Query 003297
Match_columns 833
No_of_seqs 339 out of 1402
Neff 5.2
Searched_HMMs 46136
Date Thu Mar 28 20:49:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003297.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003297hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11265 Med25_VWA: Mediator c 100.0 3.8E-65 8.3E-70 524.6 21.2 209 3-227 13-226 (226)
2 cd01480 vWA_collagen_alpha_1-V 99.1 2.2E-09 4.8E-14 108.3 17.4 151 3-198 2-161 (186)
3 cd01472 vWA_collagen von Wille 99.0 1.4E-08 3E-13 99.8 17.5 151 4-201 1-154 (164)
4 PF13519 VWA_2: von Willebrand 99.0 2.2E-09 4.9E-14 103.4 11.6 144 5-203 1-154 (172)
5 cd01450 vWFA_subfamily_ECM Von 99.0 1.3E-08 2.7E-13 97.6 16.1 150 4-199 1-154 (161)
6 cd01481 vWA_collagen_alpha3-VI 99.0 2.8E-08 6.1E-13 99.2 18.8 149 4-198 1-151 (165)
7 cd01482 vWA_collagen_alphaI-XI 99.0 4E-08 8.6E-13 97.0 18.9 162 4-226 1-164 (164)
8 cd01469 vWA_integrins_alpha_su 98.9 5.6E-08 1.2E-12 97.6 18.6 140 4-188 1-141 (177)
9 cd01473 vWA_CTRP CTRP for CS 98.9 7E-08 1.5E-12 98.7 18.1 154 4-203 1-162 (192)
10 cd01474 vWA_ATR ATR (Anthrax T 98.8 5.9E-08 1.3E-12 97.7 15.2 137 3-187 4-142 (185)
11 cd01453 vWA_transcription_fact 98.8 1.3E-07 2.9E-12 95.9 17.0 149 4-203 4-161 (183)
12 cd01475 vWA_Matrilin VWA_Matri 98.8 1.4E-07 3.1E-12 98.0 16.4 150 3-200 2-155 (224)
13 cd01476 VWA_integrin_invertebr 98.8 3.3E-07 7.2E-12 89.6 17.9 151 4-200 1-154 (163)
14 cd01477 vWA_F09G8-8_type VWA F 98.7 4.2E-07 9E-12 93.4 15.5 160 3-200 19-185 (193)
15 PF00092 VWA: von Willebrand f 98.7 4.4E-07 9.5E-12 88.6 14.3 150 5-198 1-154 (178)
16 cd01471 vWA_micronemal_protein 98.7 6.2E-07 1.4E-11 89.9 15.6 141 4-188 1-146 (186)
17 cd00198 vWFA Von Willebrand fa 98.6 2.2E-06 4.8E-11 80.4 15.7 137 4-188 1-140 (161)
18 smart00187 INB Integrin beta s 98.5 3.4E-06 7.3E-11 95.4 16.5 172 4-198 100-310 (423)
19 cd01467 vWA_BatA_type VWA BatA 98.5 3.5E-06 7.6E-11 83.6 14.5 136 3-188 2-141 (180)
20 cd01452 VWA_26S_proteasome_sub 98.4 1.1E-05 2.4E-10 82.8 17.1 148 5-202 5-163 (187)
21 PF13768 VWA_3: von Willebrand 98.4 5.3E-06 1.2E-10 80.7 13.0 107 4-136 1-108 (155)
22 smart00327 VWA von Willebrand 98.3 2.2E-05 4.8E-10 76.0 16.9 140 3-189 1-144 (177)
23 cd01463 vWA_VGCC_like VWA Volt 98.3 8.7E-06 1.9E-10 82.4 14.4 116 4-136 14-135 (190)
24 COG1240 ChlD Mg-chelatase subu 98.3 9.2E-06 2E-10 86.4 14.9 157 4-204 79-241 (261)
25 cd01456 vWA_ywmD_type VWA ywmD 98.3 1.9E-05 4.2E-10 80.9 16.7 149 4-203 21-195 (206)
26 cd01470 vWA_complement_factors 98.3 9.9E-06 2.1E-10 82.4 14.3 122 4-137 1-125 (198)
27 PTZ00441 sporozoite surface pr 98.3 1.1E-05 2.4E-10 94.3 15.6 138 3-188 42-187 (576)
28 PRK13685 hypothetical protein; 98.3 3.2E-05 7E-10 85.3 17.9 158 4-203 89-269 (326)
29 cd01465 vWA_subgroup VWA subgr 98.2 2.4E-05 5.2E-10 76.5 14.7 150 4-203 1-156 (170)
30 cd01454 vWA_norD_type norD typ 98.2 4.5E-05 9.8E-10 76.0 14.9 157 5-200 2-169 (174)
31 cd01451 vWA_Magnesium_chelatas 98.2 0.00011 2.3E-09 73.8 17.5 154 6-204 3-161 (178)
32 TIGR03436 acidobact_VWFA VWFA- 98.2 5.3E-05 1.2E-09 81.9 16.3 152 4-203 54-234 (296)
33 cd01461 vWA_interalpha_trypsin 98.1 4E-05 8.6E-10 74.9 13.7 148 3-203 2-155 (171)
34 cd01466 vWA_C3HC4_type VWA C3H 98.1 3.7E-05 7.9E-10 75.6 13.3 145 4-203 1-150 (155)
35 cd01464 vWA_subfamily VWA subf 98.1 1.9E-05 4E-10 79.0 11.4 119 1-137 1-120 (176)
36 cd01458 vWA_ku Ku70/Ku80 N-ter 98.0 4.5E-05 9.7E-10 79.2 12.2 153 5-188 3-171 (218)
37 PRK13406 bchD magnesium chelat 98.0 0.00014 3.1E-09 86.4 17.0 160 3-203 401-563 (584)
38 TIGR02031 BchD-ChlD magnesium 98.0 0.00014 3.1E-09 86.5 16.2 165 3-203 407-576 (589)
39 cd01462 VWA_YIEM_type VWA YIEM 97.8 0.00051 1.1E-08 66.7 14.7 104 4-134 1-104 (152)
40 TIGR02442 Cob-chelat-sub cobal 97.8 0.00044 9.5E-09 83.1 16.3 158 3-203 465-628 (633)
41 PF00362 Integrin_beta: Integr 97.8 0.0002 4.2E-09 82.2 12.6 172 4-198 103-313 (426)
42 TIGR00868 hCaCC calcium-activa 97.6 0.0013 2.8E-08 81.0 16.4 106 3-136 304-416 (863)
43 cd01460 vWA_midasin VWA_Midasi 97.6 0.00092 2E-08 72.4 13.4 138 3-190 60-205 (266)
44 TIGR03788 marine_srt_targ mari 97.5 0.00089 1.9E-08 79.8 14.0 107 4-135 272-380 (596)
45 PF03731 Ku_N: Ku70/Ku80 N-ter 97.4 0.003 6.6E-08 65.5 14.9 143 6-186 2-171 (224)
46 PF04056 Ssl1: Ssl1-like; Int 97.3 0.0049 1.1E-07 63.9 14.0 160 9-230 1-167 (193)
47 cd01455 vWA_F11C1-5a_type Von 97.2 0.0057 1.2E-07 63.3 13.6 153 4-201 1-166 (191)
48 cd01457 vWA_ORF176_type VWA OR 97.2 0.0062 1.3E-07 62.4 13.5 111 3-138 2-121 (199)
49 COG4245 TerY Uncharacterized p 97.0 0.0039 8.5E-08 64.0 10.1 157 1-201 1-163 (207)
50 PF04811 Sec23_trunk: Sec23/Se 97.0 0.014 3E-07 61.8 13.9 117 76-204 95-220 (243)
51 KOG3598 Thyroid hormone recept 96.8 0.00044 9.6E-09 85.8 1.4 23 176-201 1709-1731(2220)
52 cd01468 trunk_domain trunk dom 96.1 0.15 3.1E-06 54.1 15.2 177 5-204 5-218 (239)
53 KOG3598 Thyroid hormone recept 95.9 0.0015 3.3E-08 81.4 -1.0 10 216-225 1729-1738(2220)
54 TIGR00578 ku70 ATP-dependent D 95.9 0.063 1.4E-06 64.3 12.5 149 5-186 12-180 (584)
55 cd01479 Sec24-like Sec24-like: 95.7 0.13 2.7E-06 55.1 12.7 177 5-204 5-215 (244)
56 PF11498 Activator_LAG-3: Tran 94.5 0.01 2.2E-07 65.6 0.0 12 792-803 431-442 (468)
57 KOG2807 RNA polymerase II tran 94.1 1.3 2.7E-05 49.3 14.6 150 4-202 61-217 (378)
58 PF05762 VWA_CoxE: VWA domain 93.9 0.44 9.6E-06 50.2 10.7 129 5-188 59-188 (222)
59 PF06707 DUF1194: Protein of u 93.8 1.2 2.5E-05 47.0 13.3 158 3-201 3-173 (205)
60 PRK10997 yieM hypothetical pro 93.2 1.2 2.7E-05 52.4 13.6 144 4-200 324-470 (487)
61 COG5148 RPN10 26S proteasome r 92.3 2.2 4.9E-05 44.3 12.4 160 6-223 6-171 (243)
62 cd01478 Sec23-like Sec23-like: 91.8 2.8 6E-05 45.7 13.5 115 80-203 120-249 (267)
63 PF10138 vWA-TerF-like: vWA fo 91.5 4 8.6E-05 43.0 13.5 146 3-199 1-155 (200)
64 KOG1226 Integrin beta subunit 91.3 1.1 2.5E-05 54.4 10.6 175 4-198 133-342 (783)
65 PF11235 Med25_SD1: Mediator c 91.2 0.27 5.9E-06 48.9 4.4 77 239-322 9-97 (168)
66 KOG1984 Vesicle coat complex C 90.8 2.8 6.1E-05 51.8 13.2 164 4-190 418-614 (1007)
67 PTZ00395 Sec24-related protein 89.2 1.8 3.9E-05 55.8 10.2 162 5-189 954-1155(1560)
68 PLN00162 transport protein sec 86.6 7.7 0.00017 48.3 13.5 37 168-204 331-371 (761)
69 KOG2884 26S proteasome regulat 86.6 17 0.00036 38.9 13.8 177 6-238 6-188 (259)
70 KOG2353 L-type voltage-depende 86.1 3.9 8.4E-05 52.5 10.6 190 3-241 225-419 (1104)
71 COG5151 SSL1 RNA polymerase II 86.0 15 0.00033 40.9 13.7 190 4-254 88-287 (421)
72 TIGR00627 tfb4 transcription f 86.0 9.4 0.0002 42.1 12.3 84 94-203 117-203 (279)
73 PF09967 DUF2201: VWA-like dom 85.6 2.2 4.9E-05 41.2 6.6 77 6-104 1-78 (126)
74 COG2425 Uncharacterized protei 81.1 10 0.00022 44.4 10.5 88 4-109 273-360 (437)
75 PF03850 Tfb4: Transcription f 80.1 20 0.00044 39.5 12.0 167 6-203 4-201 (276)
76 KOG3768 DEAD box RNA helicase 78.0 4.5 9.8E-05 48.2 6.4 87 6-103 4-98 (888)
77 COG1721 Uncharacterized conser 72.2 31 0.00068 39.8 11.4 74 3-92 224-303 (416)
78 TIGR01651 CobT cobaltochelatas 62.6 65 0.0014 39.2 11.5 64 99-185 499-563 (600)
79 TIGR00620 sporelyase spore pho 55.4 55 0.0012 34.6 8.3 133 24-204 8-147 (199)
80 PF04285 DUF444: Protein of un 51.9 1.5E+02 0.0033 34.8 12.0 135 3-192 246-383 (421)
81 TIGR02877 spore_yhbH sporulati 51.0 1.6E+02 0.0035 34.0 11.7 143 2-199 201-345 (371)
82 COG5028 Vesicle coat complex C 47.5 2.1E+02 0.0045 36.0 12.4 170 4-200 277-477 (861)
83 KOG1781 Small Nuclear ribonucl 47.1 31 0.00067 32.4 4.4 47 11-59 39-86 (108)
84 PF11232 Med25: Mediator compl 45.5 8.5 0.00018 38.9 0.6 119 566-695 6-137 (152)
85 KOG1985 Vesicle coat complex C 43.9 1.5E+02 0.0032 37.4 10.6 193 4-221 295-520 (887)
86 TIGR00670 asp_carb_tr aspartat 43.8 86 0.0019 35.0 8.2 93 61-190 94-187 (301)
87 PF11775 CobT_C: Cobalamin bio 41.2 2E+02 0.0042 31.1 9.9 32 4-35 13-47 (219)
88 PRK05325 hypothetical protein; 40.9 3.7E+02 0.008 31.5 12.8 144 2-200 221-368 (401)
89 PRK02102 ornithine carbamoyltr 39.6 93 0.002 35.3 7.7 92 61-190 100-191 (331)
90 KOG4369 RTK signaling protein 38.8 12 0.00026 47.9 0.6 18 88-105 1035-1053(2131)
91 KOG0070 GTP-binding ADP-ribosy 38.0 75 0.0016 33.2 6.1 84 5-110 87-174 (181)
92 PLN02342 ornithine carbamoyltr 34.4 1.2E+02 0.0026 34.6 7.6 101 61-200 139-239 (348)
93 PRK14804 ornithine carbamoyltr 34.2 1.6E+02 0.0034 33.1 8.3 94 61-191 96-189 (311)
94 KOG2326 DNA-binding subunit of 34.1 1.5E+02 0.0032 36.2 8.4 145 3-185 4-162 (669)
95 PRK00779 ornithine carbamoyltr 34.0 1.4E+02 0.0031 33.2 8.0 91 61-190 97-187 (304)
96 KOG4369 RTK signaling protein 32.9 41 0.00088 43.5 3.7 7 569-575 1672-1678(2131)
97 PRK14805 ornithine carbamoyltr 32.8 1.6E+02 0.0034 33.0 8.0 92 61-191 92-183 (302)
98 PRK00856 pyrB aspartate carbam 31.2 1.4E+02 0.003 33.5 7.3 93 61-190 99-193 (305)
99 TIGR03316 ygeW probable carbam 30.4 1.9E+02 0.0041 33.3 8.3 110 61-199 96-221 (357)
100 COG3424 BcsA Predicted naringe 30.3 79 0.0017 35.7 5.0 82 15-111 68-154 (356)
101 PRK13814 pyrB aspartate carbam 29.8 1.4E+02 0.003 33.5 7.0 91 64-190 103-195 (310)
102 PRK04284 ornithine carbamoyltr 28.6 2E+02 0.0044 32.6 8.1 92 61-190 99-191 (332)
103 TIGR00658 orni_carb_tr ornithi 27.1 2.2E+02 0.0047 31.8 7.9 90 62-190 94-183 (304)
104 COG2304 Uncharacterized protei 26.7 5.2E+02 0.011 28.8 11.0 93 4-110 38-131 (399)
105 COG2718 Uncharacterized conser 26.4 2.3E+02 0.0051 33.0 7.9 133 5-192 247-383 (423)
106 cd01459 vWA_copine_like VWA Co 25.9 4.6E+02 0.01 28.7 10.0 15 3-17 31-45 (254)
107 COG4867 Uncharacterized protei 24.9 4.8E+02 0.01 31.0 10.0 149 4-198 464-620 (652)
108 PHA02030 hypothetical protein 24.3 2.3E+02 0.005 31.9 7.1 75 28-106 45-150 (336)
109 COG4548 NorD Nitric oxide redu 24.0 84 0.0018 37.8 4.1 50 123-189 551-600 (637)
110 PF12637 TSCPD: TSCPD domain; 22.7 1E+02 0.0022 28.6 3.6 33 73-105 54-94 (95)
111 PRK07200 aspartate/ornithine c 21.4 3.3E+02 0.0072 31.7 8.2 99 61-190 113-229 (395)
112 cd01979 Pchlide_reductase_N Pc 21.4 3.3E+02 0.0071 31.3 8.2 28 167-196 168-195 (396)
113 PLN02527 aspartate carbamoyltr 21.3 3.6E+02 0.0079 30.2 8.3 92 62-190 96-189 (306)
114 PF04407 DUF531: Protein of un 20.5 8.3E+02 0.018 25.4 9.7 34 166-201 107-142 (173)
115 PRK01713 ornithine carbamoyltr 20.1 3.3E+02 0.0072 30.9 7.7 93 61-190 100-192 (334)
116 cd04132 Rho4_like Rho4-like su 20.0 3.3E+02 0.0072 26.8 7.0 28 3-32 72-100 (187)
No 1
>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=100.00 E-value=3.8e-65 Score=524.57 Aligned_cols=209 Identities=43% Similarity=0.703 Sum_probs=192.7
Q ss_pred CccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccC---CccEEEEEEeecCCCccccceeeccCCCCHHHH
Q 003297 3 EKQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSA---SNVELSLVTFNTHGSYCACLVQRSGWTKDVDIF 79 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g---~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~f 79 (833)
++|||||||+||+||+||++||+|||+|++|||+++++.|++++ .+++||||+||+||||++++|++++||+|+++|
T Consensus 13 ~~~vVfvvEgTAalgpy~~~Lkt~Yl~P~le~f~~g~~~e~~~~~~~~~t~y~LVvf~t~d~~~~~~v~~~g~T~~~~~f 92 (226)
T PF11265_consen 13 QAQVVFVVEGTAALGPYWNTLKTNYLDPILEYFNGGPIAERDFGGDYSNTEYGLVVFNTADCYPEPIVQRSGPTSSPQKF 92 (226)
T ss_pred cceEEEEEecchhhhhhHHHHHHHHHHHHHHHhcCCCcccccccccCCCceEEEEEEeccCCCcccceeccCCcCCHHHH
Confidence 58999999999999999999999999999999999999999973 479999999999999999999999999999999
Q ss_pred HHHHccCccCCCCCch-hHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchh
Q 003297 80 LHWLSTIPFAGGGFND-AAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNE 158 (833)
Q Consensus 80 l~~Ld~I~f~GGG~~~-~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~ 158 (833)
++|||+|+|.|||+++ ++|+|||++||+|||+.+..++...+.+.+||||||||||||++|+.. .+.
T Consensus 93 l~~L~~I~f~GGG~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nSpP~~~p~~~------------~~~ 160 (226)
T PF11265_consen 93 LQWLDAIQFSGGGFESCAAIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNSPPYRLPVNE------------CPQ 160 (226)
T ss_pred HHHHHccCcCCCCcccchhHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCCCCccccccC------------CCc
Confidence 9999999999999875 559999999999999888776666777799999999999999999732 222
Q ss_pred hhhcccCCCHHHHHHHHhhcCcEEEEeccCcchhHHHHHHHhcCCCCC-CCCCCCCCCCCCeEEEeeccc
Q 003297 159 AQAESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAIYNAAKRNPRA-ADPPVDNSKNPHFLVLISENF 227 (833)
Q Consensus 159 ~~~~~~l~d~e~la~~~~e~~I~LSvIsPrklp~l~~lf~ka~~~~~~-~~~~~~~ak~p~hlVLlsg~~ 227 (833)
+ +..++|++|.++.||+|+||||||||+|+|++||||+++|.++ +++++||||||||||||||+|
T Consensus 161 ~----~~~~~d~la~~~~~~~I~LSiisPrklP~l~~Lfeka~~~~~~~~~~~~~~ak~p~hlVLl~g~~ 226 (226)
T PF11265_consen 161 Y----SGKTCDQLAVLISERNISLSIISPRKLPSLRSLFEKAKGNPRAAADPSKDYAKDPRHLVLLRGYF 226 (226)
T ss_pred c----cCCCHHHHHHHHHhcCceEEEEcCccCHHHHHHHHhcCCCcccccccccccccCCCeEEEeecCC
Confidence 2 2348899999999999999999999999999999999999998 699999999999999999986
No 2
>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=99.12 E-value=2.2e-09 Score=108.34 Aligned_cols=151 Identities=9% Similarity=0.214 Sum_probs=108.7
Q ss_pred CccEEEEEeCCccch-HhHHHHHHHHHHHHHHHhhcc---cCccCccCCccEEEEEEeecCCCccccceeeccCC---CC
Q 003297 3 EKQLIVAVEGTAAMG-PYWQSIVSDYLEKIIRCFCVN---ELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWT---KD 75 (833)
Q Consensus 3 ~~dvVFVID~Tasmg-~y~~~lkt~YI~p~le~f~~~---~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT---~d 75 (833)
..|||||||+++||+ ..|+.+| +++..+++.|... .+.+ ...|+|||.|.+... ..+.|+ .|
T Consensus 2 ~~dvv~vlD~S~Sm~~~~~~~~k-~~~~~~~~~l~~~~~~~i~~----~~~rvglv~fs~~~~------~~~~l~~~~~~ 70 (186)
T cd01480 2 PVDITFVLDSSESVGLQNFDITK-NFVKRVAERFLKDYYRKDPA----GSWRVGVVQYSDQQE------VEAGFLRDIRN 70 (186)
T ss_pred CeeEEEEEeCCCccchhhHHHHH-HHHHHHHHHHhhhhccCCCC----CceEEEEEEecCCce------eeEecccccCC
Confidence 369999999999999 6777664 6677777777431 1111 147999999997643 345555 78
Q ss_pred HHHHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCcccccccc
Q 003297 76 VDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNE 155 (833)
Q Consensus 76 ~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e 155 (833)
...+++.|++|.+.||| -++.+||..|++.+.+. ......|++||++|..+.....
T Consensus 71 ~~~l~~~i~~l~~~gg~---T~~~~AL~~a~~~l~~~-------~~~~~~~~iillTDG~~~~~~~-------------- 126 (186)
T cd01480 71 YTSLKEAVDNLEYIGGG---TFTDCALKYATEQLLEG-------SHQKENKFLLVITDGHSDGSPD-------------- 126 (186)
T ss_pred HHHHHHHHHhCccCCCC---ccHHHHHHHHHHHHhcc-------CCCCCceEEEEEeCCCcCCCcc--------------
Confidence 99999999999987776 57889999999877541 1235689999999887643211
Q ss_pred chhhhhcccCCCHHHHHHHHhhcCcEEEEeccCc--chhHHHHHH
Q 003297 156 NNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQ--LPKLTAIYN 198 (833)
Q Consensus 156 ~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrk--lp~l~~lf~ 198 (833)
.+.+..++.+.++||.++.|.-.. ...|++|-+
T Consensus 127 ----------~~~~~~~~~~~~~gi~i~~vgig~~~~~~L~~IA~ 161 (186)
T cd01480 127 ----------GGIEKAVNEADHLGIKIFFVAVGSQNEEPLSRIAC 161 (186)
T ss_pred ----------hhHHHHHHHHHHCCCEEEEEecCccchHHHHHHHc
Confidence 145778888999999999988765 233444433
No 3
>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=99.02 E-value=1.4e-08 Score=99.85 Aligned_cols=151 Identities=13% Similarity=0.247 Sum_probs=104.4
Q ss_pred ccEEEEEeCCccchH-hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHH
Q 003297 4 KQLIVAVEGTAAMGP-YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHW 82 (833)
Q Consensus 4 ~dvVFVID~Tasmg~-y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~ 82 (833)
+|||||||++++|.. .|+.+| +.+..+++.|.... .+.|+|||+|.+... .+..+....|...++..
T Consensus 1 ~Dvv~vlD~SgSm~~~~~~~~k-~~~~~~~~~l~~~~-------~~~~~giv~Fs~~~~----~~~~~~~~~~~~~~~~~ 68 (164)
T cd01472 1 ADIVFLVDGSESIGLSNFNLVK-DFVKRVVERLDIGP-------DGVRVGVVQYSDDPR----TEFYLNTYRSKDDVLEA 68 (164)
T ss_pred CCEEEEEeCCCCCCHHHHHHHH-HHHHHHHhhcccCC-------CCeEEEEEEEcCcee----EEEecCCCCCHHHHHHH
Confidence 599999999999999 666665 56777777775211 147999999997743 11222234889999999
Q ss_pred HccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhc
Q 003297 83 LSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAE 162 (833)
Q Consensus 83 Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~ 162 (833)
|+++.+.||+ -++.+||..|.+.+.+... .......|++|||+|.-+..
T Consensus 69 l~~l~~~~g~---T~~~~al~~a~~~l~~~~~----~~~~~~~~~iiliTDG~~~~------------------------ 117 (164)
T cd01472 69 VKNLRYIGGG---TNTGKALKYVRENLFTEAS----GSREGVPKVLVVITDGKSQD------------------------ 117 (164)
T ss_pred HHhCcCCCCC---chHHHHHHHHHHHhCCccc----CCCCCCCEEEEEEcCCCCCc------------------------
Confidence 9999987555 4688999999987754210 11234678999999883310
Q ss_pred ccCCCHHHHHHHHhhcCcEEEEeccC--cchhHHHHHHHhc
Q 003297 163 SRLSDAETVAKSFVQCSVSLSVICPK--QLPKLTAIYNAAK 201 (833)
Q Consensus 163 ~~l~d~e~la~~~~e~~I~LSvIsPr--klp~l~~lf~ka~ 201 (833)
+.+..+..+.+++|+++.|.-. ....|++|.+..+
T Consensus 118 ----~~~~~~~~l~~~gv~i~~ig~g~~~~~~L~~ia~~~~ 154 (164)
T cd01472 118 ----DVEEPAVELKQAGIEVFAVGVKNADEEELKQIASDPK 154 (164)
T ss_pred ----hHHHHHHHHHHCCCEEEEEECCcCCHHHHHHHHCCCc
Confidence 1234556677899999998654 3555666655444
No 4
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=99.01 E-value=2.2e-09 Score=103.44 Aligned_cols=144 Identities=17% Similarity=0.225 Sum_probs=103.0
Q ss_pred cEEEEEeCCccchHh------HHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHH
Q 003297 5 QLIVAVEGTAAMGPY------WQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDI 78 (833)
Q Consensus 5 dvVFVID~Tasmg~y------~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~ 78 (833)
|||||||.|+||..+ |+.+| +.+..+++.+. ..+|+||.|.+.. -..++||.|..+
T Consensus 1 dvv~v~D~SgSM~~~~~~~~~~~~~~-~~~~~~~~~~~-----------~~~v~l~~f~~~~------~~~~~~t~~~~~ 62 (172)
T PF13519_consen 1 DVVFVLDNSGSMNGYDGNRTRIDQAK-DALNELLANLP-----------GDRVGLVSFSDSS------RTLSPLTSDKDE 62 (172)
T ss_dssp EEEEEEE-SGGGGTTTSSS-HHHHHH-HHHHHHHHHHT-----------TSEEEEEEESTSC------EEEEEEESSHHH
T ss_pred CEEEEEECCcccCCCCCCCcHHHHHH-HHHHHHHHHCC-----------CCEEEEEEecccc------cccccccccHHH
Confidence 899999999999999 66665 44455666542 1499999999853 235578899999
Q ss_pred HHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchh
Q 003297 79 FLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNE 158 (833)
Q Consensus 79 fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~ 158 (833)
|.++|+++...+.......+.+||.+|+++|++.+ ...|++|||+|..|.
T Consensus 63 ~~~~l~~~~~~~~~~~~t~~~~al~~a~~~~~~~~---------~~~~~iv~iTDG~~~--------------------- 112 (172)
T PF13519_consen 63 LKNALNKLSPQGMPGGGTNLYDALQEAAKMLASSD---------NRRRAIVLITDGEDN--------------------- 112 (172)
T ss_dssp HHHHHHTHHHHG--SSS--HHHHHHHHHHHHHC-S---------SEEEEEEEEES-TTH---------------------
T ss_pred HHHHhhcccccccCccCCcHHHHHHHHHHHHHhCC---------CCceEEEEecCCCCC---------------------
Confidence 99999999976555556899999999999998632 356899999987443
Q ss_pred hhhcccCCCHHHHHHHHhhcCcEEEEeccCc--c--hhHHHHHHHhcCC
Q 003297 159 AQAESRLSDAETVAKSFVQCSVSLSVICPKQ--L--PKLTAIYNAAKRN 203 (833)
Q Consensus 159 ~~~~~~l~d~e~la~~~~e~~I~LSvIsPrk--l--p~l~~lf~ka~~~ 203 (833)
.+...+++.+.+++|++.+|.-.. - ..|+.|.+..++.
T Consensus 113 -------~~~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~ 154 (172)
T PF13519_consen 113 -------SSDIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGR 154 (172)
T ss_dssp -------CHHHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEE
T ss_pred -------cchhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCE
Confidence 123448888999999999965443 2 4578887766543
No 5
>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=99.00 E-value=1.3e-08 Score=97.61 Aligned_cols=150 Identities=15% Similarity=0.239 Sum_probs=107.0
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCC--HHHHHH
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKD--VDIFLH 81 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d--~~~fl~ 81 (833)
.||+||||+|++|...|-..-+..+..+++.|.... .+.+++||.|.+... ..+.|+++ ..++.+
T Consensus 1 ~di~~llD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~li~f~~~~~------~~~~~~~~~~~~~~~~ 67 (161)
T cd01450 1 LDIVFLLDGSESVGPENFEKVKDFIEKLVEKLDIGP-------DKTRVGLVQYSDDVR------VEFSLNDYKSKDDLLK 67 (161)
T ss_pred CcEEEEEeCCCCcCHHHHHHHHHHHHHHHHheeeCC-------CceEEEEEEEcCCce------EEEECCCCCCHHHHHH
Confidence 499999999999998433444556677777776422 247999999998532 23444444 899999
Q ss_pred HHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhh
Q 003297 82 WLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQA 161 (833)
Q Consensus 82 ~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~ 161 (833)
+|+++...+| +...+.|||..|++.+.+... ......|++|||+|..++...
T Consensus 68 ~i~~~~~~~~--~~t~~~~al~~a~~~~~~~~~-----~~~~~~~~iiliTDG~~~~~~--------------------- 119 (161)
T cd01450 68 AVKNLKYLGG--GGTNTGKALQYALEQLFSESN-----ARENVPKVIIVLTDGRSDDGG--------------------- 119 (161)
T ss_pred HHHhcccCCC--CCccHHHHHHHHHHHhccccc-----ccCCCCeEEEEECCCCCCCCc---------------------
Confidence 9999988766 457889999999988764321 123567899999998775321
Q ss_pred cccCCCHHHHHHHHhhcCcEEEEeccCc--chhHHHHHHH
Q 003297 162 ESRLSDAETVAKSFVQCSVSLSVICPKQ--LPKLTAIYNA 199 (833)
Q Consensus 162 ~~~l~d~e~la~~~~e~~I~LSvIsPrk--lp~l~~lf~k 199 (833)
+.+.+++.+.+++|.+++|.=.. ...|++|-.+
T Consensus 120 -----~~~~~~~~~~~~~v~v~~i~~g~~~~~~l~~la~~ 154 (161)
T cd01450 120 -----DPKEAAAKLKDEGIKVFVVGVGPADEEELREIASC 154 (161)
T ss_pred -----chHHHHHHHHHCCCEEEEEeccccCHHHHHHHhCC
Confidence 35788999999999999976653 3344444443
No 6
>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=98.99 E-value=2.8e-08 Score=99.16 Aligned_cols=149 Identities=15% Similarity=0.293 Sum_probs=106.2
Q ss_pred ccEEEEEeCCccch-HhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHH
Q 003297 4 KQLIVAVEGTAAMG-PYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHW 82 (833)
Q Consensus 4 ~dvVFVID~Tasmg-~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~ 82 (833)
+||||+||++++++ ..|+.+| ++|..+++.|.-++ ..+|+|||.|.+... .++ .+....|..+++..
T Consensus 1 ~DivfllD~S~Si~~~~f~~~k-~fi~~lv~~f~i~~-------~~~rVgvv~ys~~~~-~~~---~l~~~~~~~~l~~~ 68 (165)
T cd01481 1 KDIVFLIDGSDNVGSGNFPAIR-DFIERIVQSLDVGP-------DKIRVAVVQFSDTPR-PEF---YLNTHSTKADVLGA 68 (165)
T ss_pred CCEEEEEeCCCCcCHHHHHHHH-HHHHHHHhhccCCC-------CCcEEEEEEecCCee-EEE---eccccCCHHHHHHH
Confidence 69999999999999 7777775 77899999996422 148999999987642 111 23345578999999
Q ss_pred HccCccCCCCCchhHHHHHHHHHHh-ccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhh
Q 003297 83 LSTIPFAGGGFNDAAIAEGLSEALM-MFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQA 161 (833)
Q Consensus 83 Ld~I~f~GGG~~~~AvaEGLa~AL~-~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~ 161 (833)
|++|++.||+. ..+.+||..+.+ +|... ... ..+..+.|..|||+|-..+.
T Consensus 69 i~~i~~~~g~~--t~t~~AL~~~~~~~f~~~-~g~--R~~~~~~kv~vviTdG~s~d----------------------- 120 (165)
T cd01481 69 VRRLRLRGGSQ--LNTGSALDYVVKNLFTKS-AGS--RIEEGVPQFLVLITGGKSQD----------------------- 120 (165)
T ss_pred HHhcccCCCCc--ccHHHHHHHHHHhhcCcc-ccC--CccCCCCeEEEEEeCCCCcc-----------------------
Confidence 99999997743 356788888775 55421 111 11235678999998765431
Q ss_pred cccCCCHHHHHHHHhhcCcEEEEeccCcchhHHHHHH
Q 003297 162 ESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAIYN 198 (833)
Q Consensus 162 ~~~l~d~e~la~~~~e~~I~LSvIsPrklp~l~~lf~ 198 (833)
|.+..|+.+.+.||.+..|.-.. ....+|-+
T Consensus 121 -----~~~~~a~~lr~~gv~i~~vG~~~-~~~~eL~~ 151 (165)
T cd01481 121 -----DVERPAVALKRAGIVPFAIGARN-ADLAELQQ 151 (165)
T ss_pred -----hHHHHHHHHHHCCcEEEEEeCCc-CCHHHHHH
Confidence 45778999999999999998763 23444444
No 7
>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=98.97 E-value=4e-08 Score=97.01 Aligned_cols=162 Identities=14% Similarity=0.257 Sum_probs=109.6
Q ss_pred ccEEEEEeCCccchH-hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHH
Q 003297 4 KQLIVAVEGTAAMGP-YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHW 82 (833)
Q Consensus 4 ~dvVFVID~Tasmg~-y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~ 82 (833)
+|||||||++++|+. .|+.+| .++..+++.|.-+. ...|||||.|.+... .. -.+.-+.+..+++..
T Consensus 1 ~Dv~~vlD~S~Sm~~~~~~~~k-~~~~~l~~~~~~~~-------~~~rvgli~fs~~~~---~~-~~l~~~~~~~~l~~~ 68 (164)
T cd01482 1 ADIVFLVDGSWSIGRSNFNLVR-SFLSSVVEAFEIGP-------DGVQVGLVQYSDDPR---TE-FDLNAYTSKEDVLAA 68 (164)
T ss_pred CCEEEEEeCCCCcChhhHHHHH-HHHHHHHhheeeCC-------CceEEEEEEECCCee---EE-EecCCCCCHHHHHHH
Confidence 699999999999984 776654 45667777763211 248999999999742 11 122334678999999
Q ss_pred HccCccCCCCCchhHHHHHHHHHHhc-cccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhh
Q 003297 83 LSTIPFAGGGFNDAAIAEGLSEALMM-FSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQA 161 (833)
Q Consensus 83 Ld~I~f~GGG~~~~AvaEGLa~AL~~-f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~ 161 (833)
|++|.+.||+ -.+.+||..|++. |.... .......|.+||++|..+..
T Consensus 69 l~~~~~~~g~---T~~~~aL~~a~~~~~~~~~-----~~r~~~~k~iillTDG~~~~----------------------- 117 (164)
T cd01482 69 IKNLPYKGGN---TRTGKALTHVREKNFTPDA-----GARPGVPKVVILITDGKSQD----------------------- 117 (164)
T ss_pred HHhCcCCCCC---ChHHHHHHHHHHHhccccc-----CCCCCCCEEEEEEcCCCCCc-----------------------
Confidence 9999998776 3688899888864 43211 11234678889998876431
Q ss_pred cccCCCHHHHHHHHhhcCcEEEEeccCcchhHHHHHHHhcCCCCCCCCCCCCCCCCCeEEEeecc
Q 003297 162 ESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAIYNAAKRNPRAADPPVDNSKNPHFLVLISEN 226 (833)
Q Consensus 162 ~~~l~d~e~la~~~~e~~I~LSvIsPrklp~l~~lf~ka~~~~~~~~~~~~~ak~p~hlVLlsg~ 226 (833)
|.+..|+.+.+.||.+++|.=.. ...+.|-+-|+.. +-.|+..++.|
T Consensus 118 -----~~~~~a~~lk~~gi~i~~ig~g~-~~~~~L~~ia~~~------------~~~~~~~~~d~ 164 (164)
T cd01482 118 -----DVELPARVLRNLGVNVFAVGVKD-ADESELKMIASKP------------SETHVFNVADF 164 (164)
T ss_pred -----hHHHHHHHHHHCCCEEEEEecCc-CCHHHHHHHhCCC------------chheEEEcCCC
Confidence 45678999999999999987654 3344444433321 12488877765
No 8
>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=98.94 E-value=5.6e-08 Score=97.58 Aligned_cols=140 Identities=11% Similarity=0.156 Sum_probs=101.2
Q ss_pred ccEEEEEeCCccchH-hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHH
Q 003297 4 KQLIVAVEGTAAMGP-YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHW 82 (833)
Q Consensus 4 ~dvVFVID~Tasmg~-y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~ 82 (833)
.|||||||++++|++ .|+.+| .++..+++.|.-++ ...|+|||.|.+... ..-.+.-..+...+++.
