Query 002989
Match_columns 860
No_of_seqs 236 out of 827
Neff 6.9
Searched_HMMs 46136
Date Thu Mar 28 14:49:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002989.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002989hhsearch_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 1E-139 3E-144 1173.1 57.7 649 146-821 5-709 (745)
2 PLN00162 transport protein sec 100.0 1E-136 3E-141 1232.8 67.8 653 147-821 6-726 (761)
3 COG5047 SEC23 Vesicle coat com 100.0 1E-123 2E-128 1019.1 42.8 653 147-825 6-724 (755)
4 KOG1985 Vesicle coat complex C 100.0 3E-120 6E-125 1031.2 63.0 645 116-807 131-850 (887)
5 KOG1984 Vesicle coat complex C 100.0 7E-116 1E-120 995.6 64.8 657 107-809 247-970 (1007)
6 COG5028 Vesicle coat complex C 100.0 1E-103 2E-108 888.5 58.2 631 137-809 137-826 (861)
7 PTZ00395 Sec24-related protein 100.0 2E-101 5E-106 911.0 57.0 678 107-837 609-1532(1560)
8 cd01478 Sec23-like Sec23-like: 100.0 2.1E-46 4.5E-51 401.2 24.6 230 272-512 2-267 (267)
9 cd01468 trunk_domain trunk dom 100.0 3.4E-40 7.3E-45 349.9 22.6 222 272-512 2-239 (239)
10 cd01479 Sec24-like Sec24-like: 100.0 7.1E-40 1.5E-44 347.7 21.6 221 272-518 2-244 (244)
11 PF04811 Sec23_trunk: Sec23/Se 100.0 2.4E-38 5.2E-43 336.7 16.9 223 272-514 2-243 (243)
12 PF08033 Sec23_BS: Sec23/Sec24 99.8 2.8E-19 6.2E-24 163.0 10.6 95 519-613 1-96 (96)
13 PF04815 Sec23_helical: Sec23/ 99.8 1.3E-18 2.8E-23 160.8 11.3 100 625-725 1-103 (103)
14 PF04810 zf-Sec23_Sec24: Sec23 99.6 1.3E-15 2.8E-20 115.5 2.6 40 194-233 1-40 (40)
15 PRK13685 hypothetical protein; 98.7 5.8E-07 1.3E-11 100.2 19.6 169 274-503 89-277 (326)
16 cd01453 vWA_transcription_fact 98.7 6.5E-07 1.4E-11 91.5 16.2 162 275-512 5-177 (183)
17 cd01465 vWA_subgroup VWA subgr 98.6 2E-06 4.2E-11 85.9 18.5 162 275-504 2-165 (170)
18 cd01466 vWA_C3HC4_type VWA C3H 98.6 9.8E-07 2.1E-11 87.6 15.0 149 276-499 3-154 (155)
19 cd01451 vWA_Magnesium_chelatas 98.5 4.5E-06 9.8E-11 84.7 18.4 163 275-504 2-169 (178)
20 cd01456 vWA_ywmD_type VWA ywmD 98.5 1.9E-06 4.2E-11 89.5 15.3 171 272-499 19-200 (206)
21 cd01463 vWA_VGCC_like VWA Volt 98.5 5.1E-06 1.1E-10 85.2 17.3 173 274-502 14-189 (190)
22 cd01467 vWA_BatA_type VWA BatA 98.4 9.6E-06 2.1E-10 81.9 17.9 155 275-501 4-176 (180)
23 cd01472 vWA_collagen von Wille 98.4 1.2E-05 2.5E-10 80.3 17.1 155 276-502 3-164 (164)
24 cd01470 vWA_complement_factors 98.4 1.5E-05 3.1E-10 82.4 17.5 175 276-503 3-191 (198)
25 PF13519 VWA_2: von Willebrand 98.4 5.1E-06 1.1E-10 82.3 13.4 151 276-500 2-159 (172)
26 cd01474 vWA_ATR ATR (Anthrax T 98.3 2.8E-05 6.1E-10 79.4 17.4 160 275-504 6-169 (185)
27 TIGR03788 marine_srt_targ mari 98.3 0.00036 7.8E-09 84.2 29.6 282 273-667 271-557 (596)
28 TIGR00868 hCaCC calcium-activa 98.3 5.5E-05 1.2E-09 92.7 21.5 156 274-503 305-464 (863)
29 cd01480 vWA_collagen_alpha_1-V 98.3 2.7E-05 5.9E-10 79.6 15.9 158 276-504 5-174 (186)
30 cd01452 VWA_26S_proteasome_sub 98.2 1.9E-05 4.2E-10 80.7 14.2 145 275-492 5-161 (187)
31 cd01461 vWA_interalpha_trypsin 98.2 6.8E-05 1.5E-09 74.8 18.0 159 274-503 3-163 (171)
32 PF13768 VWA_3: von Willebrand 98.2 2.6E-05 5.6E-10 77.0 14.6 151 276-498 3-155 (155)
33 TIGR03436 acidobact_VWFA VWFA- 98.2 0.00018 4E-09 79.0 21.5 164 273-499 53-238 (296)
34 cd01475 vWA_Matrilin VWA_Matri 98.2 4.9E-05 1.1E-09 80.2 16.4 161 275-504 4-171 (224)
35 cd01469 vWA_integrins_alpha_su 98.0 0.00027 5.9E-09 71.7 17.5 160 276-503 3-172 (177)
36 cd01481 vWA_collagen_alpha3-VI 98.0 0.00032 7E-09 70.5 16.5 157 276-502 3-165 (165)
37 cd01482 vWA_collagen_alphaI-XI 97.9 0.00053 1.2E-08 68.5 16.8 154 276-502 3-164 (164)
38 PF00626 Gelsolin: Gelsolin re 97.9 1.6E-05 3.4E-10 68.9 4.8 63 741-809 8-71 (76)
39 cd01471 vWA_micronemal_protein 97.9 0.00063 1.4E-08 69.3 16.9 151 276-491 3-160 (186)
40 cd01450 vWFA_subfamily_ECM Von 97.8 0.0005 1.1E-08 67.3 14.8 149 276-494 3-157 (161)
41 cd01477 vWA_F09G8-8_type VWA F 97.8 0.00043 9.3E-09 71.4 14.4 153 275-494 21-187 (193)
42 PF00092 VWA: von Willebrand f 97.7 0.0011 2.3E-08 66.3 15.9 160 276-504 2-170 (178)
43 smart00327 VWA von Willebrand 97.6 0.0031 6.7E-08 62.6 17.6 157 275-498 3-164 (177)
44 TIGR02031 BchD-ChlD magnesium 97.6 0.0017 3.7E-08 78.1 18.2 174 274-503 408-584 (589)
45 PRK13406 bchD magnesium chelat 97.6 0.0017 3.7E-08 77.7 18.0 167 274-504 402-572 (584)
46 cd01476 VWA_integrin_invertebr 97.6 0.003 6.5E-08 62.7 16.4 108 276-431 3-117 (163)
47 PTZ00441 sporozoite surface pr 97.6 0.0036 7.7E-08 73.5 18.9 165 274-504 43-218 (576)
48 TIGR02442 Cob-chelat-sub cobal 97.5 0.0019 4.1E-08 78.5 17.4 162 274-499 466-632 (633)
49 cd01473 vWA_CTRP CTRP for CS 97.5 0.0053 1.1E-07 63.3 18.0 152 276-491 3-161 (192)
50 cd01464 vWA_subfamily VWA subf 97.5 0.00088 1.9E-08 67.7 11.4 149 274-491 4-160 (176)
51 cd00198 vWFA Von Willebrand fa 97.5 0.0037 8.1E-08 60.2 15.2 147 276-492 3-155 (161)
52 COG1240 ChlD Mg-chelatase subu 97.2 0.01 2.2E-07 62.8 15.8 168 273-504 78-249 (261)
53 COG4245 TerY Uncharacterized p 97.1 0.011 2.3E-07 59.6 13.1 48 274-321 4-59 (207)
54 PF04056 Ssl1: Ssl1-like; Int 96.8 0.018 4E-07 59.2 13.2 162 279-515 1-174 (193)
55 cd01454 vWA_norD_type norD typ 96.8 0.044 9.6E-07 55.2 15.3 149 275-479 2-154 (174)
56 KOG2884 26S proteasome regulat 96.6 0.056 1.2E-06 55.4 14.7 148 275-494 5-163 (259)
57 smart00262 GEL Gelsolin homolo 96.6 0.0093 2E-07 53.4 8.3 62 742-809 17-79 (90)
58 cd01458 vWA_ku Ku70/Ku80 N-ter 96.5 0.1 2.2E-06 54.8 16.6 156 275-478 3-173 (218)
59 cd01462 VWA_YIEM_type VWA YIEM 96.4 0.083 1.8E-06 51.8 14.3 131 275-478 2-135 (152)
60 KOG0443 Actin regulatory prote 94.8 0.057 1.2E-06 64.8 7.1 86 723-810 616-706 (827)
61 PF03850 Tfb4: Transcription f 94.3 2.6 5.7E-05 46.0 18.0 94 387-503 116-209 (276)
62 cd01455 vWA_F11C1-5a_type Von 93.5 4 8.7E-05 42.1 16.5 111 364-515 75-187 (191)
63 TIGR00627 tfb4 transcription f 93.4 4.5 9.8E-05 44.2 17.6 102 386-512 118-219 (279)
64 cd01460 vWA_midasin VWA_Midasi 93.3 2.2 4.8E-05 46.3 15.1 152 273-495 60-224 (266)
65 TIGR00578 ku70 ATP-dependent D 93.2 1.9 4.2E-05 52.1 16.0 164 274-483 11-190 (584)
66 KOG1924 RhoA GTPase effector D 93.0 0.37 8E-06 57.7 8.9 12 686-697 1046-1057(1102)
67 cd01457 vWA_ORF176_type VWA OR 92.3 1.6 3.5E-05 45.0 12.1 43 275-317 4-57 (199)
68 KOG1924 RhoA GTPase effector D 91.8 0.49 1.1E-05 56.6 8.1 9 452-460 878-886 (1102)
69 COG5148 RPN10 26S proteasome r 91.5 5 0.00011 40.7 13.5 133 274-477 4-146 (243)
70 KOG0444 Cytoskeletal regulator 88.1 0.66 1.4E-05 54.8 5.1 76 728-809 623-702 (1255)
71 KOG0444 Cytoskeletal regulator 84.8 1.3 2.9E-05 52.4 5.3 86 722-813 729-825 (1255)
72 KOG2353 L-type voltage-depende 84.4 22 0.00048 45.9 16.1 188 274-521 226-419 (1104)
73 PF03731 Ku_N: Ku70/Ku80 N-ter 84.2 4.1 8.9E-05 42.7 8.5 158 276-475 2-172 (224)
74 KOG0443 Actin regulatory prote 82.7 2.3 5.1E-05 51.6 6.4 81 725-809 253-340 (827)
75 PF09788 Tmemb_55A: Transmembr 81.1 15 0.00033 39.2 11.0 87 145-234 99-194 (256)
76 PF10058 DUF2296: Predicted in 75.4 1.8 4E-05 35.2 1.8 34 194-227 21-54 (54)
77 TIGR01053 LSD1 zinc finger dom 72.9 2.8 6E-05 30.2 1.9 30 196-229 2-31 (31)
78 PF09967 DUF2201: VWA-like dom 71.2 9.6 0.00021 36.6 5.9 41 277-319 2-44 (126)
79 PRK10997 yieM hypothetical pro 70.8 97 0.0021 36.7 15.1 150 273-501 323-475 (487)
80 PRK00398 rpoP DNA-directed RNA 70.5 3.1 6.8E-05 32.5 2.0 30 195-228 3-32 (46)
81 KOG2807 RNA polymerase II tran 68.8 78 0.0017 35.1 12.6 77 385-495 141-218 (378)
82 COG2425 Uncharacterized protei 65.1 1.2E+02 0.0026 35.5 14.0 149 274-500 273-424 (437)
83 KOG3768 DEAD box RNA helicase 61.6 76 0.0017 37.8 11.5 48 479-528 191-238 (888)
84 KOG2487 RNA polymerase II tran 59.9 31 0.00067 37.2 7.4 44 458-504 187-230 (314)
85 smart00661 RPOL9 RNA polymeras 52.5 9.4 0.0002 30.3 1.8 32 197-230 2-33 (52)
86 PF08271 TF_Zn_Ribbon: TFIIB z 47.8 22 0.00047 27.3 3.1 27 197-226 2-28 (43)
87 PRK12380 hydrogenase nickel in 47.0 10 0.00022 35.7 1.4 28 194-227 69-96 (113)
88 KOG0307 Vesicle coat complex C 46.2 2.9E+02 0.0064 35.5 13.8 31 44-74 818-849 (1049)
89 PF09723 Zn-ribbon_8: Zinc rib 46.0 8.8 0.00019 29.5 0.7 29 196-225 6-34 (42)
90 PF11265 Med25_VWA: Mediator c 45.9 3.1E+02 0.0067 29.2 12.2 93 389-498 112-204 (226)
91 cd00350 rubredoxin_like Rubred 45.3 10 0.00022 27.5 0.8 23 197-225 3-25 (33)
92 TIGR00100 hypA hydrogenase nic 45.2 12 0.00025 35.5 1.5 28 194-227 69-96 (115)
93 smart00187 INB Integrin beta s 44.5 5.7E+02 0.012 29.8 22.3 190 276-496 102-316 (423)
94 PF06707 DUF1194: Protein of u 43.1 3.7E+02 0.0081 28.2 12.1 118 366-518 77-202 (205)
95 PHA03247 large tegument protei 41.5 4.7E+02 0.01 37.3 15.1 17 145-161 2984-3000(3151)
96 PF02318 FYVE_2: FYVE-type zin 41.0 12 0.00027 35.4 0.9 33 196-228 72-105 (118)
97 PRK03681 hypA hydrogenase nick 40.3 16 0.00034 34.5 1.5 28 194-227 69-97 (114)
98 PF10122 Mu-like_Com: Mu-like 40.2 9.8 0.00021 30.5 0.1 34 195-230 4-37 (51)
99 TIGR02605 CxxC_CxxC_SSSS putat 39.8 13 0.00028 29.6 0.7 31 196-227 6-36 (52)
100 PRK03954 ribonuclease P protei 39.8 18 0.00038 34.6 1.7 35 196-230 65-106 (121)
101 PF13719 zinc_ribbon_5: zinc-r 38.0 16 0.00036 27.2 1.0 31 196-226 3-34 (37)
102 PF05762 VWA_CoxE: VWA domain 37.9 63 0.0014 34.0 5.8 43 273-318 56-100 (222)
103 PF09082 DUF1922: Domain of un 37.2 19 0.00041 30.8 1.3 32 194-231 2-33 (68)
104 PF09779 Ima1_N: Ima1 N-termin 37.0 21 0.00046 34.5 1.9 34 196-231 1-34 (131)
105 PRK12860 transcriptional activ 36.3 15 0.00032 37.8 0.7 28 194-224 133-161 (189)
106 COG1996 RPC10 DNA-directed RNA 35.9 17 0.00038 29.0 0.9 29 196-228 7-35 (49)
107 PRK12722 transcriptional activ 35.2 15 0.00033 37.7 0.6 29 194-225 133-162 (187)
108 PF13717 zinc_ribbon_4: zinc-r 34.7 18 0.00038 26.9 0.7 31 196-226 3-34 (36)
109 cd00730 rubredoxin Rubredoxin; 34.0 15 0.00032 29.5 0.2 29 197-225 3-42 (50)
110 PF14803 Nudix_N_2: Nudix N-te 33.5 18 0.0004 26.6 0.6 30 197-226 2-31 (34)
111 PRK08455 fliL flagellar basal 33.4 1.1E+02 0.0023 31.5 6.4 72 589-661 91-166 (182)
112 smart00834 CxxC_CXXC_SSSS Puta 32.3 20 0.00043 26.8 0.7 29 196-225 6-34 (41)
113 PRK00564 hypA hydrogenase nick 31.8 18 0.00038 34.4 0.4 29 194-228 70-99 (117)
114 KOG1923 Rac1 GTPase effector F 31.5 1.6E+02 0.0036 36.3 8.3 11 680-690 716-726 (830)
115 COG2888 Predicted Zn-ribbon RN 31.0 18 0.00039 30.0 0.2 23 193-225 36-58 (61)
116 PF07282 OrfB_Zn_ribbon: Putat 30.9 32 0.0007 29.0 1.8 27 196-226 29-55 (69)
117 COG1096 Predicted RNA-binding 30.7 29 0.00062 35.6 1.7 25 196-226 150-174 (188)
118 PF13240 zinc_ribbon_2: zinc-r 30.7 25 0.00054 23.5 0.8 21 197-225 1-21 (23)
119 PF08792 A2L_zn_ribbon: A2L zi 30.6 54 0.0012 24.0 2.6 30 194-227 2-31 (33)
120 PF06943 zf-LSD1: LSD1 zinc fi 30.3 37 0.0008 23.3 1.6 24 198-225 1-24 (25)
121 PF12773 DZR: Double zinc ribb 30.1 30 0.00066 27.2 1.4 34 193-231 10-43 (50)
122 PF00641 zf-RanBP: Zn-finger i 28.9 21 0.00046 25.1 0.3 15 216-230 3-17 (30)
123 COG2956 Predicted N-acetylgluc 28.1 28 0.00061 38.7 1.2 30 193-230 352-381 (389)
124 COG0275 Predicted S-adenosylme 27.3 78 0.0017 35.1 4.4 29 286-314 217-245 (314)
125 PF12760 Zn_Tnp_IS1595: Transp 27.3 63 0.0014 25.2 2.7 27 196-225 19-45 (46)
126 PF01927 Mut7-C: Mut7-C RNAse 27.2 37 0.00081 33.4 1.8 33 195-227 91-134 (147)
127 PRK03824 hypA hydrogenase nick 27.2 34 0.00074 33.3 1.5 34 194-227 69-117 (135)
128 COG4867 Uncharacterized protei 26.8 2.5E+02 0.0054 32.5 8.1 100 386-501 532-635 (652)
129 PF01155 HypA: Hydrogenase exp 26.3 18 0.00038 34.1 -0.7 28 194-227 69-96 (113)
130 COG5415 Predicted integral mem 26.2 37 0.00079 35.2 1.5 37 196-232 193-229 (251)
131 COG1580 FliL Flagellar basal b 26.0 2.3E+02 0.005 28.5 7.1 37 626-662 107-143 (159)
132 PHA03247 large tegument protei 26.0 9.7E+02 0.021 34.5 14.3 14 619-632 3102-3115(3151)
133 PF02891 zf-MIZ: MIZ/SP-RING z 25.9 8 0.00017 31.0 -2.6 18 208-225 32-49 (50)
134 PRK14890 putative Zn-ribbon RN 25.8 26 0.00056 29.1 0.3 22 195-226 36-57 (59)
135 COG5242 TFB4 RNA polymerase II 25.5 8.4E+02 0.018 26.0 14.6 89 385-503 127-216 (296)
136 PF11781 RRN7: RNA polymerase 25.3 60 0.0013 24.2 2.1 27 195-226 8-34 (36)
137 KOG2391 Vacuolar sorting prote 25.3 2E+02 0.0043 32.3 6.9 18 287-304 249-266 (365)
138 smart00659 RPOLCX RNA polymera 25.2 47 0.001 25.9 1.7 26 197-227 4-29 (44)
139 KOG3799 Rab3 effector RIM1 and 24.7 33 0.00071 33.0 0.8 32 194-229 88-119 (169)
140 COG1198 PriA Primosomal protei 24.3 1.9E+02 0.0042 36.1 7.5 110 195-324 444-571 (730)
141 PRK00762 hypA hydrogenase nick 24.1 33 0.00071 32.9 0.7 34 194-228 69-103 (124)
142 KOG0566 Inositol-1,4,5-triphos 24.0 5.2E+02 0.011 33.1 10.8 9 87-95 1029-1037(1080)
143 PF00301 Rubredoxin: Rubredoxi 23.6 21 0.00045 28.3 -0.6 11 215-225 32-42 (47)
144 KOG4217 Nuclear receptors of t 23.2 6.4E+02 0.014 29.7 10.5 26 192-220 283-308 (605)
145 COG1545 Predicted nucleic-acid 23.0 87 0.0019 30.7 3.5 24 196-227 30-53 (140)
146 COG3357 Predicted transcriptio 22.9 39 0.00084 30.5 0.9 36 194-233 57-92 (97)
147 KOG4849 mRNA cleavage factor I 22.8 1.1E+03 0.025 26.6 12.4 18 286-303 411-428 (498)
148 KOG2846 Predicted membrane pro 22.8 39 0.00085 37.5 1.1 36 195-230 220-255 (328)
149 TIGR00006 S-adenosyl-methyltra 22.7 96 0.0021 34.5 4.1 30 286-315 213-242 (305)
150 KOG0445 Actin regulatory prote 22.6 1.5E+02 0.0032 36.2 5.6 25 747-771 367-391 (919)
151 PRK00432 30S ribosomal protein 22.4 48 0.001 26.6 1.3 25 196-226 21-46 (50)
152 PF13894 zf-C2H2_4: C2H2-type 22.0 42 0.00091 21.3 0.7 11 218-228 1-11 (24)
153 PRK12286 rpmF 50S ribosomal pr 21.6 71 0.0015 26.4 2.1 26 194-228 26-51 (57)
154 KOG1074 Transcriptional repres 21.6 40 0.00087 41.7 0.9 40 193-232 351-396 (958)
155 smart00132 LIM Zinc-binding do 21.5 69 0.0015 23.0 1.9 29 197-225 1-35 (39)
156 smart00401 ZnF_GATA zinc finge 21.5 63 0.0014 26.0 1.8 32 195-226 3-34 (52)
157 KOG1830 Wiskott Aldrich syndro 21.4 8.2E+02 0.018 28.4 10.8 30 32-61 249-278 (518)
158 TIGR00311 aIF-2beta translatio 21.4 89 0.0019 30.5 3.1 33 194-229 96-130 (133)
159 PRK06393 rpoE DNA-directed RNA 20.8 50 0.0011 28.0 1.1 24 196-229 6-29 (64)
160 COG1066 Sms Predicted ATP-depe 20.4 46 0.001 38.3 1.0 28 196-233 8-37 (456)
161 TIGR01384 TFS_arch transcripti 20.4 63 0.0014 29.6 1.8 27 197-229 2-28 (104)
No 1
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.5e-139 Score=1173.13 Aligned_cols=649 Identities=29% Similarity=0.419 Sum_probs=601.6
Q ss_pred CCCCCCeeeeecCccCCCHhhhhcCCCceEEEEccCCCCCCCCcccCCCCcccCCCccccccceEEEcCCCEEEEccCCC
Q 002989 146 PVGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVSPSLQIIQRDPHRCHNCGAFANIYCKILLGSGQWQCVICRN 225 (860)
Q Consensus 146 ~~~~~~~vR~T~~~iP~t~~~~~~~~lP~g~vv~P~~~~~~~~p~v~~~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~ 225 (860)
++|+.++||+|||+||.++..+.++++|++|+|+||++.++ +++++|+|+||++|+||+||||.+|.+.+.|.|+||.+
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 67999999999999999999999999999999999998654 78899999999999999999999999999999999999
Q ss_pred cCCCCccccCCCccccCCCCCc--CCCceeEEecCCCCCCCCCCCCCCCCCcEEEEEECCCChhHHHHHHHHHHHhhhcC
Q 002989 226 LNGSEGEYVAPSKEELRNFPEL--SSPMVDYVQTGNNRSSYVPVSDSRMSAPIILVIDECLDEPHLQHLQSSLHAFVESI 303 (860)
Q Consensus 226 ~N~lp~~Y~~~~~~d~~~~PEL--~~~tvEy~~p~~yr~~~~~~~~~~~~p~~vFvID~S~~~~~l~~l~~sL~~~L~~L 303 (860)
+|.+|++|..++..+++ +|| .++||||++++.. ..+|+|+||||+|+++++|+.+|++|+++|+.|
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 588 7899999998542 245778999999999999999999999999999
Q ss_pred CCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhhcCC-------------ccccchhhhHHHHHHHH
Q 002989 304 PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYGTG-------------VYLSPMHASKQVAHDIF 370 (860)
Q Consensus 304 p~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~~~-------------~fL~pl~e~~~~i~~lL 370 (860)
|++++|||||||++|+||+++...+.+++||+|+|+++.++++++++..+ +||.|+++|+..++++|
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 99999999999999999999999999999999999999999999987654 89999999999999999
Q ss_pred hhhccCccccccCCCC-CchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCCCCCCccCCC---------
Q 002989 371 SSLRPYKLNITEASRD-RCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSF--------- 440 (860)
Q Consensus 371 ~~L~~~~~~~~~~~r~-r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~GpG~l~~~~--------- 440 (860)
++|+++.|+++.++|+ ||||+||++|+.||++++++ .|+||++|++||||.|||+|+.++
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 EELQPDPWPVPPGHRPLRCTGVALSIASGLLEGCFPN----------TGARIVLFAGGPCTRGPGTVVSRELKEPIRSHH 301 (745)
T ss_pred HHhcCCCCCCCCCCCcccchhHHHHHHHHHhcccCCC----------CcceEEEeccCCCCcCCceecchhhcCCCcCcc
Confidence 9999999999999999 99999999999999999873 799999999999999999999643
Q ss_pred --CCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCch-hHHHHHHHHHHhcc
Q 002989 441 --SHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG-EAFGVNLQRASTRA 517 (860)
Q Consensus 441 --~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~-~~f~~dL~r~l~r~ 517 (860)
+++++.|+ |++.|||++||++++.+|++||||+++.||+|++||++|++.|||.+++.|+|+ +.|+++++|+|+|+
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 34566676 788999999999999999999999999999999999999999999999999999 57999999999954
Q ss_pred ------cccceEEEEEecCCeeEEEeeCCCccccccccc------ccccCcccceeccCCCCceEEEEEEEeccCC--C-
Q 002989 518 ------AGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHE------TFKNDAALSIQMPSVEETQSFAVSMENKRDI--E- 582 (860)
Q Consensus 518 ------~g~~a~lrVR~S~gi~v~~~~G~~~s~~~~~~~------~~~~~~~~~i~l~~v~~~~S~~~~~~~~~~~--~- 582 (860)
+||+|.|+|+||++++|++++|||.++++|+++ +++++ ..|+++++++.+++++.|++...- +
T Consensus 381 ~~~~l~~~fn~~leV~tSkdlkI~g~IGp~~Sl~~k~~~vsdt~ig~g~t--~~wkm~~ls~~t~~s~~fei~~~~~~~~ 458 (745)
T KOG1986|consen 381 GEGDLKMGFNGTLEVKTSKDLKIQGVIGPCVSLNKKGPNVSDTEIGEGNT--SAWKMCGLSPSTTLSLFFEISNQHNIPQ 458 (745)
T ss_pred cccchhhhcCceEEEEecCCcEEEecccccccccCCCCccccceeccccc--cceeeeccCCCceEEEEEEeccccCCCC
Confidence 899999999999999999999999999997654 44444 467889999999999999997653 2
Q ss_pred CCceEEEEEEEEEecCCcEEEEEEEeeecccCch-HHHHhhcCHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHH
Q 002989 583 SNHVFFQFAIRYSNVYQADISRVVTVRLPTVDSV-SAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIA 661 (860)
Q Consensus 583 ~~~~~iQ~al~YT~~~G~RriRV~T~~l~vt~~~-~~v~~s~D~ea~~~llaK~av~~~~~~~~~~d~r~~Ld~~li~il 661 (860)
++.+||||+++|++++|++|+||+|++++|++.. .++.++|||||+|++|||+++.+++++ +..|+++|+|++||++|
T Consensus 459 ~~~~~iQFiT~Yq~s~g~~riRVtT~~r~~~d~~~~~i~~~FDqEaaAV~mAR~~~~kae~e-~~~d~~rwlDr~Lirlc 537 (745)
T KOG1986|consen 459 SGQGYIQFITQYQHSSGQKRIRVTTLARPWADSGSPEISQSFDQEAAAVLMARLALLKAETE-DGPDVLRWLDRNLIRLC 537 (745)
T ss_pred CCeeEEEEEEEEEcCCCcEEEEEEEeehhhccccchHhhhccchHHHHHHHHHHHHHhhhcc-ccchHHHHHHHHHHHHH
Confidence 5799999999999999999999999999999977 589999999999999999999999985 78999999999999999
Q ss_pred HHhcccCCCCC-ccccchhhhHHHHHHHHHccCcCCCCCCCCchHHHHHHHHHhccCHHHHHHhhcccceeeccCCcccc
Q 002989 662 LKFGSQVPKSK-LYRFPKELSALSELLFHLRRSPLLGNIIGHDDERSVLRNLFLNASFDLSLRMVAPRCLMYREGGTFEE 740 (860)
Q Consensus 662 ~~y~~~~~~~~-~l~Lp~~l~~lP~~~~~L~RS~~L~~~~~spDer~~~~~~l~~~~v~~~l~~iyP~L~~~~~~~~~~~ 740 (860)
++|++|...+. .|+|+++|++||+||||||||+||+++|+|||||+||||+|+++++++++.||+|+|++|++++..++
T Consensus 538 ~kFg~y~k~dPssf~l~~~fsl~PQfmfhLRRS~fLqvfNnSPDEt~~yrhll~~e~v~~sliMIqP~L~sySf~g~~ep 617 (745)
T KOG1986|consen 538 QKFGDYRKDDPSSFRLSPNFSLYPQFMFHLRRSPFLQVFNNSPDETAYYRHLLNREDVDNSLIMIQPTLLSYSFNGPPEP 617 (745)
T ss_pred HHHhccCCCCchhhcCChhhhhhHHHHHhhccchhhhccCCCcchHHHHHHHHhhccchhhhheecceeeeeecCCCCce
Confidence 99999944442 39999999999999999999999999999999999999999999999999999999999999988777
Q ss_pred CCccccccCCCcEEEEeCCcEEEEEeCCcccCCc--------cc--hHHHHHHHHHHHHHHHhccCCCcEEEEEecCCC-
Q 002989 741 LPAYDLAMQSDKAVVLDHGTDVFIWLGAELAADE--------GR--SAAALAACRTLAEELSEFRFPAPRILAFKVLFC- 809 (860)
Q Consensus 741 lP~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~--------~~--~~~~l~~~~~~a~~l~~~R~p~Pr~i~~~qg~s- 809 (860)
++++..||.+|.|+|||++++|+||+|+.++.|. || |++++++++++|++|..+|||+|||++|+||||
T Consensus 618 vlLD~~Si~~D~iLLlDt~f~i~i~hG~tIaqWR~~gy~~~pe~~~f~~LL~ap~~dA~el~~~RFP~PR~v~~~q~GSQ 697 (745)
T KOG1986|consen 618 VLLDVASILADRILLLDTYFTIVIFHGSTIAQWRKAGYHEQPEYENFKELLEAPREDAQELLLERFPMPRYVVTDQGGSQ 697 (745)
T ss_pred eEecccccCCceEEEeecceEEEEECCchHHHHHhcccccChhhHHHHHHHHhHHHHHHHHHHhhCCCCeEEEecCCccH
Confidence 7778899999999999999999999999998654 44 589999999999999999999999999999999
Q ss_pred CcceeeeecCCC
Q 002989 810 SIPLPCIVLSFY 821 (860)
Q Consensus 810 ~r~lp~~lvp~~ 821 (860)
+|||.+|++|..
T Consensus 698 ARFLlsklnPS~ 709 (745)
T KOG1986|consen 698 ARFLLSKLNPSE 709 (745)
T ss_pred HHhhhhhcCcch
Confidence 999999999975
No 2
>PLN00162 transport protein sec23; Provisional
Probab=100.00 E-value=1.5e-136 Score=1232.76 Aligned_cols=653 Identities=24% Similarity=0.359 Sum_probs=587.2
Q ss_pred CCCCCeeeeecCccCCCHhhhhcCCCceEEEEccCCCCCCCCcccCCCCcccCCCccccccceEEEcCCCEEEEccCCCc
Q 002989 147 VGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVSPSLQIIQRDPHRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (860)
Q Consensus 147 ~~~~~~vR~T~~~iP~t~~~~~~~~lP~g~vv~P~~~~~~~~p~v~~~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~ 226 (860)
.|+.++||+|||+||.++.++++++|||||+|+||++..+ +|+++++|+||++|+|||||||+||.++++|+||||+++
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 4788999999999999999999999999999999998654 888999999999999999999999999999999999999
Q ss_pred CCCCccccCCCccccCCCCCc--CCCceeEEecCCCCCCCCCCCCCCCCCcEEEEEECCCChhHHHHHHHHHHHhhhcCC
Q 002989 227 NGSEGEYVAPSKEELRNFPEL--SSPMVDYVQTGNNRSSYVPVSDSRMSAPIILVIDECLDEPHLQHLQSSLHAFVESIP 304 (860)
Q Consensus 227 N~lp~~Y~~~~~~d~~~~PEL--~~~tvEy~~p~~yr~~~~~~~~~~~~p~~vFvID~S~~~~~l~~l~~sL~~~L~~Lp 304 (860)
|.+|++|..++.. +.+||| .++||||+++. |.. ..+.+|.|+||||+|.++++++.+|++|+++|+.||
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 89999999996 311 014678899999999999999999999999999999
Q ss_pred CCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhhc-----------------------CCccccchhh
Q 002989 305 PTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYG-----------------------TGVYLSPMHA 361 (860)
Q Consensus 305 ~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~-----------------------~~~fL~pl~e 361 (860)
++++|||||||++||||+|+.+.+.+++|++|.++++.++++++++. .++||+|++|
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 99999999999999999999888899999999999999999887621 3589999999
Q ss_pred hHHHHHHHHhhhccCccccccCCCC-CchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCCCCCCccCCC
Q 002989 362 SKQVAHDIFSSLRPYKLNITEASRD-RCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSF 440 (860)
Q Consensus 362 ~~~~i~~lL~~L~~~~~~~~~~~r~-r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~GpG~l~~~~ 440 (860)
|++.|+++||+|+++.|+++.++|+ ||+|+||++|..+|+.+.+ +.|||||+|++|+||.|||+|+.++
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 9999999999999999887766776 9999999999999997543 3699999999999999999999875
Q ss_pred CCCC-----------chhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCchh-HHHH
Q 002989 441 SHPN-----------YLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE-AFGV 508 (860)
Q Consensus 441 ~~~~-----------~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~~-~f~~ 508 (860)
.++. .+++ +++.+||++||++|+++||+||+|+++.+|+|++||+.|++.|||.+++|++|++ .|++
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 3321 2223 7899999999999999999999999999999999999999999999999999986 6999
Q ss_pred HHHHHHhcc------cccceEEEEEecCCeeEEEeeCCCccccccccc----ccccCcccceeccCCCCceEEEEEEEec
Q 002989 509 NLQRASTRA------AGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHE----TFKNDAALSIQMPSVEETQSFAVSMENK 578 (860)
Q Consensus 509 dL~r~l~r~------~g~~a~lrVR~S~gi~v~~~~G~~~s~~~~~~~----~~~~~~~~~i~l~~v~~~~S~~~~~~~~ 578 (860)
+|+|+|+|+ +||+|+||||||+|++|+++|||++++++++.+ -.+..+.+.|+++++++++||+|+|+++
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 799999999999999999999999987665422 1223345678999999999999999998
Q ss_pred cCC------CCCceEEEEEEEEEecCCcEEEEEEEeeecccC--chHHHHhhcCHHHHHHHHHHHHHHHHhccCCHHHHH
Q 002989 579 RDI------ESNHVFFQFAIRYSNVYQADISRVVTVRLPTVD--SVSAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMR 650 (860)
Q Consensus 579 ~~~------~~~~~~iQ~al~YT~~~G~RriRV~T~~l~vt~--~~~~v~~s~D~ea~~~llaK~av~~~~~~~~~~d~r 650 (860)
+.. +...+||||+++||+.+|+|||||||++++|+. ++.+++++|||||++++|||+|++++++ ++..|+|
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 HHHHHHHHHHHHHhcccCCCC-CccccchhhhHHHHHHHHHccCcCCCCCCCCchHHHHHHHHHhccCHHHHHHhhcccc
Q 002989 651 TMIDERVKDIALKFGSQVPKS-KLYRFPKELSALSELLFHLRRSPLLGNIIGHDDERSVLRNLFLNASFDLSLRMVAPRC 729 (860)
Q Consensus 651 ~~Ld~~li~il~~y~~~~~~~-~~l~Lp~~l~~lP~~~~~L~RS~~L~~~~~spDer~~~~~~l~~~~v~~~l~~iyP~L 729 (860)
+|||++|++++.+|++|.... .+|+||++|++||+||||||||++|+++|+|||||+|+|++++++++++++.||||+|
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 999999999999988773222 3499999999999999999999999999999999999999999999999999999999
Q ss_pred eeeccCCccccCCccccccCCCcEEEEeCCcEEEEEeCCcccCCc--------cc--hHHHHHHHHHHHHHHHhccCCCc
Q 002989 730 LMYREGGTFEELPAYDLAMQSDKAVVLDHGTDVFIWLGAELAADE--------GR--SAAALAACRTLAEELSEFRFPAP 799 (860)
Q Consensus 730 ~~~~~~~~~~~lP~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~--------~~--~~~~l~~~~~~a~~l~~~R~p~P 799 (860)
++||.++...++.++..+|++|+|||||+|++|+||+|+++++|. || +++++++++++|++|.++|||+|
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 999987654444456788999999999999999999999998753 34 59999999999999999999999
Q ss_pred EEEEEecCCC-CcceeeeecCCC
Q 002989 800 RILAFKVLFC-SIPLPCIVLSFY 821 (860)
Q Consensus 800 r~i~~~qg~s-~r~lp~~lvp~~ 821 (860)
||++|+||+| +|||.+||+|..
T Consensus 704 r~i~~~~~~SqaRfl~~klnPs~ 726 (761)
T PLN00162 704 RLVVCDQHGSQARFLLAKLNPSA 726 (761)
T ss_pred eEEEeCCCCcHHHHHHHhcCCcc
Confidence 9999999999 999999999996
No 3
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=100.00 E-value=9.8e-124 Score=1019.09 Aligned_cols=653 Identities=25% Similarity=0.374 Sum_probs=590.0
Q ss_pred CCCCCeeeeecCccCCCHhhhhcCCCceEEEEccCCCCCCCCcccCCCCcccCC-CccccccceEEEcCCCEEEEccCCC
Q 002989 147 VGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVSPSLQIIQRDPHRCHN-CGAFANIYCKILLGSGQWQCVICRN 225 (860)
Q Consensus 147 ~~~~~~vR~T~~~iP~t~~~~~~~~lP~g~vv~P~~~~~~~~p~v~~~pvRC~~-C~AYiNPf~~~~~~~~~W~C~~C~~ 225 (860)
+|+.++||+|||+||+|+.++.++.+|++|+|+|+++.+. .++..|+|+.|.. |+||+||||.+|.+.+.|.|+||++
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 7899999999999999999999999999999999998643 6778899999999 9999999999999999999999999
Q ss_pred cCCCCccccCCCccccCCCCCc--CCCceeEEecCCCCCCCCCCCCCCCCCcEEEEEECCCChhHHHHHHHHHHHhhhcC
Q 002989 226 LNGSEGEYVAPSKEELRNFPEL--SSPMVDYVQTGNNRSSYVPVSDSRMSAPIILVIDECLDEPHLQHLQSSLHAFVESI 303 (860)
Q Consensus 226 ~N~lp~~Y~~~~~~d~~~~PEL--~~~tvEy~~p~~yr~~~~~~~~~~~~p~~vFvID~S~~~~~l~~l~~sL~~~L~~L 303 (860)
+|.+|++|..++..++. +|| +++||||+.++. . ..+|.++||||+|.++++|..||++|...|..|
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 799999999964 2 245777999999999999999999999999999
Q ss_pred CCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhhcC--------------------CccccchhhhH
Q 002989 304 PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYGT--------------------GVYLSPMHASK 363 (860)
Q Consensus 304 p~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~~--------------------~~fL~pl~e~~ 363 (860)
|++++||||||++.|++|+++...+.+++||+|.++++.+.|++|+... .+|+.|+.+|+
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 002989 364 QVAHDIFSSLRPYKLNITEASRD-RCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSH 442 (860)
Q Consensus 364 ~~i~~lL~~L~~~~~~~~~~~r~-r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~GpG~l~~~~~~ 442 (860)
..+.++|++|+++.|.+..++|+ ||||+||.+|..||+.++++ .|+||++|++||||.|||.|++++-+
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 99999999999999999988998 99999999999999998863 68999999999999999999975533
Q ss_pred CC-----------chhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCchh-HHHHHH
Q 002989 443 PN-----------YLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE-AFGVNL 510 (860)
Q Consensus 443 ~~-----------~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~~-~f~~dL 510 (860)
+. ..|. |++.|||+.||++.+.+|+++|+|+.+.||+|+.+|++|+..|||.+.+.|+|+. .|++++
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 22 2333 8999999999999999999999999999999999999999999999999999985 699999
Q ss_pred HHHHhcc------cccceEEEEEecCCeeEEEeeCCCcccccccccc----cccCcccceeccCCCCceEEEEEEEeccC
Q 002989 511 QRASTRA------AGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHET----FKNDAALSIQMPSVEETQSFAVSMENKRD 580 (860)
Q Consensus 511 ~r~l~r~------~g~~a~lrVR~S~gi~v~~~~G~~~s~~~~~~~~----~~~~~~~~i~l~~v~~~~S~~~~~~~~~~ 580 (860)
+|+|.++ +||+|.|+|.||++++++|++|++++.++|+.+. .+-.....|+++++++.+++++.||+...
