632 Sum_probs=20.3
Q ss_pred CccCCCCCceeccC-ceEecCCCeEEEccCCCC
Q 002239 456 PVRCSRCKAYINPF-MKFIDQGRRFICSLCGFT 487 (948)
Q Consensus 456 pvRC~rCrAYINPf-~~f~d~G~~W~CnfC~~~ 487 (948)
.++|.+|++-.+-= -++-..|++.+|.-|++.
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 36788888744322 223346778888888864
No 108
>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=36.73 E-value=16 Score=29.99 Aligned_cols=31 Identities=26% Similarity=0.529 Sum_probs=22.4
Q ss_pred ccCCCCCceeccCceEecCCCeEEEccCCCCC
Q 002239 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (948)
Q Consensus 457 vRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N 488 (948)
-||.+|+....-+..+.+ .....|..||..+
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~ 36 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMSD-DPLATCPECGGEK 36 (52)
T ss_pred EEeCCCCCEeEEEEecCC-CCCCCCCCCCCCc
Confidence 489999986666655444 4578899999743
No 109
>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=36.52 E-value=16 Score=30.54 Aligned_cols=29 Identities=28% Similarity=0.733 Sum_probs=19.7
Q ss_pred cCCCCCceeccC-----------ceEecCCCeEEEccCCC
Q 002239 458 RCSRCKAYINPF-----------MKFIDQGRRFICSLCGF 486 (948)
Q Consensus 458 RC~rCrAYINPf-----------~~f~d~G~~W~CnfC~~ 486 (948)
+|..|+=..++- +.|.+--..|+|+.|+.
T Consensus 3 ~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a 42 (50)
T cd00730 3 ECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGA 42 (50)
T ss_pred CCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCC
Confidence 688888666654 23444445799999985
No 110
>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=35.40 E-value=21 Score=34.70 Aligned_cols=27 Identities=19% Similarity=0.498 Sum_probs=20.1
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N 488 (948)
-.||++|+.+... ....|.|+-||..+
T Consensus 70 ~~~C~~Cg~~~~~------~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 70 ECECEDCSEEVSP------EIDLYRCPKCHGIM 96 (115)
T ss_pred EEEcccCCCEEec------CCcCccCcCCcCCC
Confidence 5899999954433 22468999999776
No 111
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=34.34 E-value=22 Score=37.49 Aligned_cols=26 Identities=42% Similarity=0.853 Sum_probs=20.9
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~ 487 (948)
-.||.||++-|=. .++..+|.-||..
T Consensus 149 ~A~CsrC~~~L~~------~~~~l~Cp~Cg~t 174 (188)
T COG1096 149 YARCSRCRAPLVK------KGNMLKCPNCGNT 174 (188)
T ss_pred EEEccCCCcceEE------cCcEEECCCCCCE
Confidence 3799999997633 5689999999964
No 112
>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=34.29 E-value=52 Score=32.61 Aligned_cols=32 Identities=25% Similarity=0.334 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHhcCCC-CCCceEEEEEeCCeEE
Q 002239 553 AAACSAISQVISDLPE-GPRTMVGIATFDSTIH 584 (948)
Q Consensus 553 ~~v~~sI~~~L~~LP~-~~rtrVGiITFds~Vh 584 (948)
+.++++|+..+..-|. ..+++|-+++||+.|-
T Consensus 113 e~vkDAi~Dyi~T~P~PT~~~~Vt~~~Fd~~V~ 145 (146)
T PF02905_consen 113 ECVKDAIRDYIMTRPQPTCNTQVTVCSFDDGVM 145 (146)
T ss_dssp HHHHHHHHHHHCTS-TTGGGEEEEEEEEEEEE-
T ss_pred HHHHHHHHHHhcCCCCCCcceEEEEEeCCCCCc
Confidence 5799999988877663 2358999999998764
No 113
>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=33.82 E-value=15 Score=30.96 Aligned_cols=34 Identities=18% Similarity=0.510 Sum_probs=24.1
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCCCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETP 491 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~vP 491 (948)
-+||.+|+=.+----.+.+ -.-+|.=|++.|.+-
T Consensus 4 eiRC~~CnklLa~~g~~~~--leIKCpRC~tiN~~~ 37 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVIE--LEIKCPRCKTINHVR 37 (51)
T ss_pred ceeccchhHHHhhhcCccE--EEEECCCCCccceEe
Confidence 3899999876654222221 358999999999874
No 114
>PHA03378 EBNA-3B; Provisional
Probab=33.56 E-value=1.1e+03 Score=30.00 Aligned_cols=8 Identities=25% Similarity=0.472 Sum_probs=3.1
Q ss_pred CCCCCCCC
Q 002239 21 YNPNLQQN 28 (948)
Q Consensus 21 ~~~~~~~~ 28 (948)
++|+..+.
T Consensus 689 ~ap~~~~p 696 (991)
T PHA03378 689 WAPGTMQP 696 (991)
T ss_pred cCccccCC
Confidence 33443333
No 115
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=32.77 E-value=19 Score=45.30 Aligned_cols=41 Identities=20% Similarity=0.301 Sum_probs=32.2
Q ss_pred CCCCCccCCCCCceeccCceEec------CCCeEEEccCCCCCCCCc
Q 002239 452 GDMGPVRCSRCKAYINPFMKFID------QGRRFICSLCGFTDETPR 492 (948)
Q Consensus 452 g~~~pvRC~rCrAYINPf~~f~d------~G~~W~CnfC~~~N~vP~ 492 (948)
......||+-|.-..+.+....- +.|-|+||+||......-
T Consensus 349 ~~~~khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkG 395 (958)
T KOG1074|consen 349 KPFFKHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKG 395 (958)
T ss_pred cccccchhhhhHhhcCchhhhhhhhhccCCCCCeeeccccccccccc
Confidence 34467899999999999887543 678999999997765543
No 116
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=32.75 E-value=23 Score=41.27 Aligned_cols=27 Identities=22% Similarity=0.380 Sum_probs=21.7
Q ss_pred cCCCCCceeccCceEecCCCeEEEccCCCCCCCCc
Q 002239 458 RCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPR 492 (948)
Q Consensus 458 RC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~vP~ 492 (948)
+|++|+. ......|+|+-|+..|.+..
