Query 018359
Match_columns 357
No_of_seqs 171 out of 467
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 08:21:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018359.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018359hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2688 Transcription-associat 100.0 3.3E-58 7.1E-63 449.4 24.4 332 14-353 1-362 (394)
2 COG5600 Transcription-associat 100.0 5.6E-49 1.2E-53 377.4 24.6 335 14-352 1-380 (413)
3 KOG2581 26S proteasome regulat 99.9 4.6E-23 9.9E-28 200.4 12.2 191 147-343 184-379 (493)
4 KOG1464 COP9 signalosome, subu 97.8 0.0024 5.2E-08 61.0 17.4 196 152-353 165-392 (440)
5 PF01399 PCI: PCI domain; Int 97.0 0.00034 7.3E-09 56.1 1.4 49 284-332 2-51 (105)
6 PF07719 TPR_2: Tetratricopept 95.8 0.012 2.7E-07 37.1 3.4 33 217-249 2-34 (34)
7 KOG2908 26S proteasome regulat 95.8 1.2 2.6E-05 44.0 18.2 162 169-332 111-285 (380)
8 KOG1463 26S proteasome regulat 95.5 0.41 8.9E-06 47.3 14.1 213 98-316 87-319 (411)
9 PF10255 Paf67: RNA polymerase 95.4 0.12 2.6E-06 52.3 10.3 189 112-313 70-273 (404)
10 COG5159 RPN6 26S proteasome re 95.1 0.92 2E-05 44.1 14.6 213 98-315 84-316 (421)
11 PF13371 TPR_9: Tetratricopept 94.4 0.12 2.7E-06 38.2 5.8 63 179-250 1-63 (73)
12 PF14938 SNAP: Soluble NSF att 92.9 4.1 9E-05 38.8 14.8 133 147-309 130-262 (282)
13 PF13432 TPR_16: Tetratricopep 92.9 0.28 6E-06 35.6 5.3 62 179-249 3-64 (65)
14 PF00515 TPR_1: Tetratricopept 92.6 0.15 3.2E-06 32.3 3.1 31 218-248 3-33 (34)
15 TIGR02552 LcrH_SycD type III s 88.8 2.5 5.4E-05 34.8 7.9 65 178-251 56-120 (135)
16 cd00189 TPR Tetratricopeptide 88.7 2.7 5.8E-05 30.1 7.3 85 147-247 15-99 (100)
17 PF04733 Coatomer_E: Coatomer 88.0 1.5 3.3E-05 42.4 6.9 127 173-307 131-289 (290)
18 KOG2582 COP9 signalosome, subu 87.4 1.6 3.5E-05 43.5 6.7 104 209-317 176-293 (422)
19 PF13181 TPR_8: Tetratricopept 87.3 0.85 1.8E-05 28.5 3.3 30 218-247 3-32 (34)
20 PRK15359 type III secretion sy 86.8 3.7 8.1E-05 35.1 8.0 76 177-261 62-139 (144)
21 cd00189 TPR Tetratricopeptide 86.8 4.5 9.8E-05 28.8 7.5 64 178-250 5-68 (100)
22 PF12895 Apc3: Anaphase-promot 86.8 2.2 4.7E-05 32.6 5.9 81 147-242 4-84 (84)
23 PF13174 TPR_6: Tetratricopept 84.3 1.3 2.7E-05 27.3 2.9 31 219-249 3-33 (33)
24 PF13414 TPR_11: TPR repeat; P 83.6 1.6 3.5E-05 31.7 3.7 34 217-250 4-37 (69)
25 PF13424 TPR_12: Tetratricopep 83.4 1.4 3.1E-05 33.0 3.4 71 172-246 4-76 (78)
26 PF13428 TPR_14: Tetratricopep 82.3 2.1 4.5E-05 28.9 3.5 32 219-250 4-35 (44)
27 KOG2300 Uncharacterized conser 82.1 18 0.00039 37.7 11.5 145 167-315 398-564 (629)
28 PF13414 TPR_11: TPR repeat; P 79.3 5.2 0.00011 28.9 5.1 62 177-247 7-69 (69)
29 smart00028 TPR Tetratricopepti 76.6 3.3 7.2E-05 23.5 2.8 30 218-247 3-32 (34)
30 PF09976 TPR_21: Tetratricopep 73.8 53 0.0012 27.6 12.2 82 147-243 63-145 (145)
31 TIGR02795 tol_pal_ybgF tol-pal 71.9 16 0.00035 28.6 6.6 66 178-250 44-110 (119)
32 KOG4626 O-linked N-acetylgluco 71.7 45 0.00097 36.1 11.1 85 147-248 335-420 (966)
33 PF13176 TPR_7: Tetratricopept 69.8 5 0.00011 25.9 2.6 27 220-246 3-29 (36)
34 PRK02603 photosystem I assembl 65.4 91 0.002 27.0 11.0 76 168-249 30-105 (172)
35 PF13812 PPR_3: Pentatricopept 64.9 12 0.00025 22.9 3.5 30 175-204 3-32 (34)
36 TIGR01716 RGG_Cterm transcript 63.7 56 0.0012 29.4 9.2 72 172-246 127-198 (220)
37 TIGR02521 type_IV_pilW type IV 63.2 52 0.0011 28.3 8.6 67 176-249 102-168 (234)
38 PF13374 TPR_10: Tetratricopep 62.0 9.6 0.00021 24.3 2.8 28 219-246 5-32 (42)
39 PRK11189 lipoprotein NlpI; Pro 61.9 14 0.0003 35.4 5.1 43 216-258 236-278 (296)
40 PRK10370 formate-dependent nit 61.8 36 0.00078 30.8 7.5 80 171-250 14-107 (198)
41 TIGR03302 OM_YfiO outer membra 61.6 1.2E+02 0.0027 27.2 14.2 95 147-249 85-199 (235)
42 PRK11788 tetratricopeptide rep 61.5 30 0.00065 33.6 7.5 65 178-247 74-138 (389)
43 TIGR02795 tol_pal_ybgF tol-pal 61.4 40 0.00087 26.2 7.0 66 178-249 7-72 (119)