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 9999986 7999999999999999999999999988866541 11222346788999999999999999765
Q ss_pred CCC------CceEEEEEEEEEecCCcEEEEEEEeeecccCc-hHHHHhhcCHHHHHHHHHHHHHHHHhccCCHHHHHHHH
Q 002989 581 IES------NHVFFQFAIRYSNVYQADISRVVTVRLPTVDS-VSAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMRTMI 653 (860)
Q Consensus 581 ~~~------~~~~iQ~al~YT~~~G~RriRV~T~~l~vt~~-~~~v~~s~D~ea~~~llaK~av~~~~~~~~~~d~r~~L 653 (860)
... ..+||||.+.|++++|.-||||+|++...++. ...++++|||||+++++||+++++++.+ +..|+.+|+
T Consensus 462 ~~~~~~~~~~~a~iQfiT~yQhss~t~riRVtTvar~f~~~~~p~i~~SFdqEaaaV~~aR~a~~K~~~e-d~~Dv~rw~ 540 (755)
T COG5047 462 AASGSAQRPAEAYIQFITTYQHSSGTYRIRVTTVARMFTDGGLPKINRSFDQEAAAVFMARIAAFKAETE-DIIDVFRWI 540 (755)
T ss_pred cCCCccCCcccchhhhhhhhhccCCcEEEEEeehhhhhccCCChhhhhcchhhHHHHHHHHHHHhhcccc-cchhHHHHH
Confidence 332 68999999999999999999999999888874 4568899999999999999999999884 889999999
Q ss_pred HHHHHHHHHHhcccCCCCCc--cccchhhhHHHHHHHHHccCcCCCCCCCCchHHHHHHHHHhccCHHHHHHhhccccee
Q 002989 654 DERVKDIALKFGSQVPKSKL--YRFPKELSALSELLFHLRRSPLLGNIIGHDDERSVLRNLFLNASFDLSLRMVAPRCLM 731 (860)
Q Consensus 654 d~~li~il~~y~~~~~~~~~--l~Lp~~l~~lP~~~~~L~RS~~L~~~~~spDer~~~~~~l~~~~v~~~l~~iyP~L~~ 731 (860)
|+.|+++|++|..| +|+++ |+|+++|.++|+||||||||++|+++|+|||||++|||+|.++++++++.||+|+|.+
T Consensus 541 dr~lirlcq~fa~y-~k~dpssfrl~~~f~lypqf~y~lrRSpfL~vfNnSPDEt~fyrh~l~~~dv~~sLimiqPtL~S 619 (755)
T COG5047 541 DRNLIRLCQKFADY-RKDDPSSFRLDPNFTLYPQFMYHLRRSPFLSVFNNSPDETAFYRHMLNNADVNDSLIMIQPTLQS 619 (755)
T ss_pred HHHHHHHHHHHHhc-CCCCchhhcCCcchhhhhHHHhhhhccceeeccCCCcchHHHHHHHHhcccccchhhhhcchhee
Confidence 99999999999988 66554 9999999999999999999999999999999999999999999999999999999999
Q ss_pred eccCCccccCCccccccCCCcEEEEeCCcEEEEEeCCcccCC--------ccc--hHHHHHHHHHHHHHHHhccCCCcEE
Q 002989 732 YREGGTFEELPAYDLAMQSDKAVVLDHGTDVFIWLGAELAAD--------EGR--SAAALAACRTLAEELSEFRFPAPRI 801 (860)
Q Consensus 732 ~~~~~~~~~lP~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~--------~~~--~~~~l~~~~~~a~~l~~~R~p~Pr~ 801 (860)
|++.+.-+++-++.-++++|.|+|||++++|+||+|+.++.| ++| +|++++++|..|.+++++|||.|||
T Consensus 620 ys~~~~~~pVlLDs~svkpdviLLlDtff~Ili~hG~~iaqwr~agyq~qpey~~lK~Ll~~p~~ea~ell~dRfP~Prf 699 (755)
T COG5047 620 YSFEKGGVPVLLDSVSVKPDVILLLDTFFHILIFHGSYIAQWRNAGYQEQPEYLNLKELLEAPRLEAAELLQDRFPIPRF 699 (755)
T ss_pred eeccCCCceEEEeccccCCCeEEEeeceeEEEEECChHHHHHHhhhhhcCchhhhHHHHhhchhhHHHHHHHhhCCCCeE
Confidence 998764222334567899999999999999999999999864 344 4999999999999999999999999
Q ss_pred EEEecCCC-CcceeeeecCCCCCCC
Q 002989 802 LAFKVLFC-SIPLPCIVLSFYSTWQ 825 (860)
Q Consensus 802 i~~~qg~s-~r~lp~~lvp~~~~~~ 825 (860)
++|+||+| +|||.++|+|...++.
T Consensus 700 i~teqggSQaRfLlskinPsd~~~~ 724 (755)
T COG5047 700 IVTEQGGSQARFLLSKINPSDITNK 724 (755)
T ss_pred EEecCCccHHHHHHhhcCccccccc
Confidence 99999999 9999999999985554
No 4
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.9e-120 Score=1031.16 Aligned_cols=645 Identities=21% Similarity=0.311 Sum_probs=560.9
Q ss_pred CCCCCCCCCccccCCccccccc-----ccccccCCCCCCCCeeeeecCccCCCHhhhhcCCCceEEEEccCCCCCCC--C
Q 002989 116 SSFPTSSPPHFSNGSAELQHQV-----PHAAEETMPVGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVSPS--L 188 (860)
Q Consensus 116 ~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~vR~T~~~iP~t~~~~~~~~lP~g~vv~P~~~~~~~--~ 188 (860)
.++++..+|...-+....+.-+ ...+..+.-||+++|+|+|.++||.+.+++++++||||++|+||++..+. .
T Consensus 131 ~~l~~~~~P~~~~lttlpp~pl~~p~~~~~~~~~~~nc~p~y~RsTl~~iP~t~sLl~kskLPlglvv~Pf~~~~d~~~~ 210 (887)
T KOG1985|consen 131 VDLPNQLPPGINQLTTLPPPPLEIPVPNLVTPSESSNCSPSYVRSTLSAIPQTQSLLKKSKLPLGLVVHPFAHLDDIDPL 210 (887)
T ss_pred cccccCCCCCccccccCCCCCCCCCcccccCCccccCCCHHHHHHHHHhCCccHHHHHhcCCCceEEEeecccccccCCC
Confidence 4666666665555553222222 12223368899999999999999999999999999999999999965432 3
Q ss_pred ccc-CCCCcccCCCccccccceEEEcCCCEEEEccCCCcCCCCccccCC----CccccCCCCCcCCCceeEEecCCC--C
Q 002989 189 QII-QRDPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGEYVAP----SKEELRNFPELSSPMVDYVQTGNN--R 261 (860)
Q Consensus 189 p~v-~~~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp~~Y~~~----~~~d~~~~PEL~~~tvEy~~p~~y--r 261 (860)
+++ ...|+||++||+||||||.|++.|++|+||+|+..|++|.+|.+. ...|..+||||++++|||++|.+| |
T Consensus 211 p~~~~~~IvRCr~CRtYiNPFV~fid~gr~WrCNlC~~~NdvP~~f~~~~~t~~~~~~~~RpEl~~s~vE~iAP~eYmlR 290 (887)
T KOG1985|consen 211 PVITSTLIVRCRRCRTYINPFVEFIDQGRRWRCNLCGRVNDVPDDFDWDPLTGAYGDPYSRPELTSSVVEFIAPSEYMLR 290 (887)
T ss_pred CcccCCceeeehhhhhhcCCeEEecCCCceeeechhhhhcCCcHHhhcCccccccCCcccCccccceeEEEecCcccccC
Confidence 344 468999999999999999999999999999999999999998765 356788999999999999999999 6
Q ss_pred CCCCCCCCCCCCCcEEEEEECCCC---hhHHHHHHHHHHHhhhcCC--CCcEEEEEEECCeEEEEecCCCC-ce----ee
Q 002989 262 SSYVPVSDSRMSAPIILVIDECLD---EPHLQHLQSSLHAFVESIP--PTARIGIILYGRTVSVYDFSEDS-IA----SS 331 (860)
Q Consensus 262 ~~~~~~~~~~~~p~~vFvID~S~~---~~~l~~l~~sL~~~L~~Lp--~~~~VGlITFd~~V~vy~l~~~~-~~----~~ 331 (860)
+ ++++.||||||+|.+ +|+|++++++|+..||.|| +++||||||||++||||++..+. .. .+
T Consensus 291 ~--------P~Pavy~FliDVS~~a~ksG~L~~~~~slL~~LD~lpgd~Rt~igfi~fDs~ihfy~~~~~~~qp~mm~vs 362 (887)
T KOG1985|consen 291 P--------PQPAVYVFLIDVSISAIKSGYLETVARSLLENLDALPGDPRTRIGFITFDSTIHFYSVQGDLNQPQMMIVS 362 (887)
T ss_pred C--------CCCceEEEEEEeehHhhhhhHHHHHHHHHHHhhhcCCCCCcceEEEEEeeceeeEEecCCCcCCCceeeec
Confidence 5 367788999999974 7899999999999999999 89999999999999999998664 22 33
Q ss_pred ecccCCCCCCHHHHHHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCccccccc
Q 002989 332 DVLAGDKLPTEDSLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGV 411 (860)
Q Consensus 332 ~V~~g~~~p~~~~l~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~ 411 (860)
|+. +.+.|.+++ ||+|+.|||+.|+.+|+.|+.++..+. ..++|+|+||++|.++|+.
T Consensus 363 dl~-d~flp~pd~----------lLv~L~~ck~~i~~lL~~lp~~F~~~~--~t~~alGpALkaaf~li~~--------- 420 (887)
T KOG1985|consen 363 DLD-DPFLPMPDS----------LLVPLKECKDLIETLLKTLPEMFQDTR--STGSALGPALKAAFNLIGS--------- 420 (887)
T ss_pred ccc-ccccCCchh----------heeeHHHHHHHHHHHHHHHHHHHhhcc--CcccccCHHHHHHHHHHhh---------
Confidence 333 455666665 589999999999999999999886643 3469999999999999996
Q ss_pred ccCCCCCcEEEEEeCCCCCCCCCCccCCCCCCCchhh-----hHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccch
Q 002989 412 VKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPNYLHM-----EKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQ 486 (860)
Q Consensus 412 ~k~~~~ggrIivF~sGppt~GpG~l~~~~~~~~~~~~-----ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~ 486 (860)
.||||++|.+++||.|.|+|+.||+....... ..+++.|||++|.+|.+.||+||+|+++.+|.|+|+|+
T Consensus 421 -----~GGri~vf~s~lPnlG~G~L~~rEdp~~~~s~~~~qlL~~~t~FYK~~a~~cs~~qI~VDlFl~s~qY~DlAsLs 495 (887)
T KOG1985|consen 421 -----TGGRISVFQSTLPNLGAGKLKPREDPNVRSSDEDSQLLSPATDFYKDLALECSKSQICVDLFLFSEQYTDLASLS 495 (887)
T ss_pred -----cCCeEEEEeccCCCCCccccccccccccccchhhhhccCCCchHHHHHHHHhccCceEEEEEeecccccchhhhh
Confidence 58999999999999999999999654333322 24689999999999999999999999999999999999
Q ss_pred hhhcccccEEEEeCCchh-------HHHHHHHHHHhcccccceEEEEEecCCeeEEEeeCCCcccccccccccccCcccc
Q 002989 487 PLAKASGGVLVLHDDFGE-------AFGVNLQRASTRAAGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHETFKNDAALS 559 (860)
Q Consensus 487 ~L~~~TGG~v~~y~~f~~-------~f~~dL~r~l~r~~g~~a~lrVR~S~gi~v~~~~G~~~s~~~~~~~~~~~~~~~~ 559 (860)
.|++.|||.+|+|++|+. +|.++|.|+|+|++||+|+||||||+|++++.+|| +|+.++.+.
T Consensus 496 ~LskySgG~~y~YP~f~~s~p~~~~Kf~~el~r~Ltr~~~feaVmRiR~S~gl~~~~f~G-----------nFF~RStDL 564 (887)
T KOG1985|consen 496 CLSKYSGGQVYYYPSFDGSNPHDVLKFARELARYLTRKIGFEAVMRIRCSTGLRMSSFFG-----------NFFVRSTDL 564 (887)
T ss_pred ccccccCceeEEccCCCCCCHHHHHHHHHHHHHHhhhhhhhheeEEeeccccccccceec-----------ccccCcHHH
Confidence 999999999999999962 68999999999999999999999999999999999 688898999
Q ss_pred eeccCCCCceEEEEEEEeccCCCCCceEEEEEEEEEecCCcEEEEEEEeeecccCchHHHHhhcCHHHHHHHHHHHHHHH
Q 002989 560 IQMPSVEETQSFAVSMENKRDIESNHVFFQFAIRYSNVYQADISRVVTVRLPTVDSVSAYLSSFQDEVAAVLIAKRTLLR 639 (860)
Q Consensus 560 i~l~~v~~~~S~~~~~~~~~~~~~~~~~iQ~al~YT~~~G~RriRV~T~~l~vt~~~~~v~~s~D~ea~~~llaK~av~~ 639 (860)
+.++++++|++++|++++++.+.....+||.|++||...|||||||||+++|+++++.++|+++|++|++.+++|+|+++
T Consensus 565 la~~~v~~D~sy~~qisiEesl~~~~~~fQvAlLyT~~~GERRIRV~T~~lpt~~sl~evY~saD~~AI~~lla~~Av~k 644 (887)
T KOG1985|consen 565 LALPNVNPDQSYAFQISIEESLTTGFCVFQVALLYTLSKGERRIRVHTLCLPTVSSLNEVYASADQEAIASLLAKKAVEK 644 (887)
T ss_pred hcccCCCCCccceEEEEeehhcCCceeEEEeeeeecccCCceeEEEEEeeccccccHHHHHhhcCHHHHHHHHHHHHHHH
Confidence 99999999999999999999998888999999999999999999999999999999999999999999999999999999
Q ss_pred HhccCCHHHHHHHHHHHHHHHHHHhcccCCC----CCccccchhhhHHHHHHHHHccCcCCCC-CCCCchHHHHHHHHHh
Q 002989 640 AKIFSEAIDMRTMIDERVKDIALKFGSQVPK----SKLYRFPKELSALSELLFHLRRSPLLGN-IIGHDDERSVLRNLFL 714 (860)
Q Consensus 640 ~~~~~~~~d~r~~Ld~~li~il~~y~~~~~~----~~~l~Lp~~l~~lP~~~~~L~RS~~L~~-~~~spDer~~~~~~l~ 714 (860)
+++ ..+.|+|..|.+.+++++..|++.... +..|.+|.+|++||+|+++|+|++.|+. ..++.|+|+|+++++.
T Consensus 645 sl~-ssL~dardal~~~~~D~l~aYk~~~~~~~~~~~~l~~p~~LrllPllvlALlK~~~fr~g~~~~lD~R~~a~~~~~ 723 (887)
T KOG1985|consen 645 SLS-SSLSDARDALTNAVVDILNAYKKLVSNQNGQGITLSLPASLRLLPLLVLALLKHPAFRPGTGTRLDYRAYAMCLMS 723 (887)
T ss_pred HHH-hhhhhHHHHHHHHHHHHHHHHHHHhcccccCCcceecCcchhhhHHHHHHHhcCCcccCCCCCCchHHHHHHHHhh
Confidence 998 589999999999999999999976532 2249999999999999999999999985 4889999999999999
Q ss_pred ccCHHHHHHhhcccceeeccCCc---------cccCC----ccccccCCCcEEEEeCCcEEEEEeCCcccCCccc-----
Q 002989 715 NASFDLSLRMVAPRCLMYREGGT---------FEELP----AYDLAMQSDKAVVLDHGTDVFIWLGAELAADEGR----- 776 (860)
Q Consensus 715 ~~~v~~~l~~iyP~L~~~~~~~~---------~~~lP----~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~----- 776 (860)
.+++..++++|||+||++|+... ...+| +..+.++..|+||||+|+.+|||+|++++++...
T Consensus 724 ~lpl~~L~k~IYP~Lysl~~l~~ea~~~~~d~~~~~p~~L~ltae~l~~~GlyL~D~g~~lfl~vg~~a~P~ll~~vfg~ 803 (887)
T KOG1985|consen 724 TLPLKYLMKYIYPTLYSLHDLDDEAGLPIHDQTVVLPPPLNLTAELLSRRGLYLMDTGTTLFLWVGSNADPSLLFDVFGV 803 (887)
T ss_pred cCCHHHHHhhhcccceeccccccccCcccccccccCCCccchHHHHhccCceEEEecCcEEEEEEcCCCCccccccccCc
Confidence 99999999999999999997321 11222 2345689999999999999999999999875311
Q ss_pred ------------h----HHHHHHHHHHHHHHHhccCCCcEEEEEecC
Q 002989 777 ------------S----AAALAACRTLAEELSEFRFPAPRILAFKVL 807 (860)
Q Consensus 777 ------------~----~~~l~~~~~~a~~l~~~R~p~Pr~i~~~qg 807 (860)
+ ....+.++++++.++++|.-.|.++++|++
T Consensus 804 ~~~adi~~~~~~lp~~~n~~s~r~~~fI~~lR~d~~~~p~~~ivr~~ 850 (887)
T KOG1985|consen 804 STLADIPIGKYTLPELDNEESDRVRRFIKKLRDDRTYFPNLYIVRGD 850 (887)
T ss_pred chHhhcccccccCcccccchhHHHHHHHHHhhcCCcccceEEEEecC
Confidence 0 233478899999999999999999888876
No 5
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=6.5e-116 Score=995.58 Aligned_cols=657 Identities=18% Similarity=0.283 Sum_probs=570.4
Q ss_pred CCccccccCCCCCCCCCCccccCCccccccc-ccccccCCCCCCCCeeeeecCccCCCHhhhhcCCCceEEEEccCCCCC
Q 002989 107 PQPVALSSGSSFPTSSPPHFSNGSAELQHQV-PHAAEETMPVGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVS 185 (860)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~vR~T~~~iP~t~~~~~~~~lP~g~vv~P~~~~~ 185 (860)
|.|++++++...-+.+ .+-.+.+++.+ ++++.-+..||+++|||+|+|++|.|.++++.++||||++|+||+...
T Consensus 247 Ps~~qv~~~d~~~~r~----~~~~~~~PPl~TTd~~~~DqGN~sPr~mr~T~Y~iP~T~Dl~~as~iPLalvIqPfa~l~ 322 (1007)
T KOG1984|consen 247 PSPPQVSIEDDSSFRS----TDTRAQPPPLVTTDFFIQDQGNCSPRFMRCTMYTIPCTNDLLKASQIPLALVIQPFATLT 322 (1007)
T ss_pred CCchhcccchhhhhhc----CCccCCCCCCcccceEEeccCCCCcchheeecccCCccHhHHHhcCCcceeEecccccCC
Confidence 8888887663333443 34456678888 899999999999999999999999999999999999999999999654
Q ss_pred C---CCcccC---CCCcccCCCccccccceEEEcCCCEEEEccCCCcCCCCccccCC-----CccccCCCCCcCCCceeE
Q 002989 186 P---SLQIIQ---RDPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGEYVAP-----SKEELRNFPELSSPMVDY 254 (860)
Q Consensus 186 ~---~~p~v~---~~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp~~Y~~~-----~~~d~~~~PEL~~~tvEy 254 (860)
+ .+++++ .+|+||+||+||+|||++|++++++|+||||+..|++|+.|+++ .|.|+++||||+.+||||
T Consensus 323 p~E~~~~vVd~g~sgPvRC~RCkaYinPFmqF~~~gr~f~Cn~C~~~n~vp~~yf~~L~~~grr~D~~erpEL~~Gt~df 402 (1007)
T KOG1984|consen 323 PNEAPVPVVDLGESGPVRCNRCKAYINPFMQFIDGGRKFICNFCGSKNQVPDDYFNHLGPTGRRVDVEERPELCLGTVDF 402 (1007)
T ss_pred cccCCCceecCCCCCCcchhhhhhhcCcceEEecCCceEEecCCCccccCChhhcccCCCcccccccccCchhcccccce
Confidence 3 245554 58999999999999999999999999999999999999999875 578999999999999999
Q ss_pred EecCCC-CCCCCCCCCCCCCCcEEEEEECCCC---hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECCeEEEEecCCCC
Q 002989 255 VQTGNN-RSSYVPVSDSRMSAPIILVIDECLD---EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSVYDFSEDS 327 (860)
Q Consensus 255 ~~p~~y-r~~~~~~~~~~~~p~~vFvID~S~~---~~~l~~l~~sL~~~L~~Lp---~~~~VGlITFd~~V~vy~l~~~~ 327 (860)
+++++| +... .+++|.|||+||||++ .|.+.++++.|++.|+.|+ ++++|||||||++|||||++..+
T Consensus 403 vatk~Y~~~~k-----~p~ppafvFmIDVSy~Ai~~G~~~a~ce~ik~~l~~lp~~~p~~~Vgivtfd~tvhFfnl~s~L 477 (1007)
T KOG1984|consen 403 VATKDYCRKTK-----PPKPPAFVFMIDVSYNAISNGAVKAACEAIKSVLEDLPREEPNIRVGIVTFDKTVHFFNLSSNL 477 (1007)
T ss_pred eeehhhhhcCC-----CCCCceEEEEEEeehhhhhcchHHHHHHHHHHHHhhcCccCCceEEEEEEecceeEeeccCccc
Confidence 999999 3321 2578899999999985 6889999999999999998 58999999999999999999754
Q ss_pred -ceeeecccC---CCCCCHHHHHHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCC
Q 002989 328 -IASSDVLAG---DKLPTEDSLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGP 403 (860)
Q Consensus 328 -~~~~~V~~g---~~~p~~~~l~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~ 403 (860)
...+.|++| .+.|.. .+ ++++..||+..|+.+|++++.++...+ ..+.|+|+||++|..+|+.+
T Consensus 478 ~qp~mliVsdv~dvfvPf~---------~g-~~V~~~es~~~i~~lLd~Ip~mf~~sk--~pes~~g~alqaa~lalk~~ 545 (1007)
T KOG1984|consen 478 AQPQMLIVSDVDDVFVPFL---------DG-LFVNPNESRKVIELLLDSIPTMFQDSK--IPESVFGSALQAAKLALKAA 545 (1007)
T ss_pred cCceEEEeecccccccccc---------cC-eeccchHHHHHHHHHHHHhhhhhccCC--CCchhHHHHHHHHHHHHhcc
Confidence 234444432 222222 23 467788999999999999999987642 35699999999999999973
Q ss_pred CcccccccccCCCCCcEEEEEeCCCCCCCCC-CccCCCCCCCchh-hhH----hHHHHHHHHHHHHHhCCcEEEEEeecC
Q 002989 404 SAEMSRGVVKRPGGNSRIIVCAGGPNTYGPG-SVPHSFSHPNYLH-MEK----MALKWMELLGRKAHQHNAVIDILCAGN 477 (860)
Q Consensus 404 ~~~~~~~~~k~~~~ggrIivF~sGppt~GpG-~l~~~~~~~~~~~-~ek----~a~~fY~~La~~~~~~gisVDiF~~~~ 477 (860)
.|||+++|++..||.|-| ++..|+++....+ .|| ++.++|++||++|++.|+|||||++..
T Consensus 546 -------------~gGKl~vF~s~Lpt~g~g~kl~~r~D~~l~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ 612 (1007)
T KOG1984|consen 546 -------------DGGKLFVFHSVLPTAGAGGKLSNRDDRRLIGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPN 612 (1007)
T ss_pred -------------CCceEEEEecccccccCcccccccchhhhhcccchhhccCcchhHHHHHHHHHHHhCceEEEEEccc
Confidence 389999999999999988 8988877666554 344 689999999999999999999999999
Q ss_pred CCCCcccchhhhcccccEEEEeCCchh-----HHHHHHHHHHhcccccceEEEEEecCCeeEEEeeCCCccccccccccc
Q 002989 478 CPVRVPVLQPLAKASGGVLVLHDDFGE-----AFGVNLQRASTRAAGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHETF 552 (860)
Q Consensus 478 ~~v~la~l~~L~~~TGG~v~~y~~f~~-----~f~~dL~r~l~r~~g~~a~lrVR~S~gi~v~~~~G~~~s~~~~~~~~~ 552 (860)
.|+|+|+++.+++.|||.+|+|..|.. +|.+||.|.++++.||+|+||||||.||++.+|+| +|
T Consensus 613 ayvDvAtlg~v~~~TgG~vy~Y~~F~a~~D~~rl~nDL~~~vtk~~gf~a~mrvRtStGirv~~f~G-----------nf 681 (1007)
T KOG1984|consen 613 AYVDVATLGVVPALTGGQVYKYYPFQALTDGPRLLNDLVRNVTKKQGFDAVMRVRTSTGIRVQDFYG-----------NF 681 (1007)
T ss_pred ceeeeeeecccccccCceeEEecchhhcccHHHHHHHHHHhcccceeeeeEEEEeecCceeeeeeec-----------hh
Confidence 999999999999999999999999963 69999999999999999999999999999999999 57
Q ss_pred ccCcccceeccCCCCceEEEEEEEeccCCCC-CceEEEEEEEEEecCCcEEEEEEEeeecccCchHHHHhhcCHHHHHHH
Q 002989 553 KNDAALSIQMPSVEETQSFAVSMENKRDIES-NHVFFQFAIRYSNVYQADISRVVTVRLPTVDSVSAYLSSFQDEVAAVL 631 (860)
Q Consensus 553 ~~~~~~~i~l~~v~~~~S~~~~~~~~~~~~~-~~~~iQ~al~YT~~~G~RriRV~T~~l~vt~~~~~v~~s~D~ea~~~l 631 (860)
..++..+++++.+|.|++++++|+||+++++ ..++||.|++||+.+|+||+||+|+++++++.++++|+++|+|+++++
T Consensus 682 ~~~~~tDiela~lD~dkt~~v~fkhDdkLq~~s~~~fQ~AlLYTti~G~RR~Rv~Nlsl~~ts~l~~lyr~~~~d~l~a~ 761 (1007)
T KOG1984|consen 682 LMRNPTDIELAALDCDKTLTVEFKHDDKLQDGSDVHFQTALLYTTIDGQRRLRVLNLSLAVTSQLSELYRSADTDPLIAI 761 (1007)
T ss_pred hhcCCCCccccccccCceeEEEEeccccccCCcceeEEEEEEEeccCCceeEEEEecchhhhhhHHHHHHhcCccHHHHH
Confidence 7777888999999999999999999999985 579999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHhcccCCC---CCccccchhhhHHHHHHHHHccCcCCCCCCCCchHHHH
Q 002989 632 IAKRTLLRAKIFSEAIDMRTMIDERVKDIALKFGSQVPK---SKLYRFPKELSALSELLFHLRRSPLLGNIIGHDDERSV 708 (860)
Q Consensus 632 laK~av~~~~~~~~~~d~r~~Ld~~li~il~~y~~~~~~---~~~l~Lp~~l~~lP~~~~~L~RS~~L~~~~~spDer~~ 708 (860)
|+|.|+..+.. +.++++|+.|+++|+++|+.||+.|++ ++||+|||+||+||+||.+|+||.+|+...++.|+|+|
T Consensus 762 maK~a~~~i~~-~~lk~vre~l~~~~~~iL~~YRk~cas~~ssgQLILPeslKLlPly~la~lKs~~l~~~~~~~DdRi~ 840 (1007)
T KOG1984|consen 762 MAKQAAKAILD-KPLKEVREQLVSQCAQILASYRKNCASPASSGQLILPESLKLLPLYMLALLKSSALRPQEIRTDDRIY 840 (1007)
T ss_pred HHHHHHHhccc-ccHHHHHHHHHHHHHHHHHHHHHhhcCCCCcccEechhhhHHHHHHHHHHHHhhcccccccccchhHH
Confidence 99999877776 699999999999999999999999975 68899999999999999999999999988899999999
Q ss_pred HHHHHhccCHHHHHHhhcccceeeccC---Cccc-cCC----ccccccCCCcEEEEeCCcEEEEEeCCcccCCccc----
Q 002989 709 LRNLFLNASFDLSLRMVAPRCLMYREG---GTFE-ELP----AYDLAMQSDKAVVLDHGTDVFIWLGAELAADEGR---- 776 (860)
Q Consensus 709 ~~~~l~~~~v~~~l~~iyP~L~~~~~~---~~~~-~lP----~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~---- 776 (860)
.+.++.++++++++.++||+|+++|+. ++.+ .+| ++.+.|..+||||||||.++|||+|+.+++.+..
T Consensus 841 ~~~~v~sl~v~~~~~~~YPrl~p~hdl~i~dtl~~~~p~~VraS~e~l~negiYll~nG~~~ylwvg~sv~~~llQ~lf~ 920 (1007)
T KOG1984|consen 841 QLQLVTSLSVEQLMPFFYPRLLPFHDLDIEDTLEFVLPKAVRASSEFLSNEGIYLLDNGQKIYLWVGESVDPDLLQDLFS 920 (1007)
T ss_pred HHHHhhcccHHhhhhhhccceeeeeccccccccccccccceecchhhccCCceEEEecCcEEEEEecCCCCHHHHHHHhc
Confidence 999999999999999999999999974 2211 133 3556799999999999999999999999864421
Q ss_pred ------h-----------HHHHHHHHHHHHHHHhccCCCcEEEEEecCCC
Q 002989 777 ------S-----------AAALAACRTLAEELSEFRFPAPRILAFKVLFC 809 (860)
Q Consensus 777 ------~-----------~~~l~~~~~~a~~l~~~R~p~Pr~i~~~qg~s 809 (860)
. ..+-.++|+.++.|++.|-..-+++++++|..
T Consensus 921 V~s~~~i~s~~~~Lpe~dn~lS~k~r~~i~~i~~~r~~~l~v~~~k~g~~ 970 (1007)
T KOG1984|consen 921 VSSFEQIDSQSGVLPELDNPLSRKVRNVISLIRRQRSSELPVVLVKQGLD 970 (1007)
T ss_pred CccccccccccccccccCcHHHHHHHHHHHHHHhccccccccEEEecCCC
Confidence 0 23346788888888877765555555555544
No 6
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=100.00 E-value=1.2e-103 Score=888.51 Aligned_cols=631 Identities=19% Similarity=0.294 Sum_probs=548.9
Q ss_pred cccccccCCCCCCCCeeeeecCccCCCHhhhhcCCCceEEEEccCCCCCCCC--cccC--CCCcccCCCccccccceEEE
Q 002989 137 VPHAAEETMPVGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVSPSL--QIIQ--RDPHRCHNCGAFANIYCKIL 212 (860)
Q Consensus 137 ~~~~~~~~~~~~~~~~vR~T~~~iP~t~~~~~~~~lP~g~vv~P~~~~~~~~--p~v~--~~pvRC~~C~AYiNPf~~~~ 212 (860)
-..++..+..||+++|||+|++++|.+.+++++++||||+||+||.+..++. +.+. ..|+||++||+|+|||.+|.
T Consensus 137 tt~~~~~e~~n~~p~yvrsT~yaiP~t~dl~~~skiPfgLVI~Pf~~l~~e~~~vpl~~d~~ivRCrrCrsYiNPfv~fi 216 (861)
T COG5028 137 TTNFVGSEQSNCSPKYVRSTMYAIPETNDLLKKSKIPFGLVIRPFLELYPEEDPVPLVEDGSIVRCRRCRSYINPFVQFI 216 (861)
T ss_pred ccceeeeccCCCCHHHHHHHHhhCCCchhHHHhcCCCceEEeehhhhcCccCCCCccCCCCcchhhhhhHhhcCceEEEe
Confidence 3556677889999999999999999999999999999999999999876542 2233 34899999999999999999
Q ss_pred cCCCEEEEccCCCcCCCCccccCC-----CccccCCCCCcCCCceeEEecCCCCCCCCCCCCCCCCCcEEEEEECCCC--
Q 002989 213 LGSGQWQCVICRNLNGSEGEYVAP-----SKEELRNFPELSSPMVDYVQTGNNRSSYVPVSDSRMSAPIILVIDECLD-- 285 (860)
Q Consensus 213 ~~~~~W~C~~C~~~N~lp~~Y~~~-----~~~d~~~~PEL~~~tvEy~~p~~yr~~~~~~~~~~~~p~~vFvID~S~~-- 285 (860)
++|++|+||+|+..|++|..|+.. .+.|+++|+||.+++|||++|++|+-.. +.++.|||+||+|.+
T Consensus 217 ~~g~kw~CNiC~~kN~vp~~~~~~~~~~~~r~d~~~r~El~~~vvdf~ap~~Y~~~~------p~P~~yvFlIDVS~~a~ 290 (861)
T COG5028 217 EQGRKWRCNICRSKNDVPEGFDNPSGPNDPRSDRYSRPELKSGVVDFLAPKEYSLRQ------PPPPVYVFLIDVSFEAI 290 (861)
T ss_pred cCCcEEEEeeccccccCcccccCcCCCCCccccccccchhhceeeEEecccceeecc------CCCCEEEEEEEeehHhh
Confidence 999999999999999999988743 3667899999999999999999994321 246778999999985
Q ss_pred -hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhhcCCccccchhh
Q 002989 286 -EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYGTGVYLSPMHA 361 (860)
Q Consensus 286 -~~~l~~l~~sL~~~L~~Lp---~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~~~~fL~pl~e 361 (860)
.+.+.++.++|++.|+.+| +++||+||.||+.||+++++.+.-..+.+..+..+| .++...+.|+.|+.+
T Consensus 291 ~~g~~~a~~r~Il~~l~~~~~~dpr~kIaii~fD~sl~ffk~s~d~~~~~~~vsdld~p------FlPf~s~~fv~pl~~ 364 (861)
T COG5028 291 KNGLVKAAIRAILENLDQIPNFDPRTKIAIICFDSSLHFFKLSPDLDEQMLIVSDLDEP------FLPFPSGLFVLPLKS 364 (861)
T ss_pred hcchHHHHHHHHHhhccCCCCCCCcceEEEEEEcceeeEEecCCCCccceeeecccccc------cccCCcchhcccHHH
Confidence 6889999999999999886 799999999999999999986541122222222222 022334679999999
Q ss_pred hHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCCCCCCccCCCC
Q 002989 362 SKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFS 441 (860)
Q Consensus 362 ~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~GpG~l~~~~~ 441 (860)
|+..++.+|+.++.++..+ .....|+|.||++|..++++ +||||++|.+..||.|.|+|..|++
T Consensus 365 ~k~~~etLl~~~~~If~d~--~~pk~~~G~aLk~a~~l~g~--------------~GGkii~~~stlPn~G~Gkl~~r~d 428 (861)
T COG5028 365 CKQIIETLLDRVPRIFQDN--KSPKNALGPALKAAKSLIGG--------------TGGKIIVFLSTLPNMGIGKLQLRED 428 (861)
T ss_pred HHHHHHHHHHHhhhhhccc--CCCccccCHHHHHHHHHhhc--------------cCceEEEEeecCCCccccccccccc
Confidence 9999999999999987653 23459999999999999986 6999999999999999999998877
Q ss_pred CCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCchh-------HHHHHHHHHH
Q 002989 442 HPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE-------AFGVNLQRAS 514 (860)
Q Consensus 442 ~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~~-------~f~~dL~r~l 514 (860)
++.. ..+...+|||+++.+|.+.||+||+|.++.+|+|+++++.|+++|||.+++|+.|+. +|.+||.+.+
T Consensus 429 ~e~~--ll~c~d~fYk~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~~Yp~f~~~~~~d~~kl~~dL~~~l 506 (861)
T COG5028 429 KESS--LLSCKDSFYKEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTYFYPNFSATRPNDATKLANDLVSHL 506 (861)
T ss_pred chhh--hccccchHHHHHHHHHHHhcceEEEEeccccccchhhhcchhhccCcceEEcCCcccCCchhHHHHHHHHHHhh
Confidence 5433 336788999999999999999999999999999999999999999999999999962 5999999999
Q ss_pred hcccccceEEEEEecCCeeEEEeeCCCcccccccccccccCcccceeccCCCCceEEEEEEEeccCCCCCceEEEEEEEE
Q 002989 515 TRAAGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHETFKNDAALSIQMPSVEETQSFAVSMENKRDIESNHVFFQFAIRY 594 (860)
Q Consensus 515 ~r~~g~~a~lrVR~S~gi~v~~~~G~~~s~~~~~~~~~~~~~~~~i~l~~v~~~~S~~~~~~~~~~~~~~~~~iQ~al~Y 594 (860)
+++.|++++||||||+|+++.++|| +|.+++.+.+.++.+++|+|+.|+|++++.+....+|||.|++|
T Consensus 507 s~~~gy~~~~rvR~S~glr~s~fyG-----------nf~~rs~dl~~F~tm~rd~Sl~~~~sid~~l~~~~v~fQvAlL~ 575 (861)
T COG5028 507 SMEIGYEAVMRVRCSTGLRVSSFYG-----------NFFNRSSDLCAFSTMPRDTSLLVEFSIDEKLMTSDVYFQVALLY 575 (861)
T ss_pred hhhhhhheeeEeeccCceehhhhhc-----------cccccCcccccccccCCCceEEEEEEecccccCCceEEEEEEEe
Confidence 9999999999999999999999999 57778888899999999999999999999998899999999999
Q ss_pred EecCCcEEEEEEEeeecccCchHHHHhhcCHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHhcccCCC---C
Q 002989 595 SNVYQADISRVVTVRLPTVDSVSAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIALKFGSQVPK---S 671 (860)
Q Consensus 595 T~~~G~RriRV~T~~l~vt~~~~~v~~s~D~ea~~~llaK~av~~~~~~~~~~d~r~~Ld~~li~il~~y~~~~~~---~ 671 (860)
|..+|+|||||.|+++++++++.++|+++||++++.+|+|+|+.++.+ ..+.++|+.|++.+++||+.||+.+.+ +
T Consensus 576 T~~~GeRRiRVvn~s~~~ss~~~evyasadq~aIa~~lak~a~~~~~~-~s~~~~r~~i~~s~~~IL~~Ykk~~~~snt~ 654 (861)
T COG5028 576 TLNDGERRIRVVNLSLPTSSSIREVYASADQLAIACILAKKASTKALN-SSLKEARVLINKSMVDILKAYKKELVKSNTS 654 (861)
T ss_pred eccCCceEEEEEEeccccchhHHHHHHhccHHHHHHHHHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHHHHHHhhccCC
Confidence 999999999999999999999999999999999999999999999987 489999999999999999999986554 5
Q ss_pred CccccchhhhHHHHHHHHHccCcCCCCCCCCchHHHHHHHHHhccCHHHHHHhhcccceeeccC----Cccc----cC--
Q 002989 672 KLYRFPKELSALSELLFHLRRSPLLGNIIGHDDERSVLRNLFLNASFDLSLRMVAPRCLMYREG----GTFE----EL-- 741 (860)
Q Consensus 672 ~~l~Lp~~l~~lP~~~~~L~RS~~L~~~~~spDer~~~~~~l~~~~v~~~l~~iyP~L~~~~~~----~~~~----~l-- 741 (860)
.++.||++|++||++|++|.||.+|+...++.|+|++....+.++++.++++.|||+||++|+- |..+ ..
T Consensus 655 tql~Lp~nL~lLPll~lal~Ks~~~rs~~~~sD~r~~~L~~l~~~p~~~l~~~iYP~lyalHdm~~e~~l~~~~~~~~~~ 734 (861)
T COG5028 655 TQLPLPANLKLLPLLMLALLKSSAFRSGSTPSDIRISALNRLTSLPLKQLMRNIYPTLYALHDMPIEAGLPDEGLLVLPS 734 (861)
T ss_pred ccccchhhhHHHHHHHHHHhhhcccccCCCccchhHHHHHHhhcCCHHHHHHhhccceeeecccccccCCCccccccccc
Confidence 6799999999999999999999999987888999999999999999999999999999999962 1110 11
Q ss_pred C--ccccccCCCcEEEEeCCcEEEEEeCCcccCCccc---------------h------HHHHHHHHHHHHHHHh-ccCC
Q 002989 742 P--AYDLAMQSDKAVVLDHGTDVFIWLGAELAADEGR---------------S------AAALAACRTLAEELSE-FRFP 797 (860)
Q Consensus 742 P--~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~---------------~------~~~l~~~~~~a~~l~~-~R~p 797 (860)
| ++...++++|+||+|+|.++|+|+|+++++.... + .++-+.++++++++++ .+-.