T Consensus 2 ~c~~cg~--------~~~~~~g~cp~c~~w~~~~e 28 (372)
T cd01121 2 VCSECGY--------VSPKWLGKCPECGEWNTLVE 28 (372)
T ss_pred CCCCCCC--------CCCCccEECcCCCCceeeee
Confidence 6888875 44456899999999998865
No 117
>PF10221 DUF2151: Cell cycle and development regulator; InterPro: IPR019355 This entry represents the cell cycle regulator Mat89b, which plays an evolutionarily conserved role as a crucial regulator of both cell cycle and development []. Mat89Bb is a PNG kinase substrate that is essential for S-M cycles of early Drosophila embryogenesis, Xenopus embryonic cell cycles and morphogenesis, and cell division in cultured mammalian cells.
Probab=32.68 E-value=2.9e+02 Score=35.03 Aligned_cols=35 Identities=20% Similarity=0.307 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEec
Q 002239 552 TAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNL 588 (948)
Q Consensus 552 l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL 588 (948)
+|+++|-=+-..|-.|.+ ++|-||++|...|+.|-
T Consensus 50 vEa~~EYcRIV~DlFP~~--k~IrfivsD~~a~~lnt 84 (695)
T PF10221_consen 50 VEASIEYCRIVWDLFPDG--KLIRFIVSDTAAHILNT 84 (695)
T ss_pred HHHHHHHHHHHhhccCCC--ceEEEEEEccccccccC
Confidence 334444333333444555 67999999999988775
No 118
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=32.62 E-value=46 Score=26.54 Aligned_cols=27 Identities=22% Similarity=0.730 Sum_probs=19.5
Q ss_pred cCCCCCceeccCceEecCCCeEEEccCCCC
Q 002239 458 RCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (948)
Q Consensus 458 RC~rCrAYINPf~~f~d~G~~W~CnfC~~~ 487 (948)
+|.+|++.- ..++.....++|.-||..
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 345656678999999965
No 119
>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=32.44 E-value=26 Score=26.57 Aligned_cols=23 Identities=22% Similarity=0.657 Sum_probs=14.6
Q ss_pred cCCCCCceeccCceEecCCCeEEEccCCC
Q 002239 458 RCSRCKAYINPFMKFIDQGRRFICSLCGF 486 (948)
Q Consensus 458 RC~rCrAYINPf~~f~d~G~~W~CnfC~~ 486 (948)
+|..|+=...+- ...|+|++|+.
T Consensus 3 ~C~~CGy~y~~~------~~~~~CP~Cg~ 25 (33)
T cd00350 3 VCPVCGYIYDGE------EAPWVCPVCGA 25 (33)
T ss_pred ECCCCCCEECCC------cCCCcCcCCCC
Confidence 577777433332 25788998886
No 120
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=32.02 E-value=25 Score=34.15 Aligned_cols=28 Identities=21% Similarity=0.425 Sum_probs=19.1
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N 488 (948)
-.||+.|+.+... .....|.|+-||..+
T Consensus 70 ~~~C~~Cg~~~~~-----~~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 70 ECWCETCQQYVTL-----LTQRVRRCPQCHGDM 97 (114)
T ss_pred EEEcccCCCeeec-----CCccCCcCcCcCCCC
Confidence 5899999964322 112348899999765
No 121
>KOG3572 consensus Uncharacterized conserved protein, contains DEP domain [Signal transduction mechanisms]
Probab=30.11 E-value=3.6e+02 Score=36.41 Aligned_cols=38 Identities=8% Similarity=0.159 Sum_probs=25.2
Q ss_pred HHHHHhcCeEEEEEEccCccccccccccccccCcceEEEeCCCCCCchh
Q 002239 712 AIEFAEYQVCVDVFITTQTYVDIASISVIPKTTGGQVYYYYPFSALSDP 760 (948)
Q Consensus 712 A~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~~TGG~v~~y~~F~~~~d~ 760 (948)
.+++...||++||++.+..-..+. =++.|.++....|.
T Consensus 479 kqrlid~gigmDlVCLgeqPLHaV-----------PLFryhn~v~~~d~ 516 (1701)
T KOG3572|consen 479 KQRLIDMGIGMDLVCLGEQPLHAV-----------PLFRYHNIVGQMDK 516 (1701)
T ss_pred hhHhhhcccceeEEEccCCcccee-----------eeEEeccccccccc
Confidence 446788999999999886654432 14556666555444
No 122
>COG1438 ArgR Arginine repressor [Transcription]
Probab=29.77 E-value=75 Score=32.62 Aligned_cols=112 Identities=14% Similarity=0.177 Sum_probs=69.9
Q ss_pred HHHHHHHHhcCeEEEEEEccCccccccccc--cccccCcceEEEeCCCCCCchhhHHHHHHHHhccCCccccceeEEEeC
Q 002239 709 KAMAIEFAEYQVCVDVFITTQTYVDIASIS--VIPKTTGGQVYYYYPFSALSDPAKLYNDLRWNITRPQGFEAVMRVRCS 786 (948)
Q Consensus 709 k~LA~~~~~~gIsVDlFl~s~~~vDlatL~--~Ls~~TGG~v~~y~~F~~~~d~~kL~~dL~r~ltr~~g~da~mrVR~S 786 (948)
++|.+.+.++||.|.==..+. ||.+|+ .+....|..+|..+.-.......++.+.|...+..--.-+..+-|||.