44 PRK11788 tetratricopeptide rep 61.1 36 0.00077 33.1 7.9 70 175-248 143-212 (389)
45 PF13424 TPR_12: Tetratricopep 59.3 11 0.00023 28.0 3.0 32 215-246 4-35 (78)
46 PF14853 Fis1_TPR_C: Fis1 C-te 57.6 16 0.00035 26.2 3.5 32 218-249 3-34 (53)
47 PRK10866 outer membrane biogen 57.6 1.7E+02 0.0036 27.4 12.0 137 180-328 39-203 (243)
48 PF13429 TPR_15: Tetratricopep 55.9 30 0.00064 32.4 6.1 88 148-250 93-180 (280)
49 TIGR02521 type_IV_pilW type IV 54.4 82 0.0018 27.0 8.4 63 178-249 36-98 (234)
50 TIGR02552 LcrH_SycD type III s 53.9 88 0.0019 25.3 8.0 65 176-249 20-84 (135)
51 PF10602 RPN7: 26S proteasome 53.3 79 0.0017 28.1 8.1 91 148-245 52-142 (177)
52 KOG2002 TPR-containing nuclear 51.7 1.8E+02 0.004 32.9 11.8 167 145-324 249-456 (1018)
53 PF07729 FCD: FCD domain; Int 51.5 91 0.002 24.3 7.6 73 232-307 48-122 (125)
54 PRK10049 pgaA outer membrane p 50.9 1.1E+02 0.0024 33.6 10.3 144 176-325 313-471 (765)
55 PRK15363 pathogenicity island 49.3 39 0.00084 29.9 5.3 46 217-262 104-151 (157)
56 PF14559 TPR_19: Tetratricopep 48.2 20 0.00042 25.6 2.8 57 184-249 2-58 (68)
57 PRK09782 bacteriophage N4 rece 47.6 23 0.0005 40.2 4.5 92 213-314 41-138 (987)
58 PRK10803 tol-pal system protei 47.0 55 0.0012 31.2 6.4 61 184-250 154-214 (263)
59 PRK11189 lipoprotein NlpI; Pro 46.5 2.5E+02 0.0054 26.8 11.0 65 177-250 102-166 (296)
60 KOG4234 TPR repeat-containing 45.6 38 0.00082 31.7 4.7 88 223-313 102-197 (271)
61 PF07721 TPR_4: Tetratricopept 45.5 19 0.00041 21.4 2.0 23 218-240 3-25 (26)
62 PF13432 TPR_16: Tetratricopep 43.3 31 0.00068 24.5 3.2 30 220-249 1-30 (65)
63 PF13041 PPR_2: PPR repeat fam 43.2 39 0.00084 23.0 3.6 30 175-204 5-34 (50)
64 PLN03088 SGT1, suppressor of 43.0 92 0.002 30.8 7.5 88 147-250 17-104 (356)
65 TIGR03302 OM_YfiO outer membra 42.5 69 0.0015 28.9 6.1 66 178-250 38-104 (235)
66 TIGR00756 PPR pentatricopeptid 42.0 50 0.0011 19.6 3.7 29 176-204 3-31 (35)
67 PLN03077 Protein ECB2; Provisi 41.2 2E+02 0.0044 31.7 10.6 66 173-250 424-489 (857)
68 TIGR02917 PEP_TPR_lipo putativ 40.2 2.2E+02 0.0048 30.1 10.5 63 178-249 164-226 (899)
69 TIGR00990 3a0801s09 mitochondr 38.2 97 0.0021 32.8 7.3 63 178-249 438-500 (615)
70 PF10516 SHNi-TPR: SHNi-TPR; 38.0 41 0.0009 22.4 2.9 24 222-245 7-30 (38)
71 PRK02603 photosystem I assembl 37.5 73 0.0016 27.6 5.3 39 210-248 29-67 (172)
72 TIGR00990 3a0801s09 mitochondr 37.1 1.7E+02 0.0037 30.9 8.9 69 171-248 506-574 (615)
73 PF01535 PPR: PPR repeat; Int 36.4 53 0.0012 19.2 3.1 27 176-202 3-29 (31)
74 PF10300 DUF3808: Protein of u 35.0 2.2E+02 0.0048 29.4 9.1 50 186-244 246-295 (468)
75 KOG3677 RNA polymerase I-assoc 34.6 5.5E+02 0.012 26.7 13.8 70 167-244 230-300 (525)
76 CHL00033 ycf3 photosystem I as 34.0 1.3E+02 0.0029 25.7 6.4 68 175-244 74-141 (168)
77 TIGR02917 PEP_TPR_lipo putativ 33.6 1.2E+02 0.0025 32.3 7.0 63 179-249 96-158 (899)
78 COG1729 Uncharacterized protei 32.6 1.2E+02 0.0027 29.1 6.2 66 178-250 147-212 (262)
79 PRK15359 type III secretion sy 32.3 2.1E+02 0.0046 24.1 7.2 63 179-250 30-92 (144)
80 PF14559 TPR_19: Tetratricopep 32.1 78 0.0017 22.3 3.9 24 227-250 2-25 (68)
81 PF02064 MAS20: MAS20 protein 31.6 1E+02 0.0022 26.0 4.9 29 221-249 68-96 (121)
82 PF09295 ChAPs: ChAPs (Chs5p-A 31.3 2.1E+02 0.0045 29.1 7.9 95 150-265 218-312 (395)
83 PF08631 SPO22: Meiosis protei 30.0 1.2E+02 0.0026 28.8 5.8 86 184-270 4-99 (278)
84 PF09976 TPR_21: Tetratricopep 29.6 83 0.0018 26.4 4.2 104 185-298 23-128 (145)
85 PF04190 DUF410: Protein of un 29.5 1.4E+02 0.0031 28.2 6.2 43 286-328 196-239 (260)
86 KOG1173 Anaphase-promoting com 29.5 38 0.00083 35.8 2.4 88 170-271 366-464 (611)
87 PF03399 SAC3_GANP: SAC3/GANP/ 29.0 1.1E+02 0.0024 27.2 5.1 103 230-332 73-186 (204)
88 PHA02608 67 prohead core prote 28.8 63 0.0014 25.2 2.8 43 286-332 2-44 (80)
