Query 002842
Match_columns 874
No_of_seqs 265 out of 825
Neff 7.0
Searched_HMMs 46136
Date Thu Mar 28 11:53:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002842.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002842hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1986 Vesicle coat complex C 100.0 2E-161 4E-166 1350.5 60.4 688 146-874 5-745 (745)
2 PLN00162 transport protein sec 100.0 2E-152 4E-157 1373.4 70.8 686 147-870 6-758 (761)
3 COG5047 SEC23 Vesicle coat com 100.0 2E-143 4E-148 1174.4 44.8 682 147-870 6-751 (755)
4 KOG1985 Vesicle coat complex C 100.0 2E-117 3E-122 1009.8 65.0 650 144-869 164-884 (887)
5 KOG1984 Vesicle coat complex C 100.0 3E-116 7E-121 998.9 65.7 654 130-824 266-986 (1007)
6 COG5028 Vesicle coat complex C 100.0 6E-103 1E-107 883.5 57.9 650 133-824 133-843 (861)
7 PTZ00395 Sec24-related protein 100.0 8E-102 2E-106 915.5 57.1 677 127-869 628-1552(1560)
8 cd01478 Sec23-like Sec23-like: 100.0 2.6E-48 5.7E-53 416.5 24.6 230 272-512 2-267 (267)
9 cd01468 trunk_domain trunk dom 100.0 2E-40 4.3E-45 352.3 22.3 222 272-512 2-239 (239)
10 cd01479 Sec24-like Sec24-like: 100.0 2.9E-39 6.2E-44 343.7 21.6 223 272-517 2-243 (244)
11 PF04811 Sec23_trunk: Sec23/Se 100.0 6.5E-38 1.4E-42 334.0 16.2 223 272-514 2-243 (243)
12 PF08033 Sec23_BS: Sec23/Sec24 99.8 1.8E-19 4E-24 164.5 10.0 95 519-613 1-96 (96)
13 PF04815 Sec23_helical: Sec23/ 99.8 8.4E-19 1.8E-23 162.2 11.0 100 625-725 1-103 (103)
14 PF04810 zf-Sec23_Sec24: Sec23 99.6 8.7E-16 1.9E-20 116.5 2.8 40 194-233 1-40 (40)
15 PRK13685 hypothetical protein; 98.6 2.4E-06 5.1E-11 95.5 19.5 168 275-503 90-277 (326)
16 cd01465 vWA_subgroup VWA subgr 98.6 2.1E-06 4.5E-11 86.0 16.4 161 276-504 3-165 (170)
17 cd01453 vWA_transcription_fact 98.6 1.4E-06 2.9E-11 89.3 15.2 162 275-512 5-177 (183)
18 cd01466 vWA_C3HC4_type VWA C3H 98.5 2.2E-06 4.7E-11 85.2 15.0 150 276-499 3-154 (155)
19 cd01451 vWA_Magnesium_chelatas 98.5 8.3E-06 1.8E-10 82.9 18.2 163 275-504 2-169 (178)
20 cd01463 vWA_VGCC_like VWA Volt 98.4 1.1E-05 2.4E-10 82.9 17.1 171 274-501 14-188 (190)
21 cd01456 vWA_ywmD_type VWA ywmD 98.4 5.5E-06 1.2E-10 86.3 14.7 168 272-499 19-200 (206)
22 cd01467 vWA_BatA_type VWA BatA 98.3 1.9E-05 4.2E-10 79.9 17.1 155 275-501 4-176 (180)
23 cd01472 vWA_collagen von Wille 98.3 3E-05 6.5E-10 77.5 16.6 155 276-502 3-164 (164)
24 cd01474 vWA_ATR ATR (Anthrax T 98.2 4.2E-05 9.2E-10 78.2 17.2 160 275-504 6-169 (185)
25 PF00626 Gelsolin: Gelsolin re 98.2 2.6E-06 5.7E-11 73.9 6.8 68 741-814 8-76 (76)
26 PF13519 VWA_2: von Willebrand 98.2 1.4E-05 3.1E-10 79.2 12.6 151 276-500 2-159 (172)
27 cd01452 VWA_26S_proteasome_sub 98.2 2.7E-05 5.8E-10 79.7 14.1 144 275-491 5-160 (187)
28 cd01480 vWA_collagen_alpha_1-V 98.2 3.8E-05 8.2E-10 78.7 15.4 158 276-504 5-174 (186)
29 cd01470 vWA_complement_factors 98.2 5.4E-05 1.2E-09 78.3 16.6 175 276-503 3-191 (198)
30 PF13768 VWA_3: von Willebrand 98.2 4.1E-05 8.9E-10 75.7 14.6 152 276-498 3-155 (155)
31 TIGR03788 marine_srt_targ mari 98.2 0.0011 2.4E-08 80.2 29.6 281 274-667 272-557 (596)
32 TIGR00868 hCaCC calcium-activa 98.1 0.00013 2.8E-09 89.7 20.8 154 274-502 305-463 (863)
33 TIGR03436 acidobact_VWFA VWFA- 98.1 0.00029 6.3E-09 77.6 21.5 164 273-499 53-238 (296)
34 cd01475 vWA_Matrilin VWA_Matri 98.1 8E-05 1.7E-09 78.7 16.0 159 276-504 5-171 (224)
35 cd01461 vWA_interalpha_trypsin 98.1 0.00015 3.3E-09 72.4 17.0 159 274-503 3-163 (171)
36 cd01469 vWA_integrins_alpha_su 97.9 0.00059 1.3E-08 69.4 17.3 160 276-503 3-172 (177)
37 cd01481 vWA_collagen_alpha3-VI 97.9 0.00054 1.2E-08 69.0 16.0 157 276-502 3-165 (165)
38 cd01482 vWA_collagen_alphaI-XI 97.8 0.00083 1.8E-08 67.3 16.1 153 276-501 3-163 (164)
39 cd01450 vWFA_subfamily_ECM Von 97.7 0.00082 1.8E-08 66.0 14.7 149 276-494 3-157 (161)
40 PF00092 VWA: von Willebrand f 97.7 0.0011 2.4E-08 66.3 15.2 160 276-504 2-170 (178)
41 cd01471 vWA_micronemal_protein 97.7 0.0017 3.6E-08 66.3 16.7 151 276-491 3-160 (186)
42 cd01477 vWA_F09G8-8_type VWA F 97.6 0.00099 2.1E-08 68.9 14.5 152 276-494 22-187 (193)
43 smart00327 VWA von Willebrand 97.5 0.0047 1E-07 61.4 17.2 157 275-498 3-164 (177)
44 PRK13406 bchD magnesium chelat 97.4 0.004 8.7E-08 74.6 17.8 167 274-504 402-572 (584)
45 TIGR02031 BchD-ChlD magnesium 97.4 0.0046 9.9E-08 74.6 18.0 174 274-503 408-584 (589)
46 cd01476 VWA_integrin_invertebr 97.4 0.0077 1.7E-07 59.9 16.4 108 276-431 3-117 (163)
47 cd01473 vWA_CTRP CTRP for CS 97.4 0.0094 2E-07 61.5 17.3 164 276-504 3-178 (192)
48 TIGR02442 Cob-chelat-sub cobal 97.4 0.0044 9.5E-08 75.5 17.1 162 274-499 466-632 (633)
49 cd00198 vWFA Von Willebrand fa 97.3 0.0073 1.6E-07 58.3 15.5 147 276-492 3-155 (161)
50 PTZ00441 sporozoite surface pr 97.2 0.011 2.5E-07 69.4 17.9 164 275-504 44-218 (576)
51 cd01464 vWA_subfamily VWA subf 97.2 0.0024 5.3E-08 64.7 11.1 47 274-320 4-58 (176)
52 smart00262 GEL Gelsolin homolo 97.1 0.0029 6.3E-08 56.8 9.1 68 742-815 17-85 (90)
53 COG1240 ChlD Mg-chelatase subu 97.0 0.047 1E-06 58.0 17.6 167 273-504 78-249 (261)
54 PF04056 Ssl1: Ssl1-like; Int 96.7 0.023 4.9E-07 58.5 12.8 96 385-514 78-173 (193)
55 COG4245 TerY Uncharacterized p 96.7 0.021 4.6E-07 57.5 11.8 48 274-321 4-59 (207)
56 cd01458 vWA_ku Ku70/Ku80 N-ter 96.6 0.074 1.6E-06 55.9 16.4 155 276-478 4-173 (218)
57 KOG2884 26S proteasome regulat 96.6 0.062 1.3E-06 55.2 14.5 148 275-494 5-163 (259)
58 cd01462 VWA_YIEM_type VWA YIEM 96.0 0.12 2.6E-06 50.8 13.1 131 275-478 2-135 (152)
59 cd01454 vWA_norD_type norD typ 95.9 0.22 4.8E-06 50.2 14.8 148 276-479 3-154 (174)
60 KOG0443 Actin regulatory prote 95.0 0.044 9.6E-07 65.7 7.0 86 723-810 616-706 (827)
61 KOG1924 RhoA GTPase effector D 94.9 0.12 2.7E-06 61.5 9.8 9 151-159 625-633 (1102)
62 KOG1924 RhoA GTPase effector D 94.4 0.13 2.8E-06 61.3 8.6 7 453-459 879-885 (1102)
63 KOG0444 Cytoskeletal regulator 94.0 0.1 2.2E-06 61.2 6.5 89 728-822 623-716 (1255)
64 TIGR00578 ku70 ATP-dependent D 93.9 1.4 3E-05 53.4 16.4 156 275-476 12-182 (584)
65 cd01460 vWA_midasin VWA_Midasi 93.7 1.7 3.8E-05 47.2 15.2 151 274-495 61-224 (266)
66 COG5148 RPN10 26S proteasome r 92.0 3.4 7.3E-05 41.9 13.0 132 275-477 5-146 (243)
67 KOG0443 Actin regulatory prote 91.7 0.42 9.1E-06 57.7 7.5 94 726-824 254-358 (827)
68 PF03850 Tfb4: Transcription f 91.4 8.7 0.00019 42.1 16.8 94 387-503 116-209 (276)
69 cd01457 vWA_ORF176_type VWA OR 89.4 4.4 9.5E-05 41.8 12.0 43 275-317 4-57 (199)
70 TIGR00627 tfb4 transcription f 88.8 25 0.00054 38.6 17.6 102 386-512 118-219 (279)
71 PF03731 Ku_N: Ku70/Ku80 N-ter 87.3 1.7 3.6E-05 45.8 7.3 157 276-475 2-172 (224)
72 cd01455 vWA_F11C1-5a_type Von 86.9 35 0.00077 35.3 16.4 110 364-514 75-186 (191)
73 KOG0444 Cytoskeletal regulator 85.8 2.4 5.1E-05 50.4 7.9 92 720-818 727-829 (1255)
74 PF10058 DUF2296: Predicted in 80.3 1.1 2.4E-05 36.5 1.8 35 193-227 20-54 (54)
75 KOG2353 L-type voltage-depende 78.7 49 0.0011 42.9 16.3 47 275-321 227-275 (1104)
76 PHA03247 large tegument protei 77.7 42 0.00091 46.5 15.4 19 145-163 2984-3002(3151)
77 PF09788 Tmemb_55A: Transmembr 77.5 22 0.00048 38.0 10.8 88 144-234 98-194 (256)
78 PRK00398 rpoP DNA-directed RNA 74.3 2.4 5.2E-05 33.2 2.1 30 195-228 3-32 (46)
79 PF09967 DUF2201: VWA-like dom 74.0 7.6 0.00016 37.3 5.9 42 277-320 2-45 (126)
80 TIGR01053 LSD1 zinc finger dom 73.8 2.8 6.2E-05 30.1 2.2 30 196-229 2-31 (31)
81 KOG0119 Splicing factor 1/bran 68.5 39 0.00086 39.3 10.8 28 57-85 428-456 (554)
82 COG2425 Uncharacterized protei 64.4 1.2E+02 0.0027 35.4 13.9 103 274-429 273-378 (437)
83 KOG0307 Vesicle coat complex C 60.7 86 0.0019 40.1 12.5 14 193-209 957-970 (1049)
84 smart00661 RPOL9 RNA polymeras 58.7 6.8 0.00015 31.1 1.9 32 197-230 2-33 (52)
85 KOG0132 RNA polymerase II C-te 54.3 99 0.0021 38.1 11.1 41 76-118 625-667 (894)
86 PF09723 Zn-ribbon_8: Zinc rib 52.2 6.5 0.00014 30.2 0.8 30 196-226 6-35 (42)
87 cd00350 rubredoxin_like Rubred 50.2 8.1 0.00018 28.0 1.0 24 197-226 3-26 (33)
88 PF08271 TF_Zn_Ribbon: TFIIB z 50.1 20 0.00043 27.5 3.2 27 197-226 2-28 (43)
89 PRK12380 hydrogenase nickel in 48.5 9.7 0.00021 36.0 1.5 28 194-227 69-96 (113)
90 PF09082 DUF1922: Domain of un 47.9 7.4 0.00016 33.2 0.5 32 194-231 2-33 (68)
91 KOG1923 Rac1 GTPase effector F 47.7 67 0.0015 39.5 8.4 7 318-324 465-471 (830)
92 PRK03954 ribonuclease P protei 47.4 12 0.00026 35.8 1.9 35 196-230 65-106 (121)
93 TIGR00100 hypA hydrogenase nic 47.4 11 0.00023 35.8 1.5 28 194-227 69-96 (115)
94 TIGR02605 CxxC_CxxC_SSSS putat 46.3 9.3 0.0002 30.5 0.9 31 196-227 6-36 (52)
95 PF11265 Med25_VWA: Mediator c 45.0 4.1E+02 0.009 28.3 14.1 110 368-498 94-204 (226)
96 COG1996 RPC10 DNA-directed RNA 43.8 11 0.00024 30.1 0.9 27 197-227 8-34 (49)
97 PF10122 Mu-like_Com: Mu-like 43.1 12 0.00027 29.9 1.1 34 195-230 4-37 (51)
98 cd01121 Sms Sms (bacterial rad 43.1 13 0.00027 42.7 1.6 27 197-231 2-28 (372)
99 PF06707 DUF1194: Protein of u 43.0 4.2E+02 0.0091 27.8 19.7 101 386-518 94-202 (205)
100 PRK11823 DNA repair protein Ra 42.6 12 0.00027 43.8 1.5 28 196-231 8-35 (446)
101 PRK03681 hypA hydrogenase nick 42.3 14 0.00031 34.9 1.6 28 194-227 69-97 (114)
102 PHA03247 large tegument protei 41.6 2.4E+02 0.0051 39.9 12.6 13 620-632 3103-3115(3151)
103 PRK10997 yieM hypothetical pro 41.3 34 0.00073 40.5 4.7 51 274-324 324-377 (487)
104 KOG2487 RNA polymerase II tran 40.6 92 0.002 33.8 7.3 43 458-503 187-229 (314)
105 PF09779 Ima1_N: Ima1 N-termin 40.5 18 0.00039 35.1 2.0 35 196-232 1-35 (131)
106 cd00730 rubredoxin Rubredoxin; 39.9 10 0.00022 30.4 0.2 29 197-225 3-42 (50)
107 KOG1074 Transcriptional repres 37.7 1.9E+02 0.0042 36.1 10.2 39 193-231 351-395 (958)
108 smart00834 CxxC_CXXC_SSSS Puta 37.7 15 0.00033 27.5 0.8 29 196-225 6-34 (41)
109 KOG2236 Uncharacterized conser 37.2 2E+02 0.0044 33.5 9.8 36 75-110 430-467 (483)
110 PF02318 FYVE_2: FYVE-type zin 37.1 15 0.00034 34.8 0.9 32 196-227 72-104 (118)
111 PF14803 Nudix_N_2: Nudix N-te 36.1 16 0.00035 26.9 0.7 30 197-226 2-31 (34)
112 PF07282 OrfB_Zn_ribbon: Putat 35.9 25 0.00053 29.7 1.9 27 196-226 29-55 (69)
113 PF13240 zinc_ribbon_2: zinc-r 35.1 20 0.00043 24.0 0.9 21 197-225 1-21 (23)
114 PRK12860 transcriptional activ 35.0 17 0.00036 37.4 0.9 28 194-224 133-161 (189)
115 KOG4217 Nuclear receptors of t 34.5 2.3E+02 0.0051 33.1 9.6 26 192-220 283-308 (605)
116 PF05762 VWA_CoxE: VWA domain 34.5 78 0.0017 33.4 5.9 41 275-318 59-100 (222)
117 PF13719 zinc_ribbon_5: zinc-r 34.2 21 0.00046 26.6 1.1 31 196-226 3-34 (37)
118 COG2888 Predicted Zn-ribbon RN 34.2 14 0.00031 30.5 0.2 23 194-226 37-59 (61)
119 COG0275 Predicted S-adenosylme 34.0 49 0.0011 36.6 4.2 29 286-314 217-245 (314)
120 PRK00564 hypA hydrogenase nick 33.9 16 0.00034 34.8 0.4 29 194-228 70-99 (117)
121 PRK12722 transcriptional activ 33.8 18 0.0004 37.1 0.9 29 194-225 133-162 (187)
122 COG1096 Predicted RNA-binding 33.7 24 0.00052 36.1 1.7 25 196-226 150-174 (188)
123 PF07754 DUF1610: Domain of un 33.0 38 0.00081 23.0 2.0 24 198-225 1-24 (24)
124 PF01927 Mut7-C: Mut7-C RNAse 31.3 30 0.00064 34.2 1.9 33 195-227 91-134 (147)
125 KOG2893 Zn finger protein [Gen 31.1 3.3E+02 0.0071 29.0 9.3 34 60-94 154-188 (341)
126 PRK03824 hypA hydrogenase nick 30.8 28 0.00061 33.9 1.6 34 194-227 69-117 (135)
127 smart00659 RPOLCX RNA polymera 30.6 35 0.00075 26.7 1.7 26 197-227 4-29 (44)
128 PF08792 A2L_zn_ribbon: A2L zi 30.5 55 0.0012 23.9 2.7 30 194-227 2-31 (33)
129 PF12773 DZR: Double zinc ribb 30.5 31 0.00067 27.2 1.5 34 192-230 9-42 (50)
130 KOG0445 Actin regulatory prote 29.3 92 0.002 37.8 5.6 26 746-771 366-391 (919)
131 PF06943 zf-LSD1: LSD1 zinc fi 29.2 45 0.00098 22.9 1.9 24 198-225 1-24 (25)
132 PF11781 RRN7: RNA polymerase 28.9 49 0.0011 24.7 2.2 27 195-226 8-34 (36)
133 PRK08455 fliL flagellar basal 28.9 1.4E+02 0.0031 30.7 6.4 72 589-661 91-166 (182)
134 PRK14890 putative Zn-ribbon RN 28.7 21 0.00045 29.6 0.3 22 195-226 36-57 (59)
135 PF00641 zf-RanBP: Zn-finger i 28.7 22 0.00049 25.0 0.4 15 216-230 3-17 (30)
136 PRK00762 hypA hydrogenase nick 28.0 25 0.00055 33.7 0.8 34 194-228 69-103 (124)
137 COG5415 Predicted integral mem 27.6 34 0.00074 35.4 1.6 38 195-232 192-229 (251)
138 PF00301 Rubredoxin: Rubredoxi 27.6 15 0.00033 29.1 -0.7 11 215-225 32-42 (47)
139 PF13717 zinc_ribbon_4: zinc-r 27.1 33 0.00071 25.5 1.0 31 196-226 3-34 (36)
140 COG1198 PriA Primosomal protei 27.0 1.4E+02 0.003 37.3 7.0 111 195-325 444-572 (730)
141 PF01155 HypA: Hydrogenase exp 26.6 17 0.00036 34.3 -0.7 28 194-227 69-96 (113)
142 KOG4672 Uncharacterized conser 26.4 3.3E+02 0.0071 31.3 9.0 31 46-79 327-357 (487)
143 TIGR00006 S-adenosyl-methyltra 26.4 74 0.0016 35.4 4.1 29 286-314 213-241 (305)
144 KOG2846 Predicted membrane pro 25.6 33 0.0007 38.1 1.1 37 194-230 219-255 (328)
145 KOG3579 Predicted E3 ubiquitin 25.0 8.5E+02 0.018 26.8 11.3 39 144-183 275-318 (352)
146 KOG3671 Actin regulatory prote 24.9 5.9E+02 0.013 30.2 10.8 12 95-106 387-398 (569)
147 PRK00432 30S ribosomal protein 24.7 43 0.00094 26.9 1.4 25 196-226 21-46 (50)
148 KOG3799 Rab3 effector RIM1 and 24.5 31 0.00067 33.2 0.6 31 195-229 89-119 (169)
149 PRK06393 rpoE DNA-directed RNA 24.2 40 0.00086 28.6 1.1 23 196-228 6-28 (64)
150 COG2956 Predicted N-acetylgluc 24.2 37 0.00081 37.8 1.2 30 193-230 352-381 (389)
151 TIGR01384 TFS_arch transcripti 23.9 50 0.0011 30.3 1.9 27 197-229 2-28 (104)
152 PF13894 zf-C2H2_4: C2H2-type 23.8 37 0.00081 21.5 0.8 11 218-228 1-11 (24)
153 COG1580 FliL Flagellar basal b 23.6 2.8E+02 0.006 28.0 7.2 37 626-662 107-143 (159)
154 PF02891 zf-MIZ: MIZ/SP-RING z 23.6 28 0.00061 27.9 0.1 13 213-225 37-49 (50)
155 PRK12286 rpmF 50S ribosomal pr 23.3 64 0.0014 26.7 2.2 26 194-228 26-51 (57)
156 PF12760 Zn_Tnp_IS1595: Transp 23.2 89 0.0019 24.3 2.9 27 196-225 19-45 (46)
157 PRK00050 16S rRNA m(4)C1402 me 23.0 93 0.002 34.5 4.1 30 286-315 209-238 (296)
158 PF10571 UPF0547: Uncharacteri 22.9 43 0.00093 23.1 0.9 22 197-226 2-23 (26)
159 KOG0989 Replication factor C, 22.8 1.4E+02 0.0031 33.3 5.3 50 272-323 126-176 (346)
160 smart00132 LIM Zinc-binding do 22.5 66 0.0014 23.1 2.0 29 197-225 1-35 (39)
161 PRK08351 DNA-directed RNA poly 22.4 49 0.0011 27.8 1.3 22 197-228 5-26 (61)
162 PHA03378 EBNA-3B; Provisional 21.8 5E+02 0.011 31.9 9.6 88 16-110 712-807 (991)
163 smart00401 ZnF_GATA zinc finge 21.8 65 0.0014 26.0 1.9 32 195-226 3-34 (52)
164 COG3357 Predicted transcriptio 21.7 44 0.00096 30.1 1.0 37 193-233 56-92 (97)
165 COG4867 Uncharacterized protei 21.6 3.5E+02 0.0077 31.3 8.1 100 386-501 532-635 (652)
166 KOG0566 Inositol-1,4,5-triphos 21.6 3.6E+02 0.0077 34.5 8.8 14 55-68 1009-1022(1080)
167 COG5242 TFB4 RNA polymerase II 21.1 2.8E+02 0.0061 29.3 6.7 87 386-502 128-215 (296)
168 PF00362 Integrin_beta: Integr 21.1 1.4E+03 0.03 26.8 21.9 182 277-495 106-318 (426)
169 COG0675 Transposase and inacti 21.0 52 0.0011 36.3 1.6 25 195-228 309-333 (364)
170 COG1066 Sms Predicted ATP-depe 20.5 47 0.001 38.3 1.2 28 196-233 8-37 (456)
No 1
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2e-161 Score=1350.49 Aligned_cols=688 Identities=29% Similarity=0.446 Sum_probs=633.5
Q ss_pred CCCCCCeeeeecCccCCCHhhhhcCCCceEEEeccCCCCCCCCccccCCCccCCCCCcccccceEEEcCCceEEEccCCC
Q 002842 146 PVGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVSPSLQIIQRDPHRCHNCGAFANIYCKILLGSGQWQCVICRN 225 (874)
Q Consensus 146 ~~~~~~~vR~T~n~~P~t~~~~~~~~lPlg~l~tPl~~~~~~~p~v~~~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~ 225 (874)
.+|+.++||+|||+||+++.++.++++|++|+|+||++... +|+++|+|+||++|+||+||||++|++++.|.|+||.+
T Consensus 5 ~~e~~dGvR~twnvwPs~~~~~~~~vvPla~lytPl~e~~~-~~~~~y~P~~C~~C~AvlNPyc~vd~~a~~W~CpfC~q 83 (745)
T KOG1986|consen 5 DIEEIDGVRFTWNVWPSTRAEASRTVVPLACLYTPLKERPD-LPPIQYDPLRCSKCGAVLNPYCSVDFRAKSWICPFCNQ 83 (745)
T ss_pred ccccCCCcccccccCCCcccccccccccHHHhccccccCCC-CCccCCCCchhccchhhcCcceeecccCceEecccccc
Confidence 57899999999999999999999999999999999998654 78899999999999999999999999999999999999
Q ss_pred ccCCCccccCCCccccCCCCCC--CCCceEEEecCCCCCCCCCCCCCCCCCcEEEEEECCCChhHHHHHHHHHHHhhhcC
Q 002842 226 LNGSEGEYVAPSKEELRNFPEL--SSPMVDYVQTGNNRSSYVPVSDSRMSAPIILVIDECLDEPHLQHLQSSLHAFVESI 303 (874)
Q Consensus 226 ~N~~p~~Y~~~~~~d~~~~PEL--~~~tvEy~~p~~~r~~~~p~~~~~~~p~~vFvID~s~~~~~l~~l~~sL~~~L~~L 303 (874)
+|.+|++|..++..+++ +|| +++||||++++.. ..+|+++||||+|+++++|+.||++|+++|+.|
T Consensus 84 rN~~p~~Y~~is~~n~P--~el~Pq~stvEy~l~~~~----------~~ppvf~fVvDtc~~eeeL~~LkssL~~~l~lL 151 (745)
T KOG1986|consen 84 RNPFPPHYSGISENNLP--PELLPQYSTVEYTLSPGR----------VSPPVFVFVVDTCMDEEELQALKSSLKQSLSLL 151 (745)
T ss_pred CCCCChhhcccCccCCC--hhhcCCcceeEEecCCCC----------CCCceEEEEEeeccChHHHHHHHHHHHHHHhhC
Confidence 99999999988766443 688 7999999998531 245667999999999999999999999999999
Q ss_pred CCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhhcCC-------------ccccchhhhHHHHHHHH
Q 002842 304 PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYGTG-------------VYLSPMHASKQVAHDIF 370 (874)
Q Consensus 304 p~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~~~-------------~fL~pl~e~~~~i~~lL 370 (874)
|++++|||||||++||||+|+.+.+.+++||+|+|+++.++++++++..+ +||.|+++|++.++++|
T Consensus 152 P~~alvGlItfg~~v~v~el~~~~~sk~~VF~G~ke~s~~q~~~~L~~~~~~~~~~~~~~~~~rFL~P~~~c~~~L~~ll 231 (745)
T KOG1986|consen 152 PENALVGLITFGTMVQVHELGFEECSKSYVFSGNKEYSAKQLLDLLGLSGGAGKGSENQSASNRFLLPAQECEFKLTNLL 231 (745)
T ss_pred CCcceEEEEEecceEEEEEcCCCcccceeEEeccccccHHHHHHHhcCCcccccCCcccccchhhhccHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999997654 99999999999999999
Q ss_pred HhhcCCccccccCCCC-CchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCCCcccCC----------
Q 002842 371 SSLRPYKLNITEASRD-RCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHS---------- 439 (874)
Q Consensus 371 e~L~~~~~~~~~~~r~-rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~GpG~l~~~---------- 439 (874)
++|+++.|++++++|+ ||||+||++|+.||++|++ +.|+||++|++||||.|||+|+.+
T Consensus 232 e~L~~d~wpV~~g~Rp~RcTG~Al~iA~~Ll~~c~p----------~~g~rIv~f~gGPcT~GpG~vv~~el~~piRshh 301 (745)
T KOG1986|consen 232 EELQPDPWPVPPGHRPLRCTGVALSIASGLLEGCFP----------NTGARIVLFAGGPCTRGPGTVVSRELKEPIRSHH 301 (745)
T ss_pred HHhcCCCCCCCCCCCcccchhHHHHHHHHHhcccCC----------CCcceEEEeccCCCCcCCceecchhhcCCCcCcc
Confidence 9999999999999999 9999999999999999986 479999999999999999999953
Q ss_pred -CCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChh-hHHHHHHHHHHhhc
Q 002842 440 -FSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG-EAFGVNLQRASTRA 517 (874)
Q Consensus 440 -~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~-~~f~~dl~r~~~~~ 517 (874)
+++++++|+ |+|.|||++||++++.+||+||||++++||+|++||++|++.|||.+++.|+|+ +.|+++++|+|+|+
T Consensus 302 di~~d~a~y~-kKa~KfY~~La~r~~~~ghvlDifa~~lDQvGi~EMk~l~~~TGG~lvl~dsF~~s~Fk~sfqR~f~~d 380 (745)
T KOG1986|consen 302 DIEKDNAPYY-KKAIKFYEKLAERLANQGHVLDIFAAALDQVGILEMKPLVESTGGVLVLGDSFNTSIFKQSFQRIFTRD 380 (745)
T ss_pred cccCcchHHH-HHHHHHHHHHHHHHHhCCceEeeeeeeccccchHHHHHHhhcCCcEEEEecccchHHHHHHHHHHhccc
Confidence 456677888 788999999999999999999999999999999999999999999999999998 47999999999954
Q ss_pred ------cCcceEEEEEeCCCeeEEEeecCCcccccccccc----cccCccccccccCCCCceEEEEEEEeccCCC---CC
Q 002842 518 ------AGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHET----FKNDAALSIQMPSVEETQSFAVSMENKRDIE---SN 584 (874)
Q Consensus 518 ------~g~~a~l~VR~S~glkV~~~~G~~~~~~~~~~~~----~~~~~~~~~~~~~v~~~~s~~~~~~~~~~~~---~~ 584 (874)
+||||+|+|+||++++|+|+||||.++++|+++. .+..++..|+++.+++.+++++.|++...-. +.
T Consensus 381 ~~~~l~~~fn~~leV~tSkdlkI~g~IGp~~Sl~~k~~~vsdt~ig~g~t~~wkm~~ls~~t~~s~~fei~~~~~~~~~~ 460 (745)
T KOG1986|consen 381 GEGDLKMGFNGTLEVKTSKDLKIQGVIGPCVSLNKKGPNVSDTEIGEGNTSAWKMCGLSPSTTLSLFFEISNQHNIPQSG 460 (745)
T ss_pred cccchhhhcCceEEEEecCCcEEEecccccccccCCCCccccceeccccccceeeeccCCCceEEEEEEeccccCCCCCC
Confidence 8999999999999999999999999999977552 2222345788999999999999999986543 57
Q ss_pred ceEEEEEEEEEecCCCEEEEEEeeeeccccch-HHHHhhcCHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHH
Q 002842 585 HVFFQFAIRYSNVYQADISRVVTVRLPTVDSV-SAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIALK 663 (874)
Q Consensus 585 ~~~IQfal~Yt~~~G~rriRV~T~~l~vt~~~-~~i~~s~D~ea~~~l~ak~av~~~~~~~~~~d~r~~Ld~~li~ll~~ 663 (874)
.+||||+++|+|++|++|+||+|++++|++.. .+|..+|||||+|++|||++++|++++ +..|+++|+|+.|||+|++
T Consensus 461 ~~~iQFiT~Yq~s~g~~riRVtT~~r~~~d~~~~~i~~~FDqEaaAV~mAR~~~~kae~e-~~~d~~rwlDr~Lirlc~k 539 (745)
T KOG1986|consen 461 QGYIQFITQYQHSSGQKRIRVTTLARPWADSGSPEISQSFDQEAAAVLMARLALLKAETE-DGPDVLRWLDRNLIRLCQK 539 (745)
T ss_pred eeEEEEEEEEEcCCCcEEEEEEEeehhhccccchHhhhccchHHHHHHHHHHHHHhhhcc-ccchHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999876 589999999999999999999999995 8899999999999999999
Q ss_pred hcccCCCCCc-cccchhhhHHHHHHHHhccCcCCCCCCCCchHHHHHHHHHhccCHHHHHHhhccceeeeccCCCcccCC
Q 002842 664 FGSQVPKSKL-YRFPKELSALSELLFHLRRSPLLGNIIGHDDERSVLRNLFLNASFDLSLRMVAPRCLMYREGGTFEELP 742 (874)
Q Consensus 664 y~~~~~~~~~-l~Lp~~l~llP~~~~~L~Rs~~l~~~~~spDera~~~~~l~~~~v~~sl~miyP~L~~~~~~~~~~~lP 742 (874)
|++|.+++++ |+|+++|++|||||||||||+||+++|+|||||+||||+|++++++++++||+|+|++|++++++++++
T Consensus 540 Fg~y~k~dPssf~l~~~fsl~PQfmfhLRRS~fLqvfNnSPDEt~~yrhll~~e~v~~sliMIqP~L~sySf~g~~epvl 619 (745)
T KOG1986|consen 540 FGDYRKDDPSSFRLSPNFSLYPQFMFHLRRSPFLQVFNNSPDETAYYRHLLNREDVDNSLIMIQPTLLSYSFNGPPEPVL 619 (745)
T ss_pred HhccCCCCchhhcCChhhhhhHHHHHhhccchhhhccCCCcchHHHHHHHHhhccchhhhheecceeeeeecCCCCceeE
Confidence 9999777755 999999999999999999999999999999999999999999999999999999999999999877777
Q ss_pred cccccccCCcEEEEeCCcEEEEEeCCcccccc--------cc--cHHHHHHHHHHHHHHHhcCCCCcEEEEEecCCchHH
Q 002842 743 AYDLAMQSDKAVVLDHGTDVFIWLGAELAADE--------GR--SAAALAACRTLAEELSEFRFPAPRILAFKEGSSQAR 812 (874)
Q Consensus 743 ~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~--------~~--~~~~l~~~~~~~~~l~~~R~p~Pr~i~~~qg~sqaR 812 (874)
++..||.+|.|+|||++|+|+||+|++|++|. || |++++++|+++|++|+.+|||+|||++|+|||||||
T Consensus 620 LD~~Si~~D~iLLlDt~f~i~i~hG~tIaqWR~~gy~~~pe~~~f~~LL~ap~~dA~el~~~RFP~PR~v~~~q~GSQAR 699 (745)
T KOG1986|consen 620 LDVASILADRILLLDTYFTIVIFHGSTIAQWRKAGYHEQPEYENFKELLEAPREDAQELLLERFPMPRYVVTDQGGSQAR 699 (745)
T ss_pred ecccccCCceEEEeecceEEEEECCchHHHHHhcccccChhhHHHHHHHHhHHHHHHHHHHhhCCCCeEEEecCCccHHH
Confidence 78899999999999999999999999998653 43 789999999999999999999999999999999999
Q ss_pred HHHHhhcCCCCCCcccccccccccccCChHHHhhcccccccCCCchHHHHHHhcccCCCCCC
Q 002842 813 YFVTRLIPAHKDPPYEQEARFPQLRSLTPEERIKLKSSFLFFDDPSFCEWMRSLKVVPPEPS 874 (874)
Q Consensus 813 fl~srL~ps~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~i~TdD~Sl~~f~~~L~~~~~~~~ 874 (874)
||++|||||.+|+.... +. +++.|+|||+|||+||+|||++++.++
T Consensus 700 FLlsklnPS~t~~~~~~---~~-------------~s~~I~TDDvSlq~fm~hLkklav~~~ 745 (745)
T KOG1986|consen 700 FLLSKLNPSETHNNLTA---HG-------------GSSIILTDDVSLQVFMEHLKKLAVSSS 745 (745)
T ss_pred hhhhhcCcchhccchhh---cc-------------CCCeeeeccccHHHHHHHHHhhcCCCC
Confidence 99999999988743211 11 266799999999999999999998764
No 2
>PLN00162 transport protein sec23; Provisional
Probab=100.00 E-value=1.6e-152 Score=1373.43 Aligned_cols=686 Identities=25% Similarity=0.380 Sum_probs=615.5
Q ss_pred CCCCCeeeeecCccCCCHhhhhcCCCceEEEeccCCCCCCCCccccCCCccCCCCCcccccceEEEcCCceEEEccCCCc
Q 002842 147 VGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVSPSLQIIQRDPHRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 147 ~~~~~~vR~T~n~~P~t~~~~~~~~lPlg~l~tPl~~~~~~~p~v~~~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
.|+.++||+|||+||+|+.++++++|||||+||||++.++ +|+++++|+||++|+|||||||+||.++++|+||||+++
T Consensus 6 ~e~~~gvR~s~n~~P~t~~~~~~~~iPlg~v~tPl~~~~~-vp~v~~~pvRC~~CraylNPf~~~d~~~~~W~C~~C~~~ 84 (761)
T PLN00162 6 LEAIDGVRMSWNVWPSSKIEASKCVIPLAALYTPLKPLPE-LPVLPYDPLRCRTCRAVLNPYCRVDFQAKIWICPFCFQR 84 (761)
T ss_pred hcccCceEeeeecCCCCHHHHhcCCCCeEEEEecCCcCCC-CCcCCCCCCccCCCcCEECCceEEecCCCEEEccCCCCC
Confidence 4778999999999999999999999999999999998654 888999999999999999999999999999999999999
Q ss_pred cCCCccccCCCccccCCCCCC--CCCceEEEecCCCCCCCCCCCCCCCCCcEEEEEECCCChhHHHHHHHHHHHhhhcCC
Q 002842 227 NGSEGEYVAPSKEELRNFPEL--SSPMVDYVQTGNNRSSYVPVSDSRMSAPIILVIDECLDEPHLQHLQSSLHAFVESIP 304 (874)
Q Consensus 227 N~~p~~Y~~~~~~d~~~~PEL--~~~tvEy~~p~~~r~~~~p~~~~~~~p~~vFvID~s~~~~~l~~l~~sL~~~L~~Lp 304 (874)
|.+|++|..++.. +.+||| +++||||+++. |.. ....+|.|+||||+|.++++++.+|++|+++|+.||
T Consensus 85 N~~P~~Y~~~~~~--~~p~EL~p~~~TvEY~~p~-~~~------~~~~pp~fvFvID~s~~~~~l~~lk~sl~~~L~~LP 155 (761)
T PLN00162 85 NHFPPHYSSISET--NLPAELFPQYTTVEYTLPP-GSG------GAPSPPVFVFVVDTCMIEEELGALKSALLQAIALLP 155 (761)
T ss_pred CCCchHhcccCcc--CCChhhcCCceeEEEECCC-CCC------CCCCCcEEEEEEecchhHHHHHHHHHHHHHHHHhCC
Confidence 9999999865433 356899 89999999985 311 113567889999999999999999999999999999
Q ss_pred CCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhhc-----------------------CCccccchhh
Q 002842 305 PTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYG-----------------------TGVYLSPMHA 361 (874)
Q Consensus 305 ~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~-----------------------~~~fL~pl~e 361 (874)
++++|||||||++||||+|+.+.+++++||+|+|+++.++++++++. .++||+|++|
T Consensus 156 ~~a~VGlITF~s~V~~~~L~~~~~~~~~Vf~g~k~~t~~~l~~~l~l~~~~~~~~~~~~~~~~~~~~~p~~~~fLvpl~e 235 (761)
T PLN00162 156 ENALVGLITFGTHVHVHELGFSECSKSYVFRGNKEVSKDQILEQLGLGGKKRRPAGGGIAGARDGLSSSGVNRFLLPASE 235 (761)
T ss_pred CCCEEEEEEECCEEEEEEcCCCCCcceEEecCCccCCHHHHHHHhccccccccccccccccccccccCCCccceeEEHHH
Confidence 99999999999999999999888999999999999999999988621 3589999999
Q ss_pred hHHHHHHHHHhhcCCccccccCCCC-CchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCCCcccCCC
Q 002842 362 SKQVAHDIFSSLRPYKLNITEASRD-RCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSF 440 (874)
Q Consensus 362 ~~~~i~~lLe~L~~~~~~~~~~~r~-rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~GpG~l~~~~ 440 (874)
|++.|+++||+|+++.|+++.++|+ ||+|+||++|..+|+.+.+ +.|||||+|++||||.|||+|+.++
T Consensus 236 ~~~~i~~lLe~L~~~~~~~~~~~rp~r~tG~AL~vA~~lL~~~~~----------~~gGrI~~F~sgppT~GpG~v~~r~ 305 (761)
T PLN00162 236 CEFTLNSALEELQKDPWPVPPGHRPARCTGAALSVAAGLLGACVP----------GTGARIMAFVGGPCTEGPGAIVSKD 305 (761)
T ss_pred HHHHHHHHHHhhhccccccCCCCCCCccHHHHHHHHHHHHhhccC----------CCceEEEEEeCCCCCCCCceeeccc
Confidence 9999999999999999988777776 9999999999999997642 3699999999999999999999765
Q ss_pred CCC-----------CchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChhh-HHHH
Q 002842 441 SHP-----------NYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE-AFGV 508 (874)
Q Consensus 441 ~~~-----------~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~~-~f~~ 508 (874)
.++ +.+++ ++|.+||++||++|+++||+||||+++.||+|++||+.|++.|||.+++|++|+. .|++
T Consensus 306 ~~~~~rsh~di~k~~~~~~-~~a~~fY~~la~~~~~~gisvDlF~~s~dqvglaem~~l~~~TGG~v~~~~sF~~~~f~~ 384 (761)
T PLN00162 306 LSEPIRSHKDLDKDAAPYY-KKAVKFYEGLAKQLVAQGHVLDVFACSLDQVGVAEMKVAVERTGGLVVLAESFGHSVFKD 384 (761)
T ss_pred ccccccCccccccchhhhc-chHHHHHHHHHHHHHHcCceEEEEEccccccCHHHHhhhHhhcCcEEEEeCCcChHHHHH
Confidence 332 22344 7899999999999999999999999999999999999999999999999999986 6999
Q ss_pred HHHHHHhhc------cCcceEEEEEeCCCeeEEEeecCCccccccccc----ccccCccccccccCCCCceEEEEEEEec
Q 002842 509 NLQRASTRA------AGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHE----TFKNDAALSIQMPSVEETQSFAVSMENK 578 (874)
Q Consensus 509 dl~r~~~~~------~g~~a~l~VR~S~glkV~~~~G~~~~~~~~~~~----~~~~~~~~~~~~~~v~~~~s~~~~~~~~ 578 (874)
+|+|+|+|+ +||||+||||||+||||+++||||.++++++.+ ..+..+++.|++++++++++|+|+|+++
T Consensus 385 ~l~r~~~r~~~~~~~~gf~a~~~VrtS~glkv~g~~G~~~s~~~~~~~vsd~~iG~g~T~~w~l~~l~~~~t~av~f~~~ 464 (761)
T PLN00162 385 SLRRVFERDGEGSLGLSFNGTFEVNCSKDVKVQGAIGPCASLEKKGPSVSDTEIGEGGTTAWKLCGLDKKTSLAVFFEVA 464 (761)
T ss_pred HHHHHhcccccccccccceeEEEEEecCCeEEeeeEcCcccccccCCccccccccCCCCceeeecCcCcCCEEEEEEEEc
Confidence 999999975 899999999999999999999999987665422 1223345789999999999999999998
Q ss_pred cCC------CCCceEEEEEEEEEecCCCEEEEEEeeeecccc--chHHHHhhcCHHHHHHHHHHHHHHHhhccCCHHHHH
Q 002842 579 RDI------ESNHVFFQFAIRYSNVYQADISRVVTVRLPTVD--SVSAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMR 650 (874)
Q Consensus 579 ~~~------~~~~~~IQfal~Yt~~~G~rriRV~T~~l~vt~--~~~~i~~s~D~ea~~~l~ak~av~~~~~~~~~~d~r 650 (874)
+.. ++..+||||+++|||.+|+|||||||++++|+. ++.+++++|||||++++|||+|++++++ ++..|++
T Consensus 465 ~~~~~~~~~~~~~~~iQ~a~lYt~~~G~rRiRV~T~~~~~~~~~~~~~v~~~fDqeA~a~llaR~av~k~~~-~~~~d~~ 543 (761)
T PLN00162 465 NSGQSNPQPPGQQFFLQFLTRYQHSNGQTRLRVTTVTRRWVEGSSSEELVAGFDQEAAAVVMARLASHKMET-EEEFDAT 543 (761)
T ss_pred cccccCCCCCCceEEEEEEEEEEcCCCCEEEEEEccccCccCCCCHHHHHHhcCHHHHHHHHHHHHHHHHhh-CCHHHHH
Confidence 764 346799999999999999999999999999764 7889999999999999999999999998 4899999
Q ss_pred HHHHHHHHHHHHHhcccCCCCC-ccccchhhhHHHHHHHHhccCcCCCCCCCCchHHHHHHHHHhccCHHHHHHhhccce
Q 002842 651 TMIDERVKDIALKFGSQVPKSK-LYRFPKELSALSELLFHLRRSPLLGNIIGHDDERSVLRNLFLNASFDLSLRMVAPRC 729 (874)
Q Consensus 651 ~~Ld~~li~ll~~y~~~~~~~~-~l~Lp~~l~llP~~~~~L~Rs~~l~~~~~spDera~~~~~l~~~~v~~sl~miyP~L 729 (874)
+|||++||++|++|++|.+.+. +|+||++|++||+||||||||++|+++|+|||||+|+|++|+++++++++.||||+|
T Consensus 544 r~ld~~li~~~~~f~~Yrk~~~~s~~Lp~~~~~lP~f~~~LrRS~~l~~~n~spDera~~r~~l~~~~~~~sl~mI~P~L 623 (761)
T PLN00162 544 RWLDRALIRLCSKFGDYRKDDPSSFRLSPNFSLYPQFMFNLRRSQFVQVFNNSPDETAYFRMMLNRENVTNSLVMIQPTL 623 (761)
T ss_pred HHHHHHHHHHHHHHhhhcccCCccccCCHHHHHHHHHHHHHhhhhhccCCCCCchHHHHHHHHHhcCCHHHHHHhhCCeE
Confidence 9999999999999998865543 499999999999999999999999999999999999999999999999999999999
Q ss_pred eeeccCCCcccCCcccccccCCcEEEEeCCcEEEEEeCCccccc--------ccc--cHHHHHHHHHHHHHHHhcCCCCc
Q 002842 730 LMYREGGTFEELPAYDLAMQSDKAVVLDHGTDVFIWLGAELAAD--------EGR--SAAALAACRTLAEELSEFRFPAP 799 (874)
Q Consensus 730 ~~~~~~~~~~~lP~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~--------~~~--~~~~l~~~~~~~~~l~~~R~p~P 799 (874)
++||.++...++.++..+|++|+|||||+||+|+||+|++|++| ++| |++++++|+++|++|+++|||+|
T Consensus 624 ~sy~~~~~P~pv~Ld~~si~~d~ilLLD~~f~vvi~~G~~ia~w~~~~~~~~~~~~~~~~~l~~p~~~a~~~~~~Rfp~P 703 (761)
T PLN00162 624 ISYSFNGPPEPVLLDVASIAADRILLLDSYFSVVIFHGSTIAQWRKAGYHNQPEHEAFAQLLEAPQADAQAIIKERFPVP 703 (761)
T ss_pred EEecCCCCCcceecchhhccCCceEEEeCCCEEEEEecCcccchhhcCCCCCcchhhHHHHHHhHHHHHHHHHhcCCCCC
Confidence 99998776544555678899999999999999999999999865 333 78999999999999999999999
Q ss_pred EEEEEecCCchHHHHHHhhcCCCCCCcccccccccccccCChHHHhhcccccccCCCchHHHHHHhcccCC
Q 002842 800 RILAFKEGSSQARYFVTRLIPAHKDPPYEQEARFPQLRSLTPEERIKLKSSFLFFDDPSFCEWMRSLKVVP 870 (874)
Q Consensus 800 r~i~~~qg~sqaRfl~srL~ps~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~i~TdD~Sl~~f~~~L~~~~ 870 (874)
|||+|+|||||||||++||||+.+|+...+ +. ++++|+|||+|||+||+|||+.+
T Consensus 704 r~i~~~~~~SqaRfl~~klnPs~~~~~~~~---~~-------------~~~~~~tdd~sl~~f~~~l~~~~ 758 (761)
T PLN00162 704 RLVVCDQHGSQARFLLAKLNPSATYNSANA---MG-------------GSDIIFTDDVSLQVFMEHLQRLA 758 (761)
T ss_pred eEEEeCCCCcHHHHHHHhcCCcccccCCCC---CC-------------CCCeeecCCcCHHHHHHHHHHHh
Confidence 999999999999999999999988843211 10 36789999999999999999865
No 3
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=100.00 E-value=2e-143 Score=1174.36 Aligned_cols=682 Identities=25% Similarity=0.398 Sum_probs=614.5
Q ss_pred CCCCCeeeeecCccCCCHhhhhcCCCceEEEeccCCCCCCCCccccCCCccCCC-CCcccccceEEEcCCceEEEccCCC
Q 002842 147 VGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVSPSLQIIQRDPHRCHN-CGAFANIYCKILLGSGQWQCVICRN 225 (874)
Q Consensus 147 ~~~~~~vR~T~n~~P~t~~~~~~~~lPlg~l~tPl~~~~~~~p~v~~~p~RC~~-C~AylNP~~~~~~~~~~W~C~fC~~ 225 (874)
+|+.++||+|||+||+|+.+++++++|++|+|+|+++.+. .++..|+|+.|.. |+||+||||.+|.+++.|+|+||++
T Consensus 6 iee~dgir~twnvfpat~~da~~~~iPia~lY~Pl~e~~~-~~v~~yepv~C~~pC~avlnpyC~id~r~~~W~CpfCnq 84 (755)
T COG5047 6 IEENDGIRLTWNVFPATRGDATRTVIPIACLYTPLHEDDA-LTVNYYEPVKCTAPCKAVLNPYCHIDERNQSWICPFCNQ 84 (755)
T ss_pred hccccceEEEEecccCCccccccccccHHHhccccccccc-cCcccCCCceecccchhhcCcceeeccCCceEecceecC
Confidence 6899999999999999999999999999999999998643 6778899999998 9999999999999999999999999
Q ss_pred ccCCCccccCCCccccCCCCCC--CCCceEEEecCCCCCCCCCCCCCCCCCcEEEEEECCCChhHHHHHHHHHHHhhhcC
Q 002842 226 LNGSEGEYVAPSKEELRNFPEL--SSPMVDYVQTGNNRSSYVPVSDSRMSAPIILVIDECLDEPHLQHLQSSLHAFVESI 303 (874)
Q Consensus 226 ~N~~p~~Y~~~~~~d~~~~PEL--~~~tvEy~~p~~~r~~~~p~~~~~~~p~~vFvID~s~~~~~l~~l~~sL~~~L~~L 303 (874)
+|.+|++|..++..++. +|| +++||||++++. . ..+|.++||||+|+++++|.+||++|+..|+.|
T Consensus 85 rn~lp~qy~~iS~~~Lp--lellpqssTiey~lskp---~-------~~ppvf~fvvD~~~D~e~l~~Lkdslivslsll 152 (755)
T COG5047 85 RNTLPPQYRDISNANLP--LELLPQSSTIEYTLSKP---V-------ILPPVFFFVVDACCDEEELTALKDSLIVSLSLL 152 (755)
T ss_pred CCCCChhhcCCCcccCC--ccccCCCceEEEEccCC---c-------cCCceEEEEEEeecCHHHHHHHHHHHHHHHhcC
Confidence 99999999988765553 688 799999999863 2 244667999999999999999999999999999
Q ss_pred CCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhhcC--------------------CccccchhhhH
Q 002842 304 PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYGT--------------------GVYLSPMHASK 363 (874)
Q Consensus 304 p~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~~--------------------~~fL~pl~e~~ 363 (874)
|++++|||||||+.|+||+++...+.+++||+|+++++.+.|+++++.. .+|+.|+.+|+
T Consensus 153 ppeaLvglItygt~i~v~el~ae~~~r~~VF~g~~eyt~~~L~~ll~~~~~~~~~~~es~is~~~~~~~~rFl~p~q~ce 232 (755)
T COG5047 153 PPEALVGLITYGTSIQVHELNAENHRRSYVFSGNKEYTKENLQELLALSKPTKSGGFESKISGIGQFASSRFLLPTQQCE 232 (755)
T ss_pred CccceeeEEEecceeEEEeccccccCcceeecchHHHHHHHHHHHhcccCCCCcchhhhhcccccccchhhhhccHHHHH
Confidence 9999999999999999999999888999999999999999999987521 35999999999
Q ss_pred HHHHHHHHhhcCCccccccCCCC-CchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCCCcccCCCCC
Q 002842 364 QVAHDIFSSLRPYKLNITEASRD-RCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSH 442 (874)
Q Consensus 364 ~~i~~lLe~L~~~~~~~~~~~r~-rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~GpG~l~~~~~~ 442 (874)
+.+.++|++|+++.|++..++|+ ||||+||++|..||+.|+++ .|+||++|++||||.|||.|+.++-+
T Consensus 233 ~~L~n~le~L~pd~~~v~~~~Rp~RCTGsAl~ias~Ll~~~~p~----------~~~~i~lF~~GPcTvGpG~Vvs~elk 302 (755)
T COG5047 233 FKLLNILEQLQPDPWPVPAGKRPLRCTGSALNIASSLLEQCFPN----------AGCHIVLFAGGPCTVGPGTVVSTELK 302 (755)
T ss_pred HHHHHHHHHhCCCCccCCCCCCCccccchhHHHHHHHHHhhccC----------cceeEEEEcCCCccccCceeeehhhc
Confidence 99999999999999999999998 99999999999999999864 68999999999999999999965432
Q ss_pred -----------CCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChhh-HHHHHH
Q 002842 443 -----------PNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE-AFGVNL 510 (874)
Q Consensus 443 -----------~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~~-~f~~dl 510 (874)
+.+.+. |+|.|||++||++.+.+||++|+|+++.||+|+.||++|...|||.+++.|+|++ .|++++
T Consensus 303 EpmRshH~ie~d~aqh~-kka~KFY~~laeR~a~~gh~~DifagcldqIGI~eM~~L~~sTgg~lvlsdsF~t~ifkqSf 381 (755)
T COG5047 303 EPMRSHHDIESDSAQHS-KKATKFYKGLAERVANQGHALDIFAGCLDQIGIMEMEPLTTSTGGALVLSDSFTTSIFKQSF 381 (755)
T ss_pred ccccccccccccchhhc-cchHHHHHHHHHHHhccchhHHHHHHHHHhhhhhcchhhccCCcceEEEeccccHHHHHHHH
Confidence 223444 8999999999999999999999999999999999999999999999999999986 699999
Q ss_pred HHHHhhc------cCcceEEEEEeCCCeeEEEeecCCcccccccccc----cccCccccccccCCCCceEEEEEEEeccC
Q 002842 511 QRASTRA------AGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHET----FKNDAALSIQMPSVEETQSFAVSMENKRD 580 (874)
Q Consensus 511 ~r~~~~~------~g~~a~l~VR~S~glkV~~~~G~~~~~~~~~~~~----~~~~~~~~~~~~~v~~~~s~~~~~~~~~~ 580 (874)
+|+|.++ +||||.|+|.||++++|+|++|++++.++|+.+. .+-..+..|+++++.+.+++++.||+...