T Consensus 24 ~Elv~~L~~~Gi~vTQaTvSR---DlkelglvKv~~~~g~~~Y~l~~~~~~~~~~~~~~~~~~~v~~vd~~~~~ivlkT~ 100 (150)
T COG1438 24 EELVELLQEEGIEVTQATVSR---DLKELGLVKVRNEKGTYVYSLPAELGVPPTSKLKRYLKDLVLSIDRNGNLIVLKTS 100 (150)
T ss_pred HHHHHHHHHcCCeEehHHHHH---HHHHcCCEEecCCCCcEEEEeCCccCCCchhhHHHHHHHHheeeccCCcEEEEEeC
Confidence 468888999998865444444 344444 333445555566655444334444444455555444455677888999
Q ss_pred CCceEeeeecccccCCCCceeecCCCCCceEEEEEEecC
Q 002239 787 QGIQVQEYHGNFCKRIPTDIDLPAIDCNKAIMVTLKHDD 825 (948)
Q Consensus 787 ~GL~V~~~~Gnf~~rst~~~~lp~id~dtSia~el~~d~ 825 (948)
.| -..+++++..+...+..++++-.|.|+.|...-++
T Consensus 101 PG--~A~~ia~~lD~~~~~eIlGTIaGdDTilVi~r~~~ 137 (150)
T COG1438 101 PG--AAQLIARLLDSLAKDEILGTIAGDDTILVICRSEE 137 (150)
T ss_pred Cc--hHHHHHHHHHhcCchhhheeeeCCCeEEEEecCch
Confidence 88 34556666655555677888888888888776554
No 123
>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=29.51 E-value=25 Score=27.18 Aligned_cols=29 Identities=28% Similarity=0.541 Sum_probs=22.0
Q ss_pred ccCCCCCceeccCceEecCCCeEEEccCCC
Q 002239 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGF 486 (948)
Q Consensus 457 vRC~rCrAYINPf~~f~d~G~~W~CnfC~~ 486 (948)
.||..|+..+.-+..+.+ +....|+-||.
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKISD-DPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecCC-CCCCCCCCCCC
Confidence 489999987766655444 57888999997
No 124
>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=29.05 E-value=25 Score=29.08 Aligned_cols=30 Identities=27% Similarity=0.702 Sum_probs=15.7
Q ss_pred cCCCCCceeccCc-----------eEecCCCeEEEccCCCC
Q 002239 458 RCSRCKAYINPFM-----------KFIDQGRRFICSLCGFT 487 (948)
Q Consensus 458 RC~rCrAYINPf~-----------~f~d~G~~W~CnfC~~~ 487 (948)
+|..|+-..++-. .|.+--..|+|+.|+..
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 5777775555433 23343456888888753
No 125
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.93 E-value=26 Score=35.00 Aligned_cols=31 Identities=23% Similarity=0.551 Sum_probs=20.6
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDET 490 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~v 490 (948)
+--|.||++-+.- ..+.-+|+||+|...-++
T Consensus 89 ~r~CARCGGrv~l----rsNKv~wvcnlc~k~q~i 119 (169)
T KOG3799|consen 89 TRFCARCGGRVSL----RSNKVMWVCNLCRKQQEI 119 (169)
T ss_pred hhHHHhcCCeeee----ccCceEEeccCCcHHHHH
Confidence 4556777775432 334568999999876543
No 126
>COG1580 FliL Flagellar basal body-associated protein [Cell motility and secretion]
Probab=28.43 E-value=1.3e+02 Score=31.07 Aligned_cols=36 Identities=14% Similarity=0.244 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHHHHHH
Q 002239 873 DTQFTCFMKQAASEIPS-TPLANVREQMMNLCVNALV 908 (948)
Q Consensus 873 eAi~~llaK~a~~~~~~-~~l~daR~~L~~~lv~iL~ 908 (948)
|+++.+++++.++.+.. .+..++|+++.++|-.+|.