89 PRK14574 hmsH outer membrane p 28.4 7.8E+02 0.017 27.6 12.4 118 178-312 141-279 (822)
90 PRK10866 outer membrane biogen 27.9 5E+02 0.011 24.2 13.5 169 77-269 35-226 (243)
91 KOG0889 Histone acetyltransfer 27.6 8.3E+02 0.018 32.1 13.0 92 147-246 2751-2842(3550)
92 TIGR00540 hemY_coli hemY prote 27.6 69 0.0015 32.1 3.9 39 210-248 329-369 (409)
93 PRK10370 formate-dependent nit 27.5 88 0.0019 28.2 4.2 61 182-251 117-179 (198)
94 PLN03081 pentatricopeptide (PP 26.9 5.6E+02 0.012 27.5 10.9 24 176-199 363-386 (697)
95 PRK11906 transcriptional regul 26.7 96 0.0021 32.2 4.6 42 218-262 374-415 (458)
96 PRK11447 cellulose synthase su 26.5 5.4E+02 0.012 29.7 11.2 69 173-250 351-419 (1157)
97 PRK15331 chaperone protein Sic 26.3 1E+02 0.0022 27.5 4.2 36 219-254 108-143 (165)
98 KOG3081 Vesicle coat complex C 26.2 1.4E+02 0.003 29.0 5.3 45 223-272 214-258 (299)
99 KOG4056 Translocase of outer m 26.1 76 0.0017 27.5 3.2 39 212-250 72-115 (143)
100 PLN03077 Protein ECB2; Provisi 26.0 5.4E+02 0.012 28.4 10.8 57 174-242 324-380 (857)
101 COG1849 Uncharacterized protei 25.6 77 0.0017 25.4 2.9 31 214-244 39-69 (90)
102 COG3071 HemY Uncharacterized e 25.3 74 0.0016 32.3 3.4 34 217-250 329-362 (400)
103 KOG3060 Uncharacterized conser 25.1 4.3E+02 0.0094 25.6 8.3 78 171-257 50-127 (289)
104 PRK10803 tol-pal system protei 24.9 2.5E+02 0.0053 26.8 6.9 67 178-250 185-251 (263)
105 KOG1156 N-terminal acetyltrans 24.7 9.4E+02 0.02 26.3 14.5 78 171-248 318-403 (700)
106 cd05804 StaR_like StaR_like; a 24.6 4E+02 0.0087 25.3 8.5 66 175-245 150-215 (355)
107 PRK15174 Vi polysaccharide exp 24.6 3E+02 0.0064 29.7 8.2 68 178-254 323-390 (656)
108 PF13431 TPR_17: Tetratricopep 24.5 39 0.00085 21.5 0.9 20 217-236 14-33 (34)
109 cd05804 StaR_like StaR_like; a 24.3 4.6E+02 0.0099 24.9 8.9 71 169-248 110-180 (355)
110 PF08544 GHMP_kinases_C: GHMP 24.0 94 0.002 23.2 3.2 44 288-331 1-47 (85)
111 KOG1840 Kinesin light chain [C 24.0 8.7E+02 0.019 25.6 13.8 155 73-245 238-396 (508)
112 PF08898 DUF1843: Domain of un 23.7 1.4E+02 0.0031 21.5 3.7 40 286-325 5-45 (53)
113 KOG2003 TPR repeat-containing 23.5 5.5E+02 0.012 27.0 9.2 159 72-245 361-519 (840)
114 PRK14574 hmsH outer membrane p 23.4 4.3E+02 0.0093 29.6 9.2 139 176-322 370-525 (822)
115 COG3197 FixS Uncharacterized p 23.3 20 0.00043 26.4 -0.7 15 257-271 3-17 (58)
116 PLN03218 maturation of RBCL 1; 22.8 1.2E+03 0.025 27.1 12.7 64 175-246 721-784 (1060)
117 PRK12370 invasion protein regu 22.7 3.2E+02 0.007 28.6 7.9 62 180-250 345-406 (553)
118 smart00668 CTLH C-terminal to 22.6 2E+02 0.0043 19.8 4.5 32 285-316 5-36 (58)
119 COG4105 ComL DNA uptake lipopr 21.9 7.1E+02 0.015 23.8 9.5 108 216-329 34-196 (254)
120 PLN03088 SGT1, suppressor of 21.9 1.6E+02 0.0034 29.2 5.1 64 180-252 9-72 (356)
121 PF13429 TPR_15: Tetratricopep 21.6 3E+02 0.0065 25.6 6.8 86 149-250 163-248 (280)
122 PF12341 DUF3639: Protein of u 21.6 36 0.00078 21.1 0.3 11 345-355 2-12 (27)
123 smart00386 HAT HAT (Half-A-TPR 21.1 1.8E+02 0.004 16.7 4.4 18 230-247 1-18 (33)
124 KOG4642 Chaperone-dependent E3 21.0 4.7E+02 0.01 25.2 7.7 84 145-245 23-107 (284)
125 PF10602 RPN7: 26S proteasome 20.6 2.2E+02 0.0047 25.3 5.3 51 219-271 39-89 (177)
126 PRK10153 DNA-binding transcrip 20.3 91 0.002 32.8 3.2 54 186-249 433-486 (517)
No 1
>KOG2688 consensus Transcription-associated recombination protein - Thp1p [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.3e-58 Score=449.37 Aligned_cols=332 Identities=31% Similarity=0.448 Sum_probs=290.5
Q ss_pred HHHHHHHHHHHhcCChHHHhccccCcCCCCchhhHHhhhhhhhhHHHHhhhcCCCCChHHHHHHHHHHhhhhc-cCCHHH
Q 018359 14 TDYLNRFSDAVSSQDVVSLKQLLSFSSNSPSLLSLADSLNVFQDANRLIKQSDNYSPFADITVPLFRSLQHYR-TGNLVD 92 (357)
Q Consensus 14 ~~yl~~v~~ai~~~dg~~La~lLs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vv~~~l~~~~~~~-~~~~~~ 92 (357)
++|++++..++...||+.++...+..+.+ .. .....+.+.+..+++... .||++++..|.++...+. +.+...
T Consensus 1 ~~y~~~~~~~~~~~d~~~~a~~~~~~~~~--~~---~~~~~~d~~~~~l~~~~~-~~~d~~~~~~~~~~~~~~~~~~~~s 74 (394)
T KOG2688|consen 1 NDYFSQLLSAVARLDGELLAVQLSRRDGH--VQ---TSRTVFDAEEERLQQFIG-KPFDTIVGLHLRVLLRVAYPCDAAS 74 (394)
T ss_pred CchHHHHHHHHHhccHHHHHHhcCCCcch--hh---cchhhcccHHHHHHhccC-CCcchhHhHHHHHHhhhccCcchhh
Confidence 47999999999999999999999998877 22 222233455666666554 799999999999877754 667888
Q ss_pred HHHHHHHHHH-HHHHHhccc-CCceehHHHHHHHHHHHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHHHHhhhCC----
Q 018359 93 AYLAFEKSAN-AFIQEFRNW-ESAWALEALYVIAYEIRVLAERADRELAS-NGKSPEKLKAAGSFLMKVFGVLAGK---- 165 (357)
Q Consensus 93 af~~~~~~~~-~l~~~~~~~-~~~W~lp~L~~~~~~L~~la~~~D~~~~~-~~~~~~~le~~a~~l~~~F~~~~~D---- 165 (357)
||..+. +.+ ...+.++.. +++|++|+++++|.+++.+|..+|....+ +...++.+|.+|++++++|+.|++|
T Consensus 75 a~~~~~-~~~~~~l~~~~s~~~~~w~~~~l~rv~~~l~~la~~~~~~~~~~~s~~~~~le~~s~~i~~~f~~cl~d~~~~ 153 (394)
T KOG2688|consen 75 AFSQQK-LFGFLSLRAFSSGNDENWILPNLYRVCKDLRYLAINADCALLSFSSLPNQLLEAASRTISRLFSSCLSDRRAD 153 (394)
T ss_pred hhhhHH-HHhhhhHHHHhcccccchHHHHHHHHHHHHHHHhhhhHHhhcCcccCchHHHHHHHHHHHHHHHHHhCccccc
Confidence 898887 333 455556554 79999999999999999999999988754 2344679999999999999999999
Q ss_pred --CCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHH
Q 018359 166 --GSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYAL 243 (357)
Q Consensus 166 --~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~ 243 (357)
++||+|+++++|++|+|||++++++||+|++|++++.. +..+.++++|+|+|+||+||++|++.|+.+|+.+|.+||
T Consensus 154 ~~~~kk~~~~~i~n~lf~Iyfri~~~~L~k~l~ra~~~~~-~~~~~~~l~~~v~y~YylGr~a~~~~d~~~A~~~L~~af 232 (394)
T KOG2688|consen 154 LEESKKVAMLYIVNQLFQIYFRIEKLLLCKNLIRAFDQSG-SDISDFPLAQLVVYHYYLGRYAMFESDFLNAFLQLNEAF 232 (394)
T ss_pred cccchhhHHHHHHHHHHHHHHHHhhHHHhHHHHHHhhccc-cchhhcccccceeeeeeeeeehhhhhhHHHHHHHHHHHH
Confidence 38999999999999999999999999999999999873 677899999999999999999999999999999999999
Q ss_pred HhcCcCchHHHHHHHHHHHHHHhhcCCCCChHhhcccCccccHHHHHHHhhCCHHHHHHHHHHhhHHhHhcCchhhhhhh
Q 018359 244 INCNPQSEANIRMILKYLIPVKLSIGILPKDWLLEKYNLVEYSNIVQALRRGDLRLLRHALEEHEDQCISCAGETRAPSL 323 (357)
Q Consensus 244 ~~c~~~~~~n~r~IL~~LIpv~LllG~~P~~~lL~~~~l~~y~~l~~avr~Gnl~~f~~~l~~~~~~f~k~glylllerl 323 (357)
++||....+|+|+|++|+||++|++|++|+..+|++|.+..|.|+++|||.||+..|+.++++||.+|+++|+|++|+++
T Consensus 233 ~~cp~~~~~n~~~iliylip~~~llg~~Pt~~lL~~~~~~~~~~lv~aVr~Gnl~~f~~al~~~E~~f~~~gi~l~l~~l 312 (394)
T KOG2688|consen 233 RLCPDLLLKNKRLILIYLIPTGLLLGRIPTKELLDFYTLDKYSPLVQAVRSGNLRLFDLALADNERFFIRSGIYLTLEKL 312 (394)
T ss_pred HhCcHHHHhhhhhHHHHHhHHHHHhccCcchhhHhHhhHHhHHHHHHHHHhccHHHHHHHHhhhHHHHHHhccHHHhhhh
Confidence 99999999999999999999999999999999999999889999999999999999999999999999999999999999
Q ss_pred hHHHhHHhh---cccccCCCCC-----------------Ccccccccccc
Q 018359 324 SKIVQENLH---YPKTKRPKQS-----------------SSDEVGCNCEG 353 (357)
Q Consensus 324 r~lv~RnL~---~~~~~~~~~~-----------------~~~~~~~~~~~ 353 (357)
|.+|||||| +.--..++++ +.||||||+|+
T Consensus 313 ~lv~yrnL~kkv~~~~~~~~~lpls~~~~al~~~~~~~~~~deveciLa~ 362 (394)
T KOG2688|consen 313 PLVVYRNLFKKVIQLWGKTSQLPLSRFLTALQFSGVTDVDLDEVECILAN 362 (394)
T ss_pred hHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHhhcCCCCCchhhHHHHHHh
Confidence 999999999 3332244443 23999999987
No 2
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair]
Probab=100.00 E-value=5.6e-49 Score=377.41 Aligned_cols=335 Identities=21% Similarity=0.282 Sum_probs=258.9
Q ss_pred HHHHHHHHHHHhcCChHHHhccccCcCCCCchhhHHhhhhhh---hhHHHHhhhcCCCCChHHHHHHHHHHhhh----hc
Q 018359 14 TDYLNRFSDAVSSQDVVSLKQLLSFSSNSPSLLSLADSLNVF---QDANRLIKQSDNYSPFADITVPLFRSLQH----YR 86 (357)
Q Consensus 14 ~~yl~~v~~ai~~~dg~~La~lLs~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~vv~~~l~~~~~----~~ 86 (357)
++|++++.+|+..+|...|+.+++.++.. ...+...+..+ ++..+...+. +..+=++.+.-|+..... .+
T Consensus 1 nd~~~tl~~ava~~n~~~l~~cl~~~~re--~~~L~~~l~~d~k~~~~~~~~iqr-~~~~n~~~~tl~~q~~~~l~rd~d 77 (413)
T COG5600 1 NDMANTLLDAVAHGNSSHLTKCLSQNGRE--IAILGKVLTGDSKIDAKLKETIQR-PFGRNDTAVTLVLQKFLNLGRDKD 77 (413)
T ss_pred ChHHHHHHHHHhcCchhhhhhhhccChhH--HHHHhhhcccccCchhhhcceeec-cccCCchhhhhhhHHHHHhhcCCC
Confidence 37899999999999999999999998654 33332222111 1111111110 111224566666654443 44
Q ss_pred cCCHHHHHHHHHHHHHHHHHHhcccCCceehHHHHHHHHHHHHHHHHH----HHHHH-hCCC---ChhHHHHHHHHHHHH
Q 018359 87 TGNLVDAYLAFEKSANAFIQEFRNWESAWALEALYVIAYEIRVLAERA----DRELA-SNGK---SPEKLKAAGSFLMKV 158 (357)
Q Consensus 87 ~~~~~~af~~~~~~~~~l~~~~~~~~~~W~lp~L~~~~~~L~~la~~~----D~~~~-~~~~---~~~~le~~a~~l~~~ 158 (357)
+|+ ...++...++.++++..+......|+.-....+.+.+..++..+ ++... .+++ .++.+|+++|+|+|+
T Consensus 78 p~s-kr~sel~q~~yk~lt~~~~~~~~~~l~~lv~~~~R~~~~~~~~l~~~~kq~~~~l~~~s~~~~d~l~~~sr~l~R~ 156 (413)
T COG5600 78 PWS-KRSSELLQELYKNLTAELSYSSAPHLEVLVKNAVRMLGREIWNLTVVKKQLYGLLELKSELNQDNLSKISRLLTRM 156 (413)
T ss_pred hHh-hhhHHHHHHHHHHHHHHHhccCccchhhhhHHHHHHHHHHHHHHHhhHHHHHHHhcccchhhHhhHHHHHHHHHHH
Confidence 444 34444444555555555555456677666666666555554444 33221 1222 368999999999999
Q ss_pred HHhhhCCC------CchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccCh
Q 018359 159 FGVLAGKG------SKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENF 232 (357)
Q Consensus 159 F~~~~~D~------sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~ 232 (357)
|+.|++|+ +||+|+||++|+||+|||++++++||+|++|+.+..++|+...++++|+|+|+||+|++|+.++++
T Consensus 157 Fn~il~dR~p~ln~skk~g~y~iaNlL~~iY~Rl~~~~l~~n~lka~~~vs~~Di~~~~~sq~v~f~YYLG~~~l~~en~ 236 (413)
T COG5600 157 FNSILNDRSPALNPSKKVGLYYIANLLFQIYLRLGRFKLCENFLKASKEVSMPDISEYQKSQVVVFHYYLGIYYLLNENF 236 (413)
T ss_pred HHHhcCCcCccCChhhHHHHHHHHHHHHHHHHHhccHHHHHHHHHhcccccccccchhhhcceeehhhHHHHHHHHHHhH
Confidence 99999993 899999999999999999999999999999999987788888999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCcCchHHHHHHHHHHHHHHhhcC-CCCChHhhcccCc-cccHHHHHHHhhCCHHHHHHHHHHhhHH
Q 018359 233 PAADQKLSYALINCNPQSEANIRMILKYLIPVKLSIG-ILPKDWLLEKYNL-VEYSNIVQALRRGDLRLLRHALEEHEDQ 310 (357)
Q Consensus 233 ~~A~~~L~~A~~~c~~~~~~n~r~IL~~LIpv~LllG-~~P~~~lL~~~~l-~~y~~l~~avr~Gnl~~f~~~l~~~~~~ 310 (357)
.+|+-||.+||..||.--.+|+++|+.|+||.+|+.| ..|.+.+|+|++. ..|.+|++|||.||+..|+.++++||.+
T Consensus 237 heA~~~L~~aFl~c~~l~~~n~~rIl~~~ipt~Llv~~~~Ptk~~L~r~~~~s~~~~LvkavrsGni~~~~~~l~~ner~ 316 (413)
T COG5600 237 HEAFLHLNEAFLQCPWLITRNRKRILPYYIPTSLLVNKFPPTKDLLERFKRCSVYSPLVKAVRSGNIEDFDLALSRNERK 316 (413)
T ss_pred HHHHHHHHHHHHhChhhhhcchheehhHHhhHHHHhCCCCCchHHHHhccccchhHHHHHHHHcCCHHHHHHHHHHhHHH
Confidence 9999999999999998888999999999999999975 6788999999994 5799999999999999999999999999
Q ss_pred hHhcCchhhh-hhhhHHHhHHhh---cccccCCCC------------------CCccccccccc
Q 018359 311 CISCAGETRA-PSLSKIVQENLH---YPKTKRPKQ------------------SSSDEVGCNCE 352 (357)
Q Consensus 311 f~k~glylll-erlr~lv~RnL~---~~~~~~~~~------------------~~~~~~~~~~~ 352 (357)
|.++|+|+.| ++++.+|||||+ +..+....+ -+-++||||||
T Consensus 317 ~~~~~l~ltl~~~~~~V~~RNL~rk~w~~~~~qsrlp~sil~~~~qls~~dn~~~~~~VEciL~ 380 (413)
T COG5600 317 FAKRGLYLTLLAHYPLVCFRNLFRKIWRLHGKQSRLPLSILLIVLQLSAIDNFHSFKEVECILV 380 (413)
T ss_pred HHHcchHHHHHhhccHHHHHHHHHHHHhhccccccCcHHHHHHHHHccCCCcccChHHHHHHHH
Confidence 9999999966 899999999999 333333333 23489999997
No 3
>KOG2581 consensus 26S proteasome regulatory complex, subunit RPN3/PSMD3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.89 E-value=4.6e-23 Score=200.41 Aligned_cols=191 Identities=19% Similarity=0.236 Sum_probs=162.6
Q ss_pred HHHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHh
Q 018359 147 KLKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLE 226 (357)
Q Consensus 147 ~le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~ 226 (357)
++....++++...+..-- +.-..|.-.+.|+|++.|..-+-++.+.++++... .| +..+.+++.+|.||+||+.
T Consensus 184 ~l~~~rs~l~~~lrtAtL-rhd~e~qavLiN~LLr~yL~n~lydqa~~lvsK~~---~p--e~~snne~ARY~yY~GrIk 257 (493)
T KOG2581|consen 184 RLADIRSFLHALLRTATL-RHDEEGQAVLINLLLRNYLHNKLYDQADKLVSKSV---YP--EAASNNEWARYLYYLGRIK 257 (493)
T ss_pred chHHHHHHHHHHHHHhhh-cCcchhHHHHHHHHHHHHhhhHHHHHHHHHhhccc---Cc--cccccHHHHHHHHHHhhHH
Confidence 355555666666554321 12245777899999999999999999999988554 55 4677889999999999999
Q ss_pred hhccChHHHHHHHHHHHHhcCcC-chHHHHHHHHHHHHHHhhcCCCCChHhhcccCc----cccHHHHHHHhhCCHHHHH
Q 018359 227 VFNENFPAADQKLSYALINCNPQ-SEANIRMILKYLIPVKLSIGILPKDWLLEKYNL----VEYSNIVQALRRGDLRLLR 301 (357)
Q Consensus 227 ~~~~~~~~A~~~L~~A~~~c~~~-~~~n~r~IL~~LIpv~LllG~~P~~~lL~~~~l----~~y~~l~~avr~Gnl~~f~ 301 (357)
++|+||..|.+++.+|.+..|++ +.++++++.++.|.+++++|.+|....+.|+++ .+|..|.+|||.||+++|+
T Consensus 258 aiqldYssA~~~~~qa~rkapq~~alGf~q~v~k~~ivv~ll~geiPers~F~Qp~~~ksL~~Yf~Lt~AVr~gdlkkF~ 337 (493)
T KOG2581|consen 258 AIQLDYSSALEYFLQALRKAPQHAALGFRQQVNKLMIVVELLLGEIPERSVFRQPGMRKSLRPYFKLTQAVRLGDLKKFN 337 (493)
T ss_pred HhhcchhHHHHHHHHHHHhCcchhhhhHHHHHHHHHHHHHHHcCCCcchhhhcCccHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 99999999999999999999964 579999999999999999999999999999964 5899999999999999999
Q ss_pred HHHHHhhHHhHhcCchhhhhhhhHHHhHHhhcccccCCCCCC
Q 018359 302 HALEEHEDQCISCAGETRAPSLSKIVQENLHYPKTKRPKQSS 343 (357)
Q Consensus 302 ~~l~~~~~~f~k~glylllerlr~lv~RnL~~~~~~~~~~~~ 343 (357)
+.++++.+.|.++|+|.++.|||+.|+++++..-++.=+++|
T Consensus 338 ~~leq~k~~f~~D~ty~LivRLR~NVIkTgIR~ISlsYSRIS 379 (493)
T KOG2581|consen 338 ETLEQFKDKFQADGTYTLIVRLRHNVIKTGIRKISLSYSRIS 379 (493)
T ss_pred HHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhheeeeeeecc
Confidence 999999999999999999999999999999933333334443
No 4
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.75 E-value=0.0024 Score=61.04 Aligned_cols=196 Identities=18% Similarity=0.216 Sum_probs=132.3
Q ss_pred HHHHHHHHHhhhCCC----C-chhHHHHHHHHHHHHHHhcCChhhHHHHHH-H--hhccCCCCCCCCCccceeehhhhhh
Q 018359 152 GSFLMKVFGVLAGKG----S-KRVGALYLTCQLFKIYFKLGTVHLCRSVIR-S--IETARIFDFEEFPKRDKVTYMYYTG 223 (357)
Q Consensus 152 a~~l~~~F~~~~~D~----s-Kk~g~~~l~n~L~kiYfkl~~~~l~~nlik-~--i~~~~~p~~~~~~~~~~v~y~YY~G 223 (357)
..++...-..|.+|+ . |..-++-+-.+.+++|-.-.+-.-.+-+-. + ++++ +|. |. -.-+-+=--|
T Consensus 165 ~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSA-IPH----Pl-ImGvIRECGG 238 (440)
T KOG1464|consen 165 QKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSA-IPH----PL-IMGVIRECGG 238 (440)
T ss_pred HHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhcc-CCc----hH-HHhHHHHcCC
Confidence 345555566787762 3 334455666677888876655444444433 2 2333 442 11 1122344468
Q ss_pred hHhhhccChHHHHHHHHHHHHhcCcCchHHHHHHHHHHHHHHhhc--CCCCChHhhcc-cC----ccccHHHHHHHhhCC
Q 018359 224 RLEVFNENFPAADQKLSYALINCNPQSEANIRMILKYLIPVKLSI--GILPKDWLLEK-YN----LVEYSNIVQALRRGD 296 (357)
Q Consensus 224 r~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~~LIpv~Lll--G~~P~~~lL~~-~~----l~~y~~l~~avr~Gn 296 (357)
+.++-+++|.+|+..+=.||.+.-.+-..-|...|+||+-.+|++ |.-|=..-=.+ |. ......++.|....|
T Consensus 239 KMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLANMLmkS~iNPFDsQEAKPyKNdPEIlAMTnlv~aYQ~Nd 318 (440)
T KOG1464|consen 239 KMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLANMLMKSGINPFDSQEAKPYKNDPEILAMTNLVAAYQNND 318 (440)
T ss_pred ccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHHHHHHcCCCCCcccccCCCCCCHHHHHHHHHHHHHhccc
Confidence 889999999999999999999876665566777899999999996 55443222112 11 233689999999999
Q ss_pred HHHHHHHHHHhhH-----HhHhcCchhhhhhhhHHHhHHhh----------cccccCCCCCCccc--ccccccc
Q 018359 297 LRLLRHALEEHED-----QCISCAGETRAPSLSKIVQENLH----------YPKTKRPKQSSSDE--VGCNCEG 353 (357)
Q Consensus 297 l~~f~~~l~~~~~-----~f~k~glylllerlr~lv~RnL~----------~~~~~~~~~~~~~~--~~~~~~~ 353 (357)
+..|++.+..|+. -|++..+--++...|.-|+..|+ |-++++-....|++ |.||+-.
T Consensus 319 I~eFE~Il~~~~~~IM~DpFIReh~EdLl~niRTQVLlkLIkPYt~i~Ipfis~~Lnv~~~dV~~LLV~~ILD~ 392 (440)
T KOG1464|consen 319 IIEFERILKSNRSNIMDDPFIREHIEDLLRNIRTQVLLKLIKPYTNIGIPFISKELNVPEADVESLLVSCILDD 392 (440)
T ss_pred HHHHHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHhccccccCchhhHhhcCCCHHHHHHHHHHHHhcc
Confidence 9999999999864 78888888899999999999998 44555544444443 5566543
No 5
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=96.96 E-value=0.00034 Score=56.07 Aligned_cols=49 Identities=24% Similarity=0.318 Sum_probs=44.5
Q ss_pred ccHHHHHHHhhCCHHHHHHHHHHh-hHHhHhcCchhhhhhhhHHHhHHhh
Q 018359 284 EYSNIVQALRRGDLRLLRHALEEH-EDQCISCAGETRAPSLSKIVQENLH 332 (357)
Q Consensus 284 ~y~~l~~avr~Gnl~~f~~~l~~~-~~~f~k~glylllerlr~lv~RnL~ 332 (357)
.|.++++|+++||+..|.+.++++ +.++.+.++...++.++..+.++.+
T Consensus 2 ~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~i~~~~l 51 (105)
T PF01399_consen 2 PYSELLRAFRSGDLQEFEEFLEKHSESLFKDPFLAEYVEQLKEKIRRRNL 51 (105)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHTCHHHHHCTTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHH
Confidence 488999999999999999999999 8888888999999999999998888
No 6
>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=95.80 E-value=0.012 Score=37.10 Aligned_cols=33 Identities=21% Similarity=0.111 Sum_probs=29.3
Q ss_pred ehhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 217 TYMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 217 ~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
.+.|++|.+++..++|.+|.++++.|+..+|.+
T Consensus 2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~ 34 (34)
T PF07719_consen 2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN 34 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence 367999999999999999999999999999863
No 7
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=95.76 E-value=1.2 Score=44.05 Aligned_cols=162 Identities=7% Similarity=0.122 Sum_probs=98.4
Q ss_pred hhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcC-
Q 018359 169 RVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCN- 247 (357)
Q Consensus 169 k~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~- 247 (357)
+.++.++-...-++|..+|...-|+.++--.++. +-.+...|.+=.-.|+--...+|=..+||..++.|.-.=+ .|-
T Consensus 111 ~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~-ld~~~~v~~~Vh~~fY~lssqYyk~~~d~a~yYr~~L~YL-~~~d 188 (380)
T KOG2908|consen 111 PDAVIYILTEIARLKLEINDLKEIKKLLDDLKSM-LDSLDGVTSNVHSSFYSLSSQYYKKIGDFASYYRHALLYL-GCSD 188 (380)
T ss_pred chhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-HhcccCCChhhhhhHHHHHHHHHHHHHhHHHHHHHHHHHh-cccc
Confidence 4799999999999999999999999999888763 1112223332222232223444445566666665543322 233
Q ss_pred -cCchHHHHHHHHHHHHHHhhcCC-CCChHhhcccC-c--------cccHHHHHHHhhCCHHHHHHHHHHhhH-HhHhcC
Q 018359 248 -PQSEANIRMILKYLIPVKLSIGI-LPKDWLLEKYN-L--------VEYSNIVQALRRGDLRLLRHALEEHED-QCISCA 315 (357)
Q Consensus 248 -~~~~~n~r~IL~~LIpv~LllG~-~P~~~lL~~~~-l--------~~y~~l~~avr~Gnl~~f~~~l~~~~~-~f~k~g 315 (357)
.+.+.-.++-+.+...+.-++|. +=+...|-.+| + .-..++..|.+.||+.+|++....+.. --+...
T Consensus 189 ~~~l~~se~~~lA~~L~~aALLGe~iyNfGELL~HPilesL~gT~~eWL~dll~Afn~Gdl~~f~~l~~~~~~~p~L~~~ 268 (380)
T KOG2908|consen 189 IDDLSESEKQDLAFDLSLAALLGENIYNFGELLAHPILESLKGTNREWLKDLLIAFNSGDLKRFESLKGVWGKQPDLASN 268 (380)
T ss_pred ccccCHHHHHHHHHHHHHHHHhccccccHHHHHhhHHHHHhcCCcHHHHHHHHHHhccCCHHHHHHHHHHhccCchHHHH
Confidence 12223334445666666777775 66666554443 2 124889999999999999998776544 122222
Q ss_pred chhhhhhhhHHHhHHhh
Q 018359 316 GETRAPSLSKIVQENLH 332 (357)
Q Consensus 316 lylllerlr~lv~RnL~ 332 (357)
--.+.+|.+.+|.=++.
T Consensus 269 e~~L~qKI~LmaLiEi~ 285 (380)
T KOG2908|consen 269 EDFLLQKIRLLALIEIT 285 (380)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33455677777666665
No 8
>KOG1463 consensus 26S proteasome regulatory complex, subunit RPN6/PSMD11 [Posttranslational modification, protein turnover, chaperones]
Probab=95.53 E-value=0.41 Score=47.26 Aligned_cols=213 Identities=14% Similarity=0.153 Sum_probs=133.5
Q ss_pred HHHHHHHHHHhcccCCceehHHHHHHHHHHHHHHHHHHHHHHhC---------CCChhHHHHHHHHHHHHHHhhhCCCCc
Q 018359 98 EKSANAFIQEFRNWESAWALEALYVIAYEIRVLAERADRELASN---------GKSPEKLKAAGSFLMKVFGVLAGKGSK 168 (357)
Q Consensus 98 ~~~~~~l~~~~~~~~~~W~lp~L~~~~~~L~~la~~~D~~~~~~---------~~~~~~le~~a~~l~~~F~~~~~D~sK 168 (357)
.+++..++..|...+.+ .+.-..+|++.+.+|.+--+..-.. -.+.....+|-..++...+-...= ..
T Consensus 87 aKlvR~Lvd~~~~~~~~--~~~~i~l~~~cIeWA~~ekRtFLRq~Learli~Ly~d~~~YteAlaL~~~L~rElKKl-DD 163 (411)
T KOG1463|consen 87 AKLVRSLVDMFLKIDDG--TGDQIELCTECIEWAKREKRTFLRQSLEARLIRLYNDTKRYTEALALINDLLRELKKL-DD 163 (411)
T ss_pred HHHHHHHHHHHccCCCC--cchHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhc-cc
Confidence 34677777777643322 2245568888888886533322000 000011112211222221111100 12
Q ss_pred hhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCc
Q 018359 169 RVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNP 248 (357)
Q Consensus 169 k~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~ 248 (357)
|.-..-+--..-|.||.++|+.=++.-+-+-..+.+. --.|...|.+----.|.+++-+-||..|+.+|-+||+--..
T Consensus 164 K~lLvev~llESK~y~~l~Nl~KakasLTsART~Ana--iYcpPqlQa~lDLqSGIlha~ekDykTafSYFyEAfEgf~s 241 (411)
T KOG1463|consen 164 KILLVEVHLLESKAYHALRNLPKAKASLTSARTTANA--IYCPPQLQATLDLQSGILHAAEKDYKTAFSYFYEAFEGFDS 241 (411)
T ss_pred ccceeeehhhhhHHHHHHhcchhHHHHHHHHHHhhcc--cccCHHHHHHHHHhccceeecccccchHHHHHHHHHccccc
Confidence 3333334445678999999999888766655543221 13677788888899999999999999999999999986553
Q ss_pred Cc-hHHHHHHHHHHHHHHhhcCCCC-------ChHhhcccC---ccccHHHHHHHhhCCHHHHHHHHHHhhHHhHhcCc
Q 018359 249 QS-EANIRMILKYLIPVKLSIGILP-------KDWLLEKYN---LVEYSNIVQALRRGDLRLLRHALEEHEDQCISCAG 316 (357)
Q Consensus 249 ~~-~~n~r~IL~~LIpv~LllG~~P-------~~~lL~~~~---l~~y~~l~~avr~Gnl~~f~~~l~~~~~~f~k~gl 316 (357)
-. ..+--.-|+|++-+++.++..- .+..++ |. +.....+.+|.++-+++.|..++.+|..++..+-+
T Consensus 242 ~~~~v~A~~sLKYMlLcKIMln~~ddv~~lls~K~~l~-y~g~~i~AmkavAeA~~nRSLkdF~~AL~~yk~eL~~D~i 319 (411)
T KOG1463|consen 242 LDDDVKALTSLKYMLLCKIMLNLPDDVAALLSAKLALK-YAGRDIDAMKAVAEAFGNRSLKDFEKALADYKKELAEDPI 319 (411)
T ss_pred cCCcHHHHHHHHHHHHHHHHhcCHHHHHHHHhhHHHHh-ccCcchHHHHHHHHHhcCCcHHHHHHHHHHhHHHHhcChH
Confidence 22 2344556999999999987543 222333 32 23467888999999999999999999888777654
No 9
>PF10255 Paf67: RNA polymerase I-associated factor PAF67; InterPro: IPR019382 RNA polymerase I is a multi-subunit enzyme and its transcription competence is dependent on the presence of PAF67 [].
Probab=95.37 E-value=0.12 Score=52.35 Aligned_cols=189 Identities=14% Similarity=0.203 Sum_probs=112.9
Q ss_pred CCceehHHHHHHHHHHHHHHHHHHHHH-HhCCCChhHHHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChh
Q 018359 112 ESAWALEALYVIAYEIRVLAERADREL-ASNGKSPEKLKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVH 190 (357)
Q Consensus 112 ~~~W~lp~L~~~~~~L~~la~~~D~~~-~~~~~~~~~le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~ 190 (357)
+..|-++....+-..|+.-+.-.+.-. ...|..+ .+ ...-|+. ..-.|..|.+.+ ..|+|++--+|.+.
T Consensus 70 ~~~W~~~~VLnvL~sLv~kS~I~e~l~~~~~~~~~--~~-----~~~~~g~--~~l~~~LGYFSl-igLlRvh~LLGDY~ 139 (404)
T PF10255_consen 70 PDVWNVYSVLNVLYSLVDKSQINEQLEAEKRGEDP--DE-----VAGEYGS--SPLYKMLGