Query psy1645
Match_columns 143
No_of_seqs 148 out of 284
Neff 4.7
Searched_HMMs 46136
Date Fri Aug 16 21:37:58 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1645.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1645hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0985|consensus 100.0 1.4E-51 3E-56 386.8 11.0 111 32-142 1084-1197(1666)
2 KOG0985|consensus 98.6 7E-08 1.5E-12 93.5 6.5 90 3-92 868-1014(1666)
3 PF00637 Clathrin: Region in C 97.7 7.3E-06 1.6E-10 60.0 -0.3 70 73-142 2-73 (143)
4 PLN03077 Protein ECB2; Provisi 96.5 0.028 6.2E-07 52.5 10.5 118 7-136 524-650 (857)
5 PLN03077 Protein ECB2; Provisi 96.4 0.045 9.7E-07 51.2 11.4 121 5-136 321-449 (857)
6 smart00299 CLH Clathrin heavy 96.2 0.0064 1.4E-07 44.4 3.8 57 4-62 79-138 (140)
7 smart00299 CLH Clathrin heavy 96.1 0.016 3.5E-07 42.3 5.7 66 74-140 3-70 (140)
8 PF04053 Coatomer_WDAD: Coatom 95.7 0.14 3.1E-06 45.9 11.0 98 6-107 294-402 (443)
9 PLN03081 pentatricopeptide (PP 95.7 0.11 2.4E-06 47.6 10.5 119 6-135 258-384 (697)
10 PLN03081 pentatricopeptide (PP 95.7 0.13 2.8E-06 47.2 10.6 131 6-136 324-487 (697)
11 PLN03218 maturation of RBCL 1; 94.7 0.74 1.6E-05 45.5 13.2 131 5-135 540-708 (1060)
12 TIGR02917 PEP_TPR_lipo putativ 94.2 1.6 3.4E-05 38.5 12.9 130 5-134 531-692 (899)
13 COG5010 TadD Flp pilus assembl 94.2 1.9 4.1E-05 36.7 12.9 124 4-135 97-226 (257)
14 TIGR02917 PEP_TPR_lipo putativ 94.1 2 4.4E-05 37.8 13.3 87 47-134 802-894 (899)
15 PRK11788 tetratricopeptide rep 93.9 2.5 5.5E-05 34.8 13.0 96 5-105 67-168 (389)
16 PRK11788 tetratricopeptide rep 93.5 2.4 5.1E-05 35.0 12.1 86 49-134 214-305 (389)
17 TIGR02521 type_IV_pilW type IV 93.3 2.3 4.9E-05 30.9 12.6 128 6-133 30-191 (234)
18 PRK12370 invasion protein regu 93.2 4.2 9.1E-05 36.7 14.2 121 5-134 336-464 (553)
19 TIGR00990 3a0801s09 mitochondr 93.1 2.8 6.2E-05 37.8 13.0 128 6-133 330-489 (615)
20 PLN03218 maturation of RBCL 1; 93.0 2.4 5.1E-05 42.1 13.1 86 49-134 542-637 (1060)
21 TIGR02521 type_IV_pilW type IV 92.7 2.9 6.2E-05 30.4 12.9 127 6-133 64-225 (234)
22 PF13414 TPR_11: TPR repeat; P 92.0 0.75 1.6E-05 29.1 5.8 60 47-106 1-66 (69)
23 PF00637 Clathrin: Region in C 91.6 0.024 5.1E-07 41.3 -1.9 58 4-63 80-139 (143)
24 PF13429 TPR_15: Tetratricopep 90.9 1.2 2.6E-05 35.7 7.3 83 47-129 144-232 (280)
25 PF13429 TPR_15: Tetratricopep 90.4 4.2 9E-05 32.7 10.0 116 5-130 144-267 (280)
26 TIGR00990 3a0801s09 mitochondr 89.5 11 0.00023 34.2 12.8 87 49-135 365-457 (615)
27 PRK11189 lipoprotein NlpI; Pro 89.5 11 0.00023 31.2 13.3 21 7-27 64-84 (296)
28 PRK15359 type III secretion sy 88.1 7.7 0.00017 28.7 9.3 82 49-130 24-111 (144)
29 KOG0276|consensus 87.8 3.4 7.4E-05 39.6 8.6 93 39-138 656-748 (794)
30 TIGR02795 tol_pal_ybgF tol-pal 84.7 9.5 0.0002 25.5 9.1 87 49-135 2-100 (119)
31 TIGR02552 LcrH_SycD type III s 83.1 13 0.00029 25.9 10.1 94 7-109 17-116 (135)
32 PRK10370 formate-dependent nit 83.0 18 0.00039 28.4 9.6 88 46-133 70-166 (198)
33 PF13414 TPR_11: TPR repeat; P 81.3 10 0.00022 23.7 6.3 61 6-75 2-64 (69)
34 KOG2114|consensus 81.0 15 0.00033 36.3 9.9 75 63-137 382-457 (933)
35 PRK15174 Vi polysaccharide exp 80.9 33 0.00071 31.9 11.8 23 5-27 108-130 (656)
36 PF00515 TPR_1: Tetratricopept 79.7 2.7 5.9E-05 23.2 2.9 27 49-75 1-27 (34)
37 PRK15359 type III secretion sy 78.5 24 0.00053 26.0 10.8 94 5-107 22-121 (144)
38 PRK09782 bacteriophage N4 rece 78.4 37 0.0008 33.7 11.8 95 48-142 608-713 (987)
39 KOG0553|consensus 77.0 4.6 0.0001 35.2 4.7 51 50-112 150-200 (304)
40 cd00189 TPR Tetratricopeptide 76.3 13 0.00029 21.9 9.1 87 9-104 2-94 (100)
41 PF07719 TPR_2: Tetratricopept 75.3 4.4 9.6E-05 22.0 2.9 27 49-75 1-27 (34)
42 PRK15174 Vi polysaccharide exp 72.9 81 0.0018 29.3 13.2 86 47-132 244-339 (656)
43 KOG2076|consensus 71.2 72 0.0016 31.8 11.5 90 7-105 173-269 (895)
44 PF13432 TPR_16: Tetratricopep 70.9 14 0.0003 22.9 4.8 56 12-75 2-57 (65)
45 PRK11447 cellulose synthase su 69.8 1.2E+02 0.0026 30.0 14.0 129 5-134 301-441 (1157)
46 PRK10049 pgaA outer membrane p 67.7 1.1E+02 0.0024 28.9 12.8 112 7-128 49-167 (765)
47 PF04192 Utp21: Utp21 specific 67.7 12 0.00025 31.1 4.9 54 77-135 109-164 (237)
48 PF13428 TPR_14: Tetratricopep 66.5 7.3 0.00016 23.1 2.6 26 49-74 1-26 (44)
49 PRK08655 prephenate dehydrogen 66.4 29 0.00062 30.9 7.4 55 46-109 218-272 (437)
50 PF12854 PPR_1: PPR repeat 66.3 7.5 0.00016 22.4 2.6 23 113-135 9-31 (34)
51 PLN03098 LPA1 LOW PSII ACCUMUL 65.4 36 0.00079 31.2 7.9 63 5-76 73-139 (453)
52 cd00189 TPR Tetratricopeptide 65.4 25 0.00055 20.6 7.6 83 51-133 2-90 (100)
53 TIGR00540 hemY_coli hemY prote 65.2 90 0.002 26.9 12.1 120 5-133 261-392 (409)
54 PRK12370 invasion protein regu 65.0 77 0.0017 28.6 10.0 87 47-133 336-428 (553)
55 PLN03088 SGT1, suppressor of 64.9 50 0.0011 28.3 8.4 78 47-124 34-117 (356)
56 PRK14574 hmsH outer membrane p 64.2 80 0.0017 30.8 10.4 49 56-104 109-162 (822)
57 PRK11447 cellulose synthase su 61.3 1.4E+02 0.003 29.6 11.7 85 47-131 601-691 (1157)
58 PRK10049 pgaA outer membrane p 60.5 1.5E+02 0.0033 27.9 11.4 84 52-135 362-451 (765)
59 COG2956 Predicted N-acetylgluc 59.6 48 0.0011 29.8 7.4 46 91-136 227-274 (389)
60 PRK11189 lipoprotein NlpI; Pro 59.5 99 0.0022 25.5 9.5 62 47-108 96-162 (296)
61 PF12895 Apc3: Anaphase-promot 59.5 27 0.00059 22.9 4.7 24 49-72 25-48 (84)
62 PRK11199 tyrA bifunctional cho 59.0 42 0.00091 29.1 7.0 54 46-108 297-350 (374)
63 PRK07417 arogenate dehydrogena 58.9 50 0.0011 27.1 7.1 53 47-107 221-273 (279)
64 PF07575 Nucleopor_Nup85: Nup8 57.5 11 0.00024 34.4 3.2 68 54-128 430-503 (566)
65 PRK08507 prephenate dehydrogen 56.9 58 0.0013 26.5 7.1 54 46-107 218-271 (275)
66 PRK10370 formate-dependent nit 56.3 96 0.0021 24.3 9.1 95 5-107 71-173 (198)
67 KOG2041|consensus 55.7 16 0.00034 36.1 4.0 48 32-79 673-722 (1189)
68 PF13512 TPR_18: Tetratricopep 55.4 73 0.0016 24.7 7.1 64 79-142 11-83 (142)
69 KOG1155|consensus 54.6 64 0.0014 30.3 7.6 78 45-122 428-511 (559)
70 PF13371 TPR_9: Tetratricopept 54.0 30 0.00065 21.6 4.1 51 13-74 1-54 (73)
71 PRK07502 cyclohexadienyl dehyd 53.4 69 0.0015 26.5 7.1 54 46-107 231-284 (307)
72 PF01535 PPR: PPR repeat; Int 53.2 15 0.00033 19.2 2.2 21 115-135 4-24 (31)
73 PF02153 PDH: Prephenate dehyd 52.3 64 0.0014 26.3 6.7 48 47-102 210-257 (258)
74 PF14559 TPR_19: Tetratricopep 52.2 53 0.0012 20.1 5.2 45 91-135 4-49 (68)
75 PF13041 PPR_2: PPR repeat fam 50.2 54 0.0012 19.6 4.9 45 79-123 4-50 (50)
76 PF13424 TPR_12: Tetratricopep 48.9 60 0.0013 20.6 5.0 64 7-75 5-72 (78)
77 PLN03098 LPA1 LOW PSII ACCUMUL 48.1 1.3E+02 0.0027 27.8 8.4 64 44-107 70-141 (453)
78 PF12895 Apc3: Anaphase-promot 47.5 78 0.0017 20.6 5.6 54 79-133 26-80 (84)
79 PRK09782 bacteriophage N4 rece 46.8 3.1E+02 0.0068 27.4 11.8 86 49-134 542-632 (987)
80 TIGR02552 LcrH_SycD type III s 46.5 96 0.0021 21.4 7.9 79 56-134 24-108 (135)
81 PF13812 PPR_3: Pentatricopept 45.9 47 0.001 17.6 3.8 27 80-106 3-29 (34)
82 PLN03088 SGT1, suppressor of 45.8 1.9E+02 0.0042 24.7 9.4 80 55-134 8-93 (356)
83 PF13181 TPR_8: Tetratricopept 45.5 30 0.00066 18.6 2.7 26 50-75 2-27 (34)
84 PF14261 DUF4351: Domain of un 45.0 35 0.00076 22.5 3.3 39 63-101 21-59 (59)
85 PF10602 RPN7: 26S proteasome 43.7 1.1E+02 0.0024 23.7 6.6 60 51-110 38-105 (177)
86 TIGR02795 tol_pal_ybgF tol-pal 42.3 99 0.0021 20.3 9.2 98 7-109 2-107 (119)
87 PF15151 RGCC: Response gene t 39.7 14 0.00031 28.1 0.9 18 119-136 96-113 (121)
88 KOG1125|consensus 38.5 53 0.0011 31.1 4.6 67 40-106 453-530 (579)
89 PRK10747 putative protoheme IX 38.5 2.6E+02 0.0056 24.1 11.8 117 5-132 261-382 (398)
90 smart00028 TPR Tetratricopepti 38.2 48 0.001 15.6 2.8 24 50-73 2-25 (34)
91 KOG1127|consensus 37.3 1.1E+02 0.0024 31.4 6.7 117 8-126 527-679 (1238)
92 PRK11861 bifunctional prephena 37.0 1.3E+02 0.0027 28.3 6.8 54 46-107 161-214 (673)
93 PRK02603 photosystem I assembl 36.9 1.7E+02 0.0038 21.7 10.5 61 9-75 37-98 (172)
94 PF13176 TPR_7: Tetratricopept 35.7 30 0.00065 19.7 1.7 18 10-27 2-19 (36)
95 PF09205 DUF1955: Domain of un 35.3 2.3E+02 0.0051 22.6 8.4 72 64-135 71-144 (161)
96 KOG3617|consensus 35.0 1.5E+02 0.0033 30.2 7.2 87 17-106 921-1021(1416)
97 PF04988 AKAP95: A-kinase anch 33.4 1.1E+02 0.0024 24.6 5.0 38 40-79 122-159 (165)
98 PF06530 Phage_antitermQ: Phag 33.2 1.8E+02 0.004 21.4 6.0 59 64-123 52-116 (125)
99 PF10711 DUF2513: Hypothetical 33.2 31 0.00066 24.6 1.7 23 34-56 68-90 (102)
100 PF13431 TPR_17: Tetratricopep 31.4 38 0.00083 19.3 1.7 23 47-69 11-33 (34)
101 PF02259 FAT: FAT domain; Int 31.3 1.1E+02 0.0024 24.7 4.9 47 90-136 41-93 (352)
102 cd05804 StaR_like StaR_like; a 30.8 2.9E+02 0.0063 22.3 9.6 80 55-134 120-209 (355)
103 KOG2076|consensus 30.1 1.4E+02 0.003 29.9 6.0 64 5-75 412-475 (895)
104 KOG3233|consensus 29.2 62 0.0013 28.2 3.2 63 72-143 161-223 (297)
105 PF04762 IKI3: IKI3 family; I 28.7 3E+02 0.0065 27.3 8.1 94 23-117 731-852 (928)
106 KOG1070|consensus 27.9 2.3E+02 0.0049 30.3 7.2 70 5-87 1528-1605(1710)
107 KOG0292|consensus 27.2 53 0.0012 33.2 2.7 36 39-74 662-697 (1202)
108 PF14966 DNA_repr_REX1B: DNA r 27.0 2.4E+02 0.0053 20.2 5.6 28 63-90 20-47 (97)
109 KOG1840|consensus 26.9 2.1E+02 0.0045 26.6 6.4 59 77-135 324-391 (508)
110 TIGR00756 PPR pentatricopeptid 26.6 1E+02 0.0022 15.8 3.7 24 81-104 3-26 (35)
111 KOG2280|consensus 26.0 1.2E+02 0.0026 29.9 4.8 63 38-103 762-824 (829)
112 PF08385 DHC_N1: Dynein heavy 25.4 1.8E+02 0.0039 25.8 5.6 48 5-54 123-174 (579)
113 PF14938 SNAP: Soluble NSF att 25.4 3.7E+02 0.0081 21.9 13.1 120 7-129 35-173 (282)
114 PF02259 FAT: FAT domain; Int 25.0 1.4E+02 0.0031 24.0 4.5 64 72-135 140-212 (352)
115 PF04733 Coatomer_E: Coatomer 24.7 4.2E+02 0.0091 22.2 8.3 60 48-107 200-265 (290)
116 PRK05414 urocanate hydratase; 24.6 92 0.002 29.4 3.6 34 75-108 367-401 (556)
117 PF10366 Vps39_1: Vacuolar sor 24.3 2E+02 0.0042 20.8 4.7 36 67-102 15-50 (108)
118 KOG0624|consensus 24.2 1.4E+02 0.003 27.5 4.6 54 54-116 43-98 (504)
119 PF04858 TH1: TH1 protein; In 23.6 4.1E+02 0.009 25.2 7.8 74 6-85 53-130 (584)
120 PF13934 ELYS: Nuclear pore co 22.9 4.1E+02 0.0089 21.5 7.8 74 39-112 66-142 (226)
121 PF11140 DUF2913: Protein of u 22.6 1.7E+02 0.0037 23.5 4.5 55 81-135 37-104 (207)
122 PF09295 ChAPs: ChAPs (Chs5p-A 22.4 3.9E+02 0.0085 23.8 7.1 86 3-90 196-296 (395)
123 PRK06545 prephenate dehydrogen 21.9 4.3E+02 0.0094 22.5 7.1 53 47-107 223-275 (359)
124 PF12816 Vps8: Golgi CORVET co 21.6 1.2E+02 0.0025 24.3 3.4 45 94-138 5-49 (196)
125 PF12569 NARP1: NMDA receptor- 21.4 6.5E+02 0.014 23.2 10.2 85 50-135 193-286 (517)
126 COG2443 Sss1 Preprotein transl 21.2 1.9E+02 0.0041 19.9 3.8 21 96-116 17-37 (65)
127 PRK10803 tol-pal system protei 20.6 5E+02 0.011 21.6 9.0 94 7-106 143-245 (263)
128 TIGR02436 conserved hypothetic 20.4 2.8E+02 0.006 20.0 4.9 30 91-122 49-78 (111)
129 PRK14574 hmsH outer membrane p 20.2 8.3E+02 0.018 24.0 10.8 81 47-127 134-219 (822)
130 PF09976 TPR_21: Tetratricopep 20.1 3.4E+02 0.0074 19.5 6.8 75 55-129 54-136 (145)
131 COG4783 Putative Zn-dependent 20.1 3E+02 0.0065 25.7 6.0 51 47-109 406-456 (484)
No 1
>KOG0985|consensus
Probab=100.00 E-value=1.4e-51 Score=386.81 Aligned_cols=111 Identities=59% Similarity=1.003 Sum_probs=108.6
Q ss_pred HHHhcc---chhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhh
Q psy1645 32 LVDHLS---KTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKKA 108 (143)
Q Consensus 32 Li~~~~---~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ 108 (143)
||++++ |+++||+||++|+|||++++|||++++|++||+|||||+|||+|++||+.|+++|+||||||||+|||||+
T Consensus 1084 Lie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyikadDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~ 1163 (1666)
T KOG0985|consen 1084 LIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIKADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKV 1163 (1666)
T ss_pred HHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHhcCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhh
Confidence 888777 68999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHHHHHHHHhcCChhhHHHHhcCcCCCCC
Q psy1645 109 RESYIESELIYAYARTNRLADLEEFISGEGFFEI 142 (143)
Q Consensus 109 ke~~idt~Li~ayAk~~~l~ele~fl~~~N~a~~ 142 (143)
|||+||||||||||||||++|||+||.|||+|||
T Consensus 1164 ~E~~id~eLi~AyAkt~rl~elE~fi~gpN~A~i 1197 (1666)
T KOG0985|consen 1164 REPYIDSELIFAYAKTNRLTELEEFIAGPNVANI 1197 (1666)
T ss_pred cCccchHHHHHHHHHhchHHHHHHHhcCCCchhH
Confidence 9999999999999999999999999999999997
No 2
>KOG0985|consensus
Probab=98.60 E-value=7e-08 Score=93.54 Aligned_cols=90 Identities=39% Similarity=0.685 Sum_probs=84.9
Q ss_pred CCcchHHHHHHHHHHHhhCCCHHHHHHHH--------------------------------HHHhccch------hHHHH
Q psy1645 3 ACTEPATHNALAKIYIDSNNNPERFLKFF--------------------------------LVDHLSKT------PFYVL 44 (143)
Q Consensus 3 ~~~~~~~~nalakIyi~~~~~~E~fl~~~--------------------------------Li~~~~~n------arYa~ 44 (143)
||+||++|||||||||||||+||.||+++ ||++||+| |||++
T Consensus 868 G~~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv 947 (1666)
T KOG0985|consen 868 GSQDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYERGQCDLELINVCNENSLFKSQARYLV 947 (1666)
T ss_pred cCcchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecccCCcHHHHHhcCchhHHHHHHHHHH
Confidence 89999999999999999999999999994 99999998 99999
Q ss_pred HhcchhHHHHH------HHHhhhhhhh-------------HHHHHHHHhCCCcchHHHHHHHHHcCC
Q psy1645 45 RCNEPGVWSQL------AKAQLQKGLV-------------KESIDSFIKADDPSAYMDVVETSHATE 92 (143)
Q Consensus 45 k~~~~~vWs~l------~raqL~~~~V-------------~eAI~sFIkA~dps~y~eVie~a~~~~ 92 (143)
+|.|++||+++ +|+||++++| |.+|++||.||.|++++|++|++--.+
T Consensus 948 ~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~ 1014 (1666)
T KOG0985|consen 948 ERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDN 1014 (1666)
T ss_pred hccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCC
Confidence 99999999996 7999999877 889999999999999999999997643
No 3
>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.
Probab=97.69 E-value=7.3e-06 Score=59.99 Aligned_cols=70 Identities=20% Similarity=0.385 Sum_probs=59.4
Q ss_pred HhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhh--hhhhhHHHHHHHHHHhcCChhhHHHHhcCcCCCCC
Q psy1645 73 IKADDPSAYMDVVETSHATESWEDLVRYLQMARKK--ARESYIESELIYAYARTNRLADLEEFISGEGFFEI 142 (143)
Q Consensus 73 IkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~--~ke~~idt~Li~ayAk~~~l~ele~fl~~~N~a~~ 142 (143)
++..+|....+||...++++..+.|++||.++++. ...+.+.|.|+.+|++.++...+++||.+++.-++
T Consensus 2 ~~~~~~~~~~~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~yd~ 73 (143)
T PF00637_consen 2 IESTDPLEISEVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNNYDL 73 (143)
T ss_dssp HHHCTTSCSCCCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSSS-C
T ss_pred CcCCCccCHHHHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccccCH
Confidence 45567778888999999999999999999999974 36799999999999999999999999998876554
No 4
>PLN03077 Protein ECB2; Provisional
Probab=96.46 E-value=0.028 Score=52.51 Aligned_cols=118 Identities=14% Similarity=0.226 Sum_probs=89.5
Q ss_pred hHHHHHHHHHHHhhCCCHHHHHHHHHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC------CCcch
Q psy1645 7 PATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA------DDPSA 80 (143)
Q Consensus 7 ~~~~nalakIyi~~~~~~E~fl~~~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA------~dps~ 80 (143)
..++|+|-..|.+.++..+++-.+.. -..+...|+.+.......|...+|++-|=+. -|...
T Consensus 524 ~~~~naLi~~y~k~G~~~~A~~~f~~------------~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T 591 (857)
T PLN03077 524 GFLPNALLDLYVRCGRMNYAWNQFNS------------HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVT 591 (857)
T ss_pred ceechHHHHHHHHcCCHHHHHHHHHh------------cCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCccc
Confidence 34556666666666666666522211 1346677999988888889999999988532 35667
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHH-hhhhhhhHH--HHHHHHHHhcCChhhHHHHhcC
Q psy1645 81 YMDVVETSHATESWEDLVRYLQMAR-KKARESYIE--SELIYAYARTNRLADLEEFISG 136 (143)
Q Consensus 81 y~eVie~a~~~~~~e~Lv~yL~MaR-k~~ke~~id--t~Li~ayAk~~~l~ele~fl~~ 136 (143)
|..||..+.++|.+++-.+|+...+ +..-+|.++ +.++.+|+|.|++.+-++|+..