T Consensus 107 d~li~lfsskt~~eL~t~~Gke~Lk~ei~~~in~~L~ 143 (159)
T COG1580 107 DALLMLFSSKTAAELSTPEGKEKLKAEIKDRINTILK 143 (159)
T ss_pred HHHHHHHHhCCHHHhcCchhHHHHHHHHHHHHHHHHh
Confidence 68999999999888887 6677788888888877775
No 127
>KOG1226 consensus Integrin beta subunit (N-terminal portion of extracellular region) [Signal transduction mechanisms; Extracellular structures]
Probab=28.39 E-value=1.4e+03 Score=29.48 Aligned_cols=301 Identities=14% Similarity=0.202 Sum_probs=134.5
Q ss_pred CcEEEEEEEcchhHHhh-hHHHHHHHHHHHHHhcCCCCCCceEEEEEe-CCeEEEEec--CcCCCCceEeeccCcccccc
Q 002239 533 PAVFFFLIDVSMNALQT-GATAAACSAISQVISDLPEGPRTMVGIATF-DSTIHFYNL--KRALQQPLMLIVPDVEDVYT 608 (948)
Q Consensus 533 pp~yvFvIDVS~~av~s-G~l~~v~~sI~~~L~~LP~~~rtrVGiITF-ds~VhfynL--~~~l~qpqmlVvsDldd~Fv 608 (948)
|--..+++|+|+++.+. .-|+.+=..|.+.|..|-.+ -||||=.| |+.|.-|-. .+.+..| -++..+-.-
T Consensus 132 PVDLYyLMDlS~SM~DDl~~l~~LG~~L~~~m~~lT~n--frlGFGSFVDK~v~P~i~~~pekl~np----c~~~~~C~p 205 (783)
T KOG1226|consen 132 PVDLYYLMDLSYSMKDDLENLKSLGTDLAREMRKLTSN--FRLGFGSFVDKTVSPYISTTPEKLRNP----CPNYKNCAP 205 (783)
T ss_pred CeeEEEEeecchhhhhhHHHHHHHHHHHHHHHHHHhcc--CCccccchhccccccccccCcHHhcCC----CCCcccCCC
Confidence 44456789999998553 22555666677777777766 67888665 344432211 1111111 011110011
Q ss_pred CccccceeehHHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhc-----CCEEEEEeccCCC--CCcccccc
Q 002239 609 PLQSDIIVPVSECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKST-----GGKLLVFQSVLPS--VGIGALSA 681 (948)
Q Consensus 609 Pl~~~lLv~l~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~-----GGkIivF~sg~Pt--~GpG~L~~ 681 (948)
|..-.-++.|.+..+.+++.+++=. +-.+-..++-.|-+-|++|+= =+.+ .-|++||++-.=. .|-|+|..
T Consensus 206 pfgfkhvLsLT~~~~~F~~~V~~q~-ISgNlDaPEGGfDAimQaavC-~~~IGWR~~a~~lLVF~td~~~H~a~DgkLaG 283 (783)
T KOG1226|consen 206 PFGFKHVLSLTNDAEEFNEEVGKQR-ISGNLDAPEGGFDAIMQAAVC-TEKIGWRNDATRLLVFSTDAGFHFAGDGKLAG 283 (783)
T ss_pred CcccceeeecCCChHHHHHHHhhce-eccCCCCCCchHHHHHhhhhc-cccccccccceeEEEEEcCcceeeecccceee
Confidence 1111224455554444444333321 223334566667677777642 1222 3689999875442 36677664
Q ss_pred cc--cccCCCCCCCccccccccchhHH---HHHHHHHHHHhcCeEEEEEEccCccccccccccccc-cCcceEEEeCCCC
Q 002239 682 RE--AEGRSNISSGEKETHKLLQPADK---TLKAMAIEFAEYQVCVDVFITTQTYVDIASISVIPK-TTGGQVYYYYPFS 755 (948)
Q Consensus 682 re--d~~rsn~~~gt~ke~~Ll~pa~~---FYk~LA~~~~~~gIsVDlFl~s~~~vDlatL~~Ls~-~TGG~v~~y~~F~ 755 (948)
.- ++.+-| ++.+.+. ....+. ---.|+.++++++|-+-.-++...+.-...+..|.. .+-|.+- .
T Consensus 284 iv~pnDG~CH--L~~~g~Y--t~S~~qdyPSia~l~~kl~~~ni~~IFAVt~~~~~~Y~~l~~lip~s~vg~l~---~-- 354 (783)
T KOG1226|consen 284 IVQPNDGQCH--LDKNGEY--TQSTTQDYPSIAQLAQKLADNNINTIFAVTKNSQSLYEELSNLIPGSAVGVLS---E-- 354 (783)
T ss_pred EecCCCCccc--cCCCCcc--ceecCCCCCcHHHHHHHHhhhcchhHHHHhhhhhhHHHhhhhhCCcccccccc---c--
Confidence 32 222222 2222121 111111 123455566666665533333333222223333332 1112211 1
Q ss_pred CCchhhHHHHHHHHhccCCccccceeEE-EeCCCceEeeeecccccC--CCCce-eecCCCCCceEEEEEEecCCCCCCC
Q 002239 756 ALSDPAKLYNDLRWNITRPQGFEAVMRV-RCSQGIQVQEYHGNFCKR--IPTDI-DLPAIDCNKAIMVTLKHDDKLQDGS 831 (948)
Q Consensus 756 ~~~d~~kL~~dL~r~ltr~~g~da~mrV-R~S~GL~V~~~~Gnf~~r--st~~~-~lp~id~dtSia~el~~d~~L~~~~ 831 (948)
++.+...|..+=++.+ --+..|++ --+.||++. |.+....+ ..... .-.+|....++.|+.+++.+.-..