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 9999886 7999999999999999999999999988876441 12223467899999999999999999764
Q ss_pred CC------CCceEEEEEEEEEecCCCEEEEEEeeeecccc-chHHHHhhcCHHHHHHHHHHHHHHHhhccCCHHHHHHHH
Q 002842 581 IE------SNHVFFQFAIRYSNVYQADISRVVTVRLPTVD-SVSAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMRTMI 653 (874)
Q Consensus 581 ~~------~~~~~IQfal~Yt~~~G~rriRV~T~~l~vt~-~~~~i~~s~D~ea~~~l~ak~av~~~~~~~~~~d~r~~L 653 (874)
.. ...+||||++.|+|++|..||||+|++...++ ....+.++|||||++++|||.+++|++. ++..|+.+|+
T Consensus 462 ~~~~~~~~~~~a~iQfiT~yQhss~t~riRVtTvar~f~~~~~p~i~~SFdqEaaaV~~aR~a~~K~~~-ed~~Dv~rw~ 540 (755)
T COG5047 462 AASGSAQRPAEAYIQFITTYQHSSGTYRIRVTTVARMFTDGGLPKINRSFDQEAAAVFMARIAAFKAET-EDIIDVFRWI 540 (755)
T ss_pred cCCCccCCcccchhhhhhhhhccCCcEEEEEeehhhhhccCCChhhhhcchhhHHHHHHHHHHHhhccc-ccchhHHHHH
Confidence 32 26899999999999999999999999988886 4567889999999999999999999998 5899999999
Q ss_pred HHHHHHHHHHhcccCCCCCc-cccchhhhHHHHHHHHhccCcCCCCCCCCchHHHHHHHHHhccCHHHHHHhhccceeee
Q 002842 654 DERVKDIALKFGSQVPKSKL-YRFPKELSALSELLFHLRRSPLLGNIIGHDDERSVLRNLFLNASFDLSLRMVAPRCLMY 732 (874)
Q Consensus 654 d~~li~ll~~y~~~~~~~~~-l~Lp~~l~llP~~~~~L~Rs~~l~~~~~spDera~~~~~l~~~~v~~sl~miyP~L~~~ 732 (874)
|+.||++|++|.+|.+.+++ |+|+.+|.+|||||||||||+||+++|+|||||+||||+|.++++++++.||+|+|.+|
T Consensus 541 dr~lirlcq~fa~y~k~dpssfrl~~~f~lypqf~y~lrRSpfL~vfNnSPDEt~fyrh~l~~~dv~~sLimiqPtL~Sy 620 (755)
T COG5047 541 DRNLIRLCQKFADYRKDDPSSFRLDPNFTLYPQFMYHLRRSPFLSVFNNSPDETAFYRHMLNNADVNDSLIMIQPTLQSY 620 (755)
T ss_pred HHHHHHHHHHHHhcCCCCchhhcCCcchhhhhHHHhhhhccceeeccCCCcchHHHHHHHHhcccccchhhhhcchheee
Confidence 99999999999999666666 99999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCcccCCcccccccCCcEEEEeCCcEEEEEeCCccccc--------ccc--cHHHHHHHHHHHHHHHhcCCCCcEEE
Q 002842 733 REGGTFEELPAYDLAMQSDKAVVLDHGTDVFIWLGAELAAD--------EGR--SAAALAACRTLAEELSEFRFPAPRIL 802 (874)
Q Consensus 733 ~~~~~~~~lP~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~--------~~~--~~~~l~~~~~~~~~l~~~R~p~Pr~i 802 (874)
|+.+..+++-++..++++|.|+|||++|+|+||+|+.+++| ++| +++++++++..|.+++.+|||.||++
T Consensus 621 s~~~~~~pVlLDs~svkpdviLLlDtff~Ili~hG~~iaqwr~agyq~qpey~~lK~Ll~~p~~ea~ell~dRfP~Prfi 700 (755)
T COG5047 621 SFEKGGVPVLLDSVSVKPDVILLLDTFFHILIFHGSYIAQWRNAGYQEQPEYLNLKELLEAPRLEAAELLQDRFPIPRFI 700 (755)
T ss_pred eccCCCceEEEeccccCCCeEEEeeceeEEEEECChHHHHHHhhhhhcCchhhhHHHHhhchhhHHHHHHHhhCCCCeEE
Confidence 98775223333668999999999999999999999999864 333 68999999999999999999999999
Q ss_pred EEecCCchHHHHHHhhcCCCCCCcccccccccccccCChHHHhhcccccccCCCchHHHHHHhcccCC
Q 002842 803 AFKEGSSQARYFVTRLIPAHKDPPYEQEARFPQLRSLTPEERIKLKSSFLFFDDPSFCEWMRSLKVVP 870 (874)
Q Consensus 803 ~~~qg~sqaRfl~srL~ps~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~i~TdD~Sl~~f~~~L~~~~ 870 (874)
+|+|||||+|||++|+||+..++.. +++ ++..|.|||++||+||+||++.+
T Consensus 701 ~teqggSQaRfLlskinPsd~~~~~---~~~--------------~s~tilTddv~lq~fm~hl~~la 751 (755)
T COG5047 701 VTEQGGSQARFLLSKINPSDITNKM---SGG--------------GSETILTDDVNLQKFMNHLRKLA 751 (755)
T ss_pred EecCCccHHHHHHhhcCcccccccc---ccC--------------ccceeeecccCHHHHHHHHHHHh
Confidence 9999999999999999999876321 111 35679999999999999999765
No 4
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.5e-117 Score=1009.78 Aligned_cols=650 Identities=22% Similarity=0.338 Sum_probs=568.6
Q ss_pred CCCCCCCCeeeeecCccCCCHhhhhcCCCceEEEeccCCCCCCC--Cccc-cCCCccCCCCCcccccceEEEcCCceEEE
Q 002842 144 TMPVGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVSPS--LQII-QRDPHRCHNCGAFANIYCKILLGSGQWQC 220 (874)
Q Consensus 144 ~~~~~~~~~vR~T~n~~P~t~~~~~~~~lPlg~l~tPl~~~~~~--~p~v-~~~p~RC~~C~AylNP~~~~~~~~~~W~C 220 (874)
..-||+++++|+|.++||.+.+++++++||||++|+||++..+. .+++ ...++||++||+||||||.|++.|++|+|
T Consensus 164 ~~~nc~p~y~RsTl~~iP~t~sLl~kskLPlglvv~Pf~~~~d~~~~p~~~~~~IvRCr~CRtYiNPFV~fid~gr~WrC 243 (887)
T KOG1985|consen 164 ESSNCSPSYVRSTLSAIPQTQSLLKKSKLPLGLVVHPFAHLDDIDPLPVITSTLIVRCRRCRTYINPFVEFIDQGRRWRC 243 (887)
T ss_pred cccCCCHHHHHHHHHhCCccHHHHHhcCCCceEEEeecccccccCCCCcccCCceeeehhhhhhcCCeEEecCCCceeee
Confidence 57899999999999999999999999999999999999965432 3333 47899999999999999999999999999
Q ss_pred ccCCCccCCCccccCC----CccccCCCCCCCCCceEEEecCCC--CCCCCCCCCCCCCCcEEEEEECCCC---hhHHHH
Q 002842 221 VICRNLNGSEGEYVAP----SKEELRNFPELSSPMVDYVQTGNN--RSSYVPVSDSRMSAPIILVIDECLD---EPHLQH 291 (874)
Q Consensus 221 ~fC~~~N~~p~~Y~~~----~~~d~~~~PEL~~~tvEy~~p~~~--r~~~~p~~~~~~~p~~vFvID~s~~---~~~l~~ 291 (874)
|+|+..|++|.+|... ...|.++||||++++|||++|.+| |++ +++.||||||+|.+ +|.|++
T Consensus 244 NlC~~~NdvP~~f~~~~~t~~~~~~~~RpEl~~s~vE~iAP~eYmlR~P--------~Pavy~FliDVS~~a~ksG~L~~ 315 (887)
T KOG1985|consen 244 NLCGRVNDVPDDFDWDPLTGAYGDPYSRPELTSSVVEFIAPSEYMLRPP--------QPAVYVFLIDVSISAIKSGYLET 315 (887)
T ss_pred chhhhhcCCcHHhhcCccccccCCcccCccccceeEEEecCcccccCCC--------CCceEEEEEEeehHhhhhhHHHH
Confidence 9999999999998764 356788999999999999999998 553 55678999999974 689999
Q ss_pred HHHHHHHhhhcCC--CCcEEEEEEECceEEEEecCCCC-cceeccccC---CCCCCHHHHHHHhhcCCccccchhhhHHH
Q 002842 292 LQSSLHAFVESIP--PTARIGIILYGRTVSVYDFSEDS-IASSDVLAG---DKLPTEDSLKALLYGTGVYLSPMHASKQV 365 (874)
Q Consensus 292 l~~sL~~~L~~Lp--~~a~VGlITFd~~V~vy~l~~~~-~~~~~V~~g---~~~~~~~~l~~~l~~~~~fL~pl~e~~~~ 365 (874)
++++|...|+.|| ++++|||||||++||||++..+. .+.+.++++ .+.+.+++ ||+|+++||+.
T Consensus 316 ~~~slL~~LD~lpgd~Rt~igfi~fDs~ihfy~~~~~~~qp~mm~vsdl~d~flp~pd~----------lLv~L~~ck~~ 385 (887)
T KOG1985|consen 316 VARSLLENLDALPGDPRTRIGFITFDSTIHFYSVQGDLNQPQMMIVSDLDDPFLPMPDS----------LLVPLKECKDL 385 (887)
T ss_pred HHHHHHHhhhcCCCCCcceEEEEEeeceeeEEecCCCcCCCceeeeccccccccCCchh----------heeeHHHHHHH
Confidence 9999999999999 79999999999999999998654 333333333 33445544 59999999999
Q ss_pred HHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCCCcccCCCCCCCc
Q 002842 366 AHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPNY 445 (874)
Q Consensus 366 i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~GpG~l~~~~~~~~~ 445 (874)
|+++|+.|+.++..+. ...+|+|.||++|..+|+. .||||++|.+++|+.|.|+|+.||+....
T Consensus 386 i~~lL~~lp~~F~~~~--~t~~alGpALkaaf~li~~--------------~GGri~vf~s~lPnlG~G~L~~rEdp~~~ 449 (887)
T KOG1985|consen 386 IETLLKTLPEMFQDTR--STGSALGPALKAAFNLIGS--------------TGGRISVFQSTLPNLGAGKLKPREDPNVR 449 (887)
T ss_pred HHHHHHHHHHHHhhcc--CcccccCHHHHHHHHHHhh--------------cCCeEEEEeccCCCCCccccccccccccc
Confidence 9999999999886543 3469999999999999986 58999999999999999999999654333
Q ss_pred hhhh-----HhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChhh-------HHHHHHHHH
Q 002842 446 LHME-----KMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE-------AFGVNLQRA 513 (874)
Q Consensus 446 ~~~e-----k~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~~-------~f~~dl~r~ 513 (874)
...+ .+++.|||++|.+|++.+|+||+|+++.+|.|+|+|+.|++.|||.+|+|++|+. +|.++|.|.
T Consensus 450 ~s~~~~qlL~~~t~FYK~~a~~cs~~qI~VDlFl~s~qY~DlAsLs~LskySgG~~y~YP~f~~s~p~~~~Kf~~el~r~ 529 (887)
T KOG1985|consen 450 SSDEDSQLLSPATDFYKDLALECSKSQICVDLFLFSEQYTDLASLSCLSKYSGGQVYYYPSFDGSNPHDVLKFARELARY 529 (887)
T ss_pred cchhhhhccCCCchHHHHHHHHhccCceEEEEEeecccccchhhhhccccccCceeEEccCCCCCCHHHHHHHHHHHHHH
Confidence 2221 3678999999999999999999999999999999999999999999999999962 589999999
Q ss_pred HhhccCcceEEEEEeCCCeeEEEeecCCcccccccccccccCccccccccCCCCceEEEEEEEeccCCCCCceEEEEEEE
Q 002842 514 STRAAGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHETFKNDAALSIQMPSVEETQSFAVSMENKRDIESNHVFFQFAIR 593 (874)
Q Consensus 514 ~~~~~g~~a~l~VR~S~glkV~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~s~~~~~~~~~~~~~~~~~IQfal~ 593 (874)
++|++||+|+||||||+|+++..+|| +|..++.+.+.++++++|++++|++++++.+.....+||.|++
T Consensus 530 Ltr~~~feaVmRiR~S~gl~~~~f~G-----------nFF~RStDLla~~~v~~D~sy~~qisiEesl~~~~~~fQvAlL 598 (887)
T KOG1985|consen 530 LTRKIGFEAVMRIRCSTGLRMSSFFG-----------NFFVRSTDLLALPNVNPDQSYAFQISIEESLTTGFCVFQVALL 598 (887)
T ss_pred hhhhhhhheeEEeeccccccccceec-----------ccccCcHHHhcccCCCCCccceEEEEeehhcCCceeEEEeeee
Confidence 99999999999999999999999999 4777777899999999999999999999999888999999999
Q ss_pred EEecCCCEEEEEEeeeeccccchHHHHhhcCHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHhcccCCC---
Q 002842 594 YSNVYQADISRVVTVRLPTVDSVSAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIALKFGSQVPK--- 670 (874)
Q Consensus 594 Yt~~~G~rriRV~T~~l~vt~~~~~i~~s~D~ea~~~l~ak~av~~~~~~~~~~d~r~~Ld~~li~ll~~y~~~~~~--- 670 (874)
||...|||||||||+++|++.++.++|+++|++|++.+++++|+.++++ ..+.|+|..|.+.+++++..|++....
T Consensus 599 yT~~~GERRIRV~T~~lpt~~sl~evY~saD~~AI~~lla~~Av~ksl~-ssL~dardal~~~~~D~l~aYk~~~~~~~~ 677 (887)
T KOG1985|consen 599 YTLSKGERRIRVHTLCLPTVSSLNEVYASADQEAIASLLAKKAVEKSLS-SSLSDARDALTNAVVDILNAYKKLVSNQNG 677 (887)
T ss_pred ecccCCceeEEEEEeeccccccHHHHHhhcCHHHHHHHHHHHHHHHHHH-hhhhhHHHHHHHHHHHHHHHHHHHhccccc
Confidence 9999999999999999999999999999999999999999999999998 589999999999999999999876432
Q ss_pred -CCccccchhhhHHHHHHHHhccCcCCCCC-CCCchHHHHHHHHHhccCHHHHHHhhccceeeeccCCC----c-----c
Q 002842 671 -SKLYRFPKELSALSELLFHLRRSPLLGNI-IGHDDERSVLRNLFLNASFDLSLRMVAPRCLMYREGGT----F-----E 739 (874)
Q Consensus 671 -~~~l~Lp~~l~llP~~~~~L~Rs~~l~~~-~~spDera~~~~~l~~~~v~~sl~miyP~L~~~~~~~~----~-----~ 739 (874)
+..+.+|.+|++||+|+++|+|++.|+.. .++.|+|+|++.++..+++...+.+|||+||++|+... . .
T Consensus 678 ~~~~l~~p~~LrllPllvlALlK~~~fr~g~~~~lD~R~~a~~~~~~lpl~~L~k~IYP~Lysl~~l~~ea~~~~~d~~~ 757 (887)
T KOG1985|consen 678 QGITLSLPASLRLLPLLVLALLKHPAFRPGTGTRLDYRAYAMCLMSTLPLKYLMKYIYPTLYSLHDLDDEAGLPIHDQTV 757 (887)
T ss_pred CCcceecCcchhhhHHHHHHHhcCCcccCCCCCCchHHHHHHHHhhcCCHHHHHhhhcccceeccccccccCcccccccc
Confidence 22499999999999999999999999854 78999999999999999999999999999999997432 1 1
Q ss_pred cCC----cccccccCCcEEEEeCCcEEEEEeCCcccccccc---------------------cHHHHHHHHHHHHHHHhc
Q 002842 740 ELP----AYDLAMQSDKAVVLDHGTDVFIWLGAELAADEGR---------------------SAAALAACRTLAEELSEF 794 (874)
Q Consensus 740 ~lP----~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~---------------------~~~~l~~~~~~~~~l~~~ 794 (874)
.+| +..+.++..|+||||+|+.+++|+|.+++++... .....++++.++++++++
T Consensus 758 ~~p~~L~ltae~l~~~GlyL~D~g~~lfl~vg~~a~P~ll~~vfg~~~~adi~~~~~~lp~~~n~~s~r~~~fI~~lR~d 837 (887)
T KOG1985|consen 758 VLPPPLNLTAELLSRRGLYLMDTGTTLFLWVGSNADPSLLFDVFGVSTLADIPIGKYTLPELDNEESDRVRRFIKKLRDD 837 (887)
T ss_pred cCCCccchHHHHhccCceEEEecCcEEEEEEcCCCCccccccccCcchHhhcccccccCcccccchhHHHHHHHHHhhcC
Confidence 122 2345689999999999999999999998765311 234568899999999999
Q ss_pred CCCCcEEEEEecCC-chHH-HHHHhhcCCCCCCcccccccccccccCChHHHhhcccccccCCCchHHHHHHhcccC
Q 002842 795 RFPAPRILAFKEGS-SQAR-YFVTRLIPAHKDPPYEQEARFPQLRSLTPEERIKLKSSFLFFDDPSFCEWMRSLKVV 869 (874)
Q Consensus 795 R~p~Pr~i~~~qg~-sqaR-fl~srL~ps~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~i~TdD~Sl~~f~~~L~~~ 869 (874)
|...|-++++|+++ +.+| +|+++|++|... + -.|+-+|.+|||+.
T Consensus 838 ~~~~p~~~ivr~~~~s~~k~~f~~~lvEDrs~------------------------~------~~SY~efLq~lk~q 884 (887)
T KOG1985|consen 838 RTYFPNLYIVRGDDNSPLKAWFFSRLVEDRSE------------------------N------SPSYYEFLQHLKAQ 884 (887)
T ss_pred CcccceEEEEecCCCchHHHHHHHHHHhhhhc------------------------C------cHHHHHHHHHHHHH
Confidence 99999999999653 3454 678999998763 1 25889999999864
No 5
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=3.2e-116 Score=998.93 Aligned_cols=654 Identities=17% Similarity=0.283 Sum_probs=576.4
Q ss_pred cccccccc-cccccCCCCCCCCCeeeeecCccCCCHhhhhcCCCceEEEeccCCCCCCC---Ccccc---CCCccCCCCC
Q 002842 130 SAELQHQV-PHAAEETMPVGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVSPS---LQIIQ---RDPHRCHNCG 202 (874)
Q Consensus 130 ~~~~~~~~-~~~~~~~~~~~~~~~vR~T~n~~P~t~~~~~~~~lPlg~l~tPl~~~~~~---~p~v~---~~p~RC~~C~ 202 (874)
.+..++.+ ++++.-+..||+++|||+|+|++|.|.++++.++||||++|+||+...++ +++++ .+|+||++|+
T Consensus 266 ~~~~PPl~TTd~~~~DqGN~sPr~mr~T~Y~iP~T~Dl~~as~iPLalvIqPfa~l~p~E~~~~vVd~g~sgPvRC~RCk 345 (1007)
T KOG1984|consen 266 RAQPPPLVTTDFFIQDQGNCSPRFMRCTMYTIPCTNDLLKASQIPLALVIQPFATLTPNEAPVPVVDLGESGPVRCNRCK 345 (1007)
T ss_pred cCCCCCCcccceEEeccCCCCcchheeecccCCccHhHHHhcCCcceeEecccccCCcccCCCceecCCCCCCcchhhhh
Confidence 35677777 88888999999999999999999999999999999999999999966542 45554 6899999999
Q ss_pred cccccceEEEcCCceEEEccCCCccCCCccccCC-----CccccCCCCCCCCCceEEEecCCC-CCCCCCCCCCCCCCcE
Q 002842 203 AFANIYCKILLGSGQWQCVICRNLNGSEGEYVAP-----SKEELRNFPELSSPMVDYVQTGNN-RSSYVPVSDSRMSAPI 276 (874)
Q Consensus 203 AylNP~~~~~~~~~~W~C~fC~~~N~~p~~Y~~~-----~~~d~~~~PEL~~~tvEy~~p~~~-r~~~~p~~~~~~~p~~ 276 (874)
||+|||++|..++++|+||||+.+|++|++|+++ .|.|+++||||+.|||||+++++| +.. +...+|.|
T Consensus 346 aYinPFmqF~~~gr~f~Cn~C~~~n~vp~~yf~~L~~~grr~D~~erpEL~~Gt~dfvatk~Y~~~~-----k~p~ppaf 420 (1007)
T KOG1984|consen 346 AYINPFMQFIDGGRKFICNFCGSKNQVPDDYFNHLGPTGRRVDVEERPELCLGTVDFVATKDYCRKT-----KPPKPPAF 420 (1007)
T ss_pred hhcCcceEEecCCceEEecCCCccccCChhhcccCCCcccccccccCchhcccccceeeehhhhhcC-----CCCCCceE
Confidence 9999999999999999999999999999999875 578999999999999999999998 322 12367889
Q ss_pred EEEEECCCC---hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECceEEEEecCCCC-cceeccccCCCCCCHHHHHHHh
Q 002842 277 ILVIDECLD---EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSVYDFSEDS-IASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 277 vFvID~s~~---~~~l~~l~~sL~~~L~~Lp---~~a~VGlITFd~~V~vy~l~~~~-~~~~~V~~g~~~~~~~~l~~~l 349 (874)
||+||||++ .+.+.++++.|++.|+.|| ++.+|||||||++|||||++..+ ...+.|+++. ++++
T Consensus 421 vFmIDVSy~Ai~~G~~~a~ce~ik~~l~~lp~~~p~~~Vgivtfd~tvhFfnl~s~L~qp~mliVsdv--------~dvf 492 (1007)
T KOG1984|consen 421 VFMIDVSYNAISNGAVKAACEAIKSVLEDLPREEPNIRVGIVTFDKTVHFFNLSSNLAQPQMLIVSDV--------DDVF 492 (1007)
T ss_pred EEEEEeehhhhhcchHHHHHHHHHHHHhhcCccCCceEEEEEEecceeEeeccCccccCceEEEeecc--------cccc
Confidence 999999986 5789999999999999988 48999999999999999999754 2455665432 2221
Q ss_pred --hcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecC
Q 002842 350 --YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGG 427 (874)
Q Consensus 350 --~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sG 427 (874)
...+ ++++..||+..|+.+|++|+.++... +..+.|+|+||++|..+|+.+ .|||+++|++.
T Consensus 493 vPf~~g-~~V~~~es~~~i~~lLd~Ip~mf~~s--k~pes~~g~alqaa~lalk~~-------------~gGKl~vF~s~ 556 (1007)
T KOG1984|consen 493 VPFLDG-LFVNPNESRKVIELLLDSIPTMFQDS--KIPESVFGSALQAAKLALKAA-------------DGGKLFVFHSV 556 (1007)
T ss_pred cccccC-eeccchHHHHHHHHHHHHhhhhhccC--CCCchhHHHHHHHHHHHHhcc-------------CCceEEEEecc
Confidence 1233 45667899999999999999998653 345699999999999999974 28999999999
Q ss_pred CCCCCCC-cccCCCCCCCchh-hhH----hHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCC
Q 002842 428 PNTYGPG-SVPHSFSHPNYLH-MEK----MALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDD 501 (874)
Q Consensus 428 ppT~GpG-~l~~~~~~~~~~~-~ek----~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~ 501 (874)
.||.|-| ++..++++....+ .|| ++.++|++||++|++.|+|||||++...+||+|+++.+++.|||.+|+|..
T Consensus 557 Lpt~g~g~kl~~r~D~~l~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~vy~Y~~ 636 (1007)
T KOG1984|consen 557 LPTAGAGGKLSNRDDRRLIGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQVYKYYP 636 (1007)
T ss_pred cccccCcccccccchhhhhcccchhhccCcchhHHHHHHHHHHHhCceEEEEEcccceeeeeeecccccccCceeEEecc
Confidence 9999977 9988877765554 344 689999999999999999999999999999999999999999999999999
Q ss_pred hhh-----HHHHHHHHHHhhccCcceEEEEEeCCCeeEEEeecCCcccccccccccccCccccccccCCCCceEEEEEEE
Q 002842 502 FGE-----AFGVNLQRASTRAAGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHETFKNDAALSIQMPSVEETQSFAVSME 576 (874)
Q Consensus 502 F~~-----~f~~dl~r~~~~~~g~~a~l~VR~S~glkV~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~s~~~~~~ 576 (874)
|.. +|.+||.|.+++..||+|+||||||+||++.+++| +|..++..+++++.+|.|+++.++|+
T Consensus 637 F~a~~D~~rl~nDL~~~vtk~~gf~a~mrvRtStGirv~~f~G-----------nf~~~~~tDiela~lD~dkt~~v~fk 705 (1007)
T KOG1984|consen 637 FQALTDGPRLLNDLVRNVTKKQGFDAVMRVRTSTGIRVQDFYG-----------NFLMRNPTDIELAALDCDKTLTVEFK 705 (1007)
T ss_pred hhhcccHHHHHHHHHHhcccceeeeeEEEEeecCceeeeeeec-----------hhhhcCCCCccccccccCceeEEEEe
Confidence 952 69999999999999999999999999999999999 46666778999999999999999999
Q ss_pred eccCCCC-CceEEEEEEEEEecCCCEEEEEEeeeeccccchHHHHhhcCHHHHHHHHHHHHHHHhhccCCHHHHHHHHHH
Q 002842 577 NKRDIES-NHVFFQFAIRYSNVYQADISRVVTVRLPTVDSVSAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMRTMIDE 655 (874)
Q Consensus 577 ~~~~~~~-~~~~IQfal~Yt~~~G~rriRV~T~~l~vt~~~~~i~~s~D~ea~~~l~ak~av~~~~~~~~~~d~r~~Ld~ 655 (874)
||+++++ ..++||+|++||+.+|+||+||+|+++++++++.++|+++|+|+++++|+|.|+..+.. +.++++|+.|++
T Consensus 706 hDdkLq~~s~~~fQ~AlLYTti~G~RR~Rv~Nlsl~~ts~l~~lyr~~~~d~l~a~maK~a~~~i~~-~~lk~vre~l~~ 784 (1007)
T KOG1984|consen 706 HDDKLQDGSDVHFQTALLYTTIDGQRRLRVLNLSLAVTSQLSELYRSADTDPLIAIMAKQAAKAILD-KPLKEVREQLVS 784 (1007)
T ss_pred ccccccCCcceeEEEEEEEeccCCceeEEEEecchhhhhhHHHHHHhcCccHHHHHHHHHHHHhccc-ccHHHHHHHHHH
Confidence 9999975 67999999999999999999999999999999999999999999999999999877776 699999999999
Q ss_pred HHHHHHHHhcccCCC---CCccccchhhhHHHHHHHHhccCcCCCCCCCCchHHHHHHHHHhccCHHHHHHhhccceeee
Q 002842 656 RVKDIALKFGSQVPK---SKLYRFPKELSALSELLFHLRRSPLLGNIIGHDDERSVLRNLFLNASFDLSLRMVAPRCLMY 732 (874)
Q Consensus 656 ~li~ll~~y~~~~~~---~~~l~Lp~~l~llP~~~~~L~Rs~~l~~~~~spDera~~~~~l~~~~v~~sl~miyP~L~~~ 732 (874)
+|+++|+.||+.|++ ++||+|||+||+||+||.+|+||..|+...++.|+|+|.+.++.++++++.+.++||+|+++
T Consensus 785 ~~~~iL~~YRk~cas~~ssgQLILPeslKLlPly~la~lKs~~l~~~~~~~DdRi~~~~~v~sl~v~~~~~~~YPrl~p~ 864 (1007)
T KOG1984|consen 785 QCAQILASYRKNCASPASSGQLILPESLKLLPLYMLALLKSSALRPQEIRTDDRIYQLQLVTSLSVEQLMPFFYPRLLPF 864 (1007)
T ss_pred HHHHHHHHHHHhhcCCCCcccEechhhhHHHHHHHHHHHHhhcccccccccchhHHHHHHhhcccHHhhhhhhccceeee
Confidence 999999999999875 67899999999999999999999999988889999999999999999999999999999999
Q ss_pred ccCC---C--cc-c--CCcccccccCCcEEEEeCCcEEEEEeCCccccccc---------------------ccHHHHHH
Q 002842 733 REGG---T--FE-E--LPAYDLAMQSDKAVVLDHGTDVFIWLGAELAADEG---------------------RSAAALAA 783 (874)
Q Consensus 733 ~~~~---~--~~-~--lP~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~---------------------~~~~~l~~ 783 (874)
|+.. + ++ + ++++.+.|..++|||||+|.++|||+|+.+++... ++..+.++
T Consensus 865 hdl~i~dtl~~~~p~~VraS~e~l~negiYll~nG~~~ylwvg~sv~~~llQ~lf~V~s~~~i~s~~~~Lpe~dn~lS~k 944 (1007)
T KOG1984|consen 865 HDLDIEDTLEFVLPKAVRASSEFLSNEGIYLLDNGQKIYLWVGESVDPDLLQDLFSVSSFEQIDSQSGVLPELDNPLSRK 944 (1007)
T ss_pred eccccccccccccccceecchhhccCCceEEEecCcEEEEEecCCCCHHHHHHHhcCccccccccccccccccCcHHHHH
Confidence 9732 2 11 1 22345679999999999999999999999975431 23467789
Q ss_pred HHHHHHHHHhcCCCCcEEEEEecCCchH-HHHHHhhcCCCCC
Q 002842 784 CRTLAEELSEFRFPAPRILAFKEGSSQA-RYFVTRLIPAHKD 824 (874)
Q Consensus 784 ~~~~~~~l~~~R~p~Pr~i~~~qg~sqa-Rfl~srL~ps~~~ 824 (874)
+++.+..|.+.|...-+++++++|..+. -+|.+.|+++++.
T Consensus 945 ~r~~i~~i~~~r~~~l~v~~~k~g~~~~~~~~~~~lved~~~ 986 (1007)
T KOG1984|consen 945 VRNVISLIRRQRSSELPVVLVKQGLDGSEVEFSEYLVEDRGR 986 (1007)
T ss_pred HHHHHHHHHhccccccccEEEecCCCchhhhhhhhhhccccc
Confidence 9999999999999988899999997766 7888889998763
No 6
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=100.00 E-value=5.8e-103 Score=883.48 Aligned_cols=650 Identities=18% Similarity=0.296 Sum_probs=561.8
Q ss_pred ccccccccccCCCCCCCCCeeeeecCccCCCHhhhhcCCCceEEEeccCCCCCCCC--cccc--CCCccCCCCCcccccc
Q 002842 133 LQHQVPHAAEETMPVGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVSPSL--QIIQ--RDPHRCHNCGAFANIY 208 (874)
Q Consensus 133 ~~~~~~~~~~~~~~~~~~~~vR~T~n~~P~t~~~~~~~~lPlg~l~tPl~~~~~~~--p~v~--~~p~RC~~C~AylNP~ 208 (874)
..+....++-....||+++|||+|+|++|.+.++.++++||||++|+|+.+..++. +.+. ..|+||++||+|+|||
T Consensus 133 ~ppltt~~~~~e~~n~~p~yvrsT~yaiP~t~dl~~~skiPfgLVI~Pf~~l~~e~~~vpl~~d~~ivRCrrCrsYiNPf 212 (861)
T COG5028 133 VPPLTTNFVGSEQSNCSPKYVRSTMYAIPETNDLLKKSKIPFGLVIRPFLELYPEEDPVPLVEDGSIVRCRRCRSYINPF 212 (861)
T ss_pred CCCcccceeeeccCCCCHHHHHHHHhhCCCchhHHHhcCCCceEEeehhhhcCccCCCCccCCCCcchhhhhhHhhcCce
Confidence 34444566666889999999999999999999999999999999999998876532 2233 3489999999999999
Q ss_pred eEEEcCCceEEEccCCCccCCCccccCC-----CccccCCCCCCCCCceEEEecCCCCCCCCCCCCCCCCCcEEEEEECC
Q 002842 209 CKILLGSGQWQCVICRNLNGSEGEYVAP-----SKEELRNFPELSSPMVDYVQTGNNRSSYVPVSDSRMSAPIILVIDEC 283 (874)
Q Consensus 209 ~~~~~~~~~W~C~fC~~~N~~p~~Y~~~-----~~~d~~~~PEL~~~tvEy~~p~~~r~~~~p~~~~~~~p~~vFvID~s 283 (874)
.+|.++|++|+||+|+..|++|..++.. .+.|+++|+||.+++|||++|++|+-.. ..++.|||+||+|
T Consensus 213 v~fi~~g~kw~CNiC~~kN~vp~~~~~~~~~~~~r~d~~~r~El~~~vvdf~ap~~Y~~~~------p~P~~yvFlIDVS 286 (861)
T COG5028 213 VQFIEQGRKWRCNICRSKNDVPEGFDNPSGPNDPRSDRYSRPELKSGVVDFLAPKEYSLRQ------PPPPVYVFLIDVS 286 (861)
T ss_pred EEEecCCcEEEEeeccccccCcccccCcCCCCCccccccccchhhceeeEEecccceeecc------CCCCEEEEEEEee
Confidence 9999999999999999999999888742 3567889999999999999999985321 1356689999999
Q ss_pred CC---hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhhcCCcccc
Q 002842 284 LD---EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYGTGVYLS 357 (874)
Q Consensus 284 ~~---~~~l~~l~~sL~~~L~~Lp---~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~~~~fL~ 357 (874)
.+ .+.+.++.++|+..|+.+| ++++|+||.||+.||+++++.+.-..+.+..+..++- ++...+.||.
T Consensus 287 ~~a~~~g~~~a~~r~Il~~l~~~~~~dpr~kIaii~fD~sl~ffk~s~d~~~~~~~vsdld~pF------lPf~s~~fv~ 360 (861)
T COG5028 287 FEAIKNGLVKAAIRAILENLDQIPNFDPRTKIAIICFDSSLHFFKLSPDLDEQMLIVSDLDEPF------LPFPSGLFVL 360 (861)
T ss_pred hHhhhcchHHHHHHHHHhhccCCCCCCCcceEEEEEEcceeeEEecCCCCccceeeeccccccc------ccCCcchhcc
Confidence 85 5788999999999999885 6999999999999999999865411233333322220 2234567999
Q ss_pred chhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCCCccc
Q 002842 358 PMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVP 437 (874)
Q Consensus 358 pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~GpG~l~ 437 (874)
|+.+|+..++.+|+.++.++... .....|+|.||++|..|+++ +||||++|.+..||.|-|+|.
T Consensus 361 pl~~~k~~~etLl~~~~~If~d~--~~pk~~~G~aLk~a~~l~g~--------------~GGkii~~~stlPn~G~Gkl~ 424 (861)
T COG5028 361 PLKSCKQIIETLLDRVPRIFQDN--KSPKNALGPALKAAKSLIGG--------------TGGKIIVFLSTLPNMGIGKLQ 424 (861)
T ss_pred cHHHHHHHHHHHHHHhhhhhccc--CCCccccCHHHHHHHHHhhc--------------cCceEEEEeecCCCccccccc
Confidence 99999999999999999887552 34559999999999999986 589999999999999999999
Q ss_pred CCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChhh-------HHHHHH
Q 002842 438 HSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE-------AFGVNL 510 (874)
Q Consensus 438 ~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~~-------~f~~dl 510 (874)
.|+++... .+ +...+|||++|.+|.+.||+||+|.++.+++|+++++.|++.|||.+++|+.|+. +|.+||
T Consensus 425 ~r~d~e~~-ll-~c~d~fYk~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~~Yp~f~~~~~~d~~kl~~dL 502 (861)
T COG5028 425 LREDKESS-LL-SCKDSFYKEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTYFYPNFSATRPNDATKLANDL 502 (861)
T ss_pred ccccchhh-hc-cccchHHHHHHHHHHHhcceEEEEeccccccchhhhcchhhccCcceEEcCCcccCCchhHHHHHHHH
Confidence 98775443 33 6778999999999999999999999999999999999999999999999999952 589999
Q ss_pred HHHHhhccCcceEEEEEeCCCeeEEEeecCCcccccccccccccCccccccccCCCCceEEEEEEEeccCCCCCceEEEE
Q 002842 511 QRASTRAAGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHETFKNDAALSIQMPSVEETQSFAVSMENKRDIESNHVFFQF 590 (874)
Q Consensus 511 ~r~~~~~~g~~a~l~VR~S~glkV~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~s~~~~~~~~~~~~~~~~~IQf 590 (874)
.+.++++.||+++||||||+|++++++||+ |.+++.....++.+++|+|+.|+|++++++....+|||.