T Consensus 735 piNaT~s~le~~GlYLidtg~~iflw~g~d~~p~Ll~dlf~~~~~~~I~~~k~~~p~~~n~~n~~v~~iI~~lrs~~~~~ 814 (861)
T COG5028 735 PINATSSLLESGGLYLIDTGQKIFLWFGKDAVPSLLQDLFGVDSLSDIPSGKFTLPPTGNEFNERVRNIIGELRSVNDDS 814 (861)
T ss_pred chhhhHHHHhcCCeEEEEcCCEEEEEecCCCCHHHHHHhcCcchhhhccccccccCCcCCHHHHHHHHHHHHHHhhCCCC
Confidence 2 1234589999999999999999999999863311 0 2566889999999988 7766
Q ss_pred CcEEEEEecCCC
Q 002989 798 APRILAFKVLFC 809 (860)
Q Consensus 798 ~Pr~i~~~qg~s 809 (860)
+..++.+|+|+.
T Consensus 815 tl~lvlVR~~~d 826 (861)
T COG5028 815 TLPLVLVRGGGD 826 (861)
T ss_pred ccceEEEecCCC
Confidence 777888888865
No 7
>PTZ00395 Sec24-related protein; Provisional
Probab=100.00 E-value=2.1e-101 Score=910.99 Aligned_cols=678 Identities=14% Similarity=0.177 Sum_probs=543.8
Q ss_pred CCccccccCCCCCCCCCCccccCCccccccc-ccccccCCCCCCCCeeeeecCccCCCHhhhhcCCCceEEEEccCCCCC
Q 002989 107 PQPVALSSGSSFPTSSPPHFSNGSAELQHQV-PHAAEETMPVGESSCVLFSAHKVLKKKKQANVPSLGFGALVSPGKEVS 185 (860)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~vR~T~~~iP~t~~~~~~~~lP~g~vv~P~~~~~ 185 (860)
|.||.+--+.--.-....|.++ ....++.. .+|...+..+|+|.|||.|++.||.+.++++.+.||||++++||+...
T Consensus 609 p~p~~~~~~~~~~~~~~~~~t~-k~~~pp~~~~~~~~~dtgn~dP~~~r~tmY~iP~~~~~~~~~~iP~gi~v~Pfa~~~ 687 (1560)
T PTZ00395 609 PRPIINTQEKKKKKNLKVFETC-KYISPPSYYQPYISIDTGKADPRFLKSTLYQIPLFSETLKLSQIPFGIIVNPFACLN 687 (1560)
T ss_pred CCcccccccccccccchhhhhc-cCCCCCCCCCceEEeecCCCChhhhhhhhhcCcchHHHHHhcCCCceeecchhhhcC
Confidence 8888777664444444556666 54444444 889999999999999999999999999999999999999999999865
Q ss_pred CC--Cccc-----------CCCCcccCCCccccccceEEEcCCCEEEEccCCCcCCCCcc-----ccCC-----CccccC
Q 002989 186 PS--LQII-----------QRDPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGE-----YVAP-----SKEELR 242 (860)
Q Consensus 186 ~~--~p~v-----------~~~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp~~-----Y~~~-----~~~d~~ 242 (860)
+. ++.+ +++|+||.+|++|+|+++.++.. +.++|+||+..+.+.+. |+-. ...|.+
T Consensus 688 ~~e~~~~~~~~~~~~d~~~~~~~~rc~~c~~y~~~~~~~~~~-~~~~c~~c~~~~~i~e~~~~~~~~~~~~~~~~~~~~~ 766 (1560)
T PTZ00395 688 EGEGIDKIDMKDIINDKEENIEILRCPKCLGYLHATILEDIS-SSVQCVFCDTDFLINENVLFDIFQYNEKIGHKESDHN 766 (1560)
T ss_pred CCCCCcccchhhcccchhhccceeecchhHhhhcchheeccc-ceEEEEecCCcchhhHHHHHHHHHHhhhhcccccccc
Confidence 43 3332 25899999999999999999975 99999999999988543 1111 122222
Q ss_pred CC----CCcCCCceeEEecCCC-C--CC----------------------------------------------------
Q 002989 243 NF----PELSSPMVDYVQTGNN-R--SS---------------------------------------------------- 263 (860)
Q Consensus 243 ~~----PEL~~~tvEy~~p~~y-r--~~---------------------------------------------------- 263 (860)
++ --|.+++||+++|.-| . +.
T Consensus 767 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 846 (1560)
T PTZ00395 767 EHGNSLSPLLKGSVDIIIPPIYYHNVNKFKLTYTYLNKNINQTAFMITNKIMSFTKHISNSLVANDSKGGNKATSASAFG 846 (1560)
T ss_pred ccccccchhhcCceeEEccchhhccCCccceeeehhhcchhhhhhhhhhhhhhhhhhhcchheecccccccccchhhhcc
Confidence 21 1356799999887643 0 00
Q ss_pred --------------------------------------------CCCC----------------------C---------
Q 002989 264 --------------------------------------------YVPV----------------------S--------- 268 (860)
Q Consensus 264 --------------------------------------------~~~~----------------------~--------- 268 (860)
..+- .
T Consensus 847 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 926 (1560)
T PTZ00395 847 DSGDANFLAGGGYTNYGGAGGYNTYDNQSGYNNHDVVNNRGGSGAGNHLYGKDHDVQNFDNVMDNANFTIHDMKNLICEK 926 (1560)
T ss_pred cccccccccccccccccccccccccccccccccccccccccccCcCcccccCcccccchhhhccCCceeeecchhhhhcc
Confidence 0000 0
Q ss_pred ---------------------CCCCCCcEEEEEECCCC---hhHHHHHHHHHHHhhhcCC-CCcEEEEEEECCeEEEEec
Q 002989 269 ---------------------DSRMSAPIILVIDECLD---EPHLQHLQSSLHAFVESIP-PTARIGIILYGRTVSVYDF 323 (860)
Q Consensus 269 ---------------------~~~~~p~~vFvID~S~~---~~~l~~l~~sL~~~L~~Lp-~~~~VGlITFd~~V~vy~l 323 (860)
..+++|.|+||||||.. +|.+++++++|+++|+.|+ +++||||||||+.||||+|
T Consensus 927 ~~~~~~~~~~~~~~~~~~~~~~~p~PP~YvFLIDVS~~AVkSGLl~tacesIK~sLDsL~dpRTRVGIITFDSsLHFYNL 1006 (1560)
T PTZ00395 927 NGEPDSAKIRRNSFLAKYPQVKNMLPPYFVFVVECSYNAIYNNITYTILEGIRYAVQNVKCPQTKIAIITFNSSIYFYHC 1006 (1560)
T ss_pred cCCchhhhhhccchhhccccccCCCCCEEEEEEECCHHHHhhChHHHHHHHHHHHHhcCCCCCcEEEEEEecCcEEEEec
Confidence 01356889999999984 7899999999999999997 7899999999999999999
Q ss_pred CCC--------------Cceeeeccc---CCCCCCHHHHHHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCC
Q 002989 324 SED--------------SIASSDVLA---GDKLPTEDSLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRD 386 (860)
Q Consensus 324 ~~~--------------~~~~~~V~~---g~~~p~~~~l~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~ 386 (860)
+.. ...++.|++ +.|.|.+. ..+|+++.|+++.|+.+|+.|+.++... ...+
T Consensus 1007 ks~l~~~~~~~~~~~~l~qPQMLVVSDLDDPFLPlP~---------ddLLVnL~ESRevIe~LLDkLPemFt~t--~~~e 1075 (1560)
T PTZ00395 1007 KGGKGVSGEEGDGGGGSGNHQVIVMSDVDDPFLPLPL---------EDLFFGCVEEIDKINTLIDTIKSVSTTM--QSYG 1075 (1560)
T ss_pred CcccccccccccccccCCCceEEeecCCccCcCCCCc---------cCeeechHHHHHHHHHHHHHHHHHhhcc--CCCc
Confidence 753 123344444 34444431 2247889999999999999999976543 2346
Q ss_pred CchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhC
Q 002989 387 RCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQH 466 (860)
Q Consensus 387 r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~ 466 (860)
.|+|+||++|..+|+. .|+||||++|++++|++|||+|+.++.....+..+.++.+||++||.+|+++
T Consensus 1076 sCLGSALqAA~~aLk~------------~GGGGKIiVF~SSLPniGpGaLK~Re~~~KEk~Ll~pqd~FYK~LA~ECsk~ 1143 (1560)
T PTZ00395 1076 SCGNSALKIAMDMLKE------------RNGLGSICMFYTTTPNCGIGAIKELKKDLQENFLEVKQKIFYDSLLLDLYAF 1143 (1560)
T ss_pred ccHHHHHHHHHHHHHh------------cCCCceEEEEEcCCCCCCCCcccccccccccccccccchHHHHHHHHHHHhc
Confidence 9999999999999997 2457999999999999999999876432222223457899999999999999
Q ss_pred CcEEEEEeecCCCCC--cccchhhhcccccEEEEeCCch-----hHHHHHHHHHHhc-ccccceEEEEEecCCeeEEEee
Q 002989 467 NAVIDILCAGNCPVR--VPVLQPLAKASGGVLVLHDDFG-----EAFGVNLQRASTR-AAGSHGFLEIRCSDDILVTQIV 538 (860)
Q Consensus 467 gisVDiF~~~~~~v~--la~l~~L~~~TGG~v~~y~~f~-----~~f~~dL~r~l~r-~~g~~a~lrVR~S~gi~v~~~~ 538 (860)
+|+||+|+++..++| +++|+.|++.|||.+++|+.|+ .+|..+|.|.|++ ++||+|+||||||+||+|+.+|
T Consensus 1144 qISVDLFLfSsqYvDVDVATLg~Lsr~TGGqlyyYPnFna~rD~~KL~~DL~r~LTre~iGyEAVMRVRCS~GLrVs~fy 1223 (1560)
T PTZ00395 1144 NISVDIFIISSNNVRVCVPSLQYVAQNTGGKILFVENFLWQKDYKEIYMNIMDTLTSEDIAYCCELKLRYSHHMSVKKLF 1223 (1560)
T ss_pred CCceEEEEccCcccccccccccchhcccceeEEEeCCCcccccHHHHHHHHHHHhhccceeeEEEEEEECCCCeEEEEEe
Confidence 999999999988876 7999999999999999999995 3689999999997 6999999999999999999999
Q ss_pred CCCcccccccccccc-cCcccceeccCCCCceEEEEEEEeccCCC-CCceEEEEEEEEEecCCcEEEEEEEeeecccCch
Q 002989 539 GPGEEAHIDTHETFK-NDAALSIQMPSVEETQSFAVSMENKRDIE-SNHVFFQFAIRYSNVYQADISRVVTVRLPTVDSV 616 (860)
Q Consensus 539 G~~~s~~~~~~~~~~-~~~~~~i~l~~v~~~~S~~~~~~~~~~~~-~~~~~iQ~al~YT~~~G~RriRV~T~~l~vt~~~ 616 (860)
|++. .|. ..+.+++.++.+++|+||+|+|++++.+. ...+|||+|++||+.+|+|||||||+++||++++
T Consensus 1224 G~Gn--------nF~s~rStDLLaLP~Id~DqSfaVeLk~DEkL~~~~~AYFQaALLYTSssGERRIRVHTLALPVTSsL 1295 (1560)
T PTZ00395 1224 CCNN--------NFNSIISVDTIKIPKIRHDQTFAFLLNYSDISESKKQIYFQCACIYTNLWGDRFVRLHTTHMNLTSSL 1295 (1560)
T ss_pred ccCC--------ccccccccccccccccCCCceEEEEEEeccccCCCCcEEEEEEEeeccCCCcEEEEEEeeeecccCCH
Confidence 6311 231 23456789999999999999999999886 5789999999999999999999999999999999
Q ss_pred HHHHhhcCHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHhcccCCC---CCccccchhhhHHHHHHHHHccC
Q 002989 617 SAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIALKFGSQVPK---SKLYRFPKELSALSELLFHLRRS 693 (860)
Q Consensus 617 ~~v~~s~D~ea~~~llaK~av~~~~~~~~~~d~r~~Ld~~li~il~~y~~~~~~---~~~l~Lp~~l~~lP~~~~~L~RS 693 (860)
.+||+++|++|++.+|+|+++.++++. .++|+.|.+.|++++..||+.|.. .+||+||++||+||+||++|+||
T Consensus 1296 seVFrsADqdAIvslLAK~AV~~aLss---sdARe~L~dklVdILtaYRK~CAsssssgQLILPESLKLLPLYILSLLKS 1372 (1560)
T PTZ00395 1296 STVFRYTDAEALMNILIKQLCTNILHN---DNYSKIIIDNLAAILFSYRINCASSAHSGQLILPDTLKLLPLFTSSLLKH 1372 (1560)
T ss_pred HHHHHhhcHHHHHHHHHHHHHHHhccc---HHHHHHHHHHHHHHHHHHHHHhhccCCCccccchhHHHHHHHHHHHHhcc
Confidence 999999999999999999999999873 499999999999999999988753 56799999999999999999999
Q ss_pred cCCCCCCCCchHHHHHHHHHhccCHHHHHHhhcccceeeccCC-----------ccccCCc----cccccCCCcEEEEeC
Q 002989 694 PLLGNIIGHDDERSVLRNLFLNASFDLSLRMVAPRCLMYREGG-----------TFEELPA----YDLAMQSDKAVVLDH 758 (860)
Q Consensus 694 ~~L~~~~~spDer~~~~~~l~~~~v~~~l~~iyP~L~~~~~~~-----------~~~~lP~----~~~sl~~d~iyLLD~ 758 (860)
.+|+. .+++|+|+|.+++++++++..++.+|||+||++|+.. .-..+|. +.+.|.++||||||+
T Consensus 1373 ~AfRt-~I~sDeRVyaL~rL~SmPI~~Li~yLYPRLYpLHdL~~e~e~d~~d~d~~ivLPp~LrLS~ErLesdGIYLLDN 1451 (1560)
T PTZ00395 1373 NVTKK-EILHDLKVYSLIKLLSMPIISSLLYVYPVMYVIHIKGKTNEIDSMDVDDDLFIPKTIPSSAEKIYSNGIYLLDA 1451 (1560)
T ss_pred ccccC-CCCccHHHHHHHHHhCCCHHHHHhhhcCceEEcccccccccCCccCCCCccccCCcccchHHHhcCCcEEEEEC
Confidence 99974 6789999999999999999999999999999999721 0001342 346799999999999
Q ss_pred CcEEEEEeCCcccCCccc--h----------------HHHHHHHHHHHHHHHhccCCCcEEEEEecCCCCcceeeeecCC
Q 002989 759 GTDVFIWLGAELAADEGR--S----------------AAALAACRTLAEELSEFRFPAPRILAFKVLFCSIPLPCIVLSF 820 (860)
Q Consensus 759 g~~i~Iw~G~~v~~~~~~--~----------------~~~l~~~~~~a~~l~~~R~p~Pr~i~~~qg~s~r~lp~~lvp~ 820 (860)
|..||||+|+.+++++.. | .++-++++++++.|++.|-. .+|++.++|++
T Consensus 1452 Ge~IyLWVG~~V~PqLLqDLFGv~~~~~~~~eLPelDT~iS~RVrnII~~LR~~r~~------------~~Y~pL~IVRq 1519 (1560)
T PTZ00395 1452 CTHFYLYFGFHSDANFAKEIVGDIPTEKNAHELNLTDTPNAQKVQRIIKNLSRIHHF------------NKYVPLVMVAP 1519 (1560)
T ss_pred CCEEEEEECCCCCHHHHHHHcCCCccccccccccCCCCHHHHHHHHHHHHHHHhccC------------CCcceEEEEeC
Confidence 999999999999875421 0 13456889999999887620 13445555555
Q ss_pred CCCCCchhhhhhhheee
Q 002989 821 YSTWQPQLQRFYWSVFI 837 (860)
Q Consensus 821 ~~~~~~~~~~~~~~~~~ 837 (860)
+ ++.|..|+. .||
T Consensus 1520 g---Dp~E~~F~s-~LV 1532 (1560)
T PTZ00395 1520 K---SNEEEHLIS-LCV 1532 (1560)
T ss_pred C---CchHHHHHH-hCe
Confidence 5 455555544 443
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=2.1e-46 Score=401.21 Aligned_cols=230 Identities=27% Similarity=0.464 Sum_probs=206.3
Q ss_pred CCCcEEEEEECCCChhHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhhc
Q 002989 272 MSAPIILVIDECLDEPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYG 351 (860)
Q Consensus 272 ~~p~~vFvID~S~~~~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~ 351 (860)
.+|.|+||||+|.++++++.+|++|+++|+.||++++|||||||++||||+|+...+.+++||+|+++++.++++++++.
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 46889999999999999999999999999999999999999999999999999888999999999999999999887531
Q ss_pred -----------------------CCccccchhhhHHHHHHHHhhhccCccccccCCCC-CchHHHHHHHHHHhcCCCccc
Q 002989 352 -----------------------TGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRD-RCLGTAVEVALAIIQGPSAEM 407 (860)
Q Consensus 352 -----------------------~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~-r~~G~AL~~A~~lL~~~~~~~ 407 (860)
.++||+|++||++.|+++|++|+++.|+...++|+ ||+|+||++|..+|+.+.+
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 25899999999999999999999998887666676 9999999999999996532
Q ss_pred ccccccCCCCCcEEEEEeCCCCCCCCCCccCCCCCCC-----------chhhhHhHHHHHHHHHHHHHhCCcEEEEEeec
Q 002989 408 SRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPN-----------YLHMEKMALKWMELLGRKAHQHNAVIDILCAG 476 (860)
Q Consensus 408 ~~~~~k~~~~ggrIivF~sGppt~GpG~l~~~~~~~~-----------~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~ 476 (860)
..||||++|++|+||.|||+|+.|+.++. .+++ +++.+||++||.+|+++||+||+|+++
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 26899999999999999999998753221 1223 789999999999999999999999999
Q ss_pred CCCCCcccchhhhcccccEEEEeCCchh-HHHHHHHH
Q 002989 477 NCPVRVPVLQPLAKASGGVLVLHDDFGE-AFGVNLQR 512 (860)
Q Consensus 477 ~~~v~la~l~~L~~~TGG~v~~y~~f~~-~f~~dL~r 512 (860)
.+|+|++||+.|++.|||.+++|++|++ .|+++|+|
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=3.4e-40 Score=349.88 Aligned_cols=222 Identities=31% Similarity=0.467 Sum_probs=190.3
Q ss_pred CCCcEEEEEECCCC---hhHHHHHHHHHHHhhhcCC--CCcEEEEEEECCeEEEEecCCCCc-eeeecccCCCCCCHHHH
Q 002989 272 MSAPIILVIDECLD---EPHLQHLQSSLHAFVESIP--PTARIGIILYGRTVSVYDFSEDSI-ASSDVLAGDKLPTEDSL 345 (860)
Q Consensus 272 ~~p~~vFvID~S~~---~~~l~~l~~sL~~~L~~Lp--~~~~VGlITFd~~V~vy~l~~~~~-~~~~V~~g~~~p~~~~l 345 (860)
+||.|+||||+|.+ +++++.++++|+++|+.|| ++++|||||||++||||+++.... .++.|++|.+++..
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 57889999999997 8999999999999999999 999999999999999999987653 46677777665421
Q ss_pred HHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEe
Q 002989 346 KALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCA 425 (860)
Q Consensus 346 ~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~ 425 (860)
+ ....||++++|+++.|.++|++|+++++......+.||+|+||++|..+|+.. +.||||++|+
T Consensus 79 ---p-~~~~~l~~~~e~~~~i~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~------------~~gGkI~~f~ 142 (239)
T cd01468 79 ---P-LPDRFLVPLSECKKVIHDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLKGT------------FAGGRIIVFQ 142 (239)
T ss_pred ---C-CcCceeeeHHHHHHHHHHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHhhc------------CCCceEEEEE
Confidence 1 12457899999999999999999998875322345599999999999999972 1389999999
Q ss_pred CCCCCCCCCCccCCCCCCCchh-----hhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeC
Q 002989 426 GGPNTYGPGSVPHSFSHPNYLH-----MEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHD 500 (860)
Q Consensus 426 sGppt~GpG~l~~~~~~~~~~~-----~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~ 500 (860)
+|+||.|||+|+.++.+...++ ..+++.+||++||.+|+++||+||+|+++.+++|+++|+.|++.|||.+++|+
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 9999999999999876554432 33789999999999999999999999999999999999999999999999999
Q ss_pred Cch-----hHHHHHHHH
Q 002989 501 DFG-----EAFGVNLQR 512 (860)
Q Consensus 501 ~f~-----~~f~~dL~r 512 (860)
+|+ ++|.++|+|
T Consensus 223 ~f~~~~~~~~~~~~l~r 239 (239)
T cd01468 223 SFQAPNDGSKFKQDLQR 239 (239)
T ss_pred CCCCcccHHHHHHHhcC
Confidence 993 468888764
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=7.1e-40 Score=347.73 Aligned_cols=221 Identities=19% Similarity=0.286 Sum_probs=184.0
Q ss_pred CCCcEEEEEECCCC---hhHHHHHHHHHHHhhhcCCCC---cEEEEEEECCeEEEEecCCCC-ceeeecccCC---CCCC
Q 002989 272 MSAPIILVIDECLD---EPHLQHLQSSLHAFVESIPPT---ARIGIILYGRTVSVYDFSEDS-IASSDVLAGD---KLPT 341 (860)
Q Consensus 272 ~~p~~vFvID~S~~---~~~l~~l~~sL~~~L~~Lp~~---~~VGlITFd~~V~vy~l~~~~-~~~~~V~~g~---~~p~ 341 (860)
+||.|+||||+|.+ +|++++++++|+++|+.||++ ++|||||||+.||||+++... ..+..+.+|. +.|.
T Consensus 2 ~pp~~~FvIDvs~~a~~~g~~~~~~~si~~~L~~lp~~~~~~~VgiITfd~~v~~y~l~~~~~~~q~~vv~dl~d~f~P~ 81 (244)
T cd01479 2 QPAVYVFLIDVSYNAIKSGLLATACEALLSNLDNLPGDDPRTRVGFITFDSTLHFFNLKSSLEQPQMMVVSDLDDPFLPL 81 (244)
T ss_pred CCCEEEEEEEccHHHHhhChHHHHHHHHHHHHHhcCCCCCCeEEEEEEECCeEEEEECCCCCCCCeEEEeeCcccccCCC
Confidence 56889999999986 468999999999999999966 999999999999999998653 2233333322 2222
Q ss_pred HHHHHHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEE
Q 002989 342 EDSLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRI 421 (860)
Q Consensus 342 ~~~l~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrI 421 (860)
.++||+|++||++.|+++|++|+..+.+. ....+|+|+||++|..+|+. .||||
T Consensus 82 ----------~~~~lv~l~e~~~~i~~lL~~L~~~~~~~--~~~~~c~G~Al~~A~~lL~~--------------~GGkI 135 (244)
T cd01479 82 ----------PDGLLVNLKESRQVIEDLLDQIPEMFQDT--KETESALGPALQAAFLLLKE--------------TGGKI 135 (244)
T ss_pred ----------CcceeecHHHHHHHHHHHHHHHHHHHhcC--CCCcccHHHHHHHHHHHHHh--------------cCCEE
Confidence 24578999999999999999997654332 23359999999999999985 58999
Q ss_pred EEEeCCCCCCCCCCccCCCCCCCchh-----hhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEE
Q 002989 422 IVCAGGPNTYGPGSVPHSFSHPNYLH-----MEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVL 496 (860)
Q Consensus 422 ivF~sGppt~GpG~l~~~~~~~~~~~-----~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v 496 (860)
++|++|+||.|||+|+.+++.+..++ ..+++.+||++||.+|+++||+||+|+++.+++|+++|+.|++.|||.+
T Consensus 136 i~f~s~~pt~GpG~l~~~~~~~~~~~~~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~TGG~v 215 (244)
T cd01479 136 IVFQSSLPTLGAGKLKSREDPKLLSTDKEKQLLQPQTDFYKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRLTGGQV 215 (244)
T ss_pred EEEeCCCCCcCCcccccCccccccCchhhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhhcCceE
Confidence 99999999999999998865432222 2257899999999999999999999999999999999999999999999
Q ss_pred EEeC--Cch-----hHHHHHHHHHHhccc
Q 002989 497 VLHD--DFG-----EAFGVNLQRASTRAA 518 (860)
Q Consensus 497 ~~y~--~f~-----~~f~~dL~r~l~r~~ 518 (860)
++|+ +|+ ++|..||+|.++|+.
T Consensus 216 ~~y~~~~~~~~~d~~kl~~dl~~~ltr~~ 244 (244)
T cd01479 216 YYYPSFNFSAPNDVEKLVNELARYLTRKI 244 (244)
T ss_pred EEECCccCCchhhHHHHHHHHHHHhcccC
Confidence 9999 554 369999999999863
No 11
>PF04811 Sec23_trunk: Sec23/Sec24 trunk domain; InterPro: IPR006896 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain, an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the Sec23/24 alpha/beta trunk domain, which is formed from a single, approximately 250-residue segment plugged into the beta-barrel between strands beta-1 and beta-19. The trunk has an alpha/beta fold with a vWA topology, and it forms the dimer interface, primarily involving strand beta-14 on Sec23 and Sec24; in addition, the trunk domain of Sec23 contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_A 2NUP_A 3EG9_A 3EFO_A 3EGX_A 2NUT_A 1PD0_A 1PD1_A 1M2V_B 1PCX_A ....
Probab=100.00 E-value=2.4e-38 Score=336.67 Aligned_cols=223 Identities=25% Similarity=0.430 Sum_probs=168.5
Q ss_pred CCCcEEEEEECCCC---hhHHHHHHHHHHHhhhcCC--CCcEEEEEEECCeEEEEecCCCC-ceeeecccCCCCCCHHHH
Q 002989 272 MSAPIILVIDECLD---EPHLQHLQSSLHAFVESIP--PTARIGIILYGRTVSVYDFSEDS-IASSDVLAGDKLPTEDSL 345 (860)
Q Consensus 272 ~~p~~vFvID~S~~---~~~l~~l~~sL~~~L~~Lp--~~~~VGlITFd~~V~vy~l~~~~-~~~~~V~~g~~~p~~~~l 345 (860)
++|.|+||||+|.+ +++++.++++|+++|+.|| +++||||||||++||||+++.+. ..+..+.. ++
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 57899999999987 8999999999999999999 99999999999999999998753 22333432 23
Q ss_pred HHHhh-cCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEE
Q 002989 346 KALLY-GTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVC 424 (860)
Q Consensus 346 ~~l~~-~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF 424 (860)
++++. ..+.|++++.|+++.|+++|++|++.+.......+.||+|+||++|..+|+.. +.||||++|
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 33221 23668999999999999999999985444322345599999999999999931 158999999
Q ss_pred eCCCCCCCC-CCccCCCCCCCch------hhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEE
Q 002989 425 AGGPNTYGP-GSVPHSFSHPNYL------HMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLV 497 (860)
Q Consensus 425 ~sGppt~Gp-G~l~~~~~~~~~~------~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~ 497 (860)
++|+||.|| |++..+++..... .+.+++.+||++||++|+++||+||+|+++.+++|+++|+.|++.|||.++
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 6777665432222 122567889999999999999999999999999999999999999999999
Q ss_pred EeCCch-h----HHHHHHHHHH
Q 002989 498 LHDDFG-E----AFGVNLQRAS 514 (860)
Q Consensus 498 ~y~~f~-~----~f~~dL~r~l 514 (860)
+|++|+ + +|++||+|++
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 999998 2 5888888875
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=99.79 E-value=2.8e-19 Score=163.03 Aligned_cols=95 Identities=25% Similarity=0.479 Sum_probs=79.6
Q ss_pred ccceEEEEEecCCeeEEEeeCCCcccccccccccccCcccceeccCCCCceEEEEEEEeccCCC-CCceEEEEEEEEEec
Q 002989 519 GSHGFLEIRCSDDILVTQIVGPGEEAHIDTHETFKNDAALSIQMPSVEETQSFAVSMENKRDIE-SNHVFFQFAIRYSNV 597 (860)
Q Consensus 519 g~~a~lrVR~S~gi~v~~~~G~~~s~~~~~~~~~~~~~~~~i~l~~v~~~~S~~~~~~~~~~~~-~~~~~iQ~al~YT~~ 597 (860)
||+|+||||||+|++|++++||+......+...++..+...|.+++++++++|+|+|++++++. .+.+||||+++||+.
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 7999999999999999999999887753333334444445688999999999999999998876 689999999999999
Q ss_pred CCcEEEEEEEeeeccc
Q 002989 598 YQADISRVVTVRLPTV 613 (860)
Q Consensus 598 ~G~RriRV~T~~l~vt 613 (860)
+|+||+||+|+++|++
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=99.77 E-value=1.3e-18 Score=160.77 Aligned_cols=100 Identities=28% Similarity=0.370 Sum_probs=92.0
Q ss_pred HHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHhcccCCC---CCccccchhhhHHHHHHHHHccCcCCCCCCC
Q 002989 625 DEVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIALKFGSQVPK---SKLYRFPKELSALSELLFHLRRSPLLGNIIG 701 (860)
Q Consensus 625 ~ea~~~llaK~av~~~~~~~~~~d~r~~Ld~~li~il~~y~~~~~~---~~~l~Lp~~l~~lP~~~~~L~RS~~L~~~~~ 701 (860)
|||++++++|+++.++.+ +++.|+|++|+++|++++++||++|.. +++|+||++||+||+|+++|+||++|++.++
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 799999999999999998 589999999999999999999999864 4679999999999999999999999999899
Q ss_pred CchHHHHHHHHHhccCHHHHHHhh
Q 002989 702 HDDERSVLRNLFLNASFDLSLRMV 725 (860)
Q Consensus 702 spDer~~~~~~l~~~~v~~~l~~i 725 (860)
++|||+|.++++++++++.++.||
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=99.56 E-value=1.3e-15 Score=115.52 Aligned_cols=40 Identities=33% Similarity=0.796 Sum_probs=29.1
Q ss_pred CCcccCCCccccccceEEEcCCCEEEEccCCCcCCCCccc
Q 002989 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGEY 233 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp~~Y 233 (860)
+|+||++|+||||||++|+.++++|+|+||++.|.+|++|
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 5899999999999999999999999999999999999887
No 15
>PRK13685 hypothetical protein; Provisional
Probab=98.72 E-value=5.8e-07 Score=100.19 Aligned_cols=169 Identities=21% Similarity=0.270 Sum_probs=116.3
Q ss_pred CcEEEEEECCCCh-------hHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHH
Q 002989 274 APIILVIDECLDE-------PHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLK 346 (860)
Q Consensus 274 p~~vFvID~S~~~-------~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~ 346 (860)
..++||||+|.+- ..++..|+.++..++.++++.+||+|+|++..++.
T Consensus 89 ~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l~~~d~vglv~Fa~~a~~~------------------------- 143 (326)
T PRK13685 89 AVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADELTPGINLGLIAFAGTATVL------------------------- 143 (326)
T ss_pred ceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhCCCCCeEEEEEEcCceeec-------------------------
Confidence 3589999999752 47999999999999999889999999999765421
Q ss_pred HHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeC
Q 002989 347 ALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAG 426 (860)
Q Consensus 347 ~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~s 426 (860)
.|+...++.+...|+.|... ..+++|.|+..|...++........ .+ ....++|+++++
T Consensus 144 ----------~p~t~d~~~l~~~l~~l~~~--------~~T~~g~al~~A~~~l~~~~~~~~~--~~-~~~~~~IILlTD 202 (326)
T PRK13685 144 ----------VSPTTNREATKNAIDKLQLA--------DRTATGEAIFTALQAIATVGAVIGG--GD-TPPPARIVLMSD 202 (326)
T ss_pred ----------CCCCCCHHHHHHHHHhCCCC--------CCcchHHHHHHHHHHHHhhhccccc--cc-CCCCCEEEEEcC
Confidence 12223455566677777642 2367899999999887631000000 00 012468999999
Q ss_pred CCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCC-------------CCcccchhhhcccc
Q 002989 427 GPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCP-------------VRVPVLQPLAKASG 493 (860)
Q Consensus 427 Gppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~-------------v~la~l~~L~~~TG 493 (860)
|-.|.|...... ... .+.++.+.+.||.|..+.++.+. .|-..|+.+++.||
T Consensus 203 G~~~~~~~~~~~-----------~~~----~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~~~~d~~~L~~iA~~tg 267 (326)
T PRK13685 203 GKETVPTNPDNP-----------RGA----YTAARTAKDQGVPISTISFGTPYGSVEINGQRQPVPVDDESLKKIAQLSG 267 (326)
T ss_pred CCCCCCCCCCCc-----------ccH----HHHHHHHHHcCCeEEEEEECCCCCCcCcCCceeeecCCHHHHHHHHHhcC
Confidence 988765421100 000 12455677889999999988642 56788999999999
Q ss_pred cEEEEeCCch
Q 002989 494 GVLVLHDDFG 503 (860)
Q Consensus 494 G~v~~y~~f~ 503 (860)
|..+..++-+
T Consensus 268 G~~~~~~~~~ 277 (326)
T PRK13685 268 GEFYTAASLE 277 (326)
T ss_pred CEEEEcCCHH
Confidence 9999887754
No 16
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=98.66 E-value=6.5e-07 Score=91.49 Aligned_cols=162 Identities=18% Similarity=0.264 Sum_probs=107.5
Q ss_pred cEEEEEECCCC-------hhHHHHHHHHHHHhhhcC---CCCcEEEEEEE-CCeEEEEecCCCCceeeecccCCCCCCHH
Q 002989 275 PIILVIDECLD-------EPHLQHLQSSLHAFVESI---PPTARIGIILY-GRTVSVYDFSEDSIASSDVLAGDKLPTED 343 (860)
Q Consensus 275 ~~vFvID~S~~-------~~~l~~l~~sL~~~L~~L---p~~~~VGlITF-d~~V~vy~l~~~~~~~~~V~~g~~~p~~~ 343 (860)
.++|+||+|.+ ...|+..|+.+...++.+ .+..+||||+| ++.-++
T Consensus 5 ~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~----------------------- 61 (183)
T cd01453 5 HLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEK----------------------- 61 (183)
T ss_pred EEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEE-----------------------
Confidence 46999999975 248999999999888754 35689999999 443332
Q ss_pred HHHHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEE
Q 002989 344 SLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIV 423 (860)
Q Consensus 344 ~l~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIiv 423 (860)
+.|+....+.+...|+.+ + . ....+.++.||..|...++... ....++|++
T Consensus 62 ------------~~PlT~D~~~~~~~L~~~--~--~---~~G~t~l~~aL~~A~~~l~~~~----------~~~~~~iii 112 (183)
T cd01453 62 ------------LTDLTGNPRKHIQALKTA--R--E---CSGEPSLQNGLEMALESLKHMP----------SHGSREVLI 112 (183)
T ss_pred ------------EECCCCCHHHHHHHhhcc--c--C---CCCchhHHHHHHHHHHHHhcCC----------ccCceEEEE
Confidence 122322233333334433 1 1 1234899999999999997521 012467888
Q ss_pred EeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCch
Q 002989 424 CAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (860)
Q Consensus 424 F~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~ 503 (860)
++++.-+.+|+. +.++++++.+.||.|++.+++. +...|+.+|+.|||..|...+-
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 877532222210 1457788889999999999974 4678999999999999988764
Q ss_pred hHHHHHHHH
Q 002989 504 EAFGVNLQR 512 (860)
Q Consensus 504 ~~f~~dL~r 512 (860)
+.|.+-+.+
T Consensus 169 ~~l~~~~~~ 177 (183)
T cd01453 169 THLKELLLE 177 (183)
T ss_pred HHHHHHHHh
Confidence 345544444
No 17
>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=98.63 E-value=2e-06 Score=85.92 Aligned_cols=162 Identities=20% Similarity=0.308 Sum_probs=112.0
Q ss_pred cEEEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhhcC
Q 002989 275 PIILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYGT 352 (860)
Q Consensus 275 ~~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~~ 352 (860)
.++||+|+|.+ ...++.+++++...+..++++.+||+|+|++..+..-- ..
T Consensus 2 ~~~~vlD~S~SM~~~~~~~~k~a~~~~~~~l~~~~~v~li~f~~~~~~~~~---------~~------------------ 54 (170)
T cd01465 2 NLVFVIDRSGSMDGPKLPLVKSALKLLVDQLRPDDRLAIVTYDGAAETVLP---------AT------------------ 54 (170)
T ss_pred cEEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEecCCccEEec---------Cc------------------
Confidence 36899999975 34588999999999999998999999999976543210 00
Q ss_pred CccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCCC
Q 002989 353 GVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYG 432 (860)
Q Consensus 353 ~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~G 432 (860)
+ ......+...|+.+.. ...+-++.||..|...++.... .+.-.+|++|++|.++.|
T Consensus 55 -----~-~~~~~~l~~~l~~~~~--------~g~T~~~~al~~a~~~~~~~~~---------~~~~~~ivl~TDG~~~~~ 111 (170)
T cd01465 55 -----P-VRDKAAILAAIDRLTA--------GGSTAGGAGIQLGYQEAQKHFV---------PGGVNRILLATDGDFNVG 111 (170)
T ss_pred -----c-cchHHHHHHHHHcCCC--------CCCCCHHHHHHHHHHHHHhhcC---------CCCeeEEEEEeCCCCCCC
Confidence 0 0011233344444432 2347789999999998864210 011267999999998876
Q ss_pred CCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCchh
Q 002989 433 PGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE 504 (860)
Q Consensus 433 pG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~~ 504 (860)
+.. .+-+.+...++.+.++.|+.+.++ ...+...|+.+++.++|..++.++..+
T Consensus 112 ~~~-----------------~~~~~~~~~~~~~~~v~i~~i~~g-~~~~~~~l~~ia~~~~g~~~~~~~~~~ 165 (170)
T cd01465 112 ETD-----------------PDELARLVAQKRESGITLSTLGFG-DNYNEDLMEAIADAGNGNTAYIDNLAE 165 (170)
T ss_pred CCC-----------------HHHHHHHHHHhhcCCeEEEEEEeC-CCcCHHHHHHHHhcCCceEEEeCCHHH
Confidence 421 011234455567789999999998 667889999999999999998877653
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=98.60 E-value=9.8e-07 Score=87.57 Aligned_cols=149 Identities=17% Similarity=0.254 Sum_probs=103.8
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhhcCC
Q 002989 276 IILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYGTG 353 (860)
Q Consensus 276 ~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~~~ 353 (860)
++||||+|.+ ...++.+++++...++.|+++.+||||+|++..+.+. .
T Consensus 3 v~~vlD~S~SM~~~rl~~ak~a~~~l~~~l~~~~~~~li~F~~~~~~~~--~---------------------------- 52 (155)
T cd01466 3 LVAVLDVSGSMAGDKLQLVKHALRFVISSLGDADRLSIVTFSTSAKRLS--P---------------------------- 52 (155)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcceEEEEEecCCccccC--C----------------------------
Confidence 6899999976 3468899999999999999999999999998754321 0
Q ss_pred ccccch-hhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCCC
Q 002989 354 VYLSPM-HASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYG 432 (860)
Q Consensus 354 ~fL~pl-~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~G 432 (860)
+.++ ...+..+.++++.+.+ ...++++.||..|..++..... .+....|+++++|.++.|
T Consensus 53 --~~~~~~~~~~~~~~~i~~~~~--------~g~T~~~~al~~a~~~~~~~~~---------~~~~~~iillTDG~~~~~ 113 (155)
T cd01466 53 --LRRMTAKGKRSAKRVVDGLQA--------GGGTNVVGGLKKALKVLGDRRQ---------KNPVASIMLLSDGQDNHG 113 (155)
T ss_pred --CcccCHHHHHHHHHHHHhccC--------CCCccHHHHHHHHHHHHhhccc---------CCCceEEEEEcCCCCCcc
Confidence 0000 0123344555555432 2348999999999999864210 123468999999987765
Q ss_pred CCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEe
Q 002989 433 PGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLH 499 (860)
Q Consensus 433 pG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y 499 (860)
.. ..++.+.++.|..+.++. ..+..+|+.++..|||..++.
T Consensus 114 ~~-------------------------~~~~~~~~v~v~~igig~-~~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 114 AV-------------------------VLRADNAPIPIHTFGLGA-SHDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred hh-------------------------hhcccCCCceEEEEecCC-CCCHHHHHHHHhccCceEEEe
Confidence 10 011234688888888874 357789999999999998874
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=98.54 E-value=4.5e-06 Score=84.71 Aligned_cols=163 Identities=20% Similarity=0.295 Sum_probs=108.5
Q ss_pred cEEEEEECCCC--hh-HHHHHHHHHHHhhh-cCCCCcEEEEEEECCe-EEEEecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 275 PIILVIDECLD--EP-HLQHLQSSLHAFVE-SIPPTARIGIILYGRT-VSVYDFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 275 ~~vFvID~S~~--~~-~l~~l~~sL~~~L~-~Lp~~~~VGlITFd~~-V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
+++||||+|.+ .+ .++.+++.+...+. .+.++.+||||+|++. .++. +
T Consensus 2 ~v~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~~~~~d~v~lv~F~~~~~~~~------------~--------------- 54 (178)
T cd01451 2 LVIFVVDASGSMAARHRMAAAKGAVLSLLRDAYQRRDKVALIAFRGTEAEVL------------L--------------- 54 (178)
T ss_pred eEEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceEE------------e---------------
Confidence 57899999985 23 78888888888875 4567899999999854 2211 0
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGpp 429 (860)
|.......+...|+.++. ...+.++.||..|...++... +..+....|+++++|.+
T Consensus 55 --------~~t~~~~~~~~~l~~l~~--------~G~T~l~~aL~~a~~~l~~~~--------~~~~~~~~ivliTDG~~ 110 (178)
T cd01451 55 --------PPTRSVELAKRRLARLPT--------GGGTPLAAGLLAAYELAAEQA--------RDPGQRPLIVVITDGRA 110 (178)
T ss_pred --------CCCCCHHHHHHHHHhCCC--------CCCCcHHHHHHHHHHHHHHHh--------cCCCCceEEEEECCCCC
Confidence 000111222334444432 234889999999999982100 00011257888899998
Q ss_pred CCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCchh
Q 002989 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE 504 (860)
Q Consensus 430 t~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~~ 504 (860)
+.|.... ..+ -.++++++.+.||.+..+....+..+-..|..|++.|||..++.++.+.
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 011 1456777888899887777766666778899999999999999998874
No 20
>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=98.52 E-value=1.9e-06 Score=89.51 Aligned_cols=171 Identities=16% Similarity=0.263 Sum_probs=109.3
Q ss_pred CCCcEEEEEECCCCh--------hHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHH
Q 002989 272 MSAPIILVIDECLDE--------PHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTED 343 (860)
Q Consensus 272 ~~p~~vFvID~S~~~--------~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~ 343 (860)
.+..++||||+|.+- ..++.+|+++...++.++++.+|||++|++.++-. . . ...+++ ..+...
T Consensus 19 ~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l~~~~~v~lv~F~~~~~~~---~-~--~~~~~p--~~~~~~ 90 (206)
T cd01456 19 LPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDGTRLGLWTFSGDGDNP---L-D--VRVLVP--KGCLTA 90 (206)
T ss_pred CCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhCCCCceEEEEEecCCCCCC---c-c--cccccc--cccccc
Confidence 446789999999752 37899999999999999999999999999854210 0 0 000000 000000
Q ss_pred HHHHHhhcCCccccch-hhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEE
Q 002989 344 SLKALLYGTGVYLSPM-HASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRII 422 (860)
Q Consensus 344 ~l~~l~~~~~~fL~pl-~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIi 422 (860)
.+ .+. ...+..+.+.|+.|.. ....+.++.||+.|..++.. +....|+
T Consensus 91 ~~-----------~~~~~~~~~~l~~~i~~i~~-------~~G~T~l~~aL~~a~~~l~~-------------~~~~~ii 139 (206)
T cd01456 91 PV-----------NGFPSAQRSALDAALNSLQT-------PTGWTPLAAALAEAAAYVDP-------------GRVNVVV 139 (206)
T ss_pred cc-----------CCCCcccHHHHHHHHHhhcC-------CCCcChHHHHHHHHHHHhCC-------------CCcceEE
Confidence 00 000 0235556666777751 12348899999999999852 1236899
Q ss_pred EEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHH-HHhCCcEEEEEeecCCCCCcccchhhhcccccEE-EEe
Q 002989 423 VCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRK-AHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVL-VLH 499 (860)
Q Consensus 423 vF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~-~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v-~~y 499 (860)
++++|..+.|... . ..+ +++..+ ....+|.|+++.++.+ .|...|..+++.|||.. |.-
T Consensus 140 llTDG~~~~~~~~------------~-~~~----~~~~~~~~~~~~i~i~~igiG~~-~~~~~l~~iA~~tgG~~~~~~ 200 (206)
T cd01456 140 LITDGEDTCGPDP------------C-EVA----RELAKRRTPAPPIKVNVIDFGGD-ADRAELEAIAEATGGTYAYNQ 200 (206)
T ss_pred EEcCCCccCCCCH------------H-HHH----HHHHHhcCCCCCceEEEEEecCc-ccHHHHHHHHHhcCCeEeccc
Confidence 9999987654310 0 111 222211 1235899999999875 57889999999999988 543
No 21
>cd01463 vWA_VGCC_like VWA Voltage gated Calcium channel like: Voltage-gated calcium channels are a complex of five proteins: alpha 1, beta 1, gamma, alpha 2 and delta. The alpha 2 and delta subunits result from proteolytic processing of a single gene product and carries at its N-terminus the VWA and cache domains, The alpha 2 delta gene family has orthologues in D. melanogaster and C. elegans but none have been detected in aither A. thaliana or yeast. The exact biochemical function of the VWA domain is not known but the alpha 2 delta complex has been shown to regulate various functional properties of the channel complex.
Probab=98.49 E-value=5.1e-06 Score=85.18 Aligned_cols=173 Identities=13% Similarity=0.132 Sum_probs=106.6
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhhc
Q 002989 274 APIILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYG 351 (860)
Q Consensus 274 p~~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~ 351 (860)
-.++||||+|.+ ...++.+|+++...++.|+++.+||||+|++.++..--.. .+.
T Consensus 14 ~~vv~llD~SgSM~~~~l~~ak~~~~~ll~~l~~~d~v~lv~F~~~~~~~~~~~---------~~~-------------- 70 (190)
T cd01463 14 KDIVILLDVSGSMTGQRLHLAKQTVSSILDTLSDNDFFNIITFSNEVNPVVPCF---------NDT-------------- 70 (190)
T ss_pred ceEEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCCCEEEEEEeCCCeeEEeeec---------ccc--------------
Confidence 457999999975 4678999999999999999999999999999887542100 000
Q ss_pred CCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCC
Q 002989 352 TGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTY 431 (860)
Q Consensus 352 ~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~ 431 (860)
++....+.+..+...|+.|+. ...+.++.||..|...+.........+ .+.+....|+++++|.++.
T Consensus 71 ---~~~~~~~~~~~~~~~l~~l~~--------~G~T~~~~al~~a~~~l~~~~~~~~~~--~~~~~~~~iillTDG~~~~ 137 (190)
T cd01463 71 ---LVQATTSNKKVLKEALDMLEA--------KGIANYTKALEFAFSLLLKNLQSNHSG--SRSQCNQAIMLITDGVPEN 137 (190)
T ss_pred ---eEecCHHHHHHHHHHHhhCCC--------CCcchHHHHHHHHHHHHHHhhhccccc--ccCCceeEEEEEeCCCCCc
Confidence 011111223334444554443 123789999999999887510000000 0011234688899998653
Q ss_pred CCCCccCCCCCCCchhhhHhHHHHHHHHHH-HHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCc
Q 002989 432 GPGSVPHSFSHPNYLHMEKMALKWMELLGR-KAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDF 502 (860)
Q Consensus 432 GpG~l~~~~~~~~~~~~ek~a~~fY~~La~-~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f 502 (860)
+ .+..+.+.. +....++.|..|.++.+..|...|+.|+..+||..++.++.
T Consensus 138 ~--------------------~~~~~~~~~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~~~~G~~~~i~~~ 189 (190)
T cd01463 138 Y--------------------KEIFDKYNWDKNSEIPVRVFTYLIGREVTDRREIQWMACENKGYYSHIQSL 189 (190)
T ss_pred H--------------------hHHHHHhcccccCCCcEEEEEEecCCccccchHHHHHHhhcCCeEEEcccC
Confidence 1 001111111 11123566666667766668889999999999999988763
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=98.45 E-value=9.6e-06 Score=81.94 Aligned_cols=155 Identities=16% Similarity=0.291 Sum_probs=103.3
Q ss_pred cEEEEEECCCCh--------hHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHH
Q 002989 275 PIILVIDECLDE--------PHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLK 346 (860)
Q Consensus 275 ~~vFvID~S~~~--------~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~ 346 (860)
.++||||+|.+- ..++.++..+...+... ++.+||+|+|++.+++.-
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 479999998752 14677888777777665 478999999987764310
Q ss_pred HHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeC
Q 002989 347 ALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAG 426 (860)
Q Consensus 347 ~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~s 426 (860)
++...+..+..+|+.|.... ....+.++.||..|..++.... +....|+++++
T Consensus 59 -----------~~~~~~~~~~~~l~~l~~~~-----~~g~T~l~~al~~a~~~l~~~~-----------~~~~~iiliTD 111 (180)
T cd01467 59 -----------PLTLDRESLKELLEDIKIGL-----AGQGTAIGDAIGLAIKRLKNSE-----------AKERVIVLLTD 111 (180)
T ss_pred -----------CCCccHHHHHHHHHHhhhcc-----cCCCCcHHHHHHHHHHHHHhcC-----------CCCCEEEEEeC
Confidence 11112233444555555211 1234789999999999986521 12467888899
Q ss_pred CCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCC----------CCCcccchhhhcccccEE
Q 002989 427 GPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNC----------PVRVPVLQPLAKASGGVL 496 (860)
Q Consensus 427 Gppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~----------~v~la~l~~L~~~TGG~v 496 (860)
|.++.|.-. . .+.++.+.+.||.|+.+.++.. ..+...|+.|++.|||.+
T Consensus 112 G~~~~g~~~---------------~-----~~~~~~~~~~gi~i~~i~ig~~~~~~~~~~~~~~~~~~l~~la~~tgG~~ 171 (180)
T cd01467 112 GENNAGEID---------------P-----ATAAELAKNKGVRIYTIGVGKSGSGPKPDGSTILDEDSLVEIADKTGGRI 171 (180)
T ss_pred CCCCCCCCC---------------H-----HHHHHHHHHCCCEEEEEEecCCCCCcCCCCcccCCHHHHHHHHHhcCCEE
Confidence 987654210 0 1223445578999999998862 457788999999999999
Q ss_pred EEeCC
Q 002989 497 VLHDD 501 (860)
Q Consensus 497 ~~y~~ 501 (860)
++..+
T Consensus 172 ~~~~~ 176 (180)
T cd01467 172 FRALD 176 (180)
T ss_pred EEecC
Confidence 98865
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=98.41 E-value=1.2e-05 Score=80.31 Aligned_cols=155 Identities=15% Similarity=0.173 Sum_probs=97.5
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECCeEEEE-ecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 276 IILVIDECLD--EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 276 ~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp---~~~~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
++||||+|.+ ...++.+++.++..+..|. .+.+||||+|++..++. .+..
T Consensus 3 vv~vlD~SgSm~~~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~~~~~~~------------------------ 58 (164)
T cd01472 3 IVFLVDGSESIGLSNFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRTEFYLNT------------------------ 58 (164)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCceeEEEecCC------------------------
Confidence 6899999975 4578888888888887764 57899999999877642 1100
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGpp 429 (860)
...+..+.+.|+.++.. ...+.+|.||..|...+..... ..+.+....|+++++|.+
T Consensus 59 ----------~~~~~~~~~~l~~l~~~-------~g~T~~~~al~~a~~~l~~~~~------~~~~~~~~~iiliTDG~~ 115 (164)
T cd01472 59 ----------YRSKDDVLEAVKNLRYI-------GGGTNTGKALKYVRENLFTEAS------GSREGVPKVLVVITDGKS 115 (164)
T ss_pred ----------CCCHHHHHHHHHhCcCC-------CCCchHHHHHHHHHHHhCCccc------CCCCCCCEEEEEEcCCCC
Confidence 01122334445555532 1247899999999998874210 001122345777787843
Q ss_pred CCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhccccc-EEEEeCCc
Q 002989 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGG-VLVLHDDF 502 (860)
Q Consensus 430 t~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG-~v~~y~~f 502 (860)
+.+. ...+.++.+.||.+-.+.++.. |...|+.++..++| .++.+.+|
T Consensus 116 ~~~~-----------------------~~~~~~l~~~gv~i~~ig~g~~--~~~~L~~ia~~~~~~~~~~~~~~ 164 (164)
T cd01472 116 QDDV-----------------------EEPAVELKQAGIEVFAVGVKNA--DEEELKQIASDPKELYVFNVADF 164 (164)
T ss_pred CchH-----------------------HHHHHHHHHCCCEEEEEECCcC--CHHHHHHHHCCCchheEEeccCC
Confidence 2110 1122334557776665555543 89999999999988 66666554
No 24
>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=98.38 E-value=1.5e-05 Score=82.35 Aligned_cols=175 Identities=12% Similarity=0.144 Sum_probs=103.5
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECCeEEEE-ecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 276 IILVIDECLD--EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 276 ~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp---~~~~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
++||||+|.+ ...++.+++.+...++.|+ .+.+||||+|++.++.. .+.. +.
T Consensus 3 i~~vlD~SgSM~~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~~~~~~~~--------------~~-------- 60 (198)
T cd01470 3 IYIALDASDSIGEEDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPKEIVSIRD--------------FN-------- 60 (198)
T ss_pred EEEEEECCCCccHHHHHHHHHHHHHHHHHccccCCCceEEEEEecCCceEEEeccc--------------CC--------
Confidence 6899999975 5678999999999998886 37899999999876542 2211 00
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGpp 429 (860)
...+..+...|+.+...... ....+.++.||..|...+..... .... - ..+..-.|+++++|.+
T Consensus 61 ----------~~~~~~~~~~l~~~~~~~~~---~~ggT~~~~Al~~~~~~l~~~~~-~~~~-~-~~~~~~~iillTDG~~ 124 (198)
T cd01470 61 ----------SNDADDVIKRLEDFNYDDHG---DKTGTNTAAALKKVYERMALEKV-RNKE-A-FNETRHVIILFTDGKS 124 (198)
T ss_pred ----------CCCHHHHHHHHHhCCccccc---CccchhHHHHHHHHHHHHHHHHh-cCcc-c-hhhcceEEEEEcCCCc
Confidence 00112233344444432111 11247889999988876631000 0000 0 0001124788999998
Q ss_pred CCCCCCccCCCCCCCchhhhHhHHHHHHHHHH------HHHhCCcEEEEEeecCCCCCcccchhhhccccc--EEEEeCC
Q 002989 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGR------KAHQHNAVIDILCAGNCPVRVPVLQPLAKASGG--VLVLHDD 501 (860)
Q Consensus 430 t~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~------~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG--~v~~y~~ 501 (860)
+.|... ..+.+.++++.. .+.+.++.|..+..+. .+|-.+|..++..||| ++|..++
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 875311 112222232211 1234466666666554 4688999999999999 6888888
Q ss_pred ch
Q 002989 502 FG 503 (860)
Q Consensus 502 f~ 503 (860)
|+
T Consensus 190 ~~ 191 (198)
T cd01470 190 YE 191 (198)
T ss_pred HH
Confidence 85
No 25
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=98.37 E-value=5.1e-06 Score=82.26 Aligned_cols=151 Identities=18% Similarity=0.314 Sum_probs=98.1
Q ss_pred EEEEEECCCC--h-----hHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHH
Q 002989 276 IILVIDECLD--E-----PHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKAL 348 (860)
Q Consensus 276 ~vFvID~S~~--~-----~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l 348 (860)
++||||+|.+ . ..++.+++++...++.+| ..+|||++|++..++.
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 1 258899999999999887 5599999998753210
Q ss_pred hhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCC
Q 002989 349 LYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (860)
Q Consensus 349 ~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGp 428 (860)
.++...+..+.+.++.+..... .....+++.|+..|..++.... .....|++|++|.
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 1112233344444555543211 1234889999999999998631 1235677777775
Q ss_pred CCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeC
Q 002989 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHD 500 (860)
Q Consensus 429 pt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~ 500 (860)
++ .. . .+.++.+.+.+|.|.++.++.+...-..|..+++.|||..+...
T Consensus 111 ~~--------------~~----~-----~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~~~~ 159 (172)
T PF13519_consen 111 DN--------------SS----D-----IEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGRYFHVD 159 (172)
T ss_dssp TH--------------CH----H-----HHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEEEEEE-
T ss_pred CC--------------cc----h-----hHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCEEEEec
Confidence 43 00 0 12566778999999999998877655689999999999999984
No 26
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax. ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells.
Probab=98.31 E-value=2.8e-05 Score=79.36 Aligned_cols=160 Identities=14% Similarity=0.151 Sum_probs=88.9
Q ss_pred cEEEEEECCCCh-hHHHHHHHHHHHhhhcC-CCCcEEEEEEECCeEEEE-ecCCCCceeeecccCCCCCCHHHHHHHhhc
Q 002989 275 PIILVIDECLDE-PHLQHLQSSLHAFVESI-PPTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALLYG 351 (860)
Q Consensus 275 ~~vFvID~S~~~-~~l~~l~~sL~~~L~~L-p~~~~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~ 351 (860)
-++||||.|.+- +.....++.++..++.+ .++.|||+|+|++..++. .+..
T Consensus 6 Dvv~llD~SgSm~~~~~~~~~~~~~l~~~~~~~~~rvglv~Fs~~~~~~~~l~~-------------------------- 59 (185)
T cd01474 6 DLYFVLDKSGSVAANWIEIYDFVEQLVDRFNSPGLRFSFITFSTRATKILPLTD-------------------------- 59 (185)
T ss_pred eEEEEEeCcCchhhhHHHHHHHHHHHHHHcCCCCcEEEEEEecCCceEEEeccc--------------------------
Confidence 479999999862 22222334444444433 357999999998765431 1110
Q ss_pred CCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCC
Q 002989 352 TGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTY 431 (860)
Q Consensus 352 ~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~ 431 (860)
....+...++.|..... ...+++|.||..|...+..... +. +. ....|+++++|..+.
T Consensus 60 ----------~~~~~~~~l~~l~~~~~-----~g~T~~~~aL~~a~~~l~~~~~----~~--r~-~~~~villTDG~~~~ 117 (185)
T cd01474 60 ----------DSSAIIKGLEVLKKVTP-----SGQTYIHEGLENANEQIFNRNG----GG--RE-TVSVIIALTDGQLLL 117 (185)
T ss_pred ----------cHHHHHHHHHHHhccCC-----CCCCcHHHHHHHHHHHHHhhcc----CC--CC-CCeEEEEEcCCCcCC
Confidence 00112233334443211 2358999999999987732100 00 00 113478888887642
Q ss_pred CCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEE-EeCCchh
Q 002989 432 GPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLV-LHDDFGE 504 (860)
Q Consensus 432 GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~-~y~~f~~ 504 (860)
..+. .. ...++++.+.|+.|-.+.. ...+..+|..++..++ .+| ..++|+.
T Consensus 118 ~~~~-----------~~--------~~~a~~l~~~gv~i~~vgv--~~~~~~~L~~iA~~~~-~~f~~~~~~~~ 169 (185)
T cd01474 118 NGHK-----------YP--------EHEAKLSRKLGAIVYCVGV--TDFLKSQLINIADSKE-YVFPVTSGFQA 169 (185)
T ss_pred CCCc-----------ch--------HHHHHHHHHcCCEEEEEee--chhhHHHHHHHhCCCC-eeEecCccHHH
Confidence 1110 00 1224456677876555554 5678899999998875 455 5567763
No 27
>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=98.30 E-value=0.00036 Score=84.21 Aligned_cols=282 Identities=13% Similarity=0.113 Sum_probs=155.8
Q ss_pred CCcEEEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhh
Q 002989 273 SAPIILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLY 350 (860)
Q Consensus 273 ~p~~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~ 350 (860)
+.-++||||+|.+ ...++.+|+++..+|+.|+++.+|+||+|++.++.+.- .....+.+.
T Consensus 271 p~~vvfvlD~SgSM~g~~i~~ak~al~~~l~~L~~~d~~~ii~F~~~~~~~~~------------~~~~~~~~~------ 332 (596)
T TIGR03788 271 PRELVFVIDTSGSMAGESIEQAKSALLLALDQLRPGDRFNIIQFDSDVTLLFP------------VPVPATAHN------ 332 (596)
T ss_pred CceEEEEEECCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEECCcceEecc------------ccccCCHHH------
Confidence 3458999999986 34688899999999999999999999999998875411 000111111
Q ss_pred cCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCC
Q 002989 351 GTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNT 430 (860)
Q Consensus 351 ~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt 430 (860)
...+...|+.|.. ...+.+..||..|+....... .+...+|+++++|..+
T Consensus 333 ------------~~~a~~~i~~l~a--------~GgT~l~~aL~~a~~~~~~~~----------~~~~~~iillTDG~~~ 382 (596)
T TIGR03788 333 ------------LARARQFVAGLQA--------DGGTEMAGALSAALRDDGPES----------SGALRQVVFLTDGAVG 382 (596)
T ss_pred ------------HHHHHHHHhhCCC--------CCCccHHHHHHHHHHhhcccC----------CCceeEEEEEeCCCCC
Confidence 1222334455543 134789999999998743210 0122468999998521
Q ss_pred CCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCchhHHHHHH
Q 002989 431 YGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGEAFGVNL 510 (860)
Q Consensus 431 ~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~~~f~~dL 510 (860)
+ +. +..+.+. ....++.+..|.++.+ .+-..|..|++.+||..++..+-+ .+...+
T Consensus 383 -------------~----~~---~~~~~~~--~~~~~~ri~tvGiG~~-~n~~lL~~lA~~g~G~~~~i~~~~-~~~~~~ 438 (596)
T TIGR03788 383 -------------N----ED---ALFQLIR--TKLGDSRLFTVGIGSA-PNSYFMRKAAQFGRGSFTFIGSTD-EVQRKM 438 (596)
T ss_pred -------------C----HH---HHHHHHH--HhcCCceEEEEEeCCC-cCHHHHHHHHHcCCCEEEECCCHH-HHHHHH
Confidence 0 01 1122221 2234577777777754 567889999999999887776543 223333
Q ss_pred HHH---HhcccccceEEEEEecCCeeEEEeeCCCcccccccccccccCcccceeccCCCCceEEEEEEEeccCCCCCceE
Q 002989 511 QRA---STRAAGSHGFLEIRCSDDILVTQIVGPGEEAHIDTHETFKNDAALSIQMPSVEETQSFAVSMENKRDIESNHVF 587 (860)
Q Consensus 511 ~r~---l~r~~g~~a~lrVR~S~gi~v~~~~G~~~s~~~~~~~~~~~~~~~~i~l~~v~~~~S~~~~~~~~~~~~~~~~~ 587 (860)
.+. +......+..+++.. ..+..++- -.++.+-....+.+.-++... ..-
T Consensus 439 ~~~l~~~~~p~l~~v~v~~~~---~~~~~v~P--------------------~~~p~L~~g~~l~v~g~~~~~----~~~ 491 (596)
T TIGR03788 439 SQLFAKLEQPALTDIALTFDN---GNAADVYP--------------------SPIPDLYRGEPLQIAIKLQQA----AGE 491 (596)
T ss_pred HHHHHhhcCeEEEEEEEEEcC---Cccceecc--------------------CCCccccCCCEEEEEEEecCC----CCe
Confidence 333 334444555555432 11122211 123455555556665554321 111
Q ss_pred EEEEEEEEecCCcEEEEEEEeeecccCchHHHHhhcCHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHhccc
Q 002989 588 FQFAIRYSNVYQADISRVVTVRLPTVDSVSAYLSSFQDEVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIALKFGSQ 667 (860)
Q Consensus 588 iQ~al~YT~~~G~RriRV~T~~l~vt~~~~~v~~s~D~ea~~~llaK~av~~~~~~~~~~d~r~~Ld~~li~il~~y~~~ 667 (860)
+ .+.....++. . +..+++... -+-..+..+.||+-+..++.......-.+.+.+.++++-.+|+-.
T Consensus 492 i--~v~g~~~~~~--~---~~~~~~~~~-------~~~~~l~~lwA~~~I~~L~~~~~~~~~~~~~~~~Ii~Lsl~y~lv 557 (596)
T TIGR03788 492 L--QLTGRTGSQP--W---SQQLDLDSA-------APGKGIDKLWARRKIDSLEDSLRYGANEEKVKDQVTALALNHHLV 557 (596)
T ss_pred E--EEEEEcCCce--E---EEEEecCCC-------CCcchHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHhCCC
Confidence 2 2333332232 1 222333221 133446777888877666531100011244777888898888743
No 28
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.27 E-value=5.5e-05 Score=92.72 Aligned_cols=156 Identities=15% Similarity=0.294 Sum_probs=104.3
Q ss_pred CcEEEEEECCCCh---hHHHHHHHHHHHhh-hcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 274 APIILVIDECLDE---PHLQHLQSSLHAFV-ESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 274 p~~vFvID~S~~~---~~l~~l~~sL~~~L-~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
..++||||+|.+. ..++.++++++..| +.++++.+||||+|++..++.. .+..
T Consensus 305 r~VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~l~~~DrVGLVtFsssA~vl~---------pLt~-------------- 361 (863)
T TIGR00868 305 RIVCLVLDKSGSMTVEDRLKRMNQAAKLFLLQTVEKGSWVGMVTFDSAAYIKN---------ELIQ-------------- 361 (863)
T ss_pred ceEEEEEECCccccccCHHHHHHHHHHHHHHHhCCCCCEEEEEEECCceeEee---------cccc--------------
Confidence 4479999999862 36888888888765 4578899999999998876421 0000
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGpp 429 (860)
+.+ ...++.+... |... ....++++.||..|+.+|+.... ...+..|+++++|-.
T Consensus 362 ------Its-~~dr~aL~~~---L~~~------A~GGT~I~~GL~~Alq~L~~~~~---------~~~~~~IILLTDGed 416 (863)
T TIGR00868 362 ------ITS-SAERDALTAN---LPTA------ASGGTSICSGLKAAFQVIKKSYQ---------STDGSEIVLLTDGED 416 (863)
T ss_pred ------CCc-HHHHHHHHHh---hccc------cCCCCcHHHHHHHHHHHHHhccc---------ccCCCEEEEEeCCCC
Confidence 000 0112222222 2211 12459999999999999986321 123578999998864
Q ss_pred CCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCch
Q 002989 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (860)
Q Consensus 430 t~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~ 503 (860)
+.+ ..+..++.+.|+.|..++++.+. -..|..||+.|||..|+..+-.
T Consensus 417 n~~------------------------~~~l~~lk~~gVtI~TIg~G~da--d~~L~~IA~~TGG~~f~asd~~ 464 (863)
T TIGR00868 417 NTI------------------------SSCFEEVKQSGAIIHTIALGPSA--AKELEELSDMTGGLRFYASDQA 464 (863)
T ss_pred CCH------------------------HHHHHHHHHcCCEEEEEEeCCCh--HHHHHHHHHhcCCEEEEeCCHH
Confidence 320 12344556789999999998764 2569999999999999997643
No 29
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=98.25 E-value=2.7e-05 Score=79.64 Aligned_cols=158 Identities=16% Similarity=0.181 Sum_probs=100.7
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcC---------CCCcEEEEEEECCeEEEE-ecCCCCceeeecccCCCCCCHH
Q 002989 276 IILVIDECLD--EPHLQHLQSSLHAFVESI---------PPTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTED 343 (860)
Q Consensus 276 ~vFvID~S~~--~~~l~~l~~sL~~~L~~L---------p~~~~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~p~~~ 343 (860)
++||||.|.+ ...++..++.++..++.| +.+.+||+|+|++..++. .+..
T Consensus 5 vv~vlD~S~Sm~~~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~~~~~l~~------------------ 66 (186)
T cd01480 5 ITFVLDSSESVGLQNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQEVEAGFLR------------------ 66 (186)
T ss_pred EEEEEeCCCccchhhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCceeeEeccc------------------
Confidence 6999999975 456777777777777666 457899999999776431 1100
Q ss_pred HHHHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEE
Q 002989 344 SLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIV 423 (860)
Q Consensus 344 ~l~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIiv 423 (860)
....+..+.+.|+.++.. ...+.+|.||..|...+.... +.+....|++
T Consensus 67 ---------------~~~~~~~l~~~i~~l~~~-------gg~T~~~~AL~~a~~~l~~~~---------~~~~~~~iil 115 (186)
T cd01480 67 ---------------DIRNYTSLKEAVDNLEYI-------GGGTFTDCALKYATEQLLEGS---------HQKENKFLLV 115 (186)
T ss_pred ---------------ccCCHHHHHHHHHhCccC-------CCCccHHHHHHHHHHHHhccC---------CCCCceEEEE
Confidence 011233445556666421 234899999999999986411 0123356778
Q ss_pred EeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCch
Q 002989 424 CAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (860)
Q Consensus 424 F~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~ 503 (860)
+++|..+.+.. .. ..+.++++.+.||.|-.+..+. .+...|..++...+|. |+.++|.
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 88887532110 00 1334556678888866666554 6778899999887776 6666775
Q ss_pred h
Q 002989 504 E 504 (860)
Q Consensus 504 ~ 504 (860)
+
T Consensus 174 ~ 174 (186)
T cd01480 174 E 174 (186)
T ss_pred h
Confidence 4
No 30
>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=98.24 E-value=1.9e-05 Score=80.67 Aligned_cols=145 Identities=15% Similarity=0.254 Sum_probs=95.6
Q ss_pred cEEEEEECCCC-------hhHHHHHHHHHHHhh----hcCCCCcEEEEEEECC-eEEEEecCCCCceeeecccCCCCCCH
Q 002989 275 PIILVIDECLD-------EPHLQHLQSSLHAFV----ESIPPTARIGIILYGR-TVSVYDFSEDSIASSDVLAGDKLPTE 342 (860)
Q Consensus 275 ~~vFvID~S~~-------~~~l~~l~~sL~~~L----~~Lp~~~~VGlITFd~-~V~vy~l~~~~~~~~~V~~g~~~p~~ 342 (860)
..+++||+|.. ...|+..++.+...+ +..| ..+||||+|.+ ...+
T Consensus 5 a~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~~~~f~~~np-~~~vGlv~fag~~a~v---------------------- 61 (187)
T cd01452 5 ATMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNP-ENNVGLMTMAGNSPEV---------------------- 61 (187)
T ss_pred EEEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCC-CccEEEEEecCCceEE----------------------
Confidence 46999999964 247888888887654 5555 56999999975 3321
Q ss_pred HHHHHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEE
Q 002989 343 DSLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRII 422 (860)
Q Consensus 343 ~~l~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIi 422 (860)
+.|+..+...+...|+.+.. .....+|.||+.|...|++... .+...||+
T Consensus 62 -------------~~plT~D~~~~~~~L~~i~~--------~g~~~l~~AL~~A~~~L~~~~~---------~~~~~riv 111 (187)
T cd01452 62 -------------LVTLTNDQGKILSKLHDVQP--------KGKANFITGIQIAQLALKHRQN---------KNQKQRIV 111 (187)
T ss_pred -------------EECCCCCHHHHHHHHHhCCC--------CCcchHHHHHHHHHHHHhcCCC---------cCCcceEE
Confidence 23333344445555665543 1346799999999999986321 12235999
Q ss_pred EEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhccc
Q 002989 423 VCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKAS 492 (860)
Q Consensus 423 vF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~T 492 (860)
+|++++.+.=+ .+ ..++++++.++||.||++.++...-+..-|..+.+..
T Consensus 112 i~v~S~~~~d~-------------------~~-i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~~~~~~~ 161 (187)
T cd01452 112 AFVGSPIEEDE-------------------KD-LVKLAKRLKKNNVSVDIINFGEIDDNTEKLTAFIDAV 161 (187)
T ss_pred EEEecCCcCCH-------------------HH-HHHHHHHHHHcCCeEEEEEeCCCCCCHHHHHHHHHHh
Confidence 99987643211 11 2368889999999999999987655554455444443
No 31
>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=98.23 E-value=6.8e-05 Score=74.78 Aligned_cols=159 Identities=21% Similarity=0.288 Sum_probs=103.0
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhhc
Q 002989 274 APIILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYG 351 (860)
Q Consensus 274 p~~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~ 351 (860)
..++||+|+|.+ ...++.++++|...+..+++..+|++++|++.++.+-.. .+ ....+.
T Consensus 3 ~~v~~vlD~S~SM~~~~~~~~~~al~~~l~~l~~~~~~~l~~Fs~~~~~~~~~-------~~-----~~~~~~------- 63 (171)
T cd01461 3 KEVVFVIDTSGSMSGTKIEQTKEALLTALKDLPPGDYFNIIGFSDTVEEFSPS-------SV-----SATAEN------- 63 (171)
T ss_pred ceEEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEeCCCceeecCc-------ce-----eCCHHH-------
Confidence 458999999976 345889999999999999988899999999876543110 00 000111
Q ss_pred CCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCC
Q 002989 352 TGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTY 431 (860)
Q Consensus 352 ~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~ 431 (860)
...+.+.|+.+.. ...+.++.||..|...+... .+....|++|++|..+.
T Consensus 64 -----------~~~~~~~l~~~~~--------~g~T~l~~al~~a~~~l~~~-----------~~~~~~iillTDG~~~~ 113 (171)
T cd01461 64 -----------VAAAIEYVNRLQA--------LGGTNMNDALEAALELLNSS-----------PGSVPQIILLTDGEVTN 113 (171)
T ss_pred -----------HHHHHHHHHhcCC--------CCCcCHHHHHHHHHHhhccC-----------CCCccEEEEEeCCCCCC
Confidence 1112233333332 12477899999999988641 11345788888886211
Q ss_pred CCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCch
Q 002989 432 GPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (860)
Q Consensus 432 GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~ 503 (860)
..+++ +..+++.+.++.|..+.++. ..+-..|+.+++.|||..++..+-+
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 23344455577777777764 3566789999999999999998764
No 32
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.23 E-value=2.6e-05 Score=77.05 Aligned_cols=151 Identities=27% Similarity=0.404 Sum_probs=98.4
Q ss_pred EEEEEECCCC-hhHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhhcCCc
Q 002989 276 IILVIDECLD-EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYGTGV 354 (860)
Q Consensus 276 ~vFvID~S~~-~~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~~~~ 354 (860)
+|||||+|.+ .+..+.++++|...|+.|+++.++.||+||+.+..+.-.
T Consensus 3 vvilvD~S~Sm~g~~~~~k~al~~~l~~L~~~d~fnii~f~~~~~~~~~~------------------------------ 52 (155)
T PF13768_consen 3 VVILVDTSGSMSGEKELVKDALRAILRSLPPGDRFNIIAFGSSVRPLFPG------------------------------ 52 (155)
T ss_pred EEEEEeCCCCCCCcHHHHHHHHHHHHHhCCCCCEEEEEEeCCEeeEcchh------------------------------
Confidence 6899999986 333399999999999999999999999999977644311
Q ss_pred cccch-hhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCCCC
Q 002989 355 YLSPM-HASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGP 433 (860)
Q Consensus 355 fL~pl-~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~Gp 433 (860)
+++. .+.++.+...|+.++.. ...+.++.||+.|+..+... +..-.|+++++|.++.+.
T Consensus 53 -~~~~~~~~~~~a~~~I~~~~~~-------~G~t~l~~aL~~a~~~~~~~------------~~~~~IilltDG~~~~~~ 112 (155)
T PF13768_consen 53 -LVPATEENRQEALQWIKSLEAN-------SGGTDLLAALRAALALLQRP------------GCVRAIILLTDGQPVSGE 112 (155)
T ss_pred -HHHHhHHHHHHHHHHHHHhccc-------CCCccHHHHHHHHHHhcccC------------CCccEEEEEEeccCCCCH
Confidence 0111 11222233334444331 23488999999999987321 235689999988763211
Q ss_pred CCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEE
Q 002989 434 GSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVL 498 (860)
Q Consensus 434 G~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~ 498 (860)
....+.+ .++ ...+.+..|.++.+ .+-..|+.|++.|||..++
T Consensus 113 -------------------~~i~~~v-~~~-~~~~~i~~~~~g~~-~~~~~L~~LA~~~~G~~~f 155 (155)
T PF13768_consen 113 -------------------EEILDLV-RRA-RGHIRIFTFGIGSD-ADADFLRELARATGGSFHF 155 (155)
T ss_pred -------------------HHHHHHH-Hhc-CCCceEEEEEECCh-hHHHHHHHHHHcCCCEEEC
Confidence 1111222 122 24577777777653 4578899999999998753
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=98.18 E-value=0.00018 Score=79.00 Aligned_cols=164 Identities=17% Similarity=0.224 Sum_probs=99.0
Q ss_pred CCcEEEEEECCCC-hhHHHHHHHHHHHhhhc-CCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhh
Q 002989 273 SAPIILVIDECLD-EPHLQHLQSSLHAFVES-IPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLY 350 (860)
Q Consensus 273 ~p~~vFvID~S~~-~~~l~~l~~sL~~~L~~-Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~ 350 (860)
+..++||||+|.+ .+.++.+++++...++. +.++.+||||+|++.+++.. . +
T Consensus 53 p~~vvlvlD~SgSM~~~~~~a~~a~~~~l~~~l~~~d~v~lv~f~~~~~~~~-~-------------~------------ 106 (296)
T TIGR03436 53 PLTVGLVIDTSGSMRNDLDRARAAAIRFLKTVLRPNDRVFVVTFNTRLRLLQ-D-------------F------------ 106 (296)
T ss_pred CceEEEEEECCCCchHHHHHHHHHHHHHHHhhCCCCCEEEEEEeCCceeEee-c-------------C------------
Confidence 4567999999986 55688888899888876 78899999999998776421 0 0
Q ss_pred cCCccccchhhhHHHHHHHHhhhccCccc-------cccCCCCCchHHHHHHH-HHHhcCCCcccccccccCCCCCcEEE
Q 002989 351 GTGVYLSPMHASKQVAHDIFSSLRPYKLN-------ITEASRDRCLGTAVEVA-LAIIQGPSAEMSRGVVKRPGGNSRII 422 (860)
Q Consensus 351 ~~~~fL~pl~e~~~~i~~lL~~L~~~~~~-------~~~~~r~r~~G~AL~~A-~~lL~~~~~~~~~~~~k~~~~ggrIi 422 (860)
......+...|+.|.....+ .-.....++++.||..| ..++..... ...+-..|+
T Consensus 107 ---------t~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~--------~~p~rk~iI 169 (296)
T TIGR03436 107 ---------TSDPRLLEAALNRLKPPLRTDYNSSGAFVRDGGGTALYDAITLAALEQLANALA--------GIPGRKALI 169 (296)
T ss_pred ---------CCCHHHHHHHHHhccCCCccccccccccccCCCcchhHHHHHHHHHHHHHHhhc--------CCCCCeEEE
Confidence 01122333444444431000 00012347788887544 455543110 000112467
Q ss_pred EEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCC------------CCcccchhhhc
Q 002989 423 VCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCP------------VRVPVLQPLAK 490 (860)
Q Consensus 423 vF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~------------v~la~l~~L~~ 490 (860)
+|++|..+. ...-++++.+.+.+.+|.|..+.++... .+-..|..+|+
T Consensus 170 llTDG~~~~--------------------~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L~~iA~ 229 (296)
T TIGR03436 170 VISDGGDNR--------------------SRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEALERLAE 229 (296)
T ss_pred EEecCCCcc--------------------hHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHHHHHHH
Confidence 777773211 1122456777788889988888765311 23468999999
Q ss_pred ccccEEEEe
Q 002989 491 ASGGVLVLH 499 (860)
Q Consensus 491 ~TGG~v~~y 499 (860)
.|||..++.
T Consensus 230 ~TGG~~~~~ 238 (296)
T TIGR03436 230 ETGGRAFYV 238 (296)
T ss_pred HhCCeEecc
Confidence 999998765
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=98.18 E-value=4.9e-05 Score=80.16 Aligned_cols=161 Identities=16% Similarity=0.196 Sum_probs=98.9
Q ss_pred cEEEEEECCCC--hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 275 PIILVIDECLD--EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 275 ~~vFvID~S~~--~~~l~~l~~sL~~~L~~L---p~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
-++||||.|.+ ...++.+++.++..++.| ++.++||+|+|++.+++.- . +
T Consensus 4 DlvfllD~S~Sm~~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~~~~-~--------l---------------- 58 (224)
T cd01475 4 DLVFLIDSSRSVRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQEF-P--------L---------------- 58 (224)
T ss_pred cEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcccCCCccEEEEEEecCceeEEe-c--------c----------------
Confidence 47999999975 457899999999888876 3578999999998876421 0 0
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCC-CCcEEEEEeCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPG-GNSRIIVCAGGP 428 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~-~ggrIivF~sGp 428 (860)
.. ...++.+...|+.++.. ...+.+|.||..|...+-.... |.-+... ....|+++++|.