T Consensus 355 DSsNi~qLI~~ay~~l----~s~v~l~~~~~p~gl~~~-y~s~C~~g~~~~~~~~~c~~i~~gd~v~f~v~~~~~~C~~- 428 (783)
T KOG1226|consen 355 DSSNIVQLIIEAYNSL----SSKVILEDENQPEGLSLS-YTSSCSNGVSFPGKRRKCSGITIGDEVTFEVSVTAKKCPP- 428 (783)
T ss_pred chhhHHHHHHHHHHhc----cceEEEeecCCCCceeEE-EeeecCCCCccCCccCCCCCcccCceeEEEEecccccCCC-
Confidence 1122333333333322 23444454 345566664 22222211 01111 345577778888888877654321
Q ss_pred cee-EEEEEEEEecCCcEEEEEEcCc
Q 002239 832 ECA-FQCALLYTTVYGQRRIRVTTLS 856 (948)
Q Consensus 832 ~~y-IQ~AlLYT~~~GeRRIRV~Tl~ 856 (948)
... -=+.+.=...++.-.++|+..+
T Consensus 429 ~~~~~~~~i~pvgf~e~l~v~v~~~C 454 (783)
T KOG1226|consen 429 EDQKGSFIIRPVGFTETLEVIVQYNC 454 (783)
T ss_pred ccccceEEEccCCCCcceEEEeeccc
Confidence 111 1112222234455667776666
No 128
>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=28.26 E-value=38 Score=26.43 Aligned_cols=28 Identities=21% Similarity=0.543 Sum_probs=20.6
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N 488 (948)
..+|..|+++ +...++ ..|.|.-||+.-
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 4679999998 443333 589999999753
No 129
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=27.32 E-value=31 Score=28.92 Aligned_cols=27 Identities=26% Similarity=0.732 Sum_probs=18.7
Q ss_pred ccCCCCCceeccCceEecCCCeEEEccCCCC
Q 002239 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (948)
Q Consensus 457 vRC~rCrAYINPf~~f~d~G~~W~CnfC~~~ 487 (948)
=+|.+|++-+ ..+......+|.-||+.
T Consensus 7 Y~C~~Cg~~~----~~~~~~~~irCp~Cg~r 33 (49)
T COG1996 7 YKCARCGREV----ELDQETRGIRCPYCGSR 33 (49)
T ss_pred EEhhhcCCee----ehhhccCceeCCCCCcE
Confidence 4688888876 33445567888888865
No 130
>KOG4385 consensus Predicted forkhead transcription factor [Transcription]
Probab=27.30 E-value=64 Score=38.54 Aligned_cols=62 Identities=23% Similarity=0.434 Sum_probs=44.0
Q ss_pred CcccccCCH---hHHHhhCCHHHH--HHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHHHHHhccCCC
Q 002239 855 LSLPCTSNL---SNLYRSADLDTQ--FTCFMKQAASEIPSTPLANVREQMMNLCVNALVSYRKFCATVS 918 (948)
Q Consensus 855 l~lpVts~l---~~vf~saD~eAi--~~llaK~a~~~~~~~~l~daR~~L~~~lv~iL~~YRk~ca~~~ 918 (948)
...+++.++ .|+||+.|+--= -+.|+|+||.+.-.+.+ ...+|-+|..++++-||++.|++.
T Consensus 347 ~~~Pisseia~N~dfyk~~dvRPPfTYAsLIRqAIlESpdkQL--TLNEIY~WFTrtFAYFRRNaATWK 413 (581)
T KOG4385|consen 347 YNGPISSEIAQNMDFYKNADVRPPFTYASLIRQAILESPDKQL--TLNEIYNWFTRTFAYFRRNAATWK 413 (581)
T ss_pred ccCchhHHhhhhhhhhhccccCCchhHHHHHHHHHhcCchhhc--cHHHHHHHHHHHHHHHhccchhHh
Confidence 344555544 589999998743 35678999877765533 345688888899999999887763
No 131
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=27.28 E-value=64 Score=24.75 Aligned_cols=29 Identities=21% Similarity=0.446 Sum_probs=20.0
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N 488 (948)
+.+|..|++-+ .+.......+|.+|+...
T Consensus 3 ~~~C~~C~~~~----i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 3 LKKCSKCGGNG----IVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred ceEcCCCCCCe----EEEecCCeEEcccCCcEe
Confidence 57899999854 221333589999999753
No 132
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=26.96 E-value=31 Score=26.67 Aligned_cols=29 Identities=28% Similarity=0.739 Sum_probs=14.8
Q ss_pred CCCCCceeccCceEecCCCeEEEccCCCC
Q 002239 459 CSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (948)
Q Consensus 459 C~rCrAYINPf~~f~d~G~~W~CnfC~~~ 487 (948)
|..|++-+.--.--.|+-.+|+|.-|+..
T Consensus 3 C~~CG~~l~~~ip~gd~r~R~vC~~Cg~I 31 (34)
T PF14803_consen 3 CPQCGGPLERRIPEGDDRERLVCPACGFI 31 (34)
T ss_dssp -TTT--B-EEE--TT-SS-EEEETTTTEE
T ss_pred cccccChhhhhcCCCCCccceECCCCCCE
Confidence 88888876543322245569999999864
No 133
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=25.92 E-value=63 Score=32.46 Aligned_cols=32 Identities=31% Similarity=0.650 Sum_probs=26.3
Q ss_pred CccCCCCCceeccCceEecCCCeE--EEccCCCCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRF--ICSLCGFTDET 490 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W--~CnfC~~~N~v 490 (948)
=|-|..|+. |=..++..++.| +|+-||..-.|
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 388999995 777777777876 89999988766
No 134
>smart00401 ZnF_GATA zinc finger binding to DNA consensus sequence [AT]GATA[AG].
Probab=25.63 E-value=44 Score=28.02 Aligned_cols=32 Identities=25% Similarity=0.623 Sum_probs=25.9
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~ 487 (948)
..+|.+|++--.+..+-...|....||-|+..