T Consensus 503 ~~~ls~~~gy~~~~rvR~S~glr~s~fyGn-----------f~~rs~dl~~F~tm~rd~Sl~~~~sid~~l~~~~v~fQv 571 (861)
T COG5028 503 VSHLSMEIGYEAVMRVRCSTGLRVSSFYGN-----------FFNRSSDLCAFSTMPRDTSLLVEFSIDEKLMTSDVYFQV 571 (861)
T ss_pred HHhhhhhhhhheeeEeeccCceehhhhhcc-----------ccccCcccccccccCCCceEEEEEEecccccCCceEEEE
Confidence 999999999999999999999999999994 666667889999999999999999999999889999999
Q ss_pred EEEEEecCCCEEEEEEeeeeccccchHHHHhhcCHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHhcccCCC
Q 002842 591 AIRYSNVYQADISRVVTVRLPTVDSVSAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIALKFGSQVPK 670 (874)
Q Consensus 591 al~Yt~~~G~rriRV~T~~l~vt~~~~~i~~s~D~ea~~~l~ak~av~~~~~~~~~~d~r~~Ld~~li~ll~~y~~~~~~ 670 (874)
|++||..+|+|||||.|+++++++++.++|+++||+|++.+|||+|+.++.+ ..+.++|+.|++.+++||..||+.+.+
T Consensus 572 AlL~T~~~GeRRiRVvn~s~~~ss~~~evyasadq~aIa~~lak~a~~~~~~-~s~~~~r~~i~~s~~~IL~~Ykk~~~~ 650 (861)
T COG5028 572 ALLYTLNDGERRIRVVNLSLPTSSSIREVYASADQLAIACILAKKASTKALN-SSLKEARVLINKSMVDILKAYKKELVK 650 (861)
T ss_pred EEEeeccCCceEEEEEEeccccchhHHHHHHhccHHHHHHHHHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999999999999999999999999999999999999987 589999999999999999999986543
Q ss_pred ---CCccccchhhhHHHHHHHHhccCcCCCCCCCCchHHHHHHHHHhccCHHHHHHhhccceeeeccCCCccc-------
Q 002842 671 ---SKLYRFPKELSALSELLFHLRRSPLLGNIIGHDDERSVLRNLFLNASFDLSLRMVAPRCLMYREGGTFEE------- 740 (874)
Q Consensus 671 ---~~~l~Lp~~l~llP~~~~~L~Rs~~l~~~~~spDera~~~~~l~~~~v~~sl~miyP~L~~~~~~~~~~~------- 740 (874)
++|+.||++|++||.+|++|.||..|+..-++.|+|++....+.++++.+.++.|||+||++|+...-..
T Consensus 651 snt~tql~Lp~nL~lLPll~lal~Ks~~~rs~~~~sD~r~~~L~~l~~~p~~~l~~~iYP~lyalHdm~~e~~l~~~~~~ 730 (861)
T COG5028 651 SNTSTQLPLPANLKLLPLLMLALLKSSAFRSGSTPSDIRISALNRLTSLPLKQLMRNIYPTLYALHDMPIEAGLPDEGLL 730 (861)
T ss_pred ccCCccccchhhhHHHHHHHHHHhhhcccccCCCccchhHHHHHHhhcCCHHHHHHhhccceeeecccccccCCCccccc
Confidence 5679999999999999999999999997777899999999999999999999999999999996421111
Q ss_pred ---CCc--ccccccCCcEEEEeCCcEEEEEeCCcccccccc---------------------cHHHHHHHHHHHHHHHh-
Q 002842 741 ---LPA--YDLAMQSDKAVVLDHGTDVFIWLGAELAADEGR---------------------SAAALAACRTLAEELSE- 793 (874)
Q Consensus 741 ---lP~--~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~---------------------~~~~l~~~~~~~~~l~~- 793 (874)
.|. ....+.++|+||+|+|.++|+|+|+++.+.... ..++.+++++++.+++.
T Consensus 731 ~~~~piNaT~s~le~~GlYLidtg~~iflw~g~d~~p~Ll~dlf~~~~~~~I~~~k~~~p~~~n~~n~~v~~iI~~lrs~ 810 (861)
T COG5028 731 VLPSPINATSSLLESGGLYLIDTGQKIFLWFGKDAVPSLLQDLFGVDSLSDIPSGKFTLPPTGNEFNERVRNIIGELRSV 810 (861)
T ss_pred ccccchhhhHHHHhcCCeEEEEcCCEEEEEecCCCCHHHHHHhcCcchhhhccccccccCCcCCHHHHHHHHHHHHHHhh
Confidence 122 224589999999999999999999998764211 12678899999999998
Q ss_pred cCCCCcEEEEEecCCchH--HHHHHhhcCCCCC
Q 002842 794 FRFPAPRILAFKEGSSQA--RYFVTRLIPAHKD 824 (874)
Q Consensus 794 ~R~p~Pr~i~~~qg~sqa--Rfl~srL~ps~~~ 824 (874)
.+...+.++.+|+|+.+. -+|.+.|+|+++.
T Consensus 811 ~~~~tl~lvlVR~~~d~s~~~~~~s~lVEDk~~ 843 (861)
T COG5028 811 NDDSTLPLVLVRGGGDPSLRLWFFSTLVEDKTL 843 (861)
T ss_pred CCCCccceEEEecCCCcchhhheehheeccccc
Confidence 787777799999997765 4778899998875
No 7
>PTZ00395 Sec24-related protein; Provisional
Probab=100.00 E-value=7.9e-102 Score=915.45 Aligned_cols=677 Identities=15% Similarity=0.188 Sum_probs=554.0
Q ss_pred cCCcccccccc-cccccCCCCCCCCCeeeeecCccCCCHhhhhcCCCceEEEeccCCCCCCC--Cccc-----------c
Q 002842 127 SNGSAELQHQV-PHAAEETMPVGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVSPS--LQII-----------Q 192 (874)
Q Consensus 127 ~~~~~~~~~~~-~~~~~~~~~~~~~~~vR~T~n~~P~t~~~~~~~~lPlg~l~tPl~~~~~~--~p~v-----------~ 192 (874)
-++....++.+ .+++..+..+|+|.|||.|++.+|.+.++++.+.||||++++||+...+. ++.+ +
T Consensus 628 ~t~k~~~pp~~~~~~~~~dtgn~dP~~~r~tmY~iP~~~~~~~~~~iP~gi~v~Pfa~~~~~e~~~~~~~~~~~~d~~~~ 707 (1560)
T PTZ00395 628 ETCKYISPPSYYQPYISIDTGKADPRFLKSTLYQIPLFSETLKLSQIPFGIIVNPFACLNEGEGIDKIDMKDIINDKEEN 707 (1560)
T ss_pred hhccCCCCCCCCCceEEeecCCCChhhhhhhhhcCcchHHHHHhcCCCceeecchhhhcCCCCCCcccchhhcccchhhc
Confidence 34455555555 55777889999999999999999999999999999999999999986543 3332 2
Q ss_pred CCCccCCCCCcccccceEEEcCCceEEEccCCCccCCCcc-----ccCC-----CccccCCC----CCCCCCceEEEecC
Q 002842 193 RDPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGE-----YVAP-----SKEELRNF----PELSSPMVDYVQTG 258 (874)
Q Consensus 193 ~~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p~~-----Y~~~-----~~~d~~~~----PEL~~~tvEy~~p~ 258 (874)
++|+||.+|++|+|+++.++.. +.++|+||...+.+... |+.. ..+|.+++ --|..|+||+++|.
T Consensus 708 ~~~~rc~~c~~y~~~~~~~~~~-~~~~c~~c~~~~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 786 (1560)
T PTZ00395 708 IEILRCPKCLGYLHATILEDIS-SSVQCVFCDTDFLINENVLFDIFQYNEKIGHKESDHNEHGNSLSPLLKGSVDIIIPP 786 (1560)
T ss_pred cceeecchhHhhhcchheeccc-ceEEEEecCCcchhhHHHHHHHHHHhhhhccccccccccccccchhhcCceeEEccc
Confidence 5899999999999999999965 99999999999987432 2111 12232222 13567889888775
Q ss_pred CC-C--C-------------------------------------------------------------------------
Q 002842 259 NN-R--S------------------------------------------------------------------------- 262 (874)
Q Consensus 259 ~~-r--~------------------------------------------------------------------------- 262 (874)
-| . +
T Consensus 787 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 866 (1560)
T PTZ00395 787 IYYHNVNKFKLTYTYLNKNINQTAFMITNKIMSFTKHISNSLVANDSKGGNKATSASAFGDSGDANFLAGGGYTNYGGAG 866 (1560)
T ss_pred hhhccCCccceeeehhhcchhhhhhhhhhhhhhhhhhhcchheecccccccccchhhhcccccccccccccccccccccc
Confidence 32 0 0
Q ss_pred ---------CCC-----------CC-------------------------------------------------------
Q 002842 263 ---------SYV-----------PV------------------------------------------------------- 267 (874)
Q Consensus 263 ---------~~~-----------p~------------------------------------------------------- 267 (874)
++. .+
T Consensus 867 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 946 (1560)
T PTZ00395 867 GYNTYDNQSGYNNHDVVNNRGGSGAGNHLYGKDHDVQNFDNVMDNANFTIHDMKNLICEKNGEPDSAKIRRNSFLAKYPQ 946 (1560)
T ss_pred cccccccccccccccccccccccCcCcccccCcccccchhhhccCCceeeecchhhhhcccCCchhhhhhccchhhcccc
Confidence 000 00
Q ss_pred CCCCCCCcEEEEEECCCC---hhHHHHHHHHHHHhhhcCC-CCcEEEEEEECceEEEEecCCC--------------Ccc
Q 002842 268 SDSRMSAPIILVIDECLD---EPHLQHLQSSLHAFVESIP-PTARIGIILYGRTVSVYDFSED--------------SIA 329 (874)
Q Consensus 268 ~~~~~~p~~vFvID~s~~---~~~l~~l~~sL~~~L~~Lp-~~a~VGlITFd~~V~vy~l~~~--------------~~~ 329 (874)
.+..++|.||||||||.. .|.+++++++|+.+|+.|+ ++++|||||||+.||||+|+.+ ..+
T Consensus 947 ~~~p~PP~YvFLIDVS~~AVkSGLl~tacesIK~sLDsL~dpRTRVGIITFDSsLHFYNLks~l~~~~~~~~~~~~l~qP 1026 (1560)
T PTZ00395 947 VKNMLPPYFVFVVECSYNAIYNNITYTILEGIRYAVQNVKCPQTKIAIITFNSSIYFYHCKGGKGVSGEEGDGGGGSGNH 1026 (1560)
T ss_pred ccCCCCCEEEEEEECCHHHHhhChHHHHHHHHHHHHhcCCCCCcEEEEEEecCcEEEEecCcccccccccccccccCCCc
Confidence 011245778999999974 6899999999999999996 6899999999999999999753 124
Q ss_pred eeccccCC---CCCCHHHHHHHhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCcc
Q 002842 330 SSDVLAGD---KLPTEDSLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAE 406 (874)
Q Consensus 330 ~~~V~~g~---~~~~~~~l~~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~ 406 (874)
++.|++|. +.|.+ ...+|+++.|+++.|+++|+.|+.++... .....|+|+||++|..+|+.
T Consensus 1027 QMLVVSDLDDPFLPlP---------~ddLLVnL~ESRevIe~LLDkLPemFt~t--~~~esCLGSALqAA~~aLk~---- 1091 (1560)
T PTZ00395 1027 QVIVMSDVDDPFLPLP---------LEDLFFGCVEEIDKINTLIDTIKSVSTTM--QSYGSCGNSALKIAMDMLKE---- 1091 (1560)
T ss_pred eEEeecCCccCcCCCC---------ccCeeechHHHHHHHHHHHHHHHHHhhcc--CCCcccHHHHHHHHHHHHHh----
Confidence 55565533 22322 12357888999999999999999876542 23469999999999999987
Q ss_pred ccccccccCCCCcEEEEEecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCC--ccc
Q 002842 407 MSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVR--VPV 484 (874)
Q Consensus 407 ~~~~~~~~~~~ggrIi~F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vg--lae 484 (874)
.|+||||++|+++.|++|||+|+.++........+.++.+||++||.+|++++|+||+|+++..++| |++
T Consensus 1092 --------~GGGGKIiVF~SSLPniGpGaLK~Re~~~KEk~Ll~pqd~FYK~LA~ECsk~qISVDLFLfSsqYvDVDVAT 1163 (1560)
T PTZ00395 1092 --------RNGLGSICMFYTTTPNCGIGAIKELKKDLQENFLEVKQKIFYDSLLLDLYAFNISVDIFIISSNNVRVCVPS 1163 (1560)
T ss_pred --------cCCCceEEEEEcCCCCCCCCcccccccccccccccccchHHHHHHHHHHHhcCCceEEEEccCccccccccc
Confidence 3457999999999999999999865422211223357889999999999999999999999988876 799
Q ss_pred chhhhcccccEEEEcCChh-----hHHHHHHHHHHhh-ccCcceEEEEEeCCCeeEEEeecCCcccccccccccc-cCcc
Q 002842 485 LQPLAKASGGVLVLHDDFG-----EAFGVNLQRASTR-AAGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHETFK-NDAA 557 (874)
Q Consensus 485 m~~l~~~TGG~v~~~~~F~-----~~f~~dl~r~~~~-~~g~~a~l~VR~S~glkV~~~~G~~~~~~~~~~~~~~-~~~~ 557 (874)
|+.|++.|||.+++|+.|+ .+|..+|.+.+++ ++||+|+||||||+||+|+.++|++. +|. ..+.
T Consensus 1164 Lg~Lsr~TGGqlyyYPnFna~rD~~KL~~DL~r~LTre~iGyEAVMRVRCS~GLrVs~fyG~Gn--------nF~s~rSt 1235 (1560)
T PTZ00395 1164 LQYVAQNTGGKILFVENFLWQKDYKEIYMNIMDTLTSEDIAYCCELKLRYSHHMSVKKLFCCNN--------NFNSIISV 1235 (1560)
T ss_pred ccchhcccceeEEEeCCCcccccHHHHHHHHHHHhhccceeeEEEEEEECCCCeEEEEEeccCC--------cccccccc
Confidence 9999999999999999995 3688999999997 69999999999999999999996411 231 1234
Q ss_pred ccccccCCCCceEEEEEEEeccCCC-CCceEEEEEEEEEecCCCEEEEEEeeeeccccchHHHHhhcCHHHHHHHHHHHH
Q 002842 558 LSIQMPSVEETQSFAVSMENKRDIE-SNHVFFQFAIRYSNVYQADISRVVTVRLPTVDSVSAYLSSFQDEVAAVLIAKRT 636 (874)
Q Consensus 558 ~~~~~~~v~~~~s~~~~~~~~~~~~-~~~~~IQfal~Yt~~~G~rriRV~T~~l~vt~~~~~i~~s~D~ea~~~l~ak~a 636 (874)
+++.++.+++|++|+|+|++++.+. ...+|||+|++||+.+|+|||||||+++||++++.+||+++|++|++.+|+|+|
T Consensus 1236 DLLaLP~Id~DqSfaVeLk~DEkL~~~~~AYFQaALLYTSssGERRIRVHTLALPVTSsLseVFrsADqdAIvslLAK~A 1315 (1560)
T PTZ00395 1236 DTIKIPKIRHDQTFAFLLNYSDISESKKQIYFQCACIYTNLWGDRFVRLHTTHMNLTSSLSTVFRYTDAEALMNILIKQL 1315 (1560)
T ss_pred ccccccccCCCceEEEEEEeccccCCCCcEEEEEEEeeccCCCcEEEEEEeeeecccCCHHHHHHhhcHHHHHHHHHHHH
Confidence 6789999999999999999999986 578999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccCCHHHHHHHHHHHHHHHHHHhcccCCC---CCccccchhhhHHHHHHHHhccCcCCCCCCCCchHHHHHHHHH
Q 002842 637 LLRAKIFSEAIDMRTMIDERVKDIALKFGSQVPK---SKLYRFPKELSALSELLFHLRRSPLLGNIIGHDDERSVLRNLF 713 (874)
Q Consensus 637 v~~~~~~~~~~d~r~~Ld~~li~ll~~y~~~~~~---~~~l~Lp~~l~llP~~~~~L~Rs~~l~~~~~spDera~~~~~l 713 (874)
+.++.+. .++|+.|.++|++++..||+.|+. .+||+||++||+||+||++|+||.+|+. .+++|+|+|.++.+
T Consensus 1316 V~~aLss---sdARe~L~dklVdILtaYRK~CAsssssgQLILPESLKLLPLYILSLLKS~AfRt-~I~sDeRVyaL~rL 1391 (1560)
T PTZ00395 1316 CTNILHN---DNYSKIIIDNLAAILFSYRINCASSAHSGQLILPDTLKLLPLFTSSLLKHNVTKK-EILHDLKVYSLIKL 1391 (1560)
T ss_pred HHHhccc---HHHHHHHHHHHHHHHHHHHHHhhccCCCccccchhHHHHHHHHHHHHhccccccC-CCCccHHHHHHHHH
Confidence 9999873 499999999999999999988753 5679999999999999999999999974 57899999999999
Q ss_pred hccCHHHHHHhhccceeeeccCCC-----------cccCCc----ccccccCCcEEEEeCCcEEEEEeCCcccccccc--
Q 002842 714 LNASFDLSLRMVAPRCLMYREGGT-----------FEELPA----YDLAMQSDKAVVLDHGTDVFIWLGAELAADEGR-- 776 (874)
Q Consensus 714 ~~~~v~~sl~miyP~L~~~~~~~~-----------~~~lP~----~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~-- 776 (874)
+++++..++.+|||+||++|+... ...+|. +.+.|.++||||||+|..+|||+|++++++..+
T Consensus 1392 ~SmPI~~Li~yLYPRLYpLHdL~~e~e~d~~d~d~~ivLPp~LrLS~ErLesdGIYLLDNGe~IyLWVG~~V~PqLLqDL 1471 (1560)
T PTZ00395 1392 LSMPIISSLLYVYPVMYVIHIKGKTNEIDSMDVDDDLFIPKTIPSSAEKIYSNGIYLLDACTHFYLYFGFHSDANFAKEI 1471 (1560)
T ss_pred hCCCHHHHHhhhcCceEEcccccccccCCccCCCCccccCCcccchHHHhcCCcEEEEECCCEEEEEECCCCCHHHHHHH
Confidence 999999999999999999997310 001333 345699999999999999999999999875421
Q ss_pred ----------------cHHHHHHHHHHHHHHHhcC--CCCcEEEEEecCCchHHHHHHhhcCCCCCCccccccccccccc
Q 002842 777 ----------------SAAALAACRTLAEELSEFR--FPAPRILAFKEGSSQARYFVTRLIPAHKDPPYEQEARFPQLRS 838 (874)
Q Consensus 777 ----------------~~~~l~~~~~~~~~l~~~R--~p~Pr~i~~~qg~sqaRfl~srL~ps~~~~~~~q~~~~~~~~~ 838 (874)
..++.++++++++.|++.| .++.+++++++++..+-+|++.|+||...
T Consensus 1472 FGv~~~~~~~~eLPelDT~iS~RVrnII~~LR~~r~~~~Y~pL~IVRqgDp~E~~F~s~LVEDRs~-------------- 1537 (1560)
T PTZ00395 1472 VGDIPTEKNAHELNLTDTPNAQKVQRIIKNLSRIHHFNKYVPLVMVAPKSNEEEHLISLCVEDKAD-------------- 1537 (1560)
T ss_pred cCCCccccccccccCCCCHHHHHHHHHHHHHHHhccCCCcceEEEEeCCCchHHHHHHhCeecCCC--------------
Confidence 1256789999999999876 46778899999998898999999998742
Q ss_pred CChHHHhhcccccccCCCchHHHHHHhcccC
Q 002842 839 LTPEERIKLKSSFLFFDDPSFCEWMRSLKVV 869 (874)
Q Consensus 839 ~~~~~~~~~~~~~i~TdD~Sl~~f~~~L~~~ 869 (874)
. ..|+.+|+.||++.
T Consensus 1538 ----------g------~~SYvDFLc~LHKq 1552 (1560)
T PTZ00395 1538 ----------K------EYSYVNFLCFIHKL 1552 (1560)
T ss_pred ----------C------CCCHHHHHHHHHHH
Confidence 1 37999999999864
No 8
>cd01478 Sec23-like Sec23-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 23 is very similar to Sec24. The Sec23 and Sec24
Probab=100.00 E-value=2.6e-48 Score=416.45 Aligned_cols=230 Identities=27% Similarity=0.470 Sum_probs=207.4
Q ss_pred CCCcEEEEEECCCChhHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhhc
Q 002842 272 MSAPIILVIDECLDEPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYG 351 (874)
Q Consensus 272 ~~p~~vFvID~s~~~~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~ 351 (874)
.+|.|+||||+|.++++++.+|++|+++|+.||++++|||||||++||||||+.+.+.+++||+|+++++.++++++++.
T Consensus 2 ~pp~~vFviDvs~~~~el~~l~~sl~~~L~~lP~~a~VGlITfd~~V~~~~L~~~~~~~~~vf~g~~~~~~~~~~~~l~~ 81 (267)
T cd01478 2 SPPVFLFVVDTCMDEEELDALKESLIMSLSLLPPNALVGLITFGTMVQVHELGFEECSKSYVFRGNKDYTAKQIQDMLGL 81 (267)
T ss_pred CCCEEEEEEECccCHHHHHHHHHHHHHHHHhCCCCCEEEEEEECCEEEEEEcCCCcCceeeeccCCccCCHHHHHHHhcc
Confidence 45778999999999999999999999999999999999999999999999999888999999999999999999888532
Q ss_pred -----------------------CCccccchhhhHHHHHHHHHhhcCCccccccCCCC-CchHHHHHHHHHHhcCCCccc
Q 002842 352 -----------------------TGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRD-RCLGTAVEVALAIIQGPSAEM 407 (874)
Q Consensus 352 -----------------------~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~-rc~G~AL~vA~~lL~~~~~~~ 407 (874)
.++||+|++||++.|+++|++|+++.|+...++|+ ||+|+||++|..+|+.+.+
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~p~~~~~flvpl~e~~~~i~~lLe~L~~~~~~~~~~~r~~r~~G~Al~~A~~ll~~~~~-- 159 (267)
T cd01478 82 GGPAMRPSASQHPGAGNPLPSAAASRFLLPVSQCEFTLTDLLEQLQPDPWPVPAGHRPLRCTGVALSIAVGLLEACFP-- 159 (267)
T ss_pred ccccccccccCcCCccccccccccccEEEEHHHHHHHHHHHHHhCcccccccCCCCCCCCchHHHHHHHHHHHHhhcC--
Confidence 25899999999999999999999999988777776 9999999999999997542
Q ss_pred cccccccCCCCcEEEEEecCCCCCCCCcccCCCCCC-----------CchhhhHhHHHHHHHHHHHHhhcCeEEEEeeec
Q 002842 408 SRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHP-----------NYLHMEKMALKWMELLGRKAHQHNAVIDILCAG 476 (874)
Q Consensus 408 ~~~~~~~~~~ggrIi~F~sGppT~GpG~l~~~~~~~-----------~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s 476 (874)
+.||||++|++|+||.|||+|+.++.+. +.+++ +++.+||++||.+|+++||+||+|+++
T Consensus 160 --------~~gGki~~F~sg~pT~GpG~l~~r~~~~~~r~~~d~~~~~~~~~-~~a~~fY~~la~~~~~~~vsvDlF~~s 230 (267)
T cd01478 160 --------NTGARIMLFAGGPCTVGPGAVVSTELKDPIRSHHDIDKDNAKYY-KKAVKFYDSLAKRLAANGHAVDIFAGC 230 (267)
T ss_pred --------CCCcEEEEEECCCCCCCCceeeccccccccccccccccchhhhh-hhHHHHHHHHHHHHHhCCeEEEEEecc
Confidence 2589999999999999999999765321 12334 789999999999999999999999999
Q ss_pred CCCCCcccchhhhcccccEEEEcCChhh-HHHHHHHH
Q 002842 477 NCPVRVPVLQPLAKASGGVLVLHDDFGE-AFGVNLQR 512 (874)
Q Consensus 477 ~d~vglaem~~l~~~TGG~v~~~~~F~~-~f~~dl~r 512 (874)
.+|+|++||+.|++.|||.+++|++|++ .|+++|+|
T Consensus 231 ~d~vglaem~~l~~~TGG~v~~~~~f~~~~f~~s~~~ 267 (267)
T cd01478 231 LDQVGLLEMKVLVNSTGGHVVLSDSFTTSIFKQSFQR 267 (267)
T ss_pred ccccCHHHHHHHHHhcCcEEEEeCCcchHHHHHHhcC
Confidence 9999999999999999999999999986 58888764
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=2e-40 Score=352.33 Aligned_cols=222 Identities=31% Similarity=0.465 Sum_probs=190.1
Q ss_pred CCCcEEEEEECCCC---hhHHHHHHHHHHHhhhcCC--CCcEEEEEEECceEEEEecCCCCc-ceeccccCCCCCCHHHH
Q 002842 272 MSAPIILVIDECLD---EPHLQHLQSSLHAFVESIP--PTARIGIILYGRTVSVYDFSEDSI-ASSDVLAGDKLPTEDSL 345 (874)
Q Consensus 272 ~~p~~vFvID~s~~---~~~l~~l~~sL~~~L~~Lp--~~a~VGlITFd~~V~vy~l~~~~~-~~~~V~~g~~~~~~~~l 345 (874)
++|.||||||+|.+ +++++.++++|+++|+.|| ++++|||||||++||||+++.... .++.|++|.+++..
T Consensus 2 ~pp~~vFvID~s~~ai~~~~l~~~~~sl~~~l~~lp~~~~~~igiITf~~~V~~~~~~~~~~~~~~~v~~dl~d~f~--- 78 (239)
T cd01468 2 QPPVFVFVIDVSYEAIKEGLLQALKESLLASLDLLPGDPRARVGLITYDSTVHFYNLSSDLAQPKMYVVSDLKDVFL--- 78 (239)
T ss_pred CCCEEEEEEEcchHhccccHHHHHHHHHHHHHHhCCCCCCcEEEEEEeCCeEEEEECCCCCCCCeEEEeCCCccCcC---
Confidence 46788999999997 8999999999999999999 999999999999999999987653 56778877665421
Q ss_pred HHHhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEe
Q 002842 346 KALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCA 425 (874)
Q Consensus 346 ~~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~ 425 (874)
.....||++++|+++.|.++|++|+++.+......+.||+|+||++|..+|+.. +.||||++|+
T Consensus 79 ----p~~~~~l~~~~e~~~~i~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~------------~~gGkI~~f~ 142 (239)
T cd01468 79 ----PLPDRFLVPLSECKKVIHDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLKGT------------FAGGRIIVFQ 142 (239)
T ss_pred ----CCcCceeeeHHHHHHHHHHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHhhc------------CCCceEEEEE
Confidence 113457899999999999999999998876422345599999999999999872 1489999999
Q ss_pred cCCCCCCCCcccCCCCCCCchh-----hhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcC
Q 002842 426 GGPNTYGPGSVPHSFSHPNYLH-----MEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHD 500 (874)
Q Consensus 426 sGppT~GpG~l~~~~~~~~~~~-----~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~ 500 (874)
+|+||.|||+|+.++++...++ ..+++.+||++||.+|+++||+||+|+++.+|+|+++|+.|++.|||.+++|+
T Consensus 143 sg~pt~GpG~l~~~~~~~~~~~~~e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~TGG~v~~y~ 222 (239)
T cd01468 143 GGLPTVGPGKLKSREDKEPIRSHDEAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKSTGGQVYLYD 222 (239)
T ss_pred CCCCCCCCCccccCcccccCCCccchhcccccHHHHHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcCCceEEEeC
Confidence 9999999999998876544432 23689999999999999999999999999999999999999999999999999
Q ss_pred Chh-----hHHHHHHHH
Q 002842 501 DFG-----EAFGVNLQR 512 (874)
Q Consensus 501 ~F~-----~~f~~dl~r 512 (874)
+|+ ++|.++|+|
T Consensus 223 ~f~~~~~~~~~~~~l~r 239 (239)
T cd01468 223 SFQAPNDGSKFKQDLQR 239 (239)
T ss_pred CCCCcccHHHHHHHhcC
Confidence 993 468887764
No 10
>cd01479 Sec24-like Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 24 is very similar to Sec23. The Sec23 and Sec24
Probab=100.00 E-value=2.9e-39 Score=343.68 Aligned_cols=223 Identities=19% Similarity=0.279 Sum_probs=182.7
Q ss_pred CCCcEEEEEECCCCh---hHHHHHHHHHHHhhhcCCCC---cEEEEEEECceEEEEecCCCC-cceeccccCCCCCCHHH
Q 002842 272 MSAPIILVIDECLDE---PHLQHLQSSLHAFVESIPPT---ARIGIILYGRTVSVYDFSEDS-IASSDVLAGDKLPTEDS 344 (874)
Q Consensus 272 ~~p~~vFvID~s~~~---~~l~~l~~sL~~~L~~Lp~~---a~VGlITFd~~V~vy~l~~~~-~~~~~V~~g~~~~~~~~ 344 (874)
+||.|+||||+|.++ |+++++|++|+++|+.||++ ++|||||||++||||+++... ..++.+.++..++
T Consensus 2 ~pp~~~FvIDvs~~a~~~g~~~~~~~si~~~L~~lp~~~~~~~VgiITfd~~v~~y~l~~~~~~~q~~vv~dl~d~---- 77 (244)
T cd01479 2 QPAVYVFLIDVSYNAIKSGLLATACEALLSNLDNLPGDDPRTRVGFITFDSTLHFFNLKSSLEQPQMMVVSDLDDP---- 77 (244)
T ss_pred CCCEEEEEEEccHHHHhhChHHHHHHHHHHHHHhcCCCCCCeEEEEEEECCeEEEEECCCCCCCCeEEEeeCcccc----
Confidence 467889999999864 57999999999999999976 999999999999999998643 2233444322111
Q ss_pred HHHHhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEE
Q 002842 345 LKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVC 424 (874)
Q Consensus 345 l~~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F 424 (874)
.+...++||+|++||++.|+++|++|+....+ .....||+|+||++|..+|+. .||||++|
T Consensus 78 ---f~P~~~~~lv~l~e~~~~i~~lL~~L~~~~~~--~~~~~~c~G~Al~~A~~lL~~--------------~GGkIi~f 138 (244)
T cd01479 78 ---FLPLPDGLLVNLKESRQVIEDLLDQIPEMFQD--TKETESALGPALQAAFLLLKE--------------TGGKIIVF 138 (244)
T ss_pred ---cCCCCcceeecHHHHHHHHHHHHHHHHHHHhc--CCCCcccHHHHHHHHHHHHHh--------------cCCEEEEE
Confidence 00112457999999999999999999764322 123359999999999999985 48999999
Q ss_pred ecCCCCCCCCcccCCCCCCCchh-----hhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEc
Q 002842 425 AGGPNTYGPGSVPHSFSHPNYLH-----MEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLH 499 (874)
Q Consensus 425 ~sGppT~GpG~l~~~~~~~~~~~-----~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~ 499 (874)
++|+||.|||+|+.+++++...+ ..+++.+||++||.+|+++||+||+|+++.+++|+++|+.|++.|||.+++|
T Consensus 139 ~s~~pt~GpG~l~~~~~~~~~~~~~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~TGG~v~~y 218 (244)
T cd01479 139 QSSLPTLGAGKLKSREDPKLLSTDKEKQLLQPQTDFYKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRLTGGQVYYY 218 (244)
T ss_pred eCCCCCcCCcccccCccccccCchhhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhhcCceEEEE
Confidence 99999999999998765432221 1257899999999999999999999999999999999999999999999999
Q ss_pred C--Chh-----hHHHHHHHHHHhhc
Q 002842 500 D--DFG-----EAFGVNLQRASTRA 517 (874)
Q Consensus 500 ~--~F~-----~~f~~dl~r~~~~~ 517 (874)
+ .|+ ++|.+||+|.++|+
T Consensus 219 ~~~~~~~~~d~~kl~~dl~~~ltr~ 243 (244)
T cd01479 219 PSFNFSAPNDVEKLVNELARYLTRK 243 (244)
T ss_pred CCccCCchhhHHHHHHHHHHHhccc
Confidence 9 553 36899999999886
No 11
>PF04811 Sec23_trunk: Sec23/Sec24 trunk domain; InterPro: IPR006896 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain, an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the Sec23/24 alpha/beta trunk domain, which is formed from a single, approximately 250-residue segment plugged into the beta-barrel between strands beta-1 and beta-19. The trunk has an alpha/beta fold with a vWA topology, and it forms the dimer interface, primarily involving strand beta-14 on Sec23 and Sec24; in addition, the trunk domain of Sec23 contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_A 2NUP_A 3EG9_A 3EFO_A 3EGX_A 2NUT_A 1PD0_A 1PD1_A 1M2V_B 1PCX_A ....
Probab=100.00 E-value=6.5e-38 Score=333.99 Aligned_cols=223 Identities=25% Similarity=0.430 Sum_probs=168.1
Q ss_pred CCCcEEEEEECCCC---hhHHHHHHHHHHHhhhcCC--CCcEEEEEEECceEEEEecCCCC-cceeccccCCCCCCHHHH
Q 002842 272 MSAPIILVIDECLD---EPHLQHLQSSLHAFVESIP--PTARIGIILYGRTVSVYDFSEDS-IASSDVLAGDKLPTEDSL 345 (874)
Q Consensus 272 ~~p~~vFvID~s~~---~~~l~~l~~sL~~~L~~Lp--~~a~VGlITFd~~V~vy~l~~~~-~~~~~V~~g~~~~~~~~l 345 (874)
++|.|+||||+|.+ +++++.++++|+++|+.|| ++++|||||||++||||+++.+. ..+..+.. +|
T Consensus 2 ~pp~y~FvID~s~~av~~g~~~~~~~sl~~~l~~l~~~~~~~vgiitfd~~V~~y~l~~~~~~~~~~v~~--------dl 73 (243)
T PF04811_consen 2 QPPVYVFVIDVSYEAVQSGLLQSLIESLKSALDSLPGDERTRVGIITFDSSVHFYNLSSSLSQPQMIVVS--------DL 73 (243)
T ss_dssp S--EEEEEEE-SHHHHHHTHHHHHHHHHHHHGCTSSTSTT-EEEEEEESSSEEEEETTTTSSSTEEEEEH--------HT
T ss_pred CCCEEEEEEECchhhhhccHHHHHHHHHHHHHHhccCCCCcEEEEEEeCCEEEEEECCCCcCCCcccchH--------HH
Confidence 46788999999987 7899999999999999999 99999999999999999998753 23344432 44
Q ss_pred HHHhh-cCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEE
Q 002842 346 KALLY-GTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVC 424 (874)
Q Consensus 346 ~~~l~-~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F 424 (874)
++++. ..+.||+++.+|++.|+++|++|+..........+.||+|+||++|..+|+.. +.||||++|
T Consensus 74 ~~~~~p~~~~llv~~~e~~~~i~~ll~~L~~~~~~~~~~~~~~c~G~Al~~A~~ll~~~------------~~gGkI~~F 141 (243)
T PF04811_consen 74 DDPFIPLPDGLLVPLSECRDAIEELLESLPSIFPETAGKRPERCLGSALSAALSLLSSR------------NTGGKILVF 141 (243)
T ss_dssp TSHHSSTSSSSSEETTTCHHHHHHHHHHHHHHSTT-TTB-----HHHHHHHHHHHHHHH------------TS-EEEEEE
T ss_pred hhcccCCcccEEEEhHHhHHHHHHHHHHhhhhcccccccCccccHHHHHHHHHHHHhcc------------ccCCEEEEE
Confidence 44321 23678999999999999999999984433322334599999999999999842 258999999
Q ss_pred ecCCCCCCC-CcccCCCCCCCch------hhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEE
Q 002842 425 AGGPNTYGP-GSVPHSFSHPNYL------HMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLV 497 (874)
Q Consensus 425 ~sGppT~Gp-G~l~~~~~~~~~~------~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~ 497 (874)
++|+||.|| |+|..+++..... .+.+++.+||++||++|+++||+||+|+++.+++|+++|+.|++.|||.++
T Consensus 142 ~s~~pt~G~Gg~l~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~~TGG~l~ 221 (243)
T PF04811_consen 142 TSGPPTYGPGGSLKKREDSSHYDTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLARYTGGSLY 221 (243)
T ss_dssp ESS---SSSTTSS-SBTTSCCCCHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHHCTT-EEE
T ss_pred eccCCCCCCCceecccccccccccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHHhCceeEE
Confidence 999999999 6666665432221 112567889999999999999999999999999999999999999999999
Q ss_pred EcCChh-h----HHHHHHHHHH
Q 002842 498 LHDDFG-E----AFGVNLQRAS 514 (874)
Q Consensus 498 ~~~~F~-~----~f~~dl~r~~ 514 (874)
+|++|+ + +|.+||+|++
T Consensus 222 ~y~~f~~~~~~~~l~~dl~r~~ 243 (243)
T PF04811_consen 222 YYPNFNAERDGEKLRQDLKRLV 243 (243)
T ss_dssp EETTTTCHHHHHHHHHHHHHHH
T ss_pred EeCCCCCchhHHHHHHHHHHhC
Confidence 999997 2 5888888865
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=99.80 E-value=1.8e-19 Score=164.49 Aligned_cols=95 Identities=25% Similarity=0.479 Sum_probs=79.8
Q ss_pred CcceEEEEEeCCCeeEEEeecCCcccccccccccccCccccccccCCCCceEEEEEEEeccCCC-CCceEEEEEEEEEec
Q 002842 519 GSHGFLEIRCSDDILVTQIVGPGEEAHIDTHETFKNDAALSIQMPSVEETQSFAVSMENKRDIE-SNHVFFQFAIRYSNV 597 (874)
Q Consensus 519 g~~a~l~VR~S~glkV~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~s~~~~~~~~~~~~-~~~~~IQfal~Yt~~ 597 (874)
||+|+||||||+||+|++++||+.....-+...++......|.++.++++++|+|+|++++.+. .+.+||||+++||+.
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 7999999999999999999999987743333334444445689999999999999999998876 689999999999999
Q ss_pred CCCEEEEEEeeeeccc
Q 002842 598 YQADISRVVTVRLPTV 613 (874)
Q Consensus 598 ~G~rriRV~T~~l~vt 613 (874)
+|+||+||+|+++|+|
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=99.78 E-value=8.4e-19 Score=162.22 Aligned_cols=100 Identities=28% Similarity=0.370 Sum_probs=92.2
Q ss_pred HHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHhcccCCC---CCccccchhhhHHHHHHHHhccCcCCCCCCC
Q 002842 625 DEVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIALKFGSQVPK---SKLYRFPKELSALSELLFHLRRSPLLGNIIG 701 (874)
Q Consensus 625 ~ea~~~l~ak~av~~~~~~~~~~d~r~~Ld~~li~ll~~y~~~~~~---~~~l~Lp~~l~llP~~~~~L~Rs~~l~~~~~ 701 (874)
|||++++|+|+++.++.+ +++.|+|++|+++|++++++||++|+. ++||+||++||+||+|+++|+||++|+..++
T Consensus 1 Qda~~~llak~ai~~~~~-~~l~~~r~~l~~~~v~il~~Yr~~~~~~~~~~qLilPe~lklLPly~l~llKs~alr~~~v 79 (103)
T PF04815_consen 1 QDAITSLLAKQAIDKALS-SSLKDARESLDNRLVDILAAYRKNCASSSSSGQLILPESLKLLPLYILALLKSPALRPTNV 79 (103)
T ss_dssp HHHHHHHHHHHHHHHHCC-S-HHHHHHHHHHHHHHHHHHHHHHCTTECCCTEEEEEGGGTTHHHHHHHHHTSTTTSCSTS
T ss_pred CHHHHHHHHHHHHHHHhh-CCHHHHHHHHHHHHHHHHHHHHhhccCCCCchhhhCCHHHHHHHHHHHHHHcchhhcCCCC
Confidence 899999999999999998 689999999999999999999999864 3579999999999999999999999999899
Q ss_pred CchHHHHHHHHHhccCHHHHHHhh
Q 002842 702 HDDERSVLRNLFLNASFDLSLRMV 725 (874)
Q Consensus 702 spDera~~~~~l~~~~v~~sl~mi 725 (874)
++|||+|+++++++++++.++.||
T Consensus 80 ~~D~R~~~~~~~~~~~~~~~~~~i 103 (103)
T PF04815_consen 80 SPDERAYAMHLLLSMPVDSLLRMI 103 (103)
T ss_dssp -HHHHHHHHHHHHHS-HHHHHHHH
T ss_pred CCcHHHHHHHHHHCCCHHHHHhhC
Confidence 999999999999999999999886
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=99.57 E-value=8.7e-16 Score=116.45 Aligned_cols=40 Identities=33% Similarity=0.796 Sum_probs=29.2
Q ss_pred CCccCCCCCcccccceEEEcCCceEEEccCCCccCCCccc
Q 002842 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGEY 233 (874)
Q Consensus 194 ~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p~~Y 233 (874)
+|+||++|+||||||++|+.++++|+|+||++.|.+|++|
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 5899999999999999999999999999999999999987
No 15
>PRK13685 hypothetical protein; Provisional
Probab=98.59 E-value=2.4e-06 Score=95.48 Aligned_cols=168 Identities=20% Similarity=0.269 Sum_probs=113.9
Q ss_pred cEEEEEECCCC--h-----hHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHH
Q 002842 275 PIILVIDECLD--E-----PHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKA 347 (874)
Q Consensus 275 ~~vFvID~s~~--~-----~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~ 347 (874)
.+|||||+|.+ . ..++..|+.++..++.++++.+||+|+|++..++.
T Consensus 90 ~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l~~~d~vglv~Fa~~a~~~-------------------------- 143 (326)
T PRK13685 90 VVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADELTPGINLGLIAFAGTATVL-------------------------- 143 (326)
T ss_pred eEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhCCCCCeEEEEEEcCceeec--------------------------
Confidence 57999999975 2 47999999999999999889999999999876531
Q ss_pred HhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecC
Q 002842 348 LLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGG 427 (874)
Q Consensus 348 ~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sG 427 (874)
.|+...+..+.+.|+.|... ..+++|.||..|...++........ . .....++|+++++|
T Consensus 144 ---------~p~t~d~~~l~~~l~~l~~~--------~~T~~g~al~~A~~~l~~~~~~~~~--~-~~~~~~~IILlTDG 203 (326)
T PRK13685 144 ---------VSPTTNREATKNAIDKLQLA--------DRTATGEAIFTALQAIATVGAVIGG--G-DTPPPARIVLMSDG 203 (326)
T ss_pred ---------CCCCCCHHHHHHHHHhCCCC--------CCcchHHHHHHHHHHHHhhhccccc--c-cCCCCCEEEEEcCC
Confidence 11112334455667776541 2367899999999887521000000 0 01124789999999
Q ss_pred CCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCC-------------CCcccchhhhccccc
Q 002842 428 PNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCP-------------VRVPVLQPLAKASGG 494 (874)
Q Consensus 428 ppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~-------------vglaem~~l~~~TGG 494 (874)
-.|.|...... ... .+.++.+.+.||.|..+.++.+. .|-..|+.+++.|||
T Consensus 204 ~~~~~~~~~~~-----------~~~----~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~~~~d~~~L~~iA~~tgG 268 (326)
T PRK13685 204 KETVPTNPDNP-----------RGA----YTAARTAKDQGVPISTISFGTPYGSVEINGQRQPVPVDDESLKKIAQLSGG 268 (326)
T ss_pred CCCCCCCCCCc-----------ccH----HHHHHHHHHcCCeEEEEEECCCCCCcCcCCceeeecCCHHHHHHHHHhcCC
Confidence 88765321100 001 12455667889999999988642 566789999999999
Q ss_pred EEEEcCChh
Q 002842 495 VLVLHDDFG 503 (874)
Q Consensus 495 ~v~~~~~F~ 503 (874)
..+..++-.