T Consensus 59 -------~~-~~~~~~l~~~i~~i~~~-------~~~t~tg~AL~~a~~~~~~~~~----g~r~~~~~~~kvvillTDG~ 119 (224)
T cd01475 59 -------GR-FKSKADLKRAVRRMEYL-------ETGTMTGLAIQYAMNNAFSEAE----GARPGSERVPRVGIVVTDGR 119 (224)
T ss_pred -------cc-cCCHHHHHHHHHhCcCC-------CCCChHHHHHHHHHHHhCChhc----CCCCCCCCCCeEEEEEcCCC
Confidence 00 01122334445555432 1236789999999875321000 0000000 012357888886
Q ss_pred CCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccc-cEEEEeCCchh
Q 002989 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASG-GVLVLHDDFGE 504 (860)
Q Consensus 429 pt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TG-G~v~~y~~f~~ 504 (860)
++. . .++.++++.+.||.|-.+.. ...+..+|..++..++ +.++..++|++
T Consensus 120 s~~------------~-----------~~~~a~~lk~~gv~i~~Vgv--G~~~~~~L~~ias~~~~~~~f~~~~~~~ 171 (224)
T cd01475 120 PQD------------D-----------VSEVAAKARALGIEMFAVGV--GRADEEELREIASEPLADHVFYVEDFST 171 (224)
T ss_pred Ccc------------c-----------HHHHHHHHHHCCcEEEEEeC--CcCCHHHHHHHhCCCcHhcEEEeCCHHH
Confidence 421 0 13456777788866544444 4467889999998765 57788888874
No 35
>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=98.02 E-value=0.00027 Score=71.68 Aligned_cols=160 Identities=14% Similarity=0.213 Sum_probs=100.4
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECCeEEEE-ecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 276 IILVIDECLD--EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 276 ~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp---~~~~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
++||||.|.+ ...++.+++.++..++.+. .++|||+|+|++..++. .+.. +
T Consensus 3 i~fvlD~S~S~~~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~~~~~l~~--------------~--------- 59 (177)
T cd01469 3 IVFVLDGSGSIYPDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFRTEFTLNE--------------Y--------- 59 (177)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCceeEEEecCc--------------c---------
Confidence 6899999986 4578889999988888775 57999999999887542 1210 0
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGpp 429 (860)
.+...+.++++.++.. ...+.+|.||..|...+-.... |. +.+....++++++|..
T Consensus 60 -----------~~~~~~~~~i~~~~~~-------~g~T~~~~AL~~a~~~l~~~~~----g~--R~~~~kv~illTDG~~ 115 (177)
T cd01469 60 -----------RTKEEPLSLVKHISQL-------LGLTNTATAIQYVVTELFSESN----GA--RKDATKVLVVITDGES 115 (177)
T ss_pred -----------CCHHHHHHHHHhCccC-------CCCccHHHHHHHHHHHhcCccc----CC--CCCCCeEEEEEeCCCC
Confidence 0111122334444331 1238899999999987621100 00 0112234777788876
Q ss_pred CCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCC---CCcccchhhhccccc-EEEEeCCch
Q 002989 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCP---VRVPVLQPLAKASGG-VLVLHDDFG 503 (860)
Q Consensus 430 t~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~---v~la~l~~L~~~TGG-~v~~y~~f~ 503 (860)
+.|+- .+..++++.+.|+.|-.+..+.+. .+..+|..++..+++ ++|..++|+
T Consensus 116 ~~~~~---------------------~~~~~~~~k~~gv~v~~Vgvg~~~~~~~~~~~L~~ias~p~~~h~f~~~~~~ 172 (177)
T cd01469 116 HDDPL---------------------LKDVIPQAEREGIIRYAIGVGGHFQRENSREELKTIASKPPEEHFFNVTDFA 172 (177)
T ss_pred CCccc---------------------cHHHHHHHHHCCcEEEEEEecccccccccHHHHHHHhcCCcHHhEEEecCHH
Confidence 54220 023455566788877777776542 346889999988874 777778885
No 36
>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=97.95 E-value=0.00032 Score=70.47 Aligned_cols=157 Identities=16% Similarity=0.213 Sum_probs=93.7
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECCeEEEE-ecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 276 IILVIDECLD--EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 276 ~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp---~~~~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
++|+||.|.+ ...++.+|+.++..++.+. ..+|||+|+|++..+.. +|.. +
T Consensus 3 ivfllD~S~Si~~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~~~~~l~~--------------~--------- 59 (165)
T cd01481 3 IVFLIDGSDNVGSGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPRPEFYLNT--------------H--------- 59 (165)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCeeEEEeccc--------------c---------
Confidence 6899999986 5688999998998888774 68999999998876532 1110 0
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGpp 429 (860)
.++..+.+.++.++.. +...+-+|.||..+...+-.... |.-.+.+..-.++++++|..
T Consensus 60 -----------~~~~~l~~~i~~i~~~------~g~~t~t~~AL~~~~~~~f~~~~----g~R~~~~~~kv~vviTdG~s 118 (165)
T cd01481 60 -----------STKADVLGAVRRLRLR------GGSQLNTGSALDYVVKNLFTKSA----GSRIEEGVPQFLVLITGGKS 118 (165)
T ss_pred -----------CCHHHHHHHHHhcccC------CCCcccHHHHHHHHHHhhcCccc----cCCccCCCCeEEEEEeCCCC
Confidence 0122233444455332 12236799999988765432110 00000000012567777753
Q ss_pred CCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCc
Q 002989 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDF 502 (860)
Q Consensus 430 t~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f 502 (860)
+. . ..+-|+++.+.|| .+|+.+....+..+|..++... -.++..++|
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 1345667777785 5677776667888888887665 366665554
No 37
>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=97.89 E-value=0.00053 Score=68.51 Aligned_cols=154 Identities=19% Similarity=0.256 Sum_probs=92.3
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECCeEEEE-ecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 276 IILVIDECLD--EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 276 ~vFvID~S~~--~~~l~~l~~sL~~~L~~L---p~~~~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
++||+|.|.+ ...++.+++.++..++.+ +++.+||||+|++..++. .+. . +
T Consensus 3 v~~vlD~S~Sm~~~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~~~~~l~-----------~---~--------- 59 (164)
T cd01482 3 IVFLVDGSWSIGRSNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPRTEFDLN-----------A---Y--------- 59 (164)
T ss_pred EEEEEeCCCCcChhhHHHHHHHHHHHHhheeeCCCceEEEEEEECCCeeEEEecC-----------C---C---------
Confidence 6899999975 446788888888777655 478999999999876442 111 0 0
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHh-cCCCcccccccccCCCCCcEEEEEeCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAII-QGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL-~~~~~~~~~~~~k~~~~ggrIivF~sGp 428 (860)
...+.+.+.|++++.. ...+.+|.||..|...+ .... +. +.+....|++|++|.
T Consensus 60 -----------~~~~~l~~~l~~~~~~-------~g~T~~~~aL~~a~~~~~~~~~-----~~--r~~~~k~iillTDG~ 114 (164)
T cd01482 60 -----------TSKEDVLAAIKNLPYK-------GGNTRTGKALTHVREKNFTPDA-----GA--RPGVPKVVILITDGK 114 (164)
T ss_pred -----------CCHHHHHHHHHhCcCC-------CCCChHHHHHHHHHHHhccccc-----CC--CCCCCEEEEEEcCCC
Confidence 0112233334444321 23478999999877644 3200 00 011223588888886
Q ss_pred CCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhccccc-EEEEeCCc
Q 002989 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGG-VLVLHDDF 502 (860)
Q Consensus 429 pt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG-~v~~y~~f 502 (860)
++.. .++.++++.+.||.+-.+ +....+..+|..++..+.+ +++...+|
T Consensus 115 ~~~~-----------------------~~~~a~~lk~~gi~i~~i--g~g~~~~~~L~~ia~~~~~~~~~~~~d~ 164 (164)
T cd01482 115 SQDD-----------------------VELPARVLRNLGVNVFAV--GVKDADESELKMIASKPSETHVFNVADF 164 (164)
T ss_pred CCch-----------------------HHHHHHHHHHCCCEEEEE--ecCcCCHHHHHHHhCCCchheEEEcCCC
Confidence 4310 134567777788755554 4444567888888888654 55555443
No 38
>PF00626 Gelsolin: Gelsolin repeat; InterPro: IPR007123 Gelsolin is a cytoplasmic, calcium-regulated, actin-modulating protein that binds to the barbed ends of actin filaments, preventing monomer exchange (end-blocking or capping) []. It can promote nucleation (the assembly of monomers into filaments), as well as sever existing filaments. In addition, this protein binds with high affinity to fibronectin. Plasma gelsolin and cytoplasmic gelsolin are derived from a single gene by alternate initiation sites and differential splicing. Sequence comparisons indicate an evolutionary relationship between gelsolin, villin, fragmin and severin []. Six large repeating segments occur in gelsolin and villin, and 3 similar segments in severin and fragmin. While the multiple repeats have yet to be related to any known function of the actin-severing proteins, the superfamily appears to have evolved from an ancestral sequence of 120 to 130 amino acid residues [].; PDB: 3FG6_F 1RGI_G 2FGH_A 1D0N_B 3EGD_B 2NUP_B 2NUT_B 3EGX_B 1JHW_A 1J72_A ....
Probab=97.88 E-value=1.6e-05 Score=68.87 Aligned_cols=63 Identities=29% Similarity=0.481 Sum_probs=49.6
Q ss_pred CCccccccCCCcEEEEeCCcEEEEEeCCcccCCccchHHHHHHHHHHHHHHH-hccCCCcEEEEEecCCC
Q 002989 741 LPAYDLAMQSDKAVVLDHGTDVFIWLGAELAADEGRSAAALAACRTLAEELS-EFRFPAPRILAFKVLFC 809 (860)
Q Consensus 741 lP~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~~~~~l~~~~~~a~~l~-~~R~p~Pr~i~~~qg~s 809 (860)
.+.+..+|.++++||||+|..||+|+|+..+. .-.......|+++. .+|.+.++++.+.||..
T Consensus 8 ~~~s~~~L~s~~~yIld~~~~i~vW~G~~~~~------~e~~~a~~~a~~~~~~~~~~~~~~~~~~eg~E 71 (76)
T PF00626_consen 8 VPLSQSSLNSDDCYILDCGYEIFVWVGKKSSP------EEKAFAAQLAQELLSEERPPLPEVIRVEEGKE 71 (76)
T ss_dssp ESSSGGGEETTSEEEEEESSEEEEEEHTTSHH------HHHHHHHHHHHHHHHHHTTTTSEEEEEETTHH
T ss_pred CCCCHHHcCCCCEEEEEeCCCcEEEEeccCCH------HHHHHHHHHHHHhhhhcCCCCCEEEEecCCCC
Confidence 34456789999999999999999999999432 11234456677777 88999999999999875
No 39
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell. In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners.
Probab=97.86 E-value=0.00063 Score=69.30 Aligned_cols=151 Identities=16% Similarity=0.210 Sum_probs=92.6
Q ss_pred EEEEEECCCC--hhH-HHHHHHHHHHhhhcCC---CCcEEEEEEECCeEEE-EecCCCCceeeecccCCCCCCHHHHHHH
Q 002989 276 IILVIDECLD--EPH-LQHLQSSLHAFVESIP---PTARIGIILYGRTVSV-YDFSEDSIASSDVLAGDKLPTEDSLKAL 348 (860)
Q Consensus 276 ~vFvID~S~~--~~~-l~~l~~sL~~~L~~Lp---~~~~VGlITFd~~V~v-y~l~~~~~~~~~V~~g~~~p~~~~l~~l 348 (860)
++||||.|.+ ... ++.+++.+...++.+. ++.+||+|+|++..+. +.+...
T Consensus 3 v~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~~~l~~~---------------------- 60 (186)
T cd01471 3 LYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELIRLSSP---------------------- 60 (186)
T ss_pred EEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEEEECCCc----------------------
Confidence 6899999975 344 8889999988888774 6789999999987663 223210
Q ss_pred hhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCC
Q 002989 349 LYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (860)
Q Consensus 349 ~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGp 428 (860)
....+..+.++++.|..... ....+.++.||..|...+.... + .+.+....|+++++|.
T Consensus 61 ----------~~~~~~~~~~~i~~l~~~~~----~~G~T~l~~aL~~a~~~l~~~~-----~--~r~~~~~~villTDG~ 119 (186)
T cd01471 61 ----------NSTNKDLALNAIRALLSLYY----PNGSTNTTSALLVVEKHLFDTR-----G--NRENAPQLVIIMTDGI 119 (186)
T ss_pred ----------cccchHHHHHHHHHHHhCcC----CCCCccHHHHHHHHHHHhhccC-----C--CcccCceEEEEEccCC
Confidence 00112222333444433211 1234889999999999986420 0 0111234688888887
Q ss_pred CCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcc
Q 002989 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKA 491 (860)
Q Consensus 429 pt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~ 491 (860)
++.+.. . .+.++++.+.|+.|-++.++. ..|..+|+.++..
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 653210 0 123556667788777777664 4667777777654
No 40
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=97.81 E-value=0.0005 Score=67.35 Aligned_cols=149 Identities=18% Similarity=0.241 Sum_probs=97.0
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECCeEEEE-ecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 276 IILVIDECLD--EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 276 ~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp---~~~~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
++||+|+|.+ ...++.+++.+...++.+. ++.++|||+|++..... ++.. + .
T Consensus 3 i~~llD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~~~~~~~----------~---~--------- 60 (161)
T cd01450 3 IVFLLDGSESVGPENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEFSLND----------Y---K--------- 60 (161)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceEEEECCC----------C---C---------
Confidence 5899999975 3478888888888887765 58999999998754321 1110 0 0
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGpp 429 (860)
.+..+.+.++.+.... ...+.++.||..|...+..... .+.+....|++|++|.+
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 1222333344443311 1248899999999999875310 00123457888899987
Q ss_pred CCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhccccc
Q 002989 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGG 494 (860)
Q Consensus 430 t~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG 494 (860)
+.+. -..++.+++.+.++.|..+..+. .+...|..|+..+|+
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 01345556667788888888776 678889999988843
No 41
>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=97.79 E-value=0.00043 Score=71.44 Aligned_cols=153 Identities=18% Similarity=0.288 Sum_probs=89.0
Q ss_pred cEEEEEECCCC--hhHHHHHHHHHHHhhhcC---------CCCcEEEEEEECCeEEEE-ecCCCCceeeecccCCCCCCH
Q 002989 275 PIILVIDECLD--EPHLQHLQSSLHAFVESI---------PPTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTE 342 (860)
Q Consensus 275 ~~vFvID~S~~--~~~l~~l~~sL~~~L~~L---------p~~~~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~p~~ 342 (860)
-+|||||.|.+ .+.++.+|+.+...+..+ |..+|||+|+|++..++. +|.. . .+.
T Consensus 21 DivfvlD~S~Sm~~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~~~~L~d-------~------~~~ 87 (193)
T cd01477 21 DIVFVVDNSKGMTQGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATVVADLND-------L------QSF 87 (193)
T ss_pred eEEEEEeCCCCcchhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEEEEeccc-------c------cCH
Confidence 47999999986 567888988888776543 346899999999887653 2210 0 011
Q ss_pred HHHHHHhhcCCccccchhhhHHHHHHHHhh-hccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcE-
Q 002989 343 DSLKALLYGTGVYLSPMHASKQVAHDIFSS-LRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSR- 420 (860)
Q Consensus 343 ~~l~~l~~~~~~fL~pl~e~~~~i~~lL~~-L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggr- 420 (860)
++ +.+.|+. +.... ....+.+|.||..|..++..... -.| . .-.|
T Consensus 88 ~~---------------------~~~ai~~~~~~~~-----~~ggT~ig~aL~~A~~~l~~~~~-~~R-----~-~v~kv 134 (193)
T cd01477 88 DD---------------------LYSQIQGSLTDVS-----STNASYLDTGLQAAEQMLAAGKR-TSR-----E-NYKKV 134 (193)
T ss_pred HH---------------------HHHHHHHHhhccc-----cCCcchHHHHHHHHHHHHHhhhc-ccc-----C-CCCeE
Confidence 11 1122222 11110 01247899999999999974200 000 1 1245
Q ss_pred EEEEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhccccc
Q 002989 421 IIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGG 494 (860)
Q Consensus 421 IivF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG 494 (860)
+|++++|..+.|-+. ..+.|+++.+.||.|-.+.++.+ .|-..|..|++..++
T Consensus 135 vIllTDg~~~~~~~~--------------------~~~~a~~l~~~GI~i~tVGiG~~-~d~~~~~~L~~ias~ 187 (193)
T cd01477 135 VIVFASDYNDEGSND--------------------PRPIAARLKSTGIAIITVAFTQD-ESSNLLDKLGKIASP 187 (193)
T ss_pred EEEEecCccCCCCCC--------------------HHHHHHHHHHCCCEEEEEEeCCC-CCHHHHHHHHHhcCC
Confidence 666676633211000 13467788899999999888753 343345555555443
No 42
>PF00092 VWA: von Willebrand factor type A domain; InterPro: IPR002035 The von Willebrand factor is a large multimeric glycoprotein found in blood plasma. Mutant forms are involved in the aetiology of bleeding disorders []. In von Willebrand factor, the type A domain (vWF) is the prototype for a protein superfamily. The vWF domain is found in various plasma proteins: complement factors B, C2, CR3 and CR4; the integrins (I-domains); collagen types VI, VII, XII and XIV; and other extracellular proteins [, , ]. Although the majority of VWA-containing proteins are extracellular, the most ancient ones present in all eukaryotes are all intracellular proteins involved in functions such as transcription, DNA repair, ribosomal and membrane transport and the proteasome. A common feature appears to be involvement in multiprotein complexes. Proteins that incorporate vWF domains participate in numerous biological events (e.g. cell adhesion, migration, homing, pattern formation, and signal transduction), involving interaction with a large array of ligands []. A number of human diseases arise from mutations in VWA domains. Secondary structure prediction from 75 aligned vWF sequences has revealed a largely alternating sequence of alpha-helices and beta-strands []. Fold recognition algorithms were used to score sequence compatibility with a library of known structures: the vWF domain fold was predicted to be a doubly-wound, open, twisted beta-sheet flanked by alpha-helices []. 3D structures have been determined for the I-domains of integrins CD11b (with bound magnesium) [] and CD11a (with bound manganese) []. The domain adopts a classic alpha/beta Rossmann fold and contains an unusual metal ion coordination site at its surface. It has been suggested that this site represents a general metal ion-dependent adhesion site (MIDAS) for binding protein ligands []. The residues constituting the MIDAS motif in the CD11b and CD11a I-domains are completely conserved, but the manner in which the metal ion is coordinated differs slightly [].; GO: 0005515 protein binding; PDB: 2XGG_B 3ZQK_B 3GXB_A 3PPV_A 3PPX_A 3PPW_A 3PPY_A 1CQP_B 3TCX_B 2ICA_A ....
Probab=97.73 E-value=0.0011 Score=66.28 Aligned_cols=160 Identities=18% Similarity=0.287 Sum_probs=95.4
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECCeEEEE-ecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 276 IILVIDECLD--EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 276 ~vFvID~S~~--~~~l~~l~~sL~~~L~~L---p~~~~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
++||||.|.. ...++.+++.+...++.+ +.++|||+|+|++..+++ .+...
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 5899999985 456888999998888854 589999999999888632 22110
Q ss_pred hcCCccccchhhhHHHHHHHH-hhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIF-SSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL-~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGp 428 (860)
.....+...+ ..+.. ....+.+|.||..|...+..... +. +.+...-|+++++|.
T Consensus 59 -----------~~~~~~~~~i~~~~~~-------~~g~t~~~~aL~~a~~~l~~~~~----~~--r~~~~~~iiliTDG~ 114 (178)
T PF00092_consen 59 -----------QSKNDLLNAINDSIPS-------SGGGTNLGAALKFAREQLFSSNN----GG--RPNSPKVIILITDGN 114 (178)
T ss_dssp -----------SSHHHHHHHHHTTGGC-------CBSSB-HHHHHHHHHHHTTSGGG----TT--GTTSEEEEEEEESSS
T ss_pred -----------cccccccccccccccc-------cchhhhHHHHHhhhhhccccccc----cc--ccccccceEEEEeec
Confidence 0111111222 22221 23457799999999999865200 00 011223477788887
Q ss_pred CCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcc--cccEEEEeCCchh
Q 002989 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKA--SGGVLVLHDDFGE 504 (860)
Q Consensus 429 pt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~--TGG~v~~y~~f~~ 504 (860)
++.++ ...... .++. +. ..|.+|+.+.+..+..+|..|+.. .+|.+++..++.+
T Consensus 115 ~~~~~----------------~~~~~~-~~~~----~~-~~i~~~~ig~~~~~~~~l~~la~~~~~~~~~~~~~~~~~ 170 (178)
T PF00092_consen 115 SNDSD----------------SPSEEA-ANLK----KS-NGIKVIAIGIDNADNEELRELASCPTSEGHVFYLADFSD 170 (178)
T ss_dssp SSSHS----------------GHHHHH-HHHH----HH-CTEEEEEEEESCCHHHHHHHHSHSSTCHHHEEEESSHHH
T ss_pred ccCCc----------------chHHHH-HHHH----Hh-cCcEEEEEecCcCCHHHHHHHhCCCCCCCcEEEcCCHHH
Confidence 65421 011111 1111 11 446667766667788889999855 4578888888864
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=97.64 E-value=0.0031 Score=62.55 Aligned_cols=157 Identities=21% Similarity=0.278 Sum_probs=102.6
Q ss_pred cEEEEEECCCC--hhHHHHHHHHHHHhhhcCCC---CcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 275 PIILVIDECLD--EPHLQHLQSSLHAFVESIPP---TARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 275 ~~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp~---~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
.++||||+|.+ ...++.+++.+...+..+.. ..+||+|+|++..+.+.- +.
T Consensus 3 ~v~l~vD~S~SM~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~~~~----------~~-------------- 58 (177)
T smart00327 3 DVVFLLDGSGSMGPNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATVLFP----------LN-------------- 58 (177)
T ss_pred cEEEEEeCCCccchHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceEEEc----------cc--------------
Confidence 47999999975 45788899888888888874 899999999985443210 00
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGpp 429 (860)
.......+...++.+... .....-++.||..|...+...... .+.+..-.|++|++|.+
T Consensus 59 ---------~~~~~~~~~~~i~~~~~~------~~~~~~~~~al~~~~~~~~~~~~~------~~~~~~~~iviitDg~~ 117 (177)
T smart00327 59 ---------DSRSKDALLEALASLSYK------LGGGTNLGAALQYALENLFSKSAG------SRRGAPKVLILITDGES 117 (177)
T ss_pred ---------ccCCHHHHHHHHHhcCCC------CCCCchHHHHHHHHHHHhcCcCCC------CCCCCCeEEEEEcCCCC
Confidence 011222334445555431 123367899999999988632100 00111346788888876
Q ss_pred CCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEE
Q 002989 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVL 498 (860)
Q Consensus 430 t~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~ 498 (860)
+.+ +.+++...++.+.+|.+..+.++... +-..|..++..++|...+
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 11245666777888888888887653 678899999999987755
No 44
>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=97.62 E-value=0.0017 Score=78.10 Aligned_cols=174 Identities=14% Similarity=0.155 Sum_probs=113.7
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhc-CCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhh
Q 002989 274 APIILVIDECLD--EPHLQHLQSSLHAFVES-IPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLY 350 (860)
Q Consensus 274 p~~vFvID~S~~--~~~l~~l~~sL~~~L~~-Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~ 350 (860)
-.++||||+|.+ ...++.+|.++...+.. +.++-+||||+|++...-+-+..
T Consensus 408 ~~v~fvvD~SGSM~~~rl~~aK~av~~Ll~~~~~~~D~v~Li~F~~~~a~~~lp~------------------------- 462 (589)
T TIGR02031 408 RLLIFVVDASGSAAVARMSEAKGAVELLLGEAYVHRDQVSLIAFRGTAAEVLLPP------------------------- 462 (589)
T ss_pred ceEEEEEECCCCCChHHHHHHHHHHHHHHHhhccCCCEEEEEEECCCCceEECCC-------------------------
Confidence 457999999986 34689999998888874 45677999999975431111110
Q ss_pred cCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCC
Q 002989 351 GTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNT 430 (860)
Q Consensus 351 ~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt 430 (860)
......+...|+.|+. ...+.++.||..|..+++.... .+.--+|+++++|-+|
T Consensus 463 ---------t~~~~~~~~~L~~l~~--------gGgTpL~~gL~~A~~~~~~~~~---------~~~~~~ivllTDG~~n 516 (589)
T TIGR02031 463 ---------SRSVEQAKRRLDVLPG--------GGGTPLAAGLAAAFQTALQARS---------SGGTPTIVLITDGRGN 516 (589)
T ss_pred ---------CCCHHHHHHHHhcCCC--------CCCCcHHHHHHHHHHHHHHhcc---------cCCceEEEEECCCCCC
Confidence 0111122233445443 2348899999999999874210 1112479999999999
Q ss_pred CCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCch
Q 002989 431 YGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (860)
Q Consensus 431 ~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~ 503 (860)
.|-+..... .+.. . +...+-...++.++.+.||.+-++.++..+.+...+..|++..||..|+.++-+
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 865321100 0000 0 123334456788889999888777777777776678999999999999998765
No 45
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=97.62 E-value=0.0017 Score=77.67 Aligned_cols=167 Identities=14% Similarity=0.164 Sum_probs=108.5
Q ss_pred CcEEEEEECCCCh--hHHHHHHHHHHHhhhc-CCCCcEEEEEEECCe-EEEEecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 274 APIILVIDECLDE--PHLQHLQSSLHAFVES-IPPTARIGIILYGRT-VSVYDFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 274 p~~vFvID~S~~~--~~l~~l~~sL~~~L~~-Lp~~~~VGlITFd~~-V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
-.++||||+|.+. ..+..+|.++...|+. +.++-+||||+|++. ..+ ++
T Consensus 402 ~~vvfvvD~SGSM~~~rl~~aK~a~~~ll~~ay~~rD~v~lI~F~g~~a~~------------~l--------------- 454 (584)
T PRK13406 402 TTTIFVVDASGSAALHRLAEAKGAVELLLAEAYVRRDQVALVAFRGRGAEL------------LL--------------- 454 (584)
T ss_pred ccEEEEEECCCCCcHhHHHHHHHHHHHHHHhhcCCCCEEEEEEECCCceeE------------Ec---------------
Confidence 4579999999863 5789999999888854 567889999999654 321 11
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGpp 429 (860)
|...+...+...|+.|+. ...+.++.||..|..+++... ..+.--+|+++++|-.
T Consensus 455 --------ppT~~~~~~~~~L~~l~~--------gGgTpL~~gL~~A~~~l~~~~---------~~~~~~~iVLlTDG~~ 509 (584)
T PRK13406 455 --------PPTRSLVRAKRSLAGLPG--------GGGTPLAAGLDAAAALALQVR---------RKGMTPTVVLLTDGRA 509 (584)
T ss_pred --------CCCcCHHHHHHHHhcCCC--------CCCChHHHHHHHHHHHHHHhc---------cCCCceEEEEEeCCCC
Confidence 101111222333444432 245889999999999886421 0112357888999999
Q ss_pred CCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCchh
Q 002989 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE 504 (860)
Q Consensus 430 t~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~~ 504 (860)
|.|-+.-..+.. . . ..+ ..++..+.+.||.+-++.++... ...+..|++.+||..|..+.-+.
T Consensus 510 n~~~~~~~~~~~----~-~-~~~----~~~a~~~~~~gi~~~vId~g~~~--~~~~~~LA~~~gg~y~~l~~~~a 572 (584)
T PRK13406 510 NIARDGTAGRAQ----A-E-EDA----LAAARALRAAGLPALVIDTSPRP--QPQARALAEAMGARYLPLPRADA 572 (584)
T ss_pred CCCccccccccc----h-h-hHH----HHHHHHHHhcCCeEEEEecCCCC--cHHHHHHHHhcCCeEEECCCCCH
Confidence 986542111100 0 0 111 34577778888877776666544 34689999999999999998764
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=97.57 E-value=0.003 Score=62.67 Aligned_cols=108 Identities=19% Similarity=0.346 Sum_probs=65.9
Q ss_pred EEEEEECCCC-hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECC--eEEEE-ecCCCCceeeecccCCCCCCHHHHHHH
Q 002989 276 IILVIDECLD-EPHLQHLQSSLHAFVESIP---PTARIGIILYGR--TVSVY-DFSEDSIASSDVLAGDKLPTEDSLKAL 348 (860)
Q Consensus 276 ~vFvID~S~~-~~~l~~l~~sL~~~L~~Lp---~~~~VGlITFd~--~V~vy-~l~~~~~~~~~V~~g~~~p~~~~l~~l 348 (860)
++|++|+|.+ .+.++..++.++..++.|. +..+||+|+|++ ..++. .+..
T Consensus 3 v~~llD~S~Sm~~~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~~~~~~l~~----------------------- 59 (163)
T cd01476 3 LLFVLDSSGSVRGKFEKYKKYIERIVEGLEIGPTATRVALITYSGRGRQRVRFNLPK----------------------- 59 (163)
T ss_pred EEEEEeCCcchhhhHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCceEEEecCCC-----------------------
Confidence 6899999986 3446667777777777664 589999999988 44331 1110
Q ss_pred hhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCC
Q 002989 349 LYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (860)
Q Consensus 349 ~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGp 428 (860)
...++.+...|+.|+.. ...+.+|.||..|..++..... .+.+....|+++++|.
T Consensus 60 -----------~~~~~~l~~~i~~l~~~-------gg~T~l~~aL~~a~~~l~~~~~-------~r~~~~~~villTDG~ 114 (163)
T cd01476 60 -----------HNDGEELLEKVDNLRFI-------GGTTATGAAIEVALQQLDPSEG-------RREGIPKVVVVLTDGR 114 (163)
T ss_pred -----------CCCHHHHHHHHHhCccC-------CCCccHHHHHHHHHHHhccccC-------CCCCCCeEEEEECCCC
Confidence 01122334445555421 1247899999999999962110 0011124688888887
Q ss_pred CCC
Q 002989 429 NTY 431 (860)
Q Consensus 429 pt~ 431 (860)
++.
T Consensus 115 ~~~ 117 (163)
T cd01476 115 SHD 117 (163)
T ss_pred CCC
Confidence 643
No 47
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=97.56 E-value=0.0036 Score=73.47 Aligned_cols=165 Identities=15% Similarity=0.175 Sum_probs=97.2
Q ss_pred CcEEEEEECCCC---hhHHHHHHHHHHHhhhcCC---CCcEEEEEEECCeEEE-EecCCCCceeeecccCCCCCCHHHHH
Q 002989 274 APIILVIDECLD---EPHLQHLQSSLHAFVESIP---PTARIGIILYGRTVSV-YDFSEDSIASSDVLAGDKLPTEDSLK 346 (860)
Q Consensus 274 p~~vFvID~S~~---~~~l~~l~~sL~~~L~~Lp---~~~~VGlITFd~~V~v-y~l~~~~~~~~~V~~g~~~p~~~~l~ 346 (860)
--++||||.|.+ ...++.++..+...+..+. ...+||+|+|++..+. +.+.... ..+
T Consensus 43 lDIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r~vfpL~s~~-----------s~D----- 106 (576)
T PTZ00441 43 VDLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTTELIRLGSGA-----------SKD----- 106 (576)
T ss_pred ceEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCceEEEecCCCc-----------ccc-----
Confidence 457999999975 3345677777777777663 5789999999877643 3332110 001
Q ss_pred HHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeC
Q 002989 347 ALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAG 426 (860)
Q Consensus 347 ~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~s 426 (860)
+..+...|..|..... ....+.+|.||..|...+.... .+.+..+.||+|++
T Consensus 107 ----------------k~~aL~~I~sL~~~~~----pgGgTnig~AL~~Aae~L~sr~--------~R~nvpKVVILLTD 158 (576)
T PTZ00441 107 ----------------KEQALIIVKSLRKTYL----PYGKTNMTDALLEVRKHLNDRV--------NRENAIQLVILMTD 158 (576)
T ss_pred ----------------HHHHHHHHHHHHhhcc----CCCCccHHHHHHHHHHHHhhcc--------cccCCceEEEEEec
Confidence 1122223333332111 1134789999999888876410 00112367888888
Q ss_pred CCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhh----cccccEEEEeCCc
Q 002989 427 GPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLA----KASGGVLVLHDDF 502 (860)
Q Consensus 427 Gppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~----~~TGG~v~~y~~f 502 (860)
|..+.+. . . .+.++++.+.||.|-+|.++. ..+...+..++ ..++|.+|...+|
T Consensus 159 G~sns~~----------------d-v----leaAq~LR~~GVeI~vIGVG~-g~n~e~LrlIAgC~p~~g~c~~Y~vadf 216 (576)
T PTZ00441 159 GIPNSKY----------------R-A----LEESRKLKDRNVKLAVIGIGQ-GINHQFNRLLAGCRPREGKCKFYSDADW 216 (576)
T ss_pred CCCCCcc----------------c-H----HHHHHHHHHCCCEEEEEEeCC-CcCHHHHHHHhccCCCCCCCceEEeCCH
Confidence 8753210 0 0 123556677888777777754 35555566566 3355688888899
Q ss_pred hh
Q 002989 503 GE 504 (860)
Q Consensus 503 ~~ 504 (860)
++
T Consensus 217 ~e 218 (576)
T PTZ00441 217 EE 218 (576)
T ss_pred HH
Confidence 74
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=97.55 E-value=0.0019 Score=78.46 Aligned_cols=162 Identities=15% Similarity=0.230 Sum_probs=104.0
Q ss_pred CcEEEEEECCCCh---hHHHHHHHHHHHhhh-cCCCCcEEEEEEECCe-EEEEecCCCCceeeecccCCCCCCHHHHHHH
Q 002989 274 APIILVIDECLDE---PHLQHLQSSLHAFVE-SIPPTARIGIILYGRT-VSVYDFSEDSIASSDVLAGDKLPTEDSLKAL 348 (860)
Q Consensus 274 p~~vFvID~S~~~---~~l~~l~~sL~~~L~-~Lp~~~~VGlITFd~~-V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l 348 (860)
..++||||+|.+. ..++.+|..+...+. .+..+.+||||+|++. ..+ +
T Consensus 466 ~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~a~~~~D~v~lI~F~g~~a~~------------~--------------- 518 (633)
T TIGR02442 466 NLVIFVVDASGSMAARGRMAAAKGAVLSLLRDAYQKRDKVALITFRGEEAEV------------L--------------- 518 (633)
T ss_pred ceEEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceE------------E---------------
Confidence 4679999999863 367888888777765 4457899999999743 221 0
Q ss_pred hhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCC
Q 002989 349 LYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (860)
Q Consensus 349 ~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGp 428 (860)
.|.......+...|+.|+. ...+.++.||..|..++..... +..+..+.|+++++|-
T Consensus 519 --------~p~t~~~~~~~~~L~~l~~--------gG~Tpl~~aL~~A~~~l~~~~~-------~~~~~~~~vvliTDG~ 575 (633)
T TIGR02442 519 --------LPPTSSVELAARRLEELPT--------GGRTPLAAGLLKAAEVLSNELL-------RDDDGRPLLVVITDGR 575 (633)
T ss_pred --------cCCCCCHHHHHHHHHhCCC--------CCCCCHHHHHHHHHHHHHHhhc-------cCCCCceEEEEECCCC
Confidence 1111122233344555533 2348899999999998873100 0012346799999999
Q ss_pred CCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEe
Q 002989 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLH 499 (860)
Q Consensus 429 pt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y 499 (860)
.|.|.+. .+ .. +.+ ..++.++.+.||.+.++-+....++...+..||+.+||..|..
T Consensus 576 ~n~~~~~--~~-------~~-~~~----~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~gg~y~~l 632 (633)
T TIGR02442 576 ANVADGG--EP-------PT-DDA----RTIAAKLAARGILFVVIDTESGFVRLGLAEDLARALGGEYVRL 632 (633)
T ss_pred CCCCCCC--CC-------hH-HHH----HHHHHHHHhcCCeEEEEeCCCCCcchhHHHHHHHhhCCeEEec
Confidence 9886211 00 00 112 3466677777877777666666777788999999999998864
No 49
>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=97.53 E-value=0.0053 Score=63.33 Aligned_cols=152 Identities=14% Similarity=0.189 Sum_probs=90.0
Q ss_pred EEEEEECCCC--hhHHH-HHHHHHHHhhhcCC---CCcEEEEEEECCeEEEE-ecCCCCceeeecccCCCCCCHHHHHHH
Q 002989 276 IILVIDECLD--EPHLQ-HLQSSLHAFVESIP---PTARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKAL 348 (860)
Q Consensus 276 ~vFvID~S~~--~~~l~-~l~~sL~~~L~~Lp---~~~~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~p~~~~l~~l 348 (860)
++|+||.|.+ ...++ .+++.++..++.+. .++|||+|+|++..+++ .+...
T Consensus 3 i~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~~~~~~~~~---------------------- 60 (192)
T cd01473 3 LTLILDESASIGYSNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNRDVVPFSDE---------------------- 60 (192)
T ss_pred EEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCceeEEecCcc----------------------
Confidence 5899999986 33344 46777777777664 68999999999877542 22210
Q ss_pred hhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCC
Q 002989 349 LYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (860)
Q Consensus 349 ~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGp 428 (860)
....+..+...+++|...... ...+.+|.||+.|...+..... . +.+..--++++|+|.
T Consensus 61 ----------~~~~~~~l~~~i~~l~~~~~~----~g~T~~~~AL~~a~~~~~~~~~--~-----r~~~~kv~IllTDG~ 119 (192)
T cd01473 61 ----------ERYDKNELLKKINDLKNSYRS----GGETYIVEALKYGLKNYTKHGN--R-----RKDAPKVTMLFTDGN 119 (192)
T ss_pred ----------cccCHHHHHHHHHHHHhccCC----CCcCcHHHHHHHHHHHhccCCC--C-----cccCCeEEEEEecCC
Confidence 001122334445565542111 2358899999999888753110 0 000112367778886
Q ss_pred CCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcc
Q 002989 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKA 491 (860)
Q Consensus 429 pt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~ 491 (860)
.+.+- ..--.+.++++.+.||.|-.+..+.. +-.+|..++..
T Consensus 120 s~~~~-------------------~~~~~~~a~~lk~~gV~i~~vGiG~~--~~~el~~ia~~ 161 (192)
T cd01473 120 DTSAS-------------------KKELQDISLLYKEENVKLLVVGVGAA--SENKLKLLAGC 161 (192)
T ss_pred CCCcc-------------------hhhHHHHHHHHHHCCCEEEEEEeccc--cHHHHHHhcCC
Confidence 43210 00013467778889988888877653 46778877754
No 50
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=97.49 E-value=0.00088 Score=67.74 Aligned_cols=149 Identities=17% Similarity=0.265 Sum_probs=86.2
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhcCC------CCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHH
Q 002989 274 APIILVIDECLD--EPHLQHLQSSLHAFVESIP------PTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSL 345 (860)
Q Consensus 274 p~~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp------~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l 345 (860)
-+++||||+|.+ ...++.++++++..++.|. ++.+||+|+|++..++.- . .
T Consensus 4 ~~v~~llD~SgSM~~~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~~~~-~--------l------------ 62 (176)
T cd01464 4 LPIYLLLDTSGSMAGEPIEALNQGLQMLQSELRQDPYALESVEISVITFDSAARVIV-P--------L------------ 62 (176)
T ss_pred CCEEEEEECCCCCCChHHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCceEec-C--------C------------
Confidence 457999999975 4567888888888888774 357999999998765420 0 0
Q ss_pred HHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEe
Q 002989 346 KALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCA 425 (860)
Q Consensus 346 ~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~ 425 (860)
..+.+ ..++.+. ....++++.||..|...+........ +.- +.+.-..|+++|
T Consensus 63 -----------~~~~~------~~~~~l~--------~~GgT~l~~aL~~a~~~l~~~~~~~~-~~~-~~~~~~~iillT 115 (176)
T cd01464 63 -----------TPLES------FQPPRLT--------ASGGTSMGAALELALDCIDRRVQRYR-ADQ-KGDWRPWVFLLT 115 (176)
T ss_pred -----------ccHHh------cCCCccc--------CCCCCcHHHHHHHHHHHHHHHHHHhc-ccC-cCCcCcEEEEEc
Confidence 00000 0001111 12358999999999999864210000 000 000012688999
Q ss_pred CCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcc
Q 002989 426 GGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKA 491 (860)
Q Consensus 426 sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~ 491 (860)
+|.++.++ ..+.+.++ ++.+.++.|..|.++. .++...|+.++..
T Consensus 116 DG~~~~~~----------------~~~~~~~~----~~~~~~~~i~~igiG~-~~~~~~L~~ia~~ 160 (176)
T cd01464 116 DGEPTDDL----------------TAAIERIK----EARDSKGRIVACAVGP-KADLDTLKQITEG 160 (176)
T ss_pred CCCCCchH----------------HHHHHHHH----hhcccCCcEEEEEecc-ccCHHHHHHHHCC
Confidence 99764211 11122222 2334467777777776 4677777777653
No 51
>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=97.47 E-value=0.0037 Score=60.19 Aligned_cols=147 Identities=19% Similarity=0.360 Sum_probs=95.8
Q ss_pred EEEEEECCCC--hhHHHHHHHHHHHhhhcCCC---CcEEEEEEECCeEEEE-ecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 276 IILVIDECLD--EPHLQHLQSSLHAFVESIPP---TARIGIILYGRTVSVY-DFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 276 ~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp~---~~~VGlITFd~~V~vy-~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
++||||+|.+ ...++.+++.+...+..+.. ..+||++.|+...+.+ .+.. .
T Consensus 3 v~~viD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~~~~~~~-------------~---------- 59 (161)
T cd00198 3 IVFLLDVSGSMGGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVVLPLTT-------------D---------- 59 (161)
T ss_pred EEEEEeCCCCcCcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccceeecccc-------------c----------
Confidence 6899999986 56888999999999888875 8999999999743321 1100 0
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGpp 429 (860)
...+.+...++.+.. . ......+..|+..|...+.... +.+....|++|++|..
T Consensus 60 -----------~~~~~~~~~~~~~~~---~---~~~~t~~~~al~~~~~~~~~~~---------~~~~~~~lvvitDg~~ 113 (161)
T cd00198 60 -----------TDKADLLEAIDALKK---G---LGGGTNIGAALRLALELLKSAK---------RPNARRVIILLTDGEP 113 (161)
T ss_pred -----------CCHHHHHHHHHhccc---C---CCCCccHHHHHHHHHHHhcccC---------CCCCceEEEEEeCCCC
Confidence 012233344444433 0 1234778899999999987521 0123567888888876
Q ss_pred CCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhccc
Q 002989 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKAS 492 (860)
Q Consensus 430 t~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~T 492 (860)
+.+. . . .++..+++.+.++.+.++.++. ..+-..++.++..+
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 1234555667799999988886 34466788888887
No 52
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.23 E-value=0.01 Score=62.84 Aligned_cols=168 Identities=15% Similarity=0.216 Sum_probs=112.5
Q ss_pred CCcEEEEEECCCC---hhHHHHHHHHHHHhhh-cCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHH
Q 002989 273 SAPIILVIDECLD---EPHLQHLQSSLHAFVE-SIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKAL 348 (860)
Q Consensus 273 ~p~~vFvID~S~~---~~~l~~l~~sL~~~L~-~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l 348 (860)
...+|||||.|.+ ...++.+|-++...|. ....+-+|++|+|... . +.+
T Consensus 78 g~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq~RdkvavI~F~G~--------~----A~l--------------- 130 (261)
T COG1240 78 GNLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQRRDKVAVIAFRGE--------K----AEL--------------- 130 (261)
T ss_pred CCcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHHccceEEEEEecCC--------c----ceE---------------
Confidence 4679999999986 2358888888887775 4456889999999621 0 111
Q ss_pred hhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCC
Q 002989 349 LYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGP 428 (860)
Q Consensus 349 ~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGp 428 (860)
|+|...+-+.+...|+.|+.- ..+=+..||..|..++..... +..+.--.+++.++|.
T Consensus 131 -------ll~pT~sv~~~~~~L~~l~~G--------G~TPL~~aL~~a~ev~~r~~r-------~~p~~~~~~vviTDGr 188 (261)
T COG1240 131 -------LLPPTSSVELAERALERLPTG--------GKTPLADALRQAYEVLAREKR-------RGPDRRPVMVVITDGR 188 (261)
T ss_pred -------EeCCcccHHHHHHHHHhCCCC--------CCCchHHHHHHHHHHHHHhhc-------cCCCcceEEEEEeCCc
Confidence 222223334455566666652 235688999999999975421 0011335788889999
Q ss_pred CCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCchh
Q 002989 429 NTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE 504 (860)
Q Consensus 429 pt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~~ 504 (860)
+|.+.+.= .+ ..+ ...+.++...|+-+=+.-+...++.+.-.+.||...||.+|+.++.++
T Consensus 189 ~n~~~~~~----------~~-~e~----~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~~~L~~l~~ 249 (261)
T COG1240 189 ANVPIPLG----------PK-AET----LEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEYYHLDDLSD 249 (261)
T ss_pred cCCCCCCc----------hH-HHH----HHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeEEecccccc
Confidence 88766431 00 112 234555666777666666777778888889999999999999998875
No 53
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=97.05 E-value=0.011 Score=59.55 Aligned_cols=48 Identities=17% Similarity=0.413 Sum_probs=39.4
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhcCC------CCcEEEEEEECCeEEEE
Q 002989 274 APIILVIDECLD--EPHLQHLQSSLHAFVESIP------PTARIGIILYGRTVSVY 321 (860)
Q Consensus 274 p~~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp------~~~~VGlITFd~~V~vy 321 (860)
-|++|++|+|.. -+-++++...|+..++.|- +++.++|||||+.+++|
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 468999999985 5678888888888888774 57899999999877765
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=96.84 E-value=0.018 Score=59.16 Aligned_cols=162 Identities=22% Similarity=0.306 Sum_probs=100.5
Q ss_pred EEECCCC-------hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECCeE-EEEecCCCCceeeecccCCCCCCHHHHHH
Q 002989 279 VIDECLD-------EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTV-SVYDFSEDSIASSDVLAGDKLPTEDSLKA 347 (860)
Q Consensus 279 vID~S~~-------~~~l~~l~~sL~~~L~~L---p~~~~VGlITFd~~V-~vy~l~~~~~~~~~V~~g~~~p~~~~l~~ 347 (860)
|||.|.. ...++.+++.+...++.. .|-+.+|||+..+.+ +..
T Consensus 1 viD~S~~m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a~~l-------------------------- 54 (193)
T PF04056_consen 1 VIDMSEAMREKDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRAERL-------------------------- 54 (193)
T ss_pred CeechHhHHhCcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeecceeEEe--------------------------
Confidence 5788753 235677777777666533 367899999875432 111
Q ss_pred HhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCc-EEEEEeC
Q 002989 348 LLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNS-RIIVCAG 426 (860)
Q Consensus 348 l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~gg-rIivF~s 426 (860)
.+++.+-....+.|+++... +....-.+-.||+.|...|++.- ..+. .|+++.+
T Consensus 55 ---------s~lsgn~~~h~~~L~~~~~~-----~~~G~~SLqN~Le~A~~~L~~~p-----------~~~srEIlvi~g 109 (193)
T PF04056_consen 55 ---------SELSGNPQEHIEALKKLRKL-----EPSGEPSLQNGLEMARSSLKHMP-----------SHGSREILVIFG 109 (193)
T ss_pred ---------eecCCCHHHHHHHHHHhccC-----CCCCChhHHHHHHHHHHHHhhCc-----------cccceEEEEEEe
Confidence 11111111222334444332 11344789999999999998641 1223 5777778
Q ss_pred CCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCchhHH
Q 002989 427 GPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGEAF 506 (860)
Q Consensus 427 Gppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~~~f 506 (860)
+.-|.-||.+ .+..+.+.+.+|-|++...+. .+..++.+|+.|||.....-+ .++|
T Consensus 110 Sl~t~Dp~di--------------------~~ti~~l~~~~IrvsvI~laa---Ev~I~k~i~~~T~G~y~V~ld-e~H~ 165 (193)
T PF04056_consen 110 SLTTCDPGDI--------------------HETIESLKKENIRVSVISLAA---EVYICKKICKETGGTYGVILD-EDHF 165 (193)
T ss_pred ecccCCchhH--------------------HHHHHHHHHcCCEEEEEEEhH---HHHHHHHHHHhhCCEEEEecC-HHHH
Confidence 7777766532 246677899999999999886 378899999999995544433 2356
Q ss_pred HHHHHHHHh
Q 002989 507 GVNLQRAST 515 (860)
Q Consensus 507 ~~dL~r~l~ 515 (860)
++-|.....
T Consensus 166 ~~lL~~~~~ 174 (193)
T PF04056_consen 166 KELLMEHVP 174 (193)
T ss_pred HHHHHhhCC
Confidence 666555543
No 55
>cd01454 vWA_norD_type norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial denitrification has been established as NO3- ------ NO2- ------ NO ------- N2O --------- N2. This reaction generally occurs under oxygen limiting conditions. Genetic and biochemical studies have shown that the first srep of the biochemical pathway is catalyzed by periplasmic nitrate reductases. This family is widely present in proteobacteria and firmicutes. This version of the domain is also present in some archaeal members. The function of the vWA domain in this sub-group is not known. Members of this subgroup have a conserved MIDAS motif.
Probab=96.76 E-value=0.044 Score=55.18 Aligned_cols=149 Identities=11% Similarity=0.036 Sum_probs=85.4
Q ss_pred cEEEEEECCCC--h-hHHHHHHHHHHHhhhcCCC-CcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhh
Q 002989 275 PIILVIDECLD--E-PHLQHLQSSLHAFVESIPP-TARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLY 350 (860)
Q Consensus 275 ~~vFvID~S~~--~-~~l~~l~~sL~~~L~~Lp~-~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~ 350 (860)
.++|+||+|.+ . ..++.+++++...++.+.+ +.++|+++|++... ... ...++.. +.+.
T Consensus 2 ~v~~llD~SgSM~~~~kl~~ak~a~~~l~~~l~~~~d~~~l~~F~~~~~---~~~----~~~~~~~-~~~~--------- 64 (174)
T cd01454 2 AVTLLLDLSGSMRSDRRIDVAKKAAVLLAEALEACGVPHAILGFTTDAG---GRE----RVRWIKI-KDFD--------- 64 (174)
T ss_pred EEEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHHcCCcEEEEEecCCCC---Ccc----ceEEEEe-cCcc---------
Confidence 36899999986 2 3788899888887777764 88999999987520 000 0011100 0000
Q ss_pred cCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCC
Q 002989 351 GTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNT 430 (860)
Q Consensus 351 ~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt 430 (860)
... ...+...|..+.. ...+.+|.||..|...+.... .....|+++++|.++
T Consensus 65 ------~~~---~~~~~~~l~~~~~--------~g~T~~~~al~~a~~~l~~~~-----------~~~~~iiliTDG~~~ 116 (174)
T cd01454 65 ------ESL---HERARKRLAALSP--------GGNTRDGAAIRHAAERLLARP-----------EKRKILLVISDGEPN 116 (174)
T ss_pred ------ccc---chhHHHHHHccCC--------CCCCcHHHHHHHHHHHHhcCC-----------CcCcEEEEEeCCCcC
Confidence 000 0112222333322 124789999999999987521 134568888999987
Q ss_pred CCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCC
Q 002989 431 YGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCP 479 (860)
Q Consensus 431 ~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~ 479 (860)
.+...- ...... +.+ .+.++++.+.||.+..+.++.+.
T Consensus 117 ~~~~~~------~~~~~~-~~~----~~~~~~~~~~gi~v~~igig~~~ 154 (174)
T cd01454 117 DLDYYE------GNVFAT-EDA----LRAVIEARKLGIEVFGITIDRDA 154 (174)
T ss_pred cccccC------cchhHH-HHH----HHHHHHHHhCCcEEEEEEecCcc
Confidence 654210 000001 011 12367778889998888777654
No 56
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.056 Score=55.44 Aligned_cols=148 Identities=18% Similarity=0.299 Sum_probs=90.1
Q ss_pred cEEEEEECCCC-------hhHHHHHHHHHHHhhh-cC--CCCcEEEEEEECC-eEEEEecCCCCceeeecccCCCCCCHH
Q 002989 275 PIILVIDECLD-------EPHLQHLQSSLHAFVE-SI--PPTARIGIILYGR-TVSVYDFSEDSIASSDVLAGDKLPTED 343 (860)
Q Consensus 275 ~~vFvID~S~~-------~~~l~~l~~sL~~~L~-~L--p~~~~VGlITFd~-~V~vy~l~~~~~~~~~V~~g~~~p~~~ 343 (860)
..++|||-|.- ...+++=++++..... .+ .+...|||||... .+.+..
T Consensus 5 atmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~~~vLs--------------------- 63 (259)
T KOG2884|consen 5 ATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANASVQVLS--------------------- 63 (259)
T ss_pred eEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCCceeee---------------------
Confidence 46899998852 3467777776654432 22 2456699999754 444321
Q ss_pred HHHHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEE
Q 002989 344 SLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIV 423 (860)
Q Consensus 344 ~l~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIiv 423 (860)
.+......|...+..++. ++..-++.+|+.|...|++-. +.+.--||++
T Consensus 64 --------------T~T~d~gkils~lh~i~~--------~g~~~~~~~i~iA~lalkhRq---------nk~~~~riVv 112 (259)
T KOG2884|consen 64 --------------TLTSDRGKILSKLHGIQP--------HGKANFMTGIQIAQLALKHRQ---------NKNQKQRIVV 112 (259)
T ss_pred --------------eccccchHHHHHhcCCCc--------CCcccHHHHHHHHHHHHHhhc---------CCCcceEEEE
Confidence 011112223333444443 234568999999999998732 1122379999
Q ss_pred EeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhccccc
Q 002989 424 CAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGG 494 (860)
Q Consensus 424 F~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG 494 (860)
|.++|-.. ..+-.-++|+++.+++|.|||+-++-...+-.-+......++|
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 99988421 1122356899999999999999998766553334444443333
No 57
>smart00262 GEL Gelsolin homology domain. Gelsolin/severin/villin homology domain. Calcium-binding and actin-binding. Both intra- and extracellular domains.
Probab=96.63 E-value=0.0093 Score=53.44 Aligned_cols=62 Identities=21% Similarity=0.365 Sum_probs=41.7
Q ss_pred CccccccCCCcEEEEeCCcEEEEEeCCcccCCccchHHHHHHHHHHHHHHHh-ccCCCcEEEEEecCCC
Q 002989 742 PAYDLAMQSDKAVVLDHGTDVFIWLGAELAADEGRSAAALAACRTLAEELSE-FRFPAPRILAFKVLFC 809 (860)
Q Consensus 742 P~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~~~~~l~~~~~~a~~l~~-~R~p~Pr~i~~~qg~s 809 (860)
|....+|.++.+||||+|..||+|+|+.++..+ ..+....++.+.+ .|.+...+..++||..
T Consensus 17 ~~~~~~L~s~d~fild~~~~iyvW~G~~as~~e------k~~A~~~a~~~~~~~~~~~~~i~~v~eg~E 79 (90)
T smart00262 17 PFSQGSLNSGDCYILDTGSEIYVWVGKKSSQDE------KKKAAELAVELDDTLGPGPVQVRVVDEGKE 79 (90)
T ss_pred CCCHHHCCCCCEEEEECCCEEEEEECCCCCHHH------HHHHHHHHHHHHHhcCCCCceEEEEeCCCC
Confidence 444567999999999999999999999986422 2334455555554 3334445555555553
No 58
>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=96.52 E-value=0.1 Score=54.81 Aligned_cols=156 Identities=13% Similarity=0.224 Sum_probs=88.9
Q ss_pred cEEEEEECCCC---------hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCH
Q 002989 275 PIILVIDECLD---------EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTE 342 (860)
Q Consensus 275 ~~vFvID~S~~---------~~~l~~l~~sL~~~L~~L---p~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~ 342 (860)
.++|+||+|.+ ...|+.+++.+...+... -++.+||+|.|++.-+-.. ......+++...-.++.
T Consensus 3 ~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~---~~~~~i~v~~~l~~~~~ 79 (218)
T cd01458 3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNP---VGYENIYVLLDLDTPGA 79 (218)
T ss_pred EEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCc---CCCCceEEeecCCCCCH
Confidence 36999999962 246888888888888752 4688999999987542111 01111222211112222
Q ss_pred HHHHHHhhcCCccccchhhhHHHHHHHHhhhccCc---cccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCc
Q 002989 343 DSLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYK---LNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNS 419 (860)
Q Consensus 343 ~~l~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~---~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~gg 419 (860)
+.++ .+++.+.... ...........++.||.+|..++..... + ...-
T Consensus 80 ~~l~---------------------~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~~--------~-~~~k 129 (218)
T cd01458 80 ERVE---------------------DLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKGKK--------K-KSHK 129 (218)
T ss_pred HHHH---------------------HHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHhccc--------c-cccc
Confidence 2222 2222221110 0001112458899999999999985211 1 1245
Q ss_pred EEEEEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCC
Q 002989 420 RIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNC 478 (860)
Q Consensus 420 rIivF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~ 478 (860)
||++||+|-...|.. .....-...++.++.+.||.+.+|..+..
T Consensus 130 ~IvL~TDg~~p~~~~---------------~~~~~~~~~~a~~l~~~gI~i~~i~i~~~ 173 (218)
T cd01458 130 RIFLFTNNDDPHGGD---------------SIKDSQAAVKAEDLKDKGIELELFPLSSP 173 (218)
T ss_pred EEEEECCCCCCCCCC---------------HHHHHHHHHHHHHHHhCCcEEEEEecCCC
Confidence 899999976544310 01112234678888889999999987654
No 59
>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=96.40 E-value=0.083 Score=51.77 Aligned_cols=131 Identities=14% Similarity=0.115 Sum_probs=76.6
Q ss_pred cEEEEEECCCCh--hHHHHHHHHHHHhhhcCC-CCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhhc
Q 002989 275 PIILVIDECLDE--PHLQHLQSSLHAFVESIP-PTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYG 351 (860)
Q Consensus 275 ~~vFvID~S~~~--~~l~~l~~sL~~~L~~Lp-~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~ 351 (860)
+++|+||+|.+- ..++..+..+...+..+. .+.+|++|+|++....+.+. + ..+
T Consensus 2 ~v~illD~SgSM~~~k~~~a~~~~~~l~~~~~~~~~~v~li~F~~~~~~~~~~-----------~-----~~~------- 58 (152)
T cd01462 2 PVILLVDQSGSMYGAPEEVAKAVALALLRIALAENRDTYLILFDSEFQTKIVD-----------K-----TDD------- 58 (152)
T ss_pred CEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHcCCcEEEEEeCCCceEEecC-----------C-----ccc-------
Confidence 479999999762 235556666666655554 47899999998873322111 0 001
Q ss_pred CCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCC
Q 002989 352 TGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTY 431 (860)
Q Consensus 352 ~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~ 431 (860)
+..+++.|.... ....+.++.||..+..+++... ...+.|+++++|..+.
T Consensus 59 --------------~~~~~~~l~~~~-----~~ggT~l~~al~~a~~~l~~~~-----------~~~~~ivliTDG~~~~ 108 (152)
T cd01462 59 --------------LEEPVEFLSGVQ-----LGGGTDINKALRYALELIERRD-----------PRKADIVLITDGYEGG 108 (152)
T ss_pred --------------HHHHHHHHhcCC-----CCCCcCHHHHHHHHHHHHHhcC-----------CCCceEEEECCCCCCC
Confidence 112223333221 1234889999999999987521 1246899999885311
Q ss_pred CCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCC
Q 002989 432 GPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNC 478 (860)
Q Consensus 432 GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~ 478 (860)
. ..+.. +.+....+.++.|..+.++.+
T Consensus 109 ~-------------------~~~~~-~~~~~~~~~~~~v~~~~~g~~ 135 (152)
T cd01462 109 V-------------------SDELL-REVELKRSRVARFVALALGDH 135 (152)
T ss_pred C-------------------CHHHH-HHHHHHHhcCcEEEEEEecCC
Confidence 0 01111 223334456789999988764
No 60
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=94.82 E-value=0.057 Score=64.76 Aligned_cols=86 Identities=28% Similarity=0.385 Sum_probs=55.6
Q ss_pred HhhcccceeeccC-Ccc--ccCCc-cccccCCCcEEEEeCCcEEEEEeCCcccCCccchHHHHHHHHHHHHH-HHhccCC
Q 002989 723 RMVAPRCLMYREG-GTF--EELPA-YDLAMQSDKAVVLDHGTDVFIWLGAELAADEGRSAAALAACRTLAEE-LSEFRFP 797 (860)
Q Consensus 723 ~~iyP~L~~~~~~-~~~--~~lP~-~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~~~~~l~~~~~~a~~-l~~~R~p 797 (860)
.-..|+||.-+.. |.| ++++. ...-|..|.|||||++..||||+|.++++.+.. .+++.-....+. +...|-|
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 4567888877653 333 23443 234588999999999999999999998765432 223322222222 3566776
Q ss_pred CcEEEEEecCCCC
Q 002989 798 APRILAFKVLFCS 810 (860)
Q Consensus 798 ~Pr~i~~~qg~s~ 810 (860)
.--+++++||...
T Consensus 694 ~TPI~vV~qG~EP 706 (827)
T KOG0443|consen 694 RTPIYVVKQGHEP 706 (827)
T ss_pred CCceEEecCCCCC
Confidence 6556778999873
No 61
>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=94.34 E-value=2.6 Score=46.04 Aligned_cols=94 Identities=22% Similarity=0.200 Sum_probs=60.6
Q ss_pred CchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhC
Q 002989 387 RCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQH 466 (860)
Q Consensus 387 r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~ 466 (860)
..+..||..|+-.+.....+...+. ....+||+++.++-+.. ...| ..+ -+..-.|.+.
T Consensus 116 s~LagALS~ALCyINR~~~~~~~~~---~~~~~RILv~~s~s~d~------------~~QY-----i~~-MN~iFaAqk~ 174 (276)
T PF03850_consen 116 SLLAGALSMALCYINRISRESPSGG---TSLKSRILVIVSGSPDS------------SSQY-----IPL-MNCIFAAQKQ 174 (276)
T ss_pred hhhHHHHHHHHHHHhhhhhcccCCC---CCcCccEEEEEecCCCc------------cHHH-----HHH-HHHHHHHhcC
Confidence 6788899998888765322111100 12457999964432110 0011 122 2345678899
Q ss_pred CcEEEEEeecCCCCCcccchhhhcccccEEEEeCCch
Q 002989 467 NAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (860)
Q Consensus 467 gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~ 503 (860)
+|.||++..+. -+-.-|++.+..|||..+..+...
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 99999999876 346779999999999998887754
No 62
>cd01455 vWA_F11C1-5a_type Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=93.50 E-value=4 Score=42.09 Aligned_cols=111 Identities=13% Similarity=0.003 Sum_probs=68.0
Q ss_pred HHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhc-CCCcccccccccCCCCCcEEEEEeCCCCCCCCCCccCCCCC
Q 002989 364 QVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQ-GPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSH 442 (860)
Q Consensus 364 ~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~-~~~~~~~~~~~k~~~~ggrIivF~sGppt~GpG~l~~~~~~ 442 (860)
..+..+|++++--. .+..|-.||..|++-|+ ..- ...--||++++|--|.|- +..
T Consensus 75 ~~l~~~l~~~q~g~-------ag~~TadAi~~av~rl~~~~~-----------a~~kvvILLTDG~n~~~~--i~P---- 130 (191)
T cd01455 75 ETLKMMHAHSQFCW-------SGDHTVEATEFAIKELAAKED-----------FDEAIVIVLSDANLERYG--IQP---- 130 (191)
T ss_pred HHHHHHHHhcccCc-------cCccHHHHHHHHHHHHHhcCc-----------CCCcEEEEEeCCCcCCCC--CCh----
Confidence 45566666665421 11223399999999886 421 112356677777654321 211
Q ss_pred CCchhhhHhHHHHHHHH-HHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCchhHHHHHHHHHHh
Q 002989 443 PNYLHMEKMALKWMELL-GRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGEAFGVNLQRAST 515 (860)
Q Consensus 443 ~~~~~~ek~a~~fY~~L-a~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~~~f~~dL~r~l~ 515 (860)
.++ ++.+.+.||-|..+.++.. |-.++..+++.|||..|...+-. .|.+-++.+|+
T Consensus 131 --------------~~aAa~lA~~~gV~iytIgiG~~--d~~~l~~iA~~tgG~~F~A~d~~-~L~~iy~~I~~ 187 (191)
T cd01455 131 --------------KKLADALAREPNVNAFVIFIGSL--SDEADQLQRELPAGKAFVCMDTS-ELPHIMQQIFT 187 (191)
T ss_pred --------------HHHHHHHHHhCCCEEEEEEecCC--CHHHHHHHHhCCCCcEEEeCCHH-HHHHHHHHHHH
Confidence 223 3455678888888877753 56779999999999999997754 44444445543
No 63
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.38 E-value=4.5 Score=44.23 Aligned_cols=102 Identities=22% Similarity=0.173 Sum_probs=63.3
Q ss_pred CCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHh
Q 002989 386 DRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQ 465 (860)
Q Consensus 386 ~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~ 465 (860)
...+..||..|+-.+.....+.+ ......+||+++..++- .. ..| ..++ +....|.+
T Consensus 118 ~s~lagals~ALcyinr~~~~~~----~~~~~~~RIlii~~s~~-----------~~--~qY-----i~~m-n~Ifaaqk 174 (279)
T TIGR00627 118 RTVLAGALSDALGYINRSEQSET----ASEKLKSRILVISITPD-----------MA--LQY-----IPLM-NCIFSAQK 174 (279)
T ss_pred cccchhHHHhhhhhhcccccccc----cCcCCcceEEEEECCCC-----------ch--HHH-----HHHH-HHHHHHHH
Confidence 35678888888888754211000 00123689999987531 00 001 1222 56678899
Q ss_pred CCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCchhHHHHHHHH
Q 002989 466 HNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGEAFGVNLQR 512 (860)
Q Consensus 466 ~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~~~f~~dL~r 512 (860)
.+|.||++..+.+ -+..-++.+++.|||......+.. .|.+-|..
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 9999999988653 357889999999999666555533 34444433
No 64
>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=93.31 E-value=2.2 Score=46.30 Aligned_cols=152 Identities=11% Similarity=0.222 Sum_probs=83.1
Q ss_pred CCcEEEEEECCCC--h-----hHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEE-EecCCCCceeeecccCCCCCCHHH
Q 002989 273 SAPIILVIDECLD--E-----PHLQHLQSSLHAFVESIPPTARIGIILYGRTVSV-YDFSEDSIASSDVLAGDKLPTEDS 344 (860)
Q Consensus 273 ~p~~vFvID~S~~--~-----~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~v-y~l~~~~~~~~~V~~g~~~p~~~~ 344 (860)
..-++++||.|.+ + ..++ .+..|..+++.++ .-+||++.|+..+.+ +.+.
T Consensus 60 ~~qIvlaID~S~SM~~~~~~~~ale-ak~lIs~al~~Le-~g~vgVv~Fg~~~~~v~Plt-------------------- 117 (266)
T cd01460 60 DYQILIAIDDSKSMSENNSKKLALE-SLCLVSKALTLLE-VGQLGVCSFGEDVQILHPFD-------------------- 117 (266)
T ss_pred CceEEEEEecchhcccccccccHHH-HHHHHHHHHHhCc-CCcEEEEEeCCCceEeCCCC--------------------
Confidence 4567999999964 1 1345 4456777777775 689999999976532 2221
Q ss_pred HHHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCC---cEE
Q 002989 345 LKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGN---SRI 421 (860)
Q Consensus 345 l~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~g---grI 421 (860)
+.... ...++.+..+... ...+.++.||..|..+++.... ....+ .-|
T Consensus 118 ----------------~d~~~-~a~~~~l~~~~f~----~~~Tni~~aL~~a~~~f~~~~~--------~~~s~~~~qli 168 (266)
T cd01460 118 ----------------EQFSS-QSGPRILNQFTFQ----QDKTDIANLLKFTAQIFEDART--------QSSSGSLWQLL 168 (266)
T ss_pred ----------------CCchh-hHHHHHhCcccCC----CCCCcHHHHHHHHHHHHHhhhc--------cccccccccEE
Confidence 11111 2223333332111 2347799999999999975310 00112 344
Q ss_pred EEEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCC--CCCcccchhhhcccccE
Q 002989 422 IVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNC--PVRVPVLQPLAKASGGV 495 (860)
Q Consensus 422 ivF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~--~v~la~l~~L~~~TGG~ 495 (860)
++..+|-|..-.| .. +.++.++.+.||.+-.+..-.. .-.+..|+.....++|.
T Consensus 169 lLISDG~~~~~e~----------------~~----~~~~r~a~e~~i~l~~I~ld~~~~~~SI~d~~~~~~~~~~~ 224 (266)
T cd01460 169 LIISDGRGEFSEG----------------AQ----KVRLREAREQNVFVVFIIIDNPDNKQSILDIKVVSFKNDKS 224 (266)
T ss_pred EEEECCCcccCcc----------------HH----HHHHHHHHHcCCeEEEEEEcCCCCCCCcccccccccCCCCc
Confidence 5555565421110 00 2346778888988776664332 33555565544444444
No 65
>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70). Proteins in this family are involved in non-homologous end joining, a process used for the repair of double stranded DNA breaks. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Cutoff does not detect the putative ku70 homologs in yeast.
Probab=93.20 E-value=1.9 Score=52.10 Aligned_cols=164 Identities=12% Similarity=0.103 Sum_probs=88.0
Q ss_pred CcEEEEEECCCC----------hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCC
Q 002989 274 APIILVIDECLD----------EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLP 340 (860)
Q Consensus 274 p~~vFvID~S~~----------~~~l~~l~~sL~~~L~~L---p~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p 340 (860)
-.+||+||+|.. ..-+..+.+++...+... .++..||++.|++.=+ -+.......+|+.+...|
T Consensus 11 eailflIDvs~sM~~~~~~~~~~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t---~n~~~~~~i~v~~~L~~p 87 (584)
T TIGR00578 11 DSLIFLVDASKAMFEESQGEDELTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKD---KNSVNFKNIYVLQELDNP 87 (584)
T ss_pred eEEEEEEECCHHHcCCCcCcCcCChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCC---CCccCCCceEEEeeCCCC
Confidence 358999999953 112444444555555432 3689999999976432 011113345666666667
Q ss_pred CHHHHHHHhhcCCccccchhhhHHHHHHHHhh-hccCccccccCCC-CCchHHHHHHHHHHhcCCCcccccccccCCCCC
Q 002989 341 TEDSLKALLYGTGVYLSPMHASKQVAHDIFSS-LRPYKLNITEASR-DRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGN 418 (860)
Q Consensus 341 ~~~~l~~l~~~~~~fL~pl~e~~~~i~~lL~~-L~~~~~~~~~~~r-~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~g 418 (860)
+.+.++++- ++++. -...+... .+.. ...+..||.+|..++..... +. ..
T Consensus 88 ~a~~i~~L~------------------~l~~~~~~~~~~~~-~~~~~~~~l~daL~~~~~~f~~~~~--------k~-~~ 139 (584)
T TIGR00578 88 GAKRILELD------------------QFKGDQGPKKFRDT-YGHGSDYSLSEVLWVCANLFSDVQF--------RM-SH 139 (584)
T ss_pred CHHHHHHHH------------------HHhhccCccchhhc-cCCCCCCcHHHHHHHHHHHHHhcch--------hh-cC
Confidence 766654321 11111 00000000 0112 24799999999999985321 11 23
Q ss_pred cEEEEEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeec-CCCCCcc
Q 002989 419 SRIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAG-NCPVRVP 483 (860)
Q Consensus 419 grIivF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~-~~~v~la 483 (860)
-||++||+--.-.+. ....+..+ ...|..+...||.+++|..+ .+.+|..
T Consensus 140 kRI~lfTd~D~P~~~-----------~~~~~~~a----~~~a~dl~~~gi~ielf~l~~~~~Fd~s 190 (584)
T TIGR00578 140 KRIMLFTNEDNPHGN-----------DSAKASRA----RTKAGDLRDTGIFLDLMHLKKPGGFDIS 190 (584)
T ss_pred cEEEEECCCCCCCCC-----------chhHHHHH----HHHHHHHHhcCeEEEEEecCCCCCCChh
Confidence 579999974322111 01111111 22477788899999999654 2334544
No 66
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=92.95 E-value=0.37 Score=57.67 Aligned_cols=12 Identities=25% Similarity=0.254 Sum_probs=5.9
Q ss_pred HHHHHccCcCCC
Q 002989 686 LLFHLRRSPLLG 697 (860)
Q Consensus 686 ~~~~L~RS~~L~ 697 (860)
|+-+|+-..+++
T Consensus 1046 lLeaLqsgaafr 1057 (1102)
T KOG1924|consen 1046 LLEALQSGAAFR 1057 (1102)
T ss_pred HHHHHHhhcccc
Confidence 455555444444
No 67
>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=92.34 E-value=1.6 Score=44.98 Aligned_cols=43 Identities=19% Similarity=0.235 Sum_probs=30.4
Q ss_pred cEEEEEECCCChh---------HHHHHHHHHHHhhhcCC--CCcEEEEEEECCe
Q 002989 275 PIILVIDECLDEP---------HLQHLQSSLHAFVESIP--PTARIGIILYGRT 317 (860)
Q Consensus 275 ~~vFvID~S~~~~---------~l~~l~~sL~~~L~~Lp--~~~~VGlITFd~~ 317 (860)
-++|+||.|.+.. .++.+++.+...+..+. +...+++++|++.
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 4799999997532 46788888777766543 3556888888654
No 68
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=91.82 E-value=0.49 Score=56.64 Aligned_cols=9 Identities=33% Similarity=0.353 Sum_probs=4.0
Q ss_pred HHHHHHHHH
Q 002989 452 ALKWMELLG 460 (860)
Q Consensus 452 a~~fY~~La 460 (860)
..+||.+|.
T Consensus 878 ~l~F~ddl~ 886 (1102)
T KOG1924|consen 878 ILKFPDDLE 886 (1102)
T ss_pred hhcchhhHH
Confidence 344444443
No 69
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=91.51 E-value=5 Score=40.70 Aligned_cols=133 Identities=18% Similarity=0.303 Sum_probs=81.7
Q ss_pred CcEEEEEECCCC-------hhHHHHHHHHHHHhhhc-C--CCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHH
Q 002989 274 APIILVIDECLD-------EPHLQHLQSSLHAFVES-I--PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTED 343 (860)
Q Consensus 274 p~~vFvID~S~~-------~~~l~~l~~sL~~~L~~-L--p~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~ 343 (860)
-..|.+||-|.- ...+++=|+++...+.. . .+...||||+-... ...|+
T Consensus 4 EatvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a------------~p~vl--------- 62 (243)
T COG5148 4 EATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQA------------QPNVL--------- 62 (243)
T ss_pred ceEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccC------------Ccchh---------
Confidence 356899998863 24677778887776642 2 24567899875311 11111
Q ss_pred HHHHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEE
Q 002989 344 SLKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIV 423 (860)
Q Consensus 344 ~l~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIiv 423 (860)
......+..|...|..++- ++.--++.+|+.|..++++-. +.+.-.||++
T Consensus 63 -------------sT~T~~~gkilt~lhd~~~--------~g~a~~~~~lqiaql~lkhR~---------nk~q~qriVa 112 (243)
T COG5148 63 -------------STPTKQRGKILTFLHDIRL--------HGGADIMRCLQIAQLILKHRD---------NKGQRQRIVA 112 (243)
T ss_pred -------------ccchhhhhHHHHHhccccc--------cCcchHHHHHHHHHHHHhccc---------CCccceEEEE
Confidence 1111223344444544433 233457889999999998731 1223379999
Q ss_pred EeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecC
Q 002989 424 CAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGN 477 (860)
Q Consensus 424 F~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~ 477 (860)
|+++|... + .+-.=.+|+++.++|++||++-++-
T Consensus 113 FvgSpi~e-------s-------------edeLirlak~lkknnVAidii~fGE 146 (243)
T COG5148 113 FVGSPIQE-------S-------------EDELIRLAKQLKKNNVAIDIIFFGE 146 (243)
T ss_pred EecCcccc-------c-------------HHHHHHHHHHHHhcCeeEEEEehhh
Confidence 99987421 1 1112358899999999999998874
No 70
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=88.08 E-value=0.66 Score=54.77 Aligned_cols=76 Identities=21% Similarity=0.266 Sum_probs=50.0
Q ss_pred cceeeccCCc---cccCCccccccCCCcEEEEeCCcEEEEEeCCcccCCccchHHHHHHHHHHHHHHH-hccCCCcEEEE
Q 002989 728 RCLMYREGGT---FEELPAYDLAMQSDKAVVLDHGTDVFIWLGAELAADEGRSAAALAACRTLAEELS-EFRFPAPRILA 803 (860)
Q Consensus 728 ~L~~~~~~~~---~~~lP~~~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~~~~~l~~~~~~a~~l~-~~R~p~Pr~i~ 803 (860)
|||..+..|. ++++|+...|+++.-++|||.|.+||||-|....- ..-.+.|-.|+.|. .+|--.-.+-.
T Consensus 623 RlYrv~~~g~~i~lEPVpl~~tSLDPRf~FlLD~G~~IyiW~G~~s~~------t~~~KARLfAEkinK~eRKgK~EI~l 696 (1255)
T KOG0444|consen 623 RLYRVGVNGTAIELEPVPLSVTSLDPRFCFLLDAGETIYIWSGYKSRI------TVSNKARLFAEKINKRERKGKSEIEL 696 (1255)
T ss_pred hhheeccccceeEeeccCccccccCcceEEEEeCCceEEEEeccchhc------ccchHHHHHHHHhhhhhccCceeeeh
Confidence 3455554443 45677778899999999999999999999987421 11234455566663 35555555556
Q ss_pred EecCCC
Q 002989 804 FKVLFC 809 (860)
Q Consensus 804 ~~qg~s 809 (860)
|+||..
T Consensus 697 ~rQg~e 702 (1255)
T KOG0444|consen 697 CRQGRE 702 (1255)
T ss_pred hhhcCC
Confidence 666543
No 71
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=84.79 E-value=1.3 Score=52.40 Aligned_cols=86 Identities=22% Similarity=0.227 Sum_probs=52.6
Q ss_pred HHhhcccceeeccCCccccCCcc---------ccccCCCcEEEEeCCcEEEEEeCCcccCCccchHHHHHHHHHHHHHHH
Q 002989 722 LRMVAPRCLMYREGGTFEELPAY---------DLAMQSDKAVVLDHGTDVFIWLGAELAADEGRSAAALAACRTLAEELS 792 (860)
Q Consensus 722 l~~iyP~L~~~~~~~~~~~lP~~---------~~sl~~d~iyLLD~g~~i~Iw~G~~v~~~~~~~~~~l~~~~~~a~~l~ 792 (860)
..-.+|+||.+.-+-.+-++|.. ..-+.+.++|+||+...||||+|+... .-...+....+.++-
T Consensus 729 f~p~qpkLYkV~lGmGyLELPQvel~P~~~l~q~lL~sk~VyiLDc~sDiF~W~GkKs~------RLvraAa~KL~~EL~ 802 (1255)
T KOG0444|consen 729 FVPEQPKLYKVNLGMGYLELPQVELLPKGILKQDLLGSKGVYILDCNSDIFLWIGKKSN------RLVRAAAQKLVVELH 802 (1255)
T ss_pred cCCCCcceEEEccccceeecchhhhchhhHHHHHhhcCCeEEEEecCCceEEEecccch------HHHHHHHHHHHHHHH
Confidence 35678999998654333334431 124789999999999999999999852 112223333444442
Q ss_pred --hccCCCcEEEEEecCCCCcce
Q 002989 793 --EFRFPAPRILAFKVLFCSIPL 813 (860)
Q Consensus 793 --~~R~p~Pr~i~~~qg~s~r~l 813 (860)
-+|.-+-.++..-+|..+..+
T Consensus 803 ~M~dRPdyA~V~R~~EG~E~q~F 825 (1255)
T KOG0444|consen 803 QMIDRPDYAQVYRETEGEESQMF 825 (1255)
T ss_pred hhhcCcchhheeeccCccHHHHH
Confidence 256655555656666554433
No 72
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=84.41 E-value=22 Score=45.91 Aligned_cols=188 Identities=14% Similarity=0.186 Sum_probs=102.5
Q ss_pred CcEEEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhhc
Q 002989 274 APIILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLYG 351 (860)
Q Consensus 274 p~~vFvID~S~~--~~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~~ 351 (860)
--++|++|+|.. ...++..|..+.+.|+.|-++..|-++||++.++.-... +.+.
T Consensus 226 KdiviLlD~SgSm~g~~~~lak~tv~~iLdtLs~~Dfvni~tf~~~~~~v~pc---------~~~~-------------- 282 (1104)
T KOG2353|consen 226 KDIVILLDVSGSMSGLRLDLAKQTVNEILDTLSDNDFVNILTFNSEVNPVSPC---------FNGT-------------- 282 (1104)
T ss_pred cceEEEEeccccccchhhHHHHHHHHHHHHhcccCCeEEEEeeccccCccccc---------ccCc--------------
Confidence 457999999985 557899999999999999999999999999888643211 1110
Q ss_pred CCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCC
Q 002989 352 TGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTY 431 (860)
Q Consensus 352 ~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~ 431 (860)
++.---..+..+.+.++.|... .-.-+-.|++.|..+|..- +.++..--++.+.=-||+|+.|...
T Consensus 283 ---lvqAt~~nk~~~~~~i~~l~~k--------~~a~~~~~~e~aF~lL~~~--n~s~~~~~~~~C~~~iml~tdG~~~- 348 (1104)
T KOG2353|consen 283 ---LVQATMRNKKVFKEAIETLDAK--------GIANYTAALEYAFSLLRDY--NDSRANTQRSPCNQAIMLITDGVDE- 348 (1104)
T ss_pred ---eeecchHHHHHHHHHHhhhccc--------cccchhhhHHHHHHHHHHh--ccccccccccccceeeEEeecCCcc-
Confidence 1111113344555556666531 1122446777777777631 0010000000011246777776531
Q ss_pred CCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEe--ecCCCCCcccchhhhcccccEEEEeCCchh--HHH
Q 002989 432 GPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILC--AGNCPVRVPVLQPLAKASGGVLVLHDDFGE--AFG 507 (860)
Q Consensus 432 GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~--~~~~~v~la~l~~L~~~TGG~v~~y~~f~~--~f~ 507 (860)
++. +-+++- ..-...|-+|. .+..-.++..+..++=..-|..++..+..+ ...