T Consensus 3 ~~~C~~C~~~~T~~WR~g~~g~~~LCnaCgl~ 34 (52)
T smart00401 3 GRSCSNCGTTETPLWRRGPSGNKTLCNACGLY 34 (52)
T ss_pred CCCcCCCCCCCCCccccCCCCCCcEeecccHH
Confidence 57899999988887776666778999999953
No 135
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=25.61 E-value=28 Score=34.01 Aligned_cols=28 Identities=18% Similarity=0.654 Sum_probs=18.5
Q ss_pred CCccCCCCCceeccCceEecCCCeE-EEccCCCCC
Q 002239 455 GPVRCSRCKAYINPFMKFIDQGRRF-ICSLCGFTD 488 (948)
Q Consensus 455 ~pvRC~rCrAYINPf~~f~d~G~~W-~CnfC~~~N 488 (948)
...||+.|+.+... ....| +|+-||..+
T Consensus 70 ~~~~C~~Cg~~~~~------~~~~~~~CP~Cgs~~ 98 (117)
T PRK00564 70 VELECKDCSHVFKP------NALDYGVCEKCHSKN 98 (117)
T ss_pred CEEEhhhCCCcccc------CCccCCcCcCCCCCc
Confidence 36899999944322 12234 599999776
No 136
>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=25.37 E-value=54 Score=23.59 Aligned_cols=24 Identities=42% Similarity=0.892 Sum_probs=17.5
Q ss_pred CCCCCceeccCceEecCCCeEEEccCCC
Q 002239 459 CSRCKAYINPFMKFIDQGRRFICSLCGF 486 (948)
Q Consensus 459 C~rCrAYINPf~~f~d~G~~W~CnfC~~ 486 (948)
|.+|+.-|-|.- .+..|.|+-||.
T Consensus 1 C~sC~~~i~~r~----~~v~f~CPnCG~ 24 (24)
T PF07754_consen 1 CTSCGRPIAPRE----QAVPFPCPNCGF 24 (24)
T ss_pred CccCCCcccCcc----cCceEeCCCCCC
Confidence 778887777633 256899999984
No 137
>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=25.35 E-value=47 Score=28.84 Aligned_cols=29 Identities=34% Similarity=0.742 Sum_probs=22.3
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTD 488 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N 488 (948)
--.|..|+...-- ...++.|+|.-||..-
T Consensus 28 Sq~C~~CG~~~~~----~~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 28 SQTCPRCGHRNKK----RRSGRVFTCPNCGFEM 56 (69)
T ss_pred ccCccCccccccc----ccccceEEcCCCCCEE
Confidence 3569999987665 3456899999999763
No 138
>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=25.12 E-value=68 Score=26.01 Aligned_cols=27 Identities=19% Similarity=0.667 Sum_probs=19.3
Q ss_pred ccCCCCCceeccCceEecCCCeEEEccCCC
Q 002239 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGF 486 (948)
Q Consensus 457 vRC~rCrAYINPf~~f~d~G~~W~CnfC~~ 486 (948)
+.|.+|+.- ..| . +.+...|+|.-|++
T Consensus 19 ~~CP~Cg~~-~~~-~-~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST-KHY-R-LKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCe-eeE-E-eCCCCeEECCCCCC
Confidence 569999987 222 2 33357999999985
No 139
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=24.58 E-value=36 Score=38.87 Aligned_cols=36 Identities=19% Similarity=0.268 Sum_probs=24.5
Q ss_pred CccCCCCCceeccCceEecCCCeEEEccCCCCCCCC
Q 002239 456 PVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETP 491 (948)
Q Consensus 456 pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~vP 491 (948)
-.-|+.|+.-=+-+-.=...--.|+|.+|++.|.-.
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 466888887655444311223589999999999754
No 140
>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=24.57 E-value=51 Score=24.42 Aligned_cols=29 Identities=31% Similarity=0.645 Sum_probs=17.3
Q ss_pred cCCCCCceeccC-ceEecCCCe-----EEEccCCC
Q 002239 458 RCSRCKAYINPF-MKFIDQGRR-----FICSLCGF 486 (948)
Q Consensus 458 RC~rCrAYINPf-~~f~d~G~~-----W~CnfC~~ 486 (948)
||.+|+-.|-.- ..+...++. |+|..|+.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~ 35 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGK 35 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCCCCcccCC
Confidence 688898887764 222223333 56777764
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=23.65 E-value=67 Score=23.35 Aligned_cols=24 Identities=17% Similarity=0.606 Sum_probs=15.0
Q ss_pred CCCCCceeccCceEecCCCeEEEccCCC
Q 002239 459 CSRCKAYINPFMKFIDQGRRFICSLCGF 486 (948)
Q Consensus 459 C~rCrAYINPf~~f~d~G~~W~CnfC~~ 486 (948)
|.+||..|- +-.+-..++|..|++
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 666776553 234556788887764
No 142
>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=22.87 E-value=25 Score=36.80 Aligned_cols=32 Identities=25% Similarity=0.706 Sum_probs=12.9
Q ss_pred CCCCCccCCCCCc-eeccCceEecCCCeEEEccCCC
Q 002239 452 GDMGPVRCSRCKA-YINPFMKFIDQGRRFICSLCGF 486 (948)
Q Consensus 452 g~~~pvRC~rCrA-YINPf~~f~d~G~~W~CnfC~~ 486 (948)
+.....+|++|++ ||...- +-...++|.||+-
T Consensus 130 g~l~l~~C~~C~~~fv~~~~---~~~~~~~Cp~C~~ 162 (175)
T PF05280_consen 130 GMLQLAPCRRCGGHFVTHAH---DPRHSFVCPFCQP 162 (175)
T ss_dssp TSEEEEE-TTT--EEEEESS-----SS----TT---
T ss_pred CCccccCCCCCCCCeECcCC---CCCcCcCCCCCCC
Confidence 3445789999987 554321 2246899999993
No 143
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=22.67 E-value=48 Score=35.56 Aligned_cols=39 Identities=15% Similarity=0.410 Sum_probs=25.1
Q ss_pred CCccCCCCCceeccCceEecCCCeEEEccCCCCCCCCcc
Q 002239 455 GPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETPRD 493 (948)
Q Consensus 455 ~pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~vP~~ 493 (948)
.-+-|..|.=--+-+---...-..|+|.+|++.|+.+.+
T Consensus 191 ~alIC~~C~hhngl~~~~ek~~~efiC~~Cn~~n~~~~~ 229 (251)
T COG5415 191 KALICPQCHHHNGLYRLAEKPIIEFICPHCNHKNDEVKE 229 (251)
T ss_pred hhhccccccccccccccccccchheecccchhhcCcccc
Confidence 346677776544443332333458999999999986643
No 144
>PF10963 DUF2765: Protein of unknown function (DUF2765); InterPro: IPR024406 This family of proteins with no known function is found in phages and suspected prophages.