T Consensus 592 ~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~ 650 (857)
T PLN03077 592 FISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINK 650 (857)
T ss_pred HHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence 9999999999999999999888776 445566544 8999999999999999999865
No 5
>PLN03077 Protein ECB2; Provisional
Probab=96.40 E-value=0.045 Score=51.21 Aligned_cols=121 Identities=14% Similarity=0.240 Sum_probs=92.6
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHHHHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC------CCc
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA------DDP 78 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA------~dp 78 (143)
.++.+||+|...|.+.++..++.-.+.- +. ..+...|..+.......+...+|++-|-+. -|.
T Consensus 321 ~d~~~~n~Li~~y~k~g~~~~A~~vf~~---m~--------~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~ 389 (857)
T PLN03077 321 VDVSVCNSLIQMYLSLGSWGEAEKVFSR---ME--------TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDE 389 (857)
T ss_pred cchHHHHHHHHHHHhcCCHHHHHHHHhh---CC--------CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCc
Confidence 3566777777777777776666522221 11 235667999999988889999999988643 456
Q ss_pred chHHHHHHHHHcCCChHHHHHHHHHHHhhhh--hhhHHHHHHHHHHhcCChhhHHHHhcC
Q psy1645 79 SAYMDVVETSHATESWEDLVRYLQMARKKAR--ESYIESELIYAYARTNRLADLEEFISG 136 (143)
Q Consensus 79 s~y~eVie~a~~~~~~e~Lv~yL~MaRk~~k--e~~idt~Li~ayAk~~~l~ele~fl~~ 136 (143)
..|..++..+.+.|.++.-...+..+++..- +..+-+.||-+|+|.|++++-.+.+..
T Consensus 390 ~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~ 449 (857)
T PLN03077 390 ITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHN 449 (857)
T ss_pred eeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence 7899999999999999999999998888754 455678999999999999888776643
No 6
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=96.19 E-value=0.0064 Score=44.39 Aligned_cols=57 Identities=26% Similarity=0.535 Sum_probs=48.0
Q ss_pred CcchHHHHHHHHHHHhhCCCHHHHHHHHHHHhc---cchhHHHHHhcchhHHHHHHHHhhhh
Q psy1645 4 CTEPATHNALAKIYIDSNNNPERFLKFFLVDHL---SKTPFYVLRCNEPGVWSQLAKAQLQK 62 (143)
Q Consensus 4 ~~~~~~~nalakIyi~~~~~~E~fl~~~Li~~~---~~narYa~k~~~~~vWs~l~raqL~~ 62 (143)
|.+..++.+...+|-+.+++.+++ ..+|+.. ..+.+|+.++++|++|.++++.+++.
T Consensus 79 c~~~~l~~~~~~l~~k~~~~~~Al--~~~l~~~~d~~~a~~~~~~~~~~~lw~~~~~~~l~~ 138 (140)
T smart00299 79 CEKAKLYEEAVELYKKDGNFKDAI--VTLIEHLGNYEKAIEYFVKQNNPELWAEVLKALLDK 138 (140)
T ss_pred HHHcCcHHHHHHHHHhhcCHHHHH--HHHHHcccCHHHHHHHHHhCCCHHHHHHHHHHHHcc
Confidence 456678889999999999999988 7777763 35799999999999999999988764
No 7
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=96.14 E-value=0.016 Score=42.28 Aligned_cols=66 Identities=24% Similarity=0.396 Sum_probs=52.8
Q ss_pred hCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhh-hhhhhHHHHHHHHHHhcCChhhHHHHhc-CcCCC
Q psy1645 74 KADDPSAYMDVVETSHATESWEDLVRYLQMARKK-ARESYIESELIYAYARTNRLADLEEFIS-GEGFF 140 (143)
Q Consensus 74 kA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~-~ke~~idt~Li~ayAk~~~l~ele~fl~-~~N~a 140 (143)
...++-....||...++.|..+.|++||.+.-+. ..++.+-+.|+..||+.++-..+ +|+. .++.-
T Consensus 3 ~~~~~~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~li~ly~~~~~~~ll-~~l~~~~~~y 70 (140)
T smart00299 3 EVSDPIDVSEVVELFEKRNLLEELIPYLESALKLNSENPALQTKLIELYAKYDPQKEI-ERLDNKSNHY 70 (140)
T ss_pred cCCCcCCHHHHHHHHHhCCcHHHHHHHHHHHHccCccchhHHHHHHHHHHHHCHHHHH-HHHHhccccC
Confidence 3456777788999999899999999999998765 57889999999999999876555 6665 55443
No 8
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=95.75 E-value=0.14 Score=45.86 Aligned_cols=98 Identities=20% Similarity=0.355 Sum_probs=64.1
Q ss_pred chHHHHHHHHHHHhhCCCHHHHHHHH---------HHH--hccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHh
Q psy1645 6 EPATHNALAKIYIDSNNNPERFLKFF---------LVD--HLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIK 74 (143)
Q Consensus 6 ~~~~~nalakIyi~~~~~~E~fl~~~---------Li~--~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIk 74 (143)
.+..+++++.. ..+..+||--|..+ -++ .+..+.+.|.+.++++.|.+||...|..|.+..|.+||-|
T Consensus 294 ~~~~~~~i~~f-L~~~G~~e~AL~~~~D~~~rFeLAl~lg~L~~A~~~a~~~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k 372 (443)
T PF04053_consen 294 PKDQGQSIARF-LEKKGYPELALQFVTDPDHRFELALQLGNLDIALEIAKELDDPEKWKQLGDEALRQGNIELAEECYQK 372 (443)
T ss_dssp -HHHHHHHHHH-HHHTT-HHHHHHHSS-HHHHHHHHHHCT-HHHHHHHCCCCSTHHHHHHHHHHHHHTTBHHHHHHHHHH
T ss_pred ChhHHHHHHHH-HHHCCCHHHHHhhcCChHHHhHHHHhcCCHHHHHHHHHhcCcHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence 34556777664 44444555544442 222 2224688999999999999999999999999999999999
Q ss_pred CCCcchHHHHHHHHHcCCChHHHHHHHHHHHhh
Q psy1645 75 ADDPSAYMDVVETSHATESWEDLVRYLQMARKK 107 (143)
Q Consensus 75 A~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~ 107 (143)
++|.+.+. --..-.|.=+.|-+...+|.+.
T Consensus 373 ~~d~~~L~---lLy~~~g~~~~L~kl~~~a~~~ 402 (443)
T PF04053_consen 373 AKDFSGLL---LLYSSTGDREKLSKLAKIAEER 402 (443)
T ss_dssp CT-HHHHH---HHHHHCT-HHHHHHHHHHHHHT
T ss_pred hcCccccH---HHHHHhCCHHHHHHHHHHHHHc
Confidence 99966554 2233345556666666555544
No 9
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=95.74 E-value=0.11 Score=47.56 Aligned_cols=119 Identities=12% Similarity=0.165 Sum_probs=88.3
Q ss_pred chHHHHHHHHHHHhhCCCHHHHHHHHHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC------CCcc
Q psy1645 6 EPATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA------DDPS 79 (143)
Q Consensus 6 ~~~~~nalakIyi~~~~~~E~fl~~~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA------~dps 79 (143)
+..++|+|...|.+.+...++.-.+ +.+. ..+...|+.+.......|.+.+|++-|-+. -|..
T Consensus 258 d~~~~n~Li~~y~k~g~~~~A~~vf---~~m~--------~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~ 326 (697)
T PLN03081 258 DTFVSCALIDMYSKCGDIEDARCVF---DGMP--------EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQF 326 (697)
T ss_pred cceeHHHHHHHHHHCCCHHHHHHHH---HhCC--------CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence 4455667777777776666665222 2121 135678999999998899999999998332 2567
Q ss_pred hHHHHHHHHHcCCChHHHHHHHHHHHhhh--hhhhHHHHHHHHHHhcCChhhHHHHhc
Q psy1645 80 AYMDVVETSHATESWEDLVRYLQMARKKA--RESYIESELIYAYARTNRLADLEEFIS 135 (143)
Q Consensus 80 ~y~eVie~a~~~~~~e~Lv~yL~MaRk~~--ke~~idt~Li~ayAk~~~l~ele~fl~ 135 (143)
.|..++..+.+.|.+++-...+....+.. -+..+-+.||-+|+|.|++++-++...
T Consensus 327 t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~ 384 (697)
T PLN03081 327 TFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFD 384 (697)
T ss_pred HHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHH
Confidence 89999999999999998877776666553 455778999999999999998887764
No 10
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=95.66 E-value=0.13 Score=47.16 Aligned_cols=131 Identities=15% Similarity=0.113 Sum_probs=91.7
Q ss_pred chHHHHHHHHHHHhhCCCHHHHHHH----------------HHHHhccc------hhHHHHHh--cchhHHHHHHHHhhh
Q psy1645 6 EPATHNALAKIYIDSNNNPERFLKF----------------FLVDHLSK------TPFYVLRC--NEPGVWSQLAKAQLQ 61 (143)
Q Consensus 6 ~~~~~nalakIyi~~~~~~E~fl~~----------------~Li~~~~~------narYa~k~--~~~~vWs~l~raqL~ 61 (143)
+..+|+.+...|.+.+...++--.. .||+-..+ +.+.-.+. .+...|..+..+...
T Consensus 324 d~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~ 403 (697)
T PLN03081 324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGN 403 (697)
T ss_pred CHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHH
Confidence 5566777777777766655443222 14443322 11222221 355679899888888
Q ss_pred hhhhHHHHHHHHhC------CCcchHHHHHHHHHcCCChHHHHHHHHHHHh-hhhhhhH--HHHHHHHHHhcCChhhHHH
Q psy1645 62 KGLVKESIDSFIKA------DDPSAYMDVVETSHATESWEDLVRYLQMARK-KARESYI--ESELIYAYARTNRLADLEE 132 (143)
Q Consensus 62 ~~~V~eAI~sFIkA------~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk-~~ke~~i--dt~Li~ayAk~~~l~ele~ 132 (143)
.|...+|++-|-+. -|...|..||..+.++|..++-.+++....+ ..-.|.+ =+.+|-+|+|.|++.+-++
T Consensus 404 ~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~ 483 (697)
T PLN03081 404 HGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYA 483 (697)
T ss_pred cCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHH
Confidence 89999999988652 2456799999999999999999998886654 3445554 4689999999999999999
Q ss_pred HhcC
Q psy1645 133 FISG 136 (143)
Q Consensus 133 fl~~ 136 (143)
++..
T Consensus 484 ~~~~ 487 (697)
T PLN03081 484 MIRR 487 (697)
T ss_pred HHHH
Confidence 8864
No 11
>PLN03218 maturation of RBCL 1; Provisional
Probab=94.71 E-value=0.74 Score=45.55 Aligned_cols=131 Identities=17% Similarity=0.141 Sum_probs=83.2
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHHH------------------HHHhccch---------hHHHHH---hcchhHHHH
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKFF------------------LVDHLSKT---------PFYVLR---CNEPGVWSQ 54 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~~------------------Li~~~~~n---------arYa~k---~~~~~vWs~ 54 (143)
.+..+||.+.+.|.+.++..+++-.+. ||+...+. .+-..+ ..++..|..
T Consensus 540 PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tyns 619 (1060)
T PLN03218 540 PDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTI 619 (1060)
T ss_pred CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHH
Confidence 456677888888777777666663332 22211111 111111 124467877
Q ss_pred HHHHhhhhhhhHHHHHHHHhCC------CcchHHHHHHHHHcCCChHHHHHHHHHHHhhhh--hhhHHHHHHHHHHhcCC
Q psy1645 55 LAKAQLQKGLVKESIDSFIKAD------DPSAYMDVVETSHATESWEDLVRYLQMARKKAR--ESYIESELIYAYARTNR 126 (143)
Q Consensus 55 l~raqL~~~~V~eAI~sFIkA~------dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~k--e~~idt~Li~ayAk~~~ 126 (143)
+.......+.+.+|++-|-+.. |...|..+|+.+.+.|.+++-..++...++..- +..+=+.||-+|+|.|+
T Consensus 620 LI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~ 699 (1060)
T PLN03218 620 AVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN 699 (1060)
T ss_pred HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Confidence 7777777777777777663322 345688888888888888888888887776643 34455678888888888
Q ss_pred hhhHHHHhc
Q psy1645 127 LADLEEFIS 135 (143)
Q Consensus 127 l~ele~fl~ 135 (143)
+.+-.++..
T Consensus 700 ~eeA~~lf~ 708 (1060)
T PLN03218 700 WKKALELYE 708 (1060)
T ss_pred HHHHHHHHH
Confidence 777666553
No 12
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=94.24 E-value=1.6 Score=38.52 Aligned_cols=130 Identities=18% Similarity=0.225 Sum_probs=78.3
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHHH---------------HHHhcc------chhHHHHH-----hcchhHHHHHHHH
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKFF---------------LVDHLS------KTPFYVLR-----CNEPGVWSQLAKA 58 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~~---------------Li~~~~------~narYa~k-----~~~~~vWs~l~ra 58 (143)
.++..+..++.+|...++..++.-... +.+... ++..+..+ .++++.|..+++.
T Consensus 531 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~ 610 (899)
T TIGR02917 531 KNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRA 610 (899)
T ss_pred CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence 355677788888888777665542220 111111 11122211 3567888888888
Q ss_pred hhhhhhhHHHHHHHHhC-----CCcchHHHHHHHHHcCCChHHHHHHHHHHHhhh-hhhhHHHHHHHHHHhcCChhhHHH
Q psy1645 59 QLQKGLVKESIDSFIKA-----DDPSAYMDVVETSHATESWEDLVRYLQMARKKA-RESYIESELIYAYARTNRLADLEE 132 (143)
Q Consensus 59 qL~~~~V~eAI~sFIkA-----~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~-ke~~idt~Li~ayAk~~~l~ele~ 132 (143)
....+...+|++.|-++ ++|..+..+.....+.|+|++-+.++..+-+.. ..+..=..++..|.+.|+..+-.+
T Consensus 611 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~ 690 (899)
T TIGR02917 611 QLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKK 690 (899)
T ss_pred HHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence 88888888888887543 455566677777777888888888877665442 223334455555666666655444
Q ss_pred Hh
Q psy1645 133 FI 134 (143)
Q Consensus 133 fl 134 (143)
++
T Consensus 691 ~~ 692 (899)
T TIGR02917 691 IA 692 (899)
T ss_pred HH
Confidence 43
No 13
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=94.20 E-value=1.9 Score=36.73 Aligned_cols=124 Identities=19% Similarity=0.146 Sum_probs=100.1
Q ss_pred CcchHHHHHHHHHHHhhCCCHHHHHHHHHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC-----CCc
Q psy1645 4 CTEPATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDP 78 (143)
Q Consensus 4 ~~~~~~~nalakIyi~~~~~~E~fl~~~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA-----~dp 78 (143)
+.|++++++.+|--|.-+++.++-..+ .+++ ..+.++.++|+-+|-+...-|+..+|=..|++| ++|
T Consensus 97 ~~d~~ll~~~gk~~~~~g~~~~A~~~~------rkA~--~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p 168 (257)
T COG5010 97 PKDRELLAAQGKNQIRNGNFGEAVSVL------RKAA--RLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEP 168 (257)
T ss_pred cccHHHHHHHHHHHHHhcchHHHHHHH------HHHh--ccCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccCCc
Confidence 578889999999999999988887322 2221 134678999999998877777777777777654 788
Q ss_pred chHHHHHHHHHcCCChHHHHHHHHHHHhhhh-hhhHHHHHHHHHHhcCChhhHHHHhc
Q psy1645 79 SAYMDVVETSHATESWEDLVRYLQMARKKAR-ESYIESELIYAYARTNRLADLEEFIS 135 (143)
Q Consensus 79 s~y~eVie~a~~~~~~e~Lv~yL~MaRk~~k-e~~idt~Li~ayAk~~~l~ele~fl~ 135 (143)
+-+..+-=.---.|++++=.+||.-++.... ++.|+..|.+.--+-|++.+-|+.+.
T Consensus 169 ~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~ 226 (257)
T COG5010 169 SIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV 226 (257)
T ss_pred hhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence 8888877777778999999999999998754 99999999999999999999888654
No 14
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=94.06 E-value=2 Score=37.78 Aligned_cols=87 Identities=18% Similarity=0.077 Sum_probs=65.8
Q ss_pred cchhHHHHHHHHhhhhhhhHHHHHHHHhC-----CCcchHHHHHHHHHcCCChHHHHHHHHHHHhhh-hhhhHHHHHHHH
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDPSAYMDVVETSHATESWEDLVRYLQMARKKA-RESYIESELIYA 120 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI~sFIkA-----~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~-ke~~idt~Li~a 120 (143)
+++.+|..++......+. .+|++.|-++ ++|..+..+-....+.|++++=+++++-+-+.. .+|.+=..|+.+
T Consensus 802 ~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l~~~ 880 (899)
T TIGR02917 802 DNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLALA 880 (899)
T ss_pred CCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHHHHH
Confidence 456677777777666666 6677777654 666666666677778999999999998887653 377777788999
Q ss_pred HHhcCChhhHHHHh
Q psy1645 121 YARTNRLADLEEFI 134 (143)
Q Consensus 121 yAk~~~l~ele~fl 134 (143)
|.+.|+..+-++.+
T Consensus 881 ~~~~g~~~~A~~~~ 894 (899)
T TIGR02917 881 LLATGRKAEARKEL 894 (899)
T ss_pred HHHcCCHHHHHHHH
Confidence 99999988766654
No 15
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=93.93 E-value=2.5 Score=34.80 Aligned_cols=96 Identities=14% Similarity=0.178 Sum_probs=49.0
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHHH-HHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC-----CCc
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKFF-LVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDP 78 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~~-Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA-----~dp 78 (143)
..+.++..+|.+|...++..++.-... ++..-... . .....+|..++......+....|++.|-++ .++
T Consensus 67 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~-~----~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~~~~~ 141 (389)
T PRK11788 67 ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLT-R----EQRLLALQELGQDYLKAGLLDRAEELFLQLVDEGDFAE 141 (389)
T ss_pred ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCC-H----HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCcchH
Confidence 345678888888888888777763221 22210000 0 001234555555555555555555555544 223
Q ss_pred chHHHHHHHHHcCCChHHHHHHHHHHH
Q psy1645 79 SAYMDVVETSHATESWEDLVRYLQMAR 105 (143)
Q Consensus 79 s~y~eVie~a~~~~~~e~Lv~yL~MaR 105 (143)
..+..+.....+.|+|++-+..+..+-
T Consensus 142 ~~~~~la~~~~~~g~~~~A~~~~~~~~ 168 (389)
T PRK11788 142 GALQQLLEIYQQEKDWQKAIDVAERLE 168 (389)
T ss_pred HHHHHHHHHHHHhchHHHHHHHHHHHH
Confidence 344444555555555555555544443
No 16
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=93.48 E-value=2.4 Score=34.96 Aligned_cols=86 Identities=13% Similarity=0.128 Sum_probs=51.2
Q ss_pred hhHHHHHHHHhhhhhhhHHHHHHHHhCC--CcchH----HHHHHHHHcCCChHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Q psy1645 49 PGVWSQLAKAQLQKGLVKESIDSFIKAD--DPSAY----MDVVETSHATESWEDLVRYLQMARKKARESYIESELIYAYA 122 (143)
Q Consensus 49 ~~vWs~l~raqL~~~~V~eAI~sFIkA~--dps~y----~eVie~a~~~~~~e~Lv~yL~MaRk~~ke~~idt~Li~ayA 122 (143)
...|..+++.....+...+|++.|-++- +|... ..+...-.+.|++++-+.++..+.+..-++.+=..++..|.
T Consensus 214 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~ 293 (389)
T PRK11788 214 VRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLE 293 (389)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence 3455566666666667777777766654 45432 33444555677777777777776665333322255566667
Q ss_pred hcCChhhHHHHh
Q psy1645 123 RTNRLADLEEFI 134 (143)
Q Consensus 123 k~~~l~ele~fl 134 (143)
+.|+.++-...+
T Consensus 294 ~~g~~~~A~~~l 305 (389)
T PRK11788 294 EQEGPEAAQALL 305 (389)
T ss_pred HhCCHHHHHHHH
Confidence 777766544443
No 17
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=93.33 E-value=2.3 Score=30.91 Aligned_cols=128 Identities=13% Similarity=0.087 Sum_probs=73.7
Q ss_pred chHHHHHHHHHHHhhCCCHHHHHHHH-HHHhccc--------------------hhHHHH---H--hcchhHHHHHHHHh
Q psy1645 6 EPATHNALAKIYIDSNNNPERFLKFF-LVDHLSK--------------------TPFYVL---R--CNEPGVWSQLAKAQ 59 (143)
Q Consensus 6 ~~~~~nalakIyi~~~~~~E~fl~~~-Li~~~~~--------------------narYa~---k--~~~~~vWs~l~raq 59 (143)
.+..+..+|.+|...++..++.-... .++..+. +.++.. + -+.+..|..++...
T Consensus 30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~ 109 (234)
T TIGR02521 30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFL 109 (234)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHH
Confidence 35678888999998888777662221 1111111 111111 1 23455666667666
Q ss_pred hhhhhhHHHHHHHHhCC-------CcchHHHHHHHHHcCCChHHHHHHHHHHHhhhh-hhhHHHHHHHHHHhcCChhhHH
Q psy1645 60 LQKGLVKESIDSFIKAD-------DPSAYMDVVETSHATESWEDLVRYLQMARKKAR-ESYIESELIYAYARTNRLADLE 131 (143)
Q Consensus 60 L~~~~V~eAI~sFIkA~-------dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~k-e~~idt~Li~ayAk~~~l~ele 131 (143)
...+...+|++.|-++- .+..+..+-....+.|++++-++++..+.+... .+..-..+..+|-+.|+..+-.
T Consensus 110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~ 189 (234)
T TIGR02521 110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDAR 189 (234)
T ss_pred HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHH
Confidence 66667777777776652 223444455555667888888887777665432 2444455666667777766544
Q ss_pred HH
Q psy1645 132 EF 133 (143)
Q Consensus 132 ~f 133 (143)
++
T Consensus 190 ~~ 191 (234)
T TIGR02521 190 AY 191 (234)
T ss_pred HH
Confidence 33
No 18
>PRK12370 invasion protein regulator; Provisional
Probab=93.22 E-value=4.2 Score=36.67 Aligned_cols=121 Identities=11% Similarity=0.027 Sum_probs=79.4
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHH-HHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC-----CCc
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKF-FLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDP 78 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~-~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA-----~dp 78 (143)
.++..|..+|.++...++.+++--.. ..++ ..-+.+..|..+|......|...+|+..|-++ ++|
T Consensus 336 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~---------l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~ 406 (553)
T PRK12370 336 NNPQALGLLGLINTIHSEYIVGSLLFKQANL---------LSPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRA 406 (553)
T ss_pred CCHHHHHHHHHHHHHccCHHHHHHHHHHHHH---------hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCh
Confidence 45667777888888777766665111 1121 12234668888888888888888999888875 333
Q ss_pred chHHHHHHHHHcCCChHHHHHHHHHHHhhh--hhhhHHHHHHHHHHhcCChhhHHHHh
Q psy1645 79 SAYMDVVETSHATESWEDLVRYLQMARKKA--RESYIESELIYAYARTNRLADLEEFI 134 (143)
Q Consensus 79 s~y~eVie~a~~~~~~e~Lv~yL~MaRk~~--ke~~idt~Li~ayAk~~~l~ele~fl 134 (143)
..+..........|.|++=+.+++.+.+.. ..|..=.-|..+|+..|+.++-+..+
T Consensus 407 ~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~ 464 (553)
T PRK12370 407 AAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLT 464 (553)
T ss_pred hhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence 334444445666888988888877655442 34444556778888899987766554
No 19
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=93.12 E-value=2.8 Score=37.85 Aligned_cols=128 Identities=12% Similarity=0.051 Sum_probs=86.0
Q ss_pred chHHHHHHHHHHHhhCCCHHHHHHHH-HHHhcc--------------------chhHHHH-----HhcchhHHHHHHHHh
Q psy1645 6 EPATHNALAKIYIDSNNNPERFLKFF-LVDHLS--------------------KTPFYVL-----RCNEPGVWSQLAKAQ 59 (143)
Q Consensus 6 ~~~~~nalakIyi~~~~~~E~fl~~~-Li~~~~--------------------~narYa~-----k~~~~~vWs~l~raq 59 (143)
....|+.+|.+|...++..++.-... .++.-+ ++..+.. .-+++++|..+|...
T Consensus 330 ~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~ 409 (615)
T TIGR00990 330 EAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLH 409 (615)
T ss_pred hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence 34567888888888777666552221 111111 1112211 235688999999988
Q ss_pred hhhhhhHHHHHHHHhC-----CCcchHHHHHHHHHcCCChHHHHHHHHHHHhh-hhhhhHHHHHHHHHHhcCChhhHHHH
Q psy1645 60 LQKGLVKESIDSFIKA-----DDPSAYMDVVETSHATESWEDLVRYLQMARKK-ARESYIESELIYAYARTNRLADLEEF 133 (143)
Q Consensus 60 L~~~~V~eAI~sFIkA-----~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~-~ke~~idt~Li~ayAk~~~l~ele~f 133 (143)
...+...+|++.|-++ +++..+..+-....+.|.|++-+.++..+.+. -..|.+=..+..+|...|+..+-.+.
T Consensus 410 ~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~ 489 (615)
T TIGR00990 410 FIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEK 489 (615)
T ss_pred HHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHH
Confidence 8888999999999766 33444555666667789999999999988764 34566667788888999988765544
No 20
>PLN03218 maturation of RBCL 1; Provisional
Probab=93.00 E-value=2.4 Score=42.12 Aligned_cols=86 Identities=12% Similarity=0.059 Sum_probs=50.2
Q ss_pred hhHHHHHHHHhhhhhhhHHHHHHHHhC--------CCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhh--hhhHHHHHH
Q psy1645 49 PGVWSQLAKAQLQKGLVKESIDSFIKA--------DDPSAYMDVVETSHATESWEDLVRYLQMARKKAR--ESYIESELI 118 (143)
Q Consensus 49 ~~vWs~l~raqL~~~~V~eAI~sFIkA--------~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~k--e~~idt~Li 118 (143)
...|..+-++....+.+.+|.+-|-+. -|..-|..+|..+.+.|++++-.+.+.+.++..- ++.+=+.||
T Consensus 542 ~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI 621 (1060)
T PLN03218 542 RVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAV 621 (1060)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHH
Confidence 445666666655556666666555322 1233566677777777777776666666665432 334445667
Q ss_pred HHHHhcCChhhHHHHh
Q psy1645 119 YAYARTNRLADLEEFI 134 (143)
Q Consensus 119 ~ayAk~~~l~ele~fl 134 (143)
.+|+|.|++.+-.+++
T Consensus 622 ~ay~k~G~~deAl~lf 637 (1060)
T PLN03218 622 NSCSQKGDWDFALSIY 637 (1060)
T ss_pred HHHHhcCCHHHHHHHH
Confidence 7777777765555443
No 21
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=92.70 E-value=2.9 Score=30.37 Aligned_cols=127 Identities=13% Similarity=0.078 Sum_probs=78.8
Q ss_pred chHHHHHHHHHHHhhCCCHHHHHHH-HHHHhcc--------------------chhHHHHH-------hcchhHHHHHHH
Q psy1645 6 EPATHNALAKIYIDSNNNPERFLKF-FLVDHLS--------------------KTPFYVLR-------CNEPGVWSQLAK 57 (143)
Q Consensus 6 ~~~~~nalakIyi~~~~~~E~fl~~-~Li~~~~--------------------~narYa~k-------~~~~~vWs~l~r 57 (143)
.+..+..+|.+|...++..++.-.. ..++..+ ++.++..+ ...+..|..++.
T Consensus 64 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~ 143 (234)
T TIGR02521 64 DYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGL 143 (234)
T ss_pred cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHH
Confidence 4567778888888888766554222 1111111 11222222 234567888888
Q ss_pred HhhhhhhhHHHHHHHHhC-----CCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhhhhhHHH--HHHHHHHhcCChhhH
Q psy1645 58 AQLQKGLVKESIDSFIKA-----DDPSAYMDVVETSHATESWEDLVRYLQMARKKARESYIES--ELIYAYARTNRLADL 130 (143)
Q Consensus 58 aqL~~~~V~eAI~sFIkA-----~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke~~idt--~Li~ayAk~~~l~el 130 (143)
.....+...+|++.|-++ +++..+..+.......|+|++-+.+++-+.+.. ....+. -++-.+-+.|+..+.
T Consensus 144 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a 222 (234)
T TIGR02521 144 CALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDARAYLERYQQTY-NQTAESLWLGIRIARALGDVAAA 222 (234)
T ss_pred HHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHH
Confidence 888888888888888654 345567777778888999999999999877652 211222 233445556666665
Q ss_pred HHH
Q psy1645 131 EEF 133 (143)
Q Consensus 131 e~f 133 (143)
.++
T Consensus 223 ~~~ 225 (234)
T TIGR02521 223 QRY 225 (234)
T ss_pred HHH
Confidence 554
No 22
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=91.99 E-value=0.75 Score=29.08 Aligned_cols=60 Identities=23% Similarity=0.390 Sum_probs=46.3
Q ss_pred cchhHHHHHHHHhhhhhhhHHHHHHHHhC-----CCcchHHHHHHHHHcCC-ChHHHHHHHHHHHh
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDPSAYMDVVETSHATE-SWEDLVRYLQMARK 106 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI~sFIkA-----~dps~y~eVie~a~~~~-~~e~Lv~yL~MaRk 106 (143)
+++.+|..+|......+...+||..|-+| +++..+..+=..-.+.| +|++-++++..|.+
T Consensus 1 e~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 1 ENAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK 66 (69)
T ss_dssp TSHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence 46889999999999999999999999765 44555555555556677 68888888887765
No 23
>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.
Probab=91.57 E-value=0.024 Score=41.30 Aligned_cols=58 Identities=21% Similarity=0.370 Sum_probs=44.5
Q ss_pred CcchHHHHHHHHHHHhhCCCHHHHHHHHHH--HhccchhHHHHHhcchhHHHHHHHHhhhhh
Q psy1645 4 CTEPATHNALAKIYIDSNNNPERFLKFFLV--DHLSKTPFYVLRCNEPGVWSQLAKAQLQKG 63 (143)
Q Consensus 4 ~~~~~~~nalakIyi~~~~~~E~fl~~~Li--~~~~~narYa~k~~~~~vWs~l~raqL~~~ 63 (143)
|.+.+++.+...+|-+.+++.++.- .+. +...++.+|+.+.++|++|.++.+..+...
T Consensus 80 c~~~~l~~~a~~Ly~~~~~~~~al~--i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~~l~~~ 139 (143)
T PF00637_consen 80 CEKHGLYEEAVYLYSKLGNHDEALE--ILHKLKDYEEAIEYAKKVDDPELWEQLLKYCLDSK 139 (143)
T ss_dssp HHTTTSHHHHHHHHHCCTTHTTCSS--TSSSTHCSCCCTTTGGGCSSSHHHHHHHHHHCTST
T ss_pred HHhcchHHHHHHHHHHcccHHHHHH--HHHHHccHHHHHHHHHhcCcHHHHHHHHHHHHhcC
Confidence 4566788888889999888888872 211 223357999999999999999999888753
No 24
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=90.92 E-value=1.2 Score=35.74 Aligned_cols=83 Identities=19% Similarity=0.246 Sum_probs=59.3
Q ss_pred cchhHHHHHHHHhhhhhhhHHHHHHHHh-----CCCcchHHHHHHHHHcCCChHHHHHHHHHHHhh-hhhhhHHHHHHHH
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESIDSFIK-----ADDPSAYMDVVETSHATESWEDLVRYLQMARKK-ARESYIESELIYA 120 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI~sFIk-----A~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~-~ke~~idt~Li~a 120 (143)
+++.+|..+|.-....|...+|++.|=+ -+||.-...++-..-..|+++++...|....+. -.+|.+-..|..+
T Consensus 144 ~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~ 223 (280)
T PF13429_consen 144 DSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAA 223 (280)
T ss_dssp T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHH
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence 5677888888877777788888877733 355666667777777788888877777777666 4677777788888
Q ss_pred HHhcCChhh
Q psy1645 121 YARTNRLAD 129 (143)
Q Consensus 121 yAk~~~l~e 129 (143)
|.++|+..+
T Consensus 224 ~~~lg~~~~ 232 (280)
T PF13429_consen 224 YLQLGRYEE 232 (280)
T ss_dssp HHHHT-HHH
T ss_pred hcccccccc
Confidence 888887544
No 25
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=90.45 E-value=4.2 Score=32.65 Aligned_cols=116 Identities=20% Similarity=0.240 Sum_probs=67.4
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHHHHHHhccchhHHHHHh--cchhHHHHHHHHhhhhhhh---HHHHHHHHhC--CC
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRC--NEPGVWSQLAKAQLQKGLV---KESIDSFIKA--DD 77 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~~Li~~~~~narYa~k~--~~~~vWs~l~raqL~~~~V---~eAI~sFIkA--~d 77 (143)
.++.++-..|.+|.+.|+..++- + ..+-|.+. ++++++..++...+..+.. .++++.+.+. +|
T Consensus 144 ~~~~~~~~~a~~~~~~G~~~~A~--~--------~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~ 213 (280)
T PF13429_consen 144 DSARFWLALAEIYEQLGDPDKAL--R--------DYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDD 213 (280)
T ss_dssp T-HHHHHHHHHHHHHCCHHHHHH--H--------HHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTS
T ss_pred CCHHHHHHHHHHHHHcCCHHHHH--H--------HHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCH
Confidence 35556666666666666655443 1 12222222 3467777777666655544 4588888877 46
Q ss_pred cchHHHHHHHHHcCCChHHHHHHHHHHHhh-hhhhhHHHHHHHHHHhcCChhhH
Q psy1645 78 PSAYMDVVETSHATESWEDLVRYLQMARKK-ARESYIESELIYAYARTNRLADL 130 (143)
Q Consensus 78 ps~y~eVie~a~~~~~~e~Lv~yL~MaRk~-~ke~~idt~Li~ayAk~~~l~el 130 (143)
|.-...+-.....-|.+++=++|+..+.+. -.+|.+=..+..++.+.|+..+=
T Consensus 214 ~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A 267 (280)
T PF13429_consen 214 PDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEA 267 (280)
T ss_dssp CCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT--------
T ss_pred HHHHHHHHHHhccccccccccccccccccccccccccccccccccccccccccc
Confidence 666666666666778999989888888775 45777777777777777776543
No 26
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=89.54 E-value=11 Score=34.20 Aligned_cols=87 Identities=13% Similarity=0.117 Sum_probs=63.4
Q ss_pred hhHHHHHHHHhhhhhhhHHHHHHHHh-----CCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhh-hhhHHHHHHHHHH
Q psy1645 49 PGVWSQLAKAQLQKGLVKESIDSFIK-----ADDPSAYMDVVETSHATESWEDLVRYLQMARKKAR-ESYIESELIYAYA 122 (143)
Q Consensus 49 ~~vWs~l~raqL~~~~V~eAI~sFIk-----A~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~k-e~~idt~Li~ayA 122 (143)
+..|-.+|...+..+...+|++.|-+ .++|..+...-......|+|++-+++++.+-+... ....=..|..+|.
T Consensus 365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~ 444 (615)
T TIGR00990 365 TQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQY 444 (615)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHH
Confidence 55677778777777788888888754 46777788887888889999999999998766422 2233335667788
Q ss_pred hcCChhhHHHHhc
Q psy1645 123 RTNRLADLEEFIS 135 (143)
Q Consensus 123 k~~~l~ele~fl~ 135 (143)
+.|++.+-..++.
T Consensus 445 ~~g~~~eA~~~~~ 457 (615)
T TIGR00990 445 KEGSIASSMATFR 457 (615)
T ss_pred HCCCHHHHHHHHH
Confidence 8898877666543
No 27
>PRK11189 lipoprotein NlpI; Provisional
Probab=89.50 E-value=11 Score=31.18 Aligned_cols=21 Identities=10% Similarity=-0.051 Sum_probs=15.2
Q ss_pred hHHHHHHHHHHHhhCCCHHHH
Q psy1645 7 PATHNALAKIYIDSNNNPERF 27 (143)
Q Consensus 7 ~~~~nalakIyi~~~~~~E~f 27 (143)
+..|...|.+|...++..++.
T Consensus 64 a~~~~~~g~~~~~~g~~~~A~ 84 (296)
T PRK11189 64 AQLHYERGVLYDSLGLRALAR 84 (296)
T ss_pred HHHHHHHHHHHHHCCCHHHHH
Confidence 455777888888887776665
No 28
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=88.12 E-value=7.7 Score=28.74 Aligned_cols=82 Identities=11% Similarity=-0.054 Sum_probs=49.4
Q ss_pred hhHHHHHHHHhhhhhhhHHHHHHHHh-----CCCcchHHHHHHHHHcCCChHHHHHHHHHHHhh-hhhhhHHHHHHHHHH
Q psy1645 49 PGVWSQLAKAQLQKGLVKESIDSFIK-----ADDPSAYMDVVETSHATESWEDLVRYLQMARKK-ARESYIESELIYAYA 122 (143)
Q Consensus 49 ~~vWs~l~raqL~~~~V~eAI~sFIk-----A~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~-~ke~~idt~Li~ayA 122 (143)
|+-|..+|......|...+|++.|-+ .+++..+..+-..+.+.|.|++-+.+++.+-+. -..+..=.-+..||-
T Consensus 24 p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~ 103 (144)
T PRK15359 24 PETVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLK 103 (144)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence 44455566666666667777766654 345555555666666677777777766666543 234444455566666
Q ss_pred hcCChhhH
Q psy1645 123 RTNRLADL 130 (143)
Q Consensus 123 k~~~l~el 130 (143)
++|+..+-
T Consensus 104 ~~g~~~eA 111 (144)
T PRK15359 104 MMGEPGLA 111 (144)
T ss_pred HcCCHHHH
Confidence 77776653
No 29
>KOG0276|consensus
Probab=87.77 E-value=3.4 Score=39.63 Aligned_cols=93 Identities=18% Similarity=0.256 Sum_probs=72.2
Q ss_pred hhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhhhhhHHHHHH
Q psy1645 39 TPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKKARESYIESELI 118 (143)
Q Consensus 39 narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke~~idt~Li 118 (143)
+..-|++.+.+.=|.+||++.|..+...-|.++|-+|.|-+ .++=...-.|+-+-|.+.=.-+|+..|- +--.
T Consensus 656 A~~la~e~~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d~~---~LlLl~t~~g~~~~l~~la~~~~~~g~~----N~AF 728 (794)
T KOG0276|consen 656 AFDLAVEANSEVKWRQLGDAALSAGELPLASECFLRARDLG---SLLLLYTSSGNAEGLAVLASLAKKQGKN----NLAF 728 (794)
T ss_pred HHHHHHhhcchHHHHHHHHHHhhcccchhHHHHHHhhcchh---hhhhhhhhcCChhHHHHHHHHHHhhccc----chHH
Confidence 57789999999999999999999999999999999999854 4444555668877777777777766543 2345
Q ss_pred HHHHhcCChhhHHHHhcCcC
Q psy1645 119 YAYARTNRLADLEEFISGEG 138 (143)
Q Consensus 119 ~ayAk~~~l~ele~fl~~~N 138 (143)
+||-++|+.++--+.|-.+|
T Consensus 729 ~~~~l~g~~~~C~~lLi~t~ 748 (794)
T KOG0276|consen 729 LAYFLSGDYEECLELLISTQ 748 (794)
T ss_pred HHHHHcCCHHHHHHHHHhcC
Confidence 67888888888777665553
No 30
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=84.72 E-value=9.5 Score=25.46 Aligned_cols=87 Identities=15% Similarity=0.080 Sum_probs=58.0
Q ss_pred hhHHHHHHHHhhhhhhhHHHHHHHHhC--CCc------chHHHHHHHHHcCCChHHHHHHHHHHHhhhhh----hhHHHH
Q psy1645 49 PGVWSQLAKAQLQKGLVKESIDSFIKA--DDP------SAYMDVVETSHATESWEDLVRYLQMARKKARE----SYIESE 116 (143)
Q Consensus 49 ~~vWs~l~raqL~~~~V~eAI~sFIkA--~dp------s~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke----~~idt~ 116 (143)
++.|..+|...+..+.-.+|++.|-++ ..| ..+..+-....+.|+|++-+.++..+.+.-.+ +.+=.-
T Consensus 2 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~ 81 (119)
T TIGR02795 2 EEAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLK 81 (119)
T ss_pred cHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHH
Confidence 556677788788777777777777444 122 24566777778889999999988877664322 233345
Q ss_pred HHHHHHhcCChhhHHHHhc
Q psy1645 117 LIYAYARTNRLADLEEFIS 135 (143)
Q Consensus 117 Li~ayAk~~~l~ele~fl~ 135 (143)
+..+|.+.|+..+-..++.
T Consensus 82 ~~~~~~~~~~~~~A~~~~~ 100 (119)
T TIGR02795 82 LGMSLQELGDKEKAKATLQ 100 (119)
T ss_pred HHHHHHHhCChHHHHHHHH
Confidence 5567888888766555543
No 31
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=83.11 E-value=13 Score=25.89 Aligned_cols=94 Identities=23% Similarity=0.221 Sum_probs=65.0
Q ss_pred hHHHHHHHHHHHhhCCCHHHHHHH-HHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC-----CCcch
Q psy1645 7 PATHNALAKIYIDSNNNPERFLKF-FLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDPSA 80 (143)
Q Consensus 7 ~~~~nalakIyi~~~~~~E~fl~~-~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA-----~dps~ 80 (143)
......+|..|+..+++.++=-.. .+++. .-+++.+|-.+|......+...+|++.|-++ ++|..
T Consensus 17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---------~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~ 87 (135)
T TIGR02552 17 LEQIYALAYNLYQQGRYDEALKLFQLLAAY---------DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRP 87 (135)
T ss_pred HHHHHHHHHHHHHcccHHHHHHHHHHHHHh---------CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHH
Confidence 345667888888888877764111 12221 1245789999998888888888888877666 34444
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHhhhh
Q psy1645 81 YMDVVETSHATESWEDLVRYLQMARKKAR 109 (143)
Q Consensus 81 y~eVie~a~~~~~~e~Lv~yL~MaRk~~k 109 (143)
+...-..-...|+++.-+++++.+-+...
T Consensus 88 ~~~la~~~~~~g~~~~A~~~~~~al~~~p 116 (135)
T TIGR02552 88 YFHAAECLLALGEPESALKALDLAIEICG 116 (135)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence 55555566678999999999988876643
No 32
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=83.01 E-value=18 Score=28.44 Aligned_cols=88 Identities=13% Similarity=0.068 Sum_probs=66.1
Q ss_pred hcchhHHHHHHHHhhhhhhhHHHHHHHHhC-----CCcchHHHHHHHH-HcCCC--hHHHHHHHHHHHhh-hhhhhHHHH
Q psy1645 46 CNEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDPSAYMDVVETS-HATES--WEDLVRYLQMARKK-ARESYIESE 116 (143)
Q Consensus 46 ~~~~~vWs~l~raqL~~~~V~eAI~sFIkA-----~dps~y~eVie~a-~~~~~--~e~Lv~yL~MaRk~-~ke~~idt~ 116 (143)
-++++.|..+|+..+..+...+|+.+|=+| +++.-+...-... .+.|. +++-...|..+.+. -.++..=.-
T Consensus 70 P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~ 149 (198)
T PRK10370 70 PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALML 149 (198)
T ss_pred CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHH
Confidence 478889999999999999999999999664 5555565555543 45666 48888888877765 457777778
Q ss_pred HHHHHHhcCChhhHHHH
Q psy1645 117 LIYAYARTNRLADLEEF 133 (143)
Q Consensus 117 Li~ayAk~~~l~ele~f 133 (143)
|..+|.+.|+..+=...
T Consensus 150 LA~~~~~~g~~~~Ai~~ 166 (198)
T PRK10370 150 LASDAFMQADYAQAIEL 166 (198)
T ss_pred HHHHHHHcCCHHHHHHH
Confidence 88888899998765544
No 33
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=81.35 E-value=10 Score=23.71 Aligned_cols=61 Identities=23% Similarity=0.304 Sum_probs=46.1
Q ss_pred chHHHHHHHHHHHhhCCCHHHHHHH-HHHHhccchhHHHHHhcchhHHHHHHHHhhhhh-hhHHHHHHHHhC
Q psy1645 6 EPATHNALAKIYIDSNNNPERFLKF-FLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKG-LVKESIDSFIKA 75 (143)
Q Consensus 6 ~~~~~nalakIyi~~~~~~E~fl~~-~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~-~V~eAI~sFIkA 75 (143)
++..+..+|.+|...+++.++.-.+ ..|+.- -+++.+|..+|......+ .-.+|++.|-++
T Consensus 2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~---------p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~a 64 (69)
T PF13414_consen 2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD---------PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKA 64 (69)
T ss_dssp SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS---------TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---------CCCHHHHHHHHHHHHHhCccHHHHHHHHHHH
Confidence 5678999999999999999888333 233322 345679999999988877 788888887654
No 34
>KOG2114|consensus
Probab=80.95 E-value=15 Score=36.26 Aligned_cols=75 Identities=24% Similarity=0.306 Sum_probs=61.8
Q ss_pred hhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhhh-hhHHHHHHHHHHhcCChhhHHHHhcCc
Q psy1645 63 GLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKKARE-SYIESELIYAYARTNRLADLEEFISGE 137 (143)
Q Consensus 63 ~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke-~~idt~Li~ayAk~~~l~ele~fl~~~ 137 (143)
|.-++|++.||++=.-.+=.+||.+=-.+..-.+|..||.---+++.. +.==|=|++||.|+++...|++||+.-
T Consensus 382 gdf~~A~~qYI~tI~~le~s~Vi~kfLdaq~IknLt~YLe~L~~~gla~~dhttlLLncYiKlkd~~kL~efI~~~ 457 (933)
T KOG2114|consen 382 GDFDEATDQYIETIGFLEPSEVIKKFLDAQRIKNLTSYLEALHKKGLANSDHTTLLLNCYIKLKDVEKLTEFISKC 457 (933)
T ss_pred CCHHHHHHHHHHHcccCChHHHHHHhcCHHHHHHHHHHHHHHHHcccccchhHHHHHHHHHHhcchHHHHHHHhcC
Confidence 556899999999988888888998888888888999999976665433 223356899999999999999999863
No 35
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=80.95 E-value=33 Score=31.90 Aligned_cols=23 Identities=13% Similarity=0.169 Sum_probs=17.3
Q ss_pred cchHHHHHHHHHHHhhCCCHHHH
Q psy1645 5 TEPATHNALAKIYIDSNNNPERF 27 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~f 27 (143)
.++..+..+|.+|...++.+++.
T Consensus 108 ~~~~a~~~la~~l~~~g~~~~Ai 130 (656)
T PRK15174 108 CQPEDVLLVASVLLKSKQYATVA 130 (656)
T ss_pred CChHHHHHHHHHHHHcCCHHHHH
Confidence 34567778888888888877775
No 36
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=79.73 E-value=2.7 Score=23.19 Aligned_cols=27 Identities=22% Similarity=0.377 Sum_probs=21.9
Q ss_pred hhHHHHHHHHhhhhhhhHHHHHHHHhC
Q psy1645 49 PGVWSQLAKAQLQKGLVKESIDSFIKA 75 (143)
Q Consensus 49 ~~vWs~l~raqL~~~~V~eAI~sFIkA 75 (143)
+.+|..+|..+...+...+||++|=+|
T Consensus 1 a~~~~~~g~~~~~~~~~~~A~~~~~~a 27 (34)
T PF00515_consen 1 AEAYYNLGNAYFQLGDYEEALEYYQRA 27 (34)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhCCchHHHHHHHHH
Confidence 468999999999989999999988664
No 37
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=78.50 E-value=24 Score=26.03 Aligned_cols=94 Identities=15% Similarity=0.015 Sum_probs=68.2
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHH-HHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHh-----CCCc
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKF-FLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIK-----ADDP 78 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~-~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIk-----A~dp 78 (143)
.+|.-+...|.++...+...++.-.+ .+++.. -.+++.|..+|......|...+|+.+|=+ .++|
T Consensus 22 ~~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~---------P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~ 92 (144)
T PRK15359 22 VDPETVYASGYASWQEGDYSRAVIDFSWLVMAQ---------PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHP 92 (144)
T ss_pred cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---------CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCc
Confidence 45666667777777777777664111 123222 24678888889888888899999998855 5677
Q ss_pred chHHHHHHHHHcCCChHHHHHHHHHHHhh
Q psy1645 79 SAYMDVVETSHATESWEDLVRYLQMARKK 107 (143)
Q Consensus 79 s~y~eVie~a~~~~~~e~Lv~yL~MaRk~ 107 (143)
..+..+-....+.|.+++-+..++.|-+.
T Consensus 93 ~a~~~lg~~l~~~g~~~eAi~~~~~Al~~ 121 (144)
T PRK15359 93 EPVYQTGVCLKMMGEPGLAREAFQTAIKM 121 (144)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 77888888888899999999998877653
No 38
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=78.43 E-value=37 Score=33.71 Aligned_cols=95 Identities=13% Similarity=0.113 Sum_probs=71.4
Q ss_pred chhHHHHHHHHhhhhhhhHHHHHHHHhC-----CCcchHHHHHHHHHcCCChHHHHHHHHHHHhh-hhhhhHHHHHHHHH
Q psy1645 48 EPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDPSAYMDVVETSHATESWEDLVRYLQMARKK-ARESYIESELIYAY 121 (143)
Q Consensus 48 ~~~vWs~l~raqL~~~~V~eAI~sFIkA-----~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~-~ke~~idt~Li~ay 121 (143)
+++.|..+|......+...+|+..|-++ ++|..+..+-....+.|.+++-+..+..|-+. -..+.+=..|..+|
T Consensus 608 ~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al 687 (987)
T PRK09782 608 SANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVN 687 (987)
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence 4788888888888888999999988654 44555555555667789999999988877654 35667777888999
Q ss_pred HhcCChhhHHHHhcC-----cCCCCC
Q psy1645 122 ARTNRLADLEEFISG-----EGFFEI 142 (143)
Q Consensus 122 Ak~~~l~ele~fl~~-----~N~a~~ 142 (143)
.+.|++.+-+.++.. ||.|.|
T Consensus 688 ~~lGd~~eA~~~l~~Al~l~P~~a~i 713 (987)
T PRK09782 688 QRLDDMAATQHYARLVIDDIDNQALI 713 (987)
T ss_pred HHCCCHHHHHHHHHHHHhcCCCCchh
Confidence 999999887776643 666554
No 39
>KOG0553|consensus
Probab=77.03 E-value=4.6 Score=35.19 Aligned_cols=51 Identities=25% Similarity=0.307 Sum_probs=43.7
Q ss_pred hHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhhhhh
Q psy1645 50 GVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKKARESY 112 (143)
Q Consensus 50 ~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke~~ 112 (143)
.-|+.||++++..+...+||++|=||=+ -.+++|....=|.-||++.+||.
T Consensus 150 kay~RLG~A~~~~gk~~~A~~aykKaLe------------ldP~Ne~~K~nL~~Ae~~l~e~~ 200 (304)
T KOG0553|consen 150 KAYGRLGLAYLALGKYEEAIEAYKKALE------------LDPDNESYKSNLKIAEQKLNEPK 200 (304)
T ss_pred HHHHHHHHHHHccCcHHHHHHHHHhhhc------------cCCCcHHHHHHHHHHHHHhcCCC
Confidence 4688899999999999999999988743 35778888888999999999887
No 40
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=76.27 E-value=13 Score=21.88 Aligned_cols=87 Identities=17% Similarity=0.240 Sum_probs=49.2
Q ss_pred HHHHHHHHHHhhCCCHHHHHHHH-HHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC-----CCcchHH
Q psy1645 9 THNALAKIYIDSNNNPERFLKFF-LVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDPSAYM 82 (143)
Q Consensus 9 ~~nalakIyi~~~~~~E~fl~~~-Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA-----~dps~y~ 82 (143)
.+..+|.+|...++..+++-... .++.. -+.+.+|..++......+...+|++.|-++ .++..+.
T Consensus 2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~ 72 (100)
T cd00189 2 ALLNLGNLYYKLGDYDEALEYYEKALELD---------PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYY 72 (100)
T ss_pred HHHHHHHHHHHHhcHHHHHHHHHHHHhcC---------CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHH
Confidence 35668888888888877762221 22211 122367777777666666777777766443 2233334
Q ss_pred HHHHHHHcCCChHHHHHHHHHH
Q psy1645 83 DVVETSHATESWEDLVRYLQMA 104 (143)
Q Consensus 83 eVie~a~~~~~~e~Lv~yL~Ma 104 (143)
.+.......|.+++-.+++..+
T Consensus 73 ~~~~~~~~~~~~~~a~~~~~~~ 94 (100)
T cd00189 73 NLGLAYYKLGKYEEALEAYEKA 94 (100)
T ss_pred HHHHHHHHHHhHHHHHHHHHHH
Confidence 4444444456666655555544
No 41
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=75.32 E-value=4.4 Score=21.95 Aligned_cols=27 Identities=37% Similarity=0.502 Sum_probs=21.3
Q ss_pred hhHHHHHHHHhhhhhhhHHHHHHHHhC
Q psy1645 49 PGVWSQLAKAQLQKGLVKESIDSFIKA 75 (143)
Q Consensus 49 ~~vWs~l~raqL~~~~V~eAI~sFIkA 75 (143)
|+.|..+|......+...+|+++|=++
T Consensus 1 a~~~~~lg~~~~~~~~~~~A~~~~~~a 27 (34)
T PF07719_consen 1 AEAWYYLGQAYYQLGNYEEAIEYFEKA 27 (34)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 567888998888888889998888654
No 42
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=72.92 E-value=81 Score=29.33 Aligned_cols=86 Identities=15% Similarity=0.157 Sum_probs=54.3
Q ss_pred cchhHHHHHHHHhhhhhhhHH----HHHHHHhC-----CCcchHHHHHHHHHcCCChHHHHHHHHHHHhhh-hhhhHHHH
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKE----SIDSFIKA-----DDPSAYMDVVETSHATESWEDLVRYLQMARKKA-RESYIESE 116 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~e----AI~sFIkA-----~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~-ke~~idt~ 116 (143)
+++.+|..+|......+...+ |+..|-++ +++..+..+-....+.|.|++-+.+++.+.+.. ..+.+-.-
T Consensus 244 ~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~ 323 (656)
T PRK15174 244 DGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAM 323 (656)
T ss_pred CCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence 456677777766665555443 56555443 344455666666677788888888888777642 34455566
Q ss_pred HHHHHHhcCChhhHHH
Q psy1645 117 LIYAYARTNRLADLEE 132 (143)
Q Consensus 117 Li~ayAk~~~l~ele~ 132 (143)
|..+|.+.|+.++-.+
T Consensus 324 La~~l~~~G~~~eA~~ 339 (656)
T PRK15174 324 YARALRQVGQYTAASD 339 (656)
T ss_pred HHHHHHHCCCHHHHHH
Confidence 6777777777765443
No 43
>KOG2076|consensus
Probab=71.21 E-value=72 Score=31.77 Aligned_cols=90 Identities=26% Similarity=0.448 Sum_probs=63.7
Q ss_pred hHHHHHHHHHHHhhCCCHHHHHHHH-HHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC--CCcchHHH
Q psy1645 7 PATHNALAKIYIDSNNNPERFLKFF-LVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA--DDPSAYMD 83 (143)
Q Consensus 7 ~~~~nalakIyi~~~~~~E~fl~~~-Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA--~dps~y~e 83 (143)
++-|..||.||=+-| +-|+++.+- +.-|++. +++++|..++.-....+.+..|+-+|.|| -+|+++.-
T Consensus 173 ~~ay~tL~~IyEqrG-d~eK~l~~~llAAHL~p--------~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~n~~~ 243 (895)
T KOG2076|consen 173 PIAYYTLGEIYEQRG-DIEKALNFWLLAAHLNP--------KDYELWKRLADLSEQLGNINQARYCYSRAIQANPSNWEL 243 (895)
T ss_pred hhhHHHHHHHHHHcc-cHHHHHHHHHHHHhcCC--------CChHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcchHH
Confidence 345677888887777 677777774 4455554 67899999998888888999999999986 57888777
Q ss_pred HHHHHHc---CCCh-HHHHHHHHHHH
Q psy1645 84 VVETSHA---TESW-EDLVRYLQMAR 105 (143)
Q Consensus 84 Vie~a~~---~~~~-e~Lv~yL~MaR 105 (143)
+.+++.- .|.+ ..+=-|++|.+
T Consensus 244 ~~ers~L~~~~G~~~~Am~~f~~l~~ 269 (895)
T KOG2076|consen 244 IYERSSLYQKTGDLKRAMETFLQLLQ 269 (895)
T ss_pred HHHHHHHHHHhChHHHHHHHHHHHHh
Confidence 7776653 4443 33444555443
No 44
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=70.88 E-value=14 Score=22.93 Aligned_cols=56 Identities=23% Similarity=0.406 Sum_probs=35.7
Q ss_pred HHHHHHHhhCCCHHHHHHHHHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC
Q psy1645 12 ALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA 75 (143)
Q Consensus 12 alakIyi~~~~~~E~fl~~~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA 75 (143)
.+|..|++.++..++--.+ =+.+... -+.++.|..+|+.....+...+|+..|=++
T Consensus 2 ~~a~~~~~~g~~~~A~~~~--~~~l~~~------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a 57 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAF--EQALKQD------PDNPEAWYLLGRILYQQGRYDEALAYYERA 57 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHH--HHHHCCS------TTHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred hHHHHHHHcCCHHHHHHHH--HHHHHHC------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 4677888888877776222 2211211 236788888888888888888888776543
No 45
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=69.75 E-value=1.2e+02 Score=30.04 Aligned_cols=129 Identities=15% Similarity=0.189 Sum_probs=76.6
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHH-HHHHhccch---hHHHHHhcchhHHHHH--HHHhhhhhhhHHHHHHHHhC---
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKF-FLVDHLSKT---PFYVLRCNEPGVWSQL--AKAQLQKGLVKESIDSFIKA--- 75 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~-~Li~~~~~n---arYa~k~~~~~vWs~l--~raqL~~~~V~eAI~sFIkA--- 75 (143)
.++..+..+|.+|...++..++--.+ ..++..+++ .++.........|..+ +...+..+...+|++.|-++
T Consensus 301 ~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~ 380 (1157)
T PRK11447 301 KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQV 380 (1157)
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 45678888888888888887776222 233333321 1122222223344433 55666677888888888766
Q ss_pred --CCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhhh-hhHHHHHHHHHHhcCChhhHHHHh
Q psy1645 76 --DDPSAYMDVVETSHATESWEDLVRYLQMARKKARE-SYIESELIYAYARTNRLADLEEFI 134 (143)
Q Consensus 76 --~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke-~~idt~Li~ayAk~~~l~ele~fl 134 (143)
+++..+..+-......|+|++=+++++.+-+.-.+ +..=..|...|.. ++..+-..|+
T Consensus 381 ~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~~-~~~~~A~~~l 441 (1157)
T PRK11447 381 DNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYRQ-QSPEKALAFI 441 (1157)
T ss_pred CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh-cCHHHHHHHH
Confidence 66667777777788889999999988877754222 2222334444432 3444444444
No 46
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=67.75 E-value=1.1e+02 Score=28.85 Aligned_cols=112 Identities=13% Similarity=0.060 Sum_probs=64.5
Q ss_pred hHHHHHHHHHHHhhCCCHHHHHHH-HHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC-----CCcch
Q psy1645 7 PATHNALAKIYIDSNNNPERFLKF-FLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDPSA 80 (143)
Q Consensus 7 ~~~~nalakIyi~~~~~~E~fl~~-~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA-----~dps~ 80 (143)
...|..+|..|.+.++.+++.-.. .+++. .-+.++.|..++...+..+...+|++.+-++ +++.
T Consensus 49 a~~~~~lA~~~~~~g~~~~A~~~~~~al~~---------~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~- 118 (765)
T PRK10049 49 ARGYAAVAVAYRNLKQWQNSLTLWQKALSL---------EPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKAN- 118 (765)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---------CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-
Confidence 345888888888888888877211 11211 1234566666777777666666666655443 3444
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHHHhhh-hhhhHHHHHHHHHHhcCChh
Q psy1645 81 YMDVVETSHATESWEDLVRYLQMARKKA-RESYIESELIYAYARTNRLA 128 (143)
Q Consensus 81 y~eVie~a~~~~~~e~Lv~yL~MaRk~~-ke~~idt~Li~ayAk~~~l~ 128 (143)
+..+-......|.+++-+..++.+-+.- ..+.+=..+..++.+.++..
T Consensus 119 ~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e 167 (765)
T PRK10049 119 LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSA 167 (765)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChH
Confidence 5555555666788888777777655432 22222233444555555543
No 47
>PF04192 Utp21: Utp21 specific WD40 associated putative domain ; InterPro: IPR007319 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. Utp21 is a component of the SSU processome, which is required for pre-18S rRNA processing. It interacts with Utp18 [].; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=67.74 E-value=12 Score=31.10 Aligned_cols=54 Identities=17% Similarity=0.374 Sum_probs=45.0
Q ss_pred CcchHHHHHHHHHcCCChHHHHHHHHHHHhhhhhhhHHHHHHHHHH--hcCChhhHHHHhc
Q psy1645 77 DPSAYMDVVETSHATESWEDLVRYLQMARKKARESYIESELIYAYA--RTNRLADLEEFIS 135 (143)
Q Consensus 77 dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke~~idt~Li~ayA--k~~~l~ele~fl~ 135 (143)
.-|.|...+..+...++|..++.||. .+.-+.||.|+= ++. -.+...+|..||.
T Consensus 109 ~~s~f~~lL~~~~~~~dy~~~~~~Lk----slsPS~iDlEIR-sL~~~~~~~~~~l~~Fl~ 164 (237)
T PF04192_consen 109 FESEFTRLLRSASESEDYSEFLEYLK----SLSPSAIDLEIR-SLSPESGGSYEELVSFLR 164 (237)
T ss_pred ccCHHHHHHHhhcccccHHHHHHHHH----hCChhHHHHHHH-hccCccCCcHHHHHHHHH
Confidence 67889999999999999999999998 688899999983 455 4566788888864
No 48
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=66.51 E-value=7.3 Score=23.14 Aligned_cols=26 Identities=27% Similarity=0.420 Sum_probs=19.6
Q ss_pred hhHHHHHHHHhhhhhhhHHHHHHHHh
Q psy1645 49 PGVWSQLAKAQLQKGLVKESIDSFIK 74 (143)
Q Consensus 49 ~~vWs~l~raqL~~~~V~eAI~sFIk 74 (143)
|++|..+++.....|...+|++.|=+
T Consensus 1 p~~~~~la~~~~~~G~~~~A~~~~~~ 26 (44)
T PF13428_consen 1 PAAWLALARAYRRLGQPDEAERLLRR 26 (44)
T ss_pred CHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 67888888888887777777776643
No 49
>PRK08655 prephenate dehydrogenase; Provisional
Probab=66.45 E-value=29 Score=30.91 Aligned_cols=55 Identities=18% Similarity=0.268 Sum_probs=40.9
Q ss_pred hcchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhh
Q psy1645 46 CNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKKAR 109 (143)
Q Consensus 46 ~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~k 109 (143)
-++|++|..+-...= .+.++++.|++ ++.++.+.+ ++|+++.|.+++..+|+...
T Consensus 218 ~~~p~lw~dI~~~N~---~~~~~l~~~~~-----~l~~l~~~l-~~~D~~~l~~~~~~a~~~~~ 272 (437)
T PRK08655 218 GQNPYLYASIQMNNP---QIPEIHETFIK-----ECEELSELV-KNGDREEFVERMKEAAKHFG 272 (437)
T ss_pred cCCHHHHHHHHHhCH---HHHHHHHHHHH-----HHHHHHHHH-HcCCHHHHHHHHHHHHHHhc
Confidence 578999999854321 37888888885 455555554 46889999999999998766
No 50
>PF12854 PPR_1: PPR repeat
Probab=66.32 E-value=7.5 Score=22.37 Aligned_cols=23 Identities=22% Similarity=0.379 Sum_probs=19.1
Q ss_pred HHHHHHHHHHhcCChhhHHHHhc
Q psy1645 113 IESELIYAYARTNRLADLEEFIS 135 (143)
Q Consensus 113 idt~Li~ayAk~~~l~ele~fl~ 135 (143)
.=+.||-+|+|.|++++=.+++.
T Consensus 9 ty~~lI~~~Ck~G~~~~A~~l~~ 31 (34)
T PF12854_consen 9 TYNTLIDGYCKAGRVDEAFELFD 31 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHH
Confidence 34789999999999999887764
No 51
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=65.41 E-value=36 Score=31.23 Aligned_cols=63 Identities=10% Similarity=0.028 Sum_probs=44.6
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHHH-HHHhccchhHHHHHhcchh---HHHHHHHHhhhhhhhHHHHHHHHhCC
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKFF-LVDHLSKTPFYVLRCNEPG---VWSQLAKAQLQKGLVKESIDSFIKAD 76 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~~-Li~~~~~narYa~k~~~~~---vWs~l~raqL~~~~V~eAI~sFIkA~ 76 (143)
+.+..|+-+|.+|...+.+.|+...+. -|+.-+. +++ .|..+|-....-+.+.+|+++|.+|=
T Consensus 73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd---------~aeA~~A~yNLAcaya~LGr~dEAla~LrrAL 139 (453)
T PLN03098 73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELNPN---------PDEAQAAYYNKACCHAYREEGKKAADCLRTAL 139 (453)
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC---------chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 457789999999999999999984331 2332222 232 37888887777788888888887753
No 52
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=65.39 E-value=25 Score=20.60 Aligned_cols=83 Identities=18% Similarity=0.203 Sum_probs=53.1
Q ss_pred HHHHHHHHhhhhhhhHHHHHHHHhC--CCcc---hHHHHHHHHHcCCChHHHHHHHHHHHhhh-hhhhHHHHHHHHHHhc
Q psy1645 51 VWSQLAKAQLQKGLVKESIDSFIKA--DDPS---AYMDVVETSHATESWEDLVRYLQMARKKA-RESYIESELIYAYART 124 (143)
Q Consensus 51 vWs~l~raqL~~~~V~eAI~sFIkA--~dps---~y~eVie~a~~~~~~e~Lv~yL~MaRk~~-ke~~idt~Li~ayAk~ 124 (143)
+|..+|......+...+|++.|-++ ..|. .+..+-......|.+++=+++++.+.+.. +.+.+-..+..+|...
T Consensus 2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (100)
T cd00189 2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL 81 (100)
T ss_pred HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence 4666777767777778888877553 2333 34444445555788999999998887653 3334555666677777
Q ss_pred CChhhHHHH
Q psy1645 125 NRLADLEEF 133 (143)
Q Consensus 125 ~~l~ele~f 133 (143)
|+..+-.+.
T Consensus 82 ~~~~~a~~~ 90 (100)
T cd00189 82 GKYEEALEA 90 (100)
T ss_pred HhHHHHHHH
Confidence 776554433
No 53
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=65.19 E-value=90 Score=26.86 Aligned_cols=120 Identities=13% Similarity=0.117 Sum_probs=75.1
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHHHHHHhccchhHHHHHhcchh-----HHHHHHHHhhh-hhhhHHHHHHHHhC--C
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRCNEPG-----VWSQLAKAQLQ-KGLVKESIDSFIKA--D 76 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~~Li~~~~~narYa~k~~~~~-----vWs~l~raqL~-~~~V~eAI~sFIkA--~ 76 (143)
.++.++-++|..+++.+.+.++. ..+-+.+.+ -.++. +...+++-+.. .......++...+. +
T Consensus 261 ~~~~l~~~~a~~l~~~g~~~~A~--~~l~~~l~~-------~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~ 331 (409)
T TIGR00540 261 HNIALKIALAEHLIDCDDHDSAQ--EIIFDGLKK-------LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDD 331 (409)
T ss_pred CCHHHHHHHHHHHHHCCChHHHH--HHHHHHHhh-------CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCC
Confidence 37889999999999999998888 332222221 11111 22222221111 12335566666665 7
Q ss_pred Cc--chHHHHHHHHHcCCChHHHHHHHHHHHh--hhhhhhHHHHHHHHHHhcCChhhHHHH
Q psy1645 77 DP--SAYMDVVETSHATESWEDLVRYLQMARK--KARESYIESELIYAYARTNRLADLEEF 133 (143)
Q Consensus 77 dp--s~y~eVie~a~~~~~~e~Lv~yL~MaRk--~~ke~~idt~Li~ayAk~~~l~ele~f 133 (143)
|| .-+..+=-.+.+.|.|++=.+||+-++. .-.++.+=..|.-.|.++|+..+-.++
T Consensus 332 ~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~ 392 (409)
T TIGR00540 332 KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAM 392 (409)
T ss_pred ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence 77 5555667778889999999999995443 334455555778888888887766554
No 54
>PRK12370 invasion protein regulator; Provisional
Probab=65.00 E-value=77 Score=28.60 Aligned_cols=87 Identities=8% Similarity=-0.054 Sum_probs=60.5
Q ss_pred cchhHHHHHHHHhhhhhhhHHHHHHHHh-----CCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhhh-hhHHHHHHHH
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESIDSFIK-----ADDPSAYMDVVETSHATESWEDLVRYLQMARKKARE-SYIESELIYA 120 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI~sFIk-----A~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke-~~idt~Li~a 120 (143)
++++.|..+|......+...+|+..|=+ -++|..+..+-......|.+++=+.++..+.+..-. +..--.+..+
T Consensus 336 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~ 415 (553)
T PRK12370 336 NNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWI 415 (553)
T ss_pred CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHH
Confidence 5678888888888888888999999855 344456666777778899999999999988765333 2222233444
Q ss_pred HHhcCChhhHHHH
Q psy1645 121 YARTNRLADLEEF 133 (143)
Q Consensus 121 yAk~~~l~ele~f 133 (143)
+...|+.++-..+
T Consensus 416 ~~~~g~~eeA~~~ 428 (553)
T PRK12370 416 TYYHTGIDDAIRL 428 (553)
T ss_pred HHhccCHHHHHHH
Confidence 5567887654433
No 55
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=64.90 E-value=50 Score=28.30 Aligned_cols=78 Identities=17% Similarity=0.174 Sum_probs=59.4
Q ss_pred cchhHHHHHHHHhhhhhhhHHHHHHHHhC-----CCcchHHHHHHHHHcCCChHHHHHHHHHHHhhh-hhhhHHHHHHHH
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDPSAYMDVVETSHATESWEDLVRYLQMARKKA-RESYIESELIYA 120 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI~sFIkA-----~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~-ke~~idt~Li~a 120 (143)
+.+..|..+|.+.+..+...+|+..|-+| +++..|..+-....+.|+|++-+++++.+-+.. .++.+-.-+-.|
T Consensus 34 ~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~P~~~~~~~~l~~~ 113 (356)
T PLN03088 34 NNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAKAALEKGASLAPGDSRFTKLIKEC 113 (356)
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence 45678888888888888888999888776 666778888788888999999999998877653 455555555555
Q ss_pred HHhc
Q psy1645 121 YART 124 (143)
Q Consensus 121 yAk~ 124 (143)
..++
T Consensus 114 ~~kl 117 (356)
T PLN03088 114 DEKI 117 (356)
T ss_pred HHHH
Confidence 5554
No 56
>PRK14574 hmsH outer membrane protein; Provisional
Probab=64.20 E-value=80 Score=30.79 Aligned_cols=49 Identities=8% Similarity=0.068 Sum_probs=24.3
Q ss_pred HHHhhhhhhhHHHHHHHHhC-----CCcchHHHHHHHHHcCCChHHHHHHHHHH
Q psy1645 56 AKAQLQKGLVKESIDSFIKA-----DDPSAYMDVVETSHATESWEDLVRYLQMA 104 (143)
Q Consensus 56 ~raqL~~~~V~eAI~sFIkA-----~dps~y~eVie~a~~~~~~e~Lv~yL~Ma 104 (143)
++.+...+.-..||+-|=++ ++|..+..+...-.+.+++++-+.++.-+
T Consensus 109 A~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l 162 (822)
T PRK14574 109 ARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATEL 162 (822)
T ss_pred HHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHh
Confidence 33444545555555555332 34444544444444556665555555533
No 57
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=61.30 E-value=1.4e+02 Score=29.61 Aligned_cols=85 Identities=14% Similarity=0.106 Sum_probs=47.2
Q ss_pred cchhHHHHHHHHhhhhhhhHHHHHHHHh-----CCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhh-hhhhHHHHHHHH
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESIDSFIK-----ADDPSAYMDVVETSHATESWEDLVRYLQMARKKA-RESYIESELIYA 120 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI~sFIk-----A~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~-ke~~idt~Li~a 120 (143)
+++.+|-.++......+...+|++.|-+ -++|..+..+...-...|++++-+.++..+.+.. ..+.+-..+..+
T Consensus 601 ~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~ 680 (1157)
T PRK11447 601 PSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALA 680 (1157)
T ss_pred CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHH
Confidence 3445555566666666666666666642 3344555555555556677766666666544432 233444455566
Q ss_pred HHhcCChhhHH
Q psy1645 121 YARTNRLADLE 131 (143)
Q Consensus 121 yAk~~~l~ele 131 (143)
|.+.|+..+=.
T Consensus 681 ~~~~g~~~eA~ 691 (1157)
T PRK11447 681 WAALGDTAAAQ 691 (1157)
T ss_pred HHhCCCHHHHH
Confidence 66666655433
No 58
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=60.52 E-value=1.5e+02 Score=27.95 Aligned_cols=84 Identities=11% Similarity=0.014 Sum_probs=62.6
Q ss_pred HHHHHHHhhhhhhhHHHHHHHHh-----CCCcchHHHHHHHHHcCCChHHHHHHHHHHHhh-hhhhhHHHHHHHHHHhcC
Q psy1645 52 WSQLAKAQLQKGLVKESIDSFIK-----ADDPSAYMDVVETSHATESWEDLVRYLQMARKK-ARESYIESELIYAYARTN 125 (143)
Q Consensus 52 Ws~l~raqL~~~~V~eAI~sFIk-----A~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~-~ke~~idt~Li~ayAk~~ 125 (143)
+..++......+...+|++.|=+ -+++.-+..+.......|.+++.+..|..+-+. -..+.+...+++.+-+.|
T Consensus 362 ~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~ 441 (765)
T PRK10049 362 QSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQ 441 (765)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhC
Confidence 34456666666778888888765 344555666666667789999999999988765 344667788888999999
Q ss_pred ChhhHHHHhc
Q psy1645 126 RLADLEEFIS 135 (143)
Q Consensus 126 ~l~ele~fl~ 135 (143)
++.+.|..+.
T Consensus 442 ~~~~A~~~~~ 451 (765)
T PRK10049 442 EWRQMDVLTD 451 (765)
T ss_pred CHHHHHHHHH
Confidence 9999887763
No 59
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=59.64 E-value=48 Score=29.82 Aligned_cols=46 Identities=17% Similarity=0.182 Sum_probs=37.8
Q ss_pred CCChHHHHHHHHHHHhhhh--hhhHHHHHHHHHHhcCChhhHHHHhcC
Q psy1645 91 TESWEDLVRYLQMARKKAR--ESYIESELIYAYARTNRLADLEEFISG 136 (143)
Q Consensus 91 ~~~~e~Lv~yL~MaRk~~k--e~~idt~Li~ayAk~~~l~ele~fl~~ 136 (143)
.|.|+.=|+=|.++-+.-. -|.|=.-|.-||+.+|+.+++++||.+
T Consensus 227 ~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~ 274 (389)
T COG2956 227 KGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRR 274 (389)
T ss_pred ccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence 6889999998888776533 356666788999999999999999976
No 60
>PRK11189 lipoprotein NlpI; Provisional
Probab=59.48 E-value=99 Score=25.45 Aligned_cols=62 Identities=13% Similarity=0.036 Sum_probs=49.4
Q ss_pred cchhHHHHHHHHhhhhhhhHHHHHHHHhC-----CCcchHHHHHHHHHcCCChHHHHHHHHHHHhhh
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDPSAYMDVVETSHATESWEDLVRYLQMARKKA 108 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI~sFIkA-----~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ 108 (143)
+.+.+|..+|......+...+|+++|-++ +++..+...-......|.|++-++.+..+-+.-
T Consensus 96 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~ 162 (296)
T PRK11189 96 DMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD 162 (296)
T ss_pred CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence 56889999999998889999999999877 344455555556667899999999999887653
No 61
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=59.47 E-value=27 Score=22.90 Aligned_cols=24 Identities=25% Similarity=0.372 Sum_probs=12.3
Q ss_pred hhHHHHHHHHhhhhhhhHHHHHHH
Q psy1645 49 PGVWSQLAKAQLQKGLVKESIDSF 72 (143)
Q Consensus 49 ~~vWs~l~raqL~~~~V~eAI~sF 72 (143)
+..|-.+|+.....+.-..|++.+
T Consensus 25 ~~~~~~la~~~~~~~~y~~A~~~~ 48 (84)
T PF12895_consen 25 SAYLYNLAQCYFQQGKYEEAIELL 48 (84)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHH
Confidence 344444555555555555555555
No 62
>PRK11199 tyrA bifunctional chorismate mutase/prephenate dehydrogenase; Provisional
Probab=59.05 E-value=42 Score=29.14 Aligned_cols=54 Identities=6% Similarity=0.186 Sum_probs=37.3
Q ss_pred hcchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhh
Q psy1645 46 CNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKKA 108 (143)
Q Consensus 46 ~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ 108 (143)
-.+|++|..+-... ...+ ++++.|++ ++.++.+..+ .|+++.|.+|+..+|+..
T Consensus 297 ~~~p~lw~dI~~~N--~~~~-~~l~~~~~-----~l~~l~~~l~-~~d~~~l~~~~~~a~~~~ 350 (374)
T PRK11199 297 AQDPQLYADIIMSS--PENL-ALIKRYYQ-----RFGEALELLE-QGDKQAFIDSFRKVEHWF 350 (374)
T ss_pred cCCHHHHHHHHHhC--hhHH-HHHHHHHH-----HHHHHHHHHH-cCCHHHHHHHHHHHHHHH
Confidence 47889998874321 1234 77777774 4555555553 588899999999999764
No 63
>PRK07417 arogenate dehydrogenase; Reviewed
Probab=58.86 E-value=50 Score=27.06 Aligned_cols=53 Identities=17% Similarity=0.302 Sum_probs=36.2
Q ss_pred cchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhh
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKK 107 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~ 107 (143)
.+|++|..+-... ...|.++++.|++ .+.++.+..+ .++.+.|.++|.-+|+.
T Consensus 221 ~~p~~w~~i~~~N--~~~i~~~l~~~~~-----~l~~~~~~l~-~~d~~~l~~~~~~~~~~ 273 (279)
T PRK07417 221 GNPELGVMMAEYN--RAALLRSLASYRQ-----SLDQLEELIE-QENWSALEQKLEQTQEL 273 (279)
T ss_pred CChHHHHHHHHHh--HHHHHHHHHHHHH-----HHHHHHHHHH-cCCHHHHHHHHHHHHHH
Confidence 4699999874432 2356778888874 4666666664 45678899998877765
No 64
>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human. Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.
Probab=57.51 E-value=11 Score=34.42 Aligned_cols=68 Identities=19% Similarity=0.255 Sum_probs=17.3
Q ss_pred HHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcC----C--ChHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCh
Q psy1645 54 QLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHAT----E--SWEDLVRYLQMARKKARESYIESELIYAYARTNRL 127 (143)
Q Consensus 54 ~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~----~--~~e~Lv~yL~MaRk~~ke~~idt~Li~ayAk~~~l 127 (143)
.+|++-+..+..-+|+..|+||+|+.....|.+..-+. | .+++++.-+. ....+...|.+ |||.-+.
T Consensus 430 ~~~~~~~~~~~~g~AL~~~~ra~d~~~v~~i~~~ll~~~~~~~~~~~~~ll~~i~------~~~~~~~~L~f-la~yreF 502 (566)
T PF07575_consen 430 ILGQRLLKEGRYGEALSWFIRAGDYSLVTRIADRLLEEYCNNGEPLDDDLLDNIG------SPMLLSQRLSF-LAKYREF 502 (566)
T ss_dssp HHHHHHHHHHHHHHHHHHHH------------------------------------------------------------
T ss_pred HHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHhcCCCcccHHHHHHhc------chhhhhhhhHH-HHHHHHH
Confidence 35777888899999999999999999988887766642 2 3344444333 33355566665 6665554
Q ss_pred h
Q psy1645 128 A 128 (143)
Q Consensus 128 ~ 128 (143)
-
T Consensus 503 ~ 503 (566)
T PF07575_consen 503 Y 503 (566)
T ss_dssp -
T ss_pred H
Confidence 3
No 65
>PRK08507 prephenate dehydrogenase; Validated
Probab=56.87 E-value=58 Score=26.47 Aligned_cols=54 Identities=33% Similarity=0.574 Sum_probs=37.8
Q ss_pred hcchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhh
Q psy1645 46 CNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKK 107 (143)
Q Consensus 46 ~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~ 107 (143)
..+|++|..+-... ..-+.++++.|++ .+.++.+.. +.++++.|.++|+-+|+.
T Consensus 218 ~~~p~l~~~i~~~N--~~~~~~~l~~~~~-----~l~~~~~~l-~~~d~~~~~~~~~~~~~~ 271 (275)
T PRK08507 218 KSSPAMWSDIFKQN--KENVLEAIDEFIK-----ELEQFKQLI-ENEDWEELEEWMEQANKL 271 (275)
T ss_pred cCCHHHHHHHHHHh--HHHHHHHHHHHHH-----HHHHHHHHH-HcCCHHHHHHHHHHHHHH
Confidence 47899999875432 2356778888874 455554444 457889999999988765
No 66
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=56.34 E-value=96 Score=24.29 Aligned_cols=95 Identities=15% Similarity=0.223 Sum_probs=62.6
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHHHHHHhccchhHHHHHhcchhHHHHHHHHh-hhhhh--hHHHHHHHH-----hCC
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRCNEPGVWSQLAKAQ-LQKGL--VKESIDSFI-----KAD 76 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~~Li~~~~~narYa~k~~~~~vWs~l~raq-L~~~~--V~eAI~sFI-----kA~ 76 (143)
.++..+..+|.+|...|++.++.-.. . .-+...-+++++|..++.+- ...+. -.+|++.|= ..+
T Consensus 71 ~~~~~w~~Lg~~~~~~g~~~~A~~a~------~--~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~ 142 (198)
T PRK10370 71 QNSEQWALLGEYYLWRNDYDNALLAY------R--QALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN 142 (198)
T ss_pred CCHHHHHHHHHHHHHCCCHHHHHHHH------H--HHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC
Confidence 45667788888888888887776221 1 11223345788888877653 23222 255555553 345
Q ss_pred CcchHHHHHHHHHcCCChHHHHHHHHHHHhh
Q psy1645 77 DPSAYMDVVETSHATESWEDLVRYLQMARKK 107 (143)
Q Consensus 77 dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~ 107 (143)
++..+..+-..+.+.|.|++-+.+++.+-+.
T Consensus 143 ~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l 173 (198)
T PRK10370 143 EVTALMLLASDAFMQADYAQAIELWQKVLDL 173 (198)
T ss_pred ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 6777777777888899999999999988654
No 67
>KOG2041|consensus
Probab=55.67 E-value=16 Score=36.15 Aligned_cols=48 Identities=21% Similarity=0.372 Sum_probs=42.3
Q ss_pred HHHhcc--chhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcc
Q psy1645 32 LVDHLS--KTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPS 79 (143)
Q Consensus 32 Li~~~~--~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps 79 (143)
||+.+. ++..|++.---|.||+.++...|-......|=.+|.|-+|-.
T Consensus 673 Lve~vgledA~qfiEdnPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~ 722 (1189)
T KOG2041|consen 673 LVEAVGLEDAIQFIEDNPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYA 722 (1189)
T ss_pred HHHHhchHHHHHHHhcCCchHHHHHHHHHHHHHHhhhhHhhhhhhhcccc
Confidence 777776 578999999999999999999999888899999999988743
No 68
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=55.36 E-value=73 Score=24.71 Aligned_cols=64 Identities=14% Similarity=0.260 Sum_probs=46.0
Q ss_pred chHHHHHHHHHcCCChHHHHHHHHHHHhh----hhhhhHHHHHHHHHHhcCCh----hhHHHHhcC-cCCCCC
Q psy1645 79 SAYMDVVETSHATESWEDLVRYLQMARKK----ARESYIESELIYAYARTNRL----ADLEEFISG-EGFFEI 142 (143)
Q Consensus 79 s~y~eVie~a~~~~~~e~Lv~yL~MaRk~----~ke~~idt~Li~ayAk~~~l----~ele~fl~~-~N~a~~ 142 (143)
..+-.-=+.+-+.|+|++=+++|...+.. ---+...-.|+|+|-+.++. +.++.||.- |++.++
T Consensus 11 ~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~v 83 (142)
T PF13512_consen 11 QELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNV 83 (142)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCc
Confidence 34444445666789999999999987753 12345566799999999995 678999864 666654
No 69
>KOG1155|consensus
Probab=54.64 E-value=64 Score=30.34 Aligned_cols=78 Identities=18% Similarity=0.277 Sum_probs=46.4
Q ss_pred HhcchhHHHHHHHHhhhhhhhHHHHHHHHh---CCCc--chHHHHHHHHHcCCChHHHHHHHHHHHhh-hhhhhHHHHHH
Q psy1645 45 RCNEPGVWSQLAKAQLQKGLVKESIDSFIK---ADDP--SAYMDVVETSHATESWEDLVRYLQMARKK-ARESYIESELI 118 (143)
Q Consensus 45 k~~~~~vWs~l~raqL~~~~V~eAI~sFIk---A~dp--s~y~eVie~a~~~~~~e~Lv~yL~MaRk~-~ke~~idt~Li 118 (143)
+-+|+-+|--||.=.-.-++..|||+||=+ .+|+ +.|..+-..=++-+.+++-..|-.-.=+. .-+..||.+.+
T Consensus 428 kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ 507 (559)
T KOG1155|consen 428 KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETI 507 (559)
T ss_pred CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHH
Confidence 458999999999877666789999999955 5666 55555544444444555444333322111 12333444455
Q ss_pred HHHH
Q psy1645 119 YAYA 122 (143)
Q Consensus 119 ~ayA 122 (143)
.|.+
T Consensus 508 ka~~ 511 (559)
T KOG1155|consen 508 KARL 511 (559)
T ss_pred HHHH
Confidence 4443
No 70
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=53.97 E-value=30 Score=21.64 Aligned_cols=51 Identities=22% Similarity=0.466 Sum_probs=34.8
Q ss_pred HHHHHHhhCCCHHHHHHHH---HHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHh
Q psy1645 13 LAKIYIDSNNNPERFLKFF---LVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIK 74 (143)
Q Consensus 13 lakIyi~~~~~~E~fl~~~---Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIk 74 (143)
|+.||+..++++++- .+ ++.. .-+++.+|...|.....-|...+|+..|-+
T Consensus 1 l~~~~~~~~~~~~A~--~~~~~~l~~---------~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~ 54 (73)
T PF13371_consen 1 LKQIYLQQEDYEEAL--EVLERALEL---------DPDDPELWLQRARCLFQLGRYEEALEDLER 54 (73)
T ss_pred CHHHHHhCCCHHHHH--HHHHHHHHh---------CcccchhhHHHHHHHHHhccHHHHHHHHHH
Confidence 467888888877775 22 2221 123788888888888888888888877644
No 71
>PRK07502 cyclohexadienyl dehydrogenase; Validated
Probab=53.44 E-value=69 Score=26.47 Aligned_cols=54 Identities=15% Similarity=0.245 Sum_probs=36.8
Q ss_pred hcchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhh
Q psy1645 46 CNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKK 107 (143)
Q Consensus 46 ~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~ 107 (143)
-.+|++|..+-... ...|.++|+.|++ .+.++.+.. +.++++.|.++|..+|+.
T Consensus 231 ~~~~~~w~~i~~~N--~~~~~~~l~~~~~-----~l~~~~~~l-~~~d~~~l~~~~~~~~~~ 284 (307)
T PRK07502 231 ASDPTMWRDVFLHN--KDAVLEMLGRFTE-----DLAALQRAI-RWGDGDALFDLFTRTRAI 284 (307)
T ss_pred cCChHHHHHHHHHh--HHHHHHHHHHHHH-----HHHHHHHHH-HcCCHHHHHHHHHHHHHH
Confidence 45888999875422 2356777887774 455555555 356788999999988765
No 72
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=53.18 E-value=15 Score=19.20 Aligned_cols=21 Identities=19% Similarity=0.412 Sum_probs=15.5
Q ss_pred HHHHHHHHhcCChhhHHHHhc
Q psy1645 115 SELIYAYARTNRLADLEEFIS 135 (143)
Q Consensus 115 t~Li~ayAk~~~l~ele~fl~ 135 (143)
+.|+-+|++.|+..+.+++..
T Consensus 4 ~~li~~~~~~~~~~~a~~~~~ 24 (31)
T PF01535_consen 4 NSLISGYCKMGQFEEALEVFD 24 (31)
T ss_pred HHHHHHHHccchHHHHHHHHH
Confidence 457778888888888777653
No 73
>PF02153 PDH: Prephenate dehydrogenase; InterPro: IPR003099 Members of this family are prephenate dehydrogenases 1.3.1.12 from EC involved in tyrosine biosynthesis. ; GO: 0004665 prephenate dehydrogenase (NADP+) activity, 0008977 prephenate dehydrogenase activity, 0006571 tyrosine biosynthetic process, 0055114 oxidation-reduction process; PDB: 2F1K_B 2PV7_A 3DZB_B 3KTD_B 3B1F_A 2G5C_D 3GGP_C 3GGG_C 3GGO_D.
Probab=52.33 E-value=64 Score=26.30 Aligned_cols=48 Identities=23% Similarity=0.444 Sum_probs=32.0
Q ss_pred cchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHH
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQ 102 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~ 102 (143)
.+|++|..+-.. +..-+.++++.|++ ++.++.+.++ +|+.++|.+||+
T Consensus 210 ~~p~l~~~I~~~--N~~~~~~~l~~~~~-----~L~~l~~~l~-~~d~~~l~~~l~ 257 (258)
T PF02153_consen 210 SDPELWADIFLS--NPENLLEALDEFIK-----ELNELREALE-AGDEEELEELLE 257 (258)
T ss_dssp S-HHHHHHHHHH--THHHHHHHHHHHHH-----HHHHHHHHHH-TTSHHHHHHHHH
T ss_pred CChHHHHHHHHH--CHHHHHHHHHHHHH-----HHHHHHHHHH-cCCHHHHHHHhc
Confidence 688999998543 22346777777874 3445544444 788889998886
No 74
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=52.24 E-value=53 Score=20.15 Aligned_cols=45 Identities=13% Similarity=0.299 Sum_probs=25.5
Q ss_pred CCChHHHHHHHHHHHhh-hhhhhHHHHHHHHHHhcCChhhHHHHhc
Q psy1645 91 TESWEDLVRYLQMARKK-ARESYIESELIYAYARTNRLADLEEFIS 135 (143)
Q Consensus 91 ~~~~e~Lv~yL~MaRk~-~ke~~idt~Li~ayAk~~~l~ele~fl~ 135 (143)
.|+|++=+++++-+-+. -..+.+-..|+.||.++|+.++=++.+.
T Consensus 4 ~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~ 49 (68)
T PF14559_consen 4 QGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLE 49 (68)
T ss_dssp TTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred ccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 45566666666555433 3355555566666666776666555553
No 75
>PF13041 PPR_2: PPR repeat family
Probab=50.18 E-value=54 Score=19.57 Aligned_cols=45 Identities=11% Similarity=0.221 Sum_probs=28.3
Q ss_pred chHHHHHHHHHcCCChHHHHHHHHHHHhhhhhhhHHH--HHHHHHHh
Q psy1645 79 SAYMDVVETSHATESWEDLVRYLQMARKKARESYIES--ELIYAYAR 123 (143)
Q Consensus 79 s~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke~~idt--~Li~ayAk 123 (143)
-.|.-+|...-++|++++-++.+..-++..-.|-+-| .||-+|+|
T Consensus 4 ~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k 50 (50)
T PF13041_consen 4 VTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK 50 (50)
T ss_pred HHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence 3466777777778888887777776666555554443 34444443
No 76
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=48.88 E-value=60 Score=20.62 Aligned_cols=64 Identities=17% Similarity=0.259 Sum_probs=39.7
Q ss_pred hHHHHHHHHHHHhhCCCHHHHHHHH----HHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC
Q psy1645 7 PATHNALAKIYIDSNNNPERFLKFF----LVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA 75 (143)
Q Consensus 7 ~~~~nalakIyi~~~~~~E~fl~~~----Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA 75 (143)
...++-+|.+|-..+++.++---+. +.+.++. ...+....|..+|......+...+|++.|-+|
T Consensus 5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~-----~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a 72 (78)
T PF13424_consen 5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGD-----DHPDTANTLNNLGECYYRLGDYEEALEYYQKA 72 (78)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTT-----HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCC-----CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 3578899999999999988872221 1121211 11122345666777777777888888877665
No 77
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=48.15 E-value=1.3e+02 Score=27.79 Aligned_cols=64 Identities=17% Similarity=0.179 Sum_probs=50.1
Q ss_pred HHhcchhHHHHHHHHhhhhhhhHHHHHHHHh-----CCCcch---HHHHHHHHHcCCChHHHHHHHHHHHhh
Q psy1645 44 LRCNEPGVWSQLAKAQLQKGLVKESIDSFIK-----ADDPSA---YMDVVETSHATESWEDLVRYLQMARKK 107 (143)
Q Consensus 44 ~k~~~~~vWs~l~raqL~~~~V~eAI~sFIk-----A~dps~---y~eVie~a~~~~~~e~Lv~yL~MaRk~ 107 (143)
..-+.++.|..+|-+....++..+||.+|=+ -+++.. |..+-..-...|++++=+.+|..|-+.
T Consensus 70 ~dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel 141 (453)
T PLN03098 70 ADVKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD 141 (453)
T ss_pred CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 4557788999999999999999999999943 344432 566666666689999999999987764
No 78
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=47.51 E-value=78 Score=20.65 Aligned_cols=54 Identities=11% Similarity=0.121 Sum_probs=31.1
Q ss_pred chHHHHHHHHHcCCChHHHHHHHHHHHhh-hhhhhHHHHHHHHHHhcCChhhHHHH
Q psy1645 79 SAYMDVVETSHATESWEDLVRYLQMARKK-ARESYIESELIYAYARTNRLADLEEF 133 (143)
Q Consensus 79 s~y~eVie~a~~~~~~e~Lv~yL~MaRk~-~ke~~idt~Li~ayAk~~~l~ele~f 133 (143)
..+..+-....+.|+|+.-+.+++- .+. .+.+.+=--+.-||-++|+..+=-+.
T Consensus 26 ~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~ 80 (84)
T PF12895_consen 26 AYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA 80 (84)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence 3444456666778999999998876 221 12223333444567778877664443
No 79
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=46.81 E-value=3.1e+02 Score=27.41 Aligned_cols=86 Identities=8% Similarity=-0.123 Sum_probs=41.0
Q ss_pred hhHHHHHHHHhhhhhhhHHHHHHHHhC--CCcchHHH---HHHHHHcCCChHHHHHHHHHHHhhhhhhhHHHHHHHHHHh
Q psy1645 49 PGVWSQLAKAQLQKGLVKESIDSFIKA--DDPSAYMD---VVETSHATESWEDLVRYLQMARKKARESYIESELIYAYAR 123 (143)
Q Consensus 49 ~~vWs~l~raqL~~~~V~eAI~sFIkA--~dps~y~e---Vie~a~~~~~~e~Lv~yL~MaRk~~ke~~idt~Li~ayAk 123 (143)
+..|..+|...+..|...+|+..|-++ .+|..... +.....+.|.|++=+..++.+-+..-++..=..+..+|.+
T Consensus 542 ~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~ 621 (987)
T PRK09782 542 NEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNIAPSANAYVARATIYRQ 621 (987)
T ss_pred cHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 344555565555556666666555221 12222222 2222333466666666655554332222222344455666
Q ss_pred cCChhhHHHHh
Q psy1645 124 TNRLADLEEFI 134 (143)
Q Consensus 124 ~~~l~ele~fl 134 (143)
.|+.++-+.++
T Consensus 622 lG~~deA~~~l 632 (987)
T PRK09782 622 RHNVPAAVSDL 632 (987)
T ss_pred CCCHHHHHHHH
Confidence 66666655544
No 80
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=46.46 E-value=96 Score=21.41 Aligned_cols=79 Identities=9% Similarity=0.071 Sum_probs=50.9
Q ss_pred HHHhhhhhhhHHHHHHHHh-----CCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhh-hhhhHHHHHHHHHHhcCChhh
Q psy1645 56 AKAQLQKGLVKESIDSFIK-----ADDPSAYMDVVETSHATESWEDLVRYLQMARKKA-RESYIESELIYAYARTNRLAD 129 (143)
Q Consensus 56 ~raqL~~~~V~eAI~sFIk-----A~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~-ke~~idt~Li~ayAk~~~l~e 129 (143)
+...+..+...+|+..|-+ .++|..+..+-....+.|.|++-+++++.+.+.. ..+..=--+..+|.+.|+..+
T Consensus 24 a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~ 103 (135)
T TIGR02552 24 AYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPES 103 (135)
T ss_pred HHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCHHH
Confidence 3334444555666655533 3455566666666667899999999999887653 334444556778888998776
Q ss_pred HHHHh
Q psy1645 130 LEEFI 134 (143)
Q Consensus 130 le~fl 134 (143)
-..++
T Consensus 104 A~~~~ 108 (135)
T TIGR02552 104 ALKAL 108 (135)
T ss_pred HHHHH
Confidence 54444
No 81
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=45.90 E-value=47 Score=17.64 Aligned_cols=27 Identities=4% Similarity=0.166 Sum_probs=17.7
Q ss_pred hHHHHHHHHHcCCChHHHHHHHHHHHh
Q psy1645 80 AYMDVVETSHATESWEDLVRYLQMARK 106 (143)
Q Consensus 80 ~y~eVie~a~~~~~~e~Lv~yL~MaRk 106 (143)
.|..++..+.+.|.++.....+..-++
T Consensus 3 ty~~ll~a~~~~g~~~~a~~~~~~M~~ 29 (34)
T PF13812_consen 3 TYNALLRACAKAGDPDAALQLFDEMKE 29 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 466677777777777776666665443
No 82
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=45.80 E-value=1.9e+02 Score=24.72 Aligned_cols=80 Identities=11% Similarity=0.060 Sum_probs=57.4
Q ss_pred HHHHhhhhhhhHHHHHHHHhC-----CCcchHHHHHHHHHcCCChHHHHHHHHHHHhhh-hhhhHHHHHHHHHHhcCChh
Q psy1645 55 LAKAQLQKGLVKESIDSFIKA-----DDPSAYMDVVETSHATESWEDLVRYLQMARKKA-RESYIESELIYAYARTNRLA 128 (143)
Q Consensus 55 l~raqL~~~~V~eAI~sFIkA-----~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~-ke~~idt~Li~ayAk~~~l~ 128 (143)
-|+..+..+...+||+.|=+| +++..|...-....+.|.|++-+.++..|-+.- ..+..=--+..+|.++|+..
T Consensus 8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~ 87 (356)
T PLN03088 8 KAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQ 87 (356)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHH
Confidence 366666677778888877554 566777777777788999999999999887652 34444455667888889977
Q ss_pred hHHHHh
Q psy1645 129 DLEEFI 134 (143)
Q Consensus 129 ele~fl 134 (143)
+-...+
T Consensus 88 eA~~~~ 93 (356)
T PLN03088 88 TAKAAL 93 (356)
T ss_pred HHHHHH
Confidence 554443
No 83
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=45.53 E-value=30 Score=18.63 Aligned_cols=26 Identities=31% Similarity=0.336 Sum_probs=18.5
Q ss_pred hHHHHHHHHhhhhhhhHHHHHHHHhC
Q psy1645 50 GVWSQLAKAQLQKGLVKESIDSFIKA 75 (143)
Q Consensus 50 ~vWs~l~raqL~~~~V~eAI~sFIkA 75 (143)
++|-.+|+-....+....|+++|-++
T Consensus 2 ~~~~~lg~~y~~~~~~~~A~~~~~~a 27 (34)
T PF13181_consen 2 EAYYNLGKIYEQLGDYEEALEYFEKA 27 (34)
T ss_dssp HHHHHHHHHHHHTTSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 46777777777777777777777654
No 84
>PF14261 DUF4351: Domain of unknown function (DUF4351)
Probab=44.96 E-value=35 Score=22.47 Aligned_cols=39 Identities=23% Similarity=0.215 Sum_probs=35.3
Q ss_pred hhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHH
Q psy1645 63 GLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYL 101 (143)
Q Consensus 63 ~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL 101 (143)
|.++..+..=|++=+...+..+.+++-..+.-+||..||
T Consensus 21 G~lp~~~~~~I~~l~~eqLE~l~e~ildf~~l~dL~~wL 59 (59)
T PF14261_consen 21 GELPPEIQERIQQLSLEQLEALAEAILDFNSLEDLENWL 59 (59)
T ss_pred CCCCHHHHHHHHcCCHHHHHHHHHHHhCCCCHHHHHhhC
Confidence 467888888899999999999999999999999999987
No 85
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=43.69 E-value=1.1e+02 Score=23.74 Aligned_cols=60 Identities=17% Similarity=0.346 Sum_probs=48.7
Q ss_pred HHHHHHHHhhhhhhhHHHHHHHHhCCCcc--------hHHHHHHHHHcCCChHHHHHHHHHHHhhhhh
Q psy1645 51 VWSQLAKAQLQKGLVKESIDSFIKADDPS--------AYMDVVETSHATESWEDLVRYLQMARKKARE 110 (143)
Q Consensus 51 vWs~l~raqL~~~~V~eAI~sFIkA~dps--------~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke 110 (143)
.|-.+|.-....|....|+++|.++-+.. -+..+|..+-.-+.|..+..|+.-|+....+
T Consensus 38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~ 105 (177)
T PF10602_consen 38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEK 105 (177)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhc
Confidence 34456777777889999999999988754 4677888888899999999999999876543
No 86
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=42.26 E-value=99 Score=20.35 Aligned_cols=98 Identities=15% Similarity=0.148 Sum_probs=63.1
Q ss_pred hHHHHHHHHHHHhhCCCHHHHHHHHHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhCC--Cc------
Q psy1645 7 PATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKAD--DP------ 78 (143)
Q Consensus 7 ~~~~nalakIyi~~~~~~E~fl~~~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~--dp------ 78 (143)
+..+..+|..+...+++.++. ..+-..+.. +......+..+..+|+.....+....|++.|-++- +|
T Consensus 2 ~~~~~~~~~~~~~~~~~~~A~--~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~ 76 (119)
T TIGR02795 2 EEAYYDAALLVLKAGDYADAI--QAFQAFLKK---YPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAP 76 (119)
T ss_pred cHHHHHHHHHHHHcCCHHHHH--HHHHHHHHH---CCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCccc
Confidence 556778899999999998887 322222111 11112234567778888888787777777776432 22
Q ss_pred chHHHHHHHHHcCCChHHHHHHHHHHHhhhh
Q psy1645 79 SAYMDVVETSHATESWEDLVRYLQMARKKAR 109 (143)
Q Consensus 79 s~y~eVie~a~~~~~~e~Lv~yL~MaRk~~k 109 (143)
..+...-..-.+.|.+++-++++.-+.+.-.
T Consensus 77 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p 107 (119)
T TIGR02795 77 DALLKLGMSLQELGDKEKAKATLQQVIKRYP 107 (119)
T ss_pred HHHHHHHHHHHHhCChHHHHHHHHHHHHHCc
Confidence 2355555666678999999999887665533
No 87
>PF15151 RGCC: Response gene to complement 32 protein family
Probab=39.67 E-value=14 Score=28.13 Aligned_cols=18 Identities=28% Similarity=0.433 Sum_probs=15.2
Q ss_pred HHHHhcCChhhHHHHhcC
Q psy1645 119 YAYARTNRLADLEEFISG 136 (143)
Q Consensus 119 ~ayAk~~~l~ele~fl~~ 136 (143)
-+=||+|+-.|||+||+.
T Consensus 96 ~~KAKLGDTkeLedFIad 113 (121)
T PF15151_consen 96 PSKAKLGDTKELEDFIAD 113 (121)
T ss_pred CccccccCHHHHHHHHHH
Confidence 356899999999999963
No 88
>KOG1125|consensus
Probab=38.51 E-value=53 Score=31.13 Aligned_cols=67 Identities=19% Similarity=0.285 Sum_probs=43.1
Q ss_pred hHHHHHh--cchhHHHHHHHHhhhhhhhHHHHHHHHhCCCc-chHHH----HHHHHHcCCChHHHHHHH----HHHHh
Q psy1645 40 PFYVLRC--NEPGVWSQLAKAQLQKGLVKESIDSFIKADDP-SAYMD----VVETSHATESWEDLVRYL----QMARK 106 (143)
Q Consensus 40 arYa~k~--~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dp-s~y~e----Vie~a~~~~~~e~Lv~yL----~MaRk 106 (143)
-+.|.++ ++--+|.+||-..-...+-.|||.+|=+|-.- -.|+. +==.|-.-|.|++=++|| .|-||
T Consensus 453 f~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~k 530 (579)
T KOG1125|consen 453 FEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRK 530 (579)
T ss_pred HHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhc
Confidence 3455444 57789999999888888999999999877431 11211 111233357887766665 45565
No 89
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=38.50 E-value=2.6e+02 Score=24.06 Aligned_cols=117 Identities=15% Similarity=0.200 Sum_probs=69.5
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHHHHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhh---HHHHHHHHh--CCCcc
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLV---KESIDSFIK--ADDPS 79 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V---~eAI~sFIk--A~dps 79 (143)
++|.++-++|..++..|...++. ..|-+. ..+-.++.++-..++ +..+.. -..++.+.+ .+||.
T Consensus 261 ~~~~~~~~~A~~l~~~g~~~~A~--~~L~~~-------l~~~~~~~l~~l~~~--l~~~~~~~al~~~e~~lk~~P~~~~ 329 (398)
T PRK10747 261 HQVALQVAMAEHLIECDDHDTAQ--QIILDG-------LKRQYDERLVLLIPR--LKTNNPEQLEKVLRQQIKQHGDTPL 329 (398)
T ss_pred CCHHHHHHHHHHHHHCCCHHHHH--HHHHHH-------HhcCCCHHHHHHHhh--ccCCChHHHHHHHHHHHhhCCCCHH
Confidence 46788888999999999888887 333222 223334444333222 222222 233333443 35566
Q ss_pred hHHHHHHHHHcCCChHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCChhhHHH
Q psy1645 80 AYMDVVETSHATESWEDLVRYLQMARKKARESYIESELIYAYARTNRLADLEE 132 (143)
Q Consensus 80 ~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke~~idt~Li~ayAk~~~l~ele~ 132 (143)
-+.-+=..|.+.+.|+.=..|+.-+-+..-++..-..|.-++-+.|+.++-.+
T Consensus 330 l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~ 382 (398)
T PRK10747 330 LWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAA 382 (398)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence 66677778888888888888887665543333333467777777777665433
No 90
>smart00028 TPR Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.
Probab=38.18 E-value=48 Score=15.58 Aligned_cols=24 Identities=21% Similarity=0.272 Sum_probs=12.8
Q ss_pred hHHHHHHHHhhhhhhhHHHHHHHH
Q psy1645 50 GVWSQLAKAQLQKGLVKESIDSFI 73 (143)
Q Consensus 50 ~vWs~l~raqL~~~~V~eAI~sFI 73 (143)
..|..+|......+...+|+.+|-
T Consensus 2 ~~~~~~a~~~~~~~~~~~a~~~~~ 25 (34)
T smart00028 2 EALYNLGNAYLKLGDYDEALEYYE 25 (34)
T ss_pred hHHHHHHHHHHHHhhHHHHHHHHH
Confidence 345555555555555556665553
No 91
>KOG1127|consensus
Probab=37.32 E-value=1.1e+02 Score=31.36 Aligned_cols=117 Identities=18% Similarity=0.199 Sum_probs=74.5
Q ss_pred HHHHHHHHHHHhhCCCHHHHHHHH------HHHhcc-----ch---------------hHHHHHh--cchhHHHHHHHHh
Q psy1645 8 ATHNALAKIYIDSNNNPERFLKFF------LVDHLS-----KT---------------PFYVLRC--NEPGVWSQLAKAQ 59 (143)
Q Consensus 8 ~~~nalakIyi~~~~~~E~fl~~~------Li~~~~-----~n---------------arYa~k~--~~~~vWs~l~raq 59 (143)
.---++++-|..-++..++|-+.- ...... ++ .+=|.|. ++-..|.-+|.++
T Consensus 527 eaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY 606 (1238)
T KOG1127|consen 527 EAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAY 606 (1238)
T ss_pred hhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHH
Confidence 334567777888788888886630 111000 10 3344444 3567899999999
Q ss_pred hhhhhhHHHHHHHHhCC--Ccch-----HHHHHHHHHcCCChHHHHHHHHHHHhh-hhhhhHHHHHHHHHHhcCC
Q psy1645 60 LQKGLVKESIDSFIKAD--DPSA-----YMDVVETSHATESWEDLVRYLQMARKK-ARESYIESELIYAYARTNR 126 (143)
Q Consensus 60 L~~~~V~eAI~sFIkA~--dps~-----y~eVie~a~~~~~~e~Lv~yL~MaRk~-~ke~~idt~Li~ayAk~~~ 126 (143)
..-|+.+.|+++|=||. +|+. +..+++.+. |+|++.+.=|+|.=+. ..+--.-..|.-++-|.-+
T Consensus 607 ~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~--GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~ak 679 (1238)
T KOG1127|consen 607 PESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDN--GKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAK 679 (1238)
T ss_pred HhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHh--hhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence 99999999999997765 4543 455566555 9999999999986543 3444444444444444333
No 92
>PRK11861 bifunctional prephenate dehydrogenase/3-phosphoshikimate 1-carboxyvinyltransferase; Provisional
Probab=37.02 E-value=1.3e+02 Score=28.33 Aligned_cols=54 Identities=11% Similarity=0.276 Sum_probs=35.6
Q ss_pred hcchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhh
Q psy1645 46 CNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKK 107 (143)
Q Consensus 46 ~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~ 107 (143)
-.+|++|..+--.. .+-|.++|+.|++ ++.++.+.. +.++++.|.+++.-+|+.
T Consensus 161 ~~~p~lw~di~~~N--~~~i~~~l~~~~~-----~l~~~~~~l-~~~d~~~l~~~~~~~~~~ 214 (673)
T PRK11861 161 ASSPEMWRDVCLAN--RAALLDELDAYTA-----VLARLRAAI-DAGDGAALEAVFARSRAA 214 (673)
T ss_pred cCCHHHHHHHHHHC--HHHHHHHHHHHHH-----HHHHHHHHH-HhCCHHHHHHHHHHHHHH
Confidence 46899999874322 2346677777763 445555444 467788888888887754
No 93
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=36.94 E-value=1.7e+02 Score=21.67 Aligned_cols=61 Identities=5% Similarity=-0.010 Sum_probs=32.9
Q ss_pred HHHHHHHHHHhhCCCHHHHHHHH-HHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC
Q psy1645 9 THNALAKIYIDSNNNPERFLKFF-LVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA 75 (143)
Q Consensus 9 ~~nalakIyi~~~~~~E~fl~~~-Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA 75 (143)
.+..+|..|...++..+++-.+. .++.... ..+.+.+|-.+|......+...+|+..|-++
T Consensus 37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~------~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a 98 (172)
T PRK02603 37 VYYRDGMSAQADGEYAEALENYEEALKLEED------PNDRSYILYNMGIIYASNGEHDKALEYYHQA 98 (172)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhc------cchHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 45667777777777777662221 1111000 0012346666676666666677777766654
No 94
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=35.73 E-value=30 Score=19.69 Aligned_cols=18 Identities=22% Similarity=0.401 Sum_probs=14.7
Q ss_pred HHHHHHHHHhhCCCHHHH
Q psy1645 10 HNALAKIYIDSNNNPERF 27 (143)
Q Consensus 10 ~nalakIyi~~~~~~E~f 27 (143)
++.||.+|.+.+++.++-
T Consensus 2 l~~Lg~~~~~~g~~~~Ai 19 (36)
T PF13176_consen 2 LNNLGRIYRQQGDYEKAI 19 (36)
T ss_dssp HHHHHHHHHHCT-HHHHH
T ss_pred HHHHHHHHHHcCCHHHHH
Confidence 678999999999988775
No 95
>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus. Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.
Probab=35.28 E-value=2.3e+02 Score=22.63 Aligned_cols=72 Identities=15% Similarity=0.260 Sum_probs=46.8
Q ss_pred hhHHHHHHHHhCCCcchHHHH-HHHHHcCCChHHHHHHHHHHHhh-hhhhhHHHHHHHHHHhcCChhhHHHHhc
Q psy1645 64 LVKESIDSFIKADDPSAYMDV-VETSHATESWEDLVRYLQMARKK-ARESYIESELIYAYARTNRLADLEEFIS 135 (143)
Q Consensus 64 ~V~eAI~sFIkA~dps~y~eV-ie~a~~~~~~e~Lv~yL~MaRk~-~ke~~idt~Li~ayAk~~~l~ele~fl~ 135 (143)
-++.-|.+|++.+--|+|.++ ++.....|+-+.|=+-++---|. --.|.+=--+..||.|+|...+=.+.+.
T Consensus 71 NlKrVi~C~~~~n~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~ 144 (161)
T PF09205_consen 71 NLKRVIECYAKRNKLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLK 144 (161)
T ss_dssp -THHHHHHHHHTT---HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred chHHHHHHHHHhcchHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHH
Confidence 448889999999999999886 67788889988887766643322 1244455556779999999888777663
No 96
>KOG3617|consensus
Probab=35.04 E-value=1.5e+02 Score=30.21 Aligned_cols=87 Identities=16% Similarity=0.272 Sum_probs=69.7
Q ss_pred HHhhCCCHHHHHHHH--------------HHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHH
Q psy1645 17 YIDSNNNPERFLKFF--------------LVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYM 82 (143)
Q Consensus 17 yi~~~~~~E~fl~~~--------------Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~ 82 (143)
|+.|--.-++-|-+| ....+.++++-|.+-.+..-=--|+|-+=.+|.|-+||.=|-||. .|.
T Consensus 921 YlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR~YEn~g~v~~Av~FfTrAq---afs 997 (1416)
T KOG3617|consen 921 YLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESGDKAACYHLARMYENDGDVVKAVKFFTRAQ---AFS 997 (1416)
T ss_pred HHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcccHHHHHHHHHHhhhhHHHHHHHHHHHHHH---HHH
Confidence 555555555555554 333455789999999988887778999999999999999999985 577
Q ss_pred HHHHHHHcCCChHHHHHHHHHHHh
Q psy1645 83 DVVETSHATESWEDLVRYLQMARK 106 (143)
Q Consensus 83 eVie~a~~~~~~e~Lv~yL~MaRk 106 (143)
.-|..|++.+.-+.|+..-.|+|.
T Consensus 998 nAIRlcKEnd~~d~L~nlal~s~~ 1021 (1416)
T KOG3617|consen 998 NAIRLCKENDMKDRLANLALMSGG 1021 (1416)
T ss_pred HHHHHHHhcCHHHHHHHHHhhcCc
Confidence 788899999999999999999874
No 97
>PF04988 AKAP95: A-kinase anchoring protein 95 (AKAP95); InterPro: IPR007071 A-kinase (or PKA)-anchoring protein AKAP95 is implicated in mitotic chromosome condensation by acting as a targeting molecule for the condensin complex. The protein contains two zinc fingers which are thought to mediate the binding of AKAP95 to DNA [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=33.37 E-value=1.1e+02 Score=24.65 Aligned_cols=38 Identities=13% Similarity=0.385 Sum_probs=33.0
Q ss_pred hHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcc
Q psy1645 40 PFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPS 79 (143)
Q Consensus 40 arYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps 79 (143)
..|.++.....| -+++.=|.+..|+.=.++|||.+||=
T Consensus 122 r~~~eq~Kr~sl--~vA~Silnnk~Ik~~le~ylKGenPF 159 (165)
T PF04988_consen 122 RAMMEQSKRSSL--SVARSILNNKHIKKRLEKYLKGENPF 159 (165)
T ss_pred HHHHHHHHHHHH--HHHHHHhcChhHHHHHHHHhcCCCCC
Confidence 568888888877 78888898889999999999999983
No 98
>PF06530 Phage_antitermQ: Phage antitermination protein Q; InterPro: IPR010534 This entry is represented by Bacteriophage 933W, GpQ. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage antitermination protein Q and related bacterial sequences. Phage 993W gene Q encodes a phage-specific positive regulator of late gene expression, thought, by analogy to the corresponding gene of phage lambda, to be a transcription antiterminator. GpQ positively regulates expression of the phage late gene operons. Bacterial host RNA polymerase modified by antitermination proteins transcribes through termination sites that otherwise prevent expression of the regulated genes [, ].; GO: 0003677 DNA binding, 0060567 negative regulation of transcription termination, DNA-dependent
Probab=33.23 E-value=1.8e+02 Score=21.40 Aligned_cols=59 Identities=22% Similarity=0.249 Sum_probs=40.1
Q ss_pred hhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhh------hhhhHHHHHHHHHHh
Q psy1645 64 LVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKKA------RESYIESELIYAYAR 123 (143)
Q Consensus 64 ~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~------ke~~idt~Li~ayAk 123 (143)
.|..+|....+ .+|..|.=|+..=-..=....+-+++.+.+.+. -|.+||+.|...=.|
T Consensus 52 ~Id~~v~~L~~-~~~~~~~ll~~~Yv~g~s~r~IA~~~~~s~~~ir~~l~~ae~~i~g~l~~~~~~ 116 (125)
T PF06530_consen 52 LIDRCVARLKK-RDPEEYDLLILYYVYGWSKRQIARKLKCSEGKIRKRLQRAEGFIDGCLSMLTIR 116 (125)
T ss_pred HHHHHHHHHHc-cCHHHHHHHHHHHHcCCCHHHHHHHHCCCHHHHHHHHHHhhhhHhhhhHHhhhH
Confidence 67888888765 999998866665444445566677776655433 378888887665444
No 99
>PF10711 DUF2513: Hypothetical protein (DUF2513); InterPro: IPR019650 The function of this family is not known.
Probab=33.21 E-value=31 Score=24.63 Aligned_cols=23 Identities=9% Similarity=0.108 Sum_probs=19.4
Q ss_pred HhccchhHHHHHhcchhHHHHHH
Q psy1645 34 DHLSKTPFYVLRCNEPGVWSQLA 56 (143)
Q Consensus 34 ~~~~~narYa~k~~~~~vWs~l~ 56 (143)
+.|-++.+|+....+|.+|++.-
T Consensus 68 ~LT~~GHdFLd~IRd~~vW~k~K 90 (102)
T PF10711_consen 68 RLTWSGHDFLDAIRDDTVWNKTK 90 (102)
T ss_pred ccChhHHHHHHHhcCchHHHHHH
Confidence 44557799999999999999874
No 100
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=31.41 E-value=38 Score=19.35 Aligned_cols=23 Identities=30% Similarity=0.463 Sum_probs=18.8
Q ss_pred cchhHHHHHHHHhhhhhhhHHHH
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESI 69 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI 69 (143)
+.++.|..+|......|...+|+
T Consensus 11 ~n~~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 11 NNAEAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred CCHHHHHHHHHHHHHCcCHHhhc
Confidence 56788999999888888877775
No 101
>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding
Probab=31.33 E-value=1.1e+02 Score=24.69 Aligned_cols=47 Identities=19% Similarity=0.368 Sum_probs=33.7
Q ss_pred cCCChHHHHHHHHHHHhhhhhhhHH-----HHHHH-HHHhcCChhhHHHHhcC
Q psy1645 90 ATESWEDLVRYLQMARKKARESYIE-----SELIY-AYARTNRLADLEEFISG 136 (143)
Q Consensus 90 ~~~~~e~Lv~yL~MaRk~~ke~~id-----t~Li~-ayAk~~~l~ele~fl~~ 136 (143)
+.|++++..+++..+|+..-++..- ..-.| ...++-.|.|||||+.-
T Consensus 41 ~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~~lq~L~Elee~~~~ 93 (352)
T PF02259_consen 41 RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLVKLQQLVELEEIIEL 93 (352)
T ss_pred hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhHHHHHHHHHHH
Confidence 7899999999999999876544432 22222 45677788999999864
No 102
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=30.75 E-value=2.9e+02 Score=22.33 Aligned_cols=80 Identities=15% Similarity=0.154 Sum_probs=49.7
Q ss_pred HHHHhhhhhhhHHHHHHHHhC-----CCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhh-hhhHH--H--HHHHHHHhc
Q psy1645 55 LAKAQLQKGLVKESIDSFIKA-----DDPSAYMDVVETSHATESWEDLVRYLQMARKKAR-ESYIE--S--ELIYAYART 124 (143)
Q Consensus 55 l~raqL~~~~V~eAI~sFIkA-----~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~k-e~~id--t--~Li~ayAk~ 124 (143)
++...+..|...+|+..|-++ +++..+..+-....+.|.+++-+.+++.+.+... .|... . .+..+|...
T Consensus 120 ~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~ 199 (355)
T cd05804 120 LAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLER 199 (355)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHC
Confidence 344455555666666666553 4455666677777778888888888887665432 22221 1 366677788
Q ss_pred CChhhHHHHh
Q psy1645 125 NRLADLEEFI 134 (143)
Q Consensus 125 ~~l~ele~fl 134 (143)
|+.++-...+
T Consensus 200 G~~~~A~~~~ 209 (355)
T cd05804 200 GDYEAALAIY 209 (355)
T ss_pred CCHHHHHHHH
Confidence 8877654444
No 103
>KOG2076|consensus
Probab=30.12 E-value=1.4e+02 Score=29.90 Aligned_cols=64 Identities=19% Similarity=0.227 Sum_probs=50.9
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHHHHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhC
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKA 75 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA 75 (143)
-+++++--+|+-|++.+++-++- +++...+++ ...+...||-++|+=...-+.-.+|+.+|=|+
T Consensus 412 d~~dL~~d~a~al~~~~~~~~Al--~~l~~i~~~-----~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kv 475 (895)
T KOG2076|consen 412 DDVDLYLDLADALTNIGKYKEAL--RLLSPITNR-----EGYQNAFVWYKLARCYMELGEYEEAIEFYEKV 475 (895)
T ss_pred hhHHHHHHHHHHHHhcccHHHHH--HHHHHHhcC-----ccccchhhhHHHHHHHHHHhhHHHHHHHHHHH
Confidence 45788999999999999999988 888888885 22233789999998888777778888887553
No 104
>KOG3233|consensus
Probab=29.19 E-value=62 Score=28.25 Aligned_cols=63 Identities=16% Similarity=0.300 Sum_probs=42.4
Q ss_pred HHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCChhhHHHHhcCcCCCCCC
Q psy1645 72 FIKADDPSAYMDVVETSHATESWEDLVRYLQMARKKARESYIESELIYAYARTNRLADLEEFISGEGFFEIL 143 (143)
Q Consensus 72 FIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke~~idt~Li~ayAk~~~l~ele~fl~~~N~a~~~ 143 (143)
|-..+.-.++++++-+ -+++||++-|+..++..- +-.++=+.---+..|+-+||...|..++.
T Consensus 161 ytDqdlDvEfIe~L~~--------~c~~fl~~~~~~~~~~~~-gp~~~~~~~~~t~~ei~~~i~~l~I~nV~ 223 (297)
T KOG3233|consen 161 YTDQDLDVEFIEVLKQ--------ICVRFLESKRFPAEKNVE-GPMFVRNESYPTVQEIKEFIRNLNILNVE 223 (297)
T ss_pred cccccccHHHHHHHHH--------HHHHHHHhcccchhhccc-cchhhhhccCCCHHHHHHHHHHcCccccc
Confidence 3334444556665543 379999999987764433 33333256777889999999999988763
No 105
>PF04762 IKI3: IKI3 family; InterPro: IPR006849 Members of this family are components of the elongator multi-subunit component of a novel RNA polymerase II holoenzyme for transcriptional elongation [].
Probab=28.74 E-value=3e+02 Score=27.31 Aligned_cols=94 Identities=17% Similarity=0.325 Sum_probs=54.8
Q ss_pred CHHHHHHHH--HHHhccch---hHHHHHhcchhHHHHHHHHhh----------------h---hhhhHHHHHHHHh-CCC
Q psy1645 23 NPERFLKFF--LVDHLSKT---PFYVLRCNEPGVWSQLAKAQL----------------Q---KGLVKESIDSFIK-ADD 77 (143)
Q Consensus 23 ~~E~fl~~~--Li~~~~~n---arYa~k~~~~~vWs~l~raqL----------------~---~~~V~eAI~sFIk-A~d 77 (143)
+|+.|+.+. .|+-+++. -.|+-...+.+|+....+..+ . -..|++||...|. ..+
T Consensus 731 ~p~~Fl~ni~~Fv~qi~~~~~lnLFls~L~~EDvt~tmY~~~~~~~~~~~~~~~~~~~~~~~KVn~ICdair~~l~~~~~ 810 (928)
T PF04762_consen 731 NPEQFLENIELFVEQIKDVDYLNLFLSSLRNEDVTKTMYKDTYPPSSEAQPNSNSSTASSESKVNKICDAIRKALEKPKD 810 (928)
T ss_pred CHHHHHHHHHHHHHhcCCHHHHHHHHHhcccccccccccccccccccccccccccCCCccccHHHHHHHHHHHHhccccc
Confidence 677776663 44444442 346666666666665544444 0 1367999999996 777
Q ss_pred cchHHHHHHHHHc---CCChHHHHHHHHHHHhhhhhhhHHHHH
Q psy1645 78 PSAYMDVVETSHA---TESWEDLVRYLQMARKKARESYIESEL 117 (143)
Q Consensus 78 ps~y~eVie~a~~---~~~~e~Lv~yL~MaRk~~ke~~idt~L 117 (143)
+..|..-|=.|.- -.+.|+-++.+.--|++ ..+..|.+|
T Consensus 811 ~~~~l~~IlTa~vkk~Pp~le~aL~~I~~l~~~-~~~~ae~al 852 (928)
T PF04762_consen 811 KDKYLQPILTAYVKKSPPDLEEALQLIKELREE-DPESAEEAL 852 (928)
T ss_pred chhhHHHHHHHHHhcCchhHHHHHHHHHHHHhc-ChHHHHHHH
Confidence 7777666655543 23667766666655544 344444443
No 106
>KOG1070|consensus
Probab=27.91 E-value=2.3e+02 Score=30.28 Aligned_cols=70 Identities=23% Similarity=0.317 Sum_probs=42.7
Q ss_pred cchHHHHHHHHHHHhhCCCHHHHHHHHHHHhccchhHHHHHh-cchhHHHHHHHHhhh-------hhhhHHHHHHHHhCC
Q psy1645 5 TEPATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRC-NEPGVWSQLAKAQLQ-------KGLVKESIDSFIKAD 76 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~~~~E~fl~~~Li~~~~~narYa~k~-~~~~vWs~l~raqL~-------~~~V~eAI~sFIkA~ 76 (143)
.---+|-+|.+||..++++-++= ++| + +++.+- +++.+|-+.+..-|. ..++..|.+|-=|
T Consensus 1528 d~~~V~~~L~~iy~k~ek~~~A~--ell-~------~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk-- 1596 (1710)
T KOG1070|consen 1528 DAYTVHLKLLGIYEKSEKNDEAD--ELL-R------LMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPK-- 1596 (1710)
T ss_pred chHHHHHHHHHHHHHhhcchhHH--HHH-H------HHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcch--
Confidence 34568999999999999988875 221 1 233332 588888887644443 2345666655433
Q ss_pred CcchHHHHHHH
Q psy1645 77 DPSAYMDVVET 87 (143)
Q Consensus 77 dps~y~eVie~ 87 (143)
++..++|.+
T Consensus 1597 --~eHv~~Isk 1605 (1710)
T KOG1070|consen 1597 --QEHVEFISK 1605 (1710)
T ss_pred --hhhHHHHHH
Confidence 344444444
No 107
>KOG0292|consensus
Probab=27.21 E-value=53 Score=33.17 Aligned_cols=36 Identities=14% Similarity=0.274 Sum_probs=28.5
Q ss_pred hhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHh
Q psy1645 39 TPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIK 74 (143)
Q Consensus 39 narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIk 74 (143)
+.++|-+.+++++|..||...|..|....|=.+|=+
T Consensus 662 ale~akkldd~d~w~rLge~Al~qgn~~IaEm~yQ~ 697 (1202)
T KOG0292|consen 662 ALEAAKKLDDKDVWERLGEEALRQGNHQIAEMCYQR 697 (1202)
T ss_pred HHHHHHhcCcHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence 588999999999999999988887766555445433
No 108
>PF14966 DNA_repr_REX1B: DNA repair REX1-B
Probab=26.98 E-value=2.4e+02 Score=20.23 Aligned_cols=28 Identities=11% Similarity=0.300 Sum_probs=22.0
Q ss_pred hhhHHHHHHHHhCCCcchHHHHHHHHHc
Q psy1645 63 GLVKESIDSFIKADDPSAYMDVVETSHA 90 (143)
Q Consensus 63 ~~V~eAI~sFIkA~dps~y~eVie~a~~ 90 (143)
....++.+.|++.+++..|..++..+..
T Consensus 20 ~~~~~gf~~yl~~~~~~~y~~~~~~iT~ 47 (97)
T PF14966_consen 20 NRFEEGFKKYLRSGPEEAYRQLCHEITQ 47 (97)
T ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHH
Confidence 4568899999999999888887766553
No 109
>KOG1840|consensus
Probab=26.86 E-value=2.1e+02 Score=26.59 Aligned_cols=59 Identities=17% Similarity=0.210 Sum_probs=50.0
Q ss_pred CcchHHHHHHHHHcCCChHHHHHHHHHHHhhh---------hhhhHHHHHHHHHHhcCChhhHHHHhc
Q psy1645 77 DPSAYMDVVETSHATESWEDLVRYLQMARKKA---------RESYIESELIYAYARTNRLADLEEFIS 135 (143)
Q Consensus 77 dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~---------ke~~idt~Li~ayAk~~~l~ele~fl~ 135 (143)
-++.+.++...+...|.||+=++||+-+.+.. -.+.|-+.|.=.|=+.||..|=|++..
T Consensus 324 v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k 391 (508)
T KOG1840|consen 324 VAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYK 391 (508)
T ss_pred HHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHH
Confidence 35678888899999999999999999988753 356788899999999999999988753
No 110
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=26.64 E-value=1e+02 Score=15.85 Aligned_cols=24 Identities=8% Similarity=0.188 Sum_probs=11.7
Q ss_pred HHHHHHHHHcCCChHHHHHHHHHH
Q psy1645 81 YMDVVETSHATESWEDLVRYLQMA 104 (143)
Q Consensus 81 y~eVie~a~~~~~~e~Lv~yL~Ma 104 (143)
|..+|....+.|.+++-++.+..-
T Consensus 3 ~n~li~~~~~~~~~~~a~~~~~~M 26 (35)
T TIGR00756 3 YNTLIDGLCKAGRVEEALELFKEM 26 (35)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHH
Confidence 334455555555555555544433
No 111
>KOG2280|consensus
Probab=25.99 E-value=1.2e+02 Score=29.94 Aligned_cols=63 Identities=19% Similarity=0.194 Sum_probs=50.0
Q ss_pred chhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHH
Q psy1645 38 KTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQM 103 (143)
Q Consensus 38 ~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~M 103 (143)
++.+|.-||.+.. ...++.+.-+.+.+|++.=.+.+|-+.+.+|..++.-.+.=-...+-..|
T Consensus 762 EA~KYiprv~~l~---ekv~ay~~~~~~~eAad~A~~~rd~~~L~ev~~~~~~~~~~~~~~~~~~~ 824 (829)
T KOG2280|consen 762 EAKKYIPRVGGLQ---EKVKAYLRVGDVKEAADLAAEHRDGAELSEVLSKCTGAPDGATALKIQDQ 824 (829)
T ss_pred HHhhhhhccCChH---HHHHHHHHhccHHHHHHHHHHhcChHHHHHHHHhcCCCCccchhhhhHhh
Confidence 4688999999886 46678888889999999999999999999999999875544333433333
No 112
>PF08385 DHC_N1: Dynein heavy chain, N-terminal region 1; InterPro: IPR013594 Dynein heavy chains interact with other heavy chains to form dimers, and with intermediate chain-light chain complexes to form a basal cargo binding unit []. The region featured in this family includes the sequences implicated in mediating these interactions []. It is thought to be flexible and not to adopt a rigid conformation [].
Probab=25.44 E-value=1.8e+02 Score=25.81 Aligned_cols=48 Identities=21% Similarity=0.241 Sum_probs=31.0
Q ss_pred cchHHHHHHHHHHHhhC--CCHHHHHHHHHHHhccch--hHHHHHhcchhHHHH
Q psy1645 5 TEPATHNALAKIYIDSN--NNPERFLKFFLVDHLSKT--PFYVLRCNEPGVWSQ 54 (143)
Q Consensus 5 ~~~~~~nalakIyi~~~--~~~E~fl~~~Li~~~~~n--arYa~k~~~~~vWs~ 54 (143)
.-|.+++++-+|+..|. +.++.+ ..|++.++.- .+-....+..++|+.
T Consensus 123 ~i~~l~~~l~~iw~~S~~y~~~~R~--~~Ll~~isn~ii~~~~~~l~~~~l~~~ 174 (579)
T PF08385_consen 123 SIPPLFHHLRLIWRISRYYYPPERM--TSLLEKISNQIIQKCQKYLDPSDLFSG 174 (579)
T ss_pred HHHHHHHHHHHHHHhCCCCCchhHH--HHHHHHHHHHHHHHHHHHhCchhhhcC
Confidence 34678889999999998 888888 5555554431 222223355567775
No 113
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=25.38 E-value=3.7e+02 Score=21.86 Aligned_cols=120 Identities=12% Similarity=0.070 Sum_probs=66.9
Q ss_pred hHHHHHHHHHHHhhCCCHHHH---HHHH-HHHhcc---chhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcc
Q psy1645 7 PATHNALAKIYIDSNNNPERF---LKFF-LVDHLS---KTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPS 79 (143)
Q Consensus 7 ~~~~nalakIyi~~~~~~E~f---l~~~-Li~~~~---~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps 79 (143)
..+|+.+|+.|-..++++++- .+-- +-..++ .+++..+. -..++.+. .-+-.......|++-|++.++|+
T Consensus 35 a~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~--Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~ 111 (282)
T PF14938_consen 35 ADLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEE--AANCYKKG-DPDEAIECYEKAIEIYREAGRFS 111 (282)
T ss_dssp HHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHH--HHHHHHHT-THHHHHHHHHHHHHHHHHCT-HH
T ss_pred HHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHH--HHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHH
Confidence 367999999999999988554 2221 111111 11221111 11122222 11111234588999999999998
Q ss_pred hHHHHHHH----HHcC-CChHHHHHHHHHHHhh-------hhhhhHHHHHHHHHHhcCChhh
Q psy1645 80 AYMDVVET----SHAT-ESWEDLVRYLQMARKK-------ARESYIESELIYAYARTNRLAD 129 (143)
Q Consensus 80 ~y~eVie~----a~~~-~~~e~Lv~yL~MaRk~-------~ke~~idt~Li~ayAk~~~l~e 129 (143)
.-..+... .+.. |.++.=+.+.+.|-.. ..-..+-..+.-.|+++|+..+
T Consensus 112 ~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~ 173 (282)
T PF14938_consen 112 QAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEE 173 (282)
T ss_dssp HHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHH
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHH
Confidence 76665554 4446 7999999888887743 2334455567777889998754
No 114
>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding
Probab=24.97 E-value=1.4e+02 Score=24.02 Aligned_cols=64 Identities=9% Similarity=0.222 Sum_probs=42.0
Q ss_pred HHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhhhh-hHHHHHHHHHHhc----CC----hhhHHHHhc
Q psy1645 72 FIKADDPSAYMDVVETSHATESWEDLVRYLQMARKKARES-YIESELIYAYART----NR----LADLEEFIS 135 (143)
Q Consensus 72 FIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke~-~idt~Li~ayAk~----~~----l~ele~fl~ 135 (143)
.+..++...+......|.++|.|+--..+|.-+.+....+ ..+....+.+||+ |+ +..|++++.
T Consensus 140 ~~~~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~ 212 (352)
T PF02259_consen 140 LLPEELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK 212 (352)
T ss_pred cchhHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 4555677788899999999999998888888777643211 1255555555552 22 445666665
No 115
>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.
Probab=24.66 E-value=4.2e+02 Score=22.21 Aligned_cols=60 Identities=23% Similarity=0.322 Sum_probs=42.3
Q ss_pred chhHHHHHHHHhhhhhhhHHHHHHHHh-----CCCcchHHHHHHHHHcCCCh-HHHHHHHHHHHhh
Q psy1645 48 EPGVWSQLAKAQLQKGLVKESIDSFIK-----ADDPSAYMDVVETSHATESW-EDLVRYLQMARKK 107 (143)
Q Consensus 48 ~~~vWs~l~raqL~~~~V~eAI~sFIk-----A~dps~y~eVie~a~~~~~~-e~Lv~yL~MaRk~ 107 (143)
.|.+..-.+-.++.-+...+|.+..-. .+||..+..+|-.+...|+. +..-+|+.+.++.
T Consensus 200 t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~ 265 (290)
T PF04733_consen 200 TPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS 265 (290)
T ss_dssp SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence 455555566677777777777766654 57788888888888889988 6778899886654
No 116
>PRK05414 urocanate hydratase; Provisional
Probab=24.60 E-value=92 Score=29.42 Aligned_cols=34 Identities=24% Similarity=0.353 Sum_probs=25.5
Q ss_pred CCCcchHHHHHHHHHc-CCChHHHHHHHHHHHhhh
Q psy1645 75 ADDPSAYMDVVETSHA-TESWEDLVRYLQMARKKA 108 (143)
Q Consensus 75 A~dps~y~eVie~a~~-~~~~e~Lv~yL~MaRk~~ 108 (143)
++||+++..-=+++.+ -..+++|++|+.|||+..
T Consensus 367 SGdpeDi~~TD~~~~e~~~~~~~~~~WI~~A~e~~ 401 (556)
T PRK05414 367 SGDPEDIYKTDAAVKELFPDDEHLHRWIDMARERI 401 (556)
T ss_pred CCCHHHHHHHHHHHHHhcccchHHHHHHHHHHhcC
Confidence 6788877655554444 458899999999999874
No 117
>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.
Probab=24.30 E-value=2e+02 Score=20.85 Aligned_cols=36 Identities=14% Similarity=0.256 Sum_probs=18.4
Q ss_pred HHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHH
Q psy1645 67 ESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQ 102 (143)
Q Consensus 67 eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~ 102 (143)
..+.+|++-.+-=...+|-+.-.+.|+|.+|+-+-+
T Consensus 15 ~~l~~llr~~N~C~~~~~e~~L~~~~~~~eL~~lY~ 50 (108)
T PF10366_consen 15 SLLGPLLRLPNYCDLEEVEEVLKEHGKYQELVDLYQ 50 (108)
T ss_pred HHHHHHHccCCcCCHHHHHHHHHHcCCHHHHHHHHH
Confidence 344555555554444444445555555555554443
No 118
>KOG0624|consensus
Probab=24.21 E-value=1.4e+02 Score=27.53 Aligned_cols=54 Identities=24% Similarity=0.457 Sum_probs=40.7
Q ss_pred HHHHHhhhhhhhHHHHHHHHhC--CCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhhhhhHHHH
Q psy1645 54 QLAKAQLQKGLVKESIDSFIKA--DDPSAYMDVVETSHATESWEDLVRYLQMARKKARESYIESE 116 (143)
Q Consensus 54 ~l~raqL~~~~V~eAI~sFIkA--~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke~~idt~ 116 (143)
.+|++-|..+..++|+.-|=.| .||.+|+.+-..+. -||-|.|.+.--+..++-
T Consensus 43 ElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT---------~yLAmGksk~al~Dl~rV 98 (504)
T KOG0624|consen 43 ELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRAT---------VYLAMGKSKAALQDLSRV 98 (504)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHH---------HHhhhcCCccchhhHHHH
Confidence 3688888888888888888776 79999999887776 588888866544444443
No 119
>PF04858 TH1: TH1 protein; InterPro: IPR006942 TH1 is a highly conserved but uncharacterised metazoan protein. No homologue has been identified in Caenorhabditis elegans []. TH1 binds specifically to A-Raf kinase [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=23.62 E-value=4.1e+02 Score=25.15 Aligned_cols=74 Identities=24% Similarity=0.416 Sum_probs=48.1
Q ss_pred chHHHHHHHHHHHhhCCCHHHHHHHHHHHhccchhH-HHHHhcchhHHHHHHH--HhhhhhhhHHHHHHHHhCC-CcchH
Q psy1645 6 EPATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPF-YVLRCNEPGVWSQLAK--AQLQKGLVKESIDSFIKAD-DPSAY 81 (143)
Q Consensus 6 ~~~~~nalakIyi~~~~~~E~fl~~~Li~~~~~nar-Ya~k~~~~~vWs~l~r--aqL~~~~V~eAI~sFIkA~-dps~y 81 (143)
+|+++..+ |=|+..+.+|+.. |+.+++|++ ||+-|+--.-|=.... ..=..+.+..+++.+|+.. ||.-.
T Consensus 53 ep~i~~~i-~~y~~~gG~p~~v-----v~~Ls~~Y~g~aq~~~ll~~WL~~~~~~~~~v~~~~~~~lk~~i~~~FD~~k~ 126 (584)
T PF04858_consen 53 EPSIFDTI-KRYFRAGGDPEEV-----VELLSENYRGYAQMCNLLAEWLIDLGVSPEDVQEIVESHLKELIKKRFDPKKA 126 (584)
T ss_pred CchHHHHH-HHHHHCCCCHHHH-----HHHHHHhcccHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHhcChHHH
Confidence 67888864 5799999999886 677777766 9999999999987532 1111234455555555443 44444
Q ss_pred HHHH
Q psy1645 82 MDVV 85 (143)
Q Consensus 82 ~eVi 85 (143)
..+.
T Consensus 127 D~if 130 (584)
T PF04858_consen 127 DTIF 130 (584)
T ss_pred HHHH
Confidence 4444
No 120
>PF13934 ELYS: Nuclear pore complex assembly
Probab=22.93 E-value=4.1e+02 Score=21.49 Aligned_cols=74 Identities=9% Similarity=0.117 Sum_probs=54.8
Q ss_pred hhHHHHHhcchhHHHHHHHH--hhhhhhhHHHHHHHHhCCCcchHH-HHHHHHHcCCChHHHHHHHHHHHhhhhhhh
Q psy1645 39 TPFYVLRCNEPGVWSQLAKA--QLQKGLVKESIDSFIKADDPSAYM-DVVETSHATESWEDLVRYLQMARKKARESY 112 (143)
Q Consensus 39 narYa~k~~~~~vWs~l~ra--qL~~~~V~eAI~sFIkA~dps~y~-eVie~a~~~~~~e~Lv~yL~MaRk~~ke~~ 112 (143)
..+||..+.-|.=+-+.-+. -|+.+...+||+-+-...-+..+. +++..--..|+.....+|++.++-....+.
T Consensus 66 ~~~Fa~~f~ip~~~~~~~~g~W~LD~~~~~~A~~~L~~ps~~~~~~~~Il~~L~~~~~~~lAL~y~~~~~p~l~s~~ 142 (226)
T PF13934_consen 66 AESFARAFGIPPKYIKFIQGFWLLDHGDFEEALELLSHPSLIPWFPDKILQALLRRGDPKLALRYLRAVGPPLSSPE 142 (226)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHhChHhHHHHHHHhCCCCCCcccHHHHHHHHHHCCChhHHHHHHHhcCCCCCCHH
Confidence 36788888888655554333 678888899999987776655555 788888888999999999987665555443
No 121
>PF11140 DUF2913: Protein of unknown function (DUF2913); InterPro: IPR021316 This family of proteins with unknown function appear to be restricted to Gammaproteobacteria.
Probab=22.64 E-value=1.7e+02 Score=23.54 Aligned_cols=55 Identities=24% Similarity=0.435 Sum_probs=37.2
Q ss_pred HHHHHHHHHcCCCh-----HHHHHHHHHHHhhhhhhhHHHHHHH---HH-----HhcCChhhHHHHhc
Q psy1645 81 YMDVVETSHATESW-----EDLVRYLQMARKKARESYIESELIY---AY-----ARTNRLADLEEFIS 135 (143)
Q Consensus 81 y~eVie~a~~~~~~-----e~Lv~yL~MaRk~~ke~~idt~Li~---ay-----Ak~~~l~ele~fl~ 135 (143)
+..=+..|-+...| .||..+++++|++.....+..-|.+ .| .+...+.+++.|+.
T Consensus 37 L~~WL~~alK~krF~k~v~~dlk~ll~~gRs~g~~a~L~~~L~~i~~~~~~~~~~~~~~~~~l~~~l~ 104 (207)
T PF11140_consen 37 LVRWLKPALKQKRFSKLVKKDLKWLLQQGRSKGKNADLEQKLEYIWRLYSSGELSKQSDLFRLTAFLE 104 (207)
T ss_pred HHHHHHHHHcCcccchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHhcccccccCCHHHHHHHHH
Confidence 34455666666777 6888899999988777777777765 55 23444566666664
No 122
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=22.40 E-value=3.9e+02 Score=23.84 Aligned_cols=86 Identities=13% Similarity=0.159 Sum_probs=50.1
Q ss_pred CCcchHHHHHHHHHHHhhCCCHHHHHHHH---HHHhccch-------hHHHHHhcchhHHHHHHHHhhhh-----hhhHH
Q psy1645 3 ACTEPATHNALAKIYIDSNNNPERFLKFF---LVDHLSKT-------PFYVLRCNEPGVWSQLAKAQLQK-----GLVKE 67 (143)
Q Consensus 3 ~~~~~~~~nalakIyi~~~~~~E~fl~~~---Li~~~~~n-------arYa~k~~~~~vWs~l~raqL~~-----~~V~e 67 (143)
..++|.+.--+|++|+..|+..++. .. .+...+.. ++|+.+.++.++=-+++++...- .--.-
T Consensus 196 ~~~~pev~~~LA~v~l~~~~E~~AI--~ll~~aL~~~p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~f~~W~~ 273 (395)
T PF09295_consen 196 RERDPEVAVLLARVYLLMNEEVEAI--RLLNEALKENPQDSELLNLQAEFLLSKKKYELALEIAKKAVELSPSEFETWYQ 273 (395)
T ss_pred HhcCCcHHHHHHHHHHhcCcHHHHH--HHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhHHHHHH
Confidence 3567888888999999988766654 32 22222211 77888777774422333322210 01144
Q ss_pred HHHHHHhCCCcchHHHHHHHHHc
Q psy1645 68 SIDSFIKADDPSAYMDVVETSHA 90 (143)
Q Consensus 68 AI~sFIkA~dps~y~eVie~a~~ 90 (143)
-.++||+.+|..+=.-.++.|=.
T Consensus 274 La~~Yi~~~d~e~ALlaLNs~Pm 296 (395)
T PF09295_consen 274 LAECYIQLGDFENALLALNSCPM 296 (395)
T ss_pred HHHHHHhcCCHHHHHHHHhcCcC
Confidence 55678888776666666665554
No 123
>PRK06545 prephenate dehydrogenase; Validated
Probab=21.85 E-value=4.3e+02 Score=22.55 Aligned_cols=53 Identities=11% Similarity=0.381 Sum_probs=36.0
Q ss_pred cchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhh
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKK 107 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~ 107 (143)
.+|++|...-.. +.+.+.+.++.|++ ++.++.+..+. ++.+.|.+|+.-+|+.
T Consensus 223 ~~p~~w~di~~~--N~~~~~~~l~~~~~-----~l~~~~~~l~~-~d~~~l~~~~~~~~~~ 275 (359)
T PRK06545 223 SDPGMWRDILES--NAEALLDALDEWIE-----DLDRARDALES-GDAEAIAELFDAGKAG 275 (359)
T ss_pred CCHHHHHHHHHH--hHHHHHHHHHHHHH-----HHHHHHHHHHc-CCHHHHHHHHHHHHHH
Confidence 799999886432 23456777777773 45566666554 5677888998887743
No 124
>PF12816 Vps8: Golgi CORVET complex core vacuolar protein 8
Probab=21.63 E-value=1.2e+02 Score=24.26 Aligned_cols=45 Identities=24% Similarity=0.276 Sum_probs=34.4
Q ss_pred hHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCChhhHHHHhcCcC
Q psy1645 94 WEDLVRYLQMARKKARESYIESELIYAYARTNRLADLEEFISGEG 138 (143)
Q Consensus 94 ~e~Lv~yL~MaRk~~ke~~idt~Li~ayAk~~~l~ele~fl~~~N 138 (143)
+|-|-+|....|=+.=-|.|=.++|--|++.|+++.+|++|-.=+
T Consensus 5 le~Lep~Il~~~i~~lpp~v~k~lv~~y~~~~~~~~lE~lI~~LD 49 (196)
T PF12816_consen 5 LECLEPFILSGKIKSLPPEVFKALVEHYASKGRLERLEQLILHLD 49 (196)
T ss_pred HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHhCC
Confidence 466777777666555677888888888999999999999885433
No 125
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=21.42 E-value=6.5e+02 Score=23.25 Aligned_cols=85 Identities=20% Similarity=0.322 Sum_probs=59.2
Q ss_pred hHHHHHHHHhhhh--hhhHHHHHHHHh---CCCcc---hHHHHHHHHHcCCChHHHHHHHHHHHhh-hhhhhHHHHHHHH
Q psy1645 50 GVWSQLAKAQLQK--GLVKESIDSFIK---ADDPS---AYMDVVETSHATESWEDLVRYLQMARKK-ARESYIESELIYA 120 (143)
Q Consensus 50 ~vWs~l~raqL~~--~~V~eAI~sFIk---A~dps---~y~eVie~a~~~~~~e~Lv~yL~MaRk~-~ke~~idt~Li~a 120 (143)
-||....-||.-+ |...+|++ ||. .-.|+ -|+-=-..-.++|.++.=..++..||+. ..|..|.|-.+-.
T Consensus 193 ~lw~~~~lAqhyd~~g~~~~Al~-~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy 271 (517)
T PF12569_consen 193 LLWTLYFLAQHYDYLGDYEKALE-YIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKY 271 (517)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHH-HHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHH
Confidence 3698876666542 23333332 111 12344 3444444456799999999999999986 8999999999999
Q ss_pred HHhcCChhhHHHHhc
Q psy1645 121 YARTNRLADLEEFIS 135 (143)
Q Consensus 121 yAk~~~l~ele~fl~ 135 (143)
+=|.|+..+=++.++
T Consensus 272 ~LRa~~~e~A~~~~~ 286 (517)
T PF12569_consen 272 LLRAGRIEEAEKTAS 286 (517)
T ss_pred HHHCCCHHHHHHHHH
Confidence 999999988877654
No 126
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=21.24 E-value=1.9e+02 Score=19.88 Aligned_cols=21 Identities=33% Similarity=0.452 Sum_probs=14.0
Q ss_pred HHHHHHHHHHhhhhhhhHHHH
Q psy1645 96 DLVRYLQMARKKARESYIESE 116 (143)
Q Consensus 96 ~Lv~yL~MaRk~~ke~~idt~ 116 (143)
+.-|+|.||||-.+|-+.-..
T Consensus 17 e~~rvl~~arKP~~eEy~~~a 37 (65)
T COG2443 17 EYRRVLKVARKPDWEEYSKIA 37 (65)
T ss_pred HHHHHHHHHhCCCHHHHHHHH
Confidence 566777888877666555444
No 127
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=20.58 E-value=5e+02 Score=21.55 Aligned_cols=94 Identities=16% Similarity=0.111 Sum_probs=60.4
Q ss_pred hHHHHHHHHHHHhhCCCHHHHHHH-HHHHhccchhHHHHHhcchhHHHHHHHHhhhhhhhHHHHHHHHhCC--------C
Q psy1645 7 PATHNALAKIYIDSNNNPERFLKF-FLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKAD--------D 77 (143)
Q Consensus 7 ~~~~nalakIyi~~~~~~E~fl~~-~Li~~~~~narYa~k~~~~~vWs~l~raqL~~~~V~eAI~sFIkA~--------d 77 (143)
...|++....+.+.+++.+++-.+ .+|. +|....-.|..|-.+|..+...+.-.+|+..|-+.= -
T Consensus 143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~------~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~ 216 (263)
T PRK10803 143 NTDYNAAIALVQDKSRQDDAIVAFQNFVK------KYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKA 216 (263)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHH------HCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcch
Confidence 455666666666667777766333 2333 233333345678889999999999999999885542 2
Q ss_pred cchHHHHHHHHHcCCChHHHHHHHHHHHh
Q psy1645 78 PSAYMDVVETSHATESWEDLVRYLQMARK 106 (143)
Q Consensus 78 ps~y~eVie~a~~~~~~e~Lv~yL~MaRk 106 (143)
|..+..+.......|+++.-+++++-+-+
T Consensus 217 ~dAl~klg~~~~~~g~~~~A~~~~~~vi~ 245 (263)
T PRK10803 217 ADAMFKVGVIMQDKGDTAKAKAVYQQVIK 245 (263)
T ss_pred hHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 34444445555678888888888875443
No 128
>TIGR02436 conserved hypothetical protein TIGR02436. This family consists of a few small, well-conserved proteins found so far in Bacteroides thetaiotaomicron VPI-5482, Nostoc sp. PCC 7120, Clostridium tetani E88, Chlorobium tepidum TLS, and Prevotella ruminicola 23. The function is unknown.
Probab=20.41 E-value=2.8e+02 Score=20.04 Aligned_cols=30 Identities=27% Similarity=0.264 Sum_probs=22.7
Q ss_pred CCChHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Q psy1645 91 TESWEDLVRYLQMARKKARESYIESELIYAYA 122 (143)
Q Consensus 91 ~~~~e~Lv~yL~MaRk~~ke~~idt~Li~ayA 122 (143)
.+...|.++||.+|+....|. .+-|..|+.
T Consensus 49 r~s~~df~~fl~ia~gs~~E~--~~~L~la~~ 78 (111)
T TIGR02436 49 AESTADFIHKLSIALKEGSET--EYWIRLLIQ 78 (111)
T ss_pred cCCHHHHHHHHHHHHHHHHHH--HHHHHHHHH
Confidence 467889999999999988874 556665543
No 129
>PRK14574 hmsH outer membrane protein; Provisional
Probab=20.21 E-value=8.3e+02 Score=23.98 Aligned_cols=81 Identities=14% Similarity=0.108 Sum_probs=51.7
Q ss_pred cchhHHHHHHHHhhhhhhhHHHHHHHHhC--CCcchHHHHH--HHHHcCCCh-HHHHHHHHHHHhhhhhhhHHHHHHHHH
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESIDSFIKA--DDPSAYMDVV--ETSHATESW-EDLVRYLQMARKKARESYIESELIYAY 121 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI~sFIkA--~dps~y~eVi--e~a~~~~~~-e~Lv~yL~MaRk~~ke~~idt~Li~ay 121 (143)
++|+++.-++..++..+...+|++.+-++ .+|.....+. ......+++ +.|-.|=+|.+..-.++.+=.+++.+.
T Consensus 134 ~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~n~e~~~~~~~~l 213 (822)
T PRK14574 134 TNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPTSEEVLKNHLEIL 213 (822)
T ss_pred CCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence 45778777777777777777777776553 4555433321 122123444 666677777777666777778888888
Q ss_pred HhcCCh
Q psy1645 122 ARTNRL 127 (143)
Q Consensus 122 Ak~~~l 127 (143)
++.|-.
T Consensus 214 ~~~~~~ 219 (822)
T PRK14574 214 QRNRIV 219 (822)
T ss_pred HHcCCc
Confidence 887754
No 130
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=20.09 E-value=3.4e+02 Score=19.49 Aligned_cols=75 Identities=19% Similarity=0.211 Sum_probs=47.1
Q ss_pred HHHHhhhhhhhHHHHHHHH---hCC-Ccc----hHHHHHHHHHcCCChHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCC
Q psy1645 55 LAKAQLQKGLVKESIDSFI---KAD-DPS----AYMDVVETSHATESWEDLVRYLQMARKKARESYIESELIYAYARTNR 126 (143)
Q Consensus 55 l~raqL~~~~V~eAI~sFI---kA~-dps----~y~eVie~a~~~~~~e~Lv~yL~MaRk~~ke~~idt~Li~ayAk~~~ 126 (143)
+++.....+...+|+..|- ... ||+ ....+-......|+|++-+..|.......-.|.+..-+--+|.+.|+
T Consensus 54 lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~ 133 (145)
T PF09976_consen 54 LAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGD 133 (145)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCC
Confidence 4566666676766666663 322 221 12223344455899999999997766666666666666667777777
Q ss_pred hhh
Q psy1645 127 LAD 129 (143)
Q Consensus 127 l~e 129 (143)
..+
T Consensus 134 ~~~ 136 (145)
T PF09976_consen 134 YDE 136 (145)
T ss_pred HHH
Confidence 654
No 131
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=20.07 E-value=3e+02 Score=25.69 Aligned_cols=51 Identities=22% Similarity=0.309 Sum_probs=0.0
Q ss_pred cchhHHHHHHHHhhhhhhhHHHHHHHHhCCCcchHHHHHHHHHcCCChHHHHHHHHHHHhhhh
Q psy1645 47 NEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKKAR 109 (143)
Q Consensus 47 ~~~~vWs~l~raqL~~~~V~eAI~sFIkA~dps~y~eVie~a~~~~~~e~Lv~yL~MaRk~~k 109 (143)
++|..|..|+++.=..+...++..++ -|...-+|.|++=+-+|.-|++..+
T Consensus 406 ~dp~~w~~LAqay~~~g~~~~a~~A~------------AE~~~~~G~~~~A~~~l~~A~~~~~ 456 (484)
T COG4783 406 EDPNGWDLLAQAYAELGNRAEALLAR------------AEGYALAGRLEQAIIFLMRASQQVK 456 (484)
T ss_pred CCchHHHHHHHHHHHhCchHHHHHHH------------HHHHHhCCCHHHHHHHHHHHHHhcc
Done!