T Consensus 269 ~~~~~~~~~ 277 (326)
T PRK13685 269 EFYTAASLE 277 (326)
T ss_pred EEEEcCCHH
Confidence 999887754
No 16
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if n
Probab=98.56 E-value=2.1e-06 Score=85.96 Aligned_cols=161 Identities=19% Similarity=0.295 Sum_probs=111.4
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhhcCC
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYGTG 353 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~~~ 353 (874)
++||+|+|.+ ...++.+++++...+..++++.+||+|+|++..+..-- . ..+
T Consensus 3 ~~~vlD~S~SM~~~~~~~~k~a~~~~~~~l~~~~~v~li~f~~~~~~~~~-~--------~~~----------------- 56 (170)
T cd01465 3 LVFVIDRSGSMDGPKLPLVKSALKLLVDQLRPDDRLAIVTYDGAAETVLP-A--------TPV----------------- 56 (170)
T ss_pred EEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEecCCccEEec-C--------ccc-----------------
Confidence 6899999865 34588999999999999998999999999987554210 0 000
Q ss_pred ccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCC
Q 002842 354 VYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGP 433 (874)
Q Consensus 354 ~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~Gp 433 (874)
.....+.+.|++++. ...+-++.||..|...++.... ...-.+|++|+.|.++.|+
T Consensus 57 -------~~~~~l~~~l~~~~~--------~g~T~~~~al~~a~~~~~~~~~---------~~~~~~ivl~TDG~~~~~~ 112 (170)
T cd01465 57 -------RDKAAILAAIDRLTA--------GGSTAGGAGIQLGYQEAQKHFV---------PGGVNRILLATDGDFNVGE 112 (170)
T ss_pred -------chHHHHHHHHHcCCC--------CCCCCHHHHHHHHHHHHHhhcC---------CCCeeEEEEEeCCCCCCCC
Confidence 011223344444432 1236789999999998864210 1112679999999988764
Q ss_pred CcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChhh
Q 002842 434 GSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE 504 (874)
Q Consensus 434 G~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~~ 504 (874)
... +-+.+...++.+.++.|+.+.++ +..+...|+.+++.++|..++.++..+
T Consensus 113 ~~~-----------------~~~~~~~~~~~~~~v~i~~i~~g-~~~~~~~l~~ia~~~~g~~~~~~~~~~ 165 (170)
T cd01465 113 TDP-----------------DELARLVAQKRESGITLSTLGFG-DNYNEDLMEAIADAGNGNTAYIDNLAE 165 (170)
T ss_pred CCH-----------------HHHHHHHHHhhcCCeEEEEEEeC-CCcCHHHHHHHHhcCCceEEEeCCHHH
Confidence 210 11234455567789999999998 667889999999999999998877643
No 17
>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=98.56 E-value=1.4e-06 Score=89.30 Aligned_cols=162 Identities=17% Similarity=0.256 Sum_probs=104.9
Q ss_pred cEEEEEECCCC-------hhHHHHHHHHHHHhhhcC---CCCcEEEEEEE-CceEEEEecCCCCcceeccccCCCCCCHH
Q 002842 275 PIILVIDECLD-------EPHLQHLQSSLHAFVESI---PPTARIGIILY-GRTVSVYDFSEDSIASSDVLAGDKLPTED 343 (874)
Q Consensus 275 ~~vFvID~s~~-------~~~l~~l~~sL~~~L~~L---p~~a~VGlITF-d~~V~vy~l~~~~~~~~~V~~g~~~~~~~ 343 (874)
.++|+||+|.+ ...|+..|..+...++.+ .+..+||||+| ++.-++-
T Consensus 5 ~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~~---------------------- 62 (183)
T cd01453 5 HLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEKL---------------------- 62 (183)
T ss_pred EEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEEE----------------------
Confidence 36999999964 247999999998888754 35689999999 4544331
Q ss_pred HHHHHhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEE
Q 002842 344 SLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIV 423 (874)
Q Consensus 344 ~l~~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~ 423 (874)
+|+......+...|+.+ + . ......++.||..|...|+... ....++|++
T Consensus 63 -------------~PlT~D~~~~~~~L~~~--~--~---~~G~t~l~~aL~~A~~~l~~~~----------~~~~~~iii 112 (183)
T cd01453 63 -------------TDLTGNPRKHIQALKTA--R--E---CSGEPSLQNGLEMALESLKHMP----------SHGSREVLI 112 (183)
T ss_pred -------------ECCCCCHHHHHHHhhcc--c--C---CCCchhHHHHHHHHHHHHhcCC----------ccCceEEEE
Confidence 11111111222334333 1 1 1124789999999999997521 112467887
Q ss_pred EecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChh
Q 002842 424 CAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (874)
Q Consensus 424 F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~ 503 (874)
++++.-+.+|+. +.++++++.+.||.|++..++. ++..|+.+|+.|||..+...+-
T Consensus 113 l~sd~~~~~~~~--------------------~~~~~~~l~~~~I~v~~IgiG~---~~~~L~~ia~~tgG~~~~~~~~- 168 (183)
T cd01453 113 IFSSLSTCDPGN--------------------IYETIDKLKKENIRVSVIGLSA---EMHICKEICKATNGTYKVILDE- 168 (183)
T ss_pred EEcCCCcCChhh--------------------HHHHHHHHHHcCcEEEEEEech---HHHHHHHHHHHhCCeeEeeCCH-
Confidence 776533222210 1456788889999999999874 4578999999999999987664
Q ss_pred hHHHHHHHH
Q 002842 504 EAFGVNLQR 512 (874)
Q Consensus 504 ~~f~~dl~r 512 (874)
+.|.+-+.+
T Consensus 169 ~~l~~~~~~ 177 (183)
T cd01453 169 THLKELLLE 177 (183)
T ss_pred HHHHHHHHh
Confidence 244444443
No 18
>cd01466 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most,
Probab=98.52 E-value=2.2e-06 Score=85.21 Aligned_cols=150 Identities=17% Similarity=0.232 Sum_probs=103.0
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhhcCC
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYGTG 353 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~~~ 353 (874)
++||||+|.+ ...++.+++++...++.|+++.+||||+|++..+.+ .. .. ..+.
T Consensus 3 v~~vlD~S~SM~~~rl~~ak~a~~~l~~~l~~~~~~~li~F~~~~~~~--~~----~~-------~~~~----------- 58 (155)
T cd01466 3 LVAVLDVSGSMAGDKLQLVKHALRFVISSLGDADRLSIVTFSTSAKRL--SP----LR-------RMTA----------- 58 (155)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcceEEEEEecCCcccc--CC----Cc-------ccCH-----------
Confidence 6899999975 346889999999999999999999999999875542 10 00 0000
Q ss_pred ccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCC
Q 002842 354 VYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGP 433 (874)
Q Consensus 354 ~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~Gp 433 (874)
..+..+.++++.+.+ ...++++.||..|..+++.... .+....|++++.|-++.|.
T Consensus 59 -------~~~~~~~~~i~~~~~--------~g~T~~~~al~~a~~~~~~~~~---------~~~~~~iillTDG~~~~~~ 114 (155)
T cd01466 59 -------KGKRSAKRVVDGLQA--------GGGTNVVGGLKKALKVLGDRRQ---------KNPVASIMLLSDGQDNHGA 114 (155)
T ss_pred -------HHHHHHHHHHHhccC--------CCCccHHHHHHHHHHHHhhccc---------CCCceEEEEEcCCCCCcch
Confidence 123344455655532 1348999999999999864210 1234689999999877651
Q ss_pred CcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEc
Q 002842 434 GSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLH 499 (874)
Q Consensus 434 G~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~ 499 (874)
. ..++.+.++.|..+..+. ..+..+|+.++..|||..++.
T Consensus 115 ~-------------------------~~~~~~~~v~v~~igig~-~~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 115 V-------------------------VLRADNAPIPIHTFGLGA-SHDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred h-------------------------hhcccCCCceEEEEecCC-CCCHHHHHHHHhccCceEEEe
Confidence 0 001234678888887764 357788999999999998864
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=98.47 E-value=8.3e-06 Score=82.93 Aligned_cols=163 Identities=18% Similarity=0.272 Sum_probs=107.4
Q ss_pred cEEEEEECCCC--hh-HHHHHHHHHHHhhhc-CCCCcEEEEEEECce-EEEEecCCCCcceeccccCCCCCCHHHHHHHh
Q 002842 275 PIILVIDECLD--EP-HLQHLQSSLHAFVES-IPPTARIGIILYGRT-VSVYDFSEDSIASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 275 ~~vFvID~s~~--~~-~l~~l~~sL~~~L~~-Lp~~a~VGlITFd~~-V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l 349 (874)
+++||||+|.+ .. .++.+++.+...+.. +.++.+||||+|++. .++. +..
T Consensus 2 ~v~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~~~~~d~v~lv~F~~~~~~~~-~~~------------------------ 56 (178)
T cd01451 2 LVIFVVDASGSMAARHRMAAAKGAVLSLLRDAYQRRDKVALIAFRGTEAEVL-LPP------------------------ 56 (178)
T ss_pred eEEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceEE-eCC------------------------
Confidence 57999999975 23 788888888887754 567899999999864 3321 000
Q ss_pred hcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCC
Q 002842 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (874)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGpp 429 (874)
...+..+...|+.++. ...+.++.||..|...++.... ..+....|++++.|.+
T Consensus 57 ----------t~~~~~~~~~l~~l~~--------~G~T~l~~aL~~a~~~l~~~~~--------~~~~~~~ivliTDG~~ 110 (178)
T cd01451 57 ----------TRSVELAKRRLARLPT--------GGGTPLAAGLLAAYELAAEQAR--------DPGQRPLIVVITDGRA 110 (178)
T ss_pred ----------CCCHHHHHHHHHhCCC--------CCCCcHHHHHHHHHHHHHHHhc--------CCCCceEEEEECCCCC
Confidence 0011112234444432 1347899999999998821000 0111257888889988
Q ss_pred CCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChhh
Q 002842 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE 504 (874)
Q Consensus 430 T~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~~ 504 (874)
+.|.... ..+ -..+++++.+.||.+..+....+..+-..|+.+++.|||..++.++.+.
T Consensus 111 ~~g~~~~-------------~~~---~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~~tgG~~~~~~d~~~ 169 (178)
T cd01451 111 NVGPDPT-------------ADR---ALAAARKLRARGISALVIDTEGRPVRRGLAKDLARALGGQYVRLPDLSA 169 (178)
T ss_pred CCCCCch-------------hHH---HHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHHHcCCeEEEcCcCCH
Confidence 8764210 001 1456777888898887776666666778899999999999999988865
No 20
>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=98.40 E-value=1.1e-05 Score=82.89 Aligned_cols=171 Identities=13% Similarity=0.151 Sum_probs=105.4
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEEEe-cCCCCcceeccccCCCCCCHHHHHHHhh
Q 002842 274 APIILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYD-FSEDSIASSDVLAGDKLPTEDSLKALLY 350 (874)
Q Consensus 274 p~~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~vy~-l~~~~~~~~~V~~g~~~~~~~~l~~~l~ 350 (874)
-.++||||+|.+ ...++.+|+++...++.|+++.+||||+|++.++..- +....
T Consensus 14 ~~vv~llD~SgSM~~~~l~~ak~~~~~ll~~l~~~d~v~lv~F~~~~~~~~~~~~~~----------------------- 70 (190)
T cd01463 14 KDIVILLDVSGSMTGQRLHLAKQTVSSILDTLSDNDFFNIITFSNEVNPVVPCFNDT----------------------- 70 (190)
T ss_pred ceEEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCCCEEEEEEeCCCeeEEeeecccc-----------------------
Confidence 346999999875 5678999999999999999999999999999887541 11100
Q ss_pred cCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCC
Q 002842 351 GTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNT 430 (874)
Q Consensus 351 ~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT 430 (874)
++..-.+.+..+.+.|+.|+.. ..+.++.||..|...+.........+ .+.+....|++++.|.++
T Consensus 71 ----~~~~~~~~~~~~~~~l~~l~~~--------G~T~~~~al~~a~~~l~~~~~~~~~~--~~~~~~~~iillTDG~~~ 136 (190)
T cd01463 71 ----LVQATTSNKKVLKEALDMLEAK--------GIANYTKALEFAFSLLLKNLQSNHSG--SRSQCNQAIMLITDGVPE 136 (190)
T ss_pred ----eEecCHHHHHHHHHHHhhCCCC--------CcchHHHHHHHHHHHHHHhhhccccc--ccCCceeEEEEEeCCCCC
Confidence 0011112233344445555431 23789999999999887410000000 001123468889999765
Q ss_pred CCCCcccCCCCCCCchhhhHhHHHHHHHHHH-HHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCC
Q 002842 431 YGPGSVPHSFSHPNYLHMEKMALKWMELLGR-KAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDD 501 (874)
Q Consensus 431 ~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~-~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~ 501 (874)
.+. +..+.+.. +....++.|..|.++.+..|..+|+.|+..+||..++.++
T Consensus 137 ~~~--------------------~~~~~~~~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~~~~G~~~~i~~ 188 (190)
T cd01463 137 NYK--------------------EIFDKYNWDKNSEIPVRVFTYLIGREVTDRREIQWMACENKGYYSHIQS 188 (190)
T ss_pred cHh--------------------HHHHHhcccccCCCcEEEEEEecCCccccchHHHHHHhhcCCeEEEccc
Confidence 210 00111110 1112346666666676666889999999999999998765
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=98.39 E-value=5.5e-06 Score=86.26 Aligned_cols=168 Identities=16% Similarity=0.276 Sum_probs=107.7
Q ss_pred CCCcEEEEEECCCCh--------hHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEE---EecCCCCcceeccccCCCCC
Q 002842 272 MSAPIILVIDECLDE--------PHLQHLQSSLHAFVESIPPTARIGIILYGRTVSV---YDFSEDSIASSDVLAGDKLP 340 (874)
Q Consensus 272 ~~p~~vFvID~s~~~--------~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~v---y~l~~~~~~~~~V~~g~~~~ 340 (874)
.+..++||||+|.+- ..++.+|+++...++.++++.+||||+|++.+.- |.... +.....
T Consensus 19 ~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l~~~~~v~lv~F~~~~~~~~~~~~~~---p~~~~~------ 89 (206)
T cd01456 19 LPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDGTRLGLWTFSGDGDNPLDVRVLV---PKGCLT------ 89 (206)
T ss_pred CCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhCCCCceEEEEEecCCCCCCccccccc---cccccc------
Confidence 345689999998652 3689999999999999999999999999985421 10000 000000
Q ss_pred CHHHHHHHhhcCCccccch-hhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCc
Q 002842 341 TEDSLKALLYGTGVYLSPM-HASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNS 419 (874)
Q Consensus 341 ~~~~l~~~l~~~~~fL~pl-~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~gg 419 (874)
..+ .+. ...+..+.+.|+.|.. ....+.++.||..|..+++. +...
T Consensus 90 --~~~-----------~~~~~~~~~~l~~~i~~i~~-------~~G~T~l~~aL~~a~~~l~~-------------~~~~ 136 (206)
T cd01456 90 --APV-----------NGFPSAQRSALDAALNSLQT-------PTGWTPLAAALAEAAAYVDP-------------GRVN 136 (206)
T ss_pred --ccc-----------CCCCcccHHHHHHHHHhhcC-------CCCcChHHHHHHHHHHHhCC-------------CCcc
Confidence 000 000 0234555666777651 01348899999999999852 1237
Q ss_pred EEEEEecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHH-HhhcCeEEEEeeecCCCCCcccchhhhcccccEE-E
Q 002842 420 RIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRK-AHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVL-V 497 (874)
Q Consensus 420 rIi~F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~-~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v-~ 497 (874)
.|+++++|-.+.|... . ..+ +++.+. ....++.|+++.++.+ .+...|..+++.|||.. +
T Consensus 137 ~iillTDG~~~~~~~~------------~-~~~----~~~~~~~~~~~~i~i~~igiG~~-~~~~~l~~iA~~tgG~~~~ 198 (206)
T cd01456 137 VVVLITDGEDTCGPDP------------C-EVA----RELAKRRTPAPPIKVNVIDFGGD-ADRAELEAIAEATGGTYAY 198 (206)
T ss_pred eEEEEcCCCccCCCCH------------H-HHH----HHHHHhcCCCCCceEEEEEecCc-ccHHHHHHHHHhcCCeEec
Confidence 8999999987654310 0 111 222211 1235899999998876 57889999999999988 4
Q ss_pred Ec
Q 002842 498 LH 499 (874)
Q Consensus 498 ~~ 499 (874)
..
T Consensus 199 ~~ 200 (206)
T cd01456 199 NQ 200 (206)
T ss_pred cc
Confidence 43
No 22
>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.34 E-value=1.9e-05 Score=79.94 Aligned_cols=155 Identities=16% Similarity=0.307 Sum_probs=100.9
Q ss_pred cEEEEEECCCC--h------hHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHH
Q 002842 275 PIILVIDECLD--E------PHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLK 346 (874)
Q Consensus 275 ~~vFvID~s~~--~------~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~ 346 (874)
.++||||+|.+ . ..++.++..+...+... ++.+||+|+|+..+++.-
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~~~-~~~~v~lv~f~~~~~~~~------------------------ 58 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFIDRR-ENDRIGLVVFAGAAFTQA------------------------ 58 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHHHHHHHHHhC-CCCeEEEEEEcCCeeecc------------------------
Confidence 36999999864 1 14677787777777665 478999999988765420
Q ss_pred HHhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEec
Q 002842 347 ALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAG 426 (874)
Q Consensus 347 ~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~s 426 (874)
|+...+..+..+|+.|.... ....+.++.||..|..++... .+....|++++.
T Consensus 59 -----------~~~~~~~~~~~~l~~l~~~~-----~~g~T~l~~al~~a~~~l~~~-----------~~~~~~iiliTD 111 (180)
T cd01467 59 -----------PLTLDRESLKELLEDIKIGL-----AGQGTAIGDAIGLAIKRLKNS-----------EAKERVIVLLTD 111 (180)
T ss_pred -----------CCCccHHHHHHHHHHhhhcc-----cCCCCcHHHHHHHHHHHHHhc-----------CCCCCEEEEEeC
Confidence 00011222334455554211 123478899999999998642 112467888888
Q ss_pred CCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCC----------CCCcccchhhhcccccEE
Q 002842 427 GPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNC----------PVRVPVLQPLAKASGGVL 496 (874)
Q Consensus 427 GppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d----------~vglaem~~l~~~TGG~v 496 (874)
|..+.|. .. . .+.++.+.+.||.|+.+.++.. ..+...|+.|++.|||.+
T Consensus 112 G~~~~g~--~~-------------~-----~~~~~~~~~~gi~i~~i~ig~~~~~~~~~~~~~~~~~~l~~la~~tgG~~ 171 (180)
T cd01467 112 GENNAGE--ID-------------P-----ATAAELAKNKGVRIYTIGVGKSGSGPKPDGSTILDEDSLVEIADKTGGRI 171 (180)
T ss_pred CCCCCCC--CC-------------H-----HHHHHHHHHCCCEEEEEEecCCCCCcCCCCcccCCHHHHHHHHHhcCCEE
Confidence 9876532 00 0 1223345568999998888762 356778999999999999
Q ss_pred EEcCC
Q 002842 497 VLHDD 501 (874)
Q Consensus 497 ~~~~~ 501 (874)
++..+
T Consensus 172 ~~~~~ 176 (180)
T cd01467 172 FRALD 176 (180)
T ss_pred EEecC
Confidence 98754
No 23
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins. This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.
Probab=98.28 E-value=3e-05 Score=77.53 Aligned_cols=155 Identities=15% Similarity=0.177 Sum_probs=96.5
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECceEEEE-ecCCCCcceeccccCCCCCCHHHHHHHh
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp---~~a~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~~~~~~l~~~l 349 (874)
++||||+|.+ ...++.+++.++..++.|. .+.+||||+|++.+++. .+.. .
T Consensus 3 vv~vlD~SgSm~~~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~~~~~~~--------~--------------- 59 (164)
T cd01472 3 IVFLVDGSESIGLSNFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRTEFYLNT--------Y--------------- 59 (164)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCceeEEEecCC--------C---------------
Confidence 6899999875 5578888988888887774 56899999999887652 1110 0
Q ss_pred hcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCC
Q 002842 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (874)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGpp 429 (874)
..+..+.+.|+.|+.. ...+.+|.||..|...+..... ..+.+....|++++.|-+
T Consensus 60 -----------~~~~~~~~~l~~l~~~-------~g~T~~~~al~~a~~~l~~~~~------~~~~~~~~~iiliTDG~~ 115 (164)
T cd01472 60 -----------RSKDDVLEAVKNLRYI-------GGGTNTGKALKYVRENLFTEAS------GSREGVPKVLVVITDGKS 115 (164)
T ss_pred -----------CCHHHHHHHHHhCcCC-------CCCchHHHHHHHHHHHhCCccc------CCCCCCCEEEEEEcCCCC
Confidence 1112233445555532 1247899999999998864100 001222345777777843
Q ss_pred CCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhccccc-EEEEcCCh
Q 002842 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGG-VLVLHDDF 502 (874)
Q Consensus 430 T~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG-~v~~~~~F 502 (874)
+.+ . ...+.++.+.||.+-.+.++. .+...|+.++..++| .++.+.+|
T Consensus 116 ~~~--------------~---------~~~~~~l~~~gv~i~~ig~g~--~~~~~L~~ia~~~~~~~~~~~~~~ 164 (164)
T cd01472 116 QDD--------------V---------EEPAVELKQAGIEVFAVGVKN--ADEEELKQIASDPKELYVFNVADF 164 (164)
T ss_pred Cch--------------H---------HHHHHHHHHCCCEEEEEECCc--CCHHHHHHHHCCCchheEEeccCC
Confidence 211 0 112234455777555554444 489999999999988 66665543
No 24
>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=98.25 E-value=4.2e-05 Score=78.22 Aligned_cols=160 Identities=16% Similarity=0.200 Sum_probs=88.2
Q ss_pred cEEEEEECCCCh-hHHHHHHHHHHHhhhcC-CCCcEEEEEEECceEEE-EecCCCCcceeccccCCCCCCHHHHHHHhhc
Q 002842 275 PIILVIDECLDE-PHLQHLQSSLHAFVESI-PPTARIGIILYGRTVSV-YDFSEDSIASSDVLAGDKLPTEDSLKALLYG 351 (874)
Q Consensus 275 ~~vFvID~s~~~-~~l~~l~~sL~~~L~~L-p~~a~VGlITFd~~V~v-y~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~ 351 (874)
-++||||+|.+- +.....++.++..++.+ .++.+||||+|++..++ +.+...
T Consensus 6 Dvv~llD~SgSm~~~~~~~~~~~~~l~~~~~~~~~rvglv~Fs~~~~~~~~l~~~------------------------- 60 (185)
T cd01474 6 DLYFVLDKSGSVAANWIEIYDFVEQLVDRFNSPGLRFSFITFSTRATKILPLTDD------------------------- 60 (185)
T ss_pred eEEEEEeCcCchhhhHHHHHHHHHHHHHHcCCCCcEEEEEEecCCceEEEecccc-------------------------
Confidence 369999999762 22323334444444433 35799999999987653 222110
Q ss_pred CCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCC
Q 002842 352 TGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTY 431 (874)
Q Consensus 352 ~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~ 431 (874)
. ..+...++.|..... ...+++|.||..|...|..... + .+. ....|++++.|..+.
T Consensus 61 --------~---~~~~~~l~~l~~~~~-----~g~T~~~~aL~~a~~~l~~~~~----~--~r~-~~~~villTDG~~~~ 117 (185)
T cd01474 61 --------S---SAIIKGLEVLKKVTP-----SGQTYIHEGLENANEQIFNRNG----G--GRE-TVSVIIALTDGQLLL 117 (185)
T ss_pred --------H---HHHHHHHHHHhccCC-----CCCCcHHHHHHHHHHHHHhhcc----C--CCC-CCeEEEEEcCCCcCC
Confidence 0 011222333332211 1358999999999987732100 0 000 113478888887642
Q ss_pred CCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEE-EcCChhh
Q 002842 432 GPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLV-LHDDFGE 504 (874)
Q Consensus 432 GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~-~~~~F~~ 504 (874)
..+. .. ...++++.+.|+.| |+.+....+..+|..++..+++ +| ..++|+.
T Consensus 118 ~~~~-----------~~--------~~~a~~l~~~gv~i--~~vgv~~~~~~~L~~iA~~~~~-~f~~~~~~~~ 169 (185)
T cd01474 118 NGHK-----------YP--------EHEAKLSRKLGAIV--YCVGVTDFLKSQLINIADSKEY-VFPVTSGFQA 169 (185)
T ss_pred CCCc-----------ch--------HHHHHHHHHcCCEE--EEEeechhhHHHHHHHhCCCCe-eEecCccHHH
Confidence 1110 00 12234566678755 4444466788999999988864 44 5667864
No 25
>PF00626 Gelsolin: Gelsolin repeat; InterPro: IPR007123 Gelsolin is a cytoplasmic, calcium-regulated, actin-modulating protein that binds to the barbed ends of actin filaments, preventing monomer exchange (end-blocking or capping) []. It can promote nucleation (the assembly of monomers into filaments), as well as sever existing filaments. In addition, this protein binds with high affinity to fibronectin. Plasma gelsolin and cytoplasmic gelsolin are derived from a single gene by alternate initiation sites and differential splicing. Sequence comparisons indicate an evolutionary relationship between gelsolin, villin, fragmin and severin []. Six large repeating segments occur in gelsolin and villin, and 3 similar segments in severin and fragmin. While the multiple repeats have yet to be related to any known function of the actin-severing proteins, the superfamily appears to have evolved from an ancestral sequence of 120 to 130 amino acid residues [].; PDB: 3FG6_F 1RGI_G 2FGH_A 1D0N_B 3EGD_B 2NUP_B 2NUT_B 3EGX_B 1JHW_A 1J72_A ....
Probab=98.23 E-value=2.6e-06 Score=73.86 Aligned_cols=68 Identities=31% Similarity=0.616 Sum_probs=55.0
Q ss_pred CCcccccccCCcEEEEeCCcEEEEEeCCcccccccccHHHHHHHHHHHHHHH-hcCCCCcEEEEEecCCchHHHH
Q 002842 741 LPAYDLAMQSDKAVVLDHGTDVFIWLGAELAADEGRSAAALAACRTLAEELS-EFRFPAPRILAFKEGSSQARYF 814 (874)
Q Consensus 741 lP~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~~~~~l~~~~~~~~~l~-~~R~p~Pr~i~~~qg~sqaRfl 814 (874)
++++..+|.++++||||+|..||+|+|+..+.. + ..+....|+++. .+|.+.|+++++.+|...++|+
T Consensus 8 ~~~s~~~L~s~~~yIld~~~~i~vW~G~~~~~~-e-----~~~a~~~a~~~~~~~~~~~~~~~~~~eg~E~~~F~ 76 (76)
T PF00626_consen 8 VPLSQSSLNSDDCYILDCGYEIFVWVGKKSSPE-E-----KAFAAQLAQELLSEERPPLPEVIRVEEGKEPAEFL 76 (76)
T ss_dssp ESSSGGGEETTSEEEEEESSEEEEEEHTTSHHH-H-----HHHHHHHHHHHHHHHTTTTSEEEEEETTHHHHHHH
T ss_pred CCCCHHHcCCCCEEEEEeCCCcEEEEeccCCHH-H-----HHHHHHHHHHhhhhcCCCCCEEEEecCCCCChHHC
Confidence 344567899999999999999999999993221 1 123456778888 8999999999999999999986
No 26
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=98.21 E-value=1.4e-05 Score=79.25 Aligned_cols=151 Identities=18% Similarity=0.319 Sum_probs=96.9
Q ss_pred EEEEEECCCC--h-----hHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHH
Q 002842 276 IILVIDECLD--E-----PHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKAL 348 (874)
Q Consensus 276 ~vFvID~s~~--~-----~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~ 348 (874)
+|||||+|.+ . ..++.+++++...++.+| +.+|||++|++..++.
T Consensus 2 vv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~l~~f~~~~~~~--------------------------- 53 (172)
T PF13519_consen 2 VVFVLDNSGSMNGYDGNRTRIDQAKDALNELLANLP-GDRVGLVSFSDSSRTL--------------------------- 53 (172)
T ss_dssp EEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHHHT-TSEEEEEEESTSCEEE---------------------------
T ss_pred EEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHHCC-CCEEEEEEeccccccc---------------------------
Confidence 5899999975 2 258999999999999888 5599999998753211
Q ss_pred hhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCC
Q 002842 349 LYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (874)
Q Consensus 349 l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGp 428 (874)
.|+...+..+.+.++.+..... .....+++.||..|..++.... +....|++|++|.
T Consensus 54 --------~~~t~~~~~~~~~l~~~~~~~~----~~~~t~~~~al~~a~~~~~~~~-----------~~~~~iv~iTDG~ 110 (172)
T PF13519_consen 54 --------SPLTSDKDELKNALNKLSPQGM----PGGGTNLYDALQEAAKMLASSD-----------NRRRAIVLITDGE 110 (172)
T ss_dssp --------EEEESSHHHHHHHHHTHHHHG------SSS--HHHHHHHHHHHHHC-S-----------SEEEEEEEEES-T
T ss_pred --------ccccccHHHHHHHhhccccccc----CccCCcHHHHHHHHHHHHHhCC-----------CCceEEEEecCCC
Confidence 0111222333344555443110 1234889999999999998631 1235677777774
Q ss_pred CCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcC
Q 002842 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHD 500 (874)
Q Consensus 429 pT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~ 500 (874)
++ . .. .+.++.+.+.+|.|.++.++.+...-..|..+++.|||..+...
T Consensus 111 ~~--------------~----~~-----~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~~~~ 159 (172)
T PF13519_consen 111 DN--------------S----SD-----IEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGRYFHVD 159 (172)
T ss_dssp TH--------------C----HH-----HHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEEEEEE-
T ss_pred CC--------------c----ch-----hHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCEEEEec
Confidence 42 0 00 12666778999999999988877655789999999999999874
No 27
>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=98.19 E-value=2.7e-05 Score=79.73 Aligned_cols=144 Identities=15% Similarity=0.251 Sum_probs=93.0
Q ss_pred cEEEEEECCCC-------hhHHHHHHHHHHHhh----hcCCCCcEEEEEEECc-eEEEEecCCCCcceeccccCCCCCCH
Q 002842 275 PIILVIDECLD-------EPHLQHLQSSLHAFV----ESIPPTARIGIILYGR-TVSVYDFSEDSIASSDVLAGDKLPTE 342 (874)
Q Consensus 275 ~~vFvID~s~~-------~~~l~~l~~sL~~~L----~~Lp~~a~VGlITFd~-~V~vy~l~~~~~~~~~V~~g~~~~~~ 342 (874)
..+++||+|.. ...|++.|+.+...+ +..| ..+||||+|.. ..++.
T Consensus 5 a~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~~~~f~~~np-~~~vGlv~fag~~a~v~--------------------- 62 (187)
T cd01452 5 ATMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNP-ENNVGLMTMAGNSPEVL--------------------- 62 (187)
T ss_pred EEEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCC-CccEEEEEecCCceEEE---------------------
Confidence 36999999964 247888888887654 5555 56999999976 43331
Q ss_pred HHHHHHhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEE
Q 002842 343 DSLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRII 422 (874)
Q Consensus 343 ~~l~~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi 422 (874)
+|+......+...|+.+.. .....+|.||+.|...|++... .+...||+
T Consensus 63 --------------~plT~D~~~~~~~L~~i~~--------~g~~~l~~AL~~A~~~L~~~~~---------~~~~~riv 111 (187)
T cd01452 63 --------------VTLTNDQGKILSKLHDVQP--------KGKANFITGIQIAQLALKHRQN---------KNQKQRIV 111 (187)
T ss_pred --------------ECCCCCHHHHHHHHHhCCC--------CCcchHHHHHHHHHHHHhcCCC---------cCCcceEE
Confidence 1112222333444555442 1346799999999999986321 22345999
Q ss_pred EEecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcc
Q 002842 423 VCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKA 491 (874)
Q Consensus 423 ~F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~ 491 (874)
+|++++.+.=+| . ..++++++.++||.||+..++...-+..-|..+.+.
T Consensus 112 i~v~S~~~~d~~-------------------~-i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~~~~~~ 160 (187)
T cd01452 112 AFVGSPIEEDEK-------------------D-LVKLAKRLKKNNVSVDIINFGEIDDNTEKLTAFIDA 160 (187)
T ss_pred EEEecCCcCCHH-------------------H-HHHHHHHHHHcCCeEEEEEeCCCCCCHHHHHHHHHH
Confidence 999887542111 1 236889999999999999998765444444444433
No 28
>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=98.19 E-value=3.8e-05 Score=78.74 Aligned_cols=158 Identities=16% Similarity=0.197 Sum_probs=99.7
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcC---------CCCcEEEEEEECceEEEE-ecCCCCcceeccccCCCCCCHH
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESI---------PPTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTED 343 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~L---------p~~a~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~~~~~ 343 (874)
++||||.|.+ ...++..|+.++..++.| +.+.+||+|+|++..++. .+...
T Consensus 5 vv~vlD~S~Sm~~~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~~~~~l~~~----------------- 67 (186)
T cd01480 5 ITFVLDSSESVGLQNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQEVEAGFLRD----------------- 67 (186)
T ss_pred EEEEEeCCCccchhhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCceeeEecccc-----------------
Confidence 6999999875 457777788777777766 457899999999876542 11100
Q ss_pred HHHHHhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEE
Q 002842 344 SLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIV 423 (874)
Q Consensus 344 ~l~~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~ 423 (874)
...+..+.+.|+.++.. ...+.+|.||..|...+.... +.+....|++
T Consensus 68 ----------------~~~~~~l~~~i~~l~~~-------gg~T~~~~AL~~a~~~l~~~~---------~~~~~~~iil 115 (186)
T cd01480 68 ----------------IRNYTSLKEAVDNLEYI-------GGGTFTDCALKYATEQLLEGS---------HQKENKFLLV 115 (186)
T ss_pred ----------------cCCHHHHHHHHHhCccC-------CCCccHHHHHHHHHHHHhccC---------CCCCceEEEE
Confidence 01223344556665421 134899999999999986411 1223456777
Q ss_pred EecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChh
Q 002842 424 CAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (874)
Q Consensus 424 F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~ 503 (874)
++.|..+.+.. .. .++.++++.+.||.|-.+..+. .+..+|..++...+|. ++-++|.
T Consensus 116 lTDG~~~~~~~-----------~~--------~~~~~~~~~~~gi~i~~vgig~--~~~~~L~~IA~~~~~~-~~~~~~~ 173 (186)
T cd01480 116 ITDGHSDGSPD-----------GG--------IEKAVNEADHLGIKIFFVAVGS--QNEEPLSRIACDGKSA-LYRENFA 173 (186)
T ss_pred EeCCCcCCCcc-----------hh--------HHHHHHHHHHCCCEEEEEecCc--cchHHHHHHHcCCcch-hhhcchh
Confidence 78887532110 00 1334556667888755555443 6788899999887776 6666775
Q ss_pred h
Q 002842 504 E 504 (874)
Q Consensus 504 ~ 504 (874)
+
T Consensus 174 ~ 174 (186)
T cd01480 174 E 174 (186)
T ss_pred h
Confidence 4
No 29
>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=98.19 E-value=5.4e-05 Score=78.26 Aligned_cols=175 Identities=12% Similarity=0.137 Sum_probs=102.6
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECceEEE-EecCCCCcceeccccCCCCCCHHHHHHHh
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSV-YDFSEDSIASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp---~~a~VGlITFd~~V~v-y~l~~~~~~~~~V~~g~~~~~~~~l~~~l 349 (874)
++||||+|.+ ...++.+|+.+...++.|+ .+.+||||+|++.++. +.+... ..
T Consensus 3 i~~vlD~SgSM~~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~~~~~~~~~--------------~~------- 61 (198)
T cd01470 3 IYIALDASDSIGEEDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPKEIVSIRDF--------------NS------- 61 (198)
T ss_pred EEEEEECCCCccHHHHHHHHHHHHHHHHHccccCCCceEEEEEecCCceEEEecccC--------------CC-------
Confidence 6899999875 5679999999999998886 3789999999988664 233210 00
Q ss_pred hcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCC
Q 002842 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (874)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGpp 429 (874)
..+..+...|+.+...... ....+.++.||..|...+...... . +. ...+..-.|++++.|-+
T Consensus 62 -----------~~~~~~~~~l~~~~~~~~~---~~ggT~~~~Al~~~~~~l~~~~~~-~-~~-~~~~~~~~iillTDG~~ 124 (198)
T cd01470 62 -----------NDADDVIKRLEDFNYDDHG---DKTGTNTAAALKKVYERMALEKVR-N-KE-AFNETRHVIILFTDGKS 124 (198)
T ss_pred -----------CCHHHHHHHHHhCCccccc---CccchhHHHHHHHHHHHHHHHHhc-C-cc-chhhcceEEEEEcCCCc
Confidence 0111223344454432111 112477889998887766310000 0 00 00001134788999998
Q ss_pred CCCCCcccCCCCCCCchhhhHhHHHHHHHHHH------HHhhcCeEEEEeeecCCCCCcccchhhhccccc--EEEEcCC
Q 002842 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGR------KAHQHNAVIDILCAGNCPVRVPVLQPLAKASGG--VLVLHDD 501 (874)
Q Consensus 430 T~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~------~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG--~v~~~~~ 501 (874)
+.|... ..+.+.++++.. .+.+.++.|..+..+. .++-.+|..++..||| .++..++
T Consensus 125 ~~g~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~v~i~~iGvG~-~~~~~~L~~iA~~~~g~~~~f~~~~ 189 (198)
T cd01470 125 NMGGSP--------------LPTVDKIKNLVYKNNKSDNPREDYLDVYVFGVGD-DVNKEELNDLASKKDNERHFFKLKD 189 (198)
T ss_pred CCCCCh--------------hHHHHHHHHHHhcccccccchhcceeEEEEecCc-ccCHHHHHHHhcCCCCCceEEEeCC
Confidence 875210 122222333211 1234466555555543 4688999999999999 5888888
Q ss_pred hh
Q 002842 502 FG 503 (874)
Q Consensus 502 F~ 503 (874)
|.
T Consensus 190 ~~ 191 (198)
T cd01470 190 YE 191 (198)
T ss_pred HH
Confidence 75
No 30
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.17 E-value=4.1e-05 Score=75.73 Aligned_cols=152 Identities=28% Similarity=0.389 Sum_probs=98.4
Q ss_pred EEEEEECCCC-hhHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhhcCCc
Q 002842 276 IILVIDECLD-EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYGTGV 354 (874)
Q Consensus 276 ~vFvID~s~~-~~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~~~~ 354 (874)
+|||||+|.+ .+..+.++++|...|+.|+++.++.||+||+.+..+.-. . + ..+.
T Consensus 3 vvilvD~S~Sm~g~~~~~k~al~~~l~~L~~~d~fnii~f~~~~~~~~~~--~-----~-----~~~~------------ 58 (155)
T PF13768_consen 3 VVILVDTSGSMSGEKELVKDALRAILRSLPPGDRFNIIAFGSSVRPLFPG--L-----V-----PATE------------ 58 (155)
T ss_pred EEEEEeCCCCCCCcHHHHHHHHHHHHHhCCCCCEEEEEEeCCEeeEcchh--H-----H-----HHhH------------
Confidence 6999999976 333499999999999999999999999999987654311 0 0 0011
Q ss_pred cccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCCC
Q 002842 355 YLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPG 434 (874)
Q Consensus 355 fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~GpG 434 (874)
+.+..+.+.|++++.. ...+.++.||+.|...+.. .+..-.|++++.|.++.+.
T Consensus 59 ------~~~~~a~~~I~~~~~~-------~G~t~l~~aL~~a~~~~~~------------~~~~~~IilltDG~~~~~~- 112 (155)
T PF13768_consen 59 ------ENRQEALQWIKSLEAN-------SGGTDLLAALRAALALLQR------------PGCVRAIILLTDGQPVSGE- 112 (155)
T ss_pred ------HHHHHHHHHHHHhccc-------CCCccHHHHHHHHHHhccc------------CCCccEEEEEEeccCCCCH-
Confidence 1222333444454431 2347899999999998732 1235688999988763321
Q ss_pred cccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEE
Q 002842 435 SVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVL 498 (874)
Q Consensus 435 ~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~ 498 (874)
....+.+ .++. ..+.+..|.++.+ .+-..|+.|++.|||..++
T Consensus 113 ------------------~~i~~~v-~~~~-~~~~i~~~~~g~~-~~~~~L~~LA~~~~G~~~f 155 (155)
T PF13768_consen 113 ------------------EEILDLV-RRAR-GHIRIFTFGIGSD-ADADFLRELARATGGSFHF 155 (155)
T ss_pred ------------------HHHHHHH-HhcC-CCceEEEEEECCh-hHHHHHHHHHHcCCCEEEC
Confidence 1111222 1222 4566777776653 4568899999999998753
No 31
>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=98.16 E-value=0.0011 Score=80.20 Aligned_cols=281 Identities=13% Similarity=0.110 Sum_probs=152.3
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhhc
Q 002842 274 APIILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYG 351 (874)
Q Consensus 274 p~~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~ 351 (874)
.-++||||+|.+ ...++.+|+++..+|..|+++.+++||+|++.++.+- .. ....+.+.
T Consensus 272 ~~vvfvlD~SgSM~g~~i~~ak~al~~~l~~L~~~d~~~ii~F~~~~~~~~--~~----------~~~~~~~~------- 332 (596)
T TIGR03788 272 RELVFVIDTSGSMAGESIEQAKSALLLALDQLRPGDRFNIIQFDSDVTLLF--PV----------PVPATAHN------- 332 (596)
T ss_pred ceEEEEEECCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEECCcceEec--cc----------cccCCHHH-------
Confidence 347999999975 3468889999999999999999999999999987641 10 00111122
Q ss_pred CCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCC
Q 002842 352 TGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTY 431 (874)
Q Consensus 352 ~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~ 431 (874)
...+...|+.|... ..+.+..||..|+....... .+...+|+++++|-.+
T Consensus 333 -----------~~~a~~~i~~l~a~--------GgT~l~~aL~~a~~~~~~~~----------~~~~~~iillTDG~~~- 382 (596)
T TIGR03788 333 -----------LARARQFVAGLQAD--------GGTEMAGALSAALRDDGPES----------SGALRQVVFLTDGAVG- 382 (596)
T ss_pred -----------HHHHHHHHhhCCCC--------CCccHHHHHHHHHHhhcccC----------CCceeEEEEEeCCCCC-
Confidence 12223445555431 34778999999987743210 1123478889988521
Q ss_pred CCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChhhHHHHHHH
Q 002842 432 GPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGEAFGVNLQ 511 (874)
Q Consensus 432 GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~~~f~~dl~ 511 (874)
+ +. +..+.+. ....++.|..|.++.+ .+-..|+.+++.+||..++..+-. .+...+.
T Consensus 383 ------------~----~~---~~~~~~~--~~~~~~ri~tvGiG~~-~n~~lL~~lA~~g~G~~~~i~~~~-~~~~~~~ 439 (596)
T TIGR03788 383 ------------N----ED---ALFQLIR--TKLGDSRLFTVGIGSA-PNSYFMRKAAQFGRGSFTFIGSTD-EVQRKMS 439 (596)
T ss_pred ------------C----HH---HHHHHHH--HhcCCceEEEEEeCCC-cCHHHHHHHHHcCCCEEEECCCHH-HHHHHHH
Confidence 0 01 1122221 1234567777777654 567889999999999888766533 2333333
Q ss_pred HH---HhhccCcceEEEEEeCCCeeEEEeecCCcccccccccccccCccccccccCCCCceEEEEEEEeccCCCCCceEE
Q 002842 512 RA---STRAAGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHETFKNDAALSIQMPSVEETQSFAVSMENKRDIESNHVFF 588 (874)
Q Consensus 512 r~---~~~~~g~~a~l~VR~S~glkV~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~s~~~~~~~~~~~~~~~~~I 588 (874)
+. +......+..+++.. ..+..++ --.++.+-....+.+..+.... ..-|
T Consensus 440 ~~l~~~~~p~l~~v~v~~~~---~~~~~v~--------------------P~~~p~L~~g~~l~v~g~~~~~----~~~i 492 (596)
T TIGR03788 440 QLFAKLEQPALTDIALTFDN---GNAADVY--------------------PSPIPDLYRGEPLQIAIKLQQA----AGEL 492 (596)
T ss_pred HHHHhhcCeEEEEEEEEEcC---Cccceec--------------------cCCCccccCCCEEEEEEEecCC----CCeE
Confidence 33 333344444444432 1112222 1223344444555555553221 1112
Q ss_pred EEEEEEEecCCCEEEEEEeeeeccccchHHHHhhcCHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHhccc
Q 002842 589 QFAIRYSNVYQADISRVVTVRLPTVDSVSAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIALKFGSQ 667 (874)
Q Consensus 589 Qfal~Yt~~~G~rriRV~T~~l~vt~~~~~i~~s~D~ea~~~l~ak~av~~~~~~~~~~d~r~~Ld~~li~ll~~y~~~ 667 (874)
.+.....++... ..+++... -+-..+-.+.||+-+..++.......-.+.+.+.++++-.+|+-.