Probab=22.54 E-value=1.2e+02 Score=28.21 Aligned_cols=39 Identities=28% Similarity=0.382 Sum_probs=30.4
Q ss_pred cceeeh--HHhHHHHHHHHhhccccccCCCCCcccHHHHHHHHHHHHHhcCCEE
Q 002239 613 DIIVPV--SECRQHLELLLESIPSMFQNNRTAESAFGAAVKAAFLALKSTGGKL 664 (948)
Q Consensus 613 ~lLv~l--~Esr~~I~~lLd~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~GGkI 664 (948)
.||..+ .|+|+.++.+||..| |+|+++|-.+.+.+-++|
T Consensus 37 n~L~r~V~~e~KeaL~~lle~~P-------------Gaa~qia~~v~eey~P~l 77 (83)
T PF10963_consen 37 NYLMRIVDPESKEALKELLEENP-------------GAAMQIAGAVNEEYAPDL 77 (83)
T ss_pred HHHHHHcCHHHHHHHHHHHHHCC-------------CHHHHHHHHHHHhhCCCc
Confidence 444433 588999999998888 789999999988766554
No 145
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=22.10 E-value=4.5e+02 Score=30.97 Aligned_cols=91 Identities=15% Similarity=0.218 Sum_probs=47.1
Q ss_pred hHHHHHHHHHHHHHhcCCCCCCceEEEEEeCCeEEEEecCcCCCCceEeeccCccccccCccccceeehHHhHHHHHHHH
Q 002239 550 GATAAACSAISQVISDLPEGPRTMVGIATFDSTIHFYNLKRALQQPLMLIVPDVEDVYTPLQSDIIVPVSECRQHLELLL 629 (948)
Q Consensus 550 G~l~~v~~sI~~~L~~LP~~~rtrVGiITFds~VhfynL~~~l~qpqmlVvsDldd~FvPl~~~lLv~l~Esr~~I~~lL 629 (948)
.+++.+-+-|.++|+.-|++.+.-|.+-+.++.|.+- ++| .=+++|+ + -++.++
T Consensus 342 K~tQVldNii~NA~KYsP~Gg~Itv~~~~~~~~v~iS-------------I~D---~G~gIPk------~----d~~~iF 395 (459)
T COG5002 342 KMTQVLDNIISNALKYSPDGGRITVSVKQRETWVEIS-------------ISD---QGLGIPK------E----DLEKIF 395 (459)
T ss_pred HHHHHHHHHHHHHhhcCCCCCeEEEEEeeeCcEEEEE-------------Ecc---CCCCCCc------h----hHHHHH
Confidence 3566777778899999998744333333333333221 122 2122221 1 122333
Q ss_pred hhccccccCCCCCcccHHHHHHHHHHHHHhcCCEEEE
Q 002239 630 ESIPSMFQNNRTAESAFGAAVKAAFLALKSTGGKLLV 666 (948)
Q Consensus 630 d~Lp~~f~~~~~~~~alG~AL~aA~~lL~~~GGkIiv 666 (948)
|..-..-..-.+..-.+|..|..|-++.+..||+|-+
T Consensus 396 drfyRvdkARsR~~gGTGLGLaIakeiV~~hgG~iWA 432 (459)
T COG5002 396 DRFYRVDKARSRKMGGTGLGLAIAKEIVQAHGGRIWA 432 (459)
T ss_pred HHHhhhhhhhhhcCCCCchhHHHHHHHHHHhCCeEEE
Confidence 3332211111123335677788899999999998754
No 146
>PRK05696 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=22.02 E-value=1.8e+02 Score=30.15 Aligned_cols=38 Identities=8% Similarity=0.197 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHHHHHHHH
Q 002239 873 DTQFTCFMKQAASEIPS-TPLANVREQMMNLCVNALVSY 910 (948)
Q Consensus 873 eAi~~llaK~a~~~~~~-~~l~daR~~L~~~lv~iL~~Y 910 (948)
|+++.+|..+..+.+.. .+...+|+.+.+++-++|..+
T Consensus 115 d~i~~~Ls~k~~~~L~~~~gk~~Lr~el~~~i~~~l~~~ 153 (170)
T PRK05696 115 SALLMTFSSATVDQLSTPAGKEELRQKALASVQETLQKV 153 (170)
T ss_pred HHHHHHHhcCCHHHhcCHHHHHHHHHHHHHHHHHHHHhh
Confidence 67777777666666654 345567777777777777654
No 147
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=21.93 E-value=1.6e+02 Score=24.63 Aligned_cols=45 Identities=22% Similarity=0.241 Sum_probs=29.7
Q ss_pred HhHHHhhCCHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHH
Q 002239 863 LSNLYRSADLDTQFTCFMKQAASEIPSTPLANVREQMMNLCVNAL 907 (948)
Q Consensus 863 l~~vf~saD~eAi~~llaK~a~~~~~~~~l~daR~~L~~~lv~iL 907 (948)
+.++.+.+|.+.+..--.|+.++.-+.-++.+-+.++.+.+.++|
T Consensus 9 i~~iL~~~dl~~vT~k~vr~~Le~~~~~dL~~~K~~I~~~I~~~l 53 (54)
T PF08766_consen 9 IREILREADLDTVTKKQVREQLEERFGVDLSSRKKFIKELIDEFL 53 (54)
T ss_dssp HHHHHTTS-GGG--HHHHHHHHHHH-SS--SHHHHHHHHHHHHHH
T ss_pred HHHHHHhCCHhHhhHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHh
Confidence 567889999999988888888888777777766666666665555
No 148
>PF12773 DZR: Double zinc ribbon
Probab=21.68 E-value=50 Score=26.83 Aligned_cols=32 Identities=19% Similarity=0.450 Sum_probs=24.7
Q ss_pred CCccCCCCCceeccCceEecCCCeEEEccCCCCCCCC
Q 002239 455 GPVRCSRCKAYINPFMKFIDQGRRFICSLCGFTDETP 491 (948)
Q Consensus 455 ~pvRC~rCrAYINPf~~f~d~G~~W~CnfC~~~N~vP 491 (948)
+-..|.+|++-|. ......++|.-|+..|+..