T Consensus 1 ~Di~fvlD~S~S~~~~~f~~~k-~fi~~~i~~l~~~~-------~~~rvgvv~fs~~~~----~~~~l~~~~~~~~~~~~ 68 (177)
T cd01469 1 MDIVFVLDGSGSIYPDDFQKVK-NFLSTVMKKLDIGP-------TKTQFGLVQYSESFR----TEFTLNEYRTKEEPLSL 68 (177)
T ss_pred CcEEEEEeCCCCCCHHHHHHHH-HHHHHHHHHcCcCC-------CCcEEEEEEECCcee----EEEecCccCCHHHHHHH
Confidence 499999999999997 777655 56788888886422 147999999999842 11122334467789999
Q ss_pred HccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhc
Q 003297 83 LSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAE 162 (833)
Q Consensus 83 Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~ 162 (833)
++.+.+.||+ .++.+||..|+..+..... ..+....|.+|||+|...+.-.
T Consensus 69 i~~~~~~~g~---T~~~~AL~~a~~~l~~~~~----g~R~~~~kv~illTDG~~~~~~---------------------- 119 (177)
T cd01469 69 VKHISQLLGL---TNTATAIQYVVTELFSESN----GARKDATKVLVVITDGESHDDP---------------------- 119 (177)
T ss_pred HHhCccCCCC---ccHHHHHHHHHHHhcCccc----CCCCCCCeEEEEEeCCCCCCcc----------------------
Confidence 9999988776 8889999999976421111 1223568899999988776422
Q ss_pred ccCCCHHHHHHHHhhcCcEEEEeccC
Q 003297 163 SRLSDAETVAKSFVQCSVSLSVICPK 188 (833)
Q Consensus 163 ~~l~d~e~la~~~~e~~I~LSvIsPr 188 (833)
+.+.+++.+.+.||.++.|.=-
T Consensus 120 ----~~~~~~~~~k~~gv~v~~Vgvg 141 (177)
T cd01469 120 ----LLKDVIPQAEREGIIRYAIGVG 141 (177)
T ss_pred ----ccHHHHHHHHHCCcEEEEEEec
Confidence 1266888889999999997654
No 9
>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=98.90 E-value=7e-08 Score=98.67 Aligned_cols=154 Identities=17% Similarity=0.288 Sum_probs=109.0
Q ss_pred ccEEEEEeCCccchHh-HHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCC----CHHH
Q 003297 4 KQLIVAVEGTAAMGPY-WQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTK----DVDI 78 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y-~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~----d~~~ 78 (833)
.||||+||++++|+.+ |+.-..+++..+++.|.-+. ..+|+|||.|.+... ..++|+. |-.+
T Consensus 1 ~Di~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~-------~~~rvgvv~fs~~~~------~~~~~~~~~~~~~~~ 67 (192)
T cd01473 1 YDLTLILDESASIGYSNWRKDVIPFTEKIINNLNISK-------DKVHVGILLFAEKNR------DVVPFSDEERYDKNE 67 (192)
T ss_pred CcEEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCC-------CccEEEEEEecCCce------eEEecCcccccCHHH
Confidence 4999999999999976 87656678899999987532 148999999998753 3344443 4567
Q ss_pred HHHHHccCc---cCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCcccccccc
Q 003297 79 FLHWLSTIP---FAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNE 155 (833)
Q Consensus 79 fl~~Ld~I~---f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e 155 (833)
+++.+++|. +.|| .-.+.+||..|++.|.... ..+....|..|||+|...+..-.
T Consensus 68 l~~~i~~l~~~~~~~g---~T~~~~AL~~a~~~~~~~~-----~~r~~~~kv~IllTDG~s~~~~~-------------- 125 (192)
T cd01473 68 LLKKINDLKNSYRSGG---ETYIVEALKYGLKNYTKHG-----NRRKDAPKVTMLFTDGNDTSASK-------------- 125 (192)
T ss_pred HHHHHHHHHhccCCCC---cCcHHHHHHHHHHHhccCC-----CCcccCCeEEEEEecCCCCCcch--------------
Confidence 888888774 3343 3457888888887764311 11234689999999887764210
Q ss_pred chhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcchhHHHHHHHhcCC
Q 003297 156 NNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAIYNAAKRN 203 (833)
Q Consensus 156 ~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrklp~l~~lf~ka~~~ 203 (833)
.+....|+.+.++||.+++|-=-. ....+|..-|+-+
T Consensus 126 ----------~~~~~~a~~lk~~gV~i~~vGiG~-~~~~el~~ia~~~ 162 (192)
T cd01473 126 ----------KELQDISLLYKEENVKLLVVGVGA-ASENKLKLLAGCD 162 (192)
T ss_pred ----------hhHHHHHHHHHHCCCEEEEEEecc-ccHHHHHHhcCCC
Confidence 145678999999999999987665 3466777766543
No 10
>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=98.85 E-value=5.9e-08 Score=97.70 Aligned_cols=137 Identities=18% Similarity=0.220 Sum_probs=94.5
Q ss_pred CccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHH
Q 003297 3 EKQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHW 82 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~ 82 (833)
..|||||||+++||+..|..++ +++..+++.|.. ...|+|||.|.+... ..++|+.+...+.+.
T Consensus 4 ~~Dvv~llD~SgSm~~~~~~~~-~~~~~l~~~~~~---------~~~rvglv~Fs~~~~------~~~~l~~~~~~~~~~ 67 (185)
T cd01474 4 HFDLYFVLDKSGSVAANWIEIY-DFVEQLVDRFNS---------PGLRFSFITFSTRAT------KILPLTDDSSAIIKG 67 (185)
T ss_pred ceeEEEEEeCcCchhhhHHHHH-HHHHHHHHHcCC---------CCcEEEEEEecCCce------EEEeccccHHHHHHH
Confidence 4899999999999999887665 778888888753 137999999997632 467788877766666
Q ss_pred HccCcc--CCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhh
Q 003297 83 LSTIPF--AGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQ 160 (833)
Q Consensus 83 Ld~I~f--~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~ 160 (833)
|+.|.. .|| .-++.+||..|++.+...... .....|++|||+|-.++.-..
T Consensus 68 l~~l~~~~~~g---~T~~~~aL~~a~~~l~~~~~~-----~r~~~~~villTDG~~~~~~~------------------- 120 (185)
T cd01474 68 LEVLKKVTPSG---QTYIHEGLENANEQIFNRNGG-----GRETVSVIIALTDGQLLLNGH------------------- 120 (185)
T ss_pred HHHHhccCCCC---CCcHHHHHHHHHHHHHhhccC-----CCCCCeEEEEEcCCCcCCCCC-------------------
Confidence 544432 233 367889999998655321110 111238999999887742110
Q ss_pred hcccCCCHHHHHHHHhhcCcEEEEecc
Q 003297 161 AESRLSDAETVAKSFVQCSVSLSVICP 187 (833)
Q Consensus 161 ~~~~l~d~e~la~~~~e~~I~LSvIsP 187 (833)
.++...|+.+.+.||.++.|.=
T Consensus 121 -----~~~~~~a~~l~~~gv~i~~vgv 142 (185)
T cd01474 121 -----KYPEHEAKLSRKLGAIVYCVGV 142 (185)
T ss_pred -----cchHHHHHHHHHcCCEEEEEee
Confidence 1345667888899999999865
No 11
>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=98.83 E-value=1.3e-07 Score=95.91 Aligned_cols=149 Identities=17% Similarity=0.244 Sum_probs=99.6
Q ss_pred ccEEEEEeCCccch------HhHHHHHHHHHHHHHHHh-hcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCH
Q 003297 4 KQLIVAVEGTAAMG------PYWQSIVSDYLEKIIRCF-CVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDV 76 (833)
Q Consensus 4 ~dvVFVID~Tasmg------~y~~~lkt~YI~p~le~f-~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~ 76 (833)
+|||||||.+.||. .-++..|.. +..+++.+ ...+ .-++|||+|++..+ ....++|.|.
T Consensus 4 r~ivi~lD~S~SM~a~D~~ptRl~~ak~~-~~~fi~~~~~~~~--------~~~vglv~f~~~~a-----~~~~PlT~D~ 69 (183)
T cd01453 4 RHLIIVIDCSRSMEEQDLKPSRLAVVLKL-LELFIEEFFDQNP--------ISQLGIISIKNGRA-----EKLTDLTGNP 69 (183)
T ss_pred eEEEEEEECcHHHhcCCCCchHHHHHHHH-HHHHHHHHhhcCc--------cccEEEEEEcCCcc-----EEEECCCCCH
Confidence 69999999999998 344544433 34444433 2211 24999999976644 2467889999
Q ss_pred HHHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCc-EEEEeecCCCCCCCCCcccCCcccccccc
Q 003297 77 DIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQR-HCILVAASNPHPLPTPVYRPQMQNLDQNE 155 (833)
Q Consensus 77 ~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk-~cILIa~SpP~~lp~pvy~p~~~~~~~~e 155 (833)
..|+..|+.+...+| ..++.+||..|+..|.... ....| ++||+++-. .+
T Consensus 70 ~~~~~~L~~~~~~~G---~t~l~~aL~~A~~~l~~~~--------~~~~~~iiil~sd~~------~~------------ 120 (183)
T cd01453 70 RKHIQALKTARECSG---EPSLQNGLEMALESLKHMP--------SHGSREVLIIFSSLS------TC------------ 120 (183)
T ss_pred HHHHHHhhcccCCCC---chhHHHHHHHHHHHHhcCC--------ccCceEEEEEEcCCC------cC------------
Confidence 999999998722222 3689999999999986421 12234 445554310 00
Q ss_pred chhhhhcccCCCHHHHHHHHhhcCcEEEEeccC-cchhHHHHHHHhcCC
Q 003297 156 NNEAQAESRLSDAETVAKSFVQCSVSLSVICPK-QLPKLTAIYNAAKRN 203 (833)
Q Consensus 156 ~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPr-klp~l~~lf~ka~~~ 203 (833)
...+.+.+++.+++.+|.+++|.=- ....|++|-++.++.
T Consensus 121 --------~~~~~~~~~~~l~~~~I~v~~IgiG~~~~~L~~ia~~tgG~ 161 (183)
T cd01453 121 --------DPGNIYETIDKLKKENIRVSVIGLSAEMHICKEICKATNGT 161 (183)
T ss_pred --------ChhhHHHHHHHHHHcCcEEEEEEechHHHHHHHHHHHhCCe
Confidence 0013467899999999999997654 256799999988765
No 12
>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=98.79 E-value=1.4e-07 Score=98.03 Aligned_cols=150 Identities=16% Similarity=0.222 Sum_probs=101.8
Q ss_pred CccEEEEEeCCccchH-hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccC--CCCHHHH
Q 003297 3 EKQLIVAVEGTAAMGP-YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGW--TKDVDIF 79 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~-y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gf--T~d~~~f 79 (833)
.+|||||||++++|+. .|+.+| +++..+++.|.-++ ..+|+|||.|.+-.- ..++| ..|..++
T Consensus 2 ~~DlvfllD~S~Sm~~~~~~~~k-~f~~~l~~~l~~~~-------~~~rvglv~fs~~~~------~~~~l~~~~~~~~l 67 (224)
T cd01475 2 PTDLVFLIDSSRSVRPENFELVK-QFLNQIIDSLDVGP-------DATRVGLVQYSSTVK------QEFPLGRFKSKADL 67 (224)
T ss_pred CccEEEEEeCCCCCCHHHHHHHH-HHHHHHHHhcccCC-------CccEEEEEEecCcee------EEecccccCCHHHH
Confidence 4799999999999996 566654 77788888886321 148999999998732 23344 4678899
Q ss_pred HHHHccCccCCCCCchhHHHHHHHHHHh-ccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchh
Q 003297 80 LHWLSTIPFAGGGFNDAAIAEGLSEALM-MFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNE 158 (833)
Q Consensus 80 l~~Ld~I~f~GGG~~~~AvaEGLa~AL~-~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~ 158 (833)
...|+.|.+.|||- .+.+||..|+. .|.... + -++......|.+|||+|..+..
T Consensus 68 ~~~i~~i~~~~~~t---~tg~AL~~a~~~~~~~~~-g-~r~~~~~~~kvvillTDG~s~~-------------------- 122 (224)
T cd01475 68 KRAVRRMEYLETGT---MTGLAIQYAMNNAFSEAE-G-ARPGSERVPRVGIVVTDGRPQD-------------------- 122 (224)
T ss_pred HHHHHhCcCCCCCC---hHHHHHHHHHHHhCChhc-C-CCCCCCCCCeEEEEEcCCCCcc--------------------
Confidence 99999999988763 35567777764 343211 1 1122234578899998775421
Q ss_pred hhhcccCCCHHHHHHHHhhcCcEEEEeccCcchhHHHHHHHh
Q 003297 159 AQAESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAIYNAA 200 (833)
Q Consensus 159 ~~~~~~l~d~e~la~~~~e~~I~LSvIsPrklp~l~~lf~ka 200 (833)
+.+.+++.+.+.||.+++|.=-.. ....|.+-|
T Consensus 123 --------~~~~~a~~lk~~gv~i~~VgvG~~-~~~~L~~ia 155 (224)
T cd01475 123 --------DVSEVAAKARALGIEMFAVGVGRA-DEEELREIA 155 (224)
T ss_pred --------cHHHHHHHHHHCCcEEEEEeCCcC-CHHHHHHHh
Confidence 356788999999999999865543 234444433
No 13
>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=98.79 E-value=3.3e-07 Score=89.57 Aligned_cols=151 Identities=13% Similarity=0.238 Sum_probs=102.6
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHHH
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWL 83 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~L 83 (833)
+|||||||++++|...|+.. .+++..+++.|..+. .+.|+|||.|.+... ..+.-.+.++.+.+.++..|
T Consensus 1 ldv~~llD~S~Sm~~~~~~~-~~~~~~~~~~l~~~~-------~~~~v~lv~f~~~~~--~~~~~~l~~~~~~~~l~~~i 70 (163)
T cd01476 1 LDLLFVLDSSGSVRGKFEKY-KKYIERIVEGLEIGP-------TATRVALITYSGRGR--QRVRFNLPKHNDGEELLEKV 70 (163)
T ss_pred CCEEEEEeCCcchhhhHHHH-HHHHHHHHHhcCCCC-------CCcEEEEEEEcCCCc--eEEEecCCCCCCHHHHHHHH
Confidence 59999999999999987655 567778888776321 148999999988521 12223345567889999999
Q ss_pred ccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhcc
Q 003297 84 STIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAES 163 (833)
Q Consensus 84 d~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~ 163 (833)
+.|...||+ .++.+||..|...+.... . ......|.+||++|--+..
T Consensus 71 ~~l~~~gg~---T~l~~aL~~a~~~l~~~~--~---~r~~~~~~villTDG~~~~------------------------- 117 (163)
T cd01476 71 DNLRFIGGT---TATGAAIEVALQQLDPSE--G---RREGIPKVVVVLTDGRSHD------------------------- 117 (163)
T ss_pred HhCccCCCC---ccHHHHHHHHHHHhcccc--C---CCCCCCeEEEEECCCCCCC-------------------------
Confidence 999876654 578889999988775211 1 1123358889998753321
Q ss_pred cCCCHHHHHHHHhh-cCcEEEEeccCcc--hhHHHHHHHh
Q 003297 164 RLSDAETVAKSFVQ-CSVSLSVICPKQL--PKLTAIYNAA 200 (833)
Q Consensus 164 ~l~d~e~la~~~~e-~~I~LSvIsPrkl--p~l~~lf~ka 200 (833)
++...++.+.+ .+|+++.|.-..- ..++.|-+-+
T Consensus 118 ---~~~~~~~~l~~~~~v~v~~vg~g~~~~~~~~~L~~ia 154 (163)
T cd01476 118 ---DPEKQARILRAVPNIETFAVGTGDPGTVDTEELHSIT 154 (163)
T ss_pred ---chHHHHHHHhhcCCCEEEEEECCCccccCHHHHHHHh
Confidence 23456777777 8999998876544 3444554443
No 14
>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=98.68 E-value=4.2e-07 Score=93.39 Aligned_cols=160 Identities=11% Similarity=0.130 Sum_probs=96.7
Q ss_pred CccEEEEEeCCccchHh-HHHHHHHHHHHHHHHhhcc-cCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHH
Q 003297 3 EKQLIVAVEGTAAMGPY-WQSIVSDYLEKIIRCFCVN-ELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFL 80 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~y-~~~lkt~YI~p~le~f~~~-~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl 80 (833)
..|||||||++.+|++. |+.+|. .|..++..|... .... ....+|+|||+|.+..-. .|. +....+...|+
T Consensus 19 ~~DivfvlD~S~Sm~~~~f~~~k~-fi~~~~~~~~~~~~~~~--~~~~~rVGlV~fs~~a~~-~~~---L~d~~~~~~~~ 91 (193)
T cd01477 19 WLDIVFVVDNSKGMTQGGLWQVRA-TISSLFGSSSQIGTDYD--DPRSTRVGLVTYNSNATV-VAD---LNDLQSFDDLY 91 (193)
T ss_pred eeeEEEEEeCCCCcchhhHHHHHH-HHHHHHhhccccccccC--CCCCcEEEEEEccCceEE-EEe---cccccCHHHHH
Confidence 37999999999999854 455443 344555555421 0000 011489999999987431 111 12234678888
Q ss_pred HHHcc-C-ccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchh
Q 003297 81 HWLST-I-PFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNE 158 (833)
Q Consensus 81 ~~Ld~-I-~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~ 158 (833)
+.|+. + ....|| .-.+..||..|+++|.... +..+....|++|||++-.-..
T Consensus 92 ~ai~~~~~~~~~~g--gT~ig~aL~~A~~~l~~~~----~~~R~~v~kvvIllTDg~~~~-------------------- 145 (193)
T cd01477 92 SQIQGSLTDVSSTN--ASYLDTGLQAAEQMLAAGK----RTSRENYKKVVIVFASDYNDE-------------------- 145 (193)
T ss_pred HHHHHHhhccccCC--cchHHHHHHHHHHHHHhhh----ccccCCCCeEEEEEecCccCC--------------------
Confidence 88885 2 222222 2467888999998886321 112345789999998641110
Q ss_pred hhhcccCCCHHHHHHHHhhcCcEEEEeccCcc---hhHHHHHHHh
Q 003297 159 AQAESRLSDAETVAKSFVQCSVSLSVICPKQL---PKLTAIYNAA 200 (833)
Q Consensus 159 ~~~~~~l~d~e~la~~~~e~~I~LSvIsPrkl---p~l~~lf~ka 200 (833)
.. .|++.+|+.+.+.||.++.|.=-.- ..+.+|-+-|
T Consensus 146 ----~~-~~~~~~a~~l~~~GI~i~tVGiG~~~d~~~~~~L~~ia 185 (193)
T cd01477 146 ----GS-NDPRPIAARLKSTGIAIITVAFTQDESSNLLDKLGKIA 185 (193)
T ss_pred ----CC-CCHHHHHHHHHHCCCEEEEEEeCCCCCHHHHHHHHHhc
Confidence 00 2567899999999999999754432 2245554433
No 15
>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=98.66 E-value=4.4e-07 Score=88.56 Aligned_cols=150 Identities=15% Similarity=0.247 Sum_probs=102.2
Q ss_pred cEEEEEeCCccchH-hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHHH
Q 003297 5 QLIVAVEGTAAMGP-YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWL 83 (833)
Q Consensus 5 dvVFVID~Tasmg~-y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~L 83 (833)
|||||||.+++|+. .|+. -+.+|..+++.|.... ...|++||.|.+..- .+-.+.-..+..+++..+
T Consensus 1 DivflvD~S~sm~~~~~~~-~~~~v~~~i~~~~~~~-------~~~rv~iv~f~~~~~----~~~~~~~~~~~~~~~~~i 68 (178)
T PF00092_consen 1 DIVFLVDTSGSMSGDNFEK-AKQFVKSIISRLSISN-------NGTRVGIVTFSDSAR----VLFSLTDYQSKNDLLNAI 68 (178)
T ss_dssp EEEEEEE-STTSCHHHHHH-HHHHHHHHHHHSTBST-------TSEEEEEEEESSSEE----EEEETTSHSSHHHHHHHH
T ss_pred CEEEEEeCCCCCchHHHHH-HHHHHHHHHHhhhccc-------cccccceeeeecccc----cccccccccccccccccc
Confidence 89999999999997 6777 5567788888885211 248999999999844 222333345688999998
Q ss_pred -ccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhc
Q 003297 84 -STIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAE 162 (833)
Q Consensus 84 -d~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~ 162 (833)
+.+.+.||+- .+++||..|++.|..... ..+....|.+|||++..++..+.
T Consensus 69 ~~~~~~~~g~t---~~~~aL~~a~~~l~~~~~----~~r~~~~~~iiliTDG~~~~~~~--------------------- 120 (178)
T PF00092_consen 69 NDSIPSSGGGT---NLGAALKFAREQLFSSNN----GGRPNSPKVIILITDGNSNDSDS--------------------- 120 (178)
T ss_dssp HTTGGCCBSSB----HHHHHHHHHHHTTSGGG----TTGTTSEEEEEEEESSSSSSHSG---------------------
T ss_pred cccccccchhh---hHHHHHhhhhhccccccc----ccccccccceEEEEeecccCCcc---------------------
Confidence 8888776553 388899999988864311 11235678899999998875331
Q ss_pred ccCCCHHHHHHHHhhcCcEEEEecc--CcchhHHHHHH
Q 003297 163 SRLSDAETVAKSFVQCSVSLSVICP--KQLPKLTAIYN 198 (833)
Q Consensus 163 ~~l~d~e~la~~~~e~~I~LSvIsP--rklp~l~~lf~ 198 (833)
..+..++...+.+|.+..|.. -....|++|..
T Consensus 121 ----~~~~~~~~~~~~~i~~~~ig~~~~~~~~l~~la~ 154 (178)
T PF00092_consen 121 ----PSEEAANLKKSNGIKVIAIGIDNADNEELRELAS 154 (178)
T ss_dssp ----HHHHHHHHHHHCTEEEEEEEESCCHHHHHHHHSH
T ss_pred ----hHHHHHHHHHhcCcEEEEEecCcCCHHHHHHHhC
Confidence 123333333335999999988 23566666664
No 16
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell. In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners.
Probab=98.66 E-value=6.2e-07 Score=89.93 Aligned_cols=141 Identities=17% Similarity=0.283 Sum_probs=90.6
Q ss_pred ccEEEEEeCCccchHh-HHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCcccccee-eccCCCCHHHHHH
Q 003297 4 KQLIVAVEGTAAMGPY-WQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQ-RSGWTKDVDIFLH 81 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y-~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~-~~gfT~d~~~fl~ 81 (833)
.|||||||++++|+.. |-...+.++..+++.|.-.+ ...|+|||+|.+..- ..+. ...++.+...++.
T Consensus 1 ~Dv~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~-------~~~~vglv~Fs~~~~---~~~~l~~~~~~~~~~~~~ 70 (186)
T cd01471 1 LDLYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISP-------DEINLYLVTFSTNAK---ELIRLSSPNSTNKDLALN 70 (186)
T ss_pred CcEEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCC-------CceEEEEEEecCCce---EEEECCCccccchHHHHH
Confidence 5999999999999954 33444556777788775211 147999999987632 1111 1123445566444
Q ss_pred HHc---cCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchh
Q 003297 82 WLS---TIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNE 158 (833)
Q Consensus 82 ~Ld---~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~ 158 (833)
+++ .+...||| -.+++||..|.+.+.... ....+..|++||++|..+....
T Consensus 71 ~i~~l~~~~~~~G~---T~l~~aL~~a~~~l~~~~-----~~r~~~~~~villTDG~~~~~~------------------ 124 (186)
T cd01471 71 AIRALLSLYYPNGS---TNTTSALLVVEKHLFDTR-----GNRENAPQLVIIMTDGIPDSKF------------------ 124 (186)
T ss_pred HHHHHHhCcCCCCC---ccHHHHHHHHHHHhhccC-----CCcccCceEEEEEccCCCCCCc------------------
Confidence 444 44444444 468889998987765311 1224567899999998764321
Q ss_pred hhhcccCCCHHHHHHHHhhcCcEEEEeccC
Q 003297 159 AQAESRLSDAETVAKSFVQCSVSLSVICPK 188 (833)
Q Consensus 159 ~~~~~~l~d~e~la~~~~e~~I~LSvIsPr 188 (833)
.+...|+.+.+++|.+++|.-.
T Consensus 125 --------~~~~~a~~l~~~gv~v~~igiG 146 (186)
T cd01471 125 --------RTLKEARKLRERGVIIAVLGVG 146 (186)
T ss_pred --------chhHHHHHHHHCCCEEEEEEee
Confidence 1234678889999999997654
No 17
>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=98.57 E-value=2.2e-06 Score=80.42 Aligned_cols=137 Identities=17% Similarity=0.232 Sum_probs=93.0
Q ss_pred ccEEEEEeCCccc-hHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCC--CHHHHH
Q 003297 4 KQLIVAVEGTAAM-GPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTK--DVDIFL 80 (833)
Q Consensus 4 ~dvVFVID~Tasm-g~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~--d~~~fl 80 (833)
+||+||||.|++| ..+|+.++ .++..+++.+... ....+++||.|.+... ....|+. +...+.
T Consensus 1 ~~v~~viD~S~Sm~~~~~~~~~-~~~~~~~~~~~~~-------~~~~~i~v~~f~~~~~------~~~~~~~~~~~~~~~ 66 (161)
T cd00198 1 ADIVFLLDVSGSMGGEKLDKAK-EALKALVSSLSAS-------PPGDRVGLVTFGSNAR------VVLPLTTDTDKADLL 66 (161)
T ss_pred CcEEEEEeCCCCcCcchHHHHH-HHHHHHHHhcccC-------CCCcEEEEEEecCccc------eeecccccCCHHHHH
Confidence 5899999999999 55655555 5556666666532 1247999999998422 2344444 778888
Q ss_pred HHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhh
Q 003297 81 HWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQ 160 (833)
Q Consensus 81 ~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~ 160 (833)
+.++.+.. +......+.+||..|+..+.+.. .....|.+|+|+|..++...
T Consensus 67 ~~~~~~~~--~~~~~t~~~~al~~~~~~~~~~~-------~~~~~~~lvvitDg~~~~~~-------------------- 117 (161)
T cd00198 67 EAIDALKK--GLGGGTNIGAALRLALELLKSAK-------RPNARRVIILLTDGEPNDGP-------------------- 117 (161)
T ss_pred HHHHhccc--CCCCCccHHHHHHHHHHHhcccC-------CCCCceEEEEEeCCCCCCCc--------------------
Confidence 88888876 12233456677888888776521 12356888999987665322
Q ss_pred hcccCCCHHHHHHHHhhcCcEEEEeccC
Q 003297 161 AESRLSDAETVAKSFVQCSVSLSVICPK 188 (833)
Q Consensus 161 ~~~~l~d~e~la~~~~e~~I~LSvIsPr 188 (833)
.+.+.+.+.+.+++|.+.+|.-.
T Consensus 118 -----~~~~~~~~~~~~~~v~v~~v~~g 140 (161)
T cd00198 118 -----ELLAEAARELRKLGITVYTIGIG 140 (161)
T ss_pred -----chhHHHHHHHHHcCCEEEEEEcC
Confidence 13467788888889999996444
No 18
>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=98.47 E-value=3.4e-06 Score=95.36 Aligned_cols=172 Identities=12% Similarity=0.082 Sum_probs=120.7
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCC--ccc-----------------
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGS--YCA----------------- 64 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~--~~~----------------- 64 (833)
.||.|++|-|.||+++++.||+.- ..+.+.++. +.+++|+|+=.|-|.+- |-+
T Consensus 100 vDLYyLMDlS~SM~ddl~~lk~lg-~~L~~~m~~-------it~n~rlGfGsFVDK~v~P~~~t~p~~l~~PC~~~~~~c 171 (423)
T smart00187 100 VDLYYLMDLSYSMKDDLDNLKSLG-DDLAREMKG-------LTSNFRLGFGSFVDKTVSPFVSTRPEKLENPCPNYNLTC 171 (423)
T ss_pred cceEEEEeCCccHHHHHHHHHHHH-HHHHHHHHh-------cccCceeeEEEeecCccCCcccCCHHHhcCCCcCCCCCc
Confidence 699999999999999999999775 566666653 22358999988888632 111
Q ss_pred ---c-ceeeccCCCCHHHHHHHHccCccCCCCCchhHHHHHHHHHHhc---cccCCCCCCCCCCcCCCcEEEEeecCCCC
Q 003297 65 ---C-LVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMM---FSVAPNGSQNQQNVDGQRHCILVAASNPH 137 (833)
Q Consensus 65 ---~-lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~---f~~~~~~~~~~~~~~~qk~cILIa~SpP~ 137 (833)
| +-....+|+|..+|.+.+++...+|+.|.+|.=.+||--|..| .-|+ ....|.+|+++|+.+|
T Consensus 172 ~p~f~f~~~L~LT~~~~~F~~~V~~~~iSgN~D~PEgG~DAimQaaVC~~~IGWR---------~~a~rllv~~TDa~fH 242 (423)
T smart00187 172 EPPYGFKHVLSLTDDTDEFNEEVKKQRISGNLDAPEGGFDAIMQAAVCTEQIGWR---------EDARRLLVFSTDAGFH 242 (423)
T ss_pred CCCcceeeeccCCCCHHHHHHHHhhceeecCCcCCcccHHHHHHHHhhccccccC---------CCceEEEEEEcCCCcc
Confidence 1 1112455999999999999999999999999999998777743 3442 2456888999999999
Q ss_pred CCCC------------CcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEE-eccCcchhHHHHHH
Q 003297 138 PLPT------------PVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSV-ICPKQLPKLTAIYN 198 (833)
Q Consensus 138 ~lp~------------pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSv-IsPrklp~l~~lf~ 198 (833)
-... .|+... +.+|.++..+. .=...+|++.+.|++|.+=+ |.-+..+.|++|-+
T Consensus 243 ~AGDGkLaGIv~PNDg~CHL~~--~g~Yt~s~~~D----YPSi~ql~~kL~e~nI~~IFAVT~~~~~~Y~~Ls~ 310 (423)
T smart00187 243 FAGDGKLAGIVQPNDGQCHLDN--NGEYTMSTTQD----YPSIGQLNQKLAENNINPIFAVTKKQVSLYKELSA 310 (423)
T ss_pred ccCCcceeeEecCCCCcceeCC--CCCcCccCcCC----CCCHHHHHHHHHhcCceEEEEEcccchhHHHHHHH
Confidence 6553 333211 11122221111 12569999999999998655 77777665555543
No 19
>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=3.5e-06 Score=83.59 Aligned_cols=136 Identities=17% Similarity=0.212 Sum_probs=88.1
Q ss_pred CccEEEEEeCCccchHh-H-HHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHH
Q 003297 3 EKQLIVAVEGTAAMGPY-W-QSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFL 80 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~y-~-~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl 80 (833)
.+|||||||.++||... | ..-|.++...++..|-... ...++|||+|.+... ..+.|+.|...+.
T Consensus 2 ~~~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~~~-------~~~~v~lv~f~~~~~------~~~~~~~~~~~~~ 68 (180)
T cd01467 2 GRDIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFIDRR-------ENDRIGLVVFAGAAF------TQAPLTLDRESLK 68 (180)
T ss_pred CceEEEEEECCcccccccCCCCCHHHHHHHHHHHHHHhC-------CCCeEEEEEEcCCee------eccCCCccHHHHH
Confidence 37999999999999753 2 0112233333333332210 135999999977532 3467888888888
Q ss_pred HHHccCcc--CCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchh
Q 003297 81 HWLSTIPF--AGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNE 158 (833)
Q Consensus 81 ~~Ld~I~f--~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~ 158 (833)
+.|+.|.. .|| ...+.+||..|+.++.+.. ...+++|||+|-.+..-+
T Consensus 69 ~~l~~l~~~~~~g---~T~l~~al~~a~~~l~~~~---------~~~~~iiliTDG~~~~g~------------------ 118 (180)
T cd01467 69 ELLEDIKIGLAGQ---GTAIGDAIGLAIKRLKNSE---------AKERVIVLLTDGENNAGE------------------ 118 (180)
T ss_pred HHHHHhhhcccCC---CCcHHHHHHHHHHHHHhcC---------CCCCEEEEEeCCCCCCCC------------------
Confidence 88888873 222 2467889999998886421 124789999988664211
Q ss_pred hhhcccCCCHHHHHHHHhhcCcEEEEeccC
Q 003297 159 AQAESRLSDAETVAKSFVQCSVSLSVICPK 188 (833)
Q Consensus 159 ~~~~~~l~d~e~la~~~~e~~I~LSvIsPr 188 (833)
.+++.+++.+.+++|.+++|.=.
T Consensus 119 -------~~~~~~~~~~~~~gi~i~~i~ig 141 (180)
T cd01467 119 -------IDPATAAELAKNKGVRIYTIGVG 141 (180)
T ss_pred -------CCHHHHHHHHHHCCCEEEEEEec
Confidence 13455677778899999986533
No 20
>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=98.41 E-value=1.1e-05 Score=82.78 Aligned_cols=148 Identities=21% Similarity=0.204 Sum_probs=99.0
Q ss_pred cEEEEEeCCccchH--h----HHHHHHHHHHHHH-HHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHH
Q 003297 5 QLIVAVEGTAAMGP--Y----WQSIVSDYLEKII-RCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVD 77 (833)
Q Consensus 5 dvVFVID~Tasmg~--y----~~~lkt~YI~p~l-e~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~ 77 (833)
-+|||||.+.+|.. | |+..| +++..++ +||...+ ..++|||+|++..+ . ...+.|.|..
T Consensus 5 a~vi~lD~S~sM~a~D~~PnRL~aak-~~i~~~~~~f~~~np--------~~~vGlv~fag~~a----~-v~~plT~D~~ 70 (187)
T cd01452 5 ATMICIDNSEYMRNGDYPPTRFQAQA-DAVNLICQAKTRSNP--------ENNVGLMTMAGNSP----E-VLVTLTNDQG 70 (187)
T ss_pred EEEEEEECCHHHHcCCCCCCHHHHHH-HHHHHHHHHHHhcCC--------CccEEEEEecCCce----E-EEECCCCCHH
Confidence 37999999999853 2 23333 3355554 5555433 24999999998533 2 4578899999
Q ss_pred HHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccch
Q 003297 78 IFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENN 157 (833)
Q Consensus 78 ~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~ 157 (833)
.++..|++|... +..++.+||..|+..|...+.. ...+|.+|+|+ |+=..
T Consensus 71 ~~~~~L~~i~~~----g~~~l~~AL~~A~~~L~~~~~~------~~~~rivi~v~-S~~~~------------------- 120 (187)
T cd01452 71 KILSKLHDVQPK----GKANFITGIQIAQLALKHRQNK------NQKQRIVAFVG-SPIEE------------------- 120 (187)
T ss_pred HHHHHHHhCCCC----CcchHHHHHHHHHHHHhcCCCc------CCcceEEEEEe-cCCcC-------------------
Confidence 999999999864 2357889999999888643211 01124344443 32110
Q ss_pred hhhhcccCCCHHHHHHHHhhcCcEEEEeccC----cchhHHHHHHHhcC
Q 003297 158 EAQAESRLSDAETVAKSFVQCSVSLSVICPK----QLPKLTAIYNAAKR 202 (833)
Q Consensus 158 ~~~~~~~l~d~e~la~~~~e~~I~LSvIsPr----klp~l~~lf~ka~~ 202 (833)
...+...+++.++++||.++||+=- ..++|++++++...
T Consensus 121 ------d~~~i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~~~~~~~~~ 163 (187)
T cd01452 121 ------DEKDLVKLAKRLKKNNVSVDIINFGEIDDNTEKLTAFIDAVNG 163 (187)
T ss_pred ------CHHHHHHHHHHHHHcCCeEEEEEeCCCCCCHHHHHHHHHHhcC
Confidence 0124678999999999999999865 36888888887643
No 21
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.36 E-value=5.3e-06 Score=80.72 Aligned_cols=107 Identities=20% Similarity=0.368 Sum_probs=76.6
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCC-ccccceeeccCCCCHHHHHHH
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGS-YCACLVQRSGWTKDVDIFLHW 82 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~-~~~~lv~~~gfT~d~~~fl~~ 82 (833)
+|||||||.+++|..++ .+.++-|.-+++.+.. +.+|.||.|++... +...++... ..+..+.++|
T Consensus 1 ~~vvilvD~S~Sm~g~~-~~~k~al~~~l~~L~~----------~d~fnii~f~~~~~~~~~~~~~~~--~~~~~~a~~~ 67 (155)
T PF13768_consen 1 ADVVILVDTSGSMSGEK-ELVKDALRAILRSLPP----------GDRFNIIAFGSSVRPLFPGLVPAT--EENRQEALQW 67 (155)
T ss_pred CeEEEEEeCCCCCCCcH-HHHHHHHHHHHHhCCC----------CCEEEEEEeCCEeeEcchhHHHHh--HHHHHHHHHH
Confidence 58999999999999998 7777777888887764 35999999999743 111111111 2456788999
Q ss_pred HccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCC
Q 003297 83 LSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNP 136 (833)
Q Consensus 83 Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP 136 (833)
|+.++..+|| ..+.+||.+|+..+.. ....+++|||+|..|
T Consensus 68 I~~~~~~~G~---t~l~~aL~~a~~~~~~----------~~~~~~IilltDG~~ 108 (155)
T PF13768_consen 68 IKSLEANSGG---TDLLAALRAALALLQR----------PGCVRAIILLTDGQP 108 (155)
T ss_pred HHHhcccCCC---ccHHHHHHHHHHhccc----------CCCccEEEEEEeccC
Confidence 9999984444 4566777777766521 245799999998877
No 22
>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=98.35 E-value=2.2e-05 Score=76.04 Aligned_cols=140 Identities=16% Similarity=0.273 Sum_probs=94.3
Q ss_pred CccEEEEEeCCccc-hHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccC--CCCHHHH
Q 003297 3 EKQLIVAVEGTAAM-GPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGW--TKDVDIF 79 (833)
Q Consensus 3 ~~dvVFVID~Tasm-g~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gf--T~d~~~f 79 (833)
.+||+||||.|.+| +.+|+.++. ++..+++.+.... ...++++|.|.+... ..+.| +.+...+
T Consensus 1 ~~~v~l~vD~S~SM~~~~~~~~~~-~~~~~~~~~~~~~-------~~~~i~ii~f~~~~~------~~~~~~~~~~~~~~ 66 (177)
T smart00327 1 PLDVVFLLDGSGSMGPNRFEKAKE-FVLKLVEQLDIGP-------DGDRVGLVTFSDDAT------VLFPLNDSRSKDAL 66 (177)
T ss_pred CccEEEEEeCCCccchHHHHHHHH-HHHHHHHhcCCCC-------CCcEEEEEEeCCCce------EEEcccccCCHHHH
Confidence 47999999999999 666665554 4466666554311 137999999999532 23344 8999999
Q ss_pred HHHHccCcc-CCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchh
Q 003297 80 LHWLSTIPF-AGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNE 158 (833)
Q Consensus 80 l~~Ld~I~f-~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~ 158 (833)
...++++.. .+|+ ..+.++|..|+..+..... .......+.+|+|+|..++..
T Consensus 67 ~~~i~~~~~~~~~~---~~~~~al~~~~~~~~~~~~----~~~~~~~~~iviitDg~~~~~------------------- 120 (177)
T smart00327 67 LEALASLSYKLGGG---TNLGAALQYALENLFSKSA----GSRRGAPKVLILITDGESNDG------------------- 120 (177)
T ss_pred HHHHHhcCCCCCCC---chHHHHHHHHHHHhcCcCC----CCCCCCCeEEEEEcCCCCCCC-------------------
Confidence 999999997 3333 4455566666655531110 011123678899988877632
Q ss_pred hhhcccCCCHHHHHHHHhhcCcEEEEeccCc
Q 003297 159 AQAESRLSDAETVAKSFVQCSVSLSVICPKQ 189 (833)
Q Consensus 159 ~~~~~~l~d~e~la~~~~e~~I~LSvIsPrk 189 (833)
.+.+.+++.+.+++|.+.+|.--.
T Consensus 121 -------~~~~~~~~~~~~~~i~i~~i~~~~ 144 (177)
T smart00327 121 -------GDLLKAAKELKRSGVKVFVVGVGN 144 (177)
T ss_pred -------ccHHHHHHHHHHCCCEEEEEEccC
Confidence 145788888999999999987664
No 23
>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=98.34 E-value=8.7e-06 Score=82.41 Aligned_cols=116 Identities=13% Similarity=0.182 Sum_probs=71.2
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeec------cCCCCHH
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRS------GWTKDVD 77 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~------gfT~d~~ 77 (833)
+|||||||+++||...--++.++-+.-+++.|.. .-+|+||.|.+... .++.++ .++.+.+
T Consensus 14 ~~vv~llD~SgSM~~~~l~~ak~~~~~ll~~l~~----------~d~v~lv~F~~~~~---~~~~~~~~~~~~~~~~~~~ 80 (190)
T cd01463 14 KDIVILLDVSGSMTGQRLHLAKQTVSSILDTLSD----------NDFFNIITFSNEVN---PVVPCFNDTLVQATTSNKK 80 (190)
T ss_pred ceEEEEEECCCCCCcHHHHHHHHHHHHHHHhCCC----------CCEEEEEEeCCCee---EEeeecccceEecCHHHHH
Confidence 7999999999999743222223334444554432 35899999999843 221111 1345788
Q ss_pred HHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCC
Q 003297 78 IFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNP 136 (833)
Q Consensus 78 ~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP 136 (833)
.++.+|+.|...|| ..+.+||.+|+..+................+.+|||+|--+
T Consensus 81 ~~~~~l~~l~~~G~----T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~ 135 (190)
T cd01463 81 VLKEALDMLEAKGI----ANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVP 135 (190)
T ss_pred HHHHHHhhCCCCCc----chHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCC
Confidence 99999999997543 34667777777655421100000112234678999998755
No 24
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=98.34 E-value=9.2e-06 Score=86.42 Aligned_cols=157 Identities=13% Similarity=0.172 Sum_probs=111.8
Q ss_pred ccEEEEEeCCccchHh--HHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHH
Q 003297 4 KQLIVAVEGTAAMGPY--WQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLH 81 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y--~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~ 81 (833)
..||||||+++||..+ +...|--.+.-+-+.+.. +.++|||.|+.++. + -...+|+|++.+.+
T Consensus 79 ~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq~----------RdkvavI~F~G~~A--~---lll~pT~sv~~~~~ 143 (261)
T COG1240 79 NLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQR----------RDKVAVIAFRGEKA--E---LLLPPTSSVELAER 143 (261)
T ss_pred CcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHHc----------cceEEEEEecCCcc--e---EEeCCcccHHHHHH
Confidence 6899999999999999 888887766655555543 67999999998865 2 24789999999999
Q ss_pred HHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhh
Q 003297 82 WLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQA 161 (833)
Q Consensus 82 ~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~ 161 (833)
||+.+..-|+=. +++||-.|.++|.+..- ...+...+.|+|+|-=+-- +. +.
T Consensus 144 ~L~~l~~GG~TP----L~~aL~~a~ev~~r~~r-----~~p~~~~~~vviTDGr~n~---~~----------~~------ 195 (261)
T COG1240 144 ALERLPTGGKTP----LADALRQAYEVLAREKR-----RGPDRRPVMVVITDGRANV---PI----------PL------ 195 (261)
T ss_pred HHHhCCCCCCCc----hHHHHHHHHHHHHHhhc-----cCCCcceEEEEEeCCccCC---CC----------CC------
Confidence 999998643322 66788888887764221 1123567778888764211 10 00
Q ss_pred cccCCCHHHHHHHHhhcCcEEEEeccC----cchhHHHHHHHhcCCC
Q 003297 162 ESRLSDAETVAKSFVQCSVSLSVICPK----QLPKLTAIYNAAKRNP 204 (833)
Q Consensus 162 ~~~l~d~e~la~~~~e~~I~LSvIsPr----klp~l~~lf~ka~~~~ 204 (833)
.-..+....|..+.+|++.+.||--. ++-..++|....+++-
T Consensus 196 -~~~~e~~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~ 241 (261)
T COG1240 196 -GPKAETLEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEY 241 (261)
T ss_pred -chHHHHHHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeE
Confidence 01135677888999999999998544 3566777877777664
No 25
>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=98.33 E-value=1.9e-05 Score=80.90 Aligned_cols=149 Identities=19% Similarity=0.265 Sum_probs=94.6
Q ss_pred ccEEEEEeCCccch-------HhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCC----ccc-----cce
Q 003297 4 KQLIVAVEGTAAMG-------PYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGS----YCA-----CLV 67 (833)
Q Consensus 4 ~dvVFVID~Tasmg-------~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~----~~~-----~lv 67 (833)
.+||||||+++||. ..|+.+|.- +..+++.|.. ..+++||+|.+... +.. ++.
T Consensus 21 ~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a-~~~~l~~l~~----------~~~v~lv~F~~~~~~~~~~~~~~p~~~~~ 89 (206)
T cd01456 21 PNVAIVLDNSGSMREVDGGGETRLDNAKAA-LDETANALPD----------GTRLGLWTFSGDGDNPLDVRVLVPKGCLT 89 (206)
T ss_pred CcEEEEEeCCCCCcCCCCCcchHHHHHHHH-HHHHHHhCCC----------CceEEEEEecCCCCCCccccccccccccc
Confidence 78999999999998 455555533 2334444432 36999999998421 111 111
Q ss_pred -eeccCC-CCHHHHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCccc
Q 003297 68 -QRSGWT-KDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYR 145 (833)
Q Consensus 68 -~~~gfT-~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~ 145 (833)
...++. .+...+...|++|...+|| -.+.+||..|+.+++ . ...+++|||+|--+..-.
T Consensus 90 ~~~~~~~~~~~~~l~~~i~~i~~~~G~---T~l~~aL~~a~~~l~--~---------~~~~~iillTDG~~~~~~----- 150 (206)
T cd01456 90 APVNGFPSAQRSALDAALNSLQTPTGW---TPLAAALAEAAAYVD--P---------GRVNVVVLITDGEDTCGP----- 150 (206)
T ss_pred cccCCCCcccHHHHHHHHHhhcCCCCc---ChHHHHHHHHHHHhC--C---------CCcceEEEEcCCCccCCC-----
Confidence 123433 5789999999999844443 578899999998874 1 113899999987543111
Q ss_pred CCccccccccchhhhhcccCCCHHHHHHHHhh-----cCcEEEEeccCc---chhHHHHHHHhcCC
Q 003297 146 PQMQNLDQNENNEAQAESRLSDAETVAKSFVQ-----CSVSLSVICPKQ---LPKLTAIYNAAKRN 203 (833)
Q Consensus 146 p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e-----~~I~LSvIsPrk---lp~l~~lf~ka~~~ 203 (833)
+....++.+.+ ++|.+++|.=-. ...|+.|-+..++.
T Consensus 151 ---------------------~~~~~~~~~~~~~~~~~~i~i~~igiG~~~~~~~l~~iA~~tgG~ 195 (206)
T cd01456 151 ---------------------DPCEVARELAKRRTPAPPIKVNVIDFGGDADRAELEAIAEATGGT 195 (206)
T ss_pred ---------------------CHHHHHHHHHHhcCCCCCceEEEEEecCcccHHHHHHHHHhcCCe
Confidence 23344455444 499999865432 45677777766654
No 26
>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=98.32 E-value=9.9e-06 Score=82.43 Aligned_cols=122 Identities=11% Similarity=0.219 Sum_probs=79.4
Q ss_pred ccEEEEEeCCccch-HhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCcccccee-eccCCCCHHHHHH
Q 003297 4 KQLIVAVEGTAAMG-PYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQ-RSGWTKDVDIFLH 81 (833)
Q Consensus 4 ~dvVFVID~Tasmg-~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~-~~gfT~d~~~fl~ 81 (833)
.|||||||+++||+ .-|+.+| ..|..+++.+.... .+.++|||.|.+... .++. +..++.+...++.
T Consensus 1 ~di~~vlD~SgSM~~~~~~~~k-~~~~~l~~~l~~~~-------~~~~v~li~Fs~~~~---~~~~~~~~~~~~~~~~~~ 69 (198)
T cd01470 1 LNIYIALDASDSIGEEDFDEAK-NAIKTLIEKISSYE-------VSPRYEIISYASDPK---EIVSIRDFNSNDADDVIK 69 (198)
T ss_pred CcEEEEEECCCCccHHHHHHHH-HHHHHHHHHccccC-------CCceEEEEEecCCce---EEEecccCCCCCHHHHHH
Confidence 58999999999997 4555554 45666666664211 136999999998743 1111 2235667899999
Q ss_pred HHccCccCCCC-CchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCC
Q 003297 82 WLSTIPFAGGG-FNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPH 137 (833)
Q Consensus 82 ~Ld~I~f~GGG-~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~ 137 (833)
+|+.+.+.+++ .+.-.+++||..+++.+...... .........+.+|||+|--+.
T Consensus 70 ~l~~~~~~~~~~~ggT~~~~Al~~~~~~l~~~~~~-~~~~~~~~~~~iillTDG~~~ 125 (198)
T cd01470 70 RLEDFNYDDHGDKTGTNTAAALKKVYERMALEKVR-NKEAFNETRHVIILFTDGKSN 125 (198)
T ss_pred HHHhCCcccccCccchhHHHHHHHHHHHHHHHHhc-CccchhhcceEEEEEcCCCcC
Confidence 99999876554 23467889998888766321110 001112345778999988665
No 27
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=98.29 E-value=1.1e-05 Score=94.28 Aligned_cols=138 Identities=17% Similarity=0.238 Sum_probs=85.4
Q ss_pred CccEEEEEeCCccch-HhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCC----CHH
Q 003297 3 EKQLIVAVEGTAAMG-PYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTK----DVD 77 (833)
Q Consensus 3 ~~dvVFVID~Tasmg-~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~----d~~ 77 (833)
++||+||||+++||+ +.|...-+..+..++..|..+. .+++++||+|.+..- ..+.+++ |..
T Consensus 42 ~lDIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~-------D~V~VgiV~FSd~~r------~vfpL~s~~s~Dk~ 108 (576)
T PTZ00441 42 EVDLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSD-------DAINLYMSLFSNNTT------ELIRLGSGASKDKE 108 (576)
T ss_pred CceEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCC-------CceEEEEEEeCCCce------EEEecCCCccccHH
Confidence 589999999999998 5563334455666666664211 148999999988732 2233332 333
Q ss_pred HHHHHHc---cCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccc
Q 003297 78 IFLHWLS---TIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQN 154 (833)
Q Consensus 78 ~fl~~Ld---~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~ 154 (833)
..+..|. .....||| -.+.+||..|.+.+.... .+....|++|||+|--+...
T Consensus 109 ~aL~~I~sL~~~~~pgGg---Tnig~AL~~Aae~L~sr~------~R~nvpKVVILLTDG~sns~--------------- 164 (576)
T PTZ00441 109 QALIIVKSLRKTYLPYGK---TNMTDALLEVRKHLNDRV------NRENAIQLVILMTDGIPNSK--------------- 164 (576)
T ss_pred HHHHHHHHHHhhccCCCC---ccHHHHHHHHHHHHhhcc------cccCCceEEEEEecCCCCCc---------------
Confidence 4444443 33345554 446677777776664311 22456799999998776421
Q ss_pred cchhhhhcccCCCHHHHHHHHhhcCcEEEEeccC
Q 003297 155 ENNEAQAESRLSDAETVAKSFVQCSVSLSVICPK 188 (833)
Q Consensus 155 e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPr 188 (833)
.++...|+.+.++||.|++|.=-
T Consensus 165 -----------~dvleaAq~LR~~GVeI~vIGVG 187 (576)
T PTZ00441 165 -----------YRALEESRKLKDRNVKLAVIGIG 187 (576)
T ss_pred -----------ccHHHHHHHHHHCCCEEEEEEeC
Confidence 13445677788888888885543
No 28
>PRK13685 hypothetical protein; Provisional
Probab=98.27 E-value=3.2e-05 Score=85.32 Aligned_cols=158 Identities=12% Similarity=0.109 Sum_probs=98.0
Q ss_pred ccEEEEEeCCccchH------hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHH
Q 003297 4 KQLIVAVEGTAAMGP------YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVD 77 (833)
Q Consensus 4 ~dvVFVID~Tasmg~------y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~ 77 (833)
.|||||||.++||.. -++.+|.. +..+++.+.. ..++|||+|.+... ...++|.|.+
T Consensus 89 ~~vvlvlD~S~SM~~~D~~p~RL~~ak~~-~~~~l~~l~~----------~d~vglv~Fa~~a~------~~~p~t~d~~ 151 (326)
T PRK13685 89 AVVMLVIDVSQSMRATDVEPNRLAAAQEA-AKQFADELTP----------GINLGLIAFAGTAT------VLVSPTTNRE 151 (326)
T ss_pred ceEEEEEECCccccCCCCCCCHHHHHHHH-HHHHHHhCCC----------CCeEEEEEEcCcee------ecCCCCCCHH
Confidence 589999999999984 35555533 3444444432 25899999998732 3347899999
Q ss_pred HHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccch
Q 003297 78 IFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENN 157 (833)
Q Consensus 78 ~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~ 157 (833)
.+...|+++...||-. +.+||..|++.++.... ..........+.+||++|-....-..++
T Consensus 152 ~l~~~l~~l~~~~~T~----~g~al~~A~~~l~~~~~-~~~~~~~~~~~~IILlTDG~~~~~~~~~-------------- 212 (326)
T PRK13685 152 ATKNAIDKLQLADRTA----TGEAIFTALQAIATVGA-VIGGGDTPPPARIVLMSDGKETVPTNPD-------------- 212 (326)
T ss_pred HHHHHHHhCCCCCCcc----hHHHHHHHHHHHHhhhc-ccccccCCCCCEEEEEcCCCCCCCCCCC--------------
Confidence 9999999999754333 44566666655542100 0000011235789999987543211110
Q ss_pred hhhhcccCCCHHHHHHHHhhcCcEEEEeccC-----------------cchhHHHHHHHhcCC
Q 003297 158 EAQAESRLSDAETVAKSFVQCSVSLSVICPK-----------------QLPKLTAIYNAAKRN 203 (833)
Q Consensus 158 ~~~~~~~l~d~e~la~~~~e~~I~LSvIsPr-----------------klp~l~~lf~ka~~~ 203 (833)
...+....++.+.+++|.+++|.=. .-..|++|-+++++.
T Consensus 213 ------~~~~~~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~~~~d~~~L~~iA~~tgG~ 269 (326)
T PRK13685 213 ------NPRGAYTAARTAKDQGVPISTISFGTPYGSVEINGQRQPVPVDDESLKKIAQLSGGE 269 (326)
T ss_pred ------CcccHHHHHHHHHHcCCeEEEEEECCCCCCcCcCCceeeecCCHHHHHHHHHhcCCE
Confidence 0113456788889999999997632 124577777766654
No 29
>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=98.25 E-value=2.4e-05 Score=76.54 Aligned_cols=150 Identities=15% Similarity=0.134 Sum_probs=89.0
Q ss_pred ccEEEEEeCCccchH-hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCC--CCHHHHH
Q 003297 4 KQLIVAVEGTAAMGP-YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWT--KDVDIFL 80 (833)
Q Consensus 4 ~dvVFVID~Tasmg~-y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT--~d~~~fl 80 (833)
.+||||||+|+||+. .|+.+|. -+..+++.+.. ..+++||+|.+... . .+.|+ .|...++
T Consensus 1 ~~~~~vlD~S~SM~~~~~~~~k~-a~~~~~~~l~~----------~~~v~li~f~~~~~---~---~~~~~~~~~~~~l~ 63 (170)
T cd01465 1 LNLVFVIDRSGSMDGPKLPLVKS-ALKLLVDQLRP----------DDRLAIVTYDGAAE---T---VLPATPVRDKAAIL 63 (170)
T ss_pred CcEEEEEECCCCCCChhHHHHHH-HHHHHHHhCCC----------CCEEEEEEecCCcc---E---EecCcccchHHHHH
Confidence 479999999999964 3666664 34455554432 35899999998733 1 22333 4678888
Q ss_pred HHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhh
Q 003297 81 HWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQ 160 (833)
Q Consensus 81 ~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~ 160 (833)
..|+++...||- .+.+||..|+..+..... ....+++||++|..+..-+..
T Consensus 64 ~~l~~~~~~g~T----~~~~al~~a~~~~~~~~~-------~~~~~~ivl~TDG~~~~~~~~------------------ 114 (170)
T cd01465 64 AAIDRLTAGGST----AGGAGIQLGYQEAQKHFV-------PGGVNRILLATDGDFNVGETD------------------ 114 (170)
T ss_pred HHHHcCCCCCCC----CHHHHHHHHHHHHHhhcC-------CCCeeEEEEEeCCCCCCCCCC------------------
Confidence 889988863332 344444555444432110 112378999999877532100
Q ss_pred hcccCCCHHHHHHHHhhcCcEEEEeccCc---chhHHHHHHHhcCC
Q 003297 161 AESRLSDAETVAKSFVQCSVSLSVICPKQ---LPKLTAIYNAAKRN 203 (833)
Q Consensus 161 ~~~~l~d~e~la~~~~e~~I~LSvIsPrk---lp~l~~lf~ka~~~ 203 (833)
+ .++..+++.+.+++|.+++|.=-. ...|++|-...++.
T Consensus 115 ---~-~~~~~~~~~~~~~~v~i~~i~~g~~~~~~~l~~ia~~~~g~ 156 (170)
T cd01465 115 ---P-DELARLVAQKRESGITLSTLGFGDNYNEDLMEAIADAGNGN 156 (170)
T ss_pred ---H-HHHHHHHHHhhcCCeEEEEEEeCCCcCHHHHHHHHhcCCce
Confidence 0 023344555567899999865432 35566666544443
No 30
>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=98.17 E-value=4.5e-05 Score=75.97 Aligned_cols=157 Identities=10% Similarity=0.132 Sum_probs=96.9
Q ss_pred cEEEEEeCCccchH--hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCC--CccccceeeccCCCCH-HHH
Q 003297 5 QLIVAVEGTAAMGP--YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHG--SYCACLVQRSGWTKDV-DIF 79 (833)
Q Consensus 5 dvVFVID~Tasmg~--y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~--~~~~~lv~~~gfT~d~-~~f 79 (833)
-|+|+||+++||.. .|+.+|.-. ..+++.+.. ...+++||.|.+.. .....++....|..+. ...
T Consensus 2 ~v~~llD~SgSM~~~~kl~~ak~a~-~~l~~~l~~---------~~d~~~l~~F~~~~~~~~~~~~~~~~~~~~~~~~~~ 71 (174)
T cd01454 2 AVTLLLDLSGSMRSDRRIDVAKKAA-VLLAEALEA---------CGVPHAILGFTTDAGGRERVRWIKIKDFDESLHERA 71 (174)
T ss_pred EEEEEEECCCCCCCCcHHHHHHHHH-HHHHHHHHH---------cCCcEEEEEecCCCCCccceEEEEecCcccccchhH
Confidence 48999999999987 666666443 234444432 13699999999873 1111222333455443 356
Q ss_pred HHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhh
Q 003297 80 LHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEA 159 (833)
Q Consensus 80 l~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~ 159 (833)
...|+.+... | ...+.+||..|++.+.... ...|.+|||+|--|..... |. ++
T Consensus 72 ~~~l~~~~~~--g--~T~~~~al~~a~~~l~~~~---------~~~~~iiliTDG~~~~~~~--~~--------~~---- 124 (174)
T cd01454 72 RKRLAALSPG--G--NTRDGAAIRHAAERLLARP---------EKRKILLVISDGEPNDLDY--YE--------GN---- 124 (174)
T ss_pred HHHHHccCCC--C--CCcHHHHHHHHHHHHhcCC---------CcCcEEEEEeCCCcCcccc--cC--------cc----
Confidence 6777777642 2 3567888888888876321 2368899999998764331 11 00
Q ss_pred hhcccCCCHHHHHHHHhhcCcEEEEe--ccCc----chhHHHHHHHh
Q 003297 160 QAESRLSDAETVAKSFVQCSVSLSVI--CPKQ----LPKLTAIYNAA 200 (833)
Q Consensus 160 ~~~~~l~d~e~la~~~~e~~I~LSvI--sPrk----lp~l~~lf~ka 200 (833)
.....|+...++++.+.||.+++| -... .+.++++|++-
T Consensus 125 --~~~~~~~~~~~~~~~~~gi~v~~igig~~~~~~~~~~~~~~~~~~ 169 (174)
T cd01454 125 --VFATEDALRAVIEARKLGIEVFGITIDRDATTVDKEYLKNIFGEE 169 (174)
T ss_pred --hhHHHHHHHHHHHHHhCCcEEEEEEecCccccchHHHHHHhhCcc
Confidence 001112222378888999999974 4444 67888888864
No 31
>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=98.16 E-value=0.00011 Score=73.83 Aligned_cols=154 Identities=15% Similarity=0.177 Sum_probs=96.7
Q ss_pred EEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHHHcc
Q 003297 6 LIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLST 85 (833)
Q Consensus 6 vVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~Ld~ 85 (833)
||||||+++||+.. -|-++...+++.|-...+. ...++|||+|.+... ...+++|.+...+..+|+.
T Consensus 3 v~lvlD~SgSM~~~---~rl~~ak~a~~~~~~~~~~-----~~d~v~lv~F~~~~~-----~~~~~~t~~~~~~~~~l~~ 69 (178)
T cd01451 3 VIFVVDASGSMAAR---HRMAAAKGAVLSLLRDAYQ-----RRDKVALIAFRGTEA-----EVLLPPTRSVELAKRRLAR 69 (178)
T ss_pred EEEEEECCccCCCc---cHHHHHHHHHHHHHHHhhc-----CCCEEEEEEECCCCc-----eEEeCCCCCHHHHHHHHHh
Confidence 79999999999852 1223333334433321111 135999999986522 1245678899999999999
Q ss_pred CccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhcccC
Q 003297 86 IPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRL 165 (833)
Q Consensus 86 I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~~l 165 (833)
+... |+ -.+.+||..|++.+.... . .....+.+|||+|-.+..-..++
T Consensus 70 l~~~-G~---T~l~~aL~~a~~~l~~~~-~-----~~~~~~~ivliTDG~~~~g~~~~---------------------- 117 (178)
T cd01451 70 LPTG-GG---TPLAAGLLAAYELAAEQA-R-----DPGQRPLIVVITDGRANVGPDPT---------------------- 117 (178)
T ss_pred CCCC-CC---CcHHHHHHHHHHHHHHHh-c-----CCCCceEEEEECCCCCCCCCCch----------------------
Confidence 9753 33 456677777776651100 0 01124889999987654211110
Q ss_pred CCH-HHHHHHHhhcCcEEEEeccCc----chhHHHHHHHhcCCC
Q 003297 166 SDA-ETVAKSFVQCSVSLSVICPKQ----LPKLTAIYNAAKRNP 204 (833)
Q Consensus 166 ~d~-e~la~~~~e~~I~LSvIsPrk----lp~l~~lf~ka~~~~ 204 (833)
... ..+++.+.+++|.+.+|.-.. -..|++|-++.++.-
T Consensus 118 ~~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~~tgG~~ 161 (178)
T cd01451 118 ADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLARALGGQY 161 (178)
T ss_pred hHHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHHHcCCeE
Confidence 012 667888999999999988654 246888888877653
No 32
>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=98.15 E-value=5.3e-05 Score=81.89 Aligned_cols=152 Identities=14% Similarity=0.156 Sum_probs=100.7
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHH-hhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHH
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRC-FCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHW 82 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~-f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~ 82 (833)
.+||||||+++||...|..+|.- +..+++. +. ...+++||.|.+... ..+.||.|...+...
T Consensus 54 ~~vvlvlD~SgSM~~~~~~a~~a-~~~~l~~~l~----------~~d~v~lv~f~~~~~------~~~~~t~~~~~l~~~ 116 (296)
T TIGR03436 54 LTVGLVIDTSGSMRNDLDRARAA-AIRFLKTVLR----------PNDRVFVVTFNTRLR------LLQDFTSDPRLLEAA 116 (296)
T ss_pred ceEEEEEECCCCchHHHHHHHHH-HHHHHHhhCC----------CCCEEEEEEeCCcee------EeecCCCCHHHHHHH
Confidence 78999999999999988776643 3444443 22 146999999997522 246899999999999
Q ss_pred HccCccCC-------CC----CchhHHHHHHHHH-HhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccc
Q 003297 83 LSTIPFAG-------GG----FNDAAIAEGLSEA-LMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQN 150 (833)
Q Consensus 83 Ld~I~f~G-------GG----~~~~AvaEGLa~A-L~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~ 150 (833)
|+.+.... |. .+..++.+||..| ++++..... .....|.+|||+|-....
T Consensus 117 l~~l~~~~~~~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~------~~p~rk~iIllTDG~~~~------------ 178 (296)
T TIGR03436 117 LNRLKPPLRTDYNSSGAFVRDGGGTALYDAITLAALEQLANALA------GIPGRKALIVISDGGDNR------------ 178 (296)
T ss_pred HHhccCCCccccccccccccCCCcchhHHHHHHHHHHHHHHhhc------CCCCCeEEEEEecCCCcc------------
Confidence 99998621 00 1235677776444 444432110 012357889998752210
Q ss_pred cccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCc----------------chhHHHHHHHhcCC
Q 003297 151 LDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQ----------------LPKLTAIYNAAKRN 203 (833)
Q Consensus 151 ~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrk----------------lp~l~~lf~ka~~~ 203 (833)
...+.+.+++.+.+.+|.++.|.... -..|++|-+..++.
T Consensus 179 -------------~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L~~iA~~TGG~ 234 (296)
T TIGR03436 179 -------------SRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEALERLAEETGGR 234 (296)
T ss_pred -------------hHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHHHHHHHHhCCe
Confidence 01245778888899999999988753 24678888877765
No 33
>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=98.14 E-value=4e-05 Score=74.90 Aligned_cols=148 Identities=11% Similarity=0.133 Sum_probs=93.2
Q ss_pred CccEEEEEeCCccchHh-HHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeec--cCCCCHHHH
Q 003297 3 EKQLIVAVEGTAAMGPY-WQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRS--GWTKDVDIF 79 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~y-~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~--gfT~d~~~f 79 (833)
.+||+||||+++||..+ |..+|. .|..+++.+.. ..+++||+|.+..- .+...+ .-..+...+
T Consensus 2 ~~~v~~vlD~S~SM~~~~~~~~~~-al~~~l~~l~~----------~~~~~l~~Fs~~~~---~~~~~~~~~~~~~~~~~ 67 (171)
T cd01461 2 PKEVVFVIDTSGSMSGTKIEQTKE-ALLTALKDLPP----------GDYFNIIGFSDTVE---EFSPSSVSATAENVAAA 67 (171)
T ss_pred CceEEEEEECCCCCCChhHHHHHH-HHHHHHHhCCC----------CCEEEEEEeCCCce---eecCcceeCCHHHHHHH
Confidence 47999999999999765 555443 44666665543 24899999977521 111110 112345677
Q ss_pred HHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhh
Q 003297 80 LHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEA 159 (833)
Q Consensus 80 l~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~ 159 (833)
+.+|+.+.. ||| ..+.+||..|+..+.+. ....+.+|+|+|-.+..-
T Consensus 68 ~~~l~~~~~-~g~---T~l~~al~~a~~~l~~~---------~~~~~~iillTDG~~~~~-------------------- 114 (171)
T cd01461 68 IEYVNRLQA-LGG---TNMNDALEAALELLNSS---------PGSVPQIILLTDGEVTNE-------------------- 114 (171)
T ss_pred HHHHHhcCC-CCC---cCHHHHHHHHHHhhccC---------CCCccEEEEEeCCCCCCH--------------------
Confidence 888888887 343 45777888888777531 234689999998763210
Q ss_pred hhcccCCCHHHHHHHHhhcCcEEEEeccC---cchhHHHHHHHhcCC
Q 003297 160 QAESRLSDAETVAKSFVQCSVSLSVICPK---QLPKLTAIYNAAKRN 203 (833)
Q Consensus 160 ~~~~~l~d~e~la~~~~e~~I~LSvIsPr---klp~l~~lf~ka~~~ 203 (833)
.++...++...+.+|.++.|.-. ..+.|+.|-++.++.
T Consensus 115 ------~~~~~~~~~~~~~~i~i~~i~~g~~~~~~~l~~ia~~~gG~ 155 (171)
T cd01461 115 ------SQILKNVREALSGRIRLFTFGIGSDVNTYLLERLAREGRGI 155 (171)
T ss_pred ------HHHHHHHHHhcCCCceEEEEEeCCccCHHHHHHHHHcCCCe
Confidence 02233444444558988886543 356788887777654
No 34
>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=98.13 E-value=3.7e-05 Score=75.60 Aligned_cols=145 Identities=17% Similarity=0.154 Sum_probs=87.0
Q ss_pred ccEEEEEeCCccchHh-HHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCC-CCHHHHHH
Q 003297 4 KQLIVAVEGTAAMGPY-WQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWT-KDVDIFLH 81 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y-~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT-~d~~~fl~ 81 (833)
.|||||||+++||... |+.+| +-+.-+++.|.. ..++|||+|.+..-.-.++ ..++ .+...+..
T Consensus 1 ~~v~~vlD~S~SM~~~rl~~ak-~a~~~l~~~l~~----------~~~~~li~F~~~~~~~~~~---~~~~~~~~~~~~~ 66 (155)
T cd01466 1 VDLVAVLDVSGSMAGDKLQLVK-HALRFVISSLGD----------ADRLSIVTFSTSAKRLSPL---RRMTAKGKRSAKR 66 (155)
T ss_pred CcEEEEEECCCCCCcHHHHHHH-HHHHHHHHhCCC----------cceEEEEEecCCccccCCC---cccCHHHHHHHHH
Confidence 4899999999999875 33332 233444444432 3589999999863211111 1122 24578888
Q ss_pred HHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhh
Q 003297 82 WLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQA 161 (833)
Q Consensus 82 ~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~ 161 (833)
+|++|...|| -.+.+||..|++++.... .....+++|||+|-.+....
T Consensus 67 ~i~~~~~~g~----T~~~~al~~a~~~~~~~~-------~~~~~~~iillTDG~~~~~~--------------------- 114 (155)
T cd01466 67 VVDGLQAGGG----TNVVGGLKKALKVLGDRR-------QKNPVASIMLLSDGQDNHGA--------------------- 114 (155)
T ss_pred HHHhccCCCC----ccHHHHHHHHHHHHhhcc-------cCCCceEEEEEcCCCCCcch---------------------
Confidence 9999875432 456677777777765311 11235789999987542110
Q ss_pred cccCCCHHHHHHHHhhcCcEEEEeccC---cchhHHHHHHHhcCC
Q 003297 162 ESRLSDAETVAKSFVQCSVSLSVICPK---QLPKLTAIYNAAKRN 203 (833)
Q Consensus 162 ~~~l~d~e~la~~~~e~~I~LSvIsPr---klp~l~~lf~ka~~~ 203 (833)
......+.+|.+++|.=. ....|++|-+..++.
T Consensus 115 ---------~~~~~~~~~v~v~~igig~~~~~~~l~~iA~~t~G~ 150 (155)
T cd01466 115 ---------VVLRADNAPIPIHTFGLGASHDPALLAFIAEITGGT 150 (155)
T ss_pred ---------hhhcccCCCceEEEEecCCCCCHHHHHHHHhccCce
Confidence 011234578888886543 356677777766554
No 35
>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=98.13 E-value=1.9e-05 Score=78.97 Aligned_cols=119 Identities=16% Similarity=0.185 Sum_probs=69.1
Q ss_pred CCCccEEEEEeCCccchH-hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHH
Q 003297 1 MSEKQLIVAVEGTAAMGP-YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIF 79 (833)
Q Consensus 1 ~~~~dvVFVID~Tasmg~-y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~f 79 (833)
|-..+||||||+++||+. .|+.+|. -+..+++.+...+.. ..+.+++||.|.+..- ..+++|...+.
T Consensus 1 ~~~~~v~~llD~SgSM~~~~~~~~k~-a~~~~~~~l~~~~~~----~~~~~v~ii~F~~~a~------~~~~l~~~~~~- 68 (176)
T cd01464 1 MRRLPIYLLLDTSGSMAGEPIEALNQ-GLQMLQSELRQDPYA----LESVEISVITFDSAAR------VIVPLTPLESF- 68 (176)
T ss_pred CCCCCEEEEEECCCCCCChHHHHHHH-HHHHHHHHHhcChhh----ccccEEEEEEecCCce------EecCCccHHhc-
Confidence 667899999999999975 4555543 355556655532211 1247999999998532 23444442211
Q ss_pred HHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCC
Q 003297 80 LHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPH 137 (833)
Q Consensus 80 l~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~ 137 (833)
.++.+.. ||| -++.+||..|++.+................+++|||+|--|.
T Consensus 69 --~~~~l~~-~Gg---T~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~ 120 (176)
T cd01464 69 --QPPRLTA-SGG---TSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPT 120 (176)
T ss_pred --CCCcccC-CCC---CcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCC
Confidence 2334443 333 577888888888774321100001112345689999987653
No 36
>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=98.03 E-value=4.5e-05 Score=79.16 Aligned_cols=153 Identities=16% Similarity=0.117 Sum_probs=90.4
Q ss_pred cEEEEEeCCccchHhHH---HHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCC-----ccccceeeccCCCCH
Q 003297 5 QLIVAVEGTAAMGPYWQ---SIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGS-----YCACLVQRSGWTKDV 76 (833)
Q Consensus 5 dvVFVID~Tasmg~y~~---~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~-----~~~~lv~~~gfT~d~ 76 (833)
-||||||.+.+|..--+ .-+=+....++..|-...+-. ...-++|||+|++... |....+-+-.-+.|.
T Consensus 3 ~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~---~~~D~vGlilf~t~~~~~~~~~~~i~v~~~l~~~~~ 79 (218)
T cd01458 3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIIS---SPKDLVGVVFYGTEESKNPVGYENIYVLLDLDTPGA 79 (218)
T ss_pred EEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeC---CCCCeEEEEEEcccCCCCcCCCCceEEeecCCCCCH
Confidence 58999999999962110 011111222222222111110 1136999999999752 332222222237787
Q ss_pred HHHHHHHccCccC------CCC-CchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecC-CCCCCCCCcccCCc
Q 003297 77 DIFLHWLSTIPFA------GGG-FNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAAS-NPHPLPTPVYRPQM 148 (833)
Q Consensus 77 ~~fl~~Ld~I~f~------GGG-~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~S-pP~~lp~pvy~p~~ 148 (833)
..+..+++-+.-. +.| ....++.+||..|+.+|.... .....|++|||+|. .|+.-. .
T Consensus 80 ~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~-------~~~~~k~IvL~TDg~~p~~~~-~------ 145 (218)
T cd01458 80 ERVEDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKGK-------KKKSHKRIFLFTNNDDPHGGD-S------ 145 (218)
T ss_pred HHHHHHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHhcc-------ccccccEEEEECCCCCCCCCC-H------
Confidence 7777776654321 112 236789999999999997411 12457999999986 454310 0
Q ss_pred cccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccC
Q 003297 149 QNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPK 188 (833)
Q Consensus 149 ~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPr 188 (833)
. + ..+++.+|+.+.+++|.|.+|.-.
T Consensus 146 ------~--~------~~~~~~~a~~l~~~gI~i~~i~i~ 171 (218)
T cd01458 146 ------I--K------DSQAAVKAEDLKDKGIELELFPLS 171 (218)
T ss_pred ------H--H------HHHHHHHHHHHHhCCcEEEEEecC
Confidence 0 0 124578999999999999998764
No 37
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=98.00 E-value=0.00014 Score=86.36 Aligned_cols=160 Identities=16% Similarity=0.148 Sum_probs=103.2
Q ss_pred CccEEEEEeCCccch-HhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHH
Q 003297 3 EKQLIVAVEGTAAMG-PYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLH 81 (833)
Q Consensus 3 ~~dvVFVID~Tasmg-~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~ 81 (833)
...||||||+++||. .=|..+|.- +..+++. -|..+-+++||.|+...- + ...++|++...+..
T Consensus 401 ~~~vvfvvD~SGSM~~~rl~~aK~a-~~~ll~~---------ay~~rD~v~lI~F~g~~a--~---~~lppT~~~~~~~~ 465 (584)
T PRK13406 401 ETTTIFVVDASGSAALHRLAEAKGA-VELLLAE---------AYVRRDQVALVAFRGRGA--E---LLLPPTRSLVRAKR 465 (584)
T ss_pred CccEEEEEECCCCCcHhHHHHHHHH-HHHHHHh---------hcCCCCEEEEEEECCCce--e---EEcCCCcCHHHHHH
Confidence 478999999999995 344444432 2222221 122356999999977633 1 24678999999999
Q ss_pred HHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhh
Q 003297 82 WLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQA 161 (833)
Q Consensus 82 ~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~ 161 (833)
+|+.+... +.-.+++||..|++++..... ....+++|||+|--+.. +.. .. ...
T Consensus 466 ~L~~l~~g----GgTpL~~gL~~A~~~l~~~~~-------~~~~~~iVLlTDG~~n~-~~~------------~~--~~~ 519 (584)
T PRK13406 466 SLAGLPGG----GGTPLAAGLDAAAALALQVRR-------KGMTPTVVLLTDGRANI-ARD------------GT--AGR 519 (584)
T ss_pred HHhcCCCC----CCChHHHHHHHHHHHHHHhcc-------CCCceEEEEEeCCCCCC-Ccc------------cc--ccc
Confidence 99988732 235678888888887654221 12358999999876431 100 00 000
Q ss_pred cccCCCHHHHHHHHhhcCcEEEEeccC--cchhHHHHHHHhcCC
Q 003297 162 ESRLSDAETVAKSFVQCSVSLSVICPK--QLPKLTAIYNAAKRN 203 (833)
Q Consensus 162 ~~~l~d~e~la~~~~e~~I~LSvIsPr--klp~l~~lf~ka~~~ 203 (833)
.....|+..+|+.+.+.+|.+++|.-- ....+++|-++.++.
T Consensus 520 ~~~~~~~~~~a~~~~~~gi~~~vId~g~~~~~~~~~LA~~~gg~ 563 (584)
T PRK13406 520 AQAEEDALAAARALRAAGLPALVIDTSPRPQPQARALAEAMGAR 563 (584)
T ss_pred cchhhHHHHHHHHHHhcCCeEEEEecCCCCcHHHHHHHHhcCCe
Confidence 112346788899999999999997654 345677777766554
No 38
>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=97.96 E-value=0.00014 Score=86.48 Aligned_cols=165 Identities=15% Similarity=0.176 Sum_probs=101.4
Q ss_pred CccEEEEEeCCccchH-hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHH
Q 003297 3 EKQLIVAVEGTAAMGP-YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLH 81 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~-y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~ 81 (833)
.+.|+||||+++||.. -|..+| .+++.|...- |..+-+++||+|++... + ..++||.+...+..
T Consensus 407 ~~~v~fvvD~SGSM~~~rl~~aK-----~av~~Ll~~~-----~~~~D~v~Li~F~~~~a--~---~~lp~t~~~~~~~~ 471 (589)
T TIGR02031 407 GRLLIFVVDASGSAAVARMSEAK-----GAVELLLGEA-----YVHRDQVSLIAFRGTAA--E---VLLPPSRSVEQAKR 471 (589)
T ss_pred CceEEEEEECCCCCChHHHHHHH-----HHHHHHHHhh-----ccCCCEEEEEEECCCCc--e---EECCCCCCHHHHHH
Confidence 3569999999999964 233333 3344433211 11135899999987642 1 24678999999999
Q ss_pred HHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhh
Q 003297 82 WLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQA 161 (833)
Q Consensus 82 ~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~ 161 (833)
+|+.|... || -.+++||..|++.+..... ....+++|||+|--+-- + ... ..+ ++..+ .
T Consensus 472 ~L~~l~~g-Gg---TpL~~gL~~A~~~~~~~~~-------~~~~~~ivllTDG~~nv-~--~~~----~~~-~~~~~--~ 530 (589)
T TIGR02031 472 RLDVLPGG-GG---TPLAAGLAAAFQTALQARS-------SGGTPTIVLITDGRGNI-P--LDG----DPE-SIKAD--R 530 (589)
T ss_pred HHhcCCCC-CC---CcHHHHHHHHHHHHHHhcc-------cCCceEEEEECCCCCCC-C--CCc----ccc-ccccc--c
Confidence 99999753 33 4566777777776643110 13457999999874421 0 000 000 00000 0
Q ss_pred cccCCCHHHHHHHHhhcCcEEEEeccC----cchhHHHHHHHhcCC
Q 003297 162 ESRLSDAETVAKSFVQCSVSLSVICPK----QLPKLTAIYNAAKRN 203 (833)
Q Consensus 162 ~~~l~d~e~la~~~~e~~I~LSvIsPr----klp~l~~lf~ka~~~ 203 (833)
.....++..+|+.+.+.+|.+++|-.. +...+++|-++.+++
T Consensus 531 ~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~ 576 (589)
T TIGR02031 531 EQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAH 576 (589)
T ss_pred hhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCc
Confidence 011124578899999999999999764 334588888887766
No 39
>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=97.82 E-value=0.00051 Score=66.65 Aligned_cols=104 Identities=18% Similarity=0.287 Sum_probs=65.3
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHHH
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWL 83 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~L 83 (833)
+||+||||+++||...=..+.+..+.-+++.+.. ...+++||.|.+. + .........+..+++++|
T Consensus 1 ~~v~illD~SgSM~~~k~~~a~~~~~~l~~~~~~---------~~~~v~li~F~~~--~---~~~~~~~~~~~~~~~~~l 66 (152)
T cd01462 1 GPVILLVDQSGSMYGAPEEVAKAVALALLRIALA---------ENRDTYLILFDSE--F---QTKIVDKTDDLEEPVEFL 66 (152)
T ss_pred CCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHH---------cCCcEEEEEeCCC--c---eEEecCCcccHHHHHHHH
Confidence 5899999999999853112223333333443331 0258999999887 1 122344678888999998
Q ss_pred ccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecC
Q 003297 84 STIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAAS 134 (833)
Q Consensus 84 d~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~S 134 (833)
..+.. ||| -.+++||..++.++.... ...+.+|+|+|-
T Consensus 67 ~~~~~-~gg---T~l~~al~~a~~~l~~~~---------~~~~~ivliTDG 104 (152)
T cd01462 67 SGVQL-GGG---TDINKALRYALELIERRD---------PRKADIVLITDG 104 (152)
T ss_pred hcCCC-CCC---cCHHHHHHHHHHHHHhcC---------CCCceEEEECCC
Confidence 87764 344 356777777777765311 124678888875
No 40
>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=97.78 E-value=0.00044 Score=83.07 Aligned_cols=158 Identities=18% Similarity=0.208 Sum_probs=99.5
Q ss_pred CccEEEEEeCCccchH--hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHH
Q 003297 3 EKQLIVAVEGTAAMGP--YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFL 80 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~--y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl 80 (833)
...||||||+++||+. -|..+|.- +..++... +..+-++|||.|++... . ..+++|++...+.
T Consensus 465 ~~~vv~vvD~SgSM~~~~rl~~ak~a-~~~ll~~a---------~~~~D~v~lI~F~g~~a---~--~~~p~t~~~~~~~ 529 (633)
T TIGR02442 465 GNLVIFVVDASGSMAARGRMAAAKGA-VLSLLRDA---------YQKRDKVALITFRGEEA---E--VLLPPTSSVELAA 529 (633)
T ss_pred CceEEEEEECCccCCCccHHHHHHHH-HHHHHHHh---------hcCCCEEEEEEECCCCc---e--EEcCCCCCHHHHH
Confidence 3689999999999974 34444432 22222211 11246999999986522 1 2467899999999
Q ss_pred HHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhh
Q 003297 81 HWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQ 160 (833)
Q Consensus 81 ~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~ 160 (833)
.+|+.+...|| -.+++||..|+..+.....+ .....+.+|||+|--+---. .+
T Consensus 530 ~~L~~l~~gG~----Tpl~~aL~~A~~~l~~~~~~-----~~~~~~~vvliTDG~~n~~~------------~~------ 582 (633)
T TIGR02442 530 RRLEELPTGGR----TPLAAGLLKAAEVLSNELLR-----DDDGRPLLVVITDGRANVAD------------GG------ 582 (633)
T ss_pred HHHHhCCCCCC----CCHHHHHHHHHHHHHHhhcc-----CCCCceEEEEECCCCCCCCC------------CC------
Confidence 99999986333 34666777777666521000 11245788999876442100 00
Q ss_pred hcccCCCHHHHHHHHhhcCcEEEEeccC----cchhHHHHHHHhcCC
Q 003297 161 AESRLSDAETVAKSFVQCSVSLSVICPK----QLPKLTAIYNAAKRN 203 (833)
Q Consensus 161 ~~~~l~d~e~la~~~~e~~I~LSvIsPr----klp~l~~lf~ka~~~ 203 (833)
.....|+..+|+.+.+.+|.+.+|... ....+++|-+..++.
T Consensus 583 -~~~~~~~~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~gg~ 628 (633)
T TIGR02442 583 -EPPTDDARTIAAKLAARGILFVVIDTESGFVRLGLAEDLARALGGE 628 (633)
T ss_pred -CChHHHHHHHHHHHHhcCCeEEEEeCCCCCcchhHHHHHHHhhCCe
Confidence 001135677899999999999999763 346788888776654
No 41
>PF00362 Integrin_beta: Integrin, beta chain; InterPro: IPR002369 Integrins are the major metazoan receptors for cell adhesion to extracellular matrix proteins and, in vertebrates, also play important roles in certain cell-cell adhesions, make transmembrane connections to the cytoskeleton and activate many intracellular signalling pathways [, ]. The integrin receptors are composed of alpha and beta subunit heterodimers. Each subunit crosses the membrane once, with most of the polypeptide residing in the extracellular space, and has two short cytoplasmic domains. Some members of this family have EGF repeats at the C terminus and also have a vWA domain inserted within the integrin domain at the N terminus. Most integrins recognise relatively short peptide motifs, and in general require an acidic amino acid to be present. Ligand specificity depends upon both the alpha and beta subunits []. There are at least 18 types of alpha and 8 types of beta subunits recognised in humans []. Each alpha subunit tends to associate only with one type of beta subunit, but there are exceptions to this rule []. Each association of alpha and beta subunits has its own binding specificity and signalling properties. Many integrins require activation on the cell surface before they can bind ligands. Integrins frequently intercommunicate, and binding at one integrin receptor activate or inhibit another. The structure of unliganded alphaV beta3 showed the molecule to be folded, with the head bent over towards the C termini of the legs which would normally be inserted into the membrane []. The head comprises a beta propeller domain at the end terminus of the alphaV subunit and an I/A domain inserted into a loop on the top of the hybrid domain in the beta subunit. The I/A domain consists of a Rossman fold with a core of beta parallel sheets surrounded by amphipathic alpha helices. Integrins are important therapeutic targets in conditions such as atherosclerosis, thrombosis, cancer and asthma []. At the N terminus of the beta subunit is a cysteine-containing domain reminiscent of that found in presenillins and semaphorins, which has hence been termed the PSI domain. C-terminal to the PSI domain is an A-domain, which has been predicted to adopt a Rossmann fold similar to that of the alpha subunit, but with additional loops between the second and third beta strands []. The murine gene Pactolus shares significant similarity with the beta subunit [], but lacks either one or both of the inserted loops. The C-terminal portion of the beta subunit extracellular domain contains an internally disulphide-bonded cysteine-rich region, while the intracellular tail contains putative sites of interaction with a variety of intracellular signalling and cytoskeletal proteins, such as focal adhesion kinase and alpha-actinin respectively []. Integrin cytoplasmic domains are normally less than 50 amino acids in length, with the beta-subunit sequences exhibiting greater homology to each other than the alpha-subunit sequences. This is consistent with current evidence that the beta subunit is the principal site for binding of cytoskeletal and signalling molecules, whereas the alpha subunit has a regulatory role. The first 20 amino acids of the beta-subunit cytoplasmic domain are also alpha helical, but the final 25 residues are disordered and, apart from a turn that follows a conserved NPxY motif, appear to lack defined structure, suggesting that this is adopted on effector binding. The two membrane-proximal helices mediate the link between the subunits via a series of hydrophobic and electrostatic contacts. This entry represents the N-terminal portion of the extracellular region of integrin beta subunits.; GO: 0005488 binding, 0007155 cell adhesion, 0007160 cell-matrix adhesion; PDB: 3VI4_B 3VI3_B 2VDQ_B 3IJE_B 1M1X_B 2VDR_B 3NIF_B 3NID_D 1TYE_F 2Q6W_F ....
Probab=97.77 E-value=0.0002 Score=82.21 Aligned_cols=172 Identities=11% Similarity=0.046 Sum_probs=104.7
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccc-----------------cc
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCA-----------------CL 66 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~-----------------~l 66 (833)
.||.|++|-+.+|+++++.||+.= ..+.+.++. +. .++|+|+=.|-|.+-.|- .+
T Consensus 103 vDLYyLmDlS~Sm~ddl~~l~~lg-~~l~~~~~~--it-----~~~~~GfGsfvdK~~~P~~~~~p~~l~~pc~~~~~~c 174 (426)
T PF00362_consen 103 VDLYYLMDLSYSMKDDLENLKSLG-QDLAEEMRN--IT-----SNFRLGFGSFVDKPVMPFVSTTPEKLKNPCPSKNPNC 174 (426)
T ss_dssp EEEEEEEE-SGGGHHHHHHHCCCC-HHHHHHHHT--T------SSEEEEEEEESSSSSTTTST-SSHCHHSTSCCTTS--
T ss_pred eeEEEEeechhhhhhhHHHHHHHH-HHHHHHHHh--cC-----ccceEechhhcccccCCcccCChhhhcCcccccCCCC
Confidence 699999999999999999998753 334555542 11 247999999988863321 01
Q ss_pred eeecc------CCCCHHHHHHHHccCccCCCCCchhHHHHHHHHHHhcc---ccCCCCCCCCCCcCCCcEEEEeecCCCC
Q 003297 67 VQRSG------WTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMF---SVAPNGSQNQQNVDGQRHCILVAASNPH 137 (833)
Q Consensus 67 v~~~g------fT~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f---~~~~~~~~~~~~~~~qk~cILIa~SpP~ 137 (833)
...|+ .|+|..+|.+.+++..++|+-|.+|+-.+||--|+.|- -|+ ....|.+|+.+|+++|
T Consensus 175 ~~~~~f~~~l~Lt~~~~~F~~~v~~~~is~n~D~PEgg~dal~Qa~vC~~~igWr---------~~a~~llv~~TD~~fH 245 (426)
T PF00362_consen 175 QPPFSFRHVLSLTDDITEFNEEVNKQKISGNLDAPEGGLDALMQAAVCQEEIGWR---------NEARRLLVFSTDAGFH 245 (426)
T ss_dssp B---SEEEEEEEES-HHHHHHHHHTS--B--SSSSBSHHHHHHHHHH-HHHHT-----------STSEEEEEEEESS-B-
T ss_pred CCCeeeEEeecccchHHHHHHhhhhccccCCCCCCccccchheeeeecccccCcc---------cCceEEEEEEcCCccc
Confidence 12333 49999999999999999999999999999999887554 353 2356778999999999
Q ss_pred CCCC------------CcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEE-eccCcchhHHHHHH
Q 003297 138 PLPT------------PVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSV-ICPKQLPKLTAIYN 198 (833)
Q Consensus 138 ~lp~------------pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSv-IsPrklp~l~~lf~ 198 (833)
-... .|+.. .+..+.....-..-...+|++.+.|++|..=+ |.-+....|++|-+
T Consensus 246 ~agDg~l~gi~~pnd~~Chl~------~~~~y~~~~~~DYPSv~ql~~~l~e~~i~~IFAVt~~~~~~Y~~L~~ 313 (426)
T PF00362_consen 246 FAGDGKLAGIVKPNDGKCHLD------DNGMYTASTEQDYPSVGQLVRKLSENNINPIFAVTKDVYSIYEELSN 313 (426)
T ss_dssp -TTGGGGGT--S---SS--BS------TTSBBGGGGCS----HHHHHHHHHHTTEEEEEEEEGGGHHHHHHHHH
T ss_pred cccccccceeeecCCCceEEC------CCCcccccccccCCCHHHHHHHHHHcCCEEEEEEchhhhhHHHHHhh
Confidence 8664 33321 11011111111123468999999999998655 66665554444444
No 42
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=97.58 E-value=0.0013 Score=80.97 Aligned_cols=106 Identities=14% Similarity=0.279 Sum_probs=62.6
Q ss_pred CccEEEEEeCCccchH--hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCC-----CC
Q 003297 3 EKQLIVAVEGTAAMGP--YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWT-----KD 75 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~--y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT-----~d 75 (833)
.++||||||.++||.. -|+.+|. .++.|-...+. ...++|||.|.+... + ..+++ .+
T Consensus 304 ~r~VVLVLDvSGSM~g~dRL~~lkq-----AA~~fL~~~l~-----~~DrVGLVtFsssA~----v--l~pLt~Its~~d 367 (863)
T TIGR00868 304 QRIVCLVLDKSGSMTVEDRLKRMNQ-----AAKLFLLQTVE-----KGSWVGMVTFDSAAY----I--KNELIQITSSAE 367 (863)
T ss_pred CceEEEEEECCccccccCHHHHHHH-----HHHHHHHHhCC-----CCCEEEEEEECCcee----E--eeccccCCcHHH
Confidence 4789999999999974 3444442 22222110111 136999999999743 1 12232 23
Q ss_pred HHHHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCC
Q 003297 76 VDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNP 136 (833)
Q Consensus 76 ~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP 136 (833)
.+.+...|. +. .+|| -+|.+||.+|++++..... ....+++|||+|--+
T Consensus 368 r~aL~~~L~-~~-A~GG---T~I~~GL~~Alq~L~~~~~-------~~~~~~IILLTDGed 416 (863)
T TIGR00868 368 RDALTANLP-TA-ASGG---TSICSGLKAAFQVIKKSYQ-------STDGSEIVLLTDGED 416 (863)
T ss_pred HHHHHHhhc-cc-cCCC---CcHHHHHHHHHHHHHhccc-------ccCCCEEEEEeCCCC
Confidence 444444443 22 3333 6888999999988864321 123479999998654
No 43
>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=97.57 E-value=0.00092 Score=72.37 Aligned_cols=138 Identities=12% Similarity=0.100 Sum_probs=90.3
Q ss_pred CccEEEEEeCCccchHhHHH-H---HHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHH
Q 003297 3 EKQLIVAVEGTAAMGPYWQS-I---VSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDI 78 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~y~~~-l---kt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~ 78 (833)
+.+|||+||-+.||....-. . -...|..+++.+.. -++|||.|.... ...++||.|...
T Consensus 60 ~~qIvlaID~S~SM~~~~~~~~aleak~lIs~al~~Le~-----------g~vgVv~Fg~~~------~~v~Plt~d~~~ 122 (266)
T cd01460 60 DYQILIAIDDSKSMSENNSKKLALESLCLVSKALTLLEV-----------GQLGVCSFGEDV------QILHPFDEQFSS 122 (266)
T ss_pred CceEEEEEecchhcccccccccHHHHHHHHHHHHHhCcC-----------CcEEEEEeCCCc------eEeCCCCCCchh
Confidence 47999999999999775211 0 11133444443332 499999999862 145777887774
Q ss_pred --HHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCC--CCCCCCCcccCCccccccc
Q 003297 79 --FLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASN--PHPLPTPVYRPQMQNLDQN 154 (833)
Q Consensus 79 --fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~Sp--P~~lp~pvy~p~~~~~~~~ 154 (833)
+++.++...|..+| -.|..+|.+|+.+|+....+. .+....+-+|||+|-- .|.
T Consensus 123 ~a~~~~l~~~~f~~~~---Tni~~aL~~a~~~f~~~~~~~---~s~~~~qlilLISDG~~~~~e---------------- 180 (266)
T cd01460 123 QSGPRILNQFTFQQDK---TDIANLLKFTAQIFEDARTQS---SSGSLWQLLLIISDGRGEFSE---------------- 180 (266)
T ss_pred hHHHHHhCcccCCCCC---CcHHHHHHHHHHHHHhhhccc---cccccccEEEEEECCCcccCc----------------
Confidence 55566555554444 569999999999997531100 0111358889998765 321
Q ss_pred cchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcc
Q 003297 155 ENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 190 (833)
Q Consensus 155 e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrkl 190 (833)
.....+++.+.+++|.+.+|.-|..
T Consensus 181 -----------~~~~~~~r~a~e~~i~l~~I~ld~~ 205 (266)
T cd01460 181 -----------GAQKVRLREAREQNVFVVFIIIDNP 205 (266)
T ss_pred -----------cHHHHHHHHHHHcCCeEEEEEEcCC
Confidence 1234568999999999999988853
No 44
>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein. Members of this protein family are restricted to the Proteobacteria. Each contains a C-terminal sortase-recognition motif, transmembrane domain, and basic residues cluster at the the C-terminus, and is encoded adjacent to a sortase gene. This protein is frequently the only sortase target in its genome, which is as unusual its occurrence in Gram-negative rather than Gram-positive genomes. Many bacteria with this system are marine. In addition to the LPXTG signal, members carry a vault protein inter-alpha-trypsin inhibitor domain (pfam08487) and a von Willebrand factor type A domain (pfam00092).
Probab=97.53 E-value=0.00089 Score=79.79 Aligned_cols=107 Identities=13% Similarity=0.185 Sum_probs=69.3
Q ss_pred ccEEEEEeCCccchH-hHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCC-CCHHHHHH
Q 003297 4 KQLIVAVEGTAAMGP-YWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWT-KDVDIFLH 81 (833)
Q Consensus 4 ~dvVFVID~Tasmg~-y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT-~d~~~fl~ 81 (833)
++||||||+++||.. .|+.+|. -+.-+++.+.. .-+|+||.|.+... ...-.....+ .+..++..
T Consensus 272 ~~vvfvlD~SgSM~g~~i~~ak~-al~~~l~~L~~----------~d~~~ii~F~~~~~--~~~~~~~~~~~~~~~~a~~ 338 (596)
T TIGR03788 272 RELVFVIDTSGSMAGESIEQAKS-ALLLALDQLRP----------GDRFNIIQFDSDVT--LLFPVPVPATAHNLARARQ 338 (596)
T ss_pred ceEEEEEECCCCCCCccHHHHHH-HHHHHHHhCCC----------CCEEEEEEECCcce--EeccccccCCHHHHHHHHH
Confidence 689999999999964 4666654 44555665543 35999999987743 1111111222 35677888
Q ss_pred HHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCC
Q 003297 82 WLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASN 135 (833)
Q Consensus 82 ~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~Sp 135 (833)
||+.|...|| -.++.||..|+..+... .....|++|||+|--
T Consensus 339 ~i~~l~a~Gg----T~l~~aL~~a~~~~~~~--------~~~~~~~iillTDG~ 380 (596)
T TIGR03788 339 FVAGLQADGG----TEMAGALSAALRDDGPE--------SSGALRQVVFLTDGA 380 (596)
T ss_pred HHhhCCCCCC----ccHHHHHHHHHHhhccc--------CCCceeEEEEEeCCC
Confidence 9999987543 34777777787654221 123468999999864
No 45
>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=97.44 E-value=0.003 Score=65.53 Aligned_cols=143 Identities=12% Similarity=0.145 Sum_probs=78.4
Q ss_pred EEEEEeCCccch-------HhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCcc-----cc---ceeec
Q 003297 6 LIVAVEGTAAMG-------PYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYC-----AC---LVQRS 70 (833)
Q Consensus 6 vVFVID~Tasmg-------~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~-----~~---lv~~~ 70 (833)
+|||||++.+|. .+|+.+.+.+-.-+.+.+-.++ ..++|||+|++...-. +| ++-..
T Consensus 2 ~vflID~s~sM~~~~~~~~~~l~~al~~i~~~~~~ki~~~~--------kD~vgvvl~gt~~t~n~~~~~~~~~i~~l~~ 73 (224)
T PF03731_consen 2 TVFLIDVSPSMFEPSSESESPLEEALKAIEDLMQQKIISSP--------KDEVGVVLFGTDETNNPDEDSGYENIFVLQP 73 (224)
T ss_dssp EEEEEE-SCGGGS-BTTCS-HHHHHHHHHHHHHHHHHHTT-----------EEEEEEES-SS-BST-TTT-STTEEEEEE
T ss_pred EEEEEECCHHHCCCCCCcchhHHHHHHHHHHHHHHHHcCCC--------CCeEEEEEEcCCCCCCcccccCCCceEEeec
Confidence 799999999999 3345554444333433333222 3589999999877532 22 22221
Q ss_pred cCCCCHHHHHHHHccCcc------CCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecC-CCCCCCCCc
Q 003297 71 GWTKDVDIFLHWLSTIPF------AGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAAS-NPHPLPTPV 143 (833)
Q Consensus 71 gfT~d~~~fl~~Ld~I~f------~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~S-pP~~lp~pv 143 (833)
--..+++.+....+-+.- .+++.....+.++|..|+.+|...-. ......|++|||+|. .||.-.
T Consensus 74 l~~~~~~~l~~L~~~~~~~~~~~~~~~~~~~~~l~~al~v~~~~~~~~~~-----~~k~~~krI~l~Td~d~p~~~~--- 145 (224)
T PF03731_consen 74 LDPPSAERLKELEELLKPGDKFENFFSGSDEGDLSDALWVASDMFRERTC-----KKKKNKKRIFLFTDNDGPHEDD--- 145 (224)
T ss_dssp CC--BHHHHHHHHTTSHHHHHHHHHC-SSS---HHHHHHHHHHHHHCHCT-----TS-ECEEEEEEEES-SSTTT-C---
T ss_pred CCccCHHHHHHHHHhhcccccccccCCCCCccCHHHHHHHHHHHHHHHhh-----cccCCCcEEEEEeCCCCCCCCH---
Confidence 123455555554444432 23455677899999999999864111 123467899999965 666411
Q ss_pred ccCCccccccccchhhhhcccCCCHHHH-----HHHHhhcCcEEEEec
Q 003297 144 YRPQMQNLDQNENNEAQAESRLSDAETV-----AKSFVQCSVSLSVIC 186 (833)
Q Consensus 144 y~p~~~~~~~~e~~~~~~~~~l~d~e~l-----a~~~~e~~I~LSvIs 186 (833)
.+.+.+ ++.+.+.+|.+.++-
T Consensus 146 ----------------------~~~~~~~~~l~~~Dl~~~~i~~~~~~ 171 (224)
T PF03731_consen 146 ----------------------DELERIIQKLKAKDLQDNGIEIELFF 171 (224)
T ss_dssp ----------------------CCHHHHHHHHHHHHHHHHTEEEEEEE
T ss_pred ----------------------HHHHHHHHhhccccchhcCcceeEee
Confidence 123333 566999999988854
No 46
>PF04056 Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like proteins are 40 kDa subunits of the transcription factor II H complex. This domain is often found associated with the C2H2 type Zn-finger (IPR007087 from INTERPRO).; GO: 0008270 zinc ion binding, 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent
Probab=97.28 E-value=0.0049 Score=63.89 Aligned_cols=160 Identities=16% Similarity=0.199 Sum_probs=108.5
Q ss_pred EEeCCccchH--hHH---HHHHHHHHH-HHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHH
Q 003297 9 AVEGTAAMGP--YWQ---SIVSDYLEK-IIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHW 82 (833)
Q Consensus 9 VID~Tasmg~--y~~---~lkt~YI~p-~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~ 82 (833)
|||.+.+|.. |-+ .....|++. +-|||.++++ ..+|+|+-||.- .-+...++.++.+..+.
T Consensus 1 viD~S~~m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPi--------Sqlgii~~~~~~-----a~~ls~lsgn~~~h~~~ 67 (193)
T PF04056_consen 1 VIDMSEAMREKDLKPTRLQCVLKALEEFVREFFDQNPI--------SQLGIIVMRDGR-----AERLSELSGNPQEHIEA 67 (193)
T ss_pred CeechHhHHhCcCCccHHHHHHHHHHHHHHHHHhcCCh--------hheeeeeeecce-----eEEeeecCCCHHHHHHH
Confidence 6788888752 211 122222333 3455566665 489999999972 23456788999999999
Q ss_pred HccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhc
Q 003297 83 LSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAE 162 (833)
Q Consensus 83 Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~ 162 (833)
|+++... +..++..+-.||..|...+...+ ....|-+++|-.|-=.
T Consensus 68 L~~~~~~-~~~G~~SLqN~Le~A~~~L~~~p--------~~~srEIlvi~gSl~t------------------------- 113 (193)
T PF04056_consen 68 LKKLRKL-EPSGEPSLQNGLEMARSSLKHMP--------SHGSREILVIFGSLTT------------------------- 113 (193)
T ss_pred HHHhccC-CCCCChhHHHHHHHHHHHHhhCc--------cccceEEEEEEeeccc-------------------------
Confidence 9888643 23456778899999998886433 1345777777533211
Q ss_pred ccCCCHHHHHHHHhhcCcEEEEeccC-cchhHHHHHHHhcCCCCCCCCCCCCCCCCCeEEEeeccchhh
Q 003297 163 SRLSDAETVAKSFVQCSVSLSVICPK-QLPKLTAIYNAAKRNPRAADPPVDNSKNPHFLVLISENFMEA 230 (833)
Q Consensus 163 ~~l~d~e~la~~~~e~~I~LSvIsPr-klp~l~~lf~ka~~~~~~~~~~~~~ak~p~hlVLlsg~~l~~ 230 (833)
+...|...+++.+.+.+|.+|||+-- .+-.+|+|.++.+|. |.|.|.+.-+++
T Consensus 114 ~Dp~di~~ti~~l~~~~IrvsvI~laaEv~I~k~i~~~T~G~---------------y~V~lde~H~~~ 167 (193)
T PF04056_consen 114 CDPGDIHETIESLKKENIRVSVISLAAEVYICKKICKETGGT---------------YGVILDEDHFKE 167 (193)
T ss_pred CCchhHHHHHHHHHHcCCEEEEEEEhHHHHHHHHHHHhhCCE---------------EEEecCHHHHHH
Confidence 11247788999999999999998765 488999999988863 667777655554
No 47
>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=97.22 E-value=0.0057 Score=63.28 Aligned_cols=153 Identities=8% Similarity=-0.033 Sum_probs=93.3
Q ss_pred ccEEEEEeCCccchHhHH------HHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCH-
Q 003297 4 KQLIVAVEGTAAMGPYWQ------SIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDV- 76 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~------~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~- 76 (833)
|.|+||||-++||..+ + .=|-+.+...++.|.+- ...+.+ -|+|+ ++++.+ -.+++--+++|.|.
T Consensus 1 ~~l~lavDlSgSM~~~-~~~dg~~~~RL~a~k~v~~~f~~f-~~~r~~---DriG~--~g~~~~-~~~lt~d~p~t~d~~ 72 (191)
T cd01455 1 KRLKLVVDVSGSMYRF-NGYDGRLDRSLEAVVMVMEAFDGF-EDKIQY---DIIGH--SGDGPC-VPFVKTNHPPKNNKE 72 (191)
T ss_pred CceEEEEECcHhHHHH-hccCCccccHHHHHHHHHHHHHHH-HHhCcc---ceeee--cCcccc-cCccccccCcccchh
Confidence 5799999999999864 4 12223355555666421 011111 46773 444432 12344456677776
Q ss_pred --HHHHHHHccCccCCCCCchhHHHHHHHHHHhccc-cCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCcccccc
Q 003297 77 --DIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFS-VAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQ 153 (833)
Q Consensus 77 --~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~-~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~ 153 (833)
+.+...|+...+ |..+..-+|||..|++.|. ..+ ...|.+||++|.+=..
T Consensus 73 ~~~~l~~~l~~~q~---g~ag~~TadAi~~av~rl~~~~~---------a~~kvvILLTDG~n~~--------------- 125 (191)
T cd01455 73 RLETLKMMHAHSQF---CWSGDHTVEATEFAIKELAAKED---------FDEAIVIVLSDANLER--------------- 125 (191)
T ss_pred HHHHHHHHHHhccc---CccCccHHHHHHHHHHHHHhcCc---------CCCcEEEEEeCCCcCC---------------
Confidence 577778887765 2221122299999999985 422 2368999998765321
Q ss_pred ccchhhhhcccCCCHHHH-HHHHhhcCcEEEEeccCc--chhHHHHHHHhc
Q 003297 154 NENNEAQAESRLSDAETV-AKSFVQCSVSLSVICPKQ--LPKLTAIYNAAK 201 (833)
Q Consensus 154 ~e~~~~~~~~~l~d~e~l-a~~~~e~~I~LSvIsPrk--lp~l~~lf~ka~ 201 (833)
+..+++++ |++.++.||+++.|.=-. -..|+.+-+..+
T Consensus 126 ----------~~i~P~~aAa~lA~~~gV~iytIgiG~~d~~~l~~iA~~tg 166 (191)
T cd01455 126 ----------YGIQPKKLADALAREPNVNAFVIFIGSLSDEADQLQRELPA 166 (191)
T ss_pred ----------CCCChHHHHHHHHHhCCCEEEEEEecCCCHHHHHHHHhCCC
Confidence 11367886 688889999999987543 455666655443
No 48
>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=97.18 E-value=0.0062 Score=62.37 Aligned_cols=111 Identities=12% Similarity=0.202 Sum_probs=63.1
Q ss_pred CccEEEEEeCCccchHh--------HHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCC
Q 003297 3 EKQLIVAVEGTAAMGPY--------WQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTK 74 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~y--------~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~ 74 (833)
.+|+|||||.|+||+.. |+.+|.- +..++..+.. ++ ...++|++|.+... ..+..+
T Consensus 2 ~~dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~-~~~l~~~~~~--~D------~d~i~l~~f~~~~~------~~~~~~- 65 (199)
T cd01457 2 NRDYTLLIDKSGSMAEADEAKERSRWEEAQES-TRALARKCEE--YD------SDGITVYLFSGDFR------RYDNVN- 65 (199)
T ss_pred CcCEEEEEECCCcCCCCCCCCCchHHHHHHHH-HHHHHHHHHh--cC------CCCeEEEEecCCcc------ccCCcC-
Confidence 48999999999999853 4444422 3333333221 11 13577888866532 112233
Q ss_pred CHHHHHHHHccCccCCCCCchhHHHHHHHHHHhcc-ccCCCCCCCCCCcCCCcEEEEeecCCCCC
Q 003297 75 DVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMF-SVAPNGSQNQQNVDGQRHCILVAASNPHP 138 (833)
Q Consensus 75 d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f-~~~~~~~~~~~~~~~qk~cILIa~SpP~~ 138 (833)
...+.+++.++...|| -.+..+|..|+..+ ...... ......+++|+|+|--|+.
T Consensus 66 -~~~v~~~~~~~~p~G~----T~l~~~l~~a~~~~~~~~~~~----~~~p~~~~vIiiTDG~~~d 121 (199)
T cd01457 66 -SSKVDQLFAENSPDGG----TNLAAVLQDALNNYFQRKENG----ATCPEGETFLVITDGAPDD 121 (199)
T ss_pred -HHHHHHHHhcCCCCCc----CcHHHHHHHHHHHHHHHHhhc----cCCCCceEEEEEcCCCCCc
Confidence 7888889988876544 34555566555322 211100 0111258999999888763
No 49
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=97.03 E-value=0.0039 Score=63.96 Aligned_cols=157 Identities=19% Similarity=0.140 Sum_probs=97.3
Q ss_pred CCCccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHH
Q 003297 1 MSEKQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFL 80 (833)
Q Consensus 1 ~~~~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl 80 (833)
|.+.-++|++|++++|-.-==+..++-|..+++.++..+++.. +.++++|+|..+- ..+-++.|+..|.
T Consensus 1 mrRlP~~lllDtSgSM~Ge~IealN~Glq~m~~~Lkqdp~Ale----~v~lsIVTF~~~a-------~~~~pf~~~~nF~ 69 (207)
T COG4245 1 MRRLPCYLLLDTSGSMIGEPIEALNAGLQMMIDTLKQDPYALE----RVELSIVTFGGPA-------RVIQPFTDAANFN 69 (207)
T ss_pred CCCCCEEEEEecCcccccccHHHHHHHHHHHHHHHHhChhhhh----eeEEEEEEecCcc-------eEEechhhHhhcC
Confidence 5677899999999999655444556778999999998777653 6899999998642 2222222333221
Q ss_pred HHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhh
Q 003297 81 HWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQ 160 (833)
Q Consensus 81 ~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~ 160 (833)
=.+-+.+||- .+..||..|+.|.++.....-.+...+..-.++||+|..|-. .|.
T Consensus 70 ---~p~L~a~GgT---~lGaAl~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiTDG~PtD----~w~--------------- 124 (207)
T COG4245 70 ---PPILTAQGGT---PLGAALTLALDMIEERKRKYDANGKGDYRPWVFLITDGEPTD----DWQ--------------- 124 (207)
T ss_pred ---CCceecCCCC---chHHHHHHHHHHHHHHHhhcccCCccccceEEEEecCCCcch----HHH---------------
Confidence 1222344442 344566777888876543333333445677889999998822 211
Q ss_pred hcccCCCHHHHHHH----HhhcCcEEEEeccC--cchhHHHHHHHhc
Q 003297 161 AESRLSDAETVAKS----FVQCSVSLSVICPK--QLPKLTAIYNAAK 201 (833)
Q Consensus 161 ~~~~l~d~e~la~~----~~e~~I~LSvIsPr--klp~l~~lf~ka~ 201 (833)
+.++.. -..++|..+.+-+. .++.|+.|+|+-.
T Consensus 125 --------~~~~~~~~~~~~~k~v~a~~~G~~~ad~~~L~qit~~V~ 163 (207)
T COG4245 125 --------AGAALVFQGERRAKSVAAFSVGVQGADNKTLNQITEKVR 163 (207)
T ss_pred --------hHHHHhhhcccccceEEEEEecccccccHHHHHHHHhhc
Confidence 111111 12345666666665 6899999998764
No 50
>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=96.95 E-value=0.014 Score=61.78 Aligned_cols=117 Identities=14% Similarity=0.174 Sum_probs=58.9
Q ss_pred HHHHHHHHccCccCCC-C-CchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCcc-ccc
Q 003297 76 VDIFLHWLSTIPFAGG-G-FNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQ-NLD 152 (833)
Q Consensus 76 ~~~fl~~Ld~I~f~GG-G-~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~-~~~ 152 (833)
+..+++.|.. .+... + ....|...||.+|+.++.... .--++++...++|.-=|-.+....-. +.+
T Consensus 95 i~~ll~~L~~-~~~~~~~~~~~~c~G~Al~~A~~ll~~~~----------~gGkI~~F~s~~pt~G~Gg~l~~~~~~~~~ 163 (243)
T PF04811_consen 95 IEELLESLPS-IFPETAGKRPERCLGSALSAALSLLSSRN----------TGGKILVFTSGPPTYGPGGSLKKREDSSHY 163 (243)
T ss_dssp HHHHHHHHHH-HSTT-TTB-----HHHHHHHHHHHHHHHT----------S-EEEEEEESS---SSSTTSS-SBTTSCCC
T ss_pred HHHHHHHhhh-hcccccccCccccHHHHHHHHHHHHhccc----------cCCEEEEEeccCCCCCCCceeccccccccc
Confidence 4444555554 22222 2 346889999999999987311 23466777777874333111000000 111
Q ss_pred c--ccchhhhhcccCCCHHHHHHHHhhcCcEEEE-eccCc---chhHHHHHHHhcCCC
Q 003297 153 Q--NENNEAQAESRLSDAETVAKSFVQCSVSLSV-ICPKQ---LPKLTAIYNAAKRNP 204 (833)
Q Consensus 153 ~--~e~~~~~~~~~l~d~e~la~~~~e~~I~LSv-IsPrk---lp~l~~lf~ka~~~~ 204 (833)
. +|...+.+... .-.+.||+.|.+.+|.+.+ +++.. +..|..|....+|+.
T Consensus 164 ~~~~~~~~~~~~~~-~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~~TGG~l 220 (243)
T PF04811_consen 164 DTEKEKALLLPPAN-EFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLARYTGGSL 220 (243)
T ss_dssp CHCTTHHCHSHSSS-HHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHHCTT-EE
T ss_pred ccccchhhhccccc-hHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHHhCceeE
Confidence 1 01011111111 1258999999999999888 66665 688888888777664
No 51
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=96.81 E-value=0.00044 Score=85.81 Aligned_cols=23 Identities=9% Similarity=0.202 Sum_probs=11.6
Q ss_pred hhcCcEEEEeccCcchhHHHHHHHhc
Q 003297 176 VQCSVSLSVICPKQLPKLTAIYNAAK 201 (833)
Q Consensus 176 ~e~~I~LSvIsPrklp~l~~lf~ka~ 201 (833)
.+.|..+|. +.|.-. -+|||--|
T Consensus 1709 kK~Glqvst--kqk~sp-wdlFEg~k 1731 (2220)
T KOG3598|consen 1709 KKNGLQVST--KQKKSP-WDLFEGTK 1731 (2220)
T ss_pred hhcCceecc--ccccCc-chhhccCC
Confidence 556655443 333322 36788554
No 52
>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=96.14 E-value=0.15 Score=54.14 Aligned_cols=177 Identities=10% Similarity=0.129 Sum_probs=93.6
Q ss_pred cEEEEEeCCcc--chHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCc---c------cccee-----
Q 003297 5 QLIVAVEGTAA--MGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSY---C------ACLVQ----- 68 (833)
Q Consensus 5 dvVFVID~Tas--mg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~---~------~~lv~----- 68 (833)
-.|||||.+.. -..+++.+++ -|..+|+.+.. + .+.++|||+|.++=.+ . ..++-
T Consensus 5 ~~vFvID~s~~ai~~~~l~~~~~-sl~~~l~~lp~---~-----~~~~igiITf~~~V~~~~~~~~~~~~~~~v~~dl~d 75 (239)
T cd01468 5 VFVFVIDVSYEAIKEGLLQALKE-SLLASLDLLPG---D-----PRARVGLITYDSTVHFYNLSSDLAQPKMYVVSDLKD 75 (239)
T ss_pred EEEEEEEcchHhccccHHHHHHH-HHHHHHHhCCC---C-----CCcEEEEEEeCCeEEEEECCCCCCCCeEEEeCCCcc
Confidence 36999999874 1334555554 34455555431 0 2589999999652100 0 00110
Q ss_pred -----eccCCCCH----HHHHHHHccCccCCC----CCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCC
Q 003297 69 -----RSGWTKDV----DIFLHWLSTIPFAGG----GFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASN 135 (833)
Q Consensus 69 -----~~gfT~d~----~~fl~~Ld~I~f~GG----G~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~Sp 135 (833)
..+|.-++ +.+.+.|++|.-... .-...|...||.+|+.++.... .--++++.+.++
T Consensus 76 ~f~p~~~~~l~~~~e~~~~i~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~----------~gGkI~~f~sg~ 145 (239)
T cd01468 76 VFLPLPDRFLVPLSECKKVIHDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLKGTF----------AGGRIIVFQGGL 145 (239)
T ss_pred CcCCCcCceeeeHHHHHHHHHHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHhhcC----------CCceEEEEECCC
Confidence 01122222 345556666654432 2345788899999999886421 123455555566
Q ss_pred CC-CCCCCccc---CCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEE-eccCc---chhHHHHHHHhcCCC
Q 003297 136 PH-PLPTPVYR---PQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSV-ICPKQ---LPKLTAIYNAAKRNP 204 (833)
Q Consensus 136 P~-~lp~pvy~---p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSv-IsPrk---lp~l~~lf~ka~~~~ 204 (833)
|- +...-..+ ..+.+-+..+.++..... .+.||..|.+++|.+.+ +++.. +..+..|.+..+|..
T Consensus 146 pt~GpG~l~~~~~~~~~~~~~e~~~~~~a~~f----Y~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~TGG~v 218 (239)
T cd01468 146 PTVGPGKLKSREDKEPIRSHDEAQLLKPATKF----YKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKSTGGQV 218 (239)
T ss_pred CCCCCCccccCcccccCCCccchhcccccHHH----HHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcCCceE
Confidence 63 22211000 000000001111111222 37899999999999999 55553 577777777777664
No 53
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=95.93 E-value=0.0015 Score=81.37 Aligned_cols=10 Identities=20% Similarity=0.119 Sum_probs=5.1
Q ss_pred CCCeEEEeec
Q 003297 216 NPHFLVLISE 225 (833)
Q Consensus 216 ~p~hlVLlsg 225 (833)
.-.|++-|+=
T Consensus 1729 g~k~~aplsW 1738 (2220)
T KOG3598|consen 1729 GTKHLAPLSW 1738 (2220)
T ss_pred cCCCCCCccc
Confidence 3445565553
No 54
>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70). Proteins in this family are involved in non-homologous end joining, a process used for the repair of double stranded DNA breaks. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Cutoff does not detect the putative ku70 homologs in yeast.
Probab=95.91 E-value=0.063 Score=64.33 Aligned_cols=149 Identities=19% Similarity=0.129 Sum_probs=84.9
Q ss_pred cEEEEEeCCccchHhHHHH----HHHHHHHHHHHhhc-ccCccCccCCccEEEEEEeecCCC-----ccccceeeccCCC
Q 003297 5 QLIVAVEGTAAMGPYWQSI----VSDYLEKIIRCFCV-NELAGQTSASNVELSLVTFNTHGS-----YCACLVQRSGWTK 74 (833)
Q Consensus 5 dvVFVID~Tasmg~y~~~l----kt~YI~p~le~f~~-~~l~~~~~g~~~~~gLV~Y~d~~~-----~~~~lv~~~gfT~ 74 (833)
-|||+||++.+|..-.... .-+-+..|+..|.. .-+.+ ...++|||+|++-.+ |+.+++-+.=-.-
T Consensus 12 ailflIDvs~sM~~~~~~~~~~s~~~~al~~i~~l~q~kIis~----~~D~vGivlfgT~~t~n~~~~~~i~v~~~L~~p 87 (584)
T TIGR00578 12 SLIFLVDASKAMFEESQGEDELTPFDMSIQCIQSVYTSKIISS----DKDLLAVVFYGTEKDKNSVNFKNIYVLQELDNP 87 (584)
T ss_pred EEEEEEECCHHHcCCCcCcCcCChHHHHHHHHHHHHHhcCCCC----CCCeEEEEEEeccCCCCccCCCceEEEeeCCCC
Confidence 3899999999998411110 00012233333332 22222 247999999999653 4444443322334
Q ss_pred CHHHHHHHHccCccCCCC---------CchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecC-CCCCCCCCcc
Q 003297 75 DVDIFLHWLSTIPFAGGG---------FNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAAS-NPHPLPTPVY 144 (833)
Q Consensus 75 d~~~fl~~Ld~I~f~GGG---------~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~S-pP~~lp~pvy 144 (833)
|++.+ +.|+.|.-..|. .....++++|..|+.+|.... ..-..|+++||+|. .||.-...
T Consensus 88 ~a~~i-~~L~~l~~~~~~~~~~~~~~~~~~~~l~daL~~~~~~f~~~~-------~k~~~kRI~lfTd~D~P~~~~~~-- 157 (584)
T TIGR00578 88 GAKRI-LELDQFKGDQGPKKFRDTYGHGSDYSLSEVLWVCANLFSDVQ-------FRMSHKRIMLFTNEDNPHGNDSA-- 157 (584)
T ss_pred CHHHH-HHHHHHhhccCccchhhccCCCCCCcHHHHHHHHHHHHHhcc-------hhhcCcEEEEECCCCCCCCCchh--
Confidence 44443 333333211111 112478999999999997421 12357888888876 67753210
Q ss_pred cCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEec
Q 003297 145 RPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVIC 186 (833)
Q Consensus 145 ~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIs 186 (833)
.. .-+.+.|+.|.+.||.|-++.
T Consensus 158 ----------------~~---~~a~~~a~dl~~~gi~ielf~ 180 (584)
T TIGR00578 158 ----------------KA---SRARTKAGDLRDTGIFLDLMH 180 (584)
T ss_pred ----------------HH---HHHHHHHHHHHhcCeEEEEEe
Confidence 00 013568999999999999874
No 55
>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=95.74 E-value=0.13 Score=55.06 Aligned_cols=177 Identities=13% Similarity=0.189 Sum_probs=92.3
Q ss_pred cEEEEEeCCccch--HhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCc---c-------ccce----e
Q 003297 5 QLIVAVEGTAAMG--PYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSY---C-------ACLV----Q 68 (833)
Q Consensus 5 dvVFVID~Tasmg--~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~---~-------~~lv----~ 68 (833)
-.|||||.|..=- .+++.+++- |..+|+.+... + .+.++|||+|.+.=-+ . ..++ .
T Consensus 5 ~~~FvIDvs~~a~~~g~~~~~~~s-i~~~L~~lp~~------~-~~~~VgiITfd~~v~~y~l~~~~~~~q~~vv~dl~d 76 (244)
T cd01479 5 VYVFLIDVSYNAIKSGLLATACEA-LLSNLDNLPGD------D-PRTRVGFITFDSTLHFFNLKSSLEQPQMMVVSDLDD 76 (244)
T ss_pred EEEEEEEccHHHHhhChHHHHHHH-HHHHHHhcCCC------C-CCeEEEEEEECCeEEEEECCCCCCCCeEEEeeCccc
Confidence 3699999876221 133444433 23444444321 0 2689999999873200 0 0011 0
Q ss_pred e-----ccCCCCHH----HHHHHHccCc--cCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCC
Q 003297 69 R-----SGWTKDVD----IFLHWLSTIP--FAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPH 137 (833)
Q Consensus 69 ~-----~gfT~d~~----~fl~~Ld~I~--f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~ 137 (833)
. .+|.-++. .+...|++|. |.-+.....|...||.+|+.++... --++|+.+.++|-
T Consensus 77 ~f~P~~~~~lv~l~e~~~~i~~lL~~L~~~~~~~~~~~~c~G~Al~~A~~lL~~~------------GGkIi~f~s~~pt 144 (244)
T cd01479 77 PFLPLPDGLLVNLKESRQVIEDLLDQIPEMFQDTKETESALGPALQAAFLLLKET------------GGKIIVFQSSLPT 144 (244)
T ss_pred ccCCCCcceeecHHHHHHHHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHhc------------CCEEEEEeCCCCC
Confidence 0 11222233 3344556553 2223344688999999999988621 1355666666654
Q ss_pred CCC-CCcccC--CccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEE-eccCc---chhHHHHHHHhcCCC
Q 003297 138 PLP-TPVYRP--QMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSV-ICPKQ---LPKLTAIYNAAKRNP 204 (833)
Q Consensus 138 ~lp-~pvy~p--~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSv-IsPrk---lp~l~~lf~ka~~~~ 204 (833)
-=| .-.-+. .+-+-+ .|. ...++.+ .-.+.+|..+.+++|.+.+ +|+.. +..+..|-+..+|..
T Consensus 145 ~GpG~l~~~~~~~~~~~~-~e~-~~~~p~~-~fY~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~TGG~v 215 (244)
T cd01479 145 LGAGKLKSREDPKLLSTD-KEK-QLLQPQT-DFYKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRLTGGQV 215 (244)
T ss_pred cCCcccccCccccccCch-hhh-hhcCcch-HHHHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhhcCceE
Confidence 222 111000 000000 111 1111111 1247899999999999999 55654 577888888888775
No 56
>PF11498 Activator_LAG-3: Transcriptional activator LAG-3; InterPro: IPR021587 The C.elegans Notch pathway, involved in the control of growth, differentiation and patterning in animal development, relies on either of the receptors GLP-1 or LIN-12 []. Both these receptors promote signalling by the recruitment of LAG-3 to target promoters, where it then acts as a transcriptional activator. LAG-3 works as a ternary complex together with the DNA binding protein, LAG-1 []. ; PDB: 2FO1_D.
Probab=94.54 E-value=0.01 Score=65.56 Aligned_cols=12 Identities=42% Similarity=0.747 Sum_probs=0.0
Q ss_pred ccccCCCCCCCC
Q 003297 792 QQMVGSGMGQGY 803 (833)
Q Consensus 792 qq~~~~~~~qq~ 803 (833)
-..+++||+.++
T Consensus 431 n~~MGYgmPngy 442 (468)
T PF11498_consen 431 NGGMGYGMPNGY 442 (468)
T ss_dssp ------------
T ss_pred ccCcccCCCCCC
Confidence 344566665544
No 57
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=94.08 E-value=1.3 Score=49.34 Aligned_cols=150 Identities=17% Similarity=0.234 Sum_probs=94.7
Q ss_pred ccEEEEEeCCccchH-----hHHHHHHHHHH-HHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHH
Q 003297 4 KQLIVAVEGTAAMGP-----YWQSIVSDYLE-KIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVD 77 (833)
Q Consensus 4 ~dvVFVID~Tasmg~-----y~~~lkt~YI~-p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~ 77 (833)
+-+++|||++-+|.. -.-.+..-|++ =+.|+|.++++. .+|||..+|-- -+-+ ...|.++.
T Consensus 61 Rhl~iviD~S~am~e~Df~P~r~a~~~K~le~Fv~eFFdQNPiS--------Qigii~~k~g~--A~~l---t~ltgnp~ 127 (378)
T KOG2807|consen 61 RHLYIVIDCSRAMEEKDFRPSRFANVIKYLEGFVPEFFDQNPIS--------QIGIISIKDGK--ADRL---TDLTGNPR 127 (378)
T ss_pred eeEEEEEEhhhhhhhccCCchHHHHHHHHHHHHHHHHhccCchh--------heeEEEEecch--hhHH---HHhcCCHH
Confidence 458999999998853 22233333433 344566666664 89999999872 2333 44688999
Q ss_pred HHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccch
Q 003297 78 IFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENN 157 (833)
Q Consensus 78 ~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~ 157 (833)
+-++.|+++.+-+|-|+ +.-||.-|...+...+ ..+.|-+++|-.|=-
T Consensus 128 ~hI~aL~~~~~~~g~fS---LqNaLe~a~~~Lk~~p--------~H~sREVLii~ssls--------------------- 175 (378)
T KOG2807|consen 128 IHIHALKGLTECSGDFS---LQNALELAREVLKHMP--------GHVSREVLIIFSSLS--------------------- 175 (378)
T ss_pred HHHHHHhcccccCCChH---HHHHHHHHHHHhcCCC--------cccceEEEEEEeeec---------------------
Confidence 99999999996655565 3444555555443322 123455544432211
Q ss_pred hhhhcccCCCHHHHHHHHhhcCcEEEEeccCc-chhHHHHHHHhcC
Q 003297 158 EAQAESRLSDAETVAKSFVQCSVSLSVICPKQ-LPKLTAIYNAAKR 202 (833)
Q Consensus 158 ~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrk-lp~l~~lf~ka~~ 202 (833)
.+...|...+.+.+..-+|++|||.--- +-..|+|..+.++
T Consensus 176 ----T~DPgdi~~tI~~lk~~kIRvsvIgLsaEv~icK~l~kaT~G 217 (378)
T KOG2807|consen 176 ----TCDPGDIYETIDKLKAYKIRVSVIGLSAEVFICKELCKATGG 217 (378)
T ss_pred ----ccCcccHHHHHHHHHhhCeEEEEEeechhHHHHHHHHHhhCC
Confidence 1112467778888999999999987663 6667777776653
No 58
>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=93.92 E-value=0.44 Score=50.15 Aligned_cols=129 Identities=14% Similarity=0.179 Sum_probs=69.7
Q ss_pred cEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHHHc
Q 003297 5 QLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLS 84 (833)
Q Consensus 5 dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~Ld 84 (833)
.||||+|.++||..|... +..++..+.. .+ -++-+++|.+.-- .++..+ -..|+.+.+.-+.
T Consensus 59 ~lvvl~DvSGSM~~~s~~-----~l~~~~~l~~------~~---~~~~~f~F~~~l~---~vT~~l-~~~~~~~~l~~~~ 120 (222)
T PF05762_consen 59 RLVVLCDVSGSMAGYSEF-----MLAFLYALQR------QF---RRVRVFVFSTRLT---EVTPLL-RRRDPEEALARLS 120 (222)
T ss_pred cEEEEEeCCCChHHHHHH-----HHHHHHHHHH------hC---CCEEEEEEeeehh---hhhhhh-ccCCHHHHHHHHH
Confidence 799999999999999543 3344444432 11 2567778876521 111111 1235555555443
Q ss_pred -cCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhcc
Q 003297 85 -TIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAES 163 (833)
Q Consensus 85 -~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~ 163 (833)
.+...||| -.|.++|.++++.+.... . ....+|+|+|. +...
T Consensus 121 ~~~~~~~Gg---Tdi~~aL~~~~~~~~~~~--------~-~~t~vvIiSDg--~~~~----------------------- 163 (222)
T PF05762_consen 121 ALVQSFGGG---TDIGQALREFLRQYARPD--------L-RRTTVVIISDG--WDTN----------------------- 163 (222)
T ss_pred hhccCCCCc---cHHHHHHHHHHHHhhccc--------c-cCcEEEEEecc--cccC-----------------------
Confidence 22223333 335555666665553200 1 13455677663 1000
Q ss_pred cCCCHHHHHHHHhhcCcEEEEeccC
Q 003297 164 RLSDAETVAKSFVQCSVSLSVICPK 188 (833)
Q Consensus 164 ~l~d~e~la~~~~e~~I~LSvIsPr 188 (833)
...+.....+.+.+++-.+..+.|-
T Consensus 164 ~~~~~~~~l~~l~~r~~rviwLnP~ 188 (222)
T PF05762_consen 164 DPEPLAEELRRLRRRGRRVIWLNPL 188 (222)
T ss_pred ChHHHHHHHHHHHHhCCEEEEECCc
Confidence 0113456667888999999999996
No 59
>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=93.75 E-value=1.2 Score=47.00 Aligned_cols=158 Identities=17% Similarity=0.235 Sum_probs=97.6
Q ss_pred CccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCcc-C--CccEEEEEEeecCCCccccceeeccC-----CC
Q 003297 3 EKQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTS-A--SNVELSLVTFNTHGSYCACLVQRSGW-----TK 74 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~-g--~~~~~gLV~Y~d~~~~~~~lv~~~gf-----T~ 74 (833)
+.+||+.||.++|+...=-.|. .+-+..-|.+....+.-. | .+..+++|.+-+. ..-....+| ..
T Consensus 3 dlaLvLavDvS~SVD~~E~~lQ---~~G~A~Al~dp~V~~Ai~~g~~g~Iav~~~eWsg~----~~q~~~v~Wt~i~~~~ 75 (205)
T PF06707_consen 3 DLALVLAVDVSGSVDADEYRLQ---REGYAAALRDPEVIAAILSGPIGRIAVAVVEWSGP----GRQRVVVPWTRIDSPA 75 (205)
T ss_pred cceeeeeeeccCCCCHHHHHHH---HHHHHHHHCCHHHHHHHhcCCCCeEEEEEEEecCC----CCceEEeCCEEeCCHH
Confidence 4689999999999987532332 234444444432211111 1 1345555555443 223345677 46
Q ss_pred CHHHHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccc
Q 003297 75 DVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQN 154 (833)
Q Consensus 75 d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~ 154 (833)
|...|-..|...+...+++ -+|.+||..|+.+|+..+ ..+.|++|.|.--=|.
T Consensus 76 da~a~A~~l~~~~r~~~~~--Taig~Al~~a~~ll~~~~--------~~~~RrVIDvSGDG~~----------------- 128 (205)
T PF06707_consen 76 DAEAFAARLRAAPRRFGGR--TAIGSALDFAAALLAQNP--------FECWRRVIDVSGDGPN----------------- 128 (205)
T ss_pred HHHHHHHHHHhCCCCCCCC--chHHHHHHHHHHHHHhCC--------CCCceEEEEECCCCCC-----------------
Confidence 7888888999988776666 899999999999998643 3478999999622111
Q ss_pred cchhhhhcccCCCHHHHHHHHhhcCcEEEEe-ccCcch----hHHHHHHHhc
Q 003297 155 ENNEAQAESRLSDAETVAKSFVQCSVSLSVI-CPKQLP----KLTAIYNAAK 201 (833)
Q Consensus 155 e~~~~~~~~~l~d~e~la~~~~e~~I~LSvI-sPrklp----~l~~lf~ka~ 201 (833)
.++....+.+-+.+..+||.+.-+ .-..-+ .|.+-|+...
T Consensus 129 -------N~G~~p~~~ard~~~~~GitINgL~I~~~~~~~~~~L~~yy~~~V 173 (205)
T PF06707_consen 129 -------NQGPRPVTSARDAAVAAGITINGLAILDDDPFGGADLDAYYRRCV 173 (205)
T ss_pred -------CCCCCccHHHHHHHHHCCeEEeeeEecCCCCCccccHHHHHhhhc
Confidence 111112235566778889999873 223333 6888888654
No 60
>PRK10997 yieM hypothetical protein; Provisional
Probab=93.16 E-value=1.2 Score=52.37 Aligned_cols=144 Identities=15% Similarity=0.209 Sum_probs=75.0
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHHH
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWL 83 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~L 83 (833)
..+|+|||+++||..+ +.+|..-+.-.+..-.+. .+-+++|+.|.+.-. .+ ...-......++..|
T Consensus 324 GpiII~VDtSGSM~G~----ke~~AkalAaAL~~iAl~-----q~dr~~li~Fs~~i~--~~---~l~~~~gl~~ll~fL 389 (487)
T PRK10997 324 GPFIVCVDTSGSMGGF----NEQCAKAFCLALMRIALA-----ENRRCYIMLFSTEVV--TY---ELTGPDGLEQAIRFL 389 (487)
T ss_pred CcEEEEEECCCCCCCC----HHHHHHHHHHHHHHHHHh-----cCCCEEEEEecCCce--ee---ccCCccCHHHHHHHH
Confidence 5799999999999844 223322222222110011 124788999988532 11 122334567888888
Q ss_pred ccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhcc
Q 003297 84 STIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAES 163 (833)
Q Consensus 84 d~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~ 163 (833)
+.. | |||- .+..+|.+|+....... ...--+|+|+|=--...+
T Consensus 390 ~~~-f-~GGT---Dl~~aL~~al~~l~~~~---------~r~adIVVISDF~~~~~~----------------------- 432 (487)
T PRK10997 390 SQS-F-RGGT---DLAPCLRAIIEKMQGRE---------WFDADAVVISDFIAQRLP----------------------- 432 (487)
T ss_pred HHh-c-CCCC---cHHHHHHHHHHHHcccc---------cCCceEEEECCCCCCCCh-----------------------
Confidence 754 5 4442 24445555555554210 001125566542111111
Q ss_pred cCCCHHHHHHHHhh-cCcEEEEeccCc--chhHHHHHHHh
Q 003297 164 RLSDAETVAKSFVQ-CSVSLSVICPKQ--LPKLTAIYNAA 200 (833)
Q Consensus 164 ~l~d~e~la~~~~e-~~I~LSvIsPrk--lp~l~~lf~ka 200 (833)
.+.+.-.+.+.+ ++..|..|+-.. .|.|.++|++.
T Consensus 433 --eel~~~L~~Lk~~~~~rf~~l~i~~~~~p~l~~ifD~~ 470 (487)
T PRK10997 433 --DELVAKVKELQRQHQHRFHAVAMSAHGKPGIMRIFDHI 470 (487)
T ss_pred --HHHHHHHHHHHHhcCcEEEEEEeCCCCCchHHHhcCee
Confidence 012233344544 788888766654 78999999854
No 61
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=92.30 E-value=2.2 Score=44.27 Aligned_cols=160 Identities=19% Similarity=0.276 Sum_probs=100.1
Q ss_pred EEEEEeCCcc--chHhHHHHHHHH---HHHHH-HHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHH
Q 003297 6 LIVAVEGTAA--MGPYWQSIVSDY---LEKII-RCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIF 79 (833)
Q Consensus 6 vVFVID~Tas--mg~y~~~lkt~Y---I~p~l-e~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~f 79 (833)
.|++||.+-. +|+|+..-..-- |+-++ +.|++.+ -..+||+...++-| .. -+.||.+..+|
T Consensus 6 tvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnp--------EntiGli~~~~a~p--~v---lsT~T~~~gki 72 (243)
T COG5148 6 TVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNP--------ENTIGLIPLVQAQP--NV---LSTPTKQRGKI 72 (243)
T ss_pred EEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCc--------cceeeeeecccCCc--ch---hccchhhhhHH
Confidence 6788898765 467766543322 33322 2233211 25799999988865 22 36789999999
Q ss_pred HHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhh
Q 003297 80 LHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEA 159 (833)
Q Consensus 80 l~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~ 159 (833)
+..|..|+..||- .+..+|.-|+-.|..++++. ..+|.+..|| ||=. |+.|
T Consensus 73 lt~lhd~~~~g~a----~~~~~lqiaql~lkhR~nk~------q~qriVaFvg-Spi~-----------------esed- 123 (243)
T COG5148 73 LTFLHDIRLHGGA----DIMRCLQIAQLILKHRDNKG------QRQRIVAFVG-SPIQ-----------------ESED- 123 (243)
T ss_pred HHHhccccccCcc----hHHHHHHHHHHHHhcccCCc------cceEEEEEec-Cccc-----------------ccHH-
Confidence 9999999999875 46677788887776544322 1234444443 2211 1111
Q ss_pred hhcccCCCHHHHHHHHhhcCcEEEEeccCcchhHHHHHHHhcCCCCCCCCCCCCCCCCCeEEEe
Q 003297 160 QAESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAIYNAAKRNPRAADPPVDNSKNPHFLVLI 223 (833)
Q Consensus 160 ~~~~~l~d~e~la~~~~e~~I~LSvIsPrklp~l~~lf~ka~~~~~~~~~~~~~ak~p~hlVLl 223 (833)
..-.+|+.+.+.||-+.+|-=--+.-...|||+-+. .|| .|..||+.+
T Consensus 124 -------eLirlak~lkknnVAidii~fGE~~n~~~l~efIda--------~N~-~dsshl~~~ 171 (243)
T COG5148 124 -------ELIRLAKQLKKNNVAIDIIFFGEAANMAGLFEFIDA--------TNF-SDSSHLEVK 171 (243)
T ss_pred -------HHHHHHHHHHhcCeeEEEEehhhhhhhhHHHHHHHh--------hcc-ccceeeEec
Confidence 235789999999999999976665555666665431 222 556788766
No 62
>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=91.85 E-value=2.8 Score=45.71 Aligned_cols=115 Identities=13% Similarity=0.102 Sum_probs=61.0
Q ss_pred HHHHccCccC-----CCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCC-CCcccC---Cccc
Q 003297 80 LHWLSTIPFA-----GGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP-TPVYRP---QMQN 150 (833)
Q Consensus 80 l~~Ld~I~f~-----GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp-~pvy~p---~~~~ 150 (833)
...|+.|+-. -+.....|...||.+|+.+++... .+.--++++...++|--=| .-+.+. .+-.
T Consensus 120 ~~lLe~L~~~~~~~~~~~r~~r~~G~Al~~A~~ll~~~~--------~~~gGki~~F~sg~pT~GpG~l~~r~~~~~~r~ 191 (267)
T cd01478 120 TDLLEQLQPDPWPVPAGHRPLRCTGVALSIAVGLLEACF--------PNTGARIMLFAGGPCTVGPGAVVSTELKDPIRS 191 (267)
T ss_pred HHHHHhCcccccccCCCCCCCCchHHHHHHHHHHHHhhc--------CCCCcEEEEEECCCCCCCCceeecccccccccc
Confidence 3466666432 223345788888888888876210 1122456666666664323 111110 0000
Q ss_pred -cc-cccchhhhhcccCCCHHHHHHHHhhcCcEEEE-eccCc---chhHHHHHHHhcCC
Q 003297 151 -LD-QNENNEAQAESRLSDAETVAKSFVQCSVSLSV-ICPKQ---LPKLTAIYNAAKRN 203 (833)
Q Consensus 151 -~~-~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSv-IsPrk---lp~l~~lf~ka~~~ 203 (833)
.+ .+|...+.+..+ .-...+|..+.+++|.+.+ +|... +..++.|.++.+|.
T Consensus 192 ~~d~~~~~~~~~~~a~-~fY~~la~~~~~~~vsvDlF~~s~d~vglaem~~l~~~TGG~ 249 (267)
T cd01478 192 HHDIDKDNAKYYKKAV-KFYDSLAKRLAANGHAVDIFAGCLDQVGLLEMKVLVNSTGGH 249 (267)
T ss_pred ccccccchhhhhhhHH-HHHHHHHHHHHhCCeEEEEEeccccccCHHHHHHHHHhcCcE
Confidence 00 011111111111 1236799999999999999 55554 67778888777765
No 63
>PF10138 vWA-TerF-like: vWA found in TerF C terminus ; InterPro: IPR019303 This entry represents the N-terminal domain of a family of proteins that confer resistance to the metalloid element tellurium and its salts.
Probab=91.50 E-value=4 Score=42.96 Aligned_cols=146 Identities=12% Similarity=0.220 Sum_probs=88.1
Q ss_pred CccEEEEEeCCccchHhHHH-HHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHH
Q 003297 3 EKQLIVAVEGTAAMGPYWQS-IVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLH 81 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~y~~~-lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~ 81 (833)
++.|++|||.|+||.++++. ...+.++.++-.-.. ++ +.| ++=+++|.+..-.-. .-..+.|..
T Consensus 1 rArV~LVLD~SGSM~~~yk~G~vQ~~~Er~lalA~~--~D--dDG---~i~v~~Fs~~~~~~~--------~vt~~~~~~ 65 (200)
T PF10138_consen 1 RARVYLVLDISGSMRPLYKDGTVQRVVERILALAAQ--FD--DDG---EIDVWFFSTEFDRLP--------DVTLDNYEG 65 (200)
T ss_pred CcEEEEEEeCCCCCchhhhCccHHHHHHHHHHHHhh--cC--CCC---ceEEEEeCCCCCcCC--------CcCHHHHHH
Confidence 46899999999999998876 555555555544332 22 223 677888877533111 223466777
Q ss_pred HHccCccC----C--CCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCcccccccc
Q 003297 82 WLSTIPFA----G--GGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNE 155 (833)
Q Consensus 82 ~Ld~I~f~----G--GG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e 155 (833)
|++++-.. + || ..-+..|.+++..+-+... ....-++|.|+|-.|+...
T Consensus 66 ~v~~~~~~~~~~~~~G~---t~y~~vm~~v~~~y~~~~~-------~~~P~~VlFiTDG~~~~~~--------------- 120 (200)
T PF10138_consen 66 YVDELHAGLPDWGRMGG---TNYAPVMEDVLDHYFKREP-------SDAPALVLFITDGGPDDRR--------------- 120 (200)
T ss_pred HHHHHhccccccCCCCC---cchHHHHHHHHHHHhhcCC-------CCCCeEEEEEecCCccchH---------------
Confidence 77766322 2 33 2223334455554432111 1224689999998887422
Q ss_pred chhhhhcccCCCHHHHHHHHhhcCcEEEEe--ccCcchhHHHHHHH
Q 003297 156 NNEAQAESRLSDAETVAKSFVQCSVSLSVI--CPKQLPKLTAIYNA 199 (833)
Q Consensus 156 ~~~~~~~~~l~d~e~la~~~~e~~I~LSvI--sPrklp~l~~lf~k 199 (833)
.++.+.++.+...|..+.| .=...-.|++|=+=
T Consensus 121 -----------~~~~~i~~as~~pifwqFVgiG~~~f~fL~kLD~l 155 (200)
T PF10138_consen 121 -----------AIEKLIREASDEPIFWQFVGIGDSNFGFLEKLDDL 155 (200)
T ss_pred -----------HHHHHHHhccCCCeeEEEEEecCCcchHHHHhhcc
Confidence 2467777778888988884 44457777777663
No 64
>KOG1226 consensus Integrin beta subunit (N-terminal portion of extracellular region) [Signal transduction mechanisms; Extracellular structures]
Probab=91.32 E-value=1.1 Score=54.43 Aligned_cols=175 Identities=13% Similarity=0.097 Sum_probs=108.5
Q ss_pred ccEEEEEeCCccchHhHHHHHHHH--HHHHHHHhhcccCccCccCCccEEEEEEeecCCC--------------cccc--
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDY--LEKIIRCFCVNELAGQTSASNVELSLVTFNTHGS--------------YCAC-- 65 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~Y--I~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~--------------~~~~-- 65 (833)
.||.+.+|=+.+|+++++.||+.= |-..++.|.+ ++|+|.=.|-|.+- .+++
T Consensus 133 VDLYyLMDlS~SM~DDl~~l~~LG~~L~~~m~~lT~----------nfrlGFGSFVDK~v~P~i~~~pekl~npc~~~~~ 202 (783)
T KOG1226|consen 133 VDLYYLMDLSYSMKDDLENLKSLGTDLAREMRKLTS----------NFRLGFGSFVDKTVSPYISTTPEKLRNPCPNYKN 202 (783)
T ss_pred eeEEEEeecchhhhhhHHHHHHHHHHHHHHHHHHhc----------cCCccccchhccccccccccCcHHhcCCCCCccc
Confidence 699999999999999999998753 4444555543 24555544444431 1221
Q ss_pred ceeeccC------CCCHHHHHHHHccCccCCCCCchhHHHHHHHHHHhc---cccCCCCCCCCCCcCCCcEEEEeecCCC
Q 003297 66 LVQRSGW------TKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMM---FSVAPNGSQNQQNVDGQRHCILVAASNP 136 (833)
Q Consensus 66 lv~~~gf------T~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~---f~~~~~~~~~~~~~~~qk~cILIa~SpP 136 (833)
..-.|+| |.|+++|.+.+++-..+|-=|.+|-=++|+--|..+ .-| ++++.|..|+.+++-+
T Consensus 203 C~ppfgfkhvLsLT~~~~~F~~~V~~q~ISgNlDaPEGGfDAimQaavC~~~IGW---------R~~a~~lLVF~td~~~ 273 (783)
T KOG1226|consen 203 CAPPFGFKHVLSLTNDAEEFNEEVGKQRISGNLDAPEGGFDAIMQAAVCTEKIGW---------RNDATRLLVFSTDAGF 273 (783)
T ss_pred CCCCcccceeeecCCChHHHHHHHhhceeccCCCCCCchHHHHHhhhhccccccc---------cccceeEEEEEcCcce
Confidence 1123444 999999999999999998888877755555444432 233 2456788899999999
Q ss_pred CCCCCCcccCCcccc----ccccchhhh---hcccCCCHHHHHHHHhhcCcEEEE-eccCcchhHHHHHH
Q 003297 137 HPLPTPVYRPQMQNL----DQNENNEAQ---AESRLSDAETVAKSFVQCSVSLSV-ICPKQLPKLTAIYN 198 (833)
Q Consensus 137 ~~lp~pvy~p~~~~~----~~~e~~~~~---~~~~l~d~e~la~~~~e~~I~LSv-IsPrklp~l~~lf~ 198 (833)
|-....-+..-+.-- ..+++..|+ ... .-...++++.+.+++|++.. +.-.+...+++|-+
T Consensus 274 H~a~DgkLaGiv~pnDG~CHL~~~g~Yt~S~~qd-yPSia~l~~kl~~~ni~~IFAVt~~~~~~Y~~l~~ 342 (783)
T KOG1226|consen 274 HFAGDGKLAGIVQPNDGQCHLDKNGEYTQSTTQD-YPSIAQLAQKLADNNINTIFAVTKNSQSLYEELSN 342 (783)
T ss_pred eeecccceeeEecCCCCccccCCCCccceecCCC-CCcHHHHHHHHhhhcchhHHHHhhhhhhHHHhhhh
Confidence 977642221111100 011111111 112 23458899999999998766 66666665555544
No 65
>PF11235 Med25_SD1: Mediator complex subunit 25 synapsin 1; InterPro: IPR021397 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, this SD1 - synapsin 1 - 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 The function of the SD domains is unclear [].
Probab=91.20 E-value=0.27 Score=48.85 Aligned_cols=77 Identities=18% Similarity=0.210 Sum_probs=54.9
Q ss_pred CCCCCCCCCCcccCCCCC-CCcCCCCCCCCCCCCCC-CC----------CccccCCccccceeecccccccCCCCCCCCC
Q 003297 239 VANLAPNQNPVKMDIAPV-TSVTGPAPTSIPSVNGI-NR----------PPISVGNVPTATVKVEPSTVTSMVNGPTFPH 306 (833)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~p~~~~~-~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~ 306 (833)
.+.+.+++.+.....+.+ ++...++++.+|.|..+ |. +.++..+||+|+.. +...|+||+.
T Consensus 9 pg~lq~KQ~Vp~pP~p~~~~~l~aaP~q~LPpVs~pq~qvp~n~tLsaAq~AAq~AVEAAknQ-------Kaglg~RF~p 81 (168)
T PF11235_consen 9 PGPLQPKQPVPLPPAPVSPAQLSAAPQQPLPPVSPPQYQVPGNSTLSAAQVAAQNAVEAAKNQ-------KAGLGPRFSP 81 (168)
T ss_pred CCCCCCCCcccCCCCCCCccccccCCcCCCCCCCccccccCccccchHHHHHHHHHHHHHHhc-------cccCCCCCCC
Confidence 467888888777776655 77789999999999666 33 23567888866554 3457899999
Q ss_pred CCCCCCCCCCCCCCcc
Q 003297 307 IPSVPRPASQGVPSLQ 322 (833)
Q Consensus 307 ~~p~~~~~~~~~~~~q 322 (833)
++|+++..--|-|--|
T Consensus 82 i~p~~~a~~vgpPFsQ 97 (168)
T PF11235_consen 82 INPLQQAPGVGPPFSQ 97 (168)
T ss_pred CCcccCCCCCCCCCcC
Confidence 9998886444444333
No 66
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.83 E-value=2.8 Score=51.85 Aligned_cols=164 Identities=16% Similarity=0.289 Sum_probs=88.6
Q ss_pred ccEEEEEeCC--ccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCc------------------c
Q 003297 4 KQLIVAVEGT--AAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSY------------------C 63 (833)
Q Consensus 4 ~dvVFVID~T--asmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~------------------~ 63 (833)
.-.||.||.| |.+..-+..+.+. |..++++|-. ++++.|+|+|+|.+.=-| +
T Consensus 418 pafvFmIDVSy~Ai~~G~~~a~ce~-ik~~l~~lp~-------~~p~~~Vgivtfd~tvhFfnl~s~L~qp~mliVsdv~ 489 (1007)
T KOG1984|consen 418 PAFVFMIDVSYNAISNGAVKAACEA-IKSVLEDLPR-------EEPNIRVGIVTFDKTVHFFNLSSNLAQPQMLIVSDVD 489 (1007)
T ss_pred ceEEEEEEeehhhhhcchHHHHHHH-HHHHHhhcCc-------cCCceEEEEEEecceeEeeccCccccCceEEEeeccc
Confidence 4579999986 2333333333332 4666777753 345799999999764210 0
Q ss_pred cccee-eccC----CCCHHHHHHHHccCc--cCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCC
Q 003297 64 ACLVQ-RSGW----TKDVDIFLHWLSTIP--FAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNP 136 (833)
Q Consensus 64 ~~lv~-~~gf----T~d~~~fl~~Ld~I~--f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP 136 (833)
+++|- ..|+ -.+...+...||.|. |.+-+.-+.++..+|.+|+..+... +.-|.+|....-|=
T Consensus 490 dvfvPf~~g~~V~~~es~~~i~~lLd~Ip~mf~~sk~pes~~g~alqaa~lalk~~----------~gGKl~vF~s~Lpt 559 (1007)
T KOG1984|consen 490 DVFVPFLDGLFVNPNESRKVIELLLDSIPTMFQDSKIPESVFGSALQAAKLALKAA----------DGGKLFVFHSVLPT 559 (1007)
T ss_pred ccccccccCeeccchHHHHHHHHHHHHhhhhhccCCCCchhHHHHHHHHHHHHhcc----------CCceEEEEeccccc
Confidence 11111 1222 233344455888884 5555555677888888888776532 12355555444444
Q ss_pred CCCCCCcccCCccccccccchhhhhcccC-----CCHHHHHHHHhhcCcEEEE-eccCcc
Q 003297 137 HPLPTPVYRPQMQNLDQNENNEAQAESRL-----SDAETVAKSFVQCSVSLSV-ICPKQL 190 (833)
Q Consensus 137 ~~lp~pvy~p~~~~~~~~e~~~~~~~~~l-----~d~e~la~~~~e~~I~LSv-IsPrkl 190 (833)
++.+- +|.+-+++..+...++-.+ .+..+||++|.|-+|++.+ +.|..+
T Consensus 560 ~g~g~-----kl~~r~D~~l~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ay 614 (1007)
T KOG1984|consen 560 AGAGG-----KLSNRDDRRLIGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAY 614 (1007)
T ss_pred ccCcc-----cccccchhhhhcccchhhccCcchhHHHHHHHHHHHhCceEEEEEcccce
Confidence 44441 1222222222222121111 1246899999999999998 665543
No 67
>PTZ00395 Sec24-related protein; Provisional
Probab=89.20 E-value=1.8 Score=55.79 Aligned_cols=162 Identities=12% Similarity=0.101 Sum_probs=83.2
Q ss_pred cEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCC------C--------------ccc
Q 003297 5 QLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHG------S--------------YCA 64 (833)
Q Consensus 5 dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~------~--------------~~~ 64 (833)
-.|||||.|. ..+++-++.-++|.++. .|+.-. ..++++|+|+|-..= + .+.
T Consensus 954 ~YvFLIDVS~------~AVkSGLl~tacesIK~-sLDsL~-dpRTRVGIITFDSsLHFYNLks~l~~~~~~~~~~~~l~q 1025 (1560)
T PTZ00395 954 YFVFVVECSY------NAIYNNITYTILEGIRY-AVQNVK-CPQTKIAIITFNSSIYFYHCKGGKGVSGEEGDGGGGSGN 1025 (1560)
T ss_pred EEEEEEECCH------HHHhhChHHHHHHHHHH-HHhcCC-CCCcEEEEEEecCcEEEEecCcccccccccccccccCCC
Confidence 4799999985 55666555544444432 121111 236899999985421 0 000
Q ss_pred ---cce----eeccC----------CCCHHHHHHHHccCc--cCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCC
Q 003297 65 ---CLV----QRSGW----------TKDVDIFLHWLSTIP--FAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQ 125 (833)
Q Consensus 65 ---~lv----~~~gf----------T~d~~~fl~~Ld~I~--f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~q 125 (833)
.+| ..|-+ ..+-+.+...|+.|. |.--...+.|+.-||.+|+.++.... -.-
T Consensus 1026 PQMLVVSDLDDPFLPlP~ddLLVnL~ESRevIe~LLDkLPemFt~t~~~esCLGSALqAA~~aLk~~G---------GGG 1096 (1560)
T PTZ00395 1026 HQVIVMSDVDDPFLPLPLEDLFFGCVEEIDKINTLIDTIKSVSTTMQSYGSCGNSALKIAMDMLKERN---------GLG 1096 (1560)
T ss_pred ceEEeecCCccCcCCCCccCeeechHHHHHHHHHHHHHHHHHhhccCCCcccHHHHHHHHHHHHHhcC---------CCc
Confidence 000 11111 123344555666664 22233457889999999999986311 123
Q ss_pred cEEEEeecCCCCCCCCCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEE-eccCc
Q 003297 126 RHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSV-ICPKQ 189 (833)
Q Consensus 126 k~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSv-IsPrk 189 (833)
|.|++.+.-|=++...-..+. .+..........+.+ ...+|.+|.+.+|.|.+ |++..
T Consensus 1097 KIiVF~SSLPniGpGaLK~Re--~~~KEk~Ll~pqd~F----YK~LA~ECsk~qISVDLFLfSsq 1155 (1560)
T PTZ00395 1097 SICMFYTTTPNCGIGAIKELK--KDLQENFLEVKQKIF----YDSLLLDLYAFNISVDIFIISSN 1155 (1560)
T ss_pred eEEEEEcCCCCCCCCcccccc--cccccccccccchHH----HHHHHHHHHhcCCceEEEEccCc
Confidence 556666544422222210010 010101100111122 37899999999999988 66654
No 68
>PLN00162 transport protein sec23; Provisional
Probab=86.65 E-value=7.7 Score=48.35 Aligned_cols=37 Identities=19% Similarity=0.221 Sum_probs=29.6
Q ss_pred HHHHHHHHhhcCcEEEE-eccCc---chhHHHHHHHhcCCC
Q 003297 168 AETVAKSFVQCSVSLSV-ICPKQ---LPKLTAIYNAAKRNP 204 (833)
Q Consensus 168 ~e~la~~~~e~~I~LSv-IsPrk---lp~l~~lf~ka~~~~ 204 (833)
.+.||+.+.+.+|.+.+ +|... +..++.|.++.+|.-
T Consensus 331 Y~~la~~~~~~gisvDlF~~s~dqvglaem~~l~~~TGG~v 371 (761)
T PLN00162 331 YEGLAKQLVAQGHVLDVFACSLDQVGVAEMKVAVERTGGLV 371 (761)
T ss_pred HHHHHHHHHHcCceEEEEEccccccCHHHHhhhHhhcCcEE
Confidence 47899999999999999 55553 688888888887664
No 69
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=86.61 E-value=17 Score=38.92 Aligned_cols=177 Identities=20% Similarity=0.261 Sum_probs=105.4
Q ss_pred EEEEEeCCccc--hHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHHH
Q 003297 6 LIVAVEGTAAM--GPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWL 83 (833)
Q Consensus 6 vVFVID~Tasm--g~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~L 83 (833)
.++|||-+--| |+|+++-..--. ..++.++...+.. -.-.-+||+..-.+.+ .. -..+|+|.-+++..|
T Consensus 6 tmi~iDNse~mrNgDy~PtRf~aQ~-daVn~v~~~K~~s---npEntvGiitla~a~~--~v---LsT~T~d~gkils~l 76 (259)
T KOG2884|consen 6 TMICIDNSEYMRNGDYLPTRFQAQK-DAVNLVCQAKLRS---NPENTVGIITLANASV--QV---LSTLTSDRGKILSKL 76 (259)
T ss_pred EEEEEeChHHhhcCCCChHHHHHHH-HHHHHHHHhhhcC---CcccceeeEeccCCCc--ee---eeeccccchHHHHHh
Confidence 57889988765 677765433221 2233333322110 0124789999888865 22 366899999999999
Q ss_pred ccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhcc
Q 003297 84 STIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAES 163 (833)
Q Consensus 84 d~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~ 163 (833)
..|+..|+ +.+..||.-|.-.|..+.++ ...+|.+++|+ ||= ++.|
T Consensus 77 h~i~~~g~----~~~~~~i~iA~lalkhRqnk------~~~~riVvFvG-Spi---------------~e~e-------- 122 (259)
T KOG2884|consen 77 HGIQPHGK----ANFMTGIQIAQLALKHRQNK------NQKQRIVVFVG-SPI---------------EESE-------- 122 (259)
T ss_pred cCCCcCCc----ccHHHHHHHHHHHHHhhcCC------CcceEEEEEec-Ccc---------------hhhH--------
Confidence 99998754 45667777777777543321 12233334443 221 1111
Q ss_pred cCCCHHHHHHHHhhcCcEEEEeccCcc----hhHHHHHHHhcCCCCCCCCCCCCCCCCCeEEEeeccchhhhhhcCCCC
Q 003297 164 RLSDAETVAKSFVQCSVSLSVICPKQL----PKLTAIYNAAKRNPRAADPPVDNSKNPHFLVLISENFMEARAALSRPG 238 (833)
Q Consensus 164 ~l~d~e~la~~~~e~~I~LSvIsPrkl----p~l~~lf~ka~~~~~~~~~~~~~ak~p~hlVLlsg~~l~~r~~~~~~~ 238 (833)
.+...+|+.|.+.+|.+.||-=--. ..|.++.+. .|+.-+-.|||-+.-..+=.-..++-|-
T Consensus 123 --keLv~~akrlkk~~Vaidii~FGE~~~~~e~l~~fida-----------~N~~~~gshlv~Vppg~~L~d~l~ssPi 188 (259)
T KOG2884|consen 123 --KELVKLAKRLKKNKVAIDIINFGEAENNTEKLFEFIDA-----------LNGKGDGSHLVSVPPGPLLSDALLSSPI 188 (259)
T ss_pred --HHHHHHHHHHHhcCeeEEEEEeccccccHHHHHHHHHH-----------hcCCCCCceEEEeCCCccHHHHhhcCce
Confidence 1457899999999999999965433 233333332 2333566899988766655555555444
No 70
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=86.06 E-value=3.9 Score=52.54 Aligned_cols=190 Identities=16% Similarity=0.152 Sum_probs=124.3
Q ss_pred CccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCcccccee---eccCCCCHHHH
Q 003297 3 EKQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQ---RSGWTKDVDIF 79 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~---~~gfT~d~~~f 79 (833)
.|||||.+|.+++|...--+|-+.-+.-+|+.|... + -+-++.|...--+-.+++. .-+-..+.++|
T Consensus 225 pKdiviLlD~SgSm~g~~~~lak~tv~~iLdtLs~~-----D-----fvni~tf~~~~~~v~pc~~~~lvqAt~~nk~~~ 294 (1104)
T KOG2353|consen 225 PKDIVILLDVSGSMSGLRLDLAKQTVNEILDTLSDN-----D-----FVNILTFNSEVNPVSPCFNGTLVQATMRNKKVF 294 (1104)
T ss_pred ccceEEEEeccccccchhhHHHHHHHHHHHHhcccC-----C-----eEEEEeeccccCcccccccCceeecchHHHHHH
Confidence 499999999999999988888888888999988752 2 4677888877543322211 12236778888
Q ss_pred HHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhh
Q 003297 80 LHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEA 159 (833)
Q Consensus 80 l~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~ 159 (833)
...++.+.+.| -+...+||..|+.++-+...+.....+..+.+-++||++..+-....
T Consensus 295 ~~~i~~l~~k~----~a~~~~~~e~aF~lL~~~n~s~~~~~~~~C~~~iml~tdG~~~~~~~------------------ 352 (1104)
T KOG2353|consen 295 KEAIETLDAKG----IANYTAALEYAFSLLRDYNDSRANTQRSPCNQAIMLITDGVDENAKE------------------ 352 (1104)
T ss_pred HHHHhhhcccc----ccchhhhHHHHHHHHHHhccccccccccccceeeEEeecCCcccHHH------------------
Confidence 88999888543 34466777778776654444444444555889999999776643221
Q ss_pred hhcccCCCHHHHHHHHh-hcCcEEEE-eccCcchhHHHHHHHhcCCCCCCCCCCCCCCCCCeEEEeeccchhhhhhcCCC
Q 003297 160 QAESRLSDAETVAKSFV-QCSVSLSV-ICPKQLPKLTAIYNAAKRNPRAADPPVDNSKNPHFLVLISENFMEARAALSRP 237 (833)
Q Consensus 160 ~~~~~l~d~e~la~~~~-e~~I~LSv-IsPrklp~l~~lf~ka~~~~~~~~~~~~~ak~p~hlVLlsg~~l~~r~~~~~~ 237 (833)
-+.+... .+.|.++- ..=++.-.+.+|+.-|..| +.|=++--++.=++.+.++.-..++||
T Consensus 353 ----------If~~yn~~~~~Vrvftflig~~~~~~~~~~wmac~n-------~gyy~~I~~~~~v~~~~~~y~~vlsRp 415 (1104)
T KOG2353|consen 353 ----------IFEKYNWPDKKVRVFTFLIGDEVYDLDEIQWMACAN-------KGYYVHIISIADVRENVLEYLDVLSRP 415 (1104)
T ss_pred ----------HHHhhccCCCceEEEEEEecccccccccchhhhhhC-------CCceEeccchhhcChHhhhhhhhhccc
Confidence 1111111 45566665 3334444455555544433 456666677777888889999999999
Q ss_pred CCCC
Q 003297 238 GVAN 241 (833)
Q Consensus 238 ~~~~ 241 (833)
-+-.
T Consensus 416 ~vl~ 419 (1104)
T KOG2353|consen 416 LVLQ 419 (1104)
T ss_pred eeec
Confidence 8644
No 71
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=86.05 E-value=15 Score=40.86 Aligned_cols=190 Identities=18% Similarity=0.295 Sum_probs=109.7
Q ss_pred ccEEEEEeCCccchH--hH---HHHHHHH-HHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHH
Q 003297 4 KQLIVAVEGTAAMGP--YW---QSIVSDY-LEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVD 77 (833)
Q Consensus 4 ~dvVFVID~Tasmg~--y~---~~lkt~Y-I~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~ 77 (833)
+-+++++|.+.+|.. +. ..+...| ++=+.|+|.+.++. .++++..||. +.-.....--|++
T Consensus 88 Rhl~l~lD~Seam~e~Df~p~r~a~vikya~~Fv~eFf~qNPiS--------qlsii~irdg-----~a~~~s~~~gnpq 154 (421)
T COG5151 88 RHLHLILDVSEAMDESDFLPTRRANVIKYAEGFVPEFFSQNPIS--------QLSIISIRDG-----CAKYTSSMDGNPQ 154 (421)
T ss_pred heeEEEEEhhhhhhhhhccchHHHHHHHHHHHHhHHHhccCCch--------heeeeehhhh-----HHHHhhhcCCCHH
Confidence 358999999999853 22 2233333 44556777776664 7888888876 2212345567899
Q ss_pred HHHHHHccCccCCCCCchhHHHHHHHHH-HhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccc
Q 003297 78 IFLHWLSTIPFAGGGFNDAAIAEGLSEA-LMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNEN 156 (833)
Q Consensus 78 ~fl~~Ld~I~f~GGG~~~~AvaEGLa~A-L~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~ 156 (833)
.++..|+++.---|-|+ +-.||.-| ..++.. ....-|-+.+|-.|---.-|
T Consensus 155 ~hi~~lkS~rd~~gnfS---LqNaLEmar~~l~~~---------~~H~trEvLiifgS~st~DP---------------- 206 (421)
T COG5151 155 AHIGQLKSKRDCSGNFS---LQNALEMARIELMKN---------TMHGTREVLIIFGSTSTRDP---------------- 206 (421)
T ss_pred HHHHHhhcccccCCChh---HHhHHHHhhhhhccc---------ccccceEEEEEEeecccCCC----------------
Confidence 99999999974434455 23333333 222221 11223555555444322222
Q ss_pred hhhhhcccCCCHHHHHHHHhhcCcEEEEeccC-cchhHHHHHHHhcCCCCCCCCCCCCCCCCCeEEEeeccchhhhh-hc
Q 003297 157 NEAQAESRLSDAETVAKSFVQCSVSLSVICPK-QLPKLTAIYNAAKRNPRAADPPVDNSKNPHFLVLISENFMEARA-AL 234 (833)
Q Consensus 157 ~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPr-klp~l~~lf~ka~~~~~~~~~~~~~ak~p~hlVLlsg~~l~~r~-~~ 234 (833)
+|..+....+...+|++.+|.-- .+...|+|..+. ||.+.-++.|+|.+--|.|-- -+
T Consensus 207 ---------gdi~~tid~Lv~~~IrV~~igL~aevaicKeickaT-----------n~~~e~~y~v~vde~Hl~el~~E~ 266 (421)
T COG5151 207 ---------GDIAETIDKLVAYNIRVHFIGLCAEVAICKEICKAT-----------NSSTEGRYYVPVDEGHLSELMREL 266 (421)
T ss_pred ---------ccHHHHHHHHHhhceEEEEEeehhHHHHHHHHHhhc-----------CcCcCceeEeeecHHHHHHHHHhc
Confidence 35566666677789999997654 356667777643 456667889999886655532 23
Q ss_pred CCCCCCCCC-CCCCCcccCCC
Q 003297 235 SRPGVANLA-PNQNPVKMDIA 254 (833)
Q Consensus 235 ~~~~~~~~~-~~~~~~~~~~~ 254 (833)
+.|...+-+ ++-+.|||--+
T Consensus 267 ~~P~~~n~~k~~~sLVkmGFP 287 (421)
T COG5151 267 SHPTDFNGTKTDLSLVKMGFP 287 (421)
T ss_pred CCCCCCCccccCceEEEecCC
Confidence 344432222 23345555543
No 72
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=86.02 E-value=9.4 Score=42.14 Aligned_cols=84 Identities=13% Similarity=0.139 Sum_probs=56.1
Q ss_pred chhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhcccCCCHHHHHH
Q 003297 94 NDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAK 173 (833)
Q Consensus 94 ~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~ 173 (833)
....++.||.-||+..-+.. ...+.....+.++++|..|+-+... |.|. ...+.
T Consensus 117 ~~s~lagals~ALcyinr~~--~~~~~~~~~~~RIlii~~s~~~~~q---Yi~~---------------------mn~If 170 (279)
T TIGR00627 117 SRTVLAGALSDALGYINRSE--QSETASEKLKSRILVISITPDMALQ---YIPL---------------------MNCIF 170 (279)
T ss_pred ccccchhHHHhhhhhhcccc--cccccCcCCcceEEEEECCCCchHH---HHHH---------------------HHHHH
Confidence 45668899999998775431 0111234557788888777544322 4332 45677
Q ss_pred HHhhcCcEEEEeccC---cchhHHHHHHHhcCC
Q 003297 174 SFVQCSVSLSVICPK---QLPKLTAIYNAAKRN 203 (833)
Q Consensus 174 ~~~e~~I~LSvIsPr---klp~l~~lf~ka~~~ 203 (833)
.+.+.+|.++||.-. -...|+.+-+..+|-
T Consensus 171 aaqk~~I~Idv~~L~~e~~~~~lqQa~~~TgG~ 203 (279)
T TIGR00627 171 SAQKQNIPIDVVSIGGDFTSGFLQQAADITGGS 203 (279)
T ss_pred HHHHcCceEEEEEeCCccccHHHHHHHHHhCCE
Confidence 889999999996443 388999999988764
No 73
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=85.61 E-value=2.2 Score=41.23 Aligned_cols=77 Identities=16% Similarity=0.181 Sum_probs=43.7
Q ss_pred EEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHHHcc
Q 003297 6 LIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLST 85 (833)
Q Consensus 6 vVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~Ld~ 85 (833)
|+++||+++||.+. +|+ .++..+...++. + ..++-| ++-|+.-+....+.. ....+..
T Consensus 1 i~vaiDtSGSis~~--~l~-~fl~ev~~i~~~-------~--~~~v~v-i~~D~~v~~~~~~~~---------~~~~~~~ 58 (126)
T PF09967_consen 1 IVVAIDTSGSISDE--ELR-RFLSEVAGILRR-------F--PAEVHV-IQFDAEVQDVQVFRS---------LEDELRD 58 (126)
T ss_pred CEEEEECCCCCCHH--HHH-HHHHHHHHHHHh-------C--CCCEEE-EEECCEeeeeeEEec---------ccccccc
Confidence 68999999999873 232 344444444432 1 134434 444554433332222 3345667
Q ss_pred CccCCCCCc-hhHHHHHHHH
Q 003297 86 IPFAGGGFN-DAAIAEGLSE 104 (833)
Q Consensus 86 I~f~GGG~~-~~AvaEGLa~ 104 (833)
+++.|||.. ...+.|-+.+
T Consensus 59 ~~~~GgGGTdf~pvf~~~~~ 78 (126)
T PF09967_consen 59 IKLKGGGGTDFRPVFEYLEE 78 (126)
T ss_pred cccCCCCCCcchHHHHHHHh
Confidence 888888865 5667776654
No 74
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=81.08 E-value=10 Score=44.39 Aligned_cols=88 Identities=18% Similarity=0.270 Sum_probs=56.1
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHHH
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWL 83 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~L 83 (833)
-.|+++||+++||.-+=..+-+-...-+++.-- + + +-++.+.+|.+ +-.=.+.+....|..++++.|
T Consensus 273 GpvilllD~SGSM~G~~e~~AKAvalAl~~~al----a--e---nR~~~~~lF~s----~~~~~el~~k~~~~~e~i~fL 339 (437)
T COG2425 273 GPVILLLDKSGSMSGFKEQWAKAVALALMRIAL----A--E---NRDCYVILFDS----EVIEYELYEKKIDIEELIEFL 339 (437)
T ss_pred CCEEEEEeCCCCcCCcHHHHHHHHHHHHHHHHH----H--h---ccceEEEEecc----cceeeeecCCccCHHHHHHHH
Confidence 468999999999998866655544332322221 1 1 24788899988 223345688889999999999
Q ss_pred ccCccCCCCCchhHHHHHHHHHHhcc
Q 003297 84 STIPFAGGGFNDAAIAEGLSEALMMF 109 (833)
Q Consensus 84 d~I~f~GGG~~~~AvaEGLa~AL~~f 109 (833)
..+- ||| . -+..+|.+||+..
T Consensus 340 ~~~f--~GG-T--D~~~~l~~al~~~ 360 (437)
T COG2425 340 SYVF--GGG-T--DITKALRSALEDL 360 (437)
T ss_pred hhhc--CCC-C--ChHHHHHHHHHHh
Confidence 8764 555 2 2333445555444
No 75
>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=80.11 E-value=20 Score=39.47 Aligned_cols=167 Identities=14% Similarity=0.121 Sum_probs=87.6
Q ss_pred EEEEEeCCccchHhHH--HHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeecc------------
Q 003297 6 LIVAVEGTAAMGPYWQ--SIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSG------------ 71 (833)
Q Consensus 6 vVFVID~Tasmg~y~~--~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~g------------ 71 (833)
||+|||+...-+.-.. .-.++.|+-++-+++.-=.- ....++++|.++.+.+ .++--...
T Consensus 4 LvIILD~nP~~W~~~~~~~~l~~~l~~llvFlNahL~l----~~~N~vaVIAs~~~~s--~~LYP~~~~~~~~~~~~~~~ 77 (276)
T PF03850_consen 4 LVIILDTNPLAWGQLSDQLSLSQFLDSLLVFLNAHLAL----NHSNQVAVIASHSNSS--KFLYPSPSSSESSNSGDVEM 77 (276)
T ss_pred EEEEEECCHHHHhhccccccHHHHHHHHHHHHHHHHhh----CccCCEEEEEEcCCcc--EEEeCCCccccccCCCcccc
Confidence 7899998764433333 22345556666655541100 1257899998877763 33211111
Q ss_pred ---------CCCCHHHH-HHHHccC--ccCCCCCc--hhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEE-eecCCC
Q 003297 72 ---------WTKDVDIF-LHWLSTI--PFAGGGFN--DAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCIL-VAASNP 136 (833)
Q Consensus 72 ---------fT~d~~~f-l~~Ld~I--~f~GGG~~--~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cIL-Ia~SpP 136 (833)
-++.++++ ++-|.++ +....... ...++-||+.||+..-+...... ......+.++++ |..|+-
T Consensus 78 ~~~~~~~y~~f~~v~~~v~~~l~~l~~~~~~~~~~~~~s~LagALS~ALCyINR~~~~~~-~~~~~~~~RILv~~s~s~d 156 (276)
T PF03850_consen 78 NSSDSNKYRQFRNVDETVLEELKKLMSETSESSDSTTSSLLAGALSMALCYINRISRESP-SGGTSLKSRILVIVSGSPD 156 (276)
T ss_pred cccccchhHHHHHHHHHHHHHHHHHHhhcccccccccchhhHHHHHHHHHHHhhhhhccc-CCCCCcCccEEEEEecCCC
Confidence 00111111 1222222 11222222 37899999999988865421111 001233444544 777777
Q ss_pred CCCCCCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCc--chhHHHHHHHhcCC
Q 003297 137 HPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQ--LPKLTAIYNAAKRN 203 (833)
Q Consensus 137 ~~lp~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrk--lp~l~~lf~ka~~~ 203 (833)
+... |.|.|| .+=+..+.+|.+.+..-.. .+.|.-.-+..+|-
T Consensus 157 ~~~Q---Yi~~MN---------------------~iFaAqk~~v~IDv~~L~~~~s~fLqQa~d~T~G~ 201 (276)
T PF03850_consen 157 SSSQ---YIPLMN---------------------CIFAAQKQKVPIDVCKLGGKDSTFLQQASDITGGI 201 (276)
T ss_pred ccHH---HHHHHH---------------------HHHHHhcCCceeEEEEecCCchHHHHHHHHHhCce
Confidence 6655 544433 3445678889999966654 67777666665554
No 76
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=78.03 E-value=4.5 Score=48.22 Aligned_cols=87 Identities=14% Similarity=0.104 Sum_probs=61.4
Q ss_pred EEEEEeCCccch-------HhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHH
Q 003297 6 LIVAVEGTAAMG-------PYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDI 78 (833)
Q Consensus 6 vVFVID~Tasmg-------~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~ 78 (833)
+.|+||++++|. .|++.+| ..|+-.+++-.. .-+++ .-||-|++|..+ +.....+|-..-..
T Consensus 4 ~lFllDTS~SM~qrah~~~tylD~AK-gaVEtFiK~R~r-~~~~~----gdryml~Tfeep-----P~~vk~~~~~~~a~ 72 (888)
T KOG3768|consen 4 FLFLLDTSGSMSQRAHPQFTYLDLAK-GAVETFIKQRTR-VGRET----GDRYMLTTFEEP-----PKNVKVACEKLGAV 72 (888)
T ss_pred EEEEEecccchhhhccCCchhhHHHH-HHHHHHHHHHhc-ccccc----CceEEEEecccC-----chhhhhHHhhcccH
Confidence 679999999996 4555444 445555554432 22222 259999999876 33456788888999
Q ss_pred HHHHHccCccCCCC-CchhHHHHHHH
Q 003297 79 FLHWLSTIPFAGGG-FNDAAIAEGLS 103 (833)
Q Consensus 79 fl~~Ld~I~f~GGG-~~~~AvaEGLa 103 (833)
|++.|+++..-+|- -.+.++.||+.
T Consensus 73 ~~~eik~l~a~~~s~~~~~~~t~AFd 98 (888)
T KOG3768|consen 73 VIEEIKKLHAPYGSCQLHHAITEAFD 98 (888)
T ss_pred HHHHHHhhcCccchhhhhHHHHHHhh
Confidence 99999999988776 45788888653
No 77
>COG1721 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]
Probab=72.21 E-value=31 Score=39.77 Aligned_cols=74 Identities=8% Similarity=0.120 Sum_probs=51.4
Q ss_pred CccEEEEEeCCccch------HhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCH
Q 003297 3 EKQLIVAVEGTAAMG------PYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDV 76 (833)
Q Consensus 3 ~~dvVFVID~Tasmg------~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~ 76 (833)
+.+|++++|++.+|. ..|+.....-.--...-+.. +.++|+.+|.+..+ ..++.-+.-
T Consensus 224 ~~~v~l~lD~~~~m~~~~~~~~~~e~av~~a~~la~~~l~~----------gd~vg~~~~~~~~~------~~~~p~~G~ 287 (416)
T COG1721 224 GRTVVLVLDASRSMLFGSGVASKFEEAVRAAASLAYAALKN----------GDRVGLLIFGGGGP------KWIPPSRGR 287 (416)
T ss_pred CceEEEEEeCCccccCCCCCccHHHHHHHHHHHHHHHHHhC----------CCeeEEEEECCCcc------eeeCCCcch
Confidence 489999999999998 56666665543333333332 36999999998866 556666677
Q ss_pred HHHHHHHccCccCCCC
Q 003297 77 DIFLHWLSTIPFAGGG 92 (833)
Q Consensus 77 ~~fl~~Ld~I~f~GGG 92 (833)
+-|...|+.+......
T Consensus 288 ~~l~~~l~~l~~~~~~ 303 (416)
T COG1721 288 RHLARILKALALLRPA 303 (416)
T ss_pred HHHHHHHHHhhccCCC
Confidence 7777777777655444
No 78
>TIGR01651 CobT cobaltochelatase, CobT subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=62.63 E-value=65 Score=39.20 Aligned_cols=64 Identities=17% Similarity=0.119 Sum_probs=38.1
Q ss_pred HHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhcccCCCHHHHHHHHhhc
Q 003297 99 AEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQC 178 (833)
Q Consensus 99 aEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~ 178 (833)
.|||..|...+-.. ....|.+|+|+|--|....+- ..|.. .+-. .+.-.|++.+..+
T Consensus 499 GeAl~wa~~rL~~R---------~e~rKiL~ViSDG~P~D~~Tl---------svN~~----~~l~-~hLr~vi~~~e~~ 555 (600)
T TIGR01651 499 GEALMWAHQRLIAR---------PEQRRILMMISDGAPVDDSTL---------SVNPG----NYLE-RHLRAVIEEIETR 555 (600)
T ss_pred hHHHHHHHHHHhcC---------cccceEEEEEeCCCcCCcccc---------ccCch----hHHH-HHHHHHHHHHhcc
Confidence 46677776655322 344688899999999865541 11110 0000 2445777777776
Q ss_pred -CcEEEEe
Q 003297 179 -SVSLSVI 185 (833)
Q Consensus 179 -~I~LSvI 185 (833)
+|.|-.|
T Consensus 556 ~~vel~ai 563 (600)
T TIGR01651 556 SPVELLAI 563 (600)
T ss_pred CCceEEEe
Confidence 8997775
No 79
>TIGR00620 sporelyase spore photoproduct lyase. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=55.38 E-value=55 Score=34.63 Aligned_cols=133 Identities=13% Similarity=0.174 Sum_probs=83.0
Q ss_pred HHHHHHHHHHHhhcccCccCccCCccEEEEEE-eecCCCccc---cceeeccCCCCHHHHHHHHccCccCCCCCchhHHH
Q 003297 24 VSDYLEKIIRCFCVNELAGQTSASNVELSLVT-FNTHGSYCA---CLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIA 99 (833)
Q Consensus 24 kt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~-Y~d~~~~~~---~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~~~Ava 99 (833)
.|.|+..++++|.+.+ ..++-+|+ |.+.+.+.+ .=-.++.|+-++..+.+-.+.-. +.+.
T Consensus 8 ~Tg~l~~~I~ff~~~~--------~~~lef~TK~~nv~~Ll~l~~~~~t~~rfSlnp~~Ii~~~E~~T--------~sl~ 71 (199)
T TIGR00620 8 LTHTLKRAIEHFGQSD--------FGKLRFVTKFHHVDHLLDAKHNGKTRFRFSINADYVIKNFEPGT--------SPLD 71 (199)
T ss_pred ccchHHHHHHHHccCC--------CcEEEEEEcccchhhHhcCCCCCCEEEEEEeCHHHHHHHhcCCC--------CCHH
Confidence 3677899999998633 12444443 222222211 11257899999999998766433 4466
Q ss_pred HHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhcccCCCHHHHHHHHh---
Q 003297 100 EGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFV--- 176 (833)
Q Consensus 100 EGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~--- 176 (833)
|=|.+|-+|.+. .=+.|++|+ |.-. -|+|+...... .|.|.+.+.
T Consensus 72 ~Rl~Aa~k~a~a------------Gy~Vg~~~~-------PIi~----------~egW~e~Y~~l---~~~l~~~l~~~~ 119 (199)
T TIGR00620 72 KRIEAAVKVAKA------------GYPLGFIIA-------PIYI----------HEGWKEGYRNL---LEKLDEALPQDL 119 (199)
T ss_pred HHHHHHHHHHHc------------CCeEEEEee-------ceEe----------eCChHHHHHHH---HHHHHHhCCHhh
Confidence 666666666541 224556664 2211 15566543333 366776666
Q ss_pred hcCcEEEEeccCcchhHHHHHHHhcCCC
Q 003297 177 QCSVSLSVICPKQLPKLTAIYNAAKRNP 204 (833)
Q Consensus 177 e~~I~LSvIsPrklp~l~~lf~ka~~~~ 204 (833)
.++|++.+|+=|-.+.++++.++.-.+.
T Consensus 120 ~~dl~~e~i~~R~t~~~k~~i~~~fP~s 147 (199)
T TIGR00620 120 RHDITFEVIQHRFTKPAKRVIEKNYPKT 147 (199)
T ss_pred hcCeEEEEEEEEcCHHHHHHHHHhCCCC
Confidence 6778999999999999999998877664
No 80
>PF04285 DUF444: Protein of unknown function (DUF444); InterPro: IPR006698 This entry is represented by Thermus phage phiYS40, Orf56. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches [].
Probab=51.92 E-value=1.5e+02 Score=34.77 Aligned_cols=135 Identities=15% Similarity=0.168 Sum_probs=77.5
Q ss_pred CccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHH
Q 003297 3 EKQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHW 82 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~ 82 (833)
++=|++++|.++||+.+-+.|-+.+--.+..++.. +|. ++ =|+|=.|+.- .|--|-++|+..
T Consensus 246 ~AVv~~lmDvSGSM~~~~K~lak~ff~~l~~fL~~------~Y~-~V---e~vfI~H~t~--------A~EVdEe~FF~~ 307 (421)
T PF04285_consen 246 NAVVFCLMDVSGSMGEFKKDLAKRFFFWLYLFLRR------KYE-NV---EIVFIRHHTE--------AKEVDEEEFFHS 307 (421)
T ss_pred cEEEEEEEeCCCCCchHHHHHHHHHHHHHHHHHHh------ccC-ce---EEEEEeecCc--------eEEecHHHhccc
Confidence 45567788999999999888887776677777764 452 23 3455555441 111122344321
Q ss_pred HccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhc
Q 003297 83 LSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAE 162 (833)
Q Consensus 83 Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~ 162 (833)
-.+|| --|.-||..|+++.+..-+. ....-|+.+. ..|+||+....
T Consensus 308 -----~esGG---T~vSSA~~l~~~ii~erypp------~~wNiY~~~~--------------------SDGDN~~~D~~ 353 (421)
T PF04285_consen 308 -----RESGG---TRVSSAYELALEIIEERYPP------SDWNIYVFHA--------------------SDGDNWSSDNE 353 (421)
T ss_pred -----CCCCC---eEehHHHHHHHHHHHhhCCh------hhceeeeEEc--------------------ccCccccCCCH
Confidence 12233 44556666777766532210 0111222222 35778877666
Q ss_pred ccCCCHHHHH-HHHhhcCcEEEE-ec-cCcchh
Q 003297 163 SRLSDAETVA-KSFVQCSVSLSV-IC-PKQLPK 192 (833)
Q Consensus 163 ~~l~d~e~la-~~~~e~~I~LSv-Is-Prklp~ 192 (833)
-| .+.|- ++|..|+.--++ |. +.....
T Consensus 354 ~~---~~ll~~~llp~~~~f~Y~Ei~~~~~~~~ 383 (421)
T PF04285_consen 354 RC---VELLEEELLPVCNYFGYGEITQPGRHSS 383 (421)
T ss_pred HH---HHHHHHHHHHhcCeEEEEEeccCccchH
Confidence 66 46677 788888887777 77 555554
No 81
>TIGR02877 spore_yhbH sporulation protein YhbH. This protein family, typified by YhbH in Bacillus subtilis, is found in nearly every endospore-forming bacterium and in no other genome (but note that the trusted cutoff score is set high to exclude a single high-scoring sequence from Nitrosococcus oceani ATCC 19707, which is classified in the Gammaproteobacteria). The gene in Bacillus subtilis was shown to be in the regulon of the sporulation sigma factor, sigma-E, and its mutation was shown to create a sporulation defect.
Probab=50.98 E-value=1.6e+02 Score=34.04 Aligned_cols=143 Identities=18% Similarity=0.240 Sum_probs=84.4
Q ss_pred CCccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHH
Q 003297 2 SEKQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLH 81 (833)
Q Consensus 2 ~~~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~ 81 (833)
+++=+++++|.++||+..-+.|-+..---+..++.. +|. +++ |+|=.|+. ..|--|=++|+.
T Consensus 201 s~AV~fc~MDvSGSM~~~~K~lak~ff~~ly~FL~~------~Y~-~Ve---ivFI~H~t--------~AkEVdEeeFF~ 262 (371)
T TIGR02877 201 SNAVVIAMMDTSGSMGQFKKYIARSFFFWMVKFLRT------KYE-NVE---ICFISHHT--------EAKEVTEEEFFH 262 (371)
T ss_pred CcEEEEEEEeCCCCCCHHHHHHHHHHHHHHHHHHHh------ccC-ceE---EEEEeecC--------eeEEcCHHHhcc
Confidence 345577789999999999888877765555555553 441 233 34545543 111112244432
Q ss_pred HHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhh
Q 003297 82 WLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQA 161 (833)
Q Consensus 82 ~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~ 161 (833)
. -.+|| --|.-||..|+++.+..-+. ...--||... ..|+||+...
T Consensus 263 ~-----~EsGG---T~vSSA~~l~~eII~~rYpp------~~wNIY~f~a--------------------SDGDNw~~D~ 308 (371)
T TIGR02877 263 K-----GESGG---TYCSSGYKKALEIIDERYNP------ARYNIYAFHF--------------------SDGDNLTSDN 308 (371)
T ss_pred c-----CCCCC---eEehHHHHHHHHHHHhhCCh------hhCeeEEEEc--------------------ccCCCccCCc
Confidence 1 11233 34556677777777642211 0111222222 3578888877
Q ss_pred cccCCCHHHHHHHHhhcCcEEEE-ecc-CcchhHHHHHHH
Q 003297 162 ESRLSDAETVAKSFVQCSVSLSV-ICP-KQLPKLTAIYNA 199 (833)
Q Consensus 162 ~~~l~d~e~la~~~~e~~I~LSv-IsP-rklp~l~~lf~k 199 (833)
.-| .+.|.++|.-|+.--++ |.+ +.--.|...|++
T Consensus 309 ~~c---~~ll~~llp~~~~f~Y~Ei~~~~~~~~l~~~y~~ 345 (371)
T TIGR02877 309 ERA---VKLVRKLLEVCNLFGYGEIMPYGYSNTLKNKFKN 345 (371)
T ss_pred HHH---HHHHHHHHHhhheEEEEEecCCCCcchHHHHHHh
Confidence 777 47788888888888887 776 455678888875
No 82
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=47.49 E-value=2.1e+02 Score=36.00 Aligned_cols=170 Identities=11% Similarity=0.151 Sum_probs=87.0
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCC-------Ccc----------ccc
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHG-------SYC----------ACL 66 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~-------~~~----------~~l 66 (833)
.-.||.||-|- +.++.-.+.-++|.+.++----.++-.++|+|+|+|-+.= ..+ ++.
T Consensus 277 ~~yvFlIDVS~------~a~~~g~~~a~~r~Il~~l~~~~~~dpr~kIaii~fD~sl~ffk~s~d~~~~~~~vsdld~pF 350 (861)
T COG5028 277 PVYVFLIDVSF------EAIKNGLVKAAIRAILENLDQIPNFDPRTKIAIICFDSSLHFFKLSPDLDEQMLIVSDLDEPF 350 (861)
T ss_pred CEEEEEEEeeh------HhhhcchHHHHHHHHHhhccCCCCCCCcceEEEEEEcceeeEEecCCCCccceeeeccccccc
Confidence 34799999873 4555544444444443311000123347999999986542 111 111
Q ss_pred eeec--cCCCCHHHHHH----HHccC--ccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCC
Q 003297 67 VQRS--GWTKDVDIFLH----WLSTI--PFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHP 138 (833)
Q Consensus 67 v~~~--gfT~d~~~fl~----~Ld~I--~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~ 138 (833)
+-.. -|-.+.+..+. .||.+ -|.+-+....++..||.+|-.+... -.-|.|++++.-|=-+
T Consensus 351 lPf~s~~fv~pl~~~k~~~etLl~~~~~If~d~~~pk~~~G~aLk~a~~l~g~-----------~GGkii~~~stlPn~G 419 (861)
T COG5028 351 LPFPSGLFVLPLKSCKQIIETLLDRVPRIFQDNKSPKNALGPALKAAKSLIGG-----------TGGKIIVFLSTLPNMG 419 (861)
T ss_pred ccCCcchhcccHHHHHHHHHHHHHHhhhhhcccCCCccccCHHHHHHHHHhhc-----------cCceEEEEeecCCCcc
Confidence 1110 12222232222 34444 2555566778999999999987753 1235555554433333
Q ss_pred CCCCcccCCccccccccchhhhhcccCCC--HHHHHHHHhhcCcEEEE-eccCc---chhHHHHHHHh
Q 003297 139 LPTPVYRPQMQNLDQNENNEAQAESRLSD--AETVAKSFVQCSVSLSV-ICPKQ---LPKLTAIYNAA 200 (833)
Q Consensus 139 lp~pvy~p~~~~~~~~e~~~~~~~~~l~d--~e~la~~~~e~~I~LSv-IsPrk---lp~l~~lf~ka 200 (833)
.. ++++.|-.+..-..| -| .+.+|.+|.|-+|++.+ ..++. .+.|-.|-+-.
T Consensus 420 ~G---------kl~~r~d~e~~ll~c-~d~fYk~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T 477 (861)
T COG5028 420 IG---------KLQLREDKESSLLSC-KDSFYKEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYT 477 (861)
T ss_pred cc---------cccccccchhhhccc-cchHHHHHHHHHHHhcceEEEEeccccccchhhhcchhhcc
Confidence 33 222222111111122 12 37899999999999999 55553 34444444433
No 83
>KOG1781 consensus Small Nuclear ribonucleoprotein splicing factor [RNA processing and modification]
Probab=47.11 E-value=31 Score=32.43 Aligned_cols=47 Identities=13% Similarity=0.201 Sum_probs=35.2
Q ss_pred eCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCC-ccEEEEEEeecC
Q 003297 11 EGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSAS-NVELSLVTFNTH 59 (833)
Q Consensus 11 D~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~-~~~~gLV~Y~d~ 59 (833)
|+|+.++-| +.|....|+-++||+++.+ +..+.+. +-++||||.|.-
T Consensus 39 ~~sGiLkGy-DqLlNlVLDd~vEylrdpd-d~~~~~~~tR~LGLvV~RGT 86 (108)
T KOG1781|consen 39 EASGILKGY-DQLLNLVLDDTVEYLRDPD-DPYKLTDETRKLGLVVCRGT 86 (108)
T ss_pred eeeeehhhH-HHHHHHHHHHHHHHhcCCC-CccchhhhhheeeeEEEccc
Confidence 678889988 9999999999999998732 1111122 468999998865
No 84
>PF11232 Med25: Mediator complex subunit 25 PTOV activation and synapsin 2; InterPro: IPR021394 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species [],[]. It is arranged into four different sections, a core, a head, a tail and a kinase-active part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. 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, an SD1 - synapsin 1 - 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 family is the combined PTOV and SD2 domains. the PTOV domain being the domain through which Med25 co-operates with the histone acetyltransferase CBP, but the function of the SD2 domain is unclear []. ; PDB: 2KY6_A 2L23_A 2XNF_A 2L6U_A.
Probab=45.51 E-value=8.5 Score=38.90 Aligned_cols=119 Identities=15% Similarity=0.276 Sum_probs=65.8
Q ss_pred cceeecccccCCcc--------cCCceeecccccccccccchhhccCCcchhhhhhhhhhcccccc--ccccccchhccc
Q 003297 566 KYVKVWEGSLSGQR--------QGQPVFITKLEGYRSASASETLAANWPPTMQIVRLISQDHMNNK--QYVGKADFLVFR 635 (833)
Q Consensus 566 ~y~k~w~g~ls~~r--------~g~pV~I~~legyrsss~set~Aa~wP~~~Q~vr~I~qd~mnn~--qy~gk~d~lvfR 635 (833)
.-.++|.|.|.=.+ .-...+.|.++..... +..+.+||..+ ++++|+...+.+. .| ++...++|+
T Consensus 6 ~~~~iWsG~leW~ek~~~~~~~k~~~~L~c~v~~~~~e---~l~~e~WP~KL-~mql~pk~lL~~i~~~~-kns~~v~f~ 80 (152)
T PF11232_consen 6 QRELIWSGVLEWEEKRKPDDQRKITRTLPCQVYANVKE---NLKAEDWPQKL-IMQLMPKQLLGNIGGLF-KNSRSVVFH 80 (152)
T ss_dssp SCEEEEEEEEEEESSS-STTTTS-EEEEEEEEEEESSS---S-SGCCS-SEE-EEEEEEHHHHGGGGGGG-SSEEEEEEE
T ss_pred cccceeeEEEEEEecCCCCcCcccceEEEEEEEecccc---ccCcccCChhh-eeehhhHHHHHHHHHHH-hcCeEEEEE
Confidence 56789999992222 2233467777776654 37789999987 7788888766643 35 666777887
Q ss_pred cccchhhhhhHHHH---hhhhhccCCccccccccchhhhhhhccccCCccccccCccchHHHH
Q 003297 636 AMNQHGFLGQLQEK---KLCAVIQLPSQTLLLSVSDKACRLIGMLFPGDMVVFKPQISSQQQQ 695 (833)
Q Consensus 636 ~ln~h~iL~~LQ~~---Kl~AiIQlPSQqL~LS~Sdk~qrIIgmL~p~D~v~~~pq~~~qQQq 695 (833)
.......++.|... +-.+.+..++ ...+.-+++-+++..++-.+---++..|-.
T Consensus 81 ~~~~~E~l~~L~~im~ng~~GcvhF~~------~p~c~iKvL~LlYs~kk~~flG~IP~DQ~~ 137 (152)
T PF11232_consen 81 FTTDCESLKSLYRIMSNGFAGCVHFSS------NPPCEIKVLMLLYSPKKKAFLGFIPNDQEG 137 (152)
T ss_dssp ESS-HHHHHHHHHHHHCCEEEEEE--S------TSSSS-SEEEEEEETTTTEEEEEEESTHHH
T ss_pred cCCChHHHHHHHHHhcCCeEEEEEcCC------CCCCceEEEEEEEcCCCceEEEEcCCCHHH
Confidence 77333444444333 3333332211 122223555566666666555555555544
No 85
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.94 E-value=1.5e+02 Score=37.44 Aligned_cols=193 Identities=16% Similarity=0.211 Sum_probs=100.3
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCC-------Cc--c-----ccceee
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHG-------SY--C-----ACLVQR 69 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~-------~~--~-----~~lv~~ 69 (833)
+-.|||||-+. +.+++-||+-.++.+-++ |+.--.-.|+++|+|+|-..= .. + ..+-+.
T Consensus 295 avy~FliDVS~------~a~ksG~L~~~~~slL~~-LD~lpgd~Rt~igfi~fDs~ihfy~~~~~~~qp~mm~vsdl~d~ 367 (887)
T KOG1985|consen 295 AVYVFLIDVSI------SAIKSGYLETVARSLLEN-LDALPGDPRTRIGFITFDSTIHFYSVQGDLNQPQMMIVSDLDDP 367 (887)
T ss_pred ceEEEEEEeeh------HhhhhhHHHHHHHHHHHh-hhcCCCCCcceEEEEEeeceeeEEecCCCcCCCceeeecccccc
Confidence 45799999874 666666766665555431 111000137999999885321 11 0 001111
Q ss_pred ccC-----CCCHHHHH----HHHccCc--cCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCC
Q 003297 70 SGW-----TKDVDIFL----HWLSTIP--FAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHP 138 (833)
Q Consensus 70 ~gf-----T~d~~~fl----~~Ld~I~--f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~ 138 (833)
|-+ --+++++. ..|+.|+ |.--++...|+..||.+|..++.. ..-|.||+.+--|=++
T Consensus 368 flp~pd~lLv~L~~ck~~i~~lL~~lp~~F~~~~~t~~alGpALkaaf~li~~-----------~GGri~vf~s~lPnlG 436 (887)
T KOG1985|consen 368 FLPMPDSLLVPLKECKDLIETLLKTLPEMFQDTRSTGSALGPALKAAFNLIGS-----------TGGRISVFQSTLPNLG 436 (887)
T ss_pred ccCCchhheeeHHHHHHHHHHHHHHHHHHHhhccCcccccCHHHHHHHHHHhh-----------cCCeEEEEeccCCCCC
Confidence 211 22223322 2333332 332344578888899999988852 2347777777666666
Q ss_pred CCCCcccCCccccccccchhhh----hcccCCC-HHHHHHHHhhcCcEEEE-eccCcchhHHHHHHHhc--CCCCCCCCC
Q 003297 139 LPTPVYRPQMQNLDQNENNEAQ----AESRLSD-AETVAKSFVQCSVSLSV-ICPKQLPKLTAIYNAAK--RNPRAADPP 210 (833)
Q Consensus 139 lp~pvy~p~~~~~~~~e~~~~~----~~~~l~d-~e~la~~~~e~~I~LSv-IsPrklp~l~~lf~ka~--~~~~~~~~~ 210 (833)
... |+.-|........ -..|-.| ...+|-++.+-+|.+.+ ...+++-.|..|-.-++ +...+-=+.
T Consensus 437 ~G~------L~~rEdp~~~~s~~~~qlL~~~t~FYK~~a~~cs~~qI~VDlFl~s~qY~DlAsLs~LskySgG~~y~YP~ 510 (887)
T KOG1985|consen 437 AGK------LKPREDPNVRSSDEDSQLLSPATDFYKDLALECSKSQICVDLFLFSEQYTDLASLSCLSKYSGGQVYYYPS 510 (887)
T ss_pred ccc------cccccccccccchhhhhccCCCchHHHHHHHHhccCceEEEEEeecccccchhhhhccccccCceeEEccC
Confidence 553 1211221111111 1222111 24788999999999998 77777666655544332 222122233
Q ss_pred CCCCCCCCeEE
Q 003297 211 VDNSKNPHFLV 221 (833)
Q Consensus 211 ~~~ak~p~hlV 221 (833)
-|+ +||+|-.
T Consensus 511 f~~-s~p~~~~ 520 (887)
T KOG1985|consen 511 FDG-SNPHDVL 520 (887)
T ss_pred CCC-CCHHHHH
Confidence 443 3777765
No 86
>TIGR00670 asp_carb_tr aspartate carbamoyltransferase. Ornithine carbamoyltransferases are in the same superfamily and form an outgroup.
Probab=43.78 E-value=86 Score=34.99 Aligned_cols=93 Identities=16% Similarity=0.252 Sum_probs=64.0
Q ss_pred CccccceeeccCCCCHHHHHHHHccCccCCCCCc-hhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCC
Q 003297 61 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFN-DAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPL 139 (833)
Q Consensus 61 ~~~~~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~-~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~l 139 (833)
.|.+.++-|......+.+|.+| .+++++=+|++ .++=..+|+-.+++.+.... .+ .+++.+|+|.-+.
T Consensus 94 ~y~D~iviR~~~~~~~~~~a~~-s~vPVINa~~g~~~HPtQ~LaDl~Ti~e~~g~-------l~-g~~va~vGD~~~~-- 162 (301)
T TIGR00670 94 GYSDAIVIRHPLEGAARLAAEV-SEVPVINAGDGSNQHPTQTLLDLYTIYEEFGR-------LD-GLKIALVGDLKYG-- 162 (301)
T ss_pred HhCCEEEEECCchhHHHHHHhh-CCCCEEeCCCCCCCCcHHHHHHHHHHHHHhCC-------CC-CCEEEEEccCCCC--
Confidence 3445667777777778888777 47888888874 68888888888887664321 11 2445555532111
Q ss_pred CCCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcc
Q 003297 140 PTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 190 (833)
Q Consensus 140 p~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrkl 190 (833)
..+-.++..++..|+.+.+++|+.+
T Consensus 163 --------------------------~v~~Sl~~~~a~~g~~v~~~~P~~~ 187 (301)
T TIGR00670 163 --------------------------RTVHSLAEALTRFGVEVYLISPEEL 187 (301)
T ss_pred --------------------------cHHHHHHHHHHHcCCEEEEECCccc
Confidence 1456678888999999999999986
No 87
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain
Probab=41.17 E-value=2e+02 Score=31.05 Aligned_cols=32 Identities=9% Similarity=0.175 Sum_probs=19.8
Q ss_pred ccEEEEEeCCccchHh-HHHHH--HHHHHHHHHHh
Q 003297 4 KQLIVAVEGTAAMGPY-WQSIV--SDYLEKIIRCF 35 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y-~~~lk--t~YI~p~le~f 35 (833)
.=|-|+||+++||... +.... -+.|-..++..
T Consensus 13 ~~VtlLID~SGSMrgr~~~vA~~~adila~aL~~~ 47 (219)
T PF11775_consen 13 TVVTLLIDCSGSMRGRPIEVAALCADILARALERC 47 (219)
T ss_pred eEEEEEEeCCcCCCCChHHHHHHHHHHHHHHHHhC
Confidence 3467899999999974 33332 23344555543
No 88
>PRK05325 hypothetical protein; Provisional
Probab=40.86 E-value=3.7e+02 Score=31.50 Aligned_cols=144 Identities=14% Similarity=0.170 Sum_probs=81.8
Q ss_pred CCccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHH
Q 003297 2 SEKQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLH 81 (833)
Q Consensus 2 ~~~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~ 81 (833)
+++=|+|++|.++||+..-++|-+.+--.+..++.. +|. +++ |+|=.|+. ..|--|-++|+.
T Consensus 221 s~AVmfclMDvSGSM~~~~K~lakrff~lly~fL~r------~Y~-~vE---vvFI~H~t--------~AkEVdEeeFF~ 282 (401)
T PRK05325 221 SQAVMFCLMDVSGSMDEAEKDLAKRFFFLLYLFLRR------KYE-NVE---VVFIRHHT--------EAKEVDEEEFFY 282 (401)
T ss_pred CcEEEEEEEeCCCCCchHHHHHHHHHHHHHHHHHHh------ccC-ceE---EEEEeecC--------ceeEcCHHHccc
Confidence 345577889999999999988777765566666653 341 223 44555543 112122233332
Q ss_pred HHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhh
Q 003297 82 WLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQA 161 (833)
Q Consensus 82 ~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~ 161 (833)
.. .+|| --|.-||..|+++.+..-+. ...--||... ..|+||+...
T Consensus 283 ----~~-esGG---T~vSSA~~l~~eIi~~rYpp------~~wNIY~f~a--------------------SDGDNw~~D~ 328 (401)
T PRK05325 283 ----SR-ESGG---TIVSSAYKLALEIIEERYPP------AEWNIYAFQA--------------------SDGDNWSSDN 328 (401)
T ss_pred ----cC-CCCC---eEehHHHHHHHHHHHhhCCH------hHCeeEEEEc--------------------ccCCCcCCCC
Confidence 11 2233 34555666777776532210 0111233332 3567888776
Q ss_pred cccCCCHHHHH-HHHhhcCcEEEE-eccCc--chhHHHHHHHh
Q 003297 162 ESRLSDAETVA-KSFVQCSVSLSV-ICPKQ--LPKLTAIYNAA 200 (833)
Q Consensus 162 ~~~l~d~e~la-~~~~e~~I~LSv-IsPrk--lp~l~~lf~ka 200 (833)
.-| .+.|. ++|..|+..-++ |-++- .-.|...|++-
T Consensus 329 ~~~---~~ll~~~llp~~~~f~Y~Ev~~~~~~~~~l~~~y~~i 368 (401)
T PRK05325 329 PRC---VELLREELLPVCNYFAYIEVTPRAYRHQTLWREYERL 368 (401)
T ss_pred HHH---HHHHHHHHHHHhhheEEEEecCCCCCchHHHHHHHHh
Confidence 666 35666 677778877777 77765 56677777744
No 89
>PRK02102 ornithine carbamoyltransferase; Validated
Probab=39.55 E-value=93 Score=35.28 Aligned_cols=92 Identities=12% Similarity=0.094 Sum_probs=64.2
Q ss_pred CccccceeeccCCCCHHHHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCC
Q 003297 61 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP 140 (833)
Q Consensus 61 ~~~~~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp 140 (833)
.|.+.++-|+.-...+.+|-++. .++.+=+|+..++=..+|+-.+++.++... .+ .+++.+|+|-- +
T Consensus 100 ~y~D~iviR~~~~~~~~~~a~~~-~vPVINa~~~~~HPtQaLaDl~Ti~e~~g~-------l~-g~~va~vGd~~-~--- 166 (331)
T PRK02102 100 RMYDGIEYRGFKQEIVEELAKYS-GVPVWNGLTDEWHPTQMLADFMTMKEHFGP-------LK-GLKLAYVGDGR-N--- 166 (331)
T ss_pred hcCCEEEEECCchHHHHHHHHhC-CCCEEECCCCCCChHHHHHHHHHHHHHhCC-------CC-CCEEEEECCCc-c---
Confidence 56677778877777788887775 577776776778888999998888765321 11 24444554321 1
Q ss_pred CCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcc
Q 003297 141 TPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 190 (833)
Q Consensus 141 ~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrkl 190 (833)
..+.-++..+...|+.+.+|+|+.+
T Consensus 167 -------------------------~v~~Sl~~~~~~~g~~v~~~~P~~~ 191 (331)
T PRK02102 167 -------------------------NMANSLMVGGAKLGMDVRICAPKEL 191 (331)
T ss_pred -------------------------cHHHHHHHHHHHcCCEEEEECCccc
Confidence 1356677888899999999999985
No 90
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=38.77 E-value=12 Score=47.90 Aligned_cols=18 Identities=22% Similarity=0.445 Sum_probs=8.1
Q ss_pred cCCCCCc-hhHHHHHHHHH
Q 003297 88 FAGGGFN-DAAIAEGLSEA 105 (833)
Q Consensus 88 f~GGG~~-~~AvaEGLa~A 105 (833)
..||..+ +.+++|-.+.+
T Consensus 1035 ~~Gg~lss~~il~~~~ad~ 1053 (2131)
T KOG4369|consen 1035 SAGGALSSCPILVSSVADA 1053 (2131)
T ss_pred ccCCccccchHHhhcccCh
Confidence 3444433 55555544433
No 91
>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.04 E-value=75 Score=33.18 Aligned_cols=84 Identities=18% Similarity=0.162 Sum_probs=45.6
Q ss_pred cEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHHHc
Q 003297 5 QLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLS 84 (833)
Q Consensus 5 dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~Ld 84 (833)
-||||||+|.. .-|.++|.+.. +.+... +.+ ...|++|-..-..++++ ++.++-+.|+
T Consensus 87 ~lIfVvDS~Dr--~Ri~eak~eL~----~~l~~~-----~l~---~~~llv~aNKqD~~~al--------s~~ei~~~L~ 144 (181)
T KOG0070|consen 87 GLIFVVDSSDR--ERIEEAKEELH----RMLAEP-----ELR---NAPLLVFANKQDLPGAL--------SAAEITNKLG 144 (181)
T ss_pred EEEEEEeCCcH--HHHHHHHHHHH----HHHcCc-----ccC---CceEEEEechhhccccC--------CHHHHHhHhh
Confidence 48999999974 45677775543 333221 111 23455555443334444 2455555443
Q ss_pred --cCccCCCCC-c-hhHHHHHHHHHHhccc
Q 003297 85 --TIPFAGGGF-N-DAAIAEGLSEALMMFS 110 (833)
Q Consensus 85 --~I~f~GGG~-~-~~AvaEGLa~AL~~f~ 110 (833)
+|.-.-..+ + ++.-.|||+++|+.+.
T Consensus 145 l~~l~~~~w~iq~~~a~~G~GL~egl~wl~ 174 (181)
T KOG0070|consen 145 LHSLRSRNWHIQSTCAISGEGLYEGLDWLS 174 (181)
T ss_pred hhccCCCCcEEeeccccccccHHHHHHHHH
Confidence 444322233 2 4557899999997654
No 92
>PLN02342 ornithine carbamoyltransferase
Probab=34.37 E-value=1.2e+02 Score=34.63 Aligned_cols=101 Identities=15% Similarity=0.173 Sum_probs=64.0
Q ss_pred CccccceeeccCCCCHHHHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCC
Q 003297 61 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP 140 (833)
Q Consensus 61 ~~~~~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp 140 (833)
.|.+.++-|+.-...+.+|-+|. +++++=+|+..++=..+|+..+++.+.... .+. +++.+|+|-+
T Consensus 139 ~y~D~IviR~~~~~~~~~la~~~-~vPVINA~~~~~HPtQaLaDl~Ti~e~~G~-------l~g-lkva~vGD~~----- 204 (348)
T PLN02342 139 RYNDIIMARVFAHQDVLDLAEYS-SVPVINGLTDYNHPCQIMADALTIIEHIGR-------LEG-TKVVYVGDGN----- 204 (348)
T ss_pred HhCCEEEEeCCChHHHHHHHHhC-CCCEEECCCCCCChHHHHHHHHHHHHHhCC-------cCC-CEEEEECCCc-----
Confidence 34455666766666667776664 577666665567788888888887765321 222 3344444411
Q ss_pred CCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcchhHHHHHHHh
Q 003297 141 TPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAIYNAA 200 (833)
Q Consensus 141 ~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrklp~l~~lf~ka 200 (833)
..+-.++.++...|+++.+++|+.+..-.++.+++
T Consensus 205 -------------------------nva~Sli~~~~~~G~~v~~~~P~~~~~~~~~~~~a 239 (348)
T PLN02342 205 -------------------------NIVHSWLLLAAVLPFHFVCACPKGYEPDAKTVEKA 239 (348)
T ss_pred -------------------------hhHHHHHHHHHHcCCEEEEECCcccccCHHHHHHH
Confidence 13456778888899999999999864434454443
No 93
>PRK14804 ornithine carbamoyltransferase; Provisional
Probab=34.21 E-value=1.6e+02 Score=33.12 Aligned_cols=94 Identities=13% Similarity=0.193 Sum_probs=59.9
Q ss_pred CccccceeeccCCCCHHHHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCC
Q 003297 61 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP 140 (833)
Q Consensus 61 ~~~~~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp 140 (833)
.|.+.++-|+.-..++.+|.+| ..++.+=+|+..++=..+|+-.+++.+...... .+ .+++..|++ |.
T Consensus 96 ~~~D~iv~R~~~~~~~~~~a~~-~~vPVINag~~~~HPtQaL~Dl~Ti~e~~g~~~-----l~-g~~va~vGd---~~-- 163 (311)
T PRK14804 96 RNVSVIMARLKKHEDLLVMKNG-SQVPVINGCDNMFHPCQSLADIMTIALDSPEIP-----LN-QKQLTYIGV---HN-- 163 (311)
T ss_pred hcCCEEEEeCCChHHHHHHHHH-CCCCEEECCCCCCChHHHHHHHHHHHHHhCCCC-----CC-CCEEEEECC---CC--
Confidence 3455666676666666766666 457777666656888888888888776432100 11 133334442 11
Q ss_pred CCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcch
Q 003297 141 TPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLP 191 (833)
Q Consensus 141 ~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrklp 191 (833)
..+--++..++..|+.+.+++|+.++
T Consensus 164 -------------------------rv~~Sl~~~~~~~G~~v~~~~P~~~~ 189 (311)
T PRK14804 164 -------------------------NVVNSLIGITAALGIHLTLVTPIAAK 189 (311)
T ss_pred -------------------------cHHHHHHHHHHHcCCEEEEECCCCcc
Confidence 13456777888899999999999975
No 94
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair]
Probab=34.09 E-value=1.5e+02 Score=36.18 Aligned_cols=145 Identities=14% Similarity=0.057 Sum_probs=82.9
Q ss_pred CccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhc----ccCccCccCCccEEEEEEeecCCC---------ccccceee
Q 003297 3 EKQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCV----NELAGQTSASNVELSLVTFNTHGS---------YCACLVQR 69 (833)
Q Consensus 3 ~~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~----~~l~~~~~g~~~~~gLV~Y~d~~~---------~~~~lv~~ 69 (833)
..-.|||+|..-+|+.-.+..++++ +.++.||.. ..+++++ .-.|++|.|+.-+. |-.--|.+
T Consensus 4 se~ttfilDvG~~Ms~~~~~~~S~f-E~a~~y~~~~lsrK~fa~rk---tD~is~vlyncD~ten~legg~~fqnisvl~ 79 (669)
T KOG2326|consen 4 SESTTFILDVGPSMSKNNETGKSNF-EKAMAYLEYTLSRKSFASRK---TDWISCVLYNCDVTENSLEGGNVFQNISVLA 79 (669)
T ss_pred CcceEEEEecCccccccCCCccccH-HHHHHHHHHHHHHHHhhccC---CceEEEEEecCCCccCccccccccceeEEee
Confidence 3457888899999987664444443 334333322 1122211 36899999997663 11123556
Q ss_pred ccCCCCHHHHHHHHccCccCCCCCchhHHHHHHHHHH-hccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCc
Q 003297 70 SGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEAL-MMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQM 148 (833)
Q Consensus 70 ~gfT~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL-~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~ 148 (833)
.-+|.+...|++.+....-.+-..+. .||+-.+. .+.....+ .....+++.||+.+-=-
T Consensus 80 p~~tpaf~~l~k~~~~~~qqns~q~D---f~gal~vs~dL~~qhe~-----~~k~~~kr~Il~~~~l~------------ 139 (669)
T KOG2326|consen 80 PVTTPAFIGLIKRLKQYCQQNSHQSD---FEGALSVSQDLLVQHED-----IKKQFQKRKILKQIVLF------------ 139 (669)
T ss_pred cccchhhHHHHHHHHHhcCCCccccc---hhhhHHHHHHHHHHHHh-----ccchhhceEEEEeeccc------------
Confidence 67899999999988855555444333 22222222 22221111 11345778888863211
Q ss_pred cccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEe
Q 003297 149 QNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVI 185 (833)
Q Consensus 149 ~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvI 185 (833)
+ .+.|-.-+++.+.+++|.|=++
T Consensus 140 ------~--------dfsd~~~ive~l~~~didL~~~ 162 (669)
T KOG2326|consen 140 ------T--------DFSDDLFIVEDLTDEDIDLLTE 162 (669)
T ss_pred ------c--------cchhhHHHHHHHhhcCcceeEe
Confidence 0 1123334899999999999987
No 95
>PRK00779 ornithine carbamoyltransferase; Provisional
Probab=33.97 E-value=1.4e+02 Score=33.23 Aligned_cols=91 Identities=14% Similarity=0.175 Sum_probs=59.7
Q ss_pred CccccceeeccCCCCHHHHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCC
Q 003297 61 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP 140 (833)
Q Consensus 61 ~~~~~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp 140 (833)
+|.+.+|-|+.--..+.+|.++. +++++=+|+..++=..+|+-.+.+.+.... .+ ..++..|++ +.
T Consensus 97 ~~~D~iv~R~~~~~~~~~~a~~~-~vPVINag~~~~HPtQaL~Dl~Ti~e~~g~-------l~-gl~i~~vGd---~~-- 162 (304)
T PRK00779 97 RYVDAIMIRTFEHETLEELAEYS-TVPVINGLTDLSHPCQILADLLTIYEHRGS-------LK-GLKVAWVGD---GN-- 162 (304)
T ss_pred HhCCEEEEcCCChhHHHHHHHhC-CCCEEeCCCCCCChHHHHHHHHHHHHHhCC-------cC-CcEEEEEeC---CC--
Confidence 34455666666556667776664 566665565678888888888888765321 12 234445554 11
Q ss_pred CCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcc
Q 003297 141 TPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 190 (833)
Q Consensus 141 ~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrkl 190 (833)
..+-.++..+...|+.+.+++|+.+
T Consensus 163 -------------------------~v~~Sl~~~l~~~g~~v~~~~P~~~ 187 (304)
T PRK00779 163 -------------------------NVANSLLLAAALLGFDLRVATPKGY 187 (304)
T ss_pred -------------------------ccHHHHHHHHHHcCCEEEEECCccc
Confidence 1345678888889999999999985
No 96
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=32.95 E-value=41 Score=43.54 Aligned_cols=7 Identities=29% Similarity=1.161 Sum_probs=3.4
Q ss_pred eeccccc
Q 003297 569 KVWEGSL 575 (833)
Q Consensus 569 k~w~g~l 575 (833)
.+|.|+.
T Consensus 1672 Q~~~gq~ 1678 (2131)
T KOG4369|consen 1672 QIWPGQW 1678 (2131)
T ss_pred ccCcccc
Confidence 3455544
No 97
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=32.81 E-value=1.6e+02 Score=33.01 Aligned_cols=92 Identities=13% Similarity=0.161 Sum_probs=61.2
Q ss_pred CccccceeeccCCCCHHHHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCC
Q 003297 61 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP 140 (833)
Q Consensus 61 ~~~~~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp 140 (833)
.|.+.++-|+..-..+.+|-+|. .++.+=+|+..++=..+|+-.+++.+...+ .+ .+++..|+|.+
T Consensus 92 ~y~D~iviR~~~~~~~~~~a~~~-~vPVINa~~~~~HPtQaL~Dl~Ti~e~~g~-------l~-g~kva~vGD~~----- 157 (302)
T PRK14805 92 CWADAIVARVFSHSTIEQLAEHG-SVPVINALCDLYHPCQALADFLTLAEQFGD-------VS-KVKLAYVGDGN----- 157 (302)
T ss_pred HhCCEEEEeCCChhHHHHHHHhC-CCCEEECCCCCCChHHHHHHHHHHHHHhCC-------cC-CcEEEEEcCCC-----
Confidence 34456667766666777777774 577776776668888888888887764321 11 23444455410
Q ss_pred CCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcch
Q 003297 141 TPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLP 191 (833)
Q Consensus 141 ~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrklp 191 (833)
..+-.++.+++..|+.+.+++|+.+-
T Consensus 158 -------------------------~v~~S~~~~~~~~g~~v~~~~P~~~~ 183 (302)
T PRK14805 158 -------------------------NVTHSLMYGAAILGATMTVICPPGHF 183 (302)
T ss_pred -------------------------ccHHHHHHHHHHcCCEEEEECCchhc
Confidence 12455677888899999999999853
No 98
>PRK00856 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=31.23 E-value=1.4e+02 Score=33.46 Aligned_cols=93 Identities=13% Similarity=0.182 Sum_probs=63.3
Q ss_pred Cc-cccceeeccCCCCHHHHHHHHccCccCCCCCc-hhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCC
Q 003297 61 SY-CACLVQRSGWTKDVDIFLHWLSTIPFAGGGFN-DAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHP 138 (833)
Q Consensus 61 ~~-~~~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~-~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~ 138 (833)
.| .+.++-|..--..+.+|-+| .+|+++=+|++ .++=..+|+-.+++.+.... .+ .+++.+|+|....
T Consensus 99 ~y~~D~iv~R~~~~~~~~~~a~~-~~vPVINa~~g~~~HPtQ~LaDl~Ti~e~~G~-------l~-g~kv~~vGD~~~~- 168 (305)
T PRK00856 99 AMGADAIVIRHPQSGAARLLAES-SDVPVINAGDGSHQHPTQALLDLLTIREEFGR-------LE-GLKVAIVGDIKHS- 168 (305)
T ss_pred hcCCCEEEEeCCChHHHHHHHHH-CCCCEEECCCCCCCCcHHHHHHHHHHHHHhCC-------CC-CCEEEEECCCCCC-
Confidence 45 56677776666667777777 67888888864 67888888888887764321 11 2455555532111
Q ss_pred CCCCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcc
Q 003297 139 LPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 190 (833)
Q Consensus 139 lp~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrkl 190 (833)
..+-.++.+++..|+.|.+++|+.+
T Consensus 169 ---------------------------~v~~Sl~~~~~~~g~~~~~~~P~~~ 193 (305)
T PRK00856 169 ---------------------------RVARSNIQALTRLGAEVRLIAPPTL 193 (305)
T ss_pred ---------------------------cHHHHHHHHHHHcCCEEEEECCccc
Confidence 1456678888889999999999975
No 99
>TIGR03316 ygeW probable carbamoyltransferase YgeW. Members of this protein family include the ygeW gene product of Escherichia coli. The function is unknown. Members show homology to ornithine carbamoyltransferase (TIGR00658) and aspartate carbamoyltransferase (carbamoyltransferase), and therefore may belong to the carbamoyltransferases in function. Members often are found in a large, conserved genomic region associated with purine catabolism.
Probab=30.41 E-value=1.9e+02 Score=33.25 Aligned_cols=110 Identities=8% Similarity=0.089 Sum_probs=62.7
Q ss_pred CccccceeeccCC-----CCHHHHHHHH----------ccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCC
Q 003297 61 SYCACLVQRSGWT-----KDVDIFLHWL----------STIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQ 125 (833)
Q Consensus 61 ~~~~~lv~~~gfT-----~d~~~fl~~L----------d~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~q 125 (833)
.|.+.++-|+.+. ..+.+|.++. .+++++=+|...++=..+|+-.+++.+...... ..+ -
T Consensus 96 ~y~D~Iv~R~~~~~~~~~~~l~~~a~~~~~~~~~~~~~s~vPVINa~~~~~HPtQaLaDl~Ti~e~~G~~~----~l~-g 170 (357)
T TIGR03316 96 FFADGIGIRDDMYIGVGNAYMREVAKYVQEGYKDGVLEQRPPLVNLQCDIDHPTQAMADIMTLQEKFGGIE----NLK-G 170 (357)
T ss_pred HhCcEEEEeCCCccccccHHHHHHHHhhhhccccccccCCCCEEECCCCCCCchHHHHHHHHHHHHhCCcc----ccC-C
Confidence 4556677776542 2335677774 568877777666778888888888766432100 011 1
Q ss_pred cEEEEeec-CCCCCCCCCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcchhHHHHHHH
Q 003297 126 RHCILVAA-SNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAIYNA 199 (833)
Q Consensus 126 k~cILIa~-SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrklp~l~~lf~k 199 (833)
+++.++.+ ..-|+... ..+-.++.++...|+++.+++|+-+....++.+.
T Consensus 171 ~kvai~~~~d~~~gr~~------------------------~v~~Sl~~~~~~~G~~v~~~~P~~~~~~~~~~~~ 221 (357)
T TIGR03316 171 KKFAMTWAYSPSYGKPL------------------------SVPQGIIGLMTRFGMDVTLAHPEGYHLLPEVIEV 221 (357)
T ss_pred CEEEEEeccccccCccc------------------------hHHHHHHHHHHHcCCEEEEECCCcccCCHHHHHH
Confidence 22333321 12222111 1234466678888999999999976444455543
No 100
>COG3424 BcsA Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=30.27 E-value=79 Score=35.73 Aligned_cols=82 Identities=22% Similarity=0.176 Sum_probs=59.2
Q ss_pred cchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCC-----CccccceeeccCCCCHHHHHHHHccCccC
Q 003297 15 AMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHG-----SYCACLVQRSGWTKDVDIFLHWLSTIPFA 89 (833)
Q Consensus 15 smg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~-----~~~~~lv~~~gfT~d~~~fl~~Ld~I~f~ 89 (833)
.|.-||++.....|+-..+.+.+..+.. .++..|++-+.. ..+..++.+.|+-.+...|--|
T Consensus 68 kN~ifie~a~~l~v~a~r~aL~~~~l~p------edId~vv~vtsTG~~~Ps~dari~~~Lgl~p~~~Rvpv~------- 134 (356)
T COG3424 68 KNEIFIEEAVPLGVDALRRALDGSPLRP------EDIDAVVTVTSTGLATPSLDARIVGELGLSPDTRRVPVW------- 134 (356)
T ss_pred hhhhHHHHHHHHHHHHHHHHhccCCCCH------HHCcEEEEEeeccccCCChhHHHHhhcCCCCccceeeee-------
Confidence 4677888888888888888888766653 455666665543 4445567778887777666544
Q ss_pred CCCCchhHHHHHHHHHHhcccc
Q 003297 90 GGGFNDAAIAEGLSEALMMFSV 111 (833)
Q Consensus 90 GGG~~~~AvaEGLa~AL~~f~~ 111 (833)
|.+|++-+.||+.|-..|.-
T Consensus 135 --glGCaaga~glara~~y~ra 154 (356)
T COG3424 135 --GLGCAAGAAGLARARDYCRA 154 (356)
T ss_pred --cchhhhhhhHHHHHHHHHhh
Confidence 67788889999999887754
No 101
>PRK13814 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=29.82 E-value=1.4e+02 Score=33.54 Aligned_cols=91 Identities=12% Similarity=0.168 Sum_probs=60.4
Q ss_pred ccceeeccCCCCHHHHHHHHccCccCCCCCc-hhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCC
Q 003297 64 ACLVQRSGWTKDVDIFLHWLSTIPFAGGGFN-DAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTP 142 (833)
Q Consensus 64 ~~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~-~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~p 142 (833)
+.++-|+.--..+.+|-+|..+++++=+|++ .++=..+|+-.+++.+.... .+ ..++..|+|--+.
T Consensus 103 D~iv~R~~~~~~~~~~a~~~~~vPvINag~g~~~HPtQaLaDl~Ti~e~~g~-------l~-g~~va~vGD~~~~----- 169 (310)
T PRK13814 103 YFFIVRHSENETPEQIAKQLSSGVVINAGDGNHQHPSQALIDLMTIKQHKPH-------WN-KLCVTIIGDIRHS----- 169 (310)
T ss_pred CEEEEeCCchhHHHHHHHhCCCCCeEECCcCCCCCchHHHHHHHHHHHHhCC-------cC-CcEEEEECCCCCC-----
Confidence 4445555555566777788777888888765 57788888888888765321 11 2344444432210
Q ss_pred cccCCccccccccchhhhhcccCCCHHHHHHHHhhcCc-EEEEeccCcc
Q 003297 143 VYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSV-SLSVICPKQL 190 (833)
Q Consensus 143 vy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I-~LSvIsPrkl 190 (833)
..+-.++..++..|+ .+.++||+.+
T Consensus 170 -----------------------rv~~Sl~~~~a~~g~~~v~~~~P~~~ 195 (310)
T PRK13814 170 -----------------------RVANSLMDGLVTMGVPEIRLVGPSSL 195 (310)
T ss_pred -----------------------cHHHHHHHHHHHcCCCEEEEeCCccc
Confidence 245678888999998 9999999864
No 102
>PRK04284 ornithine carbamoyltransferase; Provisional
Probab=28.59 E-value=2e+02 Score=32.60 Aligned_cols=92 Identities=13% Similarity=0.184 Sum_probs=58.1
Q ss_pred CccccceeeccCCCCHHHHHHHHccCccCCCCCchhHHHHHHHHHHhcccc-CCCCCCCCCCcCCCcEEEEeecCCCCCC
Q 003297 61 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSV-APNGSQNQQNVDGQRHCILVAASNPHPL 139 (833)
Q Consensus 61 ~~~~~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~-~~~~~~~~~~~~~qk~cILIa~SpP~~l 139 (833)
.|.+.++-|+.-...+.+|-+|. +++.+=+|...++=..+|+..+++.+. ... .+ .+++.+|+|- +
T Consensus 99 ~y~D~iviR~~~~~~~~~~a~~s-~vPVINa~~~~~HPtQaL~Dl~Ti~e~~~g~-------l~-g~kia~vGD~--~-- 165 (332)
T PRK04284 99 GMYDGIEYRGFSQRTVETLAEYS-GVPVWNGLTDEDHPTQVLADFLTAKEHLKKP-------YK-DIKFTYVGDG--R-- 165 (332)
T ss_pred HhCCEEEEecCchHHHHHHHHhC-CCCEEECCCCCCChHHHHHHHHHHHHHhcCC-------cC-CcEEEEecCC--C--
Confidence 34455666666666677777775 566655555567778888888877764 221 11 2455555542 1
Q ss_pred CCCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcc
Q 003297 140 PTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 190 (833)
Q Consensus 140 p~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrkl 190 (833)
. ..+--++.++...|+.+.+++|+.+
T Consensus 166 ~-------------------------~v~~Sl~~~~~~~g~~v~~~~P~~~ 191 (332)
T PRK04284 166 N-------------------------NVANALMQGAAIMGMDFHLVCPKEL 191 (332)
T ss_pred c-------------------------chHHHHHHHHHHcCCEEEEECCccc
Confidence 0 1345567778888999999999975
No 103
>TIGR00658 orni_carb_tr ornithine carbamoyltransferase. Most OTCases are homotrimers, but the homotrimers are organized into dodecamers built from four trimers in at least two species; the catabolic OTCase of Pseudomonas aeruginosa is allosterically regulated, while OTCase of the extreme thermophile Pyrococcus furiosus shows both allostery and thermophily.
Probab=27.11 E-value=2.2e+02 Score=31.83 Aligned_cols=90 Identities=13% Similarity=0.190 Sum_probs=57.9
Q ss_pred ccccceeeccCCCCHHHHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCC
Q 003297 62 YCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPT 141 (833)
Q Consensus 62 ~~~~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~ 141 (833)
|.+.++-|+.-...+.+|.++.+ ++.+=+|+..++=..+|+-.+++.++... .+ ..++..|++. -
T Consensus 94 y~D~iv~R~~~~~~~~~~a~~~~-vPVINa~~~~~HPtQaL~Dl~Ti~e~~g~-------l~-g~~v~~vGd~-----~- 158 (304)
T TIGR00658 94 YVDGIMARVYKHEDVEELAKYAS-VPVINGLTDLFHPCQALADLLTIIEHFGK-------LK-GVKVVYVGDG-----N- 158 (304)
T ss_pred hCCEEEEECCChHHHHHHHHhCC-CCEEECCCCCCChHHHHHHHHHHHHHhCC-------CC-CcEEEEEeCC-----C-
Confidence 44555666665566777777754 55554455567788888888877665321 11 2344444432 0
Q ss_pred CcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcc
Q 003297 142 PVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 190 (833)
Q Consensus 142 pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrkl 190 (833)
..+--++..+...|+.+.+++|+.+
T Consensus 159 ------------------------~v~~Sl~~~l~~~g~~v~~~~P~~~ 183 (304)
T TIGR00658 159 ------------------------NVCNSLMLAGAKLGMDVVVATPEGY 183 (304)
T ss_pred ------------------------chHHHHHHHHHHcCCEEEEECCchh
Confidence 1456678888999999999999985
No 104
>COG2304 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=26.67 E-value=5.2e+02 Score=28.76 Aligned_cols=93 Identities=15% Similarity=0.175 Sum_probs=57.4
Q ss_pred ccEEEEEeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHHH
Q 003297 4 KQLIVAVEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWL 83 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~L 83 (833)
+.++|++|.+.+|-.+.......-..+.+..+.. ...|.+|+|-. .+ ....... .-.+...+...+
T Consensus 38 ~~~~~~~~~~~s~~~~~~~~~~~~~~~~v~~~~~----------~~~~~~~~~~~-~~--~~~~~~~-~~~~~~~~~~~i 103 (399)
T COG2304 38 ANLTLAIDTSGSMTGALLELAKSAAIELVNGLNP----------GDLLSIVTFAG-SA--DVLIPPT-GATNKESITAAI 103 (399)
T ss_pred cceEEEeccCCCccchhHHHHHHHHHHHhcccCC----------CCceEEEEecC-Cc--ceecCcc-cccCHHHHHHHH
Confidence 6789999999999877422221112222222221 35788999887 44 2222333 667788888888
Q ss_pred ccCccCCCCC-chhHHHHHHHHHHhccc
Q 003297 84 STIPFAGGGF-NDAAIAEGLSEALMMFS 110 (833)
Q Consensus 84 d~I~f~GGG~-~~~AvaEGLa~AL~~f~ 110 (833)
+.+.-.+|.+ .+.++.-++.++...+.
T Consensus 104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 (399)
T COG2304 104 DQSLQAGGATAVEASLSLAVELAAKALP 131 (399)
T ss_pred hhhhccccccHHHHHHHHHHHHhhhcCC
Confidence 8855555554 46777777777776443
No 105
>COG2718 Uncharacterized conserved protein [Function unknown]
Probab=26.38 E-value=2.3e+02 Score=32.96 Aligned_cols=133 Identities=12% Similarity=0.095 Sum_probs=74.5
Q ss_pred cEEEE-EeCCccchHhHHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHHHH
Q 003297 5 QLIVA-VEGTAAMGPYWQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWL 83 (833)
Q Consensus 5 dvVFV-ID~Tasmg~y~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~~L 83 (833)
-|||| +|+++||+..=++|-+.+-..+-.++.. +| +=.=|+|=.|+. ..--|....|+.
T Consensus 247 AVmfclMDvSGSM~~~~KdlAkrFF~lL~~FL~~------kY----enveivfIrHht-~A~EVdE~dFF~--------- 306 (423)
T COG2718 247 AVMFCLMDVSGSMDQSEKDLAKRFFFLLYLFLRR------KY----ENVEIVFIRHHT-EAKEVDETDFFY--------- 306 (423)
T ss_pred eEEEEEEecCCCcchHHHHHHHHHHHHHHHHHhc------cc----ceeEEEEEeecC-cceecchhhcee---------
Confidence 35554 6999999999888888887777777764 34 222344555543 122233332222
Q ss_pred ccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhcc
Q 003297 84 STIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAES 163 (833)
Q Consensus 84 d~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~ 163 (833)
+ -.+|| --|.-||..++++.+..-+ ..+|-+ ..+ . -..||||.-..+-
T Consensus 307 --~-~esGG---TivSSAl~~m~evi~ErYp--------~aeWNI-Y~f-------q----------aSDGDN~~dDser 354 (423)
T COG2718 307 --S-QESGG---TIVSSALKLMLEVIKERYP--------PAEWNI-YAF-------Q----------ASDGDNWADDSER 354 (423)
T ss_pred --e-cCCCC---eEeHHHHHHHHHHHHhhCC--------hhheee-eee-------e----------ecCCccccCCCHH
Confidence 1 12233 3455677888887764221 112221 111 1 1357888877777
Q ss_pred cCCCHHHHH-HHHhhcCcEEEE-ec-cCcchh
Q 003297 164 RLSDAETVA-KSFVQCSVSLSV-IC-PKQLPK 192 (833)
Q Consensus 164 ~l~d~e~la-~~~~e~~I~LSv-Is-Prklp~ 192 (833)
| .+-|. ++|.-++---++ |. .+..-.
T Consensus 355 c---~~ll~~~im~~~~~y~Y~Eitq~~~H~t 383 (423)
T COG2718 355 C---VELLAKKLMPVVQYYGYIEITQRRTHQT 383 (423)
T ss_pred H---HHHHHHHHHHhhhheEEEeeeecccchh
Confidence 7 46677 677766666565 55 443333
No 106
>cd01459 vWA_copine_like VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium. They are found in human and orthologues have been found in C. elegans and Arabidopsis Thaliana. None have been found in D. Melanogaster or S. Cereviciae. Phylogenetic distribution suggests that copines have been lost in some eukaryotes. No functional properties have been assigned to the VWA domains present in copines. The members of this subgroup contain a functional MIDAS motif based on their preferential binding to magnesium and manganese. However, the MIDAS motif is not totally conserved, in most cases the MIDAS consists of the sequence DxTxS instead of the motif DxSxS that is found in most cases. The C2 domains present in copines mediate phospholipid binding.
Probab=25.90 E-value=4.6e+02 Score=28.70 Aligned_cols=15 Identities=47% Similarity=0.587 Sum_probs=12.8
Q ss_pred CccEEEEEeCCccch
Q 003297 3 EKQLIVAVEGTAAMG 17 (833)
Q Consensus 3 ~~dvVFVID~Tasmg 17 (833)
|..++|.||-|+|+|
T Consensus 31 ~~nl~vaIDfT~SNg 45 (254)
T cd01459 31 ESNLIVAIDFTKSNG 45 (254)
T ss_pred eeeEEEEEEeCCCCC
Confidence 457999999999975
No 107
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=24.86 E-value=4.8e+02 Score=30.96 Aligned_cols=149 Identities=11% Similarity=0.119 Sum_probs=86.6
Q ss_pred ccEEEEEeCCccchHh--HHHHHHHHHHHHHHHhhcccCccCccCCccEEEEEEeecCCCccccceeeccCCCCHHHHHH
Q 003297 4 KQLIVAVEGTAAMGPY--WQSIVSDYLEKIIRCFCVNELAGQTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLH 81 (833)
Q Consensus 4 ~dvVFVID~Tasmg~y--~~~lkt~YI~p~le~f~~~~l~~~~~g~~~~~gLV~Y~d~~~~~~~lv~~~gfT~d~~~fl~ 81 (833)
+-+|+.|||+-||-.| |--+|..- -.+.++-. +.| ..-++.+|+|++|.. +.. +.
T Consensus 464 aAvallvDtS~SM~~eGRw~PmKQtA--LALhHLv~-----Trf-rGD~l~~i~Fgr~A~--~v~---------v~---- 520 (652)
T COG4867 464 AAVALLVDTSFSMVMEGRWLPMKQTA--LALHHLVC-----TRF-RGDALQIIAFGRYAR--TVT---------AA---- 520 (652)
T ss_pred cceeeeeeccHHHHHhccCCchHHHH--HHHHHHHH-----hcC-CCcceEEEeccchhc--ccC---------HH----
Confidence 5689999999999776 33333322 12222211 123 125789999999954 221 12
Q ss_pred HHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhh
Q 003297 82 WLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQA 161 (833)
Q Consensus 82 ~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~ 161 (833)
-|..+. |=++.+-...-||.-|=++|-+-. ...+.+++|++-.|.-+-.+. .|. ..+
T Consensus 521 eLt~l~--~v~eqgTNlhhaL~LA~r~l~Rh~---------~~~~~il~vTDGePtAhle~~---------DG~---~~~ 577 (652)
T COG4867 521 ELTGLA--GVYEQGTNLHHALALAGRHLRRHA---------GAQPVVLVVTDGEPTAHLEDG---------DGT---SVF 577 (652)
T ss_pred HHhcCC--CccccccchHHHHHHHHHHHHhCc---------ccCceEEEEeCCCccccccCC---------CCc---eEe
Confidence 233333 224557788899999999987522 346788899999886544320 000 011
Q ss_pred cccCCCHHHHHH------HHhhcCcEEEEeccCcchhHHHHHH
Q 003297 162 ESRLSDAETVAK------SFVQCSVSLSVICPKQLPKLTAIYN 198 (833)
Q Consensus 162 ~~~l~d~e~la~------~~~e~~I~LSvIsPrklp~l~~lf~ 198 (833)
..|..|++++++ .|.++||++-+.---.=|-|.-..+
T Consensus 578 f~yp~DP~t~~~Tvr~~d~~~r~G~q~t~FrLg~DpgL~~Fv~ 620 (652)
T COG4867 578 FDYPPDPRTIAHTVRGFDDMARLGAQVTIFRLGSDPGLARFID 620 (652)
T ss_pred cCCCCChhHHHHHHHHHHHHHhccceeeEEeecCCHhHHHHHH
Confidence 224457887765 3567888887755444455554444
No 108
>PHA02030 hypothetical protein
Probab=24.33 E-value=2.3e+02 Score=31.86 Aligned_cols=75 Identities=13% Similarity=0.155 Sum_probs=41.7
Q ss_pred HHHHHHHhhcccCccCcc-C------CccEEEEEEeecCCCcc------------------cc---ceeeccCC---CCH
Q 003297 28 LEKIIRCFCVNELAGQTS-A------SNVELSLVTFNTHGSYC------------------AC---LVQRSGWT---KDV 76 (833)
Q Consensus 28 I~p~le~f~~~~l~~~~~-g------~~~~~gLV~Y~d~~~~~------------------~~---lv~~~gfT---~d~ 76 (833)
....++||.-|.-.+ +| | ..+|+++.+|++..+.. +- +++.+..| ++-
T Consensus 45 ~~Rfv~YiE~Gkh~~-efqGK~k~~~~~vrLgf~L~G~~~p~~g~~~s~p~dlf~~~~~~g~~~P~~i~t~~mtlsnnEK 123 (336)
T PHA02030 45 MGRFCIYIELGKHAK-EFQGKLKPPAPNVRLGFALWGDVNPQAGNPQSRPDDLFHTYEADGNGKPGLIRTFEMTLGNNEK 123 (336)
T ss_pred eeEEEEEEEcccchh-hhCCCCCCcccceeEEEEEecCCCccccccccCccccccccccCCCcceeEEEeeeecccccch
Confidence 344455665544333 34 2 25899999999943211 00 12233333 233
Q ss_pred HHHHHHHccCccCCCCCchhHHHHHHHHHH
Q 003297 77 DIFLHWLSTIPFAGGGFNDAAIAEGLSEAL 106 (833)
Q Consensus 77 ~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL 106 (833)
..|.+..|+... ||. .-.++|-|..|.
T Consensus 124 s~~kk~Fd~Mn~-~G~--akh~ae~LG~aF 150 (336)
T PHA02030 124 SKTKLAFDKMNW-SGQ--HKHFAQMLGQAF 150 (336)
T ss_pred hhHHHHHHHhcc-CCc--hhhHHHHcCCce
Confidence 567777777776 333 456778888776
No 109
>COG4548 NorD Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]
Probab=23.96 E-value=84 Score=37.83 Aligned_cols=50 Identities=8% Similarity=0.163 Sum_probs=35.8
Q ss_pred CCCcEEEEeecCCCCCCCCCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCc
Q 003297 123 DGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQ 189 (833)
Q Consensus 123 ~~qk~cILIa~SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrk 189 (833)
..+|..||.+|--|--.-. |.+-.++.|--..+.+..++||.++-|.-.+
T Consensus 551 q~qklLivlSDGkPnd~d~-----------------YEgr~gIeDTr~AV~eaRk~Gi~VF~Vtld~ 600 (637)
T COG4548 551 QRQKLLIVLSDGKPNDFDH-----------------YEGRFGIEDTREAVIEARKSGIEVFNVTLDR 600 (637)
T ss_pred ccceEEEEecCCCcccccc-----------------cccccchhhHHHHHHHHHhcCceEEEEEecc
Confidence 4579999999888754331 1123445677777888899999999887665
No 110
>PF12637 TSCPD: TSCPD domain; InterPro: IPR024434 The domain is found in isolation in many proteins where it has a conserved C-terminal motif TSCPD, after which the domain is named. Most copies of the domain possess 4 conserved cysteines that may be part of an Iron-sulphur cluster. This domain is found at the C terminus of some ribonucleoside-diphosphate reductase enzymes.
Probab=22.66 E-value=1e+02 Score=28.58 Aligned_cols=33 Identities=24% Similarity=0.227 Sum_probs=23.4
Q ss_pred CCCHHHHHHHHccCccCCCCC-------c-hhHHHHHHHHH
Q 003297 73 TKDVDIFLHWLSTIPFAGGGF-------N-DAAIAEGLSEA 105 (833)
Q Consensus 73 T~d~~~fl~~Ld~I~f~GGG~-------~-~~AvaEGLa~A 105 (833)
--++++|.+-|++|.+..++. + +.+|+.+|.+.
T Consensus 54 G~~~~~ii~~L~gi~~~~~~~~~~~~~~S~~D~Ia~~L~~~ 94 (95)
T PF12637_consen 54 GVPPEEIIDQLRGIRCGPSGTVGGSRVTSCPDAIAKALEEH 94 (95)
T ss_pred CCCHHHHHHHhcCCCCCCCCccCCCccCcHHHHHHHHHHHh
Confidence 345788889999999888776 4 45555555554
No 111
>PRK07200 aspartate/ornithine carbamoyltransferase family protein; Validated
Probab=21.43 E-value=3.3e+02 Score=31.74 Aligned_cols=99 Identities=6% Similarity=-0.014 Sum_probs=54.8
Q ss_pred CccccceeeccC-----CCCHHHHHHHHc---------cC-c-cCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCC
Q 003297 61 SYCACLVQRSGW-----TKDVDIFLHWLS---------TI-P-FAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDG 124 (833)
Q Consensus 61 ~~~~~lv~~~gf-----T~d~~~fl~~Ld---------~I-~-f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~ 124 (833)
.|.+.++-|+.+ ...++++-++.+ .+ + ..+| ...++=..+|+-.+++.+..... ...
T Consensus 113 ~y~D~IviR~~~~~g~~~~~~~ela~~~~~~~~~~~~~~~pPVINa~-~~~~HPtQaLaDl~TI~E~~G~~------~~l 185 (395)
T PRK07200 113 FMADVIGIRDDMYIGKGNAYMREVGAAVDDGYKQGVLPQRPTLVNLQ-CDIDHPTQSMADLLHLIEHFGGL------ENL 185 (395)
T ss_pred HhCCEEEEecCcccccccHHHHHHHHHhhhhcccccccCCCeEEECC-CCCCCcHHHHHHHHHHHHHhCCC------ccc
Confidence 455667777643 223455555552 23 3 3444 34677778888888877653210 011
Q ss_pred C-cEEEEeec-CCCCCCCCCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcc
Q 003297 125 Q-RHCILVAA-SNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 190 (833)
Q Consensus 125 q-k~cILIa~-SpP~~lp~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrkl 190 (833)
. +++.+|.+ ...|..... .+--++.++...|+.+.+++|+.+
T Consensus 186 ~g~kVaivg~~~~~~g~~~~------------------------Va~Sl~~~~~~lG~~v~~~~P~~~ 229 (395)
T PRK07200 186 KGKKIAMTWAYSPSYGKPLS------------------------VPQGIIGLMTRFGMDVTLAHPEGY 229 (395)
T ss_pred CCCEEEEEeccccccCCcch------------------------HHHHHHHHHHHcCCEEEEECCCcc
Confidence 2 23333332 222322211 235567777888999999999965
No 112
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=21.39 E-value=3.3e+02 Score=31.28 Aligned_cols=28 Identities=11% Similarity=0.267 Sum_probs=20.5
Q ss_pred CHHHHHHHHhhcCcEEEEeccCcchhHHHH
Q 003297 167 DAETVAKSFVQCSVSLSVICPKQLPKLTAI 196 (833)
Q Consensus 167 d~e~la~~~~e~~I~LSvIsPrklp~l~~l 196 (833)
|.+.+.+++.+.||.+-.+.|.. .+.++
T Consensus 168 d~~el~~lL~~~Gi~v~~~~~d~--~~~~~ 195 (396)
T cd01979 168 VEDQLRRELEQLGIPVVGFLPPR--RYTDL 195 (396)
T ss_pred hHHHHHHHHHHcCCeEEEEeCCC--ChHHh
Confidence 56789999999999997566652 34444
No 113
>PLN02527 aspartate carbamoyltransferase
Probab=21.27 E-value=3.6e+02 Score=30.18 Aligned_cols=92 Identities=14% Similarity=0.133 Sum_probs=59.6
Q ss_pred ccccceeeccCCCCHHHHHHHHccCccCCCCCc-hhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCC
Q 003297 62 YCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFN-DAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP 140 (833)
Q Consensus 62 ~~~~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~-~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp 140 (833)
|.+.++-|+.--..+.+|.+| ..++++=+|++ .++=..+|+-.+++.+...+ .+ ..++..|+|-- +.
T Consensus 96 y~D~iviR~~~~~~~~~~a~~-~~vPVINa~~g~~~HPtQ~LaDl~Ti~e~~g~-------l~-g~kva~vGD~~-~~-- 163 (306)
T PLN02527 96 YSDIIVLRHFESGAARRAAAT-AEIPVINAGDGPGQHPTQALLDVYTIQREIGR-------LD-GIKVGLVGDLA-NG-- 163 (306)
T ss_pred hCcEEEEECCChhHHHHHHHh-CCCCEEECCCCCCCChHHHHHHHHHHHHHhCC-------cC-CCEEEEECCCC-CC--
Confidence 445566666666667777777 46888888874 68888888888887664321 11 24444554321 00
Q ss_pred CCcccCCccccccccchhhhhcccCCCHHHHHHHHhhc-CcEEEEeccCcc
Q 003297 141 TPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQC-SVSLSVICPKQL 190 (833)
Q Consensus 141 ~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~-~I~LSvIsPrkl 190 (833)
..+-.++..+... |+.+.++||+.+
T Consensus 164 -------------------------rv~~Sl~~~~~~~~g~~v~~~~P~~~ 189 (306)
T PLN02527 164 -------------------------RTVRSLAYLLAKYEDVKIYFVAPDVV 189 (306)
T ss_pred -------------------------hhHHHHHHHHHhcCCCEEEEECCCcc
Confidence 1345667777776 999999999986
No 114
>PF04407 DUF531: Protein of unknown function (DUF531); InterPro: IPR007501 This is a family of hypothetical archaeal proteins.
Probab=20.54 E-value=8.3e+02 Score=25.38 Aligned_cols=34 Identities=29% Similarity=0.343 Sum_probs=25.6
Q ss_pred CCHHHHHH-HHhhcCcEEEEeccCc-chhHHHHHHHhc
Q 003297 166 SDAETVAK-SFVQCSVSLSVICPKQ-LPKLTAIYNAAK 201 (833)
Q Consensus 166 ~d~e~la~-~~~e~~I~LSvIsPrk-lp~l~~lf~ka~ 201 (833)
.+++.+|+ ++.+|...|-|=.=|+ || +++|+.|+
T Consensus 107 i~p~e~a~~~l~~~s~~~liGLGR~GLP--kei~k~a~ 142 (173)
T PF04407_consen 107 ISPEEVAEMALRGKSFLLLIGLGRHGLP--KEIFKMAK 142 (173)
T ss_pred CCHHHHHHHHhcCCceEEEEecCCCCCc--HHHHHhch
Confidence 36788886 5778888888866665 88 68888775
No 115
>PRK01713 ornithine carbamoyltransferase; Provisional
Probab=20.15 E-value=3.3e+02 Score=30.89 Aligned_cols=93 Identities=11% Similarity=0.150 Sum_probs=58.4
Q ss_pred CccccceeeccCCCCHHHHHHHHccCccCCCCCchhHHHHHHHHHHhccccCCCCCCCCCCcCCCcEEEEeecCCCCCCC
Q 003297 61 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP 140 (833)
Q Consensus 61 ~~~~~lv~~~gfT~d~~~fl~~Ld~I~f~GGG~~~~AvaEGLa~AL~~f~~~~~~~~~~~~~~~qk~cILIa~SpP~~lp 140 (833)
.|.+.++-|+.-...+.+|-+|. .++.+=++...++=..+|+-.+++.++... . .+ .+++.+|+|-. +.
T Consensus 100 ~y~D~iv~R~~~~~~~~~~a~~~-~vPVINa~~~~~HPtQaL~Dl~Ti~e~~g~-~-----l~-gl~ia~vGD~~-~~-- 168 (334)
T PRK01713 100 RMYDAIEYRGFKQSIVNELAEYA-GVPVFNGLTDEFHPTQMLADVLTMIENCDK-P-----LS-EISYVYIGDAR-NN-- 168 (334)
T ss_pred HhCCEEEEEcCchHHHHHHHHhC-CCCEEECCCCCCChHHHHHHHHHHHHHcCC-C-----cC-CcEEEEECCCc-cC--
Confidence 34455666666666677777775 466665555667778888888887764320 0 11 23444444321 11
Q ss_pred CCcccCCccccccccchhhhhcccCCCHHHHHHHHhhcCcEEEEeccCcc
Q 003297 141 TPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 190 (833)
Q Consensus 141 ~pvy~p~~~~~~~~e~~~~~~~~~l~d~e~la~~~~e~~I~LSvIsPrkl 190 (833)
.+-.++.++...|+.+.+++|+.+
T Consensus 169 --------------------------v~~Sl~~~~~~~g~~v~~~~P~~~ 192 (334)
T PRK01713 169 --------------------------MGNSLLLIGAKLGMDVRICAPKAL 192 (334)
T ss_pred --------------------------HHHHHHHHHHHcCCEEEEECCchh
Confidence 345677788888999999999985
No 116
>cd04132 Rho4_like Rho4-like subfamily. Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=20.01 E-value=3.3e+02 Score=26.80 Aligned_cols=28 Identities=0% Similarity=0.150 Sum_probs=17.7
Q ss_pred CccE-EEEEeCCccchHhHHHHHHHHHHHHH
Q 003297 3 EKQL-IVAVEGTAAMGPYWQSIVSDYLEKII 32 (833)
Q Consensus 3 ~~dv-VFVID~Tasmg~y~~~lkt~YI~p~l 32 (833)
++|+ |||+|.|. ...|+.+...|+..+.
T Consensus 72 ~ad~ii~v~d~~~--~~s~~~~~~~~~~~~~ 100 (187)
T cd04132 72 DVDVLLICYAVDN--PTSLDNVEDKWFPEVN 100 (187)
T ss_pred CCCEEEEEEECCC--HHHHHHHHHHHHHHHH
Confidence 3454 57789875 4566777766665443
Done!