T Consensus 493 --~v~g~~~~~~~~-----~~~~~~~~-------~~~~~l~~lwA~~~I~~L~~~~~~~~~~~~~~~~Ii~Lsl~y~lv 557 (596)
T TIGR03788 493 --QLTGRTGSQPWS-----QQLDLDSA-------APGKGIDKLWARRKIDSLEDSLRYGANEEKVKDQVTALALNHHLV 557 (596)
T ss_pred --EEEEEcCCceEE-----EEEecCCC-------CCcchHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHhCCC
Confidence 233333333322 22222211 133346667777777665431000011244777899999999743
No 32
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.13 E-value=0.00013 Score=89.68 Aligned_cols=154 Identities=15% Similarity=0.283 Sum_probs=102.8
Q ss_pred CcEEEEEECCCCh---hHHHHHHHHHHHhh-hcCCCCcEEEEEEECceEEEE-ecCCCCcceeccccCCCCCCHHHHHHH
Q 002842 274 APIILVIDECLDE---PHLQHLQSSLHAFV-ESIPPTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKAL 348 (874)
Q Consensus 274 p~~vFvID~s~~~---~~l~~l~~sL~~~L-~~Lp~~a~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~~~~~~l~~~ 348 (874)
..++||||+|.+- ..++.++++++..| +.++++.+||||+|++..++. .|.. +
T Consensus 305 r~VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~l~~~DrVGLVtFsssA~vl~pLt~-------I--------------- 362 (863)
T TIGR00868 305 RIVCLVLDKSGSMTVEDRLKRMNQAAKLFLLQTVEKGSWVGMVTFDSAAYIKNELIQ-------I--------------- 362 (863)
T ss_pred ceEEEEEECCccccccCHHHHHHHHHHHHHHHhCCCCCEEEEEEECCceeEeecccc-------C---------------
Confidence 3479999999762 36888888888765 457889999999999987653 1110 0
Q ss_pred hhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCC
Q 002842 349 LYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (874)
Q Consensus 349 l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGp 428 (874)
.+ ...++.|...| ... ....+++|.||..|+.+|+.... .+.+..|++++.|-
T Consensus 363 --------ts-~~dr~aL~~~L---~~~------A~GGT~I~~GL~~Alq~L~~~~~---------~~~~~~IILLTDGe 415 (863)
T TIGR00868 363 --------TS-SAERDALTANL---PTA------ASGGTSICSGLKAAFQVIKKSYQ---------STDGSEIVLLTDGE 415 (863)
T ss_pred --------Cc-HHHHHHHHHhh---ccc------cCCCCcHHHHHHHHHHHHHhccc---------ccCCCEEEEEeCCC
Confidence 00 01122222222 210 12459999999999999986321 12357899998886
Q ss_pred CCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCCh
Q 002842 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDF 502 (874)
Q Consensus 429 pT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F 502 (874)
.+.+ ..+...+.++|+.|..++++.+. -.+|..+|+.|||..++..+-
T Consensus 416 dn~~------------------------~~~l~~lk~~gVtI~TIg~G~da--d~~L~~IA~~TGG~~f~asd~ 463 (863)
T TIGR00868 416 DNTI------------------------SSCFEEVKQSGAIIHTIALGPSA--AKELEELSDMTGGLRFYASDQ 463 (863)
T ss_pred CCCH------------------------HHHHHHHHHcCCEEEEEEeCCCh--HHHHHHHHHhcCCEEEEeCCH
Confidence 4310 12334456789999999988765 356999999999999988753
No 33
>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=98.12 E-value=0.00029 Score=77.56 Aligned_cols=164 Identities=18% Similarity=0.230 Sum_probs=97.2
Q ss_pred CCcEEEEEECCCC-hhHHHHHHHHHHHhhhc-CCCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhh
Q 002842 273 SAPIILVIDECLD-EPHLQHLQSSLHAFVES-IPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLY 350 (874)
Q Consensus 273 ~p~~vFvID~s~~-~~~l~~l~~sL~~~L~~-Lp~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~ 350 (874)
+..++||||+|.+ .+.+..+++++...++. +.++.+||||+|++.+++.. .. .
T Consensus 53 p~~vvlvlD~SgSM~~~~~~a~~a~~~~l~~~l~~~d~v~lv~f~~~~~~~~-~~---------t--------------- 107 (296)
T TIGR03436 53 PLTVGLVIDTSGSMRNDLDRARAAAIRFLKTVLRPNDRVFVVTFNTRLRLLQ-DF---------T--------------- 107 (296)
T ss_pred CceEEEEEECCCCchHHHHHHHHHHHHHHHhhCCCCCEEEEEEeCCceeEee-cC---------C---------------
Confidence 4557999999976 55688888899888877 78899999999998876521 00 0
Q ss_pred cCCccccchhhhHHHHHHHHHhhcCCcccc------c-cCCCCCchHHHHHHH-HHHhcCCCccccccccccCCCCcEEE
Q 002842 351 GTGVYLSPMHASKQVAHDIFSSLRPYKLNI------T-EASRDRCLGTAVEVA-LAIIQGPSAEMSRGVVKRPGGNSRII 422 (874)
Q Consensus 351 ~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~------~-~~~r~rc~G~AL~vA-~~lL~~~~~~~~~~~~~~~~~ggrIi 422 (874)
..+..|...|+.|.....+. . .....++++.||..| ..++...... .. +...|+
T Consensus 108 ----------~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~~-------~p-~rk~iI 169 (296)
T TIGR03436 108 ----------SDPRLLEAALNRLKPPLRTDYNSSGAFVRDGGGTALYDAITLAALEQLANALAG-------IP-GRKALI 169 (296)
T ss_pred ----------CCHHHHHHHHHhccCCCccccccccccccCCCcchhHHHHHHHHHHHHHHhhcC-------CC-CCeEEE
Confidence 01122333444443310000 0 001236777887544 4454431100 01 123466
Q ss_pred EEecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCC------------CCcccchhhhc
Q 002842 423 VCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCP------------VRVPVLQPLAK 490 (874)
Q Consensus 423 ~F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~------------vglaem~~l~~ 490 (874)
+|++|..+. ...-++++.+.+.+++|.|..+.++... .+-..|..+|+
T Consensus 170 llTDG~~~~--------------------~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L~~iA~ 229 (296)
T TIGR03436 170 VISDGGDNR--------------------SRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEALERLAE 229 (296)
T ss_pred EEecCCCcc--------------------hHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHHHHHHH
Confidence 777673211 1122456777788889888877765211 23467999999
Q ss_pred ccccEEEEc
Q 002842 491 ASGGVLVLH 499 (874)
Q Consensus 491 ~TGG~v~~~ 499 (874)
.|||..++.
T Consensus 230 ~TGG~~~~~ 238 (296)
T TIGR03436 230 ETGGRAFYV 238 (296)
T ss_pred HhCCeEecc
Confidence 999997764
No 34
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=98.10 E-value=8e-05 Score=78.69 Aligned_cols=159 Identities=16% Similarity=0.228 Sum_probs=97.9
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECceEEEE-ecCCCCcceeccccCCCCCCHHHHHHHh
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~L---p~~a~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~~~~~~l~~~l 349 (874)
++||||.|.+ ...++.+|+.++..++.| +..++||||+|++.+++. .|.. .
T Consensus 5 lvfllD~S~Sm~~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~~~~~l~~--------------~--------- 61 (224)
T cd01475 5 LVFLIDSSRSVRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQEFPLGR--------------F--------- 61 (224)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHHhcccCCCccEEEEEEecCceeEEecccc--------------c---------
Confidence 6999999975 567999999999888876 357899999999987652 1110 0
Q ss_pred hcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccC-CCCcEEEEEecCC
Q 002842 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRP-GGNSRIIVCAGGP 428 (874)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~-~~ggrIi~F~sGp 428 (874)
..+..+.+.|+.++.. ...+.+|.||..|...+-.... +.-... +....|++|+.|.
T Consensus 62 -----------~~~~~l~~~i~~i~~~-------~~~t~tg~AL~~a~~~~~~~~~----g~r~~~~~~~kvvillTDG~ 119 (224)
T cd01475 62 -----------KSKADLKRAVRRMEYL-------ETGTMTGLAIQYAMNNAFSEAE----GARPGSERVPRVGIVVTDGR 119 (224)
T ss_pred -----------CCHHHHHHHHHhCcCC-------CCCChHHHHHHHHHHHhCChhc----CCCCCCCCCCeEEEEEcCCC
Confidence 0112233445555432 1236789999999865321000 000000 0012357777786
Q ss_pred CCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccc-cEEEEcCChhh
Q 002842 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASG-GVLVLHDDFGE 504 (874)
Q Consensus 429 pT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TG-G~v~~~~~F~~ 504 (874)
.+. . .++.++++.+.||.| |+.+....+..+|..++..++ +.++..++|++
T Consensus 120 s~~------------~-----------~~~~a~~lk~~gv~i--~~VgvG~~~~~~L~~ias~~~~~~~f~~~~~~~ 171 (224)
T cd01475 120 PQD------------D-----------VSEVAAKARALGIEM--FAVGVGRADEEELREIASEPLADHVFYVEDFST 171 (224)
T ss_pred Ccc------------c-----------HHHHHHHHHHCCcEE--EEEeCCcCCHHHHHHHhCCCcHhcEEEeCCHHH
Confidence 421 0 134566777788654 554444567889999997765 57888888864
No 35
>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=98.08 E-value=0.00015 Score=72.38 Aligned_cols=159 Identities=21% Similarity=0.295 Sum_probs=102.3
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhhc
Q 002842 274 APIILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYG 351 (874)
Q Consensus 274 p~~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~ 351 (874)
..++||+|+|.+ ...++.++++|...+..+++..+|+||+|++.++.+--.. +. ...+.+
T Consensus 3 ~~v~~vlD~S~SM~~~~~~~~~~al~~~l~~l~~~~~~~l~~Fs~~~~~~~~~~-------~~-----~~~~~~------ 64 (171)
T cd01461 3 KEVVFVIDTSGSMSGTKIEQTKEALLTALKDLPPGDYFNIIGFSDTVEEFSPSS-------VS-----ATAENV------ 64 (171)
T ss_pred ceEEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEeCCCceeecCcc-------ee-----CCHHHH------
Confidence 357999999975 3458899999999999999888999999998866431100 00 001111
Q ss_pred CCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCC
Q 002842 352 TGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTY 431 (874)
Q Consensus 352 ~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~ 431 (874)
..+.+.|+.+.. ...+.++.||..|...+... .+....|++|+.|..+.
T Consensus 65 ------------~~~~~~l~~~~~--------~g~T~l~~al~~a~~~l~~~-----------~~~~~~iillTDG~~~~ 113 (171)
T cd01461 65 ------------AAAIEYVNRLQA--------LGGTNMNDALEAALELLNSS-----------PGSVPQIILLTDGEVTN 113 (171)
T ss_pred ------------HHHHHHHHhcCC--------CCCcCHHHHHHHHHHhhccC-----------CCCccEEEEEeCCCCCC
Confidence 112233444432 12367899999999988641 12346788888886311
Q ss_pred CCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChh
Q 002842 432 GPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (874)
Q Consensus 432 GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~ 503 (874)
..+++ +..+++.+.++.|..+.++. ..+...|+.+++.|||..++..+-+
T Consensus 114 --------------------~~~~~-~~~~~~~~~~i~i~~i~~g~-~~~~~~l~~ia~~~gG~~~~~~~~~ 163 (171)
T cd01461 114 --------------------ESQIL-KNVREALSGRIRLFTFGIGS-DVNTYLLERLAREGRGIARRIYETD 163 (171)
T ss_pred --------------------HHHHH-HHHHHhcCCCceEEEEEeCC-ccCHHHHHHHHHcCCCeEEEecChH
Confidence 01222 33344455577777766653 3466789999999999999887754
No 36
>cd01469 vWA_integrins_alpha_subunit Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration. Integrins consist of an alpha and a beta sub-unit. Each sub-unit has a large extracellular portion, a single transmembrane segment and a short cytoplasmic domain. The N-terminal domains of the alpha and beta subunits associate to form the integrin headpiece, which contains the ligand binding site, whereas the C-terminal segments traverse the plasma membrane and mediate interaction with the cytoskeleton and with signalling proteins.The VWA domains present in the alpha subunits of integrins seem to be a chordate specific radiation of the gene family being found only in vertebrates. They mediate protein-protein interactions.
Probab=97.89 E-value=0.00059 Score=69.40 Aligned_cols=160 Identities=14% Similarity=0.213 Sum_probs=99.2
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECceEEEE-ecCCCCcceeccccCCCCCCHHHHHHHh
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp---~~a~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~~~~~~l~~~l 349 (874)
++||||.|.+ ...++.+++.++..++.+. .++|||+|+|++..++. .+.. +.
T Consensus 3 i~fvlD~S~S~~~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~~~~~l~~--------------~~-------- 60 (177)
T cd01469 3 IVFVLDGSGSIYPDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFRTEFTLNE--------------YR-------- 60 (177)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCceeEEEecCc--------------cC--------
Confidence 6899999975 4578999999998888775 57999999999987642 2221 00
Q ss_pred hcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCC
Q 002842 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (874)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGpp 429 (874)
....+.+.++.++.. ...+.+|.||..|...+-.... + .+.+....+++++.|..
T Consensus 61 ------------~~~~~~~~i~~~~~~-------~g~T~~~~AL~~a~~~l~~~~~----g--~R~~~~kv~illTDG~~ 115 (177)
T cd01469 61 ------------TKEEPLSLVKHISQL-------LGLTNTATAIQYVVTELFSESN----G--ARKDATKVLVVITDGES 115 (177)
T ss_pred ------------CHHHHHHHHHhCccC-------CCCccHHHHHHHHHHHhcCccc----C--CCCCCCeEEEEEeCCCC
Confidence 011122334444321 1238899999999887621100 0 01112334777788876
Q ss_pred CCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCC---CCcccchhhhccccc-EEEEcCChh
Q 002842 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCP---VRVPVLQPLAKASGG-VLVLHDDFG 503 (874)
Q Consensus 430 T~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~---vglaem~~l~~~TGG-~v~~~~~F~ 503 (874)
+.|+- . +..++.+.+.|+.|-.+..+.+. .+..+|..++..+++ +++..++|+
T Consensus 116 ~~~~~-------------~--------~~~~~~~k~~gv~v~~Vgvg~~~~~~~~~~~L~~ias~p~~~h~f~~~~~~ 172 (177)
T cd01469 116 HDDPL-------------L--------KDVIPQAEREGIIRYAIGVGGHFQRENSREELKTIASKPPEEHFFNVTDFA 172 (177)
T ss_pred CCccc-------------c--------HHHHHHHHHCCcEEEEEEecccccccccHHHHHHHhcCCcHHhEEEecCHH
Confidence 53220 0 23444566788876666665532 346889999988874 777777775
No 37
>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=97.85 E-value=0.00054 Score=69.00 Aligned_cols=157 Identities=16% Similarity=0.214 Sum_probs=93.5
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECceEEEE-ecCCCCcceeccccCCCCCCHHHHHHHh
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp---~~a~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~~~~~~l~~~l 349 (874)
++|+||.|.+ ...++.+|+.++..++.+. ..++||+|+|++..+++ +|+.. .
T Consensus 3 ivfllD~S~Si~~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~~~~~l~~~-------------~--------- 60 (165)
T cd01481 3 IVFLIDGSDNVGSGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPRPEFYLNTH-------------S--------- 60 (165)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCeeEEEecccc-------------C---------
Confidence 6899999875 5789999999999888774 67999999998876542 22110 0
Q ss_pred hcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCC
Q 002842 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (874)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGpp 429 (874)
.+..+.+.|+.++.. +...+-+|.||..+...+-.... +.-.+.+..-.++++++|..
T Consensus 61 ------------~~~~l~~~i~~i~~~------~g~~t~t~~AL~~~~~~~f~~~~----g~R~~~~~~kv~vviTdG~s 118 (165)
T cd01481 61 ------------TKADVLGAVRRLRLR------GGSQLNTGSALDYVVKNLFTKSA----GSRIEEGVPQFLVLITGGKS 118 (165)
T ss_pred ------------CHHHHHHHHHhcccC------CCCcccHHHHHHHHHHhhcCccc----cCCccCCCCeEEEEEeCCCC
Confidence 112223344454321 11236799999988765432110 00000000113567777754
Q ss_pred CCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCCh
Q 002842 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDF 502 (874)
Q Consensus 430 T~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F 502 (874)
+. . .++-|+++.+.|| .+|+.+...++..+|..++... -.++..++|
T Consensus 119 ~d------------~-----------~~~~a~~lr~~gv--~i~~vG~~~~~~~eL~~ias~p-~~vf~v~~f 165 (165)
T cd01481 119 QD------------D-----------VERPAVALKRAGI--VPFAIGARNADLAELQQIAFDP-SFVFQVSDF 165 (165)
T ss_pred cc------------h-----------HHHHHHHHHHCCc--EEEEEeCCcCCHHHHHHHhCCC-ccEEEecCC
Confidence 20 0 2345667777775 5677666667888888887655 356655554
No 38
>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=97.78 E-value=0.00083 Score=67.26 Aligned_cols=153 Identities=18% Similarity=0.254 Sum_probs=91.9
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECceEEEE-ecCCCCcceeccccCCCCCCHHHHHHHh
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~L---p~~a~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~~~~~~l~~~l 349 (874)
++||||.|.+ ...++.+++.++..++.+ +++.+||||+|++..++. .+.. +
T Consensus 3 v~~vlD~S~Sm~~~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~~~~~l~~--------------~--------- 59 (164)
T cd01482 3 IVFLVDGSWSIGRSNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPRTEFDLNA--------------Y--------- 59 (164)
T ss_pred EEEEEeCCCCcChhhHHHHHHHHHHHHhheeeCCCceEEEEEEECCCeeEEEecCC--------------C---------
Confidence 6999999875 456888888888877765 468999999999876542 1110 0
Q ss_pred hcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHh-cCCCccccccccccCCCCcEEEEEecCC
Q 002842 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAII-QGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (874)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL-~~~~~~~~~~~~~~~~~ggrIi~F~sGp 428 (874)
.....+.+.|++++.. ...+.+|.||..|...+ .... + .+.+....|++|+.|.
T Consensus 60 -----------~~~~~l~~~l~~~~~~-------~g~T~~~~aL~~a~~~~~~~~~-----~--~r~~~~k~iillTDG~ 114 (164)
T cd01482 60 -----------TSKEDVLAAIKNLPYK-------GGNTRTGKALTHVREKNFTPDA-----G--ARPGVPKVVILITDGK 114 (164)
T ss_pred -----------CCHHHHHHHHHhCcCC-------CCCChHHHHHHHHHHHhccccc-----C--CCCCCCEEEEEEcCCC
Confidence 0112223344444321 13478999999877644 3210 0 0011234588888886
Q ss_pred CCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhccccc-EEEEcCC
Q 002842 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGG-VLVLHDD 501 (874)
Q Consensus 429 pT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG-~v~~~~~ 501 (874)
++. . .++.++++.+.||. +|+++.+..+..+|..++..+.+ .++...+
T Consensus 115 ~~~---------------~--------~~~~a~~lk~~gi~--i~~ig~g~~~~~~L~~ia~~~~~~~~~~~~d 163 (164)
T cd01482 115 SQD---------------D--------VELPARVLRNLGVN--VFAVGVKDADESELKMIASKPSETHVFNVAD 163 (164)
T ss_pred CCc---------------h--------HHHHHHHHHHCCCE--EEEEecCcCCHHHHHHHhCCCchheEEEcCC
Confidence 431 0 13456777777774 55555444567788888888654 4554443
No 39
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=97.72 E-value=0.00082 Score=65.95 Aligned_cols=149 Identities=18% Similarity=0.261 Sum_probs=96.3
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECceEEE-EecCCCCcceeccccCCCCCCHHHHHHHh
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSV-YDFSEDSIASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp---~~a~VGlITFd~~V~v-y~l~~~~~~~~~V~~g~~~~~~~~l~~~l 349 (874)
++||||+|.+ ...++.+++.+...+..+. ++.+||||+|++.... +++... .
T Consensus 3 i~~llD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~~~~~~~~-------------~--------- 60 (161)
T cd01450 3 IVFLLDGSESVGPENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEFSLNDY-------------K--------- 60 (161)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceEEEECCCC-------------C---------
Confidence 5899999875 4478888888888887765 4899999999885443 212110 0
Q ss_pred hcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCC
Q 002842 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (874)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGpp 429 (874)
.+..+.+.|+.+.... ...+.++.||..|...+..... ++.+....|++|++|.+
T Consensus 61 ------------~~~~~~~~i~~~~~~~------~~~t~~~~al~~a~~~~~~~~~-------~~~~~~~~iiliTDG~~ 115 (161)
T cd01450 61 ------------SKDDLLKAVKNLKYLG------GGGTNTGKALQYALEQLFSESN-------ARENVPKVIIVLTDGRS 115 (161)
T ss_pred ------------CHHHHHHHHHhcccCC------CCCccHHHHHHHHHHHhccccc-------ccCCCCeEEEEECCCCC
Confidence 1122233344443211 1248899999999999875310 01123457888889987
Q ss_pred CCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhccccc
Q 002842 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGG 494 (874)
Q Consensus 430 T~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG 494 (874)
+.+. -..++.+++.+.++.|..+..+. .+...|..++..+|+
T Consensus 116 ~~~~---------------------~~~~~~~~~~~~~v~v~~i~~g~--~~~~~l~~la~~~~~ 157 (161)
T cd01450 116 DDGG---------------------DPKEAAAKLKDEGIKVFVVGVGP--ADEEELREIASCPSE 157 (161)
T ss_pred CCCc---------------------chHHHHHHHHHCCCEEEEEeccc--cCHHHHHHHhCCCCC
Confidence 6542 01345556667788888887766 678889999988843
No 40
>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=97.68 E-value=0.0011 Score=66.29 Aligned_cols=160 Identities=18% Similarity=0.300 Sum_probs=95.1
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECceEEE-EecCCCCcceeccccCCCCCCHHHHHHHh
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVSV-YDFSEDSIASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~L---p~~a~VGlITFd~~V~v-y~l~~~~~~~~~V~~g~~~~~~~~l~~~l 349 (874)
++||||.|.+ ...++.+++.+...++.+ +.+++||+|+|++.+++ +.+...
T Consensus 2 ivflvD~S~sm~~~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~~~~~~~~~----------------------- 58 (178)
T PF00092_consen 2 IVFLVDTSGSMSGDNFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSARVLFSLTDY----------------------- 58 (178)
T ss_dssp EEEEEE-STTSCHHHHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEEEEEETTSH-----------------------
T ss_pred EEEEEeCCCCCchHHHHHHHHHHHHHHHhhhccccccccceeeeecccccccccccc-----------------------
Confidence 5899999975 457888999988888854 57899999999998863 222210
Q ss_pred hcCCccccchhhhHHHHHHHH-HhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCC
Q 002842 350 YGTGVYLSPMHASKQVAHDIF-SSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (874)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL-e~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGp 428 (874)
.....+.+.+ ..+.. ....+.+|.||..|...+..... + .+.+...-|++++.|.
T Consensus 59 -----------~~~~~~~~~i~~~~~~-------~~g~t~~~~aL~~a~~~l~~~~~----~--~r~~~~~~iiliTDG~ 114 (178)
T PF00092_consen 59 -----------QSKNDLLNAINDSIPS-------SGGGTNLGAALKFAREQLFSSNN----G--GRPNSPKVIILITDGN 114 (178)
T ss_dssp -----------SSHHHHHHHHHTTGGC-------CBSSB-HHHHHHHHHHHTTSGGG----T--TGTTSEEEEEEEESSS
T ss_pred -----------cccccccccccccccc-------cchhhhHHHHHhhhhhccccccc----c--cccccccceEEEEeec
Confidence 0011111112 22211 22457799999999999865200 0 0112234577778887
Q ss_pred CCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcc--cccEEEEcCChhh
Q 002842 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKA--SGGVLVLHDDFGE 504 (874)
Q Consensus 429 pT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~--TGG~v~~~~~F~~ 504 (874)
++.++ ....... .+. +. ..|.+|+.+.+..+..+|..++.. .+|.+++..+|.+
T Consensus 115 ~~~~~----------------~~~~~~~-~~~----~~-~~i~~~~ig~~~~~~~~l~~la~~~~~~~~~~~~~~~~~ 170 (178)
T PF00092_consen 115 SNDSD----------------SPSEEAA-NLK----KS-NGIKVIAIGIDNADNEELRELASCPTSEGHVFYLADFSD 170 (178)
T ss_dssp SSSHS----------------GHHHHHH-HHH----HH-CTEEEEEEEESCCHHHHHHHHSHSSTCHHHEEEESSHHH
T ss_pred ccCCc----------------chHHHHH-HHH----Hh-cCcEEEEEecCcCCHHHHHHHhCCCCCCCcEEEcCCHHH
Confidence 64421 0111111 111 11 455667666667788889999855 4578888888864
No 41
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell. In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners.
Probab=97.68 E-value=0.0017 Score=66.34 Aligned_cols=151 Identities=15% Similarity=0.203 Sum_probs=91.3
Q ss_pred EEEEEECCCC--hhH-HHHHHHHHHHhhhcCC---CCcEEEEEEECceEEE-EecCCCCcceeccccCCCCCCHHHHHHH
Q 002842 276 IILVIDECLD--EPH-LQHLQSSLHAFVESIP---PTARIGIILYGRTVSV-YDFSEDSIASSDVLAGDKLPTEDSLKAL 348 (874)
Q Consensus 276 ~vFvID~s~~--~~~-l~~l~~sL~~~L~~Lp---~~a~VGlITFd~~V~v-y~l~~~~~~~~~V~~g~~~~~~~~l~~~ 348 (874)
++||||.|.+ ... ++.+|+.+...++.+. ++.+||+|+|++.++. +.+....
T Consensus 3 v~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~~~l~~~~--------------------- 61 (186)
T cd01471 3 LYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELIRLSSPN--------------------- 61 (186)
T ss_pred EEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEEEECCCcc---------------------
Confidence 6899999975 445 8889999988888774 6789999999987763 3333210
Q ss_pred hhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCC
Q 002842 349 LYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (874)
Q Consensus 349 l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGp 428 (874)
...+..+.++++.|..... ....++++.||..|...+..... .+.+....|++++.|.
T Consensus 62 -----------~~~~~~~~~~i~~l~~~~~----~~G~T~l~~aL~~a~~~l~~~~~-------~r~~~~~~villTDG~ 119 (186)
T cd01471 62 -----------STNKDLALNAIRALLSLYY----PNGSTNTTSALLVVEKHLFDTRG-------NRENAPQLVIIMTDGI 119 (186)
T ss_pred -----------ccchHHHHHHHHHHHhCcC----CCCCccHHHHHHHHHHHhhccCC-------CcccCceEEEEEccCC
Confidence 0011112223333332211 12348899999999999864200 0112234688888887
Q ss_pred CCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcc
Q 002842 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKA 491 (874)
Q Consensus 429 pT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~ 491 (874)
++.+.. + ...++++.+.|+.|-++..+. ..+..+|+.++..
T Consensus 120 ~~~~~~-----------------~----~~~a~~l~~~gv~v~~igiG~-~~d~~~l~~ia~~ 160 (186)
T cd01471 120 PDSKFR-----------------T----LKEARKLRERGVIIAVLGVGQ-GVNHEENRSLVGC 160 (186)
T ss_pred CCCCcc-----------------h----hHHHHHHHHCCCEEEEEEeeh-hhCHHHHHHhcCC
Confidence 643210 0 123556667787766666653 4667777777654
No 42
>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=97.65 E-value=0.00099 Score=68.89 Aligned_cols=152 Identities=18% Similarity=0.309 Sum_probs=88.1
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcC---------CCCcEEEEEEECceEEEE-ecCCCCcceeccccCCCCCCHH
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESI---------PPTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTED 343 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~L---------p~~a~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~~~~~ 343 (874)
+|||||.|.+ ...++.+|+.|...+..+ |..+|||||+|++..++. +|.. . .+.+
T Consensus 22 ivfvlD~S~Sm~~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~~~~L~d-------~------~~~~ 88 (193)
T cd01477 22 IVFVVDNSKGMTQGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATVVADLND-------L------QSFD 88 (193)
T ss_pred EEEEEeCCCCcchhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEEEEeccc-------c------cCHH
Confidence 6999999976 667899998888776543 446899999999987653 3321 0 0111
Q ss_pred HHHHHhhcCCccccchhhhHHHHHHHHHh-hcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcE-E
Q 002842 344 SLKALLYGTGVYLSPMHASKQVAHDIFSS-LRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSR-I 421 (874)
Q Consensus 344 ~l~~~l~~~~~fL~pl~e~~~~i~~lLe~-L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggr-I 421 (874)
++ .+.|+. +.... ....+.+|.||..|..++.... ++ .+.+ -.| +
T Consensus 89 ~~---------------------~~ai~~~~~~~~-----~~ggT~ig~aL~~A~~~l~~~~----~~--~R~~-v~kvv 135 (193)
T cd01477 89 DL---------------------YSQIQGSLTDVS-----STNASYLDTGLQAAEQMLAAGK----RT--SREN-YKKVV 135 (193)
T ss_pred HH---------------------HHHHHHHhhccc-----cCCcchHHHHHHHHHHHHHhhh----cc--ccCC-CCeEE
Confidence 11 112221 11110 0124789999999999996410 00 0011 245 6
Q ss_pred EEEecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhccccc
Q 002842 422 IVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGG 494 (874)
Q Consensus 422 i~F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG 494 (874)
|++++|-.+.|-+ . ....|+++.+.||.|-.+..+.+ .|...|..|++..++
T Consensus 136 IllTDg~~~~~~~---------------~-----~~~~a~~l~~~GI~i~tVGiG~~-~d~~~~~~L~~ias~ 187 (193)
T cd01477 136 IVFASDYNDEGSN---------------D-----PRPIAARLKSTGIAIITVAFTQD-ESSNLLDKLGKIASP 187 (193)
T ss_pred EEEecCccCCCCC---------------C-----HHHHHHHHHHCCCEEEEEEeCCC-CCHHHHHHHHHhcCC
Confidence 6666663221100 0 13467788899998888887753 343345555555443
No 43
>smart00327 VWA von Willebrand factor (vWF) type A domain. VWA domains in extracellular eukaryotic proteins mediate adhesion via metal ion-dependent adhesion sites (MIDAS). Intracellular VWA domains and homologues in prokaryotes have recently been identified. The proposed VWA domains in integrin beta subunits have recently been substantiated using sequence-based methods.
Probab=97.53 E-value=0.0047 Score=61.42 Aligned_cols=157 Identities=21% Similarity=0.285 Sum_probs=101.7
Q ss_pred cEEEEEECCCC--hhHHHHHHHHHHHhhhcCCC---CcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHh
Q 002842 275 PIILVIDECLD--EPHLQHLQSSLHAFVESIPP---TARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 275 ~~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp~---~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l 349 (874)
.++||||+|.+ ...++.+++.+...+..+.. +.+||+|+|++..+.+.- +.+
T Consensus 3 ~v~l~vD~S~SM~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~~~~----------~~~------------- 59 (177)
T smart00327 3 DVVFLLDGSGSMGPNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATVLFP----------LND------------- 59 (177)
T ss_pred cEEEEEeCCCccchHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceEEEc----------ccc-------------
Confidence 37999999875 56788899888888888875 899999999985443210 000
Q ss_pred hcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCC
Q 002842 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (874)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGpp 429 (874)
......+...++.+... .....-++.||..|...+...... .+.+....|++|++|.+
T Consensus 60 ----------~~~~~~~~~~i~~~~~~------~~~~~~~~~al~~~~~~~~~~~~~------~~~~~~~~iviitDg~~ 117 (177)
T smart00327 60 ----------SRSKDALLEALASLSYK------LGGGTNLGAALQYALENLFSKSAG------SRRGAPKVLILITDGES 117 (177)
T ss_pred ----------cCCHHHHHHHHHhcCCC------CCCCchHHHHHHHHHHHhcCcCCC------CCCCCCeEEEEEcCCCC
Confidence 01122233445554431 113367899999999888531100 00111346777787876
Q ss_pred CCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEE
Q 002842 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVL 498 (874)
Q Consensus 430 T~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~ 498 (874)
+.+ +.+.+...++.+.+|.+..+.++.+. +-..|..++..++|...+
T Consensus 118 ~~~---------------------~~~~~~~~~~~~~~i~i~~i~~~~~~-~~~~l~~~~~~~~~~~~~ 164 (177)
T smart00327 118 NDG---------------------GDLLKAAKELKRSGVKVFVVGVGNDV-DEEELKKLASAPGGVYVF 164 (177)
T ss_pred CCC---------------------ccHHHHHHHHHHCCCEEEEEEccCcc-CHHHHHHHhCCCcceEEe
Confidence 543 12345666777888888888877653 678899999999997655
No 44
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=97.43 E-value=0.004 Score=74.61 Aligned_cols=167 Identities=13% Similarity=0.158 Sum_probs=107.0
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhc-CCCCcEEEEEEECce-EEEEecCCCCcceeccccCCCCCCHHHHHHHh
Q 002842 274 APIILVIDECLD--EPHLQHLQSSLHAFVES-IPPTARIGIILYGRT-VSVYDFSEDSIASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 274 p~~vFvID~s~~--~~~l~~l~~sL~~~L~~-Lp~~a~VGlITFd~~-V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l 349 (874)
-.++||||+|.+ ...+..+|.++...|.. +.++-+||||+|++. ..+- +. ++.
T Consensus 402 ~~vvfvvD~SGSM~~~rl~~aK~a~~~ll~~ay~~rD~v~lI~F~g~~a~~~-lp---------------pT~------- 458 (584)
T PRK13406 402 TTTIFVVDASGSAALHRLAEAKGAVELLLAEAYVRRDQVALVAFRGRGAELL-LP---------------PTR------- 458 (584)
T ss_pred ccEEEEEECCCCCcHhHHHHHHHHHHHHHHhhcCCCCEEEEEEECCCceeEE-cC---------------CCc-------
Confidence 457999999976 35789999999888855 567889999999654 4320 11 010
Q ss_pred hcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCC
Q 002842 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (874)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGpp 429 (874)
+...+...|+.|+. ...+.++.||..|..+++.... .+.--+|++++.|-.
T Consensus 459 ------------~~~~~~~~L~~l~~--------gGgTpL~~gL~~A~~~l~~~~~---------~~~~~~iVLlTDG~~ 509 (584)
T PRK13406 459 ------------SLVRAKRSLAGLPG--------GGGTPLAAGLDAAAALALQVRR---------KGMTPTVVLLTDGRA 509 (584)
T ss_pred ------------CHHHHHHHHhcCCC--------CCCChHHHHHHHHHHHHHHhcc---------CCCceEEEEEeCCCC
Confidence 11122233444432 1348899999999998864210 122357888999999
Q ss_pred CCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChhh
Q 002842 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE 504 (874)
Q Consensus 430 T~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~~ 504 (874)
|.|-+.-..+. . .. ..+ ..++..+.+.||.+-++.++... ...+..|++.+||..+..+.-+.
T Consensus 510 n~~~~~~~~~~--~--~~--~~~----~~~a~~~~~~gi~~~vId~g~~~--~~~~~~LA~~~gg~y~~l~~~~a 572 (584)
T PRK13406 510 NIARDGTAGRA--Q--AE--EDA----LAAARALRAAGLPALVIDTSPRP--QPQARALAEAMGARYLPLPRADA 572 (584)
T ss_pred CCCcccccccc--c--hh--hHH----HHHHHHHHhcCCeEEEEecCCCC--cHHHHHHHHhcCCeEEECCCCCH
Confidence 88654221110 0 00 111 34577778888776666665443 34589999999999999988764
No 45
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=97.41 E-value=0.0046 Score=74.59 Aligned_cols=174 Identities=14% Similarity=0.159 Sum_probs=112.7
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhc-CCCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhh
Q 002842 274 APIILVIDECLD--EPHLQHLQSSLHAFVES-IPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLY 350 (874)
Q Consensus 274 p~~vFvID~s~~--~~~l~~l~~sL~~~L~~-Lp~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~ 350 (874)
..++||||+|.+ ...++.+|.++...+.. +..+.+||||+|++...-+-+.. +
T Consensus 408 ~~v~fvvD~SGSM~~~rl~~aK~av~~Ll~~~~~~~D~v~Li~F~~~~a~~~lp~---------------t--------- 463 (589)
T TIGR02031 408 RLLIFVVDASGSAAVARMSEAKGAVELLLGEAYVHRDQVSLIAFRGTAAEVLLPP---------------S--------- 463 (589)
T ss_pred ceEEEEEECCCCCChHHHHHHHHHHHHHHHhhccCCCEEEEEEECCCCceEECCC---------------C---------
Confidence 457899999976 34689999998888865 45677999999975431111111 0
Q ss_pred cCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCC
Q 002842 351 GTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNT 430 (874)
Q Consensus 351 ~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT 430 (874)
.....+...|+.|+. ...+.++.||..|..+++.... .+.--+|++++.|-+|
T Consensus 464 ----------~~~~~~~~~L~~l~~--------gGgTpL~~gL~~A~~~~~~~~~---------~~~~~~ivllTDG~~n 516 (589)
T TIGR02031 464 ----------RSVEQAKRRLDVLPG--------GGGTPLAAGLAAAFQTALQARS---------SGGTPTIVLITDGRGN 516 (589)
T ss_pred ----------CCHHHHHHHHhcCCC--------CCCCcHHHHHHHHHHHHHHhcc---------cCCceEEEEECCCCCC
Confidence 011112233555543 1347899999999999864210 1112479999999999
Q ss_pred CCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChh
Q 002842 431 YGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (874)
Q Consensus 431 ~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~ 503 (874)
.|-+..... .+.. . +.+.+-...++.++.+.||.+-++-+...+.+...+..|++..||..++.++-+
T Consensus 517 v~~~~~~~~-~~~~---~-~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~y~~l~~~~ 584 (589)
T TIGR02031 517 IPLDGDPES-IKAD---R-EQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAHYIYLPNAT 584 (589)
T ss_pred CCCCccccc-cccc---c-hhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCcEEeCCCCC
Confidence 875321100 0000 1 123344466788899999887777777777666678999999999999988754
No 46
>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=97.37 E-value=0.0077 Score=59.88 Aligned_cols=108 Identities=19% Similarity=0.350 Sum_probs=65.8
Q ss_pred EEEEEECCCC-hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECc--eEEE-EecCCCCcceeccccCCCCCCHHHHHHH
Q 002842 276 IILVIDECLD-EPHLQHLQSSLHAFVESIP---PTARIGIILYGR--TVSV-YDFSEDSIASSDVLAGDKLPTEDSLKAL 348 (874)
Q Consensus 276 ~vFvID~s~~-~~~l~~l~~sL~~~L~~Lp---~~a~VGlITFd~--~V~v-y~l~~~~~~~~~V~~g~~~~~~~~l~~~ 348 (874)
++||||+|.+ .+.++..++.++..++.|. ...+||+|+|++ ..++ +.+...
T Consensus 3 v~~llD~S~Sm~~~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~~~~~~l~~~---------------------- 60 (163)
T cd01476 3 LLFVLDSSGSVRGKFEKYKKYIERIVEGLEIGPTATRVALITYSGRGRQRVRFNLPKH---------------------- 60 (163)
T ss_pred EEEEEeCCcchhhhHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCceEEEecCCCC----------------------
Confidence 6899999976 3456777777888777764 489999999988 4443 222110
Q ss_pred hhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCC
Q 002842 349 LYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (874)
Q Consensus 349 l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGp 428 (874)
..+..+...|++|+.. ...+.+|.||..|..++..... .+.+....|++++.|.
T Consensus 61 ------------~~~~~l~~~i~~l~~~-------gg~T~l~~aL~~a~~~l~~~~~-------~r~~~~~~villTDG~ 114 (163)
T cd01476 61 ------------NDGEELLEKVDNLRFI-------GGTTATGAAIEVALQQLDPSEG-------RREGIPKVVVVLTDGR 114 (163)
T ss_pred ------------CCHHHHHHHHHhCccC-------CCCccHHHHHHHHHHHhccccC-------CCCCCCeEEEEECCCC
Confidence 0112233345555421 1247899999999999962110 0011224678888886
Q ss_pred CCC
Q 002842 429 NTY 431 (874)
Q Consensus 429 pT~ 431 (874)
.+.
T Consensus 115 ~~~ 117 (163)
T cd01476 115 SHD 117 (163)
T ss_pred CCC
Confidence 643
No 47
>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=97.35 E-value=0.0094 Score=61.55 Aligned_cols=164 Identities=13% Similarity=0.192 Sum_probs=94.4
Q ss_pred EEEEEECCCC--hhHHH-HHHHHHHHhhhcCC---CCcEEEEEEECceEEEE-ecCCCCcceeccccCCCCCCHHHHHHH
Q 002842 276 IILVIDECLD--EPHLQ-HLQSSLHAFVESIP---PTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKAL 348 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~-~l~~sL~~~L~~Lp---~~a~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~~~~~~l~~~ 348 (874)
++|+||.|.+ ...++ .+++.++..++.+. .+++||+|+|++..+++ .+.... .
T Consensus 3 i~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~~~~~~~~~~-----------~--------- 62 (192)
T cd01473 3 LTLILDESASIGYSNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNRDVVPFSDEE-----------R--------- 62 (192)
T ss_pred EEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCceeEEecCccc-----------c---------
Confidence 5899999875 44455 46777777777664 68999999999877643 232110 0
Q ss_pred hhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCC
Q 002842 349 LYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (874)
Q Consensus 349 l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGp 428 (874)
..+..+...|++|...... ...+.+|.||..|...+..... . +.+..--++++|.|.
T Consensus 63 ------------~~~~~l~~~i~~l~~~~~~----~g~T~~~~AL~~a~~~~~~~~~--~-----r~~~~kv~IllTDG~ 119 (192)
T cd01473 63 ------------YDKNELLKKINDLKNSYRS----GGETYIVEALKYGLKNYTKHGN--R-----RKDAPKVTMLFTDGN 119 (192)
T ss_pred ------------cCHHHHHHHHHHHHhccCC----CCcCcHHHHHHHHHHHhccCCC--C-----cccCCeEEEEEecCC
Confidence 0122233445555432111 1347899999999888753110 0 000122367777786
Q ss_pred CCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcc--ccc---EEEEcCChh
Q 002842 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKA--SGG---VLVLHDDFG 503 (874)
Q Consensus 429 pT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~--TGG---~v~~~~~F~ 503 (874)
.+.+- ..--...++.+.+.||.+-.+..+. .+-.++..++.. ..+ .++.. +|+
T Consensus 120 s~~~~-------------------~~~~~~~a~~lk~~gV~i~~vGiG~--~~~~el~~ia~~~~~~~~~~~~~~~-~f~ 177 (192)
T cd01473 120 DTSAS-------------------KKELQDISLLYKEENVKLLVVGVGA--ASENKLKLLAGCDINNDNCPNVIKT-EWN 177 (192)
T ss_pred CCCcc-------------------hhhHHHHHHHHHHCCCEEEEEEecc--ccHHHHHHhcCCCCCCCCCCeEEec-chh
Confidence 53210 0001346777888898877777664 356777777754 222 34444 486
Q ss_pred h
Q 002842 504 E 504 (874)
Q Consensus 504 ~ 504 (874)
+
T Consensus 178 ~ 178 (192)
T cd01473 178 N 178 (192)
T ss_pred h
Confidence 4
No 48
>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=97.35 E-value=0.0044 Score=75.47 Aligned_cols=162 Identities=16% Similarity=0.248 Sum_probs=102.2
Q ss_pred CcEEEEEECCCCh---hHHHHHHHHHHHhhhc-CCCCcEEEEEEECce-EEEEecCCCCcceeccccCCCCCCHHHHHHH
Q 002842 274 APIILVIDECLDE---PHLQHLQSSLHAFVES-IPPTARIGIILYGRT-VSVYDFSEDSIASSDVLAGDKLPTEDSLKAL 348 (874)
Q Consensus 274 p~~vFvID~s~~~---~~l~~l~~sL~~~L~~-Lp~~a~VGlITFd~~-V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~ 348 (874)
..++||||+|.+- ..++.+|..+...+.. +..+.+||||+|+.. ..+. +
T Consensus 466 ~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~a~~~~D~v~lI~F~g~~a~~~-~------------------------- 519 (633)
T TIGR02442 466 NLVIFVVDASGSMAARGRMAAAKGAVLSLLRDAYQKRDKVALITFRGEEAEVL-L------------------------- 519 (633)
T ss_pred ceEEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceEE-c-------------------------
Confidence 4679999999763 3678888887777653 456899999999753 2221 1
Q ss_pred hhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCC
Q 002842 349 LYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (874)
Q Consensus 349 l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGp 428 (874)
|.......+...|+.|+. ...+.++.||..|..++..... +..+..+.|++++.|-
T Consensus 520 ---------p~t~~~~~~~~~L~~l~~--------gG~Tpl~~aL~~A~~~l~~~~~-------~~~~~~~~vvliTDG~ 575 (633)
T TIGR02442 520 ---------PPTSSVELAARRLEELPT--------GGRTPLAAGLLKAAEVLSNELL-------RDDDGRPLLVVITDGR 575 (633)
T ss_pred ---------CCCCCHHHHHHHHHhCCC--------CCCCCHHHHHHHHHHHHHHhhc-------cCCCCceEEEEECCCC
Confidence 111112222334555542 1347889999999998872100 0012346788999999
Q ss_pred CCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEc
Q 002842 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLH 499 (874)
Q Consensus 429 pT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~ 499 (874)
.|.|.+. . . .. +.+ ..++.++.+.||.+.++-+....++..-+..||+.+||..+..
T Consensus 576 ~n~~~~~--~----~---~~-~~~----~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~gg~y~~l 632 (633)
T TIGR02442 576 ANVADGG--E----P---PT-DDA----RTIAAKLAARGILFVVIDTESGFVRLGLAEDLARALGGEYVRL 632 (633)
T ss_pred CCCCCCC--C----C---hH-HHH----HHHHHHHHhcCCeEEEEeCCCCCcchhHHHHHHHhhCCeEEec
Confidence 9886211 0 0 00 112 4456677777877666656566677788999999999998864
No 49
>cd00198 vWFA Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains.
Probab=97.34 E-value=0.0073 Score=58.28 Aligned_cols=147 Identities=20% Similarity=0.378 Sum_probs=95.0
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCCC---CcEEEEEEECceEEEE-ecCCCCcceeccccCCCCCCHHHHHHHh
Q 002842 276 IILVIDECLD--EPHLQHLQSSLHAFVESIPP---TARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (874)
Q Consensus 276 ~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp~---~a~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~~~~~~l~~~l 349 (874)
++||||+|.+ ...++.+++.+...+..+.. ..+||++.|+...+.+ .+... .
T Consensus 3 v~~viD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~~~~~~~~-------------~--------- 60 (161)
T cd00198 3 IVFLLDVSGSMGGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVVLPLTTD-------------T--------- 60 (161)
T ss_pred EEEEEeCCCCcCcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccceeeccccc-------------C---------
Confidence 6899999875 57889999999999888875 8999999999743322 11100 0
Q ss_pred hcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCC
Q 002842 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (874)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGpp 429 (874)
....+...++.+.. .......+..|+..|...+.... ..+....|++|+.|..