T Consensus 11 ~~~fC~~CG~~l~-----~~~~~~~~C~~Cg~~~~~~ 42 (50)
T PF12773_consen 11 DAKFCPHCGTPLP-----PPDQSKKICPNCGAENPPN 42 (50)
T ss_pred cccCChhhcCChh-----hccCCCCCCcCCcCCCcCC
Confidence 3577999999887 3445689999999987654
No 149
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=21.27 E-value=47 Score=23.39 Aligned_cols=21 Identities=43% Similarity=0.865 Sum_probs=12.4
Q ss_pred cCCCCCceeccCceEecCCCeEEEccCCC
Q 002239 458 RCSRCKAYINPFMKFIDQGRRFICSLCGF 486 (948)
Q Consensus 458 RC~rCrAYINPf~~f~d~G~~W~CnfC~~ 486 (948)
+|.+|++-|..-.+| |.-||+
T Consensus 1 ~Cp~CG~~~~~~~~f--------C~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKF--------CPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcc--------hhhhCC
Confidence 477777765543332 777765
No 150
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=21.15 E-value=54 Score=27.45 Aligned_cols=26 Identities=38% Similarity=0.880 Sum_probs=18.1
Q ss_pred ccCCCCCceeccCceEecCCCeEEEccCCCC
Q 002239 457 VRCSRCKAYINPFMKFIDQGRRFICSLCGFT 487 (948)
Q Consensus 457 vRC~rCrAYINPf~~f~d~G~~W~CnfC~~~ 487 (948)
..|.+|++ + |+.. ...+|.|.-|+..
T Consensus 21 ~fCP~Cg~--~-~m~~--~~~r~~C~~Cgyt 46 (50)
T PRK00432 21 KFCPRCGS--G-FMAE--HLDRWHCGKCGYT 46 (50)
T ss_pred CcCcCCCc--c-hhec--cCCcEECCCcCCE
Confidence 46999997 2 4432 2369999999863
No 151
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=20.42 E-value=60 Score=24.96 Aligned_cols=31 Identities=23% Similarity=0.663 Sum_probs=16.0
Q ss_pred ccCCCCCceeccC-ceEecCCCeEEEccCCCC
Q 002239 457 VRCSRCKAYINPF-MKFIDQGRRFICSLCGFT 487 (948)
Q Consensus 457 vRC~rCrAYINPf-~~f~d~G~~W~CnfC~~~ 487 (948)
++|.+|++-+.-- -.+.+.+.+.+|.-|++.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~ 34 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHV 34 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCE
Confidence 5677777732111 112223456777777754
No 152
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=20.32 E-value=38 Score=24.90 Aligned_cols=15 Identities=20% Similarity=0.656 Sum_probs=12.6
Q ss_pred CeEEEccCCCCCCCC
Q 002239 477 RRFICSLCGFTDETP 491 (948)
Q Consensus 477 ~~W~CnfC~~~N~vP 491 (948)
..|.|..|...|..-
T Consensus 3 g~W~C~~C~~~N~~~ 17 (30)
T PF00641_consen 3 GDWKCPSCTFMNPAS 17 (30)
T ss_dssp SSEEETTTTEEEESS
T ss_pred cCccCCCCcCCchHH
Confidence 379999999999754
No 153
>PRK07021 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=20.25 E-value=1.8e+02 Score=29.78 Aligned_cols=36 Identities=11% Similarity=0.184 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHHHHHH
Q 002239 873 DTQFTCFMKQAASEIPS-TPLANVREQMMNLCVNALV 908 (948)
Q Consensus 873 eAi~~llaK~a~~~~~~-~~l~daR~~L~~~lv~iL~ 908 (948)
|.++.+|..+..+.+.+ ++...+|+.|.+++-++|.
T Consensus 107 d~ii~~Ls~k~~~~L~~~eGk~~Lk~ei~~~in~~l~ 143 (162)
T PRK07021 107 SRLLLLLSRKHAAELATEEGKQKLAAEIKQTLSQPLV 143 (162)
T ss_pred HHHHHHHhcCCHHHhcCHHHHHHHHHHHHHHHHHHHh
Confidence 56666776666666654 3444556666666655553
Done!