T Consensus 349 ------------~~~-------~If~~y----n~~~~~Vrvftflig~~~~~~~~~~wmac~n~gyy~~I~~~~~v~~~~ 405 (1104)
T KOG2353|consen 349 ------------NAK-------EIFEKY----NWPDKKVRVFTFLIGDEVYDLDEIQWMACANKGYYVHIISIADVRENV 405 (1104)
T ss_pred ------------cHH-------HHHHhh----ccCCCceEEEEEEecccccccccchhhhhhCCCceEeccchhhcChHh
Confidence 111 111111 11133445554 444445666666665555555555555543 344
Q ss_pred HHHHHHHhcccccc
Q 002989 508 VNLQRASTRAAGSH 521 (860)
Q Consensus 508 ~dL~r~l~r~~g~~ 521 (860)
.+..+++.|++|+.
T Consensus 406 ~~y~~vlsRp~vl~ 419 (1104)
T KOG2353|consen 406 LEYLDVLSRPLVLQ 419 (1104)
T ss_pred hhhhhhhccceeec
Confidence 56667777776655
No 73
>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=84.23 E-value=4.1 Score=42.67 Aligned_cols=158 Identities=16% Similarity=0.287 Sum_probs=71.8
Q ss_pred EEEEEECCCC--------hhHHHHHHHHHHHhhhcC---CCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHH
Q 002989 276 IILVIDECLD--------EPHLQHLQSSLHAFVESI---PPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDS 344 (860)
Q Consensus 276 ~vFvID~S~~--------~~~l~~l~~sL~~~L~~L---p~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~ 344 (860)
+|||||++.+ +..|+.+.+++...+... .+...||+|.|++.-+=-......+...+++.....++.+.
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 6999999963 124555555555554421 24588999999754321101112222233333333455555
Q ss_pred HHHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcC--CCcccccccccCCCCCcEEE
Q 002989 345 LKALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQG--PSAEMSRGVVKRPGGNSRII 422 (860)
Q Consensus 345 l~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~--~~~~~~~~~~k~~~~ggrIi 422 (860)
|+++. .+.+.... ..... .......+..||.+|..++.. ... + ...-||+
T Consensus 82 l~~L~--------~~~~~~~~----~~~~~-------~~~~~~~l~~al~v~~~~~~~~~~~~--------k-~~~krI~ 133 (224)
T PF03731_consen 82 LKELE--------ELLKPGDK----FENFF-------SGSDEGDLSDALWVASDMFRERTCKK--------K-KNKKRIF 133 (224)
T ss_dssp HHHHH--------TTSHHHHH----HHHHC--------SSS---HHHHHHHHHHHHHCHCTTS----------ECEEEEE
T ss_pred HHHHH--------Hhhccccc----ccccC-------CCCCccCHHHHHHHHHHHHHHHhhcc--------c-CCCcEEE
Confidence 54432 11111110 11111 122346799999999999974 211 1 1245888
Q ss_pred EEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEee
Q 002989 423 VCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCA 475 (860)
Q Consensus 423 vF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~ 475 (860)
+||..-- |-. .. +. .++... +-.+..+...+|.+++|..
T Consensus 134 l~Td~d~---p~~--~~---~~---~~~~~~---~l~~~Dl~~~~i~~~~~~l 172 (224)
T PF03731_consen 134 LFTDNDG---PHE--DD---DE---LERIIQ---KLKAKDLQDNGIEIELFFL 172 (224)
T ss_dssp EEES-SS---TTT---C---CC---HHHHHH---HHHHHHHHHHTEEEEEEEC
T ss_pred EEeCCCC---CCC--CH---HH---HHHHHH---hhccccchhcCcceeEeec
Confidence 8887431 111 10 01 101111 1126667889999999987
No 74
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=82.74 E-value=2.3 Score=51.59 Aligned_cols=81 Identities=17% Similarity=0.339 Sum_probs=49.3
Q ss_pred hcccceeeccC-Cccc-----cCCccccccCCCcEEEEeCC-cEEEEEeCCcccCCccchHHHHHHHHHHHHHHHhccCC
Q 002989 725 VAPRCLMYREG-GTFE-----ELPAYDLAMQSDKAVVLDHG-TDVFIWLGAELAADEGRSAAALAACRTLAEELSEFRFP 797 (860)
Q Consensus 725 iyP~L~~~~~~-~~~~-----~lP~~~~sl~~d~iyLLD~g-~~i~Iw~G~~v~~~~~~~~~~l~~~~~~a~~l~~~R~p 797 (860)
-..+||.+++. |... .-|+...-|+.+.+||||+| ..||||+|+..+.++- +.++...++.++. +.|.+
T Consensus 253 ~~~kLYkVsd~~g~l~v~~va~~~l~qdlLd~~dCYILD~g~~~IfVW~Gr~as~~ER--kaAm~~AeeFlk~--k~yP~ 328 (827)
T KOG0443|consen 253 AAAKLYKVSDASGGLKVPVVADGPLTKDLLDTEDCYILDCGGGEIFVWKGRQASLDER--KAAMSSAEEFLKK--KKYPP 328 (827)
T ss_pred cccEEEEEeccCCCccccccccchhhHHhhccCCeEEEecCCceEEEEeCCCCCHHHH--HHHHHHHHHHHHh--ccCCC
Confidence 35678888762 2211 11223345889999999999 9999999999764321 2333333333322 24455
Q ss_pred CcEEEEEecCCC
Q 002989 798 APRILAFKVLFC 809 (860)
Q Consensus 798 ~Pr~i~~~qg~s 809 (860)
.=.++.+.||..
T Consensus 329 ~TqV~rv~EG~E 340 (827)
T KOG0443|consen 329 NTQVVRVLEGAE 340 (827)
T ss_pred CceEEEecCCCc
Confidence 566677777765
No 75
>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=81.07 E-value=15 Score=39.15 Aligned_cols=87 Identities=13% Similarity=0.134 Sum_probs=54.6
Q ss_pred CCCCCCCeeeeecCccCCCHhhhhcCCCce-----EEEEccCCCCCC--CCcccC-CCCcccCCCccccccceEEEcCCC
Q 002989 145 MPVGESSCVLFSAHKVLKKKKQANVPSLGF-----GALVSPGKEVSP--SLQIIQ-RDPHRCHNCGAFANIYCKILLGSG 216 (860)
Q Consensus 145 ~~~~~~~~vR~T~~~iP~t~~~~~~~~lP~-----g~vv~P~~~~~~--~~p~v~-~~pvRC~~C~AYiNPf~~~~~~~~ 216 (860)
++....+|||+.-|.+-.=+...++..-|- -|.+.|-..... ..+... .--++|.+|+- .|.--....+
T Consensus 99 ~aPpGKKYVRCPCNCLLICk~sS~rIaCPRp~CkRiI~L~~~~~~p~~~~~~~~p~~~rv~CghC~~---~Fl~~~~~~~ 175 (256)
T PF09788_consen 99 NAPPGKKYVRCPCNCLLICKSSSQRIACPRPNCKRIINLGPSHQGPVTPPVPTQPGSCRVICGHCSN---TFLFNTLTSN 175 (256)
T ss_pred CCCCCCeeEecCCceEEEeecccccccCCCCCCcceEEeCCccCCCCCCCCCCCCCceeEECCCCCC---cEeccCCCCC
Confidence 566778999999999887777777777664 344555422111 111111 23478888874 3332122224
Q ss_pred EE-EEccCCCcCCCCcccc
Q 002989 217 QW-QCVICRNLNGSEGEYV 234 (860)
Q Consensus 217 ~W-~C~~C~~~N~lp~~Y~ 234 (860)
.+ +|+.|++...+...|.
T Consensus 176 tlARCPHCrKvSSVG~~fa 194 (256)
T PF09788_consen 176 TLARCPHCRKVSSVGPRFA 194 (256)
T ss_pred ccccCCCCceeccccchHh
Confidence 55 9999999998877663
No 76
>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=75.41 E-value=1.8 Score=35.24 Aligned_cols=34 Identities=24% Similarity=0.394 Sum_probs=25.8
Q ss_pred CCcccCCCccccccceEEEcCCCEEEEccCCCcC
Q 002989 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N 227 (860)
-++-|++|+.--.-+-+-+...-+|+|+.|+..|
T Consensus 21 ~aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 21 YALICSKCFSHNGLAPKEEFEEIQYRCPYCGALN 54 (54)
T ss_pred eeEECcccchhhcccccccCCceEEEcCCCCCcC
Confidence 3566999998655443566666799999999877
No 77
>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=72.86 E-value=2.8 Score=30.19 Aligned_cols=30 Identities=20% Similarity=0.515 Sum_probs=23.6
Q ss_pred cccCCCccccccceEEEcCCCEEEEccCCCcCCC
Q 002989 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNLNGS 229 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~l 229 (860)
+.|..|++.|- +-.+...++|.+|...|.+
T Consensus 2 ~~C~~C~t~L~----yP~gA~~vrCs~C~~vt~v 31 (31)
T TIGR01053 2 VVCGGCRTLLM----YPRGASSVRCALCQTVNLV 31 (31)
T ss_pred cCcCCCCcEee----cCCCCCeEECCCCCeEecC
Confidence 57999998764 2367899999999988753
No 78
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=71.17 E-value=9.6 Score=36.57 Aligned_cols=41 Identities=17% Similarity=0.367 Sum_probs=33.1
Q ss_pred EEEEECCCC--hhHHHHHHHHHHHhhhcCCCCcEEEEEEECCeEE
Q 002989 277 ILVIDECLD--EPHLQHLQSSLHAFVESIPPTARIGIILYGRTVS 319 (860)
Q Consensus 277 vFvID~S~~--~~~l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V~ 319 (860)
+++||+|.+ .++|+.+...+...++.. +.+|-+|.||..|+
T Consensus 2 ~vaiDtSGSis~~~l~~fl~ev~~i~~~~--~~~v~vi~~D~~v~ 44 (126)
T PF09967_consen 2 VVAIDTSGSISDEELRRFLSEVAGILRRF--PAEVHVIQFDAEVQ 44 (126)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHHhC--CCCEEEEEECCEee
Confidence 689999985 667888777777777777 56689999998886
No 79
>PRK10997 yieM hypothetical protein; Provisional
Probab=70.81 E-value=97 Score=36.73 Aligned_cols=150 Identities=13% Similarity=0.153 Sum_probs=81.8
Q ss_pred CCcEEEEEECCCCh-hHHHHHHHHHHHhhh--cCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHh
Q 002989 273 SAPIILVIDECLDE-PHLQHLQSSLHAFVE--SIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALL 349 (860)
Q Consensus 273 ~p~~vFvID~S~~~-~~l~~l~~sL~~~L~--~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~ 349 (860)
.-++++|||+|.+- |.-+....++..+|- .+.++-++++|.|++.+.-|.+... ..+.
T Consensus 323 kGpiII~VDtSGSM~G~ke~~AkalAaAL~~iAl~q~dr~~li~Fs~~i~~~~l~~~----------------~gl~--- 383 (487)
T PRK10997 323 RGPFIVCVDTSGSMGGFNEQCAKAFCLALMRIALAENRRCYIMLFSTEVVTYELTGP----------------DGLE--- 383 (487)
T ss_pred CCcEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEEecCCceeeccCCc----------------cCHH---
Confidence 35799999999862 222222224333332 3457889999999988776644321 0111
Q ss_pred hcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCC
Q 002989 350 YGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPN 429 (860)
Q Consensus 350 ~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGpp 429 (860)
.+..+|+.. + ..++.+..||..|...++.... ..|-|+++.++-.
T Consensus 384 ---------------~ll~fL~~~---f------~GGTDl~~aL~~al~~l~~~~~-----------r~adIVVISDF~~ 428 (487)
T PRK10997 384 ---------------QAIRFLSQS---F------RGGTDLAPCLRAIIEKMQGREW-----------FDADAVVISDFIA 428 (487)
T ss_pred ---------------HHHHHHHHh---c------CCCCcHHHHHHHHHHHHccccc-----------CCceEEEECCCCC
Confidence 111222211 0 2347788999999998875311 2467888777642
Q ss_pred CCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCC
Q 002989 430 TYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDD 501 (860)
Q Consensus 430 t~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~ 501 (860)
.. ...++.+.+...-.+.+.-+...+.+.. +-+.+..+++ .++.|+.
T Consensus 429 ~~-------------------~~eel~~~L~~Lk~~~~~rf~~l~i~~~--~~p~l~~ifD----~~W~~d~ 475 (487)
T PRK10997 429 QR-------------------LPDELVAKVKELQRQHQHRFHAVAMSAH--GKPGIMRIFD----HIWRFDT 475 (487)
T ss_pred CC-------------------ChHHHHHHHHHHHHhcCcEEEEEEeCCC--CCchHHHhcC----eeeEecC
Confidence 10 1123444443333336777777777642 3344445554 3555544
No 80
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=70.51 E-value=3.1 Score=32.52 Aligned_cols=30 Identities=17% Similarity=0.266 Sum_probs=21.3
Q ss_pred CcccCCCccccccceEEEcCCCEEEEccCCCcCC
Q 002989 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNLNG 228 (860)
Q Consensus 195 pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~ 228 (860)
..+|.+|++-+ .++.....++|+.|+..-.
T Consensus 3 ~y~C~~CG~~~----~~~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREV----ELDEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEE----EECCCCCceECCCCCCeEE
Confidence 36899999943 2344444899999996644
No 81
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=68.85 E-value=78 Score=35.10 Aligned_cols=77 Identities=22% Similarity=0.304 Sum_probs=54.2
Q ss_pred CCCchHHHHHHHHHHhcCCCcccccccccCCCCC-cEEEEEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHH
Q 002989 385 RDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGN-SRIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKA 463 (860)
Q Consensus 385 r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~g-grIivF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~ 463 (860)
..-.+-.||+.|...|++.- +.+ -.|++..+...|.-||-+ |+ .-+.+
T Consensus 141 g~fSLqNaLe~a~~~Lk~~p-----------~H~sREVLii~sslsT~DPgdi-------------------~~-tI~~l 189 (378)
T KOG2807|consen 141 GDFSLQNALELAREVLKHMP-----------GHVSREVLIIFSSLSTCDPGDI-------------------YE-TIDKL 189 (378)
T ss_pred CChHHHHHHHHHHHHhcCCC-----------cccceEEEEEEeeecccCcccH-------------------HH-HHHHH
Confidence 34678889999999998631 122 246666777888877642 33 33456
Q ss_pred HhCCcEEEEEeecCCCCCcccchhhhcccccE
Q 002989 464 HQHNAVIDILCAGNCPVRVPVLQPLAKASGGV 495 (860)
Q Consensus 464 ~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~ 495 (860)
.+..|-|.++..+.+ +..-+.||+.|||.
T Consensus 190 k~~kIRvsvIgLsaE---v~icK~l~kaT~G~ 218 (378)
T KOG2807|consen 190 KAYKIRVSVIGLSAE---VFICKELCKATGGR 218 (378)
T ss_pred HhhCeEEEEEeechh---HHHHHHHHHhhCCe
Confidence 778899999887643 66778999999993
No 82
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=65.12 E-value=1.2e+02 Score=35.47 Aligned_cols=149 Identities=14% Similarity=0.194 Sum_probs=82.9
Q ss_pred CcEEEEEECCCC-hhHHHHHHHHHHHhhh--cCCCCcEEEEEEECCeEEEEecCCCCceeeecccCCCCCCHHHHHHHhh
Q 002989 274 APIILVIDECLD-EPHLQHLQSSLHAFVE--SIPPTARIGIILYGRTVSVYDFSEDSIASSDVLAGDKLPTEDSLKALLY 350 (860)
Q Consensus 274 p~~vFvID~S~~-~~~l~~l~~sL~~~L~--~Lp~~~~VGlITFd~~V~vy~l~~~~~~~~~V~~g~~~p~~~~l~~l~~ 350 (860)
.|++.+||.|++ .|.-+....++..+|- .+-+|-++.+|.||+.++=|.+....
T Consensus 273 GpvilllD~SGSM~G~~e~~AKAvalAl~~~alaenR~~~~~lF~s~~~~~el~~k~----------------------- 329 (437)
T COG2425 273 GPVILLLDKSGSMSGFKEQWAKAVALALMRIALAENRDCYVILFDSEVIEYELYEKK----------------------- 329 (437)
T ss_pred CCEEEEEeCCCCcCCcHHHHHHHHHHHHHHHHHHhccceEEEEecccceeeeecCCc-----------------------
Confidence 789999999987 3444333334443332 34578999999999844333333210
Q ss_pred cCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCC
Q 002989 351 GTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNT 430 (860)
Q Consensus 351 ~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt 430 (860)
. .+..+|+.|...+. .++-+-.||..|+..++.-. -.++.|++-|+|-+-
T Consensus 330 ------~-------~~~e~i~fL~~~f~------GGTD~~~~l~~al~~~k~~~-----------~~~adiv~ITDg~~~ 379 (437)
T COG2425 330 ------I-------DIEELIEFLSYVFG------GGTDITKALRSALEDLKSRE-----------LFKADIVVITDGEDE 379 (437)
T ss_pred ------c-------CHHHHHHHHhhhcC------CCCChHHHHHHHHHHhhccc-----------ccCCCEEEEeccHhh
Confidence 0 11233444433221 12667889999999988521 135899999998531
Q ss_pred CCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeC
Q 002989 431 YGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHD 500 (860)
Q Consensus 431 ~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~ 500 (860)
.. ..|-.+..+.....++=+.-.+++... -.++..++..+ ++.++
T Consensus 380 -------------------~~-~~~~~~v~e~~k~~~~rl~aV~I~~~~--~~~l~~Isd~~---i~~~~ 424 (437)
T COG2425 380 -------------------RL-DDFLRKVKELKKRRNARLHAVLIGGYG--KPGLMRISDHI---IYRVE 424 (437)
T ss_pred -------------------hh-hHHHHHHHHHHHHhhceEEEEEecCCC--Ccccceeeeee---EEeeC
Confidence 11 344444444444455555555555443 22333444443 55554
No 83
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=61.60 E-value=76 Score=37.82 Aligned_cols=48 Identities=10% Similarity=0.204 Sum_probs=31.2
Q ss_pred CCCcccchhhhcccccEEEEeCCchhHHHHHHHHHHhcccccceEEEEEe
Q 002989 479 PVRVPVLQPLAKASGGVLVLHDDFGEAFGVNLQRASTRAAGSHGFLEIRC 528 (860)
Q Consensus 479 ~v~la~l~~L~~~TGG~v~~y~~f~~~f~~dL~r~l~r~~g~~a~lrVR~ 528 (860)
.+|-..+..+|+.|||+-|..-+-. .+.+++..++++ .-+.++++..|
T Consensus 191 p~Dds~IermCevTGGRSysV~Spr-~lnqciesLvqk-vQ~gVvv~FE~ 238 (888)
T KOG3768|consen 191 PIDDSVIERMCEVTGGRSYSVVSPR-QLNQCIESLVQK-VQYGVVVRFEC 238 (888)
T ss_pred CCCchhhHHhhhhcCCceeeeeCHH-HHHHHHHHHHHh-hccCeEEEeee
Confidence 4567788999999999988764421 355566555554 33455555554
No 84
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=59.91 E-value=31 Score=37.19 Aligned_cols=44 Identities=20% Similarity=0.173 Sum_probs=36.1
Q ss_pred HHHHHHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCchh
Q 002989 458 LLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFGE 504 (860)
Q Consensus 458 ~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~~ 504 (860)
+.--.|.+++|.||++..+.+ -..|.+.|..|||...+.+.-..
T Consensus 187 NciFaAqKq~I~Idv~~l~~~---s~~LqQa~D~TGG~YL~v~~~~g 230 (314)
T KOG2487|consen 187 NCIFAAQKQNIPIDVVSLGGD---SGFLQQACDITGGDYLHVEKPDG 230 (314)
T ss_pred HHHHHHHhcCceeEEEEecCC---chHHHHHHhhcCCeeEecCCcch
Confidence 445567889999999999877 35789999999999999887653
No 85
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=52.45 E-value=9.4 Score=30.29 Aligned_cols=32 Identities=19% Similarity=0.275 Sum_probs=21.9
Q ss_pred ccCCCccccccceEEEcCCCEEEEccCCCcCCCC
Q 002989 197 RCHNCGAFANIYCKILLGSGQWQCVICRNLNGSE 230 (860)
Q Consensus 197 RC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp 230 (860)
.|.+|+..+-+- -+.+...|.|+-|+..-.+.
T Consensus 2 FCp~Cg~~l~~~--~~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPK--EGKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCccccc--cCCCCCEEECCcCCCeEECC
Confidence 599999977332 22223599999999875544
No 86
>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=47.81 E-value=22 Score=27.34 Aligned_cols=27 Identities=26% Similarity=0.569 Sum_probs=21.4
Q ss_pred ccCCCccccccceEEEcCCCEEEEccCCCc
Q 002989 197 RCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (860)
Q Consensus 197 RC~~C~AYiNPf~~~~~~~~~W~C~~C~~~ 226 (860)
+|.+|++-- ..+|...+.++|.-||..
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 578888899999999965
No 87
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=47.05 E-value=10 Score=35.74 Aligned_cols=28 Identities=18% Similarity=0.475 Sum_probs=20.3
Q ss_pred CCcccCCCccccccceEEEcCCCEEEEccCCCcC
Q 002989 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N 227 (860)
.-.||..|+.. |......|.|+-|+..+
T Consensus 69 ~~~~C~~Cg~~------~~~~~~~~~CP~Cgs~~ 96 (113)
T PRK12380 69 AQAWCWDCSQV------VEIHQHDAQCPHCHGER 96 (113)
T ss_pred cEEEcccCCCE------EecCCcCccCcCCCCCC
Confidence 44899999953 33334678899999764
No 88
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.22 E-value=2.9e+02 Score=35.52 Aligned_cols=31 Identities=29% Similarity=0.564 Sum_probs=13.8
Q ss_pred CCCCcccc-cccCCCCCCCCCcccCCCCCccC
Q 002989 44 FPPPKLQQ-DHMTSPSIKTPNLLSPANGVKTG 74 (860)
Q Consensus 44 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 74 (860)
.|+|++.. ++...+...-+++--..|-|.+|
T Consensus 818 ~P~~~~~~~~~~~~~~~~~~S~p~~~~pv~sg 849 (1049)
T KOG0307|consen 818 TPPPSSGAADQYSQPPAAPPSFPYAPNPVTSG 849 (1049)
T ss_pred CCCCcccccccCCCCCCCCccCCCCCCCCCCC
Confidence 34433433 45555555555554444433444
No 89
>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=46.04 E-value=8.8 Score=29.47 Aligned_cols=29 Identities=24% Similarity=0.497 Sum_probs=25.3
Q ss_pred cccCCCccccccceEEEcCCCEEEEccCCC
Q 002989 196 HRCHNCGAFANIYCKILLGSGQWQCVICRN 225 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W~C~~C~~ 225 (860)
-||..|+....-+..+.. .....|+-|+.
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred EEeCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 589999998888888877 78999999997
No 90
>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=45.93 E-value=3.1e+02 Score=29.22 Aligned_cols=93 Identities=14% Similarity=0.098 Sum_probs=53.3
Q ss_pred hHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCCCCCCccCCCCCCCchhhhHhHHHHHHHHHHHHHhCCc
Q 002989 389 LGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPNYLHMEKMALKWMELLGRKAHQHNA 468 (860)
Q Consensus 389 ~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~GpG~l~~~~~~~~~~~~ek~a~~fY~~La~~~~~~gi 468 (860)
...+|.+|+.++...... -+..-+. ..--+.|+.+.++|..=|= .+ ... -..+.++.+|..+.+++|
T Consensus 112 iaEGLa~AL~~fd~~~~~-r~~~~~~-~~~khcILI~nSpP~~~p~----~~---~~~----~~~~~~d~la~~~~~~~I 178 (226)
T PF11265_consen 112 IAEGLAEALQCFDDFKQM-RQQQQQT-DVQKHCILICNSPPYRLPV----NE---CPQ----YSGKTCDQLAVLISERNI 178 (226)
T ss_pred HHHHHHHHHHHhcchhhh-ccccCcc-cccceEEEEeCCCCccccc----cC---CCc----ccCCCHHHHHHHHHhcCc
Confidence 788899999988742100 0000000 0012455556666643331 11 111 112346789999999999
Q ss_pred EEEEEeecCCCCCcccchhhhcccccEEEE
Q 002989 469 VIDILCAGNCPVRVPVLQPLAKASGGVLVL 498 (860)
Q Consensus 469 sVDiF~~~~~~v~la~l~~L~~~TGG~v~~ 498 (860)
.+.+++= . -+..+..|-+..+|....
T Consensus 179 ~LSiisP--r--klP~l~~Lfeka~~~~~~ 204 (226)
T PF11265_consen 179 SLSIISP--R--KLPSLRSLFEKAKGNPRA 204 (226)
T ss_pred eEEEEcC--c--cCHHHHHHHHhcCCCccc
Confidence 9999853 2 367788888888776655
No 91
>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=45.33 E-value=10 Score=27.53 Aligned_cols=23 Identities=26% Similarity=0.783 Sum_probs=15.3
Q ss_pred ccCCCccccccceEEEcCCCEEEEccCCC
Q 002989 197 RCHNCGAFANIYCKILLGSGQWQCVICRN 225 (860)
Q Consensus 197 RC~~C~AYiNPf~~~~~~~~~W~C~~C~~ 225 (860)
+|..|+=...+ ....|+|+.|+.
T Consensus 3 ~C~~CGy~y~~------~~~~~~CP~Cg~ 25 (33)
T cd00350 3 VCPVCGYIYDG------EEAPWVCPVCGA 25 (33)
T ss_pred ECCCCCCEECC------CcCCCcCcCCCC
Confidence 57778743333 226789999986
No 92
>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=45.18 E-value=12 Score=35.47 Aligned_cols=28 Identities=14% Similarity=0.458 Sum_probs=20.4
Q ss_pred CCcccCCCccccccceEEEcCCCEEEEccCCCcC
Q 002989 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N 227 (860)
.-.||.+|+....+ ....|.|+-|+..+
T Consensus 69 ~~~~C~~Cg~~~~~------~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 69 VECECEDCSEEVSP------EIDLYRCPKCHGIM 96 (115)
T ss_pred cEEEcccCCCEEec------CCcCccCcCCcCCC
Confidence 34899999954333 33579999999775
No 93
>smart00187 INB Integrin beta subunits (N-terminal portion of extracellular region). Portion of beta integrins that lies N-terminal to their EGF-like repeats. Integrins are cell adhesion molecules that mediate cell-extracellular matrix and cell-cell interactions. They contain both alpha and beta subunits. Beta integrins are proposed to have a von Willebrand factor type-A "insert" or "I" -like domain (although this remains to be confirmed).
Probab=44.51 E-value=5.7e+02 Score=29.82 Aligned_cols=190 Identities=15% Similarity=0.154 Sum_probs=96.5
Q ss_pred EEEEEECCCCh-h---HHHHHHHHHHHhhhcCCCCcEEEEEEE-CCeEEEEecCCC-----CceeeecccCCCCCCHHHH
Q 002989 276 IILVIDECLDE-P---HLQHLQSSLHAFVESIPPTARIGIILY-GRTVSVYDFSED-----SIASSDVLAGDKLPTEDSL 345 (860)
Q Consensus 276 ~vFvID~S~~~-~---~l~~l~~sL~~~L~~Lp~~~~VGlITF-d~~V~vy~l~~~-----~~~~~~V~~g~~~p~~~~l 345 (860)
..|++|+|.+- . .|+.+-..|...|..+-.+.|+||=+| |+.|.=|-.... -+... .....+.
T Consensus 102 LYyLMDlS~SM~ddl~~lk~lg~~L~~~m~~it~n~rlGfGsFVDK~v~P~~~t~p~~l~~PC~~~---~~~c~p~---- 174 (423)
T smart00187 102 LYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTRPEKLENPCPNY---NLTCEPP---- 174 (423)
T ss_pred eEEEEeCCccHHHHHHHHHHHHHHHHHHHHhcccCceeeEEEeecCccCCcccCCHHHhcCCCcCC---CCCcCCC----
Confidence 48999999873 3 355555666777778889999999998 665533321100 00000 0000000
Q ss_pred HHHhhcCCccccchhhhHHHHHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEe
Q 002989 346 KALLYGTGVYLSPMHASKQVAHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCA 425 (860)
Q Consensus 346 ~~l~~~~~~fL~pl~e~~~~i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~ 425 (860)
+.- +=+.+|.+....+.+.+....-- ++. ...+..+-+-+++|+--=+... ....-||++|+
T Consensus 175 ----f~f-~~~L~LT~~~~~F~~~V~~~~iS-gN~--D~PEgG~DAimQaaVC~~~IGW----------R~~a~rllv~~ 236 (423)
T smart00187 175 ----YGF-KHVLSLTDDTDEFNEEVKKQRIS-GNL--DAPEGGFDAIMQAAVCTEQIGW----------REDARRLLVFS 236 (423)
T ss_pred ----cce-eeeccCCCCHHHHHHHHhhceee-cCC--cCCcccHHHHHHHHhhcccccc----------CCCceEEEEEE
Confidence 000 01345666666666666654331 111 1122455555666632111111 11345899997
Q ss_pred CCCCC--CCCCCccCC----C-----CCC-Cchh---hhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCCCcccchhhhc
Q 002989 426 GGPNT--YGPGSVPHS----F-----SHP-NYLH---MEKMALKWMELLGRKAHQHNAVIDILCAGNCPVRVPVLQPLAK 490 (860)
Q Consensus 426 sGppt--~GpG~l~~~----~-----~~~-~~~~---~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v~la~l~~L~~ 490 (860)
+-..- -|-|+|-.- + +.. .|.. ++-++ -.+|++++.+++|.+ ||+....+.++. +.|++
T Consensus 237 TDa~fH~AGDGkLaGIv~PNDg~CHL~~~g~Yt~s~~~DYPS---i~ql~~kL~e~nI~~-IFAVT~~~~~~Y--~~Ls~ 310 (423)
T smart00187 237 TDAGFHFAGDGKLAGIVQPNDGQCHLDNNGEYTMSTTQDYPS---IGQLNQKLAENNINP-IFAVTKKQVSLY--KELSA 310 (423)
T ss_pred cCCCccccCCcceeeEecCCCCcceeCCCCCcCccCcCCCCC---HHHHHHHHHhcCceE-EEEEcccchhHH--HHHHH
Confidence 74333 588887531 1 001 1110 00111 246888888888865 788777766543 44555
Q ss_pred ccccEE
Q 002989 491 ASGGVL 496 (860)
Q Consensus 491 ~TGG~v 496 (860)
+-.|..
T Consensus 311 lipgs~ 316 (423)
T smart00187 311 LIPGSS 316 (423)
T ss_pred hcCcce
Confidence 544433
No 94
>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=43.07 E-value=3.7e+02 Score=28.18 Aligned_cols=118 Identities=19% Similarity=0.204 Sum_probs=66.0
Q ss_pred HHHHHhhhccCccccccCCCCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeC--CCCCCCCCCccCCCCCC
Q 002989 366 AHDIFSSLRPYKLNITEASRDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAG--GPNTYGPGSVPHSFSHP 443 (860)
Q Consensus 366 i~~lL~~L~~~~~~~~~~~r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~s--Gppt~GpG~l~~~~~~~ 443 (860)
+..+.+.|...+.. ..+.++.|.||..|..++...- ..+.|-++=+| |+.|.|+.-+
T Consensus 77 a~a~A~~l~~~~r~---~~~~Taig~Al~~a~~ll~~~~-----------~~~~RrVIDvSGDG~~N~G~~p~------- 135 (205)
T PF06707_consen 77 AEAFAARLRAAPRR---FGGRTAIGSALDFAAALLAQNP-----------FECWRRVIDVSGDGPNNQGPRPV------- 135 (205)
T ss_pred HHHHHHHHHhCCCC---CCCCchHHHHHHHHHHHHHhCC-----------CCCceEEEEECCCCCCCCCCCcc-------
Confidence 34444455544222 1233999999999999998631 12455555544 6777665322
Q ss_pred CchhhhHhHHHHHHHHHHHHHhCCcEEEEEeecCCCC----Ccccch--hhhcccccEEEEeCCchhHHHHHHHHHHhcc
Q 002989 444 NYLHMEKMALKWMELLGRKAHQHNAVIDILCAGNCPV----RVPVLQ--PLAKASGGVLVLHDDFGEAFGVNLQRASTRA 517 (860)
Q Consensus 444 ~~~~~ek~a~~fY~~La~~~~~~gisVDiF~~~~~~v----~la~l~--~L~~~TGG~v~~y~~f~~~f~~dL~r~l~r~ 517 (860)
+..-..+...||+|+=+++....- +|...- .+..=.|..+.-..+|. .|.+-++|-|.|+
T Consensus 136 -------------~~ard~~~~~GitINgL~I~~~~~~~~~~L~~yy~~~VIgGpgAFV~~a~~~~-df~~AirrKL~rE 201 (205)
T PF06707_consen 136 -------------TSARDAAVAAGITINGLAILDDDPFGGADLDAYYRRCVIGGPGAFVETARGFE-DFAEAIRRKLIRE 201 (205)
T ss_pred -------------HHHHHHHHHCCeEEeeeEecCCCCCccccHHHHHhhhcccCCCceEEEcCCHH-HHHHHHHHHHHHH
Confidence 012223456899999999876554 333322 22222333555555564 4556666655555
Q ss_pred c
Q 002989 518 A 518 (860)
Q Consensus 518 ~ 518 (860)
.
T Consensus 202 i 202 (205)
T PF06707_consen 202 I 202 (205)
T ss_pred h
Confidence 3
No 95
>PHA03247 large tegument protein UL36; Provisional
Probab=41.48 E-value=4.7e+02 Score=37.30 Aligned_cols=17 Identities=0% Similarity=-0.302 Sum_probs=10.3
Q ss_pred CCCCCCCeeeeecCccC
Q 002989 145 MPVGESSCVLFSAHKVL 161 (860)
Q Consensus 145 ~~~~~~~~vR~T~~~iP 161 (860)
++.+.+..-+-+++.++
T Consensus 2984 pp~p~p~~~~~~~~~~~ 3000 (3151)
T PHA03247 2984 PSREAPASSTPPLTGHS 3000 (3151)
T ss_pred CCCCCCCCCCCCCCCCC
Confidence 45556666666666665
No 96
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=40.98 E-value=12 Score=35.40 Aligned_cols=33 Identities=18% Similarity=0.556 Sum_probs=27.0
Q ss_pred cccCCCccccccceEEEc-CCCEEEEccCCCcCC
Q 002989 196 HRCHNCGAFANIYCKILL-GSGQWQCVICRNLNG 228 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~-~~~~W~C~~C~~~N~ 228 (860)
..|..|+-.+..-|.+.. +...|.|++|....+
T Consensus 72 ~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~re 105 (118)
T PF02318_consen 72 RVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQRE 105 (118)
T ss_dssp EEETTTTEEEETTSEEETSSSCCEEEHHHHHHHH
T ss_pred CcCCcCCccccCccCCcCCCCCCEEChhhHHHHH
Confidence 779999999988898874 568999999986543
No 97
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=40.26 E-value=16 Score=34.54 Aligned_cols=28 Identities=18% Similarity=0.459 Sum_probs=19.3
Q ss_pred CCcccCCCccccccceEEEcCCC-EEEEccCCCcC
Q 002989 194 DPHRCHNCGAFANIYCKILLGSG-QWQCVICRNLN 227 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~-~W~C~~C~~~N 227 (860)
.-.||.+|+.+ +..... .|.|+-|+..+
T Consensus 69 ~~~~C~~Cg~~------~~~~~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 69 AECWCETCQQY------VTLLTQRVRRCPQCHGDM 97 (114)
T ss_pred cEEEcccCCCe------eecCCccCCcCcCcCCCC
Confidence 34899999963 222223 48899999765
No 98
>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=40.24 E-value=9.8 Score=30.54 Aligned_cols=34 Identities=18% Similarity=0.490 Sum_probs=24.1
Q ss_pred CcccCCCccccccceEEEcCCCEEEEccCCCcCCCC
Q 002989 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSE 230 (860)
Q Consensus 195 pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp 230 (860)
-+||.+|+-.|----.+. .-.-+|+=|++.|.+-
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 2458999999999974
No 99
>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=39.79 E-value=13 Score=29.63 Aligned_cols=31 Identities=23% Similarity=0.388 Sum_probs=22.5
Q ss_pred cccCCCccccccceEEEcCCCEEEEccCCCcC
Q 002989 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N 227 (860)
-||.+|+....-+..+.. .....|+-|+..+
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~ 36 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMSD-DPLATCPECGGEK 36 (52)
T ss_pred EEeCCCCCEeEEEEecCC-CCCCCCCCCCCCc
Confidence 489999986666555543 4678899999743
No 100
>PRK03954 ribonuclease P protein component 4; Validated
Probab=39.77 E-value=18 Score=34.64 Aligned_cols=35 Identities=14% Similarity=0.318 Sum_probs=24.1
Q ss_pred cccCCCccccccc--e--EEEcCC---CEEEEccCCCcCCCC
Q 002989 196 HRCHNCGAFANIY--C--KILLGS---GQWQCVICRNLNGSE 230 (860)
Q Consensus 196 vRC~~C~AYiNPf--~--~~~~~~---~~W~C~~C~~~N~lp 230 (860)
--|++|.+||=|- + .+..+. -.++|..||+..-+|
T Consensus 65 ~~CK~C~t~LiPG~n~~vRi~~~~~~~vvitCl~CG~~kR~P 106 (121)
T PRK03954 65 RYCKRCHSFLVPGVNARVRLRQKRMPHVVITCLECGHIMRYP 106 (121)
T ss_pred HHhhcCCCeeecCCceEEEEecCCcceEEEECccCCCEEeec
Confidence 4599999998663 3 343322 234999999988776
No 101
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=38.05 E-value=16 Score=27.20 Aligned_cols=31 Identities=23% Similarity=0.479 Sum_probs=22.3
Q ss_pred cccCCCccccccce-EEEcCCCEEEEccCCCc
Q 002989 196 HRCHNCGAFANIYC-KILLGSGQWQCVICRNL 226 (860)
Q Consensus 196 vRC~~C~AYiNPf~-~~~~~~~~W~C~~C~~~ 226 (860)
++|.+|++-.+-=- ++..++++-+|.-|++.
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 67888988655332 45566888899999875
No 102
>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=37.93 E-value=63 Score=34.03 Aligned_cols=43 Identities=9% Similarity=0.217 Sum_probs=25.4
Q ss_pred CC-cEEEEEECCCChhH-HHHHHHHHHHhhhcCCCCcEEEEEEECCeE
Q 002989 273 SA-PIILVIDECLDEPH-LQHLQSSLHAFVESIPPTARIGIILYGRTV 318 (860)
Q Consensus 273 ~p-~~vFvID~S~~~~~-l~~l~~sL~~~L~~Lp~~~~VGlITFd~~V 318 (860)
.| .+|+|+|+|.+-.. -..+...+..+....+ ++.++.|++.|
T Consensus 56 ~~~~lvvl~DvSGSM~~~s~~~l~~~~~l~~~~~---~~~~f~F~~~l 100 (222)
T PF05762_consen 56 KPRRLVVLCDVSGSMAGYSEFMLAFLYALQRQFR---RVRVFVFSTRL 100 (222)
T ss_pred CCccEEEEEeCCCChHHHHHHHHHHHHHHHHhCC---CEEEEEEeeeh
Confidence 35 89999999998433 3333333333333333 67777777554
No 103
>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=37.21 E-value=19 Score=30.79 Aligned_cols=32 Identities=22% Similarity=0.520 Sum_probs=21.7
Q ss_pred CCcccCCCccccccceEEEcCCCEEEEccCCCcCCCCc
Q 002989 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEG 231 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp~ 231 (860)
-+.|| .|+.|+ --+++.+.-+| .||....+..
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 799975 45678899999 9998877753
No 104
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=36.96 E-value=21 Score=34.52 Aligned_cols=34 Identities=24% Similarity=0.552 Sum_probs=24.2
Q ss_pred cccCCCccccccceEEEcCCCEEEEccCCCcCCCCc
Q 002989 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEG 231 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp~ 231 (860)
++|--|+..- -...+...+.|.|+-|+..|.+..
T Consensus 1 v~C~fC~~~s--~~~~~~~~~~w~C~~C~q~N~f~e 34 (131)
T PF09779_consen 1 VNCWFCGQNS--KVPYDNRNSNWTCPHCEQYNGFDE 34 (131)
T ss_pred CeeccCCCCC--CCCCCCCCCeeECCCCCCccCccc
Confidence 4688887752 233344445699999999999875
No 105
>PRK12860 transcriptional activator FlhC; Provisional
Probab=36.32 E-value=15 Score=37.83 Aligned_cols=28 Identities=25% Similarity=0.609 Sum_probs=20.9
Q ss_pred CCcccCCCcc-ccccceEEEcCCCEEEEccCC
Q 002989 194 DPHRCHNCGA-FANIYCKILLGSGQWQCVICR 224 (860)
Q Consensus 194 ~pvRC~~C~A-YiNPf~~~~~~~~~W~C~~C~ 224 (860)
...+|..|++ ||-. ..+....++|++|.
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 5689999997 4422 22456899999999
No 106
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=35.86 E-value=17 Score=29.01 Aligned_cols=29 Identities=17% Similarity=0.380 Sum_probs=20.6
Q ss_pred cccCCCccccccceEEEcCCCEEEEccCCCcCC
Q 002989 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNLNG 228 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~ 228 (860)
-+|.+|++-+ ..+.....-.|+-|+++--
T Consensus 7 Y~C~~Cg~~~----~~~~~~~~irCp~Cg~rIl 35 (49)
T COG1996 7 YKCARCGREV----ELDQETRGIRCPYCGSRIL 35 (49)
T ss_pred EEhhhcCCee----ehhhccCceeCCCCCcEEE
Confidence 4688888866 4455667788888887643
No 107
>PRK12722 transcriptional activator FlhC; Provisional
Probab=35.19 E-value=15 Score=37.65 Aligned_cols=29 Identities=24% Similarity=0.642 Sum_probs=21.2
Q ss_pred CCcccCCCcc-ccccceEEEcCCCEEEEccCCC
Q 002989 194 DPHRCHNCGA-FANIYCKILLGSGQWQCVICRN 225 (860)
Q Consensus 194 ~pvRC~~C~A-YiNPf~~~~~~~~~W~C~~C~~ 225 (860)
...+|..|++ ||-. ..+....++|++|+-
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 4688999997 4422 224468999999996
No 108
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=34.73 E-value=18 Score=26.93 Aligned_cols=31 Identities=29% Similarity=0.445 Sum_probs=20.0
Q ss_pred cccCCCccccccce-EEEcCCCEEEEccCCCc
Q 002989 196 HRCHNCGAFANIYC-KILLGSGQWQCVICRNL 226 (860)
Q Consensus 196 vRC~~C~AYiNPf~-~~~~~~~~W~C~~C~~~ 226 (860)
++|.+|++-.+-=- ++-..++.-+|.-|++.
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 67888887443222 24456778888888864
No 109
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=34.01 E-value=15 Score=29.54 Aligned_cols=29 Identities=21% Similarity=0.548 Sum_probs=18.7
Q ss_pred ccCCCccccccc-----------eEEEcCCCEEEEccCCC
Q 002989 197 RCHNCGAFANIY-----------CKILLGSGQWQCVICRN 225 (860)
Q Consensus 197 RC~~C~AYiNPf-----------~~~~~~~~~W~C~~C~~ 225 (860)
+|..|+=..+|- ..|+.--..|+|+.|+.
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 688888666653 23333346788888874
No 110
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=33.52 E-value=18 Score=26.60 Aligned_cols=30 Identities=17% Similarity=0.256 Sum_probs=15.8
Q ss_pred ccCCCccccccceEEEcCCCEEEEccCCCc
Q 002989 197 RCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (860)
Q Consensus 197 RC~~C~AYiNPf~~~~~~~~~W~C~~C~~~ 226 (860)
.|..|++-+.--.--.++..+|+|.-|+..
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 488899876544332356689999999864
No 111
>PRK08455 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=33.44 E-value=1.1e+02 Score=31.46 Aligned_cols=72 Identities=6% Similarity=0.093 Sum_probs=39.7
Q ss_pred EEEEEEEecCCcEEEEEEEeeecccCc--hHHHHhhcC--HHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHH
Q 002989 589 QFAIRYSNVYQADISRVVTVRLPTVDS--VSAYLSSFQ--DEVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIA 661 (860)
Q Consensus 589 Q~al~YT~~~G~RriRV~T~~l~vt~~--~~~v~~s~D--~ea~~~llaK~av~~~~~~~~~~d~r~~Ld~~li~il 661 (860)
+|.+.+.+.+|.|++|| ++.+.+.+. ..++-.... .+++..++..+....+.+..+....|+.|.+++-+++
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 36677777778889998 444444442 223433433 3677777776666665543233444444444444443
No 112
>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=32.30 E-value=20 Score=26.82 Aligned_cols=29 Identities=28% Similarity=0.503 Sum_probs=22.0
Q ss_pred cccCCCccccccceEEEcCCCEEEEccCCC
Q 002989 196 HRCHNCGAFANIYCKILLGSGQWQCVICRN 225 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W~C~~C~~ 225 (860)
.||..|+....-...+.. +....|+-|+.
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKISD-DPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecCC-CCCCCCCCCCC
Confidence 489999997766655543 57888999987
No 113
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=31.76 E-value=18 Score=34.38 Aligned_cols=29 Identities=17% Similarity=0.415 Sum_probs=18.9
Q ss_pred CCcccCCCccccccceEEEcCCCEE-EEccCCCcCC
Q 002989 194 DPHRCHNCGAFANIYCKILLGSGQW-QCVICRNLNG 228 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~~W-~C~~C~~~N~ 228 (860)
...||..|+.+..+ ....| .|+-|+..+.
T Consensus 70 ~~~~C~~Cg~~~~~------~~~~~~~CP~Cgs~~~ 99 (117)
T PRK00564 70 VELECKDCSHVFKP------NALDYGVCEKCHSKNV 99 (117)
T ss_pred CEEEhhhCCCcccc------CCccCCcCcCCCCCce
Confidence 45899999954322 22334 5999998753
No 114
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=31.53 E-value=1.6e+02 Score=36.28 Aligned_cols=11 Identities=0% Similarity=0.069 Sum_probs=4.9
Q ss_pred hhHHHHHHHHH
Q 002989 680 LSALSELLFHL 690 (860)
Q Consensus 680 l~~lP~~~~~L 690 (860)
|..|-.|++.+
T Consensus 716 f~~f~~F~~~~ 726 (830)
T KOG1923|consen 716 FQLFVRFVRAY 726 (830)
T ss_pred HHHHHHHHHHH
Confidence 44444444443
No 115
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=31.02 E-value=18 Score=30.00 Aligned_cols=23 Identities=22% Similarity=0.566 Sum_probs=13.6
Q ss_pred CCCcccCCCccccccceEEEcCCCEEEEccCCC
Q 002989 193 RDPHRCHNCGAFANIYCKILLGSGQWQCVICRN 225 (860)
Q Consensus 193 ~~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~ 225 (860)
..|.||.+||- .+..++|+-|+.
T Consensus 36 ~~I~Rc~~CRk----------~g~~Y~Cp~CGF 58 (61)
T COG2888 36 VEIYRCAKCRK----------LGNPYRCPKCGF 58 (61)
T ss_pred eeeehhhhHHH----------cCCceECCCcCc
Confidence 34666666665 344556666664
No 116
>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=30.87 E-value=32 Score=28.97 Aligned_cols=27 Identities=19% Similarity=0.411 Sum_probs=22.1
Q ss_pred cccCCCccccccceEEEcCCCEEEEccCCCc
Q 002989 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~ 226 (860)
-.|..|+...-- ...++.|.|+-|+..
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 569999987665 556799999999976
No 117
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=30.71 E-value=29 Score=35.57 Aligned_cols=25 Identities=28% Similarity=0.514 Sum_probs=20.7
Q ss_pred cccCCCccccccceEEEcCCCEEEEccCCCc
Q 002989 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~ 226 (860)
.||++|++-|=. .+++.+|+-|++.
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 799999996543 5789999999964
No 118
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=30.66 E-value=25 Score=23.50 Aligned_cols=21 Identities=38% Similarity=0.716 Sum_probs=12.8
Q ss_pred ccCCCccccccceEEEcCCCEEEEccCCC
Q 002989 197 RCHNCGAFANIYCKILLGSGQWQCVICRN 225 (860)
Q Consensus 197 RC~~C~AYiNPf~~~~~~~~~W~C~~C~~ 225 (860)
+|.+|++-+..-.+| |+-||+
T Consensus 1 ~Cp~CG~~~~~~~~f--------C~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKF--------CPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcc--------hhhhCC
Confidence 477777766544333 666664
No 119
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=30.64 E-value=54 Score=23.99 Aligned_cols=30 Identities=17% Similarity=0.460 Sum_probs=20.8
Q ss_pred CCcccCCCccccccceEEEcCCCEEEEccCCCcC
Q 002989 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N 227 (860)
.+.+|..|++-. -+........|.+|+..-
T Consensus 2 ~~~~C~~C~~~~----i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 2 NLKKCSKCGGNG----IVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred CceEcCCCCCCe----EEEecCCeEEcccCCcEe
Confidence 357899999854 222345789999998653
No 120
>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=30.26 E-value=37 Score=23.34 Aligned_cols=24 Identities=21% Similarity=0.602 Sum_probs=15.7
Q ss_pred cCCCccccccceEEEcCCCEEEEccCCC
Q 002989 198 CHNCGAFANIYCKILLGSGQWQCVICRN 225 (860)
Q Consensus 198 C~~C~AYiNPf~~~~~~~~~W~C~~C~~ 225 (860)
|.+|+..|. .-.+...++|..|..
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 666776543 234677888888864
No 121
>PF12773 DZR: Double zinc ribbon
Probab=30.07 E-value=30 Score=27.17 Aligned_cols=34 Identities=21% Similarity=0.364 Sum_probs=25.8
Q ss_pred CCCcccCCCccccccceEEEcCCCEEEEccCCCcCCCCc
Q 002989 193 RDPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEG 231 (860)
Q Consensus 193 ~~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp~ 231 (860)
.+-..|.+|++-+. ......++|+-|++.|.-..
T Consensus 10 ~~~~fC~~CG~~l~-----~~~~~~~~C~~Cg~~~~~~~ 43 (50)
T PF12773_consen 10 DDAKFCPHCGTPLP-----PPDQSKKICPNCGAENPPNA 43 (50)
T ss_pred ccccCChhhcCChh-----hccCCCCCCcCCcCCCcCCc
Confidence 34578999999887 34567899999999876543
No 122
>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=28.88 E-value=21 Score=25.11 Aligned_cols=15 Identities=33% Similarity=1.013 Sum_probs=12.9
Q ss_pred CEEEEccCCCcCCCC
Q 002989 216 GQWQCVICRNLNGSE 230 (860)
Q Consensus 216 ~~W~C~~C~~~N~lp 230 (860)
+.|.|..|...|..-
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 589999999999754
No 123
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=28.07 E-value=28 Score=38.71 Aligned_cols=30 Identities=30% Similarity=0.760 Sum_probs=23.0
Q ss_pred CCCcccCCCccccccceEEEcCCCEEEEccCCCcCCCC
Q 002989 193 RDPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSE 230 (860)
Q Consensus 193 ~~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp 230 (860)
...-||++|+ |....-.|.|+-|+..-.+-
T Consensus 352 ~~~YRC~~CG--------F~a~~l~W~CPsC~~W~Tik 381 (389)
T COG2956 352 KPRYRCQNCG--------FTAHTLYWHCPSCRAWETIK 381 (389)
T ss_pred cCCceecccC--------CcceeeeeeCCCcccccccC
Confidence 4568999998 33445689999999887654
No 124
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=27.32 E-value=78 Score=35.07 Aligned_cols=29 Identities=24% Similarity=0.551 Sum_probs=27.0
Q ss_pred hhHHHHHHHHHHHhhhcCCCCcEEEEEEE
Q 002989 286 EPHLQHLQSSLHAFVESIPPTARIGIILY 314 (860)
Q Consensus 286 ~~~l~~l~~sL~~~L~~Lp~~~~VGlITF 314 (860)
+.+|+.++++|.++++.|.++.|+++|||
T Consensus 217 NdEL~~L~~~L~~a~~~L~~gGRl~VIsF 245 (314)
T COG0275 217 NDELEELEEALEAALDLLKPGGRLAVISF 245 (314)
T ss_pred hhHHHHHHHHHHHHHHhhCCCcEEEEEEe
Confidence 56899999999999999999999999987
No 125
>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=27.26 E-value=63 Score=25.19 Aligned_cols=27 Identities=30% Similarity=0.922 Sum_probs=19.5
Q ss_pred cccCCCccccccceEEEcCCCEEEEccCCC
Q 002989 196 HRCHNCGAFANIYCKILLGSGQWQCVICRN 225 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W~C~~C~~ 225 (860)
+.|.+|++- ..| .+. +.+.|+|.-|++
T Consensus 19 ~~CP~Cg~~-~~~-~~~-~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST-KHY-RLK-TRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCe-eeE-EeC-CCCeEECCCCCC
Confidence 569999987 332 222 368999999985
No 126
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=27.20 E-value=37 Score=33.42 Aligned_cols=33 Identities=21% Similarity=0.396 Sum_probs=22.1
Q ss_pred CcccCCCccccccceEE-----------EcCCCEEEEccCCCcC
Q 002989 195 PHRCHNCGAFANIYCKI-----------LLGSGQWQCVICRNLN 227 (860)
Q Consensus 195 pvRC~~C~AYiNPf~~~-----------~~~~~~W~C~~C~~~N 227 (860)
--||..|.+-+-+-.+- .....-|+|+-|++.-
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 48999999944332211 1235699999999863
No 127
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=27.15 E-value=34 Score=33.30 Aligned_cols=34 Identities=18% Similarity=0.387 Sum_probs=20.5
Q ss_pred CCcccCCCccccccce---E----------EEc--CCCEEEEccCCCcC
Q 002989 194 DPHRCHNCGAFANIYC---K----------ILL--GSGQWQCVICRNLN 227 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~---~----------~~~--~~~~W~C~~C~~~N 227 (860)
...||..|+.....-- + +.+ ....|.|+-||..+
T Consensus 69 ~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~ 117 (135)
T PRK03824 69 AVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRD 117 (135)
T ss_pred eEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCC
Confidence 4588999996543320 0 000 03568899999765
No 128
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=26.77 E-value=2.5e+02 Score=32.46 Aligned_cols=100 Identities=18% Similarity=0.213 Sum_probs=64.3
Q ss_pred CCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCC----CCCCccCCCCCCCchhhhHhHHHHHHHHHH
Q 002989 386 DRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTY----GPGSVPHSFSHPNYLHMEKMALKWMELLGR 461 (860)
Q Consensus 386 ~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~----GpG~l~~~~~~~~~~~~ek~a~~fY~~La~ 461 (860)
.+.+.-||..|-.+++.- .+.--.|++.+.|-||- |-|.+.. .+++.--..-.+-..+++
T Consensus 532 gTNlhhaL~LA~r~l~Rh-----------~~~~~~il~vTDGePtAhle~~DG~~~~----f~yp~DP~t~~~Tvr~~d- 595 (652)
T COG4867 532 GTNLHHALALAGRHLRRH-----------AGAQPVVLVVTDGEPTAHLEDGDGTSVF----FDYPPDPRTIAHTVRGFD- 595 (652)
T ss_pred ccchHHHHHHHHHHHHhC-----------cccCceEEEEeCCCccccccCCCCceEe----cCCCCChhHHHHHHHHHH-
Confidence 366778999999998741 11345788889999873 4554332 122210000011112333
Q ss_pred HHHhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCC
Q 002989 462 KAHQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDD 501 (860)
Q Consensus 462 ~~~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~ 501 (860)
.|.+.|+-+.+|..+.|+==..-+..+++.++|.+|.-+.
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 5788999999999998874444578899999999987654
No 129
>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=26.27 E-value=18 Score=34.14 Aligned_cols=28 Identities=21% Similarity=0.534 Sum_probs=17.7
Q ss_pred CCcccCCCccccccceEEEcCCCEEEEccCCCcC
Q 002989 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N 227 (860)
.-.||..|+.-..+ ....+.|+.|+..+
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 34899999985443 33447799999875
No 130
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=26.17 E-value=37 Score=35.21 Aligned_cols=37 Identities=19% Similarity=0.319 Sum_probs=25.2
Q ss_pred cccCCCccccccceEEEcCCCEEEEccCCCcCCCCcc
Q 002989 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGE 232 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp~~ 232 (860)
+.|.+|.-=-+-+---......|+|.+|++.|+.+.+
T Consensus 193 lIC~~C~hhngl~~~~ek~~~efiC~~Cn~~n~~~~~ 229 (251)
T COG5415 193 LICPQCHHHNGLYRLAEKPIIEFICPHCNHKNDEVKE 229 (251)
T ss_pred hccccccccccccccccccchheecccchhhcCcccc
Confidence 5677776554444433444458999999999987643
No 131
>COG1580 FliL Flagellar basal body-associated protein [Cell motility and secretion]
Probab=25.99 E-value=2.3e+02 Score=28.46 Aligned_cols=37 Identities=14% Similarity=0.212 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHH
Q 002989 626 EVAAVLIAKRTLLRAKIFSEAIDMRTMIDERVKDIAL 662 (860)
Q Consensus 626 ea~~~llaK~av~~~~~~~~~~d~r~~Ld~~li~il~ 662 (860)
+++..+++++.+..+.+..+....++.+.+.+-.++.
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 6899999999988887755667777777777766664
No 132
>PHA03247 large tegument protein UL36; Provisional
Probab=25.95 E-value=9.7e+02 Score=34.49 Aligned_cols=14 Identities=43% Similarity=0.501 Sum_probs=7.3
Q ss_pred HHhhcCHHHHHHHH
Q 002989 619 YLSSFQDEVAAVLI 632 (860)
Q Consensus 619 v~~s~D~ea~~~ll 632 (860)
++++--..+++.|+
T Consensus 3102 Y~r~Tg~salAlLi 3115 (3151)
T PHA03247 3102 YVRSTGRSALAVLI 3115 (3151)
T ss_pred HHhhccHHHHHHHH
Confidence 44454455555555
No 133
>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=25.95 E-value=8 Score=30.96 Aligned_cols=18 Identities=22% Similarity=0.755 Sum_probs=7.5
Q ss_pred ceEEEcCCCEEEEccCCC
Q 002989 208 YCKILLGSGQWQCVICRN 225 (860)
Q Consensus 208 f~~~~~~~~~W~C~~C~~ 225 (860)
|.+.....+.|+|++|++
T Consensus 32 fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 32 FLESNQRTPKWKCPICNK 49 (50)
T ss_dssp HHHHHHHS---B-TTT--
T ss_pred HHHHhhccCCeECcCCcC
Confidence 333334567899999986
No 134
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=25.79 E-value=26 Score=29.11 Aligned_cols=22 Identities=27% Similarity=0.588 Sum_probs=13.7
Q ss_pred CcccCCCccccccceEEEcCCCEEEEccCCCc
Q 002989 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (860)
Q Consensus 195 pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~ 226 (860)
|.||.+||-. +..++|+-||..
T Consensus 36 I~RC~~CRk~----------~~~Y~CP~CGF~ 57 (59)
T PRK14890 36 IYRCEKCRKQ----------SNPYTCPKCGFE 57 (59)
T ss_pred EeechhHHhc----------CCceECCCCCCc
Confidence 6777777753 344567777643
No 135
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=25.46 E-value=8.4e+02 Score=25.95 Aligned_cols=89 Identities=20% Similarity=0.174 Sum_probs=57.0
Q ss_pred CCCchHHHHHHHHHHhcCCCcccccccccCCCCCcEEEEEeCCCCCCCCCCccCCCCCCCc-hhhhHhHHHHHHHHHHHH
Q 002989 385 RDRCLGTAVEVALAIIQGPSAEMSRGVVKRPGGNSRIIVCAGGPNTYGPGSVPHSFSHPNY-LHMEKMALKWMELLGRKA 463 (860)
Q Consensus 385 r~r~~G~AL~~A~~lL~~~~~~~~~~~~k~~~~ggrIivF~sGppt~GpG~l~~~~~~~~~-~~~ek~a~~fY~~La~~~ 463 (860)
+..-+|-|++.++.+..+...+ . .--+||++|+-+ | ++.+..| +++ +---.|
T Consensus 127 qr~~v~gams~glay~n~~~~e-------~-slkSriliftls------G----~d~~~qYip~m---------nCiF~A 179 (296)
T COG5242 127 QRYDVGGAMSLGLAYCNHRDEE-------T-SLKSRILIFTLS------G----RDRKDQYIPYM---------NCIFAA 179 (296)
T ss_pred ceeehhhhhhhhHHHHhhhccc-------c-cccceEEEEEec------C----chhhhhhchhh---------hheeeh
Confidence 3356788999999988664322 1 124899999862 1 1111111 121 122235
Q ss_pred HhCCcEEEEEeecCCCCCcccchhhhcccccEEEEeCCch
Q 002989 464 HQHNAVIDILCAGNCPVRVPVLQPLAKASGGVLVLHDDFG 503 (860)
Q Consensus 464 ~~~gisVDiF~~~~~~v~la~l~~L~~~TGG~v~~y~~f~ 503 (860)
.+.||-||+|-+... -..|.+.+..|||.....++-.
T Consensus 180 qk~~ipI~v~~i~g~---s~fl~Q~~daTgG~Yl~ve~~e 216 (296)
T COG5242 180 QKFGIPISVFSIFGN---SKFLLQCCDATGGDYLTVEDTE 216 (296)
T ss_pred hhcCCceEEEEecCc---cHHHHHHhhccCCeeEeecCch
Confidence 567899999987654 3568899999999988888754
No 136
>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=25.35 E-value=60 Score=24.22 Aligned_cols=27 Identities=22% Similarity=0.584 Sum_probs=20.4
Q ss_pred CcccCCCccccccceEEEcCCCEEEEccCCCc
Q 002989 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (860)
Q Consensus 195 pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~ 226 (860)
..+|..|++. +. ....+.|.|.-|++.
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 137
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.30 E-value=2e+02 Score=32.32 Aligned_cols=18 Identities=17% Similarity=0.335 Sum_probs=10.4
Q ss_pred hHHHHHHHHHHHhhhcCC
Q 002989 287 PHLQHLQSSLHAFVESIP 304 (860)
Q Consensus 287 ~~l~~l~~sL~~~L~~Lp 304 (860)
.+|+.+++.|.+.+..|.
T Consensus 249 ~kL~~~~etLEqq~~~L~ 266 (365)
T KOG2391|consen 249 QKLVAMKETLEQQLQSLQ 266 (365)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 345666666666655553
No 138
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=25.22 E-value=47 Score=25.92 Aligned_cols=26 Identities=23% Similarity=0.432 Sum_probs=17.9
Q ss_pred ccCCCccccccceEEEcCCCEEEEccCCCcC
Q 002989 197 RCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (860)
Q Consensus 197 RC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N 227 (860)
+|.+|++-+..- .+..-+|+-|+++-
T Consensus 4 ~C~~Cg~~~~~~-----~~~~irC~~CG~rI 29 (44)
T smart00659 4 ICGECGRENEIK-----SKDVVRCRECGYRI 29 (44)
T ss_pred ECCCCCCEeecC-----CCCceECCCCCceE
Confidence 688888854432 35678888888664
No 139
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.67 E-value=33 Score=33.02 Aligned_cols=32 Identities=22% Similarity=0.617 Sum_probs=21.3
Q ss_pred CCcccCCCccccccceEEEcCCCEEEEccCCCcCCC
Q 002989 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGS 229 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~l 229 (860)
..-.|.+|++-+.-- .+.-.|.||+|...-++
T Consensus 88 q~r~CARCGGrv~lr----sNKv~wvcnlc~k~q~i 119 (169)
T KOG3799|consen 88 QTRFCARCGGRVSLR----SNKVMWVCNLCRKQQEI 119 (169)
T ss_pred hhhHHHhcCCeeeec----cCceEEeccCCcHHHHH
Confidence 344567888854432 24568999999977654
No 140
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=24.32 E-value=1.9e+02 Score=36.09 Aligned_cols=110 Identities=19% Similarity=0.284 Sum_probs=59.4
Q ss_pred CcccCCCccccccceEEEcCCCEEEEccCCCcCCCCccccCCCccccCCCCCcCCCceeEEecCCCCC-----CCCCCCC
Q 002989 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGEYVAPSKEELRNFPELSSPMVDYVQTGNNRS-----SYVPVSD 269 (860)
Q Consensus 195 pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp~~Y~~~~~~d~~~~PEL~~~tvEy~~p~~yr~-----~~~~~~~ 269 (860)
+.+|.+|..++ .+-...+.-+|..|++.-.+|.. | |+--+..+-+.-+..-|- ...
T Consensus 444 v~~Cp~Cd~~l----t~H~~~~~L~CH~Cg~~~~~p~~--C---------p~Cgs~~L~~~G~GterieeeL~~~F---- 504 (730)
T COG1198 444 IAECPNCDSPL----TLHKATGQLRCHYCGYQEPIPQS--C---------PECGSEHLRAVGPGTERIEEELKRLF---- 504 (730)
T ss_pred cccCCCCCcce----EEecCCCeeEeCCCCCCCCCCCC--C---------CCCCCCeeEEecccHHHHHHHHHHHC----
Confidence 45555555543 33456789999999999777642 2 332222233332221000 000
Q ss_pred CCCCCcEEEEEECCCChhHHHHHHHHHHHh----------h-h--cCCCCcEEEEEEECCeEEEEecC
Q 002989 270 SRMSAPIILVIDECLDEPHLQHLQSSLHAF----------V-E--SIPPTARIGIILYGRTVSVYDFS 324 (860)
Q Consensus 270 ~~~~p~~vFvID~S~~~~~l~~l~~sL~~~----------L-~--~Lp~~~~VGlITFd~~V~vy~l~ 324 (860)
+..+.+.|--|++...+.++.+.+.+.+- | + ..|.-++||++--|..++.-|+.
T Consensus 505 -P~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfR 571 (730)
T COG1198 505 -PGARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFR 571 (730)
T ss_pred -CCCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhhcCCCcccceEEEEEechhhhcCCCcc
Confidence 12244455556666677777666555431 1 1 24567888888777776666555
No 141
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=24.08 E-value=33 Score=32.92 Aligned_cols=34 Identities=21% Similarity=0.351 Sum_probs=20.0
Q ss_pred CCcccCCCccccccc-eEEEcCCCEEEEccCCCcCC
Q 002989 194 DPHRCHNCGAFANIY-CKILLGSGQWQCVICRNLNG 228 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf-~~~~~~~~~W~C~~C~~~N~ 228 (860)
.-.|| .|+.+...- ...+.-.-.|.|+-|+..+.
T Consensus 69 ~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~ 103 (124)
T PRK00762 69 VEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRA 103 (124)
T ss_pred eeEEe-eCcCcccccccchhccccCCcCcCCCCCCC
Confidence 44899 999765432 11111111378999996653
No 142
>KOG0566 consensus Inositol-1,4,5-triphosphate 5-phosphatase (synaptojanin), INP51/INP52/INP53 family [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.04 E-value=5.2e+02 Score=33.05 Aligned_cols=9 Identities=33% Similarity=0.715 Sum_probs=3.9
Q ss_pred CCCCCCCCC
Q 002989 87 PVFTSPVRP 95 (860)
Q Consensus 87 ~~~~~~~~~ 95 (860)
++.+.|..+
T Consensus 1029 ~~~~~P~~~ 1037 (1080)
T KOG0566|consen 1029 YVISKPLAP 1037 (1080)
T ss_pred ccccCCccc
Confidence 444444443
No 143
>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=23.64 E-value=21 Score=28.34 Aligned_cols=11 Identities=27% Similarity=1.123 Sum_probs=5.2
Q ss_pred CCEEEEccCCC
Q 002989 215 SGQWQCVICRN 225 (860)
Q Consensus 215 ~~~W~C~~C~~ 225 (860)
-..|+|+.|+.
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 34577777764
No 144
>KOG4217 consensus Nuclear receptors of the nerve growth factor-induced protein B type [Transcription]
Probab=23.18 E-value=6.4e+02 Score=29.70 Aligned_cols=26 Identities=15% Similarity=0.512 Sum_probs=16.6
Q ss_pred CCCCcccCCCccccccceEEEcCCCEEEE
Q 002989 192 QRDPHRCHNCGAFANIYCKILLGSGQWQC 220 (860)
Q Consensus 192 ~~~pvRC~~C~AYiNPf~~~~~~~~~W~C 220 (860)
.|+.-.|..|++|.---++ .+.+|+|
T Consensus 283 HYGvRTCEGCKGFFKRTVQ---KnaKYvC 308 (605)
T KOG4217|consen 283 HYGVRTCEGCKGFFKRTVQ---KNAKYVC 308 (605)
T ss_pred hcCccccccchHHHHHHHh---cCCeeEe
Confidence 4888889999997533222 2345555
No 145
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=23.00 E-value=87 Score=30.68 Aligned_cols=24 Identities=21% Similarity=0.505 Sum_probs=19.1
Q ss_pred cccCCCccccccceEEEcCCCEEEEccCCCcC
Q 002989 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNLN 227 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N 227 (860)
.||.+|+.+.=| -+=.|+-|+...
T Consensus 30 ~kC~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 30 TKCKKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred EEcCCCCeEEcC--------CcccCCCCCCCC
Confidence 799999997655 355789999885
No 146
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=22.87 E-value=39 Score=30.47 Aligned_cols=36 Identities=22% Similarity=0.336 Sum_probs=24.7
Q ss_pred CCcccCCCccccccceEEEcCCCEEEEccCCCcCCCCccc
Q 002989 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSEGEY 233 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp~~Y 233 (860)
.|.||++|+--.++ |.-..--+|+-|+..-.-++.|
T Consensus 57 ~Pa~CkkCGfef~~----~~ik~pSRCP~CKSE~Ie~prF 92 (97)
T COG3357 57 RPARCKKCGFEFRD----DKIKKPSRCPKCKSEWIEEPRF 92 (97)
T ss_pred cChhhcccCccccc----cccCCcccCCcchhhcccCCce
Confidence 68999999976665 2223467899999765544443
No 147
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=22.83 E-value=1.1e+03 Score=26.56 Aligned_cols=18 Identities=28% Similarity=0.316 Sum_probs=10.2
Q ss_pred hhHHHHHHHHHHHhhhcC
Q 002989 286 EPHLQHLQSSLHAFVESI 303 (860)
Q Consensus 286 ~~~l~~l~~sL~~~L~~L 303 (860)
.+....|+.+|+.+|..+
T Consensus 411 DdRCrvLissL~dcLhgi 428 (498)
T KOG4849|consen 411 DDRCRVLISSLEDCLHGI 428 (498)
T ss_pred chHHHHHHHHHHHHHhhh
Confidence 345556666666666543
No 148
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=22.80 E-value=39 Score=37.49 Aligned_cols=36 Identities=19% Similarity=0.361 Sum_probs=26.0
Q ss_pred CcccCCCccccccceEEEcCCCEEEEccCCCcCCCC
Q 002989 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNLNGSE 230 (860)
Q Consensus 195 pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~lp 230 (860)
-.-|++|+.==+-+-.=+..--.|+|.+|++.|.=.
T Consensus 220 ALIC~~C~~HNGla~~ee~~yi~F~C~~Cn~LN~~~ 255 (328)
T KOG2846|consen 220 ALICSQCHHHNGLARKEEYEYITFRCPHCNALNPAK 255 (328)
T ss_pred hhcchhhccccCcCChhhcCceEEECccccccCCCc
Confidence 366999988655444434444789999999999854
No 149
>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=22.75 E-value=96 Score=34.52 Aligned_cols=30 Identities=23% Similarity=0.433 Sum_probs=26.9
Q ss_pred hhHHHHHHHHHHHhhhcCCCCcEEEEEEEC
Q 002989 286 EPHLQHLQSSLHAFVESIPPTARIGIILYG 315 (860)
Q Consensus 286 ~~~l~~l~~sL~~~L~~Lp~~~~VGlITFd 315 (860)
+.+|+.|...|.++.+.|.++.|+++|||-
T Consensus 213 N~EL~~L~~~L~~~~~~L~~gGrl~VISfH 242 (305)
T TIGR00006 213 NDELEELEEALQFAPNLLAPGGRLSIISFH 242 (305)
T ss_pred HHhHHHHHHHHHHHHHHhcCCCEEEEEecC
Confidence 468999999999999999999999999884
No 150
>KOG0445 consensus Actin regulatory protein supervillin (gelsolin/villin family) [Cytoskeleton]
Probab=22.64 E-value=1.5e+02 Score=36.16 Aligned_cols=25 Identities=32% Similarity=0.869 Sum_probs=23.1
Q ss_pred ccCCCcEEEEeCCcEEEEEeCCccc
Q 002989 747 AMQSDKAVVLDHGTDVFIWLGAELA 771 (860)
Q Consensus 747 sl~~d~iyLLD~g~~i~Iw~G~~v~ 771 (860)
-|++..+++.|-|..||||.|+.+.
T Consensus 367 ~l~p~eVLvFDFGSEvYVW~Gk~~~ 391 (919)
T KOG0445|consen 367 LLQPKEVLVFDFGSEVYVWHGKEVT 391 (919)
T ss_pred ccCcceEEEEecCceEEEEcCccCc
Confidence 4789999999999999999999975
No 151
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=22.39 E-value=48 Score=26.59 Aligned_cols=25 Identities=28% Similarity=0.763 Sum_probs=18.4
Q ss_pred cccCCCcc-ccccceEEEcCCCEEEEccCCCc
Q 002989 196 HRCHNCGA-FANIYCKILLGSGQWQCVICRNL 226 (860)
Q Consensus 196 vRC~~C~A-YiNPf~~~~~~~~~W~C~~C~~~ 226 (860)
..|.+|++ ++-+. ..+|.|.-|+..
T Consensus 21 ~fCP~Cg~~~m~~~------~~r~~C~~Cgyt 46 (50)
T PRK00432 21 KFCPRCGSGFMAEH------LDRWHCGKCGYT 46 (50)
T ss_pred CcCcCCCcchhecc------CCcEECCCcCCE
Confidence 47999998 54442 379999999853
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=21.98 E-value=42 Score=21.25 Aligned_cols=11 Identities=36% Similarity=0.761 Sum_probs=6.6
Q ss_pred EEEccCCCcCC
Q 002989 218 WQCVICRNLNG 228 (860)
Q Consensus 218 W~C~~C~~~N~ 228 (860)
|+|++|+..-.
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
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=21.57 E-value=71 Score=26.42 Aligned_cols=26 Identities=27% Similarity=0.529 Sum_probs=20.1
Q ss_pred CCcccCCCccccccceEEEcCCCEEEEccCCCcCC
Q 002989 194 DPHRCHNCGAFANIYCKILLGSGQWQCVICRNLNG 228 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~ 228 (860)
.++.|.+|+.+.=| .-.|..||..+.
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 56789999997655 678999996543
No 154
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=21.57 E-value=40 Score=41.66 Aligned_cols=40 Identities=23% Similarity=0.485 Sum_probs=32.7
Q ss_pred CCCcccCCCccccccceEEE------cCCCEEEEccCCCcCCCCcc
Q 002989 193 RDPHRCHNCGAFANIYCKIL------LGSGQWQCVICRNLNGSEGE 232 (860)
Q Consensus 193 ~~pvRC~~C~AYiNPf~~~~------~~~~~W~C~~C~~~N~lp~~ 232 (860)
....+|+-|.-+++.+.... .+-+-|+||+|+.+-....+
T Consensus 351 ~~khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkGN 396 (958)
T KOG1074|consen 351 FFKHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKGN 396 (958)
T ss_pred cccchhhhhHhhcCchhhhhhhhhccCCCCCeeecccccccccccc
Confidence 46799999999999988765 35689999999988776543
No 155
>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=21.53 E-value=69 Score=22.95 Aligned_cols=29 Identities=17% Similarity=0.382 Sum_probs=17.2
Q ss_pred ccCCCccccccc-eEEEcCCCE-----EEEccCCC
Q 002989 197 RCHNCGAFANIY-CKILLGSGQ-----WQCVICRN 225 (860)
Q Consensus 197 RC~~C~AYiNPf-~~~~~~~~~-----W~C~~C~~ 225 (860)
||..|+..|-+- ..+...++. |+|..|+.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~ 35 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGK 35 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCCCCcccCC
Confidence 688888887764 333333343 46666654
No 156
>smart00401 ZnF_GATA zinc finger binding to DNA consensus sequence [AT]GATA[AG].
Probab=21.46 E-value=63 Score=26.04 Aligned_cols=32 Identities=19% Similarity=0.361 Sum_probs=26.6
Q ss_pred CcccCCCccccccceEEEcCCCEEEEccCCCc
Q 002989 195 PHRCHNCGAFANIYCKILLGSGQWQCVICRNL 226 (860)
Q Consensus 195 pvRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~ 226 (860)
+.+|.+|++--.|..+-...+..-.||-|+..
T Consensus 3 ~~~C~~C~~~~T~~WR~g~~g~~~LCnaCgl~ 34 (52)
T smart00401 3 GRSCSNCGTTETPLWRRGPSGNKTLCNACGLY 34 (52)
T ss_pred CCCcCCCCCCCCCccccCCCCCCcEeecccHH
Confidence 46899999988888877777777999999954
No 157
>KOG1830 consensus Wiskott Aldrich syndrome proteins [Cytoskeleton]
Probab=21.40 E-value=8.2e+02 Score=28.43 Aligned_cols=30 Identities=17% Similarity=0.268 Sum_probs=17.6
Q ss_pred CCCCCCCCCCCCCCCCcccccccCCCCCCC
Q 002989 32 IPPPPMSSTPPRFPPPKLQQDHMTSPSIKT 61 (860)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (860)
-|+..+.+.+++|.-|.+-.+|+..+.-..
T Consensus 249 lp~~~~nq~~s~~~~p~~~~~~~pp~~~~~ 278 (518)
T KOG1830|consen 249 LPPNPKNQLASNMVAPSGMTMHHPPQPPVM 278 (518)
T ss_pred cCCCcccccccccCCCcCCCCCCCCCCCcc
Confidence 445566667777777666655555444333
No 158
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=21.38 E-value=89 Score=30.45 Aligned_cols=33 Identities=15% Similarity=0.274 Sum_probs=26.3
Q ss_pred CCcccCCCccccccceEEEcCCCEE--EEccCCCcCCC
Q 002989 194 DPHRCHNCGAFANIYCKILLGSGQW--QCVICRNLNGS 229 (860)
Q Consensus 194 ~pvRC~~C~AYiNPf~~~~~~~~~W--~C~~C~~~N~l 229 (860)
.=|.|..|+. |=..+...++.| +|.-||..-.+
T Consensus 96 ~yVlC~~C~s---PdT~l~k~~r~~~l~C~ACGa~~~v 130 (133)
T TIGR00311 96 KYVICRECNR---PDTRIIKEGRVSLLKCEACGAKAPL 130 (133)
T ss_pred heEECCCCCC---CCcEEEEeCCeEEEecccCCCCCcc
Confidence 3488999996 777777667776 89999988765
No 159
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=20.77 E-value=50 Score=27.98 Aligned_cols=24 Identities=13% Similarity=0.468 Sum_probs=17.3
Q ss_pred cccCCCccccccceEEEcCCCEEEEccCCCcCCC
Q 002989 196 HRCHNCGAFANIYCKILLGSGQWQCVICRNLNGS 229 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~l 229 (860)
.-|++|+...+ + . +|+.|+..+..
T Consensus 6 ~AC~~C~~i~~-------~-~--~Cp~Cgs~~~S 29 (64)
T PRK06393 6 RACKKCKRLTP-------E-K--TCPVHGDEKTT 29 (64)
T ss_pred hhHhhCCcccC-------C-C--cCCCCCCCcCC
Confidence 35999998763 1 2 99999987433
No 160
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=20.40 E-value=46 Score=38.35 Aligned_cols=28 Identities=32% Similarity=0.763 Sum_probs=20.6
Q ss_pred cccCCCccccccceEEEcCCCEE--EEccCCCcCCCCccc
Q 002989 196 HRCHNCGAFANIYCKILLGSGQW--QCVICRNLNGSEGEY 233 (860)
Q Consensus 196 vRC~~C~AYiNPf~~~~~~~~~W--~C~~C~~~N~lp~~Y 233 (860)
-.|++|++- .-+| +|+-|+..|.+-.+.
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 468999872 2344 799999999986554
No 161
>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=20.38 E-value=63 Score=29.65 Aligned_cols=27 Identities=22% Similarity=0.583 Sum_probs=21.6
Q ss_pred ccCCCccccccceEEEcCCCEEEEccCCCcCCC
Q 002989 197 RCHNCGAFANIYCKILLGSGQWQCVICRNLNGS 229 (860)
Q Consensus 197 RC~~C~AYiNPf~~~~~~~~~W~C~~C~~~N~l 229 (860)
.|.+|++.|.|- +..|.|+-|+.....
T Consensus 2 fC~~Cg~~l~~~------~~~~~C~~C~~~~~~ 28 (104)
T TIGR01384 2 FCPKCGSLMTPK------NGVYVCPSCGYEKEK 28 (104)
T ss_pred CCcccCcccccC------CCeEECcCCCCcccc
Confidence 599999999652 368999999987553
Done!