T Consensus 61 ------------~~~~~~~~~~~~~~------~~~~~t~~~~al~~~~~~~~~~~---------~~~~~~~lvvitDg~~ 113 (161)
T cd00198 61 ------------DKADLLEAIDALKK------GLGGGTNIGAALRLALELLKSAK---------RPNARRVIILLTDGEP 113 (161)
T ss_pred ------------CHHHHHHHHHhccc------CCCCCccHHHHHHHHHHHhcccC---------CCCCceEEEEEeCCCC
Confidence 11222334444432 01234778899999999986521 0123567888888876
Q ss_pred CCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhccc
Q 002842 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKAS 492 (874)
Q Consensus 430 T~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~T 492 (874)
+.+. . . .++..+++.+.++.+.++.++. ..+-..++.++..+
T Consensus 114 ~~~~----~--------~--------~~~~~~~~~~~~v~v~~v~~g~-~~~~~~l~~l~~~~ 155 (161)
T cd00198 114 NDGP----E--------L--------LAEAARELRKLGITVYTIGIGD-DANEDELKEIADKT 155 (161)
T ss_pred CCCc----c--------h--------hHHHHHHHHHcCCEEEEEEcCC-CCCHHHHHHHhccc
Confidence 5433 0 0 1234555666799998888876 34456788888877
No 50
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=97.23 E-value=0.011 Score=69.40 Aligned_cols=164 Identities=12% Similarity=0.169 Sum_probs=95.3
Q ss_pred cEEEEEECCCC---hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECceEE-EEecCCCCcceeccccCCCCCCHHHHHH
Q 002842 275 PIILVIDECLD---EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVS-VYDFSEDSIASSDVLAGDKLPTEDSLKA 347 (874)
Q Consensus 275 ~~vFvID~s~~---~~~l~~l~~sL~~~L~~L---p~~a~VGlITFd~~V~-vy~l~~~~~~~~~V~~g~~~~~~~~l~~ 347 (874)
-++||||+|.+ ...++.++..+...+..+ +...+||+|+|++..+ ++.+.... ..+.+.
T Consensus 44 DIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r~vfpL~s~~-----------s~Dk~~--- 109 (576)
T PTZ00441 44 DLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTTELIRLGSGA-----------SKDKEQ--- 109 (576)
T ss_pred eEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCceEEEecCCCc-----------cccHHH---
Confidence 46999999975 233567777777777766 3578999999988765 33343210 001111
Q ss_pred HhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecC
Q 002842 348 LLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGG 427 (874)
Q Consensus 348 ~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sG 427 (874)
....|..+...+.. ...+.+|.||..|...+.... .+.+..+.||+|+.|
T Consensus 110 --------------aL~~I~sL~~~~~p--------gGgTnig~AL~~Aae~L~sr~--------~R~nvpKVVILLTDG 159 (576)
T PTZ00441 110 --------------ALIIVKSLRKTYLP--------YGKTNMTDALLEVRKHLNDRV--------NRENAIQLVILMTDG 159 (576)
T ss_pred --------------HHHHHHHHHhhccC--------CCCccHHHHHHHHHHHHhhcc--------cccCCceEEEEEecC
Confidence 11122222222211 124789999998888875310 011224678888888
Q ss_pred CCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhh----cccccEEEEcCChh
Q 002842 428 PNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLA----KASGGVLVLHDDFG 503 (874)
Q Consensus 428 ppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~----~~TGG~v~~~~~F~ 503 (874)
..+.+. .. .+.++++.+.||.|-++..+. .++...+..++ ..++|.+|...+|.
T Consensus 160 ~sns~~-----------------dv----leaAq~LR~~GVeI~vIGVG~-g~n~e~LrlIAgC~p~~g~c~~Y~vadf~ 217 (576)
T PTZ00441 160 IPNSKY-----------------RA----LEESRKLKDRNVKLAVIGIGQ-GINHQFNRLLAGCRPREGKCKFYSDADWE 217 (576)
T ss_pred CCCCcc-----------------cH----HHHHHHHHHCCCEEEEEEeCC-CcCHHHHHHHhccCCCCCCCceEEeCCHH
Confidence 753210 00 123556777888766666653 35555566555 33567888888996
Q ss_pred h
Q 002842 504 E 504 (874)
Q Consensus 504 ~ 504 (874)
+
T Consensus 218 e 218 (576)
T PTZ00441 218 E 218 (576)
T ss_pred H
Confidence 4
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=97.23 E-value=0.0024 Score=64.65 Aligned_cols=47 Identities=19% Similarity=0.381 Sum_probs=37.8
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhcCC------CCcEEEEEEECceEEE
Q 002842 274 APIILVIDECLD--EPHLQHLQSSLHAFVESIP------PTARIGIILYGRTVSV 320 (874)
Q Consensus 274 p~~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp------~~a~VGlITFd~~V~v 320 (874)
-+++||||+|.+ ...++.++++++..++.|. ++.+||||+|++.+++
T Consensus 4 ~~v~~llD~SgSM~~~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~~ 58 (176)
T cd01464 4 LPIYLLLDTSGSMAGEPIEALNQGLQMLQSELRQDPYALESVEISVITFDSAARV 58 (176)
T ss_pred CCEEEEEECCCCCCChHHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCceE
Confidence 458999999875 4568889998888888774 3579999999997664
No 52
>smart00262 GEL Gelsolin homology domain. Gelsolin/severin/villin homology domain. Calcium-binding and actin-binding. Both intra- and extracellular domains.
Probab=97.11 E-value=0.0029 Score=56.82 Aligned_cols=68 Identities=22% Similarity=0.491 Sum_probs=49.9
Q ss_pred CcccccccCCcEEEEeCCcEEEEEeCCcccccccccHHHHHHHHHHHHHHHh-cCCCCcEEEEEecCCchHHHHH
Q 002842 742 PAYDLAMQSDKAVVLDHGTDVFIWLGAELAADEGRSAAALAACRTLAEELSE-FRFPAPRILAFKEGSSQARYFV 815 (874)
Q Consensus 742 P~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~~~~~l~~~~~~~~~l~~-~R~p~Pr~i~~~qg~sqaRfl~ 815 (874)
|....+|.++.+||||+|..||+|+|+..+..+. ++....++.+.+ .|.+..++++++||.....|+.
T Consensus 17 ~~~~~~L~s~d~fild~~~~iyvW~G~~as~~ek------~~A~~~a~~~~~~~~~~~~~i~~v~eg~E~~~F~~ 85 (90)
T smart00262 17 PFSQGSLNSGDCYILDTGSEIYVWVGKKSSQDEK------KKAAELAVELDDTLGPGPVQVRVVDEGKEPPEFWS 85 (90)
T ss_pred CCCHHHCCCCCEEEEECCCEEEEEECCCCCHHHH------HHHHHHHHHHHHhcCCCCceEEEEeCCCCCHHHHH
Confidence 4444679999999999999999999999764332 234455566654 4456677999999988777664
No 53
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=96.96 E-value=0.047 Score=58.00 Aligned_cols=167 Identities=15% Similarity=0.209 Sum_probs=109.1
Q ss_pred CCcEEEEEECCCC---hhHHHHHHHHHHHhhhc-CCCCcEEEEEEECc-eEEEEecCCCCcceeccccCCCCCCHHHHHH
Q 002842 273 SAPIILVIDECLD---EPHLQHLQSSLHAFVES-IPPTARIGIILYGR-TVSVYDFSEDSIASSDVLAGDKLPTEDSLKA 347 (874)
Q Consensus 273 ~p~~vFvID~s~~---~~~l~~l~~sL~~~L~~-Lp~~a~VGlITFd~-~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~ 347 (874)
...+|||||.|.+ ...++++|-.+...|.. -..+-+|++|+|.. .-++
T Consensus 78 g~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq~RdkvavI~F~G~~A~l--------------------------- 130 (261)
T COG1240 78 GNLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQRRDKVAVIAFRGEKAEL--------------------------- 130 (261)
T ss_pred CCcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHHccceEEEEEecCCcceE---------------------------
Confidence 4678999999986 23588888877777643 34578999999953 2221
Q ss_pred HhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecC
Q 002842 348 LLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGG 427 (874)
Q Consensus 348 ~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sG 427 (874)
|+|...+-+.+...|+.|+.- ..+=+..||..|..++..+.. ++...--.+++.+.|
T Consensus 131 --------ll~pT~sv~~~~~~L~~l~~G--------G~TPL~~aL~~a~ev~~r~~r-------~~p~~~~~~vviTDG 187 (261)
T COG1240 131 --------LLPPTSSVELAERALERLPTG--------GKTPLADALRQAYEVLAREKR-------RGPDRRPVMVVITDG 187 (261)
T ss_pred --------EeCCcccHHHHHHHHHhCCCC--------CCCchHHHHHHHHHHHHHhhc-------cCCCcceEEEEEeCC
Confidence 111122223345556666542 225588999999999875421 111234578888999
Q ss_pred CCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChhh
Q 002842 428 PNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE 504 (874)
Q Consensus 428 ppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~~ 504 (874)
.+|.+.+.= .. ..+ ...+.++...|+-+=+.-+...++.+--.+.+|...||.+++.+..++
T Consensus 188 r~n~~~~~~----------~~-~e~----~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~~~L~~l~~ 249 (261)
T COG1240 188 RANVPIPLG----------PK-AET----LEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEYYHLDDLSD 249 (261)
T ss_pred ccCCCCCCc----------hH-HHH----HHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeEEecccccc
Confidence 988765321 11 122 234555666777666666777778888889999999999999988865
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=96.71 E-value=0.023 Score=58.52 Aligned_cols=96 Identities=19% Similarity=0.280 Sum_probs=68.0
Q ss_pred CCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHh
Q 002842 385 RDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAH 464 (874)
Q Consensus 385 r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~ 464 (874)
..-.+-.||+.|...|++.-. - +.-.|+++.++.-|.-||.+ .+..+.+.
T Consensus 78 G~~SLqN~Le~A~~~L~~~p~---------~-~srEIlvi~gSl~t~Dp~di--------------------~~ti~~l~ 127 (193)
T PF04056_consen 78 GEPSLQNGLEMARSSLKHMPS---------H-GSREILVIFGSLTTCDPGDI--------------------HETIESLK 127 (193)
T ss_pred CChhHHHHHHHHHHHHhhCcc---------c-cceEEEEEEeecccCCchhH--------------------HHHHHHHH
Confidence 347788999999999986421 1 12367777888888777643 24667888
Q ss_pred hcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChhhHHHHHHHHHH
Q 002842 465 QHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGEAFGVNLQRAS 514 (874)
Q Consensus 465 ~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~~~f~~dl~r~~ 514 (874)
+.+|-|++...+. .+...+.+|+.|||.....-+ ...|++-|....
T Consensus 128 ~~~IrvsvI~laa---Ev~I~k~i~~~T~G~y~V~ld-e~H~~~lL~~~~ 173 (193)
T PF04056_consen 128 KENIRVSVISLAA---EVYICKKICKETGGTYGVILD-EDHFKELLMEHV 173 (193)
T ss_pred HcCCEEEEEEEhH---HHHHHHHHHHhhCCEEEEecC-HHHHHHHHHhhC
Confidence 9999999999886 377889999999995554332 234665555443
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=96.68 E-value=0.021 Score=57.51 Aligned_cols=48 Identities=17% Similarity=0.413 Sum_probs=39.2
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhcCC------CCcEEEEEEECceEEEE
Q 002842 274 APIILVIDECLD--EPHLQHLQSSLHAFVESIP------PTARIGIILYGRTVSVY 321 (874)
Q Consensus 274 p~~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp------~~a~VGlITFd~~V~vy 321 (874)
-|++|++|+|.+ -+.++++...|+..++.|- +.+.++|||||+.+++|
T Consensus 4 lP~~lllDtSgSM~Ge~IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~~a~~~ 59 (207)
T COG4245 4 LPCYLLLDTSGSMIGEPIEALNAGLQMMIDTLKQDPYALERVELSIVTFGGPARVI 59 (207)
T ss_pred CCEEEEEecCcccccccHHHHHHHHHHHHHHHHhChhhhheeEEEEEEecCcceEE
Confidence 468999999975 4668888888888887774 47899999999977776
No 56
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or non-homologues end joining and facilitate repair by the non-homologous end-joining pathway (NHEJ). The Ku heterodimer is required for accurate process that tends to preserve the sequence at the junction. Ku78 is found in all three kingdoms of life. However, only the eukaryotic proteins have a vWA domain fused to them at their N-termini. The vWA domain is not involved in DNA binding but may very likey mediate Ku78's interactions with other proteins. Members of this subgroup lack the conserved MIDAS motif.
Probab=96.62 E-value=0.074 Score=55.91 Aligned_cols=155 Identities=14% Similarity=0.228 Sum_probs=89.1
Q ss_pred EEEEEECCCC---------hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHH
Q 002842 276 IILVIDECLD---------EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTED 343 (874)
Q Consensus 276 ~vFvID~s~~---------~~~l~~l~~sL~~~L~~L---p~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~ 343 (874)
++|+||+|.+ ...|+.+++.+...+... -++.+||||.|++.-.-.. ......+++.....++.+
T Consensus 4 ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~---~~~~~i~v~~~l~~~~~~ 80 (218)
T cd01458 4 VVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNP---VGYENIYVLLDLDTPGAE 80 (218)
T ss_pred EEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCc---CCCCceEEeecCCCCCHH
Confidence 6999999852 246888888888888762 4578999999987632211 112222233222222333
Q ss_pred HHHHHhhcCCccccchhhhHHHHHHHHHhhcCCcc---ccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcE
Q 002842 344 SLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKL---NITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSR 420 (874)
Q Consensus 344 ~l~~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~---~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggr 420 (874)
.++ .+++.+..... ..........++.||.+|..++..+.. ....-|
T Consensus 81 ~l~---------------------~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~~---------~~~~k~ 130 (218)
T cd01458 81 RVE---------------------DLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKGKK---------KKSHKR 130 (218)
T ss_pred HHH---------------------HHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHhccc---------cccccE
Confidence 222 22222211100 000112357899999999999985211 112468
Q ss_pred EEEEecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCC
Q 002842 421 IIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNC 478 (874)
Q Consensus 421 Ii~F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d 478 (874)
|++||.|-...|.. .....-...++.++.+.||.+.+|..+.+
T Consensus 131 IvL~TDg~~p~~~~---------------~~~~~~~~~~a~~l~~~gI~i~~i~i~~~ 173 (218)
T cd01458 131 IFLFTNNDDPHGGD---------------SIKDSQAAVKAEDLKDKGIELELFPLSSP 173 (218)
T ss_pred EEEECCCCCCCCCC---------------HHHHHHHHHHHHHHHhCCcEEEEEecCCC
Confidence 99999976544310 01112245678888889999999886544
No 57
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=96.57 E-value=0.062 Score=55.16 Aligned_cols=148 Identities=19% Similarity=0.301 Sum_probs=90.3
Q ss_pred cEEEEEECCCC-------hhHHHHHHHHHHHhhh-cC--CCCcEEEEEEECc-eEEEEecCCCCcceeccccCCCCCCHH
Q 002842 275 PIILVIDECLD-------EPHLQHLQSSLHAFVE-SI--PPTARIGIILYGR-TVSVYDFSEDSIASSDVLAGDKLPTED 343 (874)
Q Consensus 275 ~~vFvID~s~~-------~~~l~~l~~sL~~~L~-~L--p~~a~VGlITFd~-~V~vy~l~~~~~~~~~V~~g~~~~~~~ 343 (874)
..+.|||-|.- ...|++=++++..... .+ .+...|||||... .+.+.. . ++.+
T Consensus 5 atmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~~~vLs--T--------------~T~d 68 (259)
T KOG2884|consen 5 ATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANASVQVLS--T--------------LTSD 68 (259)
T ss_pred eEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCCceeee--e--------------cccc
Confidence 46899998852 3467777777665443 22 2456799999865 666531 1 1111
Q ss_pred HHHHHhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEE
Q 002842 344 SLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIV 423 (874)
Q Consensus 344 ~l~~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~ 423 (874)
.-.|...+..++. ++.--++.+|++|...|++-. +.+.--||++
T Consensus 69 -------------------~gkils~lh~i~~--------~g~~~~~~~i~iA~lalkhRq---------nk~~~~riVv 112 (259)
T KOG2884|consen 69 -------------------RGKILSKLHGIQP--------HGKANFMTGIQIAQLALKHRQ---------NKNQKQRIVV 112 (259)
T ss_pred -------------------chHHHHHhcCCCc--------CCcccHHHHHHHHHHHHHhhc---------CCCcceEEEE
Confidence 1112233334433 234568999999999999732 1223379999
Q ss_pred EecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhccccc
Q 002842 424 CAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGG 494 (874)
Q Consensus 424 F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG 494 (874)
|+++|-.. ..+-.-++|+++.+++|.|||.-++-...+-.-+......++|
T Consensus 113 FvGSpi~e--------------------~ekeLv~~akrlkk~~Vaidii~FGE~~~~~e~l~~fida~N~ 163 (259)
T KOG2884|consen 113 FVGSPIEE--------------------SEKELVKLAKRLKKNKVAIDIINFGEAENNTEKLFEFIDALNG 163 (259)
T ss_pred EecCcchh--------------------hHHHHHHHHHHHHhcCeeEEEEEeccccccHHHHHHHHHHhcC
Confidence 99988521 1122357899999999999999998765443333333333333
No 58
>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=96.02 E-value=0.12 Score=50.79 Aligned_cols=131 Identities=15% Similarity=0.148 Sum_probs=75.4
Q ss_pred cEEEEEECCCC--hhHHHHHHHHHHHhhhcCC-CCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhhc
Q 002842 275 PIILVIDECLD--EPHLQHLQSSLHAFVESIP-PTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYG 351 (874)
Q Consensus 275 ~~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp-~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~ 351 (874)
+++|+||+|.+ ...++..+..+...+..+. .+.+|++|+|++....+.+.. ..++
T Consensus 2 ~v~illD~SgSM~~~k~~~a~~~~~~l~~~~~~~~~~v~li~F~~~~~~~~~~~----------------~~~~------ 59 (152)
T cd01462 2 PVILLVDQSGSMYGAPEEVAKAVALALLRIALAENRDTYLILFDSEFQTKIVDK----------------TDDL------ 59 (152)
T ss_pred CEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHcCCcEEEEEeCCCceEEecCC----------------cccH------
Confidence 47999999975 2235556666665555554 478999999988833322110 0111
Q ss_pred CCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCC
Q 002842 352 TGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTY 431 (874)
Q Consensus 352 ~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~ 431 (874)
..+++.|..... ...+.++.||..+...++... ...+.|++++.|..+.
T Consensus 60 ---------------~~~~~~l~~~~~-----~ggT~l~~al~~a~~~l~~~~-----------~~~~~ivliTDG~~~~ 108 (152)
T cd01462 60 ---------------EEPVEFLSGVQL-----GGGTDINKALRYALELIERRD-----------PRKADIVLITDGYEGG 108 (152)
T ss_pred ---------------HHHHHHHhcCCC-----CCCcCHHHHHHHHHHHHHhcC-----------CCCceEEEECCCCCCC
Confidence 122223322111 234889999999999987521 1246888888885311
Q ss_pred CCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCC
Q 002842 432 GPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNC 478 (874)
Q Consensus 432 GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d 478 (874)
.+ .+.. +.++...+.++.|..+.++.+
T Consensus 109 ~~-------------------~~~~-~~~~~~~~~~~~v~~~~~g~~ 135 (152)
T cd01462 109 VS-------------------DELL-REVELKRSRVARFVALALGDH 135 (152)
T ss_pred CC-------------------HHHH-HHHHHHHhcCcEEEEEEecCC
Confidence 00 1111 223333455788999887764
No 59
>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=95.89 E-value=0.22 Score=50.20 Aligned_cols=148 Identities=11% Similarity=0.036 Sum_probs=84.0
Q ss_pred EEEEEECCCC--h-hHHHHHHHHHHHhhhcCCC-CcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhhc
Q 002842 276 IILVIDECLD--E-PHLQHLQSSLHAFVESIPP-TARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYG 351 (874)
Q Consensus 276 ~vFvID~s~~--~-~~l~~l~~sL~~~L~~Lp~-~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~~ 351 (874)
++|+||+|.+ . ..++.+++++...++.|.. +.++||++|++... ... ...++.. +.+.
T Consensus 3 v~~llD~SgSM~~~~kl~~ak~a~~~l~~~l~~~~d~~~l~~F~~~~~---~~~----~~~~~~~-~~~~---------- 64 (174)
T cd01454 3 VTLLLDLSGSMRSDRRIDVAKKAAVLLAEALEACGVPHAILGFTTDAG---GRE----RVRWIKI-KDFD---------- 64 (174)
T ss_pred EEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHHcCCcEEEEEecCCCC---Ccc----ceEEEEe-cCcc----------
Confidence 6899999975 3 3788888888877777764 88999999987620 000 0001000 0000
Q ss_pred CCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCC
Q 002842 352 TGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTY 431 (874)
Q Consensus 352 ~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~ 431 (874)
... ...+...|+.+.. ...+.+|.||..|...+.... .....|++++.|-++.
T Consensus 65 -----~~~---~~~~~~~l~~~~~--------~g~T~~~~al~~a~~~l~~~~-----------~~~~~iiliTDG~~~~ 117 (174)
T cd01454 65 -----ESL---HERARKRLAALSP--------GGNTRDGAAIRHAAERLLARP-----------EKRKILLVISDGEPND 117 (174)
T ss_pred -----ccc---chhHHHHHHccCC--------CCCCcHHHHHHHHHHHHhcCC-----------CcCcEEEEEeCCCcCc
Confidence 000 0112223333332 124789999999999987421 1345688888898876
Q ss_pred CCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCC
Q 002842 432 GPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCP 479 (874)
Q Consensus 432 GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~ 479 (874)
+...- ...... +.+ .+.++++.+.||.+..+..+.+.
T Consensus 118 ~~~~~------~~~~~~-~~~----~~~~~~~~~~gi~v~~igig~~~ 154 (174)
T cd01454 118 LDYYE------GNVFAT-EDA----LRAVIEARKLGIEVFGITIDRDA 154 (174)
T ss_pred ccccC------cchhHH-HHH----HHHHHHHHhCCcEEEEEEecCcc
Confidence 53210 000011 011 12367778889988877766554
No 60
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=95.03 E-value=0.044 Score=65.70 Aligned_cols=86 Identities=29% Similarity=0.476 Sum_probs=56.9
Q ss_pred HhhccceeeeccC-CCc--ccCCcc-cccccCCcEEEEeCCcEEEEEeCCcccccccccHHHHHHHHHHHHH-HHhcCCC
Q 002842 723 RMVAPRCLMYREG-GTF--EELPAY-DLAMQSDKAVVLDHGTDVFIWLGAELAADEGRSAAALAACRTLAEE-LSEFRFP 797 (874)
Q Consensus 723 ~miyP~L~~~~~~-~~~--~~lP~~-~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~~~~~l~~~~~~~~~-l~~~R~p 797 (874)
.-..|+||.-+.. |.| ++++-. ..-|..|.|||||++..||||+|+.+.+.+-. .+++.-...++. +...|-|
T Consensus 616 ~~~~PrLF~Cs~~~g~f~~~EI~~F~QdDL~tdDi~lLDt~~evfvWvG~~a~~~eK~--~Al~~~~~yl~~~~p~gr~~ 693 (827)
T KOG0443|consen 616 PERDPRLFSCSNKTGSFVVEEIYNFTQDDLMTDDIMLLDTWSEVFVWVGQEANEKEKE--EALTIGQKYLETDLPEGRDP 693 (827)
T ss_pred CCCCCcEEEEEecCCcEEEEEecCcchhhccccceEEEecCceEEEEecCCCChhHHH--HHHHHHHHHHhccCcccCCC
Confidence 4578888887654 333 234432 24588999999999999999999998765432 223222333322 3567777
Q ss_pred CcEEEEEecCCch
Q 002842 798 APRILAFKEGSSQ 810 (874)
Q Consensus 798 ~Pr~i~~~qg~sq 810 (874)
.-.+++++||+.-
T Consensus 694 ~TPI~vV~qG~EP 706 (827)
T KOG0443|consen 694 RTPIYVVKQGHEP 706 (827)
T ss_pred CCceEEecCCCCC
Confidence 5558899999754
No 61
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=94.85 E-value=0.12 Score=61.54 Aligned_cols=9 Identities=22% Similarity=0.098 Sum_probs=4.8
Q ss_pred CeeeeecCc
Q 002842 151 SCVLFSAHK 159 (874)
Q Consensus 151 ~~vR~T~n~ 159 (874)
..=|++|..
T Consensus 625 ~Mrr~nW~k 633 (1102)
T KOG1924|consen 625 PMRRFNWSK 633 (1102)
T ss_pred ccccCCccc
Confidence 344666654
No 62
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=94.40 E-value=0.13 Score=61.33 Aligned_cols=7 Identities=43% Similarity=0.529 Sum_probs=2.9
Q ss_pred HHHHHHH
Q 002842 453 LKWMELL 459 (874)
Q Consensus 453 ~~fY~~L 459 (874)
.+||.+|
T Consensus 879 l~F~ddl 885 (1102)
T KOG1924|consen 879 LKFPDDL 885 (1102)
T ss_pred hcchhhH
Confidence 3444443
No 63
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=93.97 E-value=0.1 Score=61.22 Aligned_cols=89 Identities=20% Similarity=0.328 Sum_probs=67.1
Q ss_pred ceeeeccCCC---cccCCcccccccCCcEEEEeCCcEEEEEeCCcccccccccHHHHHHHHHHHHHHH-hcCCCCcEEEE
Q 002842 728 RCLMYREGGT---FEELPAYDLAMQSDKAVVLDHGTDVFIWLGAELAADEGRSAAALAACRTLAEELS-EFRFPAPRILA 803 (874)
Q Consensus 728 ~L~~~~~~~~---~~~lP~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~~~~~l~~~~~~~~~l~-~~R~p~Pr~i~ 803 (874)
|||..+..|. ++++|+...|+++.-++|||.|.+||||.|.... .....+.|-+|+.|- .+|--.-.+-.
T Consensus 623 RlYrv~~~g~~i~lEPVpl~~tSLDPRf~FlLD~G~~IyiW~G~~s~------~t~~~KARLfAEkinK~eRKgK~EI~l 696 (1255)
T KOG0444|consen 623 RLYRVGVNGTAIELEPVPLSVTSLDPRFCFLLDAGETIYIWSGYKSR------ITVSNKARLFAEKINKRERKGKSEIEL 696 (1255)
T ss_pred hhheeccccceeEeeccCccccccCcceEEEEeCCceEEEEeccchh------cccchHHHHHHHHhhhhhccCceeeeh
Confidence 3455555543 5677878889999999999999999999998732 112234566677766 37777788999
Q ss_pred EecCCchHHHHHHh-hcCCC
Q 002842 804 FKEGSSQARYFVTR-LIPAH 822 (874)
Q Consensus 804 ~~qg~sqaRfl~sr-L~ps~ 822 (874)
|+||...+.||.+- .+|+.
T Consensus 697 ~rQg~e~pEFWqaLgg~p~e 716 (1255)
T KOG0444|consen 697 CRQGREPPEFWQALGGNPDE 716 (1255)
T ss_pred hhhcCCCHHHHHHhCCCCcc
Confidence 99999999999876 67765
No 64
>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70). Proteins in this family are involved in non-homologous end joining, a process used for the repair of double stranded DNA breaks. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Cutoff does not detect the putative ku70 homologs in yeast.
Probab=93.91 E-value=1.4 Score=53.39 Aligned_cols=156 Identities=12% Similarity=0.127 Sum_probs=86.0
Q ss_pred cEEEEEECCCC----------hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCC
Q 002842 275 PIILVIDECLD----------EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPT 341 (874)
Q Consensus 275 ~~vFvID~s~~----------~~~l~~l~~sL~~~L~~L---p~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~ 341 (874)
.+||+||++.+ ..-+..+.+++.+.++.. .++..|||+.||+.=+ -+.......+|+.....|+
T Consensus 12 ailflIDvs~sM~~~~~~~~~~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t---~n~~~~~~i~v~~~L~~p~ 88 (584)
T TIGR00578 12 SLIFLVDASKAMFEESQGEDELTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKD---KNSVNFKNIYVLQELDNPG 88 (584)
T ss_pred EEEEEEECCHHHcCCCcCcCcCChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCC---CCccCCCceEEEeeCCCCC
Confidence 47999999853 122445555566555432 3689999999987532 1111234566776666666
Q ss_pred HHHHHHHhhcCCccccchhhhHHHHHHHHHh-hcCCccccccCCC-CCchHHHHHHHHHHhcCCCccccccccccCCCCc
Q 002842 342 EDSLKALLYGTGVYLSPMHASKQVAHDIFSS-LRPYKLNITEASR-DRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNS 419 (874)
Q Consensus 342 ~~~l~~~l~~~~~fL~pl~e~~~~i~~lLe~-L~~~~~~~~~~~r-~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~gg 419 (874)
.+.++++ .++++. -...+... .+.. ...+..||.+|..++..+.. +. +.-
T Consensus 89 a~~i~~L------------------~~l~~~~~~~~~~~~-~~~~~~~~l~daL~~~~~~f~~~~~--------k~-~~k 140 (584)
T TIGR00578 89 AKRILEL------------------DQFKGDQGPKKFRDT-YGHGSDYSLSEVLWVCANLFSDVQF--------RM-SHK 140 (584)
T ss_pred HHHHHHH------------------HHHhhccCccchhhc-cCCCCCCcHHHHHHHHHHHHHhcch--------hh-cCc
Confidence 6655432 111111 00000000 0112 24789999999999975321 12 246
Q ss_pred EEEEEecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeec
Q 002842 420 RIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAG 476 (874)
Q Consensus 420 rIi~F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s 476 (874)
||++||.--.-.|.. ...+..+ ...|..+...||.+++|..+
T Consensus 141 RI~lfTd~D~P~~~~-----------~~~~~~a----~~~a~dl~~~gi~ielf~l~ 182 (584)
T TIGR00578 141 RIMLFTNEDNPHGND-----------SAKASRA----RTKAGDLRDTGIFLDLMHLK 182 (584)
T ss_pred EEEEECCCCCCCCCc-----------hhHHHHH----HHHHHHHHhcCeEEEEEecC
Confidence 899999643222110 1110111 23477888899999999653
No 65
>cd01460 vWA_midasin VWA_Midasin: Midasin is a member of the AAA ATPase family. The proteins of this family are unified by their common archetectural organization that is based upon a conserved ATPase domain. The AAA domain of midasin contains six tandem AAA protomers. The AAA domains in midasin is followed by a D/E rich domain that is following by a VWA domain. The members of this subgroup have a conserved MIDAS motif. The function of this domain is not exactly known although it has been speculated to play a crucial role in midasin function.
Probab=93.75 E-value=1.7 Score=47.17 Aligned_cols=151 Identities=11% Similarity=0.206 Sum_probs=84.2
Q ss_pred CcEEEEEECCCC--h-----hHHHHHHHHHHHhhhcCCCCcEEEEEEECceEE-EEecCCCCcceeccccCCCCCCHHHH
Q 002842 274 APIILVIDECLD--E-----PHLQHLQSSLHAFVESIPPTARIGIILYGRTVS-VYDFSEDSIASSDVLAGDKLPTEDSL 345 (874)
Q Consensus 274 p~~vFvID~s~~--~-----~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~-vy~l~~~~~~~~~V~~g~~~~~~~~l 345 (874)
.-++++||.|.+ + ..++ .+..|..+++.++ ..+||++.|++.+. +|.+... ++
T Consensus 61 ~qIvlaID~S~SM~~~~~~~~ale-ak~lIs~al~~Le-~g~vgVv~Fg~~~~~v~Plt~d-------------~~---- 121 (266)
T cd01460 61 YQILIAIDDSKSMSENNSKKLALE-SLCLVSKALTLLE-VGQLGVCSFGEDVQILHPFDEQ-------------FS---- 121 (266)
T ss_pred ceEEEEEecchhcccccccccHHH-HHHHHHHHHHhCc-CCcEEEEEeCCCceEeCCCCCC-------------ch----
Confidence 457999999864 2 1355 4457777777776 58999999998764 3333221 00
Q ss_pred HHHhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCC---cEEE
Q 002842 346 KALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGN---SRII 422 (874)
Q Consensus 346 ~~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~g---grIi 422 (874)
. ...++.+.....+ ...+..|.||..|..+++.... ....| .-|+
T Consensus 122 -------------------~-~a~~~~l~~~~f~----~~~Tni~~aL~~a~~~f~~~~~--------~~~s~~~~qlil 169 (266)
T cd01460 122 -------------------S-QSGPRILNQFTFQ----QDKTDIANLLKFTAQIFEDART--------QSSSGSLWQLLL 169 (266)
T ss_pred -------------------h-hHHHHHhCcccCC----CCCCcHHHHHHHHHHHHHhhhc--------cccccccccEEE
Confidence 0 1122223322111 1346799999999999975310 01112 3444
Q ss_pred EEecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCC--CCCcccchhhhcccccE
Q 002842 423 VCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNC--PVRVPVLQPLAKASGGV 495 (874)
Q Consensus 423 ~F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d--~vglaem~~l~~~TGG~ 495 (874)
+.+.|-|..-. +. . +.++.++.++||.+-..+.-.. .-.+..|+.....++|.
T Consensus 170 LISDG~~~~~e------------~~----~----~~~~r~a~e~~i~l~~I~ld~~~~~~SI~d~~~~~~~~~~~ 224 (266)
T cd01460 170 IISDGRGEFSE------------GA----Q----KVRLREAREQNVFVVFIIIDNPDNKQSILDIKVVSFKNDKS 224 (266)
T ss_pred EEECCCcccCc------------cH----H----HHHHHHHHHcCCeEEEEEEcCCCCCCCcccccccccCCCCc
Confidence 55557642111 10 0 2336778888887766654332 44677777666555554
No 66
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=92.01 E-value=3.4 Score=41.86 Aligned_cols=132 Identities=18% Similarity=0.329 Sum_probs=81.6
Q ss_pred cEEEEEECCCC-------hhHHHHHHHHHHHhhhc-C--CCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHH
Q 002842 275 PIILVIDECLD-------EPHLQHLQSSLHAFVES-I--PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDS 344 (874)
Q Consensus 275 ~~vFvID~s~~-------~~~l~~l~~sL~~~L~~-L--p~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~ 344 (874)
..|.+||-|.- ...+++=|+++...++. . .+...||||+-... ...|++ .++
T Consensus 5 atvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a------------~p~vls---T~T--- 66 (243)
T COG5148 5 ATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQA------------QPNVLS---TPT--- 66 (243)
T ss_pred eEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccC------------Ccchhc---cch---
Confidence 46899998853 24678888888877653 2 24567899875422 111221 111
Q ss_pred HHHHhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEE
Q 002842 345 LKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVC 424 (874)
Q Consensus 345 l~~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F 424 (874)
.-+..|...|..++- ++.--++.+|++|..+|++-. +.+.-.||++|
T Consensus 67 ----------------~~~gkilt~lhd~~~--------~g~a~~~~~lqiaql~lkhR~---------nk~q~qriVaF 113 (243)
T COG5148 67 ----------------KQRGKILTFLHDIRL--------HGGADIMRCLQIAQLILKHRD---------NKGQRQRIVAF 113 (243)
T ss_pred ----------------hhhhHHHHHhccccc--------cCcchHHHHHHHHHHHHhccc---------CCccceEEEEE
Confidence 112233344444432 233558899999999998732 12234799999
Q ss_pred ecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecC
Q 002842 425 AGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGN 477 (874)
Q Consensus 425 ~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~ 477 (874)
+++|... +.+-.=.+|+++.++|++|||.-++-
T Consensus 114 vgSpi~e--------------------sedeLirlak~lkknnVAidii~fGE 146 (243)
T COG5148 114 VGSPIQE--------------------SEDELIRLAKQLKKNNVAIDIIFFGE 146 (243)
T ss_pred ecCcccc--------------------cHHHHHHHHHHHHhcCeeEEEEehhh
Confidence 9987521 11112358899999999999998763
No 67
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=91.72 E-value=0.42 Score=57.71 Aligned_cols=94 Identities=19% Similarity=0.403 Sum_probs=61.8
Q ss_pred ccceeeeccC-CCcccC------CcccccccCCcEEEEeCC-cEEEEEeCCcccccccccHHHHHHHHHHHHHHHhcCCC
Q 002842 726 APRCLMYREG-GTFEEL------PAYDLAMQSDKAVVLDHG-TDVFIWLGAELAADEGRSAAALAACRTLAEELSEFRFP 797 (874)
Q Consensus 726 yP~L~~~~~~-~~~~~l------P~~~~sl~~d~iyLLD~g-~~i~Iw~G~~v~~~~~~~~~~l~~~~~~~~~l~~~R~p 797 (874)
..+||.+++. |.. .+ |+...-|+.+.+||||+| ..||||.|...+.++- +.++.+.+++++. ..|.+
T Consensus 254 ~~kLYkVsd~~g~l-~v~~va~~~l~qdlLd~~dCYILD~g~~~IfVW~Gr~as~~ER--kaAm~~AeeFlk~--k~yP~ 328 (827)
T KOG0443|consen 254 AAKLYKVSDASGGL-KVPVVADGPLTKDLLDTEDCYILDCGGGEIFVWKGRQASLDER--KAAMSSAEEFLKK--KKYPP 328 (827)
T ss_pred ccEEEEEeccCCCc-cccccccchhhHHhhccCCeEEEecCCceEEEEeCCCCCHHHH--HHHHHHHHHHHHh--ccCCC
Confidence 4678988762 221 12 222344889999999999 9999999999764432 2233333333332 26667
Q ss_pred CcEEEEEecCCchH---HHHHHhhcCCCCC
Q 002842 798 APRILAFKEGSSQA---RYFVTRLIPAHKD 824 (874)
Q Consensus 798 ~Pr~i~~~qg~sqa---Rfl~srL~ps~~~ 824 (874)
.-.++++.+|...+ ++|.+....+.++
T Consensus 329 ~TqV~rv~EG~Esa~FKq~F~~W~~~~~t~ 358 (827)
T KOG0443|consen 329 NTQVVRVLEGAESAPFKQLFDSWPDKDQTN 358 (827)
T ss_pred CceEEEecCCCcchhHHHHHhhCccccccc
Confidence 78899999998776 4567777776654
No 68
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
Probab=91.39 E-value=8.7 Score=42.06 Aligned_cols=94 Identities=23% Similarity=0.218 Sum_probs=58.2
Q ss_pred CchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhhc
Q 002842 387 RCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQH 466 (874)
Q Consensus 387 rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~ 466 (874)
..+..||..|+-.+.....+...+. .+-.+||++++++-+.. . ..| ..++ +..-.|.+.
T Consensus 116 s~LagALS~ALCyINR~~~~~~~~~---~~~~~RILv~~s~s~d~----------~--~QY-----i~~M-N~iFaAqk~ 174 (276)
T PF03850_consen 116 SLLAGALSMALCYINRISRESPSGG---TSLKSRILVIVSGSPDS----------S--SQY-----IPLM-NCIFAAQKQ 174 (276)
T ss_pred hhhHHHHHHHHHHHhhhhhcccCCC---CCcCccEEEEEecCCCc----------c--HHH-----HHHH-HHHHHHhcC
Confidence 6788899988888754321100000 12457999964332100 0 001 1122 345567889
Q ss_pred CeEEEEeeecCCCCCcccchhhhcccccEEEEcCChh
Q 002842 467 NAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (874)
Q Consensus 467 gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~ 503 (874)
+|.||++..+. -+..-|...+..|||.....+...
T Consensus 175 ~v~IDv~~L~~--~~s~fLqQa~d~T~G~y~~~~~~~ 209 (276)
T PF03850_consen 175 KVPIDVCKLGG--KDSTFLQQASDITGGIYLKVSKPE 209 (276)
T ss_pred CceeEEEEecC--CchHHHHHHHHHhCceeeccCccc
Confidence 99999998876 345678999999999888777653
No 69
>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=89.41 E-value=4.4 Score=41.83 Aligned_cols=43 Identities=19% Similarity=0.235 Sum_probs=29.8
Q ss_pred cEEEEEECCCChh---------HHHHHHHHHHHhhhcCC--CCcEEEEEEECce
Q 002842 275 PIILVIDECLDEP---------HLQHLQSSLHAFVESIP--PTARIGIILYGRT 317 (874)
Q Consensus 275 ~~vFvID~s~~~~---------~l~~l~~sL~~~L~~Lp--~~a~VGlITFd~~ 317 (874)
-++|+||.|.+-. .++..++.+...+..+. +...+++++|++.
T Consensus 4 dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~ 57 (199)
T cd01457 4 DYTLLIDKSGSMAEADEAKERSRWEEAQESTRALARKCEEYDSDGITVYLFSGD 57 (199)
T ss_pred CEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHHHHHhcCCCCeEEEEecCC
Confidence 3799999987522 46778877777666543 2455888888655
No 70
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=88.80 E-value=25 Score=38.59 Aligned_cols=102 Identities=22% Similarity=0.168 Sum_probs=62.5
Q ss_pred CCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHHhh
Q 002842 386 DRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQ 465 (874)
Q Consensus 386 ~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~ 465 (874)
...+..||..|+..+.....+.+ ...+..+||+++..++- .. ..-..++ +....|.+
T Consensus 118 ~s~lagals~ALcyinr~~~~~~----~~~~~~~RIlii~~s~~-----------~~-------~qYi~~m-n~Ifaaqk 174 (279)
T TIGR00627 118 RTVLAGALSDALGYINRSEQSET----ASEKLKSRILVISITPD-----------MA-------LQYIPLM-NCIFSAQK 174 (279)
T ss_pred cccchhHHHhhhhhhcccccccc----cCcCCcceEEEEECCCC-----------ch-------HHHHHHH-HHHHHHHH
Confidence 35678888888888753210000 00123689999987531 00 0111222 56678899
Q ss_pred cCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChhhHHHHHHHH
Q 002842 466 HNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGEAFGVNLQR 512 (874)
Q Consensus 466 ~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~~~f~~dl~r 512 (874)
.+|.||++..+.+ -++.-++.+++.|||......+.. .|.+-|..
T Consensus 175 ~~I~Idv~~L~~e-~~~~~lqQa~~~TgG~Y~~~~~~~-~L~q~L~~ 219 (279)
T TIGR00627 175 QNIPIDVVSIGGD-FTSGFLQQAADITGGSYLHVKKPQ-GLLQYLMT 219 (279)
T ss_pred cCceEEEEEeCCc-cccHHHHHHHHHhCCEEeccCCHh-HHHHHHHH
Confidence 9999999988654 357789999999999665555433 34444433
No 71
>PF03731 Ku_N: Ku70/Ku80 N-terminal alpha/beta domain; InterPro: IPR005161 The Ku heterodimer (composed of Ku70 P12956 from SWISSPROT and Ku80 P13010 from SWISSPROT) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the N-terminal alpha/beta domain. This domain only makes a small contribution to the dimer interface. The domain comprises a six stranded beta sheet of the Rossman fold [].; PDB: 1JEQ_A 1JEY_A.
Probab=87.25 E-value=1.7 Score=45.76 Aligned_cols=157 Identities=15% Similarity=0.242 Sum_probs=73.2
Q ss_pred EEEEEECCCC--------hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHH
Q 002842 276 IILVIDECLD--------EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDS 344 (874)
Q Consensus 276 ~vFvID~s~~--------~~~l~~l~~sL~~~L~~L---p~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~ 344 (874)
+|||||++.+ +..|+.+.+++...+... .+...||+|.|++.-.=-......+...+++.....++.+.
T Consensus 2 ~vflID~s~sM~~~~~~~~~~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~~t~n~~~~~~~~~i~~l~~l~~~~~~~ 81 (224)
T PF03731_consen 2 TVFLIDVSPSMFEPSSESESPLEEALKAIEDLMQQKIISSPKDEVGVVLFGTDETNNPDEDSGYENIFVLQPLDPPSAER 81 (224)
T ss_dssp EEEEEE-SCGGGS-BTTCS-HHHHHHHHHHHHHHHHHHTT---EEEEEEES-SS-BST-TTT-STTEEEEEECC--BHHH
T ss_pred EEEEEECCHHHCCCCCCcchhHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCCCCCCcccccCCCceEEeecCCccCHHH
Confidence 6999999863 124555555555555431 24588999999865321101122333344444434455555
Q ss_pred HHHHhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcC--CCccccccccccCCCCcEEE
Q 002842 345 LKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQG--PSAEMSRGVVKRPGGNSRII 422 (874)
Q Consensus 345 l~~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~--~~~~~~~~~~~~~~~ggrIi 422 (874)
|+++.. .+. .... ..... .......+..||.+|..++.. +.. ....-||+
T Consensus 82 l~~L~~----~~~----~~~~----~~~~~-------~~~~~~~l~~al~v~~~~~~~~~~~~---------k~~~krI~ 133 (224)
T PF03731_consen 82 LKELEE----LLK----PGDK----FENFF-------SGSDEGDLSDALWVASDMFRERTCKK---------KKNKKRIF 133 (224)
T ss_dssp HHHHHT----TSH----HHHH----HHHHC--------SSS---HHHHHHHHHHHHHCHCTTS----------ECEEEEE
T ss_pred HHHHHH----hhc----cccc----ccccC-------CCCCccCHHHHHHHHHHHHHHHhhcc---------cCCCcEEE
Confidence 544321 011 1010 11111 122346789999999999974 211 11246888
Q ss_pred EEecCCCCCCCCcccCCCCCCCchhhhHhHHHHHHH-HHHHHhhcCeEEEEeee
Q 002842 423 VCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMEL-LGRKAHQHNAVIDILCA 475 (874)
Q Consensus 423 ~F~sGppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~-La~~~~~~gisVDiF~~ 475 (874)
+||..---.+ . .+. . ..+ .++ .+..+...||.+++|..
T Consensus 134 l~Td~d~p~~-----~---~~~---~-~~~---~~~l~~~Dl~~~~i~~~~~~l 172 (224)
T PF03731_consen 134 LFTDNDGPHE-----D---DDE---L-ERI---IQKLKAKDLQDNGIEIELFFL 172 (224)
T ss_dssp EEES-SSTTT---------CCC---H-HHH---HHHHHHHHHHHHTEEEEEEEC
T ss_pred EEeCCCCCCC-----C---HHH---H-HHH---HHhhccccchhcCcceeEeec
Confidence 8886422111 0 011 1 011 111 26678889999999987
No 72
>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=86.92 E-value=35 Score=35.28 Aligned_cols=110 Identities=12% Similarity=0.009 Sum_probs=65.3
Q ss_pred HHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhc-CCCccccccccccCCCCcEEEEEecCCCCCCCCcccCCCCC
Q 002842 364 QVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQ-GPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSH 442 (874)
Q Consensus 364 ~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~-~~~~~~~~~~~~~~~~ggrIi~F~sGppT~GpG~l~~~~~~ 442 (874)
..+..+|+.++-- + .+..|-.||..|+.-|+ ... ...--||+++.|-.|.| .+..
T Consensus 75 ~~l~~~l~~~q~g-~------ag~~TadAi~~av~rl~~~~~-----------a~~kvvILLTDG~n~~~--~i~P---- 130 (191)
T cd01455 75 ETLKMMHAHSQFC-W------SGDHTVEATEFAIKELAAKED-----------FDEAIVIVLSDANLERY--GIQP---- 130 (191)
T ss_pred HHHHHHHHhcccC-c------cCccHHHHHHHHHHHHHhcCc-----------CCCcEEEEEeCCCcCCC--CCCh----
Confidence 4556667766542 1 12234489999999886 421 12345667777765432 1211
Q ss_pred CCchhhhHhHHHHHHHH-HHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChhhHHHHHHHHHH
Q 002842 443 PNYLHMEKMALKWMELL-GRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGEAFGVNLQRAS 514 (874)
Q Consensus 443 ~~~~~~ek~a~~fY~~L-a~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~~~f~~dl~r~~ 514 (874)
.+. ++.+.+.||-|-.+..+.. |-..++.+++.|||..|...+-. .+.+-++.+|
T Consensus 131 --------------~~aAa~lA~~~gV~iytIgiG~~--d~~~l~~iA~~tgG~~F~A~d~~-~L~~iy~~I~ 186 (191)
T cd01455 131 --------------KKLADALAREPNVNAFVIFIGSL--SDEADQLQRELPAGKAFVCMDTS-ELPHIMQQIF 186 (191)
T ss_pred --------------HHHHHHHHHhCCCEEEEEEecCC--CHHHHHHHHhCCCCcEEEeCCHH-HHHHHHHHHH
Confidence 123 3445678887777766642 55778899999999999887653 3444444444
No 73
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=85.84 E-value=2.4 Score=50.40 Aligned_cols=92 Identities=23% Similarity=0.351 Sum_probs=56.0
Q ss_pred HHHHhhccceeeeccCCCcccCCc------c---cccccCCcEEEEeCCcEEEEEeCCcccccccccHHHHHHHHHHHHH
Q 002842 720 LSLRMVAPRCLMYREGGTFEELPA------Y---DLAMQSDKAVVLDHGTDVFIWLGAELAADEGRSAAALAACRTLAEE 790 (874)
Q Consensus 720 ~sl~miyP~L~~~~~~~~~~~lP~------~---~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~~~~~l~~~~~~~~~ 790 (874)
+-..-.+|+||.+.-+-.+-++|. - ..-+.+.++|+||+...||||+|+... .-...|..+...+
T Consensus 727 Edf~p~qpkLYkV~lGmGyLELPQvel~P~~~l~q~lL~sk~VyiLDc~sDiF~W~GkKs~------RLvraAa~KL~~E 800 (1255)
T KOG0444|consen 727 EDFVPEQPKLYKVNLGMGYLELPQVELLPKGILKQDLLGSKGVYILDCNSDIFLWIGKKSN------RLVRAAAQKLVVE 800 (1255)
T ss_pred cccCCCCcceEEEccccceeecchhhhchhhHHHHHhhcCCeEEEEecCCceEEEecccch------HHHHHHHHHHHHH
Confidence 335678999999864322223432 1 123788999999999999999998832 1111222233333
Q ss_pred HHh--cCCCCcEEEEEecCCchHHHHHHhh
Q 002842 791 LSE--FRFPAPRILAFKEGSSQARYFVTRL 818 (874)
Q Consensus 791 l~~--~R~p~Pr~i~~~qg~sqaRfl~srL 818 (874)
|-+ +|.-+-.+....+| ..+..|.+|.
T Consensus 801 L~~M~dRPdyA~V~R~~EG-~E~q~FrsKF 829 (1255)
T KOG0444|consen 801 LHQMIDRPDYAQVYRETEG-EESQMFRSKF 829 (1255)
T ss_pred HHhhhcCcchhheeeccCc-cHHHHHHHhh
Confidence 332 67666666655555 3566788875
No 74
>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=80.26 E-value=1.1 Score=36.53 Aligned_cols=35 Identities=26% Similarity=0.428 Sum_probs=26.8
Q ss_pred CCCccCCCCCcccccceEEEcCCceEEEccCCCcc
Q 002842 193 RDPHRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (874)
Q Consensus 193 ~~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N 227 (874)
.-++-|++|+.--.-+-+-+...-+|+|+.|+..|
T Consensus 20 r~aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 20 RYALICSKCFSHNGLAPKEEFEEIQYRCPYCGALN 54 (54)
T ss_pred ceeEECcccchhhcccccccCCceEEEcCCCCCcC
Confidence 34577999998755554666666799999999877
No 75
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=78.74 E-value=49 Score=42.94 Aligned_cols=47 Identities=11% Similarity=0.288 Sum_probs=41.1
Q ss_pred cEEEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEEE
Q 002842 275 PIILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVY 321 (874)
Q Consensus 275 ~~vFvID~s~~--~~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~vy 321 (874)
-++|++|+|.+ ...++..|..+...|+.|.++..|-++||++.++.-
T Consensus 227 diviLlD~SgSm~g~~~~lak~tv~~iLdtLs~~Dfvni~tf~~~~~~v 275 (1104)
T KOG2353|consen 227 DIVILLDVSGSMSGLRLDLAKQTVNEILDTLSDNDFVNILTFNSEVNPV 275 (1104)
T ss_pred ceEEEEeccccccchhhHHHHHHHHHHHHhcccCCeEEEEeeccccCcc
Confidence 46999999975 557889999999999999999999999999987753
No 76
>PHA03247 large tegument protein UL36; Provisional
Probab=77.70 E-value=42 Score=46.51 Aligned_cols=19 Identities=0% Similarity=-0.305 Sum_probs=11.2
Q ss_pred CCCCCCCeeeeecCccCCC
Q 002842 145 MPVGESSCVLFSAHKVLKK 163 (874)
Q Consensus 145 ~~~~~~~~vR~T~n~~P~t 163 (874)
++.+.+..-+-+++.|+.+
T Consensus 2984 pp~p~p~~~~~~~~~~~~~ 3002 (3151)
T PHA03247 2984 PSREAPASSTPPLTGHSLS 3002 (3151)
T ss_pred CCCCCCCCCCCCCCCCCCC
Confidence 4555666666666666533
No 77
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=77.55 E-value=22 Score=38.01 Aligned_cols=88 Identities=13% Similarity=0.132 Sum_probs=54.6
Q ss_pred CCCCCCCCeeeeecCccCCCHhhhhcCCCce-----EEEeccCCCCCC--CCcccc-CCCccCCCCCcccccceEEEcCC
Q 002842 144 TMPVGESSCVLFSAHKVLKKKKQANVPSLGF-----GALVSPGKEVSP--SLQIIQ-RDPHRCHNCGAFANIYCKILLGS 215 (874)
Q Consensus 144 ~~~~~~~~~vR~T~n~~P~t~~~~~~~~lPl-----g~l~tPl~~~~~--~~p~v~-~~p~RC~~C~AylNP~~~~~~~~ 215 (874)
..+...++|||+.-|.+-.=+...++..-|- -|.+.|-..... ..+... .--++|.+|+- .|.--....
T Consensus 98 r~aPpGKKYVRCPCNCLLICk~sS~rIaCPRp~CkRiI~L~~~~~~p~~~~~~~~p~~~rv~CghC~~---~Fl~~~~~~ 174 (256)
T PF09788_consen 98 RNAPPGKKYVRCPCNCLLICKSSSQRIACPRPNCKRIINLGPSHQGPVTPPVPTQPGSCRVICGHCSN---TFLFNTLTS 174 (256)
T ss_pred cCCCCCCeeEecCCceEEEeecccccccCCCCCCcceEEeCCccCCCCCCCCCCCCCceeEECCCCCC---cEeccCCCC
Confidence 3455668999999999888888888877774 344555422111 111111 23477888875 332222232
Q ss_pred ceE-EEccCCCccCCCcccc
Q 002842 216 GQW-QCVICRNLNGSEGEYV 234 (874)
Q Consensus 216 ~~W-~C~fC~~~N~~p~~Y~ 234 (874)
+.+ +|+.|.+...+...|.
T Consensus 175 ~tlARCPHCrKvSSVG~~fa 194 (256)
T PF09788_consen 175 NTLARCPHCRKVSSVGPRFA 194 (256)
T ss_pred CccccCCCCceeccccchHh
Confidence 344 9999999998877664
No 78
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=74.27 E-value=2.4 Score=33.17 Aligned_cols=30 Identities=17% Similarity=0.263 Sum_probs=21.2
Q ss_pred CccCCCCCcccccceEEEcCCceEEEccCCCccC
Q 002842 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNLNG 228 (874)
Q Consensus 195 p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~ 228 (874)
..+|.+|++-+- ++.....+.|+.||..-.
T Consensus 3 ~y~C~~CG~~~~----~~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVE----LDEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEE----ECCCCCceECCCCCCeEE
Confidence 368999999542 333334899999997654
No 79
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=73.99 E-value=7.6 Score=37.32 Aligned_cols=42 Identities=17% Similarity=0.335 Sum_probs=34.0
Q ss_pred EEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEE
Q 002842 277 ILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSV 320 (874)
Q Consensus 277 vFvID~s~~--~~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~v 320 (874)
+++||+|.+ .++|..+...|...++.. +.+|-+|.||..|+-
T Consensus 2 ~vaiDtSGSis~~~l~~fl~ev~~i~~~~--~~~v~vi~~D~~v~~ 45 (126)
T PF09967_consen 2 VVAIDTSGSISDEELRRFLSEVAGILRRF--PAEVHVIQFDAEVQD 45 (126)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHHhC--CCCEEEEEECCEeee
Confidence 689999975 678888888888877777 566889999998874
No 80
>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=73.78 E-value=2.8 Score=30.12 Aligned_cols=30 Identities=20% Similarity=0.515 Sum_probs=23.6
Q ss_pred ccCCCCCcccccceEEEcCCceEEEccCCCccCC
Q 002842 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNLNGS 229 (874)
Q Consensus 196 ~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~ 229 (874)
+.|..|+..|-- -.+...++|.+|+..|.+
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 257899999999988753
No 81
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=68.50 E-value=39 Score=39.32 Aligned_cols=28 Identities=29% Similarity=0.438 Sum_probs=15.4
Q ss_pred CCcCCCcccCC-CCCCCCCCCCCCCCCCCC
Q 002842 57 PSIKTPNLLSP-ANGVKTGSPIPHLSTPPG 85 (874)
Q Consensus 57 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 85 (874)
.+..+|.-+.| ..++++.+ +|++..|||
T Consensus 428 ~sa~vp~g~~P~~Pp~~~~~-p~~~~~ppg 456 (554)
T KOG0119|consen 428 HSAPVPGGLAPAYPPTSYAP-PPQSGQPPG 456 (554)
T ss_pred ccCCCCcccCCCCCCccCCC-CCccCCCCC
Confidence 45555664444 34455544 666666665
No 82
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=64.38 E-value=1.2e+02 Score=35.38 Aligned_cols=103 Identities=16% Similarity=0.215 Sum_probs=62.4
Q ss_pred CcEEEEEECCCC-hhHHHHHHHHHHHhhh--cCCCCcEEEEEEECceEEEEecCCCCcceeccccCCCCCCHHHHHHHhh
Q 002842 274 APIILVIDECLD-EPHLQHLQSSLHAFVE--SIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLY 350 (874)
Q Consensus 274 p~~vFvID~s~~-~~~l~~l~~sL~~~L~--~Lp~~a~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~~~~~~l~~~l~ 350 (874)
.|++.+||.|.+ .|.-+....++..+|- .+-+|.++.+|.|++.++=|++.... . +
T Consensus 273 GpvilllD~SGSM~G~~e~~AKAvalAl~~~alaenR~~~~~lF~s~~~~~el~~k~---~------------~------ 331 (437)
T COG2425 273 GPVILLLDKSGSMSGFKEQWAKAVALALMRIALAENRDCYVILFDSEVIEYELYEKK---I------------D------ 331 (437)
T ss_pred CCEEEEEeCCCCcCCcHHHHHHHHHHHHHHHHHHhccceEEEEecccceeeeecCCc---c------------C------
Confidence 789999999987 3444433334444432 24578899999999954444444310 0 1
Q ss_pred cCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCC
Q 002842 351 GTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (874)
Q Consensus 351 ~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGpp 429 (874)
+..+|+.|...+. .++-+-.||..|+..++.-. . .++.|++.|.|-+
T Consensus 332 ---------------~~e~i~fL~~~f~------GGTD~~~~l~~al~~~k~~~----------~-~~adiv~ITDg~~ 378 (437)
T COG2425 332 ---------------IEELIEFLSYVFG------GGTDITKALRSALEDLKSRE----------L-FKADIVVITDGED 378 (437)
T ss_pred ---------------HHHHHHHHhhhcC------CCCChHHHHHHHHHHhhccc----------c-cCCCEEEEeccHh
Confidence 1233344433221 12667788888888887521 1 2589999998854
No 83
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport]
Probab=60.74 E-value=86 Score=40.06 Aligned_cols=14 Identities=21% Similarity=0.204 Sum_probs=6.7
Q ss_pred CCCccCCCCCcccccce
Q 002842 193 RDPHRCHNCGAFANIYC 209 (874)
Q Consensus 193 ~~p~RC~~C~AylNP~~ 209 (874)
...-||. |-.+|-+
T Consensus 957 ~~~~r~~---a~~~~~~ 970 (1049)
T KOG0307|consen 957 ELLQRCS---ARTDPQT 970 (1049)
T ss_pred HHHHHhh---ccCCHHH
Confidence 3444544 5555543
No 84
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=58.72 E-value=6.8 Score=31.13 Aligned_cols=32 Identities=19% Similarity=0.275 Sum_probs=21.9
Q ss_pred cCCCCCcccccceEEEcCCceEEEccCCCccCCC
Q 002842 197 RCHNCGAFANIYCKILLGSGQWQCVICRNLNGSE 230 (874)
Q Consensus 197 RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p 230 (874)
.|..|+..|-+- -+.++..|+|+-|+..-...
T Consensus 2 FCp~Cg~~l~~~--~~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPK--EGKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCccccc--cCCCCCEEECCcCCCeEECC
Confidence 489999977332 22233599999999775543
No 85
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=54.26 E-value=99 Score=38.12 Aligned_cols=41 Identities=32% Similarity=0.614 Sum_probs=23.7
Q ss_pred CCCCCCCCCCCCCCCCC--CCCCCCCCCCCCCCCCCccCCCCCCC
Q 002842 76 PIPHLSTPPGPPVFTSP--VRPAAVPFRTSPATPQPVALSSGSSF 118 (874)
Q Consensus 76 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~ 118 (874)
..|+|...+-||.|.-| +.|+..|+.-+|.+|.|.+++ +.+
T Consensus 625 ~~Pg~np~~pPpg~~pP~~pPp~~Ppm~~pp~~pppp~~p--~~~ 667 (894)
T KOG0132|consen 625 LRPGYNPYPPPPGFMPPTSPPPGQPPMGIPPQTPPPPMFP--QGF 667 (894)
T ss_pred CCCCCCCCCCCcccCCCCCCCCCCCCCCCCCCCCCCCCCc--cCC
Confidence 44555544455555544 445666666666676677777 444
No 86
>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=52.24 E-value=6.5 Score=30.21 Aligned_cols=30 Identities=23% Similarity=0.466 Sum_probs=25.8
Q ss_pred ccCCCCCcccccceEEEcCCceEEEccCCCc
Q 002842 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 196 ~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
-||..|+....-+..+.. .....|+-|+..
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~ 35 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSISE-DDPVPCPECGST 35 (42)
T ss_pred EEeCCCCCEEEEEEEcCC-CCCCcCCCCCCC
Confidence 489999998888888876 789999999973
No 87
>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=50.15 E-value=8.1 Score=28.04 Aligned_cols=24 Identities=25% Similarity=0.692 Sum_probs=16.0
Q ss_pred cCCCCCcccccceEEEcCCceEEEccCCCc
Q 002842 197 RCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 197 RC~~C~AylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
+|..|+=+..+- ..-|.|+.|+..
T Consensus 3 ~C~~CGy~y~~~------~~~~~CP~Cg~~ 26 (33)
T cd00350 3 VCPVCGYIYDGE------EAPWVCPVCGAP 26 (33)
T ss_pred ECCCCCCEECCC------cCCCcCcCCCCc
Confidence 588888543432 267999999863
No 88
>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=50.09 E-value=20 Score=27.54 Aligned_cols=27 Identities=26% Similarity=0.569 Sum_probs=21.4
Q ss_pred cCCCCCcccccceEEEcCCceEEEccCCCc
Q 002842 197 RCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 197 RC~~C~AylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
+|.+|++-- ..+|...+.++|.-||..
T Consensus 2 ~Cp~Cg~~~---~~~D~~~g~~vC~~CG~V 28 (43)
T PF08271_consen 2 KCPNCGSKE---IVFDPERGELVCPNCGLV 28 (43)
T ss_dssp SBTTTSSSE---EEEETTTTEEEETTT-BB
T ss_pred CCcCCcCCc---eEEcCCCCeEECCCCCCE
Confidence 699999933 577888899999999965
No 89
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=48.50 E-value=9.7 Score=35.96 Aligned_cols=28 Identities=18% Similarity=0.439 Sum_probs=20.0
Q ss_pred CCccCCCCCcccccceEEEcCCceEEEccCCCcc
Q 002842 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (874)
Q Consensus 194 ~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N 227 (874)
.-.||..|+... ......|.||-||..+
T Consensus 69 ~~~~C~~Cg~~~------~~~~~~~~CP~Cgs~~ 96 (113)
T PRK12380 69 AQAWCWDCSQVV------EIHQHDAQCPHCHGER 96 (113)
T ss_pred cEEEcccCCCEE------ecCCcCccCcCCCCCC
Confidence 458999999533 3334667899999765
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=47.90 E-value=7.4 Score=33.16 Aligned_cols=32 Identities=22% Similarity=0.520 Sum_probs=21.4
Q ss_pred CCccCCCCCcccccceEEEcCCceEEEccCCCccCCCc
Q 002842 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEG 231 (874)
Q Consensus 194 ~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p~ 231 (874)
-+.|| .|+.|+ -.+++.+.-+| .||....+-.
T Consensus 2 lifrC-~Cgr~l----ya~e~~kTkkC-~CG~~l~vk~ 33 (68)
T PF09082_consen 2 LIFRC-DCGRYL----YAKEGAKTKKC-VCGKTLKVKE 33 (68)
T ss_dssp EEEEE-TTS--E----EEETT-SEEEE-TTTEEEE--S
T ss_pred EEEEe-cCCCEE----EecCCcceeEe-cCCCeeeeee
Confidence 36899 699975 34677899999 9999877653
No 91
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=47.74 E-value=67 Score=39.47 Aligned_cols=7 Identities=14% Similarity=0.377 Sum_probs=3.0
Q ss_pred EEEEecC
Q 002842 318 VSVYDFS 324 (874)
Q Consensus 318 V~vy~l~ 324 (874)
||-++|.
T Consensus 465 ih~~dLk 471 (830)
T KOG1923|consen 465 IHPLDLK 471 (830)
T ss_pred hhhcccc
Confidence 3444443
No 92
>PRK03954 ribonuclease P protein component 4; Validated
Probab=47.43 E-value=12 Score=35.80 Aligned_cols=35 Identities=17% Similarity=0.399 Sum_probs=24.6
Q ss_pred ccCCCCCcccccc--eEEEcCCc-----eEEEccCCCccCCC
Q 002842 196 HRCHNCGAFANIY--CKILLGSG-----QWQCVICRNLNGSE 230 (874)
Q Consensus 196 ~RC~~C~AylNP~--~~~~~~~~-----~W~C~fC~~~N~~p 230 (874)
--|++|.++|=|- |.+-..++ .++|..||...-+|
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 3599999998663 33333232 34999999998876
No 93
>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=47.43 E-value=11 Score=35.81 Aligned_cols=28 Identities=14% Similarity=0.458 Sum_probs=20.3
Q ss_pred CCccCCCCCcccccceEEEcCCceEEEccCCCcc
Q 002842 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (874)
Q Consensus 194 ~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N 227 (874)
.-.+|.+|+....+ ....|.||-|+..+
T Consensus 69 ~~~~C~~Cg~~~~~------~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 69 VECECEDCSEEVSP------EIDLYRCPKCHGIM 96 (115)
T ss_pred cEEEcccCCCEEec------CCcCccCcCCcCCC
Confidence 34899999954333 23468999999876
No 94
>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=46.28 E-value=9.3 Score=30.48 Aligned_cols=31 Identities=23% Similarity=0.388 Sum_probs=23.0
Q ss_pred ccCCCCCcccccceEEEcCCceEEEccCCCcc
Q 002842 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (874)
Q Consensus 196 ~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N 227 (874)
-||..|+....-+..+.. .....|+-|+..+
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~ 36 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMSD-DPLATCPECGGEK 36 (52)
T ss_pred EEeCCCCCEeEEEEecCC-CCCCCCCCCCCCc
Confidence 489999997766655543 5678899999743
No 95
>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=44.97 E-value=4.1e+02 Score=28.31 Aligned_cols=110 Identities=13% Similarity=0.077 Sum_probs=60.1
Q ss_pred HHHHhhcCCccccccCCCCCc-hHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCCCcccCCCCCCCch
Q 002842 368 DIFSSLRPYKLNITEASRDRC-LGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPNYL 446 (874)
Q Consensus 368 ~lLe~L~~~~~~~~~~~r~rc-~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~GpG~l~~~~~~~~~~ 446 (874)
+.|++|+-.... -...+ ..-+|.+|+.++...... |....+...--+.|+.+.++|..=|= .+ ...
T Consensus 94 ~~L~~I~f~GGG----~e~~a~iaEGLa~AL~~fd~~~~~--r~~~~~~~~~khcILI~nSpP~~~p~----~~---~~~ 160 (226)
T PF11265_consen 94 QWLDAIQFSGGG----FESCAAIAEGLAEALQCFDDFKQM--RQQQQQTDVQKHCILICNSPPYRLPV----NE---CPQ 160 (226)
T ss_pred HHHHccCcCCCC----cccchhHHHHHHHHHHHhcchhhh--ccccCcccccceEEEEeCCCCccccc----cC---CCc
Confidence 456666553211 12233 777888888888632100 00000000113455556666633221 11 011
Q ss_pred hhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEE
Q 002842 447 HMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVL 498 (874)
Q Consensus 447 ~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~ 498 (874)
...+.++.++..+.+++|.+.+++- . -+..+..|-++.+|....
T Consensus 161 ----~~~~~~d~la~~~~~~~I~LSiisP--r--klP~l~~Lfeka~~~~~~ 204 (226)
T PF11265_consen 161 ----YSGKTCDQLAVLISERNISLSIISP--R--KLPSLRSLFEKAKGNPRA 204 (226)
T ss_pred ----ccCCCHHHHHHHHHhcCceEEEEcC--c--cCHHHHHHHHhcCCCccc
Confidence 1123468899999999999998853 2 367788888888886555
No 96
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=43.76 E-value=11 Score=30.07 Aligned_cols=27 Identities=19% Similarity=0.490 Sum_probs=19.7
Q ss_pred cCCCCCcccccceEEEcCCceEEEccCCCcc
Q 002842 197 RCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (874)
Q Consensus 197 RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N 227 (874)
+|.+|++-+ ..+.....-.|+-||++=
T Consensus 8 ~C~~Cg~~~----~~~~~~~~irCp~Cg~rI 34 (49)
T COG1996 8 KCARCGREV----ELDQETRGIRCPYCGSRI 34 (49)
T ss_pred EhhhcCCee----ehhhccCceeCCCCCcEE
Confidence 688888876 445566778888888763
No 97
>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=43.13 E-value=12 Score=29.95 Aligned_cols=34 Identities=18% Similarity=0.490 Sum_probs=23.8
Q ss_pred CccCCCCCcccccceEEEcCCceEEEccCCCccCCC
Q 002842 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSE 230 (874)
Q Consensus 195 p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p 230 (874)
-+||.+|+-.|----.++ .-.-+|+=|++.|.+-
T Consensus 4 eiRC~~CnklLa~~g~~~--~leIKCpRC~tiN~~~ 37 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVI--ELEIKCPRCKTINHVR 37 (51)
T ss_pred ceeccchhHHHhhhcCcc--EEEEECCCCCccceEe
Confidence 389999987765421111 2358999999999874
No 98
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=43.11 E-value=13 Score=42.66 Aligned_cols=27 Identities=22% Similarity=0.394 Sum_probs=21.9
Q ss_pred cCCCCCcccccceEEEcCCceEEEccCCCccCCCc
Q 002842 197 RCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEG 231 (874)
Q Consensus 197 RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p~ 231 (874)
+|++|+. ......|+|+-|+..|.+..
T Consensus 2 ~c~~cg~--------~~~~~~g~cp~c~~w~~~~e 28 (372)
T cd01121 2 VCSECGY--------VSPKWLGKCPECGEWNTLVE 28 (372)
T ss_pred CCCCCCC--------CCCCccEECcCCCCceeeee
Confidence 6999986 33457899999999999864
No 99
>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=42.99 E-value=4.2e+02 Score=27.83 Aligned_cols=101 Identities=21% Similarity=0.272 Sum_probs=60.1
Q ss_pred CCchHHHHHHHHHHhcCCCccccccccccCCCCcE-EEEEec-CCCCCCCCcccCCCCCCCchhhhHhHHHHHHHHHHHH
Q 002842 386 DRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSR-IIVCAG-GPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKA 463 (874)
Q Consensus 386 ~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggr-Ii~F~s-GppT~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~ 463 (874)
.++.|.||..|..+|...- ..+.| ||=..+ |+.|.|+.-+ +..-..+
T Consensus 94 ~Taig~Al~~a~~ll~~~~-----------~~~~RrVIDvSGDG~~N~G~~p~--------------------~~ard~~ 142 (205)
T PF06707_consen 94 RTAIGSALDFAAALLAQNP-----------FECWRRVIDVSGDGPNNQGPRPV--------------------TSARDAA 142 (205)
T ss_pred CchHHHHHHHHHHHHHhCC-----------CCCceEEEEECCCCCCCCCCCcc--------------------HHHHHHH
Confidence 3999999999999998632 11344 444433 7777775322 0111234
Q ss_pred hhcCeEEEEeeecCCCC----Ccccc--hhhhcccccEEEEcCChhhHHHHHHHHHHhhcc
Q 002842 464 HQHNAVIDILCAGNCPV----RVPVL--QPLAKASGGVLVLHDDFGEAFGVNLQRASTRAA 518 (874)
Q Consensus 464 ~~~gisVDiF~~s~d~v----glaem--~~l~~~TGG~v~~~~~F~~~f~~dl~r~~~~~~ 518 (874)
...||+||=++...+.- +|.+. ..+..-.|..+.-..+|. .|.+-++|.|.++.
T Consensus 143 ~~~GitINgL~I~~~~~~~~~~L~~yy~~~VIgGpgAFV~~a~~~~-df~~AirrKL~rEi 202 (205)
T PF06707_consen 143 VAAGITINGLAILDDDPFGGADLDAYYRRCVIGGPGAFVETARGFE-DFAEAIRRKLIREI 202 (205)
T ss_pred HHCCeEEeeeEecCCCCCccccHHHHHhhhcccCCCceEEEcCCHH-HHHHHHHHHHHHHh
Confidence 56899999998776543 34332 233333444666666665 36666666666553
No 100
>PRK11823 DNA repair protein RadA; Provisional
Probab=42.58 E-value=12 Score=43.78 Aligned_cols=28 Identities=25% Similarity=0.356 Sum_probs=22.5
Q ss_pred ccCCCCCcccccceEEEcCCceEEEccCCCccCCCc
Q 002842 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEG 231 (874)
Q Consensus 196 ~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p~ 231 (874)
-+|++|+. ......|+|+-|+..|.+..
T Consensus 8 y~C~~Cg~--------~~~~~~g~Cp~C~~w~t~~e 35 (446)
T PRK11823 8 YVCQECGA--------ESPKWLGRCPECGAWNTLVE 35 (446)
T ss_pred EECCcCCC--------CCcccCeeCcCCCCccceee
Confidence 57888886 34567899999999999865
No 101
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=42.29 E-value=14 Score=34.86 Aligned_cols=28 Identities=18% Similarity=0.424 Sum_probs=19.2
Q ss_pred CCccCCCCCcccccceEEEcCC-ceEEEccCCCcc
Q 002842 194 DPHRCHNCGAFANIYCKILLGS-GQWQCVICRNLN 227 (874)
Q Consensus 194 ~p~RC~~C~AylNP~~~~~~~~-~~W~C~fC~~~N 227 (874)
.-.+|..|+.+. .... ..|.||-||..+
T Consensus 69 ~~~~C~~Cg~~~------~~~~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 69 AECWCETCQQYV------TLLTQRVRRCPQCHGDM 97 (114)
T ss_pred cEEEcccCCCee------ecCCccCCcCcCcCCCC
Confidence 448899999632 2222 348899999765
No 102
>PHA03247 large tegument protein UL36; Provisional
Probab=41.58 E-value=2.4e+02 Score=39.92 Aligned_cols=13 Identities=38% Similarity=0.340 Sum_probs=5.2
Q ss_pred HhhcCHHHHHHHH
Q 002842 620 LSSFQDEVAAVLI 632 (874)
Q Consensus 620 ~~s~D~ea~~~l~ 632 (874)
+++--..|+++|+
T Consensus 3103 ~r~Tg~salAlLi 3115 (3151)
T PHA03247 3103 VRSTGRSALAVLI 3115 (3151)
T ss_pred HhhccHHHHHHHH
Confidence 3333334444443
No 103
>PRK10997 yieM hypothetical protein; Provisional
Probab=41.28 E-value=34 Score=40.51 Aligned_cols=51 Identities=16% Similarity=0.307 Sum_probs=32.5
Q ss_pred CcEEEEEECCCCh-hHHHHHHHHHHHhhh--cCCCCcEEEEEEECceEEEEecC
Q 002842 274 APIILVIDECLDE-PHLQHLQSSLHAFVE--SIPPTARIGIILYGRTVSVYDFS 324 (874)
Q Consensus 274 p~~vFvID~s~~~-~~l~~l~~sL~~~L~--~Lp~~a~VGlITFd~~V~vy~l~ 324 (874)
-|+++|||+|.+- |.-+....++..+|- .+.++-++++|.|++.+.-|++.
T Consensus 324 GpiII~VDtSGSM~G~ke~~AkalAaAL~~iAl~q~dr~~li~Fs~~i~~~~l~ 377 (487)
T PRK10997 324 GPFIVCVDTSGSMGGFNEQCAKAFCLALMRIALAENRRCYIMLFSTEVVTYELT 377 (487)
T ss_pred CcEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEEecCCceeeccC
Confidence 5799999999752 222222223333332 34567889999999987766543
No 104
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=40.62 E-value=92 Score=33.79 Aligned_cols=43 Identities=21% Similarity=0.183 Sum_probs=34.4
Q ss_pred HHHHHHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCChh
Q 002842 458 LLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (874)
Q Consensus 458 ~La~~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F~ 503 (874)
+.--.|.+++|.||++....+ -..|...|..|||...+.+.-.
T Consensus 187 NciFaAqKq~I~Idv~~l~~~---s~~LqQa~D~TGG~YL~v~~~~ 229 (314)
T KOG2487|consen 187 NCIFAAQKQNIPIDVVSLGGD---SGFLQQACDITGGDYLHVEKPD 229 (314)
T ss_pred HHHHHHHhcCceeEEEEecCC---chHHHHHHhhcCCeeEecCCcc
Confidence 344467889999999998877 3468899999999888887654
No 105
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=40.46 E-value=18 Score=35.08 Aligned_cols=35 Identities=23% Similarity=0.562 Sum_probs=24.7
Q ss_pred ccCCCCCcccccceEEEcCCceEEEccCCCccCCCcc
Q 002842 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGE 232 (874)
Q Consensus 196 ~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p~~ 232 (874)
++|--|+..- -...+...+.|.|+-|++.|.|..+
T Consensus 1 v~C~fC~~~s--~~~~~~~~~~w~C~~C~q~N~f~e~ 35 (131)
T PF09779_consen 1 VNCWFCGQNS--KVPYDNRNSNWTCPHCEQYNGFDED 35 (131)
T ss_pred CeeccCCCCC--CCCCCCCCCeeECCCCCCccCcccc
Confidence 5688887742 3333444556999999999998754
No 106
>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=39.94 E-value=10 Score=30.44 Aligned_cols=29 Identities=21% Similarity=0.548 Sum_probs=19.0
Q ss_pred cCCCCCcccccc-----------eEEEcCCceEEEccCCC
Q 002842 197 RCHNCGAFANIY-----------CKILLGSGQWQCVICRN 225 (874)
Q Consensus 197 RC~~C~AylNP~-----------~~~~~~~~~W~C~fC~~ 225 (874)
+|..|+=+.+|- ..|+.-...|+|+.|+.
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 688888766654 23333346789999985
No 107
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=37.73 E-value=1.9e+02 Score=36.11 Aligned_cols=39 Identities=23% Similarity=0.490 Sum_probs=32.0
Q ss_pred CCCccCCCCCcccccceEEE------cCCceEEEccCCCccCCCc
Q 002842 193 RDPHRCHNCGAFANIYCKIL------LGSGQWQCVICRNLNGSEG 231 (874)
Q Consensus 193 ~~p~RC~~C~AylNP~~~~~------~~~~~W~C~fC~~~N~~p~ 231 (874)
....+|+-|.-+++.+.... .+-+-|+||+||.+-..+.
T Consensus 351 ~~khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkG 395 (958)
T KOG1074|consen 351 FFKHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKG 395 (958)
T ss_pred cccchhhhhHhhcCchhhhhhhhhccCCCCCeeeccccccccccc
Confidence 46789999999999998764 4668999999998876554
No 108
>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=37.72 E-value=15 Score=27.49 Aligned_cols=29 Identities=28% Similarity=0.503 Sum_probs=22.3
Q ss_pred ccCCCCCcccccceEEEcCCceEEEccCCC
Q 002842 196 HRCHNCGAFANIYCKILLGSGQWQCVICRN 225 (874)
Q Consensus 196 ~RC~~C~AylNP~~~~~~~~~~W~C~fC~~ 225 (874)
.+|..|+....-...+.. +....|+-|+.
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKISD-DPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecCC-CCCCCCCCCCC
Confidence 489999997776665543 67888999997
No 109
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.19 E-value=2e+02 Score=33.51 Aligned_cols=36 Identities=36% Similarity=0.599 Sum_probs=19.8
Q ss_pred CCCCCCCCCCCCCCCCCC--CCCCCCCCCCCCCCCCCc
Q 002842 75 SPIPHLSTPPGPPVFTSP--VRPAAVPFRTSPATPQPV 110 (874)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~ 110 (874)
.|||.++.|+++=....| .+|.+-|..++|.+|++.
T Consensus 430 ~~hP~~~~p~~~~g~~~P~~~mpp~~P~~~~pppP~~p 467 (483)
T KOG2236|consen 430 QPHPPESNPPANFGQANPFNQMPPAYPHQQSPPPPPPP 467 (483)
T ss_pred CCCCCCCCCcccccccCccccCCCCCccccCCCCCCCC
Confidence 445555555555555555 555555665666665444
No 110
>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=37.15 E-value=15 Score=34.77 Aligned_cols=32 Identities=19% Similarity=0.582 Sum_probs=26.8
Q ss_pred ccCCCCCcccccceEEEc-CCceEEEccCCCcc
Q 002842 196 HRCHNCGAFANIYCKILL-GSGQWQCVICRNLN 227 (874)
Q Consensus 196 ~RC~~C~AylNP~~~~~~-~~~~W~C~fC~~~N 227 (874)
..|..|+-.+..-|.+.. +...|.|++|....
T Consensus 72 ~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~r 104 (118)
T PF02318_consen 72 RVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQR 104 (118)
T ss_dssp EEETTTTEEEETTSEEETSSSCCEEEHHHHHHH
T ss_pred CcCCcCCccccCccCCcCCCCCCEEChhhHHHH
Confidence 789999999999998874 56899999998654
No 111
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=36.06 E-value=16 Score=26.88 Aligned_cols=30 Identities=17% Similarity=0.256 Sum_probs=15.6
Q ss_pred cCCCCCcccccceEEEcCCceEEEccCCCc
Q 002842 197 RCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 197 RC~~C~AylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
-|..|++-+.--.--.++..+|+|+-|+..
T Consensus 2 fC~~CG~~l~~~ip~gd~r~R~vC~~Cg~I 31 (34)
T PF14803_consen 2 FCPQCGGPLERRIPEGDDRERLVCPACGFI 31 (34)
T ss_dssp B-TTT--B-EEE--TT-SS-EEEETTTTEE
T ss_pred ccccccChhhhhcCCCCCccceECCCCCCE
Confidence 388899876544332345679999999864
No 112
>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=35.94 E-value=25 Score=29.75 Aligned_cols=27 Identities=19% Similarity=0.411 Sum_probs=22.2
Q ss_pred ccCCCCCcccccceEEEcCCceEEEccCCCc
Q 002842 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 196 ~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
-.|..|+...-- ...++.|.|+-||..
T Consensus 29 q~C~~CG~~~~~----~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 29 QTCPRCGHRNKK----RRSGRVFTCPNCGFE 55 (69)
T ss_pred cCccCccccccc----ccccceEEcCCCCCE
Confidence 569999987766 456799999999976
No 113
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=35.09 E-value=20 Score=23.97 Aligned_cols=21 Identities=38% Similarity=0.716 Sum_probs=13.3
Q ss_pred cCCCCCcccccceEEEcCCceEEEccCCC
Q 002842 197 RCHNCGAFANIYCKILLGSGQWQCVICRN 225 (874)
Q Consensus 197 RC~~C~AylNP~~~~~~~~~~W~C~fC~~ 225 (874)
+|.+|++-+..-.+| |+-||+
T Consensus 1 ~Cp~CG~~~~~~~~f--------C~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKF--------CPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcc--------hhhhCC
Confidence 477888766544333 777775
No 114
>PRK12860 transcriptional activator FlhC; Provisional
Probab=34.96 E-value=17 Score=37.44 Aligned_cols=28 Identities=25% Similarity=0.609 Sum_probs=20.5
Q ss_pred CCccCCCCCc-ccccceEEEcCCceEEEccCC
Q 002842 194 DPHRCHNCGA-FANIYCKILLGSGQWQCVICR 224 (874)
Q Consensus 194 ~p~RC~~C~A-ylNP~~~~~~~~~~W~C~fC~ 224 (874)
...+|..|++ ||-. ..+....++|++|+
T Consensus 133 ~l~~C~~Cgg~fv~~---~~e~~~~f~CplC~ 161 (189)
T PRK12860 133 QLARCCRCGGKFVTH---AHDLRHNFVCGLCQ 161 (189)
T ss_pred eeccCCCCCCCeecc---ccccCCCCcCCCCC
Confidence 5688999997 4422 22456899999999
No 115
>KOG4217 consensus Nuclear receptors of the nerve growth factor-induced protein B type [Transcription]
Probab=34.54 E-value=2.3e+02 Score=33.08 Aligned_cols=26 Identities=15% Similarity=0.512 Sum_probs=17.1
Q ss_pred cCCCccCCCCCcccccceEEEcCCceEEE
Q 002842 192 QRDPHRCHNCGAFANIYCKILLGSGQWQC 220 (874)
Q Consensus 192 ~~~p~RC~~C~AylNP~~~~~~~~~~W~C 220 (874)
.|+.-.|..|+++.---++ .+.+|+|
T Consensus 283 HYGvRTCEGCKGFFKRTVQ---KnaKYvC 308 (605)
T KOG4217|consen 283 HYGVRTCEGCKGFFKRTVQ---KNAKYVC 308 (605)
T ss_pred hcCccccccchHHHHHHHh---cCCeeEe
Confidence 5888999999998633332 2345555
No 116
>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=34.51 E-value=78 Score=33.37 Aligned_cols=41 Identities=10% Similarity=0.224 Sum_probs=24.2
Q ss_pred cEEEEEECCCChhH-HHHHHHHHHHhhhcCCCCcEEEEEEECceE
Q 002842 275 PIILVIDECLDEPH-LQHLQSSLHAFVESIPPTARIGIILYGRTV 318 (874)
Q Consensus 275 ~~vFvID~s~~~~~-l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V 318 (874)
++|+|+|+|.+-.. -..+...+..+....+ ++.++.|++.|
T Consensus 59 ~lvvl~DvSGSM~~~s~~~l~~~~~l~~~~~---~~~~f~F~~~l 100 (222)
T PF05762_consen 59 RLVVLCDVSGSMAGYSEFMLAFLYALQRQFR---RVRVFVFSTRL 100 (222)
T ss_pred cEEEEEeCCCChHHHHHHHHHHHHHHHHhCC---CEEEEEEeeeh
Confidence 79999999987433 2222222333333333 67788888654
No 117
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=34.24 E-value=21 Score=26.62 Aligned_cols=31 Identities=23% Similarity=0.479 Sum_probs=22.0
Q ss_pred ccCCCCCcccccc-eEEEcCCceEEEccCCCc
Q 002842 196 HRCHNCGAFANIY-CKILLGSGQWQCVICRNL 226 (874)
Q Consensus 196 ~RC~~C~AylNP~-~~~~~~~~~W~C~fC~~~ 226 (874)
++|.+|++..+-= .++..+++..+|+-|++.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~ 34 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHV 34 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcE
Confidence 6788888865533 345556788889888865
No 118
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=34.15 E-value=14 Score=30.51 Aligned_cols=23 Identities=22% Similarity=0.554 Sum_probs=12.8
Q ss_pred CCccCCCCCcccccceEEEcCCceEEEccCCCc
Q 002842 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 194 ~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
.+.||.+||- .+..++|+-||..
T Consensus 37 ~I~Rc~~CRk----------~g~~Y~Cp~CGF~ 59 (61)
T COG2888 37 EIYRCAKCRK----------LGNPYRCPKCGFE 59 (61)
T ss_pred eeehhhhHHH----------cCCceECCCcCcc
Confidence 4556666654 3445566666643
No 119
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=34.04 E-value=49 Score=36.64 Aligned_cols=29 Identities=24% Similarity=0.551 Sum_probs=27.0
Q ss_pred hhHHHHHHHHHHHhhhcCCCCcEEEEEEE
Q 002842 286 EPHLQHLQSSLHAFVESIPPTARIGIILY 314 (874)
Q Consensus 286 ~~~l~~l~~sL~~~L~~Lp~~a~VGlITF 314 (874)
+.||+.|+++|.++++.|.++.|+++|||
T Consensus 217 NdEL~~L~~~L~~a~~~L~~gGRl~VIsF 245 (314)
T COG0275 217 NDELEELEEALEAALDLLKPGGRLAVISF 245 (314)
T ss_pred hhHHHHHHHHHHHHHHhhCCCcEEEEEEe
Confidence 57899999999999999999999999877
No 120
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=33.91 E-value=16 Score=34.78 Aligned_cols=29 Identities=17% Similarity=0.322 Sum_probs=18.9
Q ss_pred CCccCCCCCcccccceEEEcCCce-EEEccCCCccC
Q 002842 194 DPHRCHNCGAFANIYCKILLGSGQ-WQCVICRNLNG 228 (874)
Q Consensus 194 ~p~RC~~C~AylNP~~~~~~~~~~-W~C~fC~~~N~ 228 (874)
.-.||..|+.+..+ .... +.||-|+..+.
T Consensus 70 ~~~~C~~Cg~~~~~------~~~~~~~CP~Cgs~~~ 99 (117)
T PRK00564 70 VELECKDCSHVFKP------NALDYGVCEKCHSKNV 99 (117)
T ss_pred CEEEhhhCCCcccc------CCccCCcCcCCCCCce
Confidence 45899999954322 1223 45999998763
No 121
>PRK12722 transcriptional activator FlhC; Provisional
Probab=33.78 E-value=18 Score=37.13 Aligned_cols=29 Identities=24% Similarity=0.642 Sum_probs=20.8
Q ss_pred CCccCCCCCc-ccccceEEEcCCceEEEccCCC
Q 002842 194 DPHRCHNCGA-FANIYCKILLGSGQWQCVICRN 225 (874)
Q Consensus 194 ~p~RC~~C~A-ylNP~~~~~~~~~~W~C~fC~~ 225 (874)
...+|+.|++ ||-. ..+....++|++|+-
T Consensus 133 ~l~~C~~Cgg~fv~~---~~e~~~~f~CplC~~ 162 (187)
T PRK12722 133 QLSSCNCCGGHFVTH---AHDPVGSFVCGLCQP 162 (187)
T ss_pred eeccCCCCCCCeecc---ccccCCCCcCCCCCC
Confidence 5688999997 4422 223468999999996
No 122
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=33.73 E-value=24 Score=36.10 Aligned_cols=25 Identities=28% Similarity=0.514 Sum_probs=20.8
Q ss_pred ccCCCCCcccccceEEEcCCceEEEccCCCc
Q 002842 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 196 ~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
.+|++|++.|=. .+.+-+|+-|+..
T Consensus 150 A~CsrC~~~L~~------~~~~l~Cp~Cg~t 174 (188)
T COG1096 150 ARCSRCRAPLVK------KGNMLKCPNCGNT 174 (188)
T ss_pred EEccCCCcceEE------cCcEEECCCCCCE
Confidence 689999997643 5789999999964
No 123
>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=33.03 E-value=38 Score=23.05 Aligned_cols=24 Identities=21% Similarity=0.440 Sum_probs=17.7
Q ss_pred CCCCCcccccceEEEcCCceEEEccCCC
Q 002842 198 CHNCGAFANIYCKILLGSGQWQCVICRN 225 (874)
Q Consensus 198 C~~C~AylNP~~~~~~~~~~W~C~fC~~ 225 (874)
|.+|+.-|-|-- .+..|.|+-||.
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 778888777653 256799999974
No 124
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=31.29 E-value=30 Score=34.15 Aligned_cols=33 Identities=21% Similarity=0.396 Sum_probs=22.4
Q ss_pred CccCCCCCcccccceEE-----------EcCCceEEEccCCCcc
Q 002842 195 PHRCHNCGAFANIYCKI-----------LLGSGQWQCVICRNLN 227 (874)
Q Consensus 195 p~RC~~C~AylNP~~~~-----------~~~~~~W~C~fC~~~N 227 (874)
.-||..|.+-+-+-.+- ......|+|+-|++.-
T Consensus 91 ~sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~~C~kiy 134 (147)
T PF01927_consen 91 FSRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCPGCGKIY 134 (147)
T ss_pred CCccCCCCcEeeechhhccccccCccccccCCeEEECCCCCCEe
Confidence 48999999954332211 1234699999999874
No 125
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=31.11 E-value=3.3e+02 Score=29.00 Aligned_cols=34 Identities=32% Similarity=0.591 Sum_probs=17.4
Q ss_pred CCCcccCCCCCCCCCCCCCC-CCCCCCCCCCCCCCC
Q 002842 60 KTPNLLSPANGVKTGSPIPH-LSTPPGPPVFTSPVR 94 (874)
Q Consensus 60 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 94 (874)
++|-..-|..|+- ..+-|+ |-.+||+|..+-|++
T Consensus 154 gmp~~~ppp~g~p-p~~~pgv~mp~~g~pg~~~pp~ 188 (341)
T KOG2893|consen 154 GMPGAYPPPRGYP-PAPAPGVYMPPPGMPGAYPPPR 188 (341)
T ss_pred CCCCCCCCCCCCC-CCCCCccccCCCCCCCCCCCCc
Confidence 3444444555554 334445 555566666665554
No 126
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=30.82 E-value=28 Score=33.94 Aligned_cols=34 Identities=18% Similarity=0.387 Sum_probs=20.6
Q ss_pred CCccCCCCCcccccce---E----------EEc--CCceEEEccCCCcc
Q 002842 194 DPHRCHNCGAFANIYC---K----------ILL--GSGQWQCVICRNLN 227 (874)
Q Consensus 194 ~p~RC~~C~AylNP~~---~----------~~~--~~~~W~C~fC~~~N 227 (874)
...+|..|+.....-- + +.. ....|.||-||..+
T Consensus 69 ~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~ 117 (135)
T PRK03824 69 AVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRD 117 (135)
T ss_pred eEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCC
Confidence 4588999996544320 0 000 03568899999765
No 127
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=30.56 E-value=35 Score=26.66 Aligned_cols=26 Identities=23% Similarity=0.432 Sum_probs=17.7
Q ss_pred cCCCCCcccccceEEEcCCceEEEccCCCcc
Q 002842 197 RCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (874)
Q Consensus 197 RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N 227 (874)
+|.+|++-++.- .+..-+|+-||++=
T Consensus 4 ~C~~Cg~~~~~~-----~~~~irC~~CG~rI 29 (44)
T smart00659 4 ICGECGRENEIK-----SKDVVRCRECGYRI 29 (44)
T ss_pred ECCCCCCEeecC-----CCCceECCCCCceE
Confidence 588888855432 35678888888653
No 128
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=30.54 E-value=55 Score=23.94 Aligned_cols=30 Identities=17% Similarity=0.460 Sum_probs=20.6
Q ss_pred CCccCCCCCcccccceEEEcCCceEEEccCCCcc
Q 002842 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (874)
Q Consensus 194 ~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N 227 (874)
.+.+|..|++-. -+........|.+|+..-
T Consensus 2 ~~~~C~~C~~~~----i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 2 NLKKCSKCGGNG----IVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred CceEcCCCCCCe----EEEecCCeEEcccCCcEe
Confidence 357899998854 221345788999998753
No 129
>PF12773 DZR: Double zinc ribbon
Probab=30.48 E-value=31 Score=27.17 Aligned_cols=34 Identities=21% Similarity=0.357 Sum_probs=25.8
Q ss_pred cCCCccCCCCCcccccceEEEcCCceEEEccCCCccCCC
Q 002842 192 QRDPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSE 230 (874)
Q Consensus 192 ~~~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p 230 (874)
+.+-..|.+|++-|. ......++|+-|+..|.-.
T Consensus 9 ~~~~~fC~~CG~~l~-----~~~~~~~~C~~Cg~~~~~~ 42 (50)
T PF12773_consen 9 PDDAKFCPHCGTPLP-----PPDQSKKICPNCGAENPPN 42 (50)
T ss_pred CccccCChhhcCChh-----hccCCCCCCcCCcCCCcCC
Confidence 345578999999888 3456789999999987644
No 130
>KOG0445 consensus Actin regulatory protein supervillin (gelsolin/villin family) [Cytoskeleton]
Probab=29.30 E-value=92 Score=37.79 Aligned_cols=26 Identities=31% Similarity=0.809 Sum_probs=23.3
Q ss_pred ccccCCcEEEEeCCcEEEEEeCCccc
Q 002842 746 LAMQSDKAVVLDHGTDVFIWLGAELA 771 (874)
Q Consensus 746 ~sl~~d~iyLLD~g~~i~Iw~G~~v~ 771 (874)
.-|++..+|+.|-|..||||+|+.+.
T Consensus 366 ~~l~p~eVLvFDFGSEvYVW~Gk~~~ 391 (919)
T KOG0445|consen 366 SLLQPKEVLVFDFGSEVYVWHGKEVT 391 (919)
T ss_pred cccCcceEEEEecCceEEEEcCccCc
Confidence 34889999999999999999999864
No 131
>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=29.15 E-value=45 Score=22.90 Aligned_cols=24 Identities=21% Similarity=0.602 Sum_probs=15.9
Q ss_pred CCCCCcccccceEEEcCCceEEEccCCC
Q 002842 198 CHNCGAFANIYCKILLGSGQWQCVICRN 225 (874)
Q Consensus 198 C~~C~AylNP~~~~~~~~~~W~C~fC~~ 225 (874)
|.+|+..|- .-.+...++|..|+.
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 667777553 224677888888875
No 132
>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=28.89 E-value=49 Score=24.66 Aligned_cols=27 Identities=22% Similarity=0.584 Sum_probs=20.5
Q ss_pred CccCCCCCcccccceEEEcCCceEEEccCCCc
Q 002842 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 195 p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
..+|..|++. +. ....+.|.|.=||+.
T Consensus 8 ~~~C~~C~~~---~~--~~~dG~~yC~~cG~~ 34 (36)
T PF11781_consen 8 NEPCPVCGSR---WF--YSDDGFYYCDRCGHQ 34 (36)
T ss_pred CCcCCCCCCe---Ee--EccCCEEEhhhCceE
Confidence 3569999998 33 334589999999975
No 133
>PRK08455 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=28.86 E-value=1.4e+02 Score=30.66 Aligned_cols=72 Identities=6% Similarity=0.093 Sum_probs=39.1
Q ss_pred EEEEEEEecCCCEEEEEEeeeeccccc--hHHHHhhcC--HHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHH
Q 002842 589 QFAIRYSNVYQADISRVVTVRLPTVDS--VSAYLSSFQ--DEVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIA 661 (874)
Q Consensus 589 Qfal~Yt~~~G~rriRV~T~~l~vt~~--~~~i~~s~D--~ea~~~l~ak~av~~~~~~~~~~d~r~~Ld~~li~ll 661 (874)
+|.+.+.+.+|.|++|| ++.+.+.+. ..++-.... .+++..++..+....+.+..+...+|+.|.+++-+++
T Consensus 91 ~fvVNL~~~~~~ryLkv-~i~Le~~~~~~~~el~~~~p~IRD~ii~~Ls~kt~~dL~t~~Gk~~Lk~ei~~~iN~~L 166 (182)
T PRK08455 91 PFTVNLLSQSGRRYLKT-SISLELSNEKLKPELDKKDPVIRDIIIRILSSKTVEEVSTNKGKERLKDEIVGKLNEFL 166 (182)
T ss_pred CEEEEccCCCCceEEEE-EEEEEECCHhHHHHHHhhhhHHHHHHHHHHHcCCHHHhcCHHHHHHHHHHHHHHHHHHh
Confidence 46777777788899998 455554432 223333333 2666666665555555442233344444444444444
No 134
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=28.71 E-value=21 Score=29.62 Aligned_cols=22 Identities=27% Similarity=0.613 Sum_probs=13.4
Q ss_pred CccCCCCCcccccceEEEcCCceEEEccCCCc
Q 002842 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 195 p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
+.||.+||- .+..++|+-||..
T Consensus 36 I~RC~~CRk----------~~~~Y~CP~CGF~ 57 (59)
T PRK14890 36 IYRCEKCRK----------QSNPYTCPKCGFE 57 (59)
T ss_pred EeechhHHh----------cCCceECCCCCCc
Confidence 566666665 3445667777653
No 135
>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=28.68 E-value=22 Score=24.99 Aligned_cols=15 Identities=33% Similarity=1.013 Sum_probs=12.7
Q ss_pred ceEEEccCCCccCCC
Q 002842 216 GQWQCVICRNLNGSE 230 (874)
Q Consensus 216 ~~W~C~fC~~~N~~p 230 (874)
+.|.|+.|...|..-
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 589999999999743
No 136
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=27.97 E-value=25 Score=33.70 Aligned_cols=34 Identities=21% Similarity=0.351 Sum_probs=20.2
Q ss_pred CCccCCCCCcccccc-eEEEcCCceEEEccCCCccC
Q 002842 194 DPHRCHNCGAFANIY-CKILLGSGQWQCVICRNLNG 228 (874)
Q Consensus 194 ~p~RC~~C~AylNP~-~~~~~~~~~W~C~fC~~~N~ 228 (874)
.-.|| .|+.+.+.- ..++.-.-.|.||-||..+.
T Consensus 69 ~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~ 103 (124)
T PRK00762 69 VEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRA 103 (124)
T ss_pred eeEEe-eCcCcccccccchhccccCCcCcCCCCCCC
Confidence 45899 999765432 11111111378999997653
No 137
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=27.63 E-value=34 Score=35.44 Aligned_cols=38 Identities=18% Similarity=0.314 Sum_probs=25.3
Q ss_pred CccCCCCCcccccceEEEcCCceEEEccCCCccCCCcc
Q 002842 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGE 232 (874)
Q Consensus 195 p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p~~ 232 (874)
-+.|..|.--=+-+.--......|+|++|+..|+.+.+
T Consensus 192 alIC~~C~hhngl~~~~ek~~~efiC~~Cn~~n~~~~~ 229 (251)
T COG5415 192 ALICPQCHHHNGLYRLAEKPIIEFICPHCNHKNDEVKE 229 (251)
T ss_pred hhccccccccccccccccccchheecccchhhcCcccc
Confidence 35677776554444333334457999999999987643
No 138
>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=27.62 E-value=15 Score=29.07 Aligned_cols=11 Identities=27% Similarity=1.123 Sum_probs=5.4
Q ss_pred CceEEEccCCC
Q 002842 215 SGQWQCVICRN 225 (874)
Q Consensus 215 ~~~W~C~fC~~ 225 (874)
-..|+|+.|+.
T Consensus 32 p~~w~CP~C~a 42 (47)
T PF00301_consen 32 PDDWVCPVCGA 42 (47)
T ss_dssp -TT-B-TTTSS
T ss_pred CCCCcCcCCCC
Confidence 35677777774
No 139
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=27.09 E-value=33 Score=25.50 Aligned_cols=31 Identities=29% Similarity=0.447 Sum_probs=19.8
Q ss_pred ccCCCCCcccccc-eEEEcCCceEEEccCCCc
Q 002842 196 HRCHNCGAFANIY-CKILLGSGQWQCVICRNL 226 (874)
Q Consensus 196 ~RC~~C~AylNP~-~~~~~~~~~W~C~fC~~~ 226 (874)
++|.+|++-.+-= -++-..+...+|.-|++.
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~ 34 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHV 34 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCE
Confidence 5788888754322 223345678888888764
No 140
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=27.02 E-value=1.4e+02 Score=37.30 Aligned_cols=111 Identities=20% Similarity=0.307 Sum_probs=58.6
Q ss_pred CccCCCCCcccccceEEEcCCceEEEccCCCccCCCccccCCCccccCCCCCCCCCceEEEecCCCCC-----CCCCCCC
Q 002842 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGEYVAPSKEELRNFPELSSPMVDYVQTGNNRS-----SYVPVSD 269 (874)
Q Consensus 195 p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p~~Y~~~~~~d~~~~PEL~~~tvEy~~p~~~r~-----~~~p~~~ 269 (874)
..+|.+|..++ .+-...+.-.|..||+.-..|.+ | |+-.+..+-|.-++.-|- ...|
T Consensus 444 v~~Cp~Cd~~l----t~H~~~~~L~CH~Cg~~~~~p~~--C---------p~Cgs~~L~~~G~GterieeeL~~~FP--- 505 (730)
T COG1198 444 IAECPNCDSPL----TLHKATGQLRCHYCGYQEPIPQS--C---------PECGSEHLRAVGPGTERIEEELKRLFP--- 505 (730)
T ss_pred cccCCCCCcce----EEecCCCeeEeCCCCCCCCCCCC--C---------CCCCCCeeEEecccHHHHHHHHHHHCC---
Confidence 44455554442 33456789999999999777642 3 332222333332221000 0000
Q ss_pred CCCCCcEEEEEECCCChhHHHHHHHHHHHh----------h-h--cCCCCcEEEEEEECceEEEEecCC
Q 002842 270 SRMSAPIILVIDECLDEPHLQHLQSSLHAF----------V-E--SIPPTARIGIILYGRTVSVYDFSE 325 (874)
Q Consensus 270 ~~~~p~~vFvID~s~~~~~l~~l~~sL~~~----------L-~--~Lp~~a~VGlITFd~~V~vy~l~~ 325 (874)
..+.+.|--|+....+.++.+.+.+..- | + ..|.-++||++--|..+..-|+..
T Consensus 506 --~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfRA 572 (730)
T COG1198 506 --GARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRA 572 (730)
T ss_pred --CCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhhcCCCcccceEEEEEechhhhcCCCcch
Confidence 1123345555666677777766655541 1 1 235567888887777766665553
No 141
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=26.63 E-value=17 Score=34.30 Aligned_cols=28 Identities=21% Similarity=0.534 Sum_probs=17.5
Q ss_pred CCccCCCCCcccccceEEEcCCceEEEccCCCcc
Q 002842 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (874)
Q Consensus 194 ~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N 227 (874)
.-.||..|+.-..+ ....+.||.|+..+
T Consensus 69 ~~~~C~~Cg~~~~~------~~~~~~CP~Cgs~~ 96 (113)
T PF01155_consen 69 ARARCRDCGHEFEP------DEFDFSCPRCGSPD 96 (113)
T ss_dssp -EEEETTTS-EEEC------HHCCHH-SSSSSS-
T ss_pred CcEECCCCCCEEec------CCCCCCCcCCcCCC
Confidence 34899999985544 23447799999875
No 142
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=26.43 E-value=3.3e+02 Score=31.34 Aligned_cols=31 Identities=23% Similarity=0.360 Sum_probs=16.2
Q ss_pred CCcccccccCCCCcCCCcccCCCCCCCCCCCCCC
Q 002842 46 PPKLQQDHMTSPSIKTPNLLSPANGVKTGSPIPH 79 (874)
Q Consensus 46 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (874)
|+.+|.+.++.+.+.+|. |..+---+.+||+
T Consensus 327 p~~~q~p~~Pp~~~l~Pp---pp~p~p~~PP~p~ 357 (487)
T KOG4672|consen 327 PTNFQPPYGPPPGMLFPP---PPPPPPMRPPHPG 357 (487)
T ss_pred cCcCCCCCCCCCcccCCC---CCCCCCCCCCCCC
Confidence 445566666666666655 4434444444444
No 143
>TIGR00006 S-adenosyl-methyltransferase MraW. Genetics paper in 1972 links mra cluster to peptidoglycan biosynthesis in E. coli. Seems to be common in proteobacteria.wn.
Probab=26.41 E-value=74 Score=35.45 Aligned_cols=29 Identities=24% Similarity=0.464 Sum_probs=26.6
Q ss_pred hhHHHHHHHHHHHhhhcCCCCcEEEEEEE
Q 002842 286 EPHLQHLQSSLHAFVESIPPTARIGIILY 314 (874)
Q Consensus 286 ~~~l~~l~~sL~~~L~~Lp~~a~VGlITF 314 (874)
+.||+.|...|..+.+.|.++.++++|||
T Consensus 213 N~EL~~L~~~L~~~~~~L~~gGrl~VISf 241 (305)
T TIGR00006 213 NDELEELEEALQFAPNLLAPGGRLSIISF 241 (305)
T ss_pred HHhHHHHHHHHHHHHHHhcCCCEEEEEec
Confidence 46899999999999999999999999987
No 144
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=25.59 E-value=33 Score=38.14 Aligned_cols=37 Identities=19% Similarity=0.326 Sum_probs=27.7
Q ss_pred CCccCCCCCcccccceEEEcCCceEEEccCCCccCCC
Q 002842 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSE 230 (874)
Q Consensus 194 ~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p 230 (874)
.-+.|++|+.-=+-+-.-++.--.|+|++|+..|.=.
T Consensus 219 yALIC~~C~~HNGla~~ee~~yi~F~C~~Cn~LN~~~ 255 (328)
T KOG2846|consen 219 YALICSQCHHHNGLARKEEYEYITFRCPHCNALNPAK 255 (328)
T ss_pred hhhcchhhccccCcCChhhcCceEEECccccccCCCc
Confidence 3467999998766555544555789999999999844
No 145
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.02 E-value=8.5e+02 Score=26.81 Aligned_cols=39 Identities=8% Similarity=0.069 Sum_probs=23.9
Q ss_pred CCCCCCCCeeeee-c----CccCCCHhhhhcCCCceEEEeccCCC
Q 002842 144 TMPVGESSCVLFS-A----HKVLKKKKQANVPSLGFGALVSPGKE 183 (874)
Q Consensus 144 ~~~~~~~~~vR~T-~----n~~P~t~~~~~~~~lPlg~l~tPl~~ 183 (874)
++..||-.||.+- . .+||++|+-.++ .-..|=||.|-.+
T Consensus 275 ~ERLEDTHFVQCPSVp~HKFCFPCSResIK~-Qg~sgevYCPSGd 318 (352)
T KOG3579|consen 275 HERLEDTHFVQCPSVPSHKFCFPCSRESIKQ-QGASGEVYCPSGD 318 (352)
T ss_pred hhhhccCceeecCCCcccceecccCHHHHHh-hcCCCceeCCCCC
Confidence 4455677788772 2 457888877654 3355566666544
No 146
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=24.87 E-value=5.9e+02 Score=30.17 Aligned_cols=12 Identities=42% Similarity=0.689 Sum_probs=5.3
Q ss_pred CCCCCCCCCCCC
Q 002842 95 PAAVPFRTSPAT 106 (874)
Q Consensus 95 ~~~~~~~~~~~~ 106 (874)
|.+.|.|.-|+.
T Consensus 387 ~p~~Pgr~aPp~ 398 (569)
T KOG3671|consen 387 PPAPPGRPAPPP 398 (569)
T ss_pred CCCCCCCCCCCC
Confidence 344455444433
No 147
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=24.73 E-value=43 Score=26.87 Aligned_cols=25 Identities=28% Similarity=0.763 Sum_probs=18.4
Q ss_pred ccCCCCCc-ccccceEEEcCCceEEEccCCCc
Q 002842 196 HRCHNCGA-FANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 196 ~RC~~C~A-ylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
..|.+|++ ++-+. ...|.|.=|+..
T Consensus 21 ~fCP~Cg~~~m~~~------~~r~~C~~Cgyt 46 (50)
T PRK00432 21 KFCPRCGSGFMAEH------LDRWHCGKCGYT 46 (50)
T ss_pred CcCcCCCcchhecc------CCcEECCCcCCE
Confidence 46999998 54442 378999999864
No 148
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.51 E-value=31 Score=33.18 Aligned_cols=31 Identities=23% Similarity=0.627 Sum_probs=20.3
Q ss_pred CccCCCCCcccccceEEEcCCceEEEccCCCccCC
Q 002842 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGS 229 (874)
Q Consensus 195 p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~ 229 (874)
.--|.+|++-+.-- -+.-+|+||+|...-.+
T Consensus 89 ~r~CARCGGrv~lr----sNKv~wvcnlc~k~q~i 119 (169)
T KOG3799|consen 89 TRFCARCGGRVSLR----SNKVMWVCNLCRKQQEI 119 (169)
T ss_pred hhHHHhcCCeeeec----cCceEEeccCCcHHHHH
Confidence 34467888854432 23458999999977553
No 149
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=24.23 E-value=40 Score=28.56 Aligned_cols=23 Identities=13% Similarity=0.466 Sum_probs=17.2
Q ss_pred ccCCCCCcccccceEEEcCCceEEEccCCCccC
Q 002842 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNLNG 228 (874)
Q Consensus 196 ~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~ 228 (874)
.-|++|+.+.+ + . +|+.|+..+-
T Consensus 6 ~AC~~C~~i~~-------~-~--~Cp~Cgs~~~ 28 (64)
T PRK06393 6 RACKKCKRLTP-------E-K--TCPVHGDEKT 28 (64)
T ss_pred hhHhhCCcccC-------C-C--cCCCCCCCcC
Confidence 45999998773 1 2 9999998743
No 150
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=24.22 E-value=37 Score=37.82 Aligned_cols=30 Identities=30% Similarity=0.723 Sum_probs=22.3
Q ss_pred CCCccCCCCCcccccceEEEcCCceEEEccCCCccCCC
Q 002842 193 RDPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSE 230 (874)
Q Consensus 193 ~~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p 230 (874)
...-||++|+= ....-.|.||-|+..-.+-
T Consensus 352 ~~~YRC~~CGF--------~a~~l~W~CPsC~~W~Tik 381 (389)
T COG2956 352 KPRYRCQNCGF--------TAHTLYWHCPSCRAWETIK 381 (389)
T ss_pred cCCceecccCC--------cceeeeeeCCCcccccccC
Confidence 45689999983 3344689999999876653
No 151
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=23.85 E-value=50 Score=30.34 Aligned_cols=27 Identities=22% Similarity=0.583 Sum_probs=21.5
Q ss_pred cCCCCCcccccceEEEcCCceEEEccCCCccCC
Q 002842 197 RCHNCGAFANIYCKILLGSGQWQCVICRNLNGS 229 (874)
Q Consensus 197 RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~ 229 (874)
.|.+|++.|.|- +..|.|+-|+.....
T Consensus 2 fC~~Cg~~l~~~------~~~~~C~~C~~~~~~ 28 (104)
T TIGR01384 2 FCPKCGSLMTPK------NGVYVCPSCGYEKEK 28 (104)
T ss_pred CCcccCcccccC------CCeEECcCCCCcccc
Confidence 599999999652 468999999987543
No 152
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=23.75 E-value=37 Score=21.52 Aligned_cols=11 Identities=36% Similarity=0.761 Sum_probs=6.7
Q ss_pred EEEccCCCccC
Q 002842 218 WQCVICRNLNG 228 (874)
Q Consensus 218 W~C~fC~~~N~ 228 (874)
|.|++|+..-.
T Consensus 1 ~~C~~C~~~~~ 11 (24)
T PF13894_consen 1 FQCPICGKSFR 11 (24)
T ss_dssp EE-SSTS-EES
T ss_pred CCCcCCCCcCC
Confidence 78999987643
No 153
>COG1580 FliL Flagellar basal body-associated protein [Cell motility and secretion]
Probab=23.62 E-value=2.8e+02 Score=27.96 Aligned_cols=37 Identities=14% Similarity=0.212 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHH
Q 002842 626 EVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIAL 662 (874)
Q Consensus 626 ea~~~l~ak~av~~~~~~~~~~d~r~~Ld~~li~ll~ 662 (874)
+++..+++++....+.+.++....++.|.+.+-.++.
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 6788999999988887755677788888877776664
No 154
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=23.58 E-value=28 Score=27.85 Aligned_cols=13 Identities=31% Similarity=1.045 Sum_probs=5.4
Q ss_pred cCCceEEEccCCC
Q 002842 213 LGSGQWQCVICRN 225 (874)
Q Consensus 213 ~~~~~W~C~fC~~ 225 (874)
...+.|.|++|++
T Consensus 37 ~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 37 QRTPKWKCPICNK 49 (50)
T ss_dssp HHS---B-TTT--
T ss_pred hccCCeECcCCcC
Confidence 3467799999986
No 155
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=23.34 E-value=64 Score=26.68 Aligned_cols=26 Identities=27% Similarity=0.529 Sum_probs=20.1
Q ss_pred CCccCCCCCcccccceEEEcCCceEEEccCCCccC
Q 002842 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNG 228 (874)
Q Consensus 194 ~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~ 228 (874)
.+..|.+|+.+.=| .-.|+.||..+.
T Consensus 26 ~l~~C~~CG~~~~~---------H~vC~~CG~Y~g 51 (57)
T PRK12286 26 GLVECPNCGEPKLP---------HRVCPSCGYYKG 51 (57)
T ss_pred cceECCCCCCccCC---------eEECCCCCcCCC
Confidence 56889999997655 578999996543
No 156
>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=23.23 E-value=89 Score=24.34 Aligned_cols=27 Identities=30% Similarity=0.922 Sum_probs=19.5
Q ss_pred ccCCCCCcccccceEEEcCCceEEEccCCC
Q 002842 196 HRCHNCGAFANIYCKILLGSGQWQCVICRN 225 (874)
Q Consensus 196 ~RC~~C~AylNP~~~~~~~~~~W~C~fC~~ 225 (874)
+.|.+|++- ..| .+. +.+.|.|.-|++
T Consensus 19 ~~CP~Cg~~-~~~-~~~-~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST-KHY-RLK-TRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCe-eeE-EeC-CCCeEECCCCCC
Confidence 569999987 333 232 358999999985
No 157
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=23.00 E-value=93 Score=34.52 Aligned_cols=30 Identities=23% Similarity=0.513 Sum_probs=26.9
Q ss_pred hhHHHHHHHHHHHhhhcCCCCcEEEEEEEC
Q 002842 286 EPHLQHLQSSLHAFVESIPPTARIGIILYG 315 (874)
Q Consensus 286 ~~~l~~l~~sL~~~L~~Lp~~a~VGlITFd 315 (874)
..||+.|+..|.++.+.|.++.++++|||-
T Consensus 209 N~El~~L~~~L~~~~~~L~~gGrl~visfH 238 (296)
T PRK00050 209 NDELEELERALEAALDLLKPGGRLAVISFH 238 (296)
T ss_pred HhhHHHHHHHHHHHHHHhcCCCEEEEEecC
Confidence 468999999999999999999999999883
No 158
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=22.89 E-value=43 Score=23.13 Aligned_cols=22 Identities=27% Similarity=0.469 Sum_probs=15.6
Q ss_pred cCCCCCcccccceEEEcCCceEEEccCCCc
Q 002842 197 RCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 197 RC~~C~AylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
+|..|++.++- ..-.|+.||+.
T Consensus 2 ~CP~C~~~V~~--------~~~~Cp~CG~~ 23 (26)
T PF10571_consen 2 TCPECGAEVPE--------SAKFCPHCGYD 23 (26)
T ss_pred cCCCCcCCchh--------hcCcCCCCCCC
Confidence 58888887743 34568888865
No 159
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=22.82 E-value=1.4e+02 Score=33.27 Aligned_cols=50 Identities=22% Similarity=0.318 Sum_probs=34.5
Q ss_pred CCCcE-EEEEECCCChhHHHHHHHHHHHhhhcCCCCcEEEEEEECceEEEEec
Q 002842 272 MSAPI-ILVIDECLDEPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDF 323 (874)
Q Consensus 272 ~~p~~-vFvID~s~~~~~l~~l~~sL~~~L~~Lp~~a~VGlITFd~~V~vy~l 323 (874)
.-|+| ||++|.|- .+......+|...++.-+..+++.||+=.=..-++.+
T Consensus 126 ~~~~fKiiIlDEcd--smtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi 176 (346)
T KOG0989|consen 126 PCPPFKIIILDECD--SMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPL 176 (346)
T ss_pred CCCcceEEEEechh--hhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHH
Confidence 34677 99999884 3445566677788888788899999875433333333
No 160
>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=22.51 E-value=66 Score=23.06 Aligned_cols=29 Identities=21% Similarity=0.503 Sum_probs=17.4
Q ss_pred cCCCCCcccccc-eEEEcCCceE-----EEccCCC
Q 002842 197 RCHNCGAFANIY-CKILLGSGQW-----QCVICRN 225 (874)
Q Consensus 197 RC~~C~AylNP~-~~~~~~~~~W-----~C~fC~~ 225 (874)
||..|+..|-+- ..+...++.| .|..|+.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~ 35 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGK 35 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCCCCcccCC
Confidence 688898887774 3333344444 5666654
No 161
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=22.40 E-value=49 Score=27.78 Aligned_cols=22 Identities=18% Similarity=0.671 Sum_probs=16.5
Q ss_pred cCCCCCcccccceEEEcCCceEEEccCCCccC
Q 002842 197 RCHNCGAFANIYCKILLGSGQWQCVICRNLNG 228 (874)
Q Consensus 197 RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~ 228 (874)
-|++|+.+.+ .. +|+.|+...-
T Consensus 5 AC~~C~~i~~--------~~--~CP~Cgs~~~ 26 (61)
T PRK08351 5 ACRHCHYITT--------ED--RCPVCGSRDL 26 (61)
T ss_pred hhhhCCcccC--------CC--cCCCCcCCcc
Confidence 5999998773 12 6999998663
No 162
>PHA03378 EBNA-3B; Provisional
Probab=21.78 E-value=5e+02 Score=31.94 Aligned_cols=88 Identities=24% Similarity=0.473 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCC----CCCCCCCCCCCCcccccccCCCCcCCCcccCCCCCCCC----CCCCCCCCCCCCCC
Q 002842 16 GPSNPDISSPQPEKSLIPPP----PMSSTPPRFPPPKLQQDHMTSPSIKTPNLLSPANGVKT----GSPIPHLSTPPGPP 87 (874)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~ 87 (874)
++.+++...+-|-..|.+-| .....+-+++||. ..|+-..+.-.+|+.---- |.+-|+ +.|-|+|
T Consensus 712 ~~~qpP~~ap~p~~PPa~tP~~~~~Pa~aP~p~~PPa------~aP~~~~~P~~AP~~~~PPa~tPgaptP~-~pPq~~P 784 (991)
T PHA03378 712 GRAQRPAAATGRARPPAAAPGRARPPAAAPGRARPPA------AAPGRARPPAAAPGRARPPAAAPGAPTPQ-PPPQAPP 784 (991)
T ss_pred CCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCCCCCC------CCCccccCCCCCCCCCCCCCCCCCCCCCC-CCCCCCC
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCc
Q 002842 88 VFTSPVRPAAVPFRTSPATPQPV 110 (874)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~~ 110 (874)
..-+-++.|.-|....++.|..+
T Consensus 785 ~~~Qrp~gaPtP~ppPQ~~P~~~ 807 (991)
T PHA03378 785 APQQRPRGAPTPQPPPQAGPTSM 807 (991)
T ss_pred ccccCCCCCCCCCCCCCCCCccc
No 163
>smart00401 ZnF_GATA zinc finger binding to DNA consensus sequence [AT]GATA[AG].
Probab=21.77 E-value=65 Score=25.98 Aligned_cols=32 Identities=19% Similarity=0.361 Sum_probs=26.7
Q ss_pred CccCCCCCcccccceEEEcCCceEEEccCCCc
Q 002842 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (874)
Q Consensus 195 p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~ 226 (874)
+.+|.+|+.--.|..+-...+..-.||-|+..
T Consensus 3 ~~~C~~C~~~~T~~WR~g~~g~~~LCnaCgl~ 34 (52)
T smart00401 3 GRSCSNCGTTETPLWRRGPSGNKTLCNACGLY 34 (52)
T ss_pred CCCcCCCCCCCCCccccCCCCCCcEeecccHH
Confidence 57899999988888877777777999999954
No 164
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=21.70 E-value=44 Score=30.11 Aligned_cols=37 Identities=24% Similarity=0.363 Sum_probs=25.3
Q ss_pred CCCccCCCCCcccccceEEEcCCceEEEccCCCccCCCccc
Q 002842 193 RDPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGEY 233 (874)
Q Consensus 193 ~~p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~~p~~Y 233 (874)
-.|.||++||=..++ -. =..--.|+-|...---++.|
T Consensus 56 v~Pa~CkkCGfef~~-~~---ik~pSRCP~CKSE~Ie~prF 92 (97)
T COG3357 56 VRPARCKKCGFEFRD-DK---IKKPSRCPKCKSEWIEEPRF 92 (97)
T ss_pred ecChhhcccCccccc-cc---cCCcccCCcchhhcccCCce
Confidence 368999999977666 22 23467899999765444433
No 165
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=21.63 E-value=3.5e+02 Score=31.27 Aligned_cols=100 Identities=18% Similarity=0.212 Sum_probs=64.6
Q ss_pred CCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCC----CCCcccCCCCCCCchhhhHhHHHHHHHHHH
Q 002842 386 DRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTY----GPGSVPHSFSHPNYLHMEKMALKWMELLGR 461 (874)
Q Consensus 386 ~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~----GpG~l~~~~~~~~~~~~ek~a~~fY~~La~ 461 (874)
.+.+.-||..|-.+++.- .+.-..|++.+.|-||- |-|.+.. .+++..-..--+-..++ .
T Consensus 532 gTNlhhaL~LA~r~l~Rh-----------~~~~~~il~vTDGePtAhle~~DG~~~~----f~yp~DP~t~~~Tvr~~-d 595 (652)
T COG4867 532 GTNLHHALALAGRHLRRH-----------AGAQPVVLVVTDGEPTAHLEDGDGTSVF----FDYPPDPRTIAHTVRGF-D 595 (652)
T ss_pred ccchHHHHHHHHHHHHhC-----------cccCceEEEEeCCCccccccCCCCceEe----cCCCCChhHHHHHHHHH-H
Confidence 366778899999988641 12346788889998874 4554432 22221100001111222 2
Q ss_pred HHhhcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCC
Q 002842 462 KAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDD 501 (874)
Q Consensus 462 ~~~~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~ 501 (874)
.|.+.|+-+.+|-.+.|+-=..=+..+++.++|.+|.-+-
T Consensus 596 ~~~r~G~q~t~FrLg~DpgL~~Fv~qva~rv~G~vv~pdl 635 (652)
T COG4867 596 DMARLGAQVTIFRLGSDPGLARFIDQVARRVQGRVVVPDL 635 (652)
T ss_pred HHHhccceeeEEeecCCHhHHHHHHHHHHHhCCeEEecCc
Confidence 5788999999999998874444578999999999998653
No 166
>KOG0566 consensus Inositol-1,4,5-triphosphate 5-phosphatase (synaptojanin), INP51/INP52/INP53 family [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.62 E-value=3.6e+02 Score=34.46 Aligned_cols=14 Identities=36% Similarity=0.337 Sum_probs=6.6
Q ss_pred CCCCcCCCcccCCC
Q 002842 55 TSPSIKTPNLLSPA 68 (874)
Q Consensus 55 ~~~~~~~~~~~~~~ 68 (874)
.+++..-|+.++++
T Consensus 1009 ~s~~t~~~~~a~~a 1022 (1080)
T KOG0566|consen 1009 NSSSTSMPSPASAA 1022 (1080)
T ss_pred CCCCCCCCCccchh
Confidence 34444455555444
No 167
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=21.15 E-value=2.8e+02 Score=29.33 Aligned_cols=87 Identities=20% Similarity=0.151 Sum_probs=54.6
Q ss_pred CCchHHHHHHHHHHhcCCCccccccccccCCCCcEEEEEecCCCCCCCCcccCCCCCC-CchhhhHhHHHHHHHHHHHHh
Q 002842 386 DRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHP-NYLHMEKMALKWMELLGRKAH 464 (874)
Q Consensus 386 ~rc~G~AL~vA~~lL~~~~~~~~~~~~~~~~~ggrIi~F~sGppT~GpG~l~~~~~~~-~~~~~ek~a~~fY~~La~~~~ 464 (874)
..-.|-|++.++.+..+...+ ..--+||++|+-. | ++.+. ..+++ + ---.+.
T Consensus 128 r~~v~gams~glay~n~~~~e--------~slkSriliftls------G----~d~~~qYip~m--------n-CiF~Aq 180 (296)
T COG5242 128 RYDVGGAMSLGLAYCNHRDEE--------TSLKSRILIFTLS------G----RDRKDQYIPYM--------N-CIFAAQ 180 (296)
T ss_pred eeehhhhhhhhHHHHhhhccc--------ccccceEEEEEec------C----chhhhhhchhh--------h-heeehh
Confidence 356788999999888653321 1134899999851 1 11111 12222 1 112345
Q ss_pred hcCeEEEEeeecCCCCCcccchhhhcccccEEEEcCCh
Q 002842 465 QHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDF 502 (874)
Q Consensus 465 ~~gisVDiF~~s~d~vglaem~~l~~~TGG~v~~~~~F 502 (874)
+.||-||+|-.... -..+..++..|||.....++-
T Consensus 181 k~~ipI~v~~i~g~---s~fl~Q~~daTgG~Yl~ve~~ 215 (296)
T COG5242 181 KFGIPISVFSIFGN---SKFLLQCCDATGGDYLTVEDT 215 (296)
T ss_pred hcCCceEEEEecCc---cHHHHHHhhccCCeeEeecCc
Confidence 67899999986654 345789999999988887764
No 168
>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=21.10 E-value=1.4e+03 Score=26.84 Aligned_cols=182 Identities=13% Similarity=0.142 Sum_probs=90.0
Q ss_pred EEEEECCCC-hhHHHHHH---HHHHHhhhcCCCCcEEEEEEE-CceEEEEe-cCCC-----------CcceeccccCCCC
Q 002842 277 ILVIDECLD-EPHLQHLQ---SSLHAFVESIPPTARIGIILY-GRTVSVYD-FSED-----------SIASSDVLAGDKL 339 (874)
Q Consensus 277 vFvID~s~~-~~~l~~l~---~sL~~~L~~Lp~~a~VGlITF-d~~V~vy~-l~~~-----------~~~~~~V~~g~~~ 339 (874)
.|++|+|.+ ...|+.|+ ..|...|..+-.+.|+||=+| |+.|.=|- .... .+...+.|
T Consensus 106 YyLmDlS~Sm~ddl~~l~~lg~~l~~~~~~it~~~~~GfGsfvdK~~~P~~~~~p~~l~~pc~~~~~~c~~~~~f----- 180 (426)
T PF00362_consen 106 YYLMDLSYSMKDDLENLKSLGQDLAEEMRNITSNFRLGFGSFVDKPVMPFVSTTPEKLKNPCPSKNPNCQPPFSF----- 180 (426)
T ss_dssp EEEEE-SGGGHHHHHHHCCCCHHHHHHHHTT-SSEEEEEEEESSSSSTTTST-SSHCHHSTSCCTTS--B---SE-----
T ss_pred EEEeechhhhhhhHHHHHHHHHHHHHHHHhcCccceEechhhcccccCCcccCChhhhcCcccccCCCCCCCeee-----
Confidence 799999986 34455444 678888889989999999999 55432110 0000 01111111
Q ss_pred CCHHHHHHHhhcCCccccchhhhHHHHHHHHHhhcCCccccccCCCCCchHHHHHHHHH--HhcCCCccccccccccCCC
Q 002842 340 PTEDSLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALA--IIQGPSAEMSRGVVKRPGG 417 (874)
Q Consensus 340 ~~~~~l~~~l~~~~~fL~pl~e~~~~i~~lLe~L~~~~~~~~~~~r~rc~G~AL~vA~~--lL~~~~~~~~~~~~~~~~~ 417 (874)
+-..+|.+....+.+.+.+.. ..++. ..++.++=+-+++|+- .+.= ...
T Consensus 181 --------------~~~l~Lt~~~~~F~~~v~~~~-is~n~--D~PEgg~dal~Qa~vC~~~igW------------r~~ 231 (426)
T PF00362_consen 181 --------------RHVLSLTDDITEFNEEVNKQK-ISGNL--DAPEGGLDALMQAAVCQEEIGW------------RNE 231 (426)
T ss_dssp --------------EEEEEEES-HHHHHHHHHTS---B--S--SSSBSHHHHHHHHHH-HHHHT--------------ST
T ss_pred --------------EEeecccchHHHHHHhhhhcc-ccCCC--CCCccccchheeeeecccccCc------------ccC
Confidence 113455555566666665532 22332 1234666666776653 2211 123
Q ss_pred CcEEEEEecC--CCCCCCCcccCCCC----------CCCchhhhHhHHHHHHHHHHHHhhcCeEEEEeeecCCCCCcccc
Q 002842 418 NSRIIVCAGG--PNTYGPGSVPHSFS----------HPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVL 485 (874)
Q Consensus 418 ggrIi~F~sG--ppT~GpG~l~~~~~----------~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~s~d~vglaem 485 (874)
.-||++|++- .-..|-|++..-.. ...|.....-...-...|.+.+.+++|.+ ||+...+..+++
T Consensus 232 a~~llv~~TD~~fH~agDg~l~gi~~pnd~~Chl~~~~~y~~~~~~DYPSv~ql~~~l~e~~i~~-IFAVt~~~~~~Y-- 308 (426)
T PF00362_consen 232 ARRLLVFSTDAGFHFAGDGKLAGIVKPNDGKCHLDDNGMYTASTEQDYPSVGQLVRKLSENNINP-IFAVTKDVYSIY-- 308 (426)
T ss_dssp SEEEEEEEESS-B--TTGGGGGT--S---SS--BSTTSBBGGGGCS----HHHHHHHHHHTTEEE-EEEEEGGGHHHH--
T ss_pred ceEEEEEEcCCccccccccccceeeecCCCceEECCCCcccccccccCCCHHHHHHHHHHcCCEE-EEEEchhhhhHH--
Confidence 5689999863 33458888764211 11111100112222456788888888754 777776665544
Q ss_pred hhhhcccccE
Q 002842 486 QPLAKASGGV 495 (874)
Q Consensus 486 ~~l~~~TGG~ 495 (874)
..|++.-+|.
T Consensus 309 ~~L~~~i~~s 318 (426)
T PF00362_consen 309 EELSNLIPGS 318 (426)
T ss_dssp HHHHHHSTTE
T ss_pred HHHhhcCCCc
Confidence 4444444443
No 169
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.99 E-value=52 Score=36.31 Aligned_cols=25 Identities=24% Similarity=0.691 Sum_probs=20.2
Q ss_pred CccCCCCCcccccceEEEcCCceEEEccCCCccC
Q 002842 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNLNG 228 (874)
Q Consensus 195 p~RC~~C~AylNP~~~~~~~~~~W~C~fC~~~N~ 228 (874)
-..|..|+. ..++.|.|+-||...+
T Consensus 309 S~~C~~cg~---------~~~r~~~C~~cg~~~~ 333 (364)
T COG0675 309 SKTCPCCGH---------LSGRLFKCPRCGFVHD 333 (364)
T ss_pred cccccccCC---------ccceeEECCCCCCeeh
Confidence 378999999 3468999999998643
No 170
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=20.53 E-value=47 Score=38.31 Aligned_cols=28 Identities=32% Similarity=0.763 Sum_probs=20.3
Q ss_pred ccCCCCCcccccceEEEcCCceE--EEccCCCccCCCccc
Q 002842 196 HRCHNCGAFANIYCKILLGSGQW--QCVICRNLNGSEGEY 233 (874)
Q Consensus 196 ~RC~~C~AylNP~~~~~~~~~~W--~C~fC~~~N~~p~~Y 233 (874)
-.|+.|++. .-+| +|+-|+..|.+-.+.
T Consensus 8 f~C~~CG~~----------s~KW~GkCp~Cg~Wns~vE~~ 37 (456)
T COG1066 8 FVCQECGYV----------SPKWLGKCPACGAWNTLVEEV 37 (456)
T ss_pred EEcccCCCC----------CccccccCCCCCCccceEEee
Confidence 458999873 3344 799999999886544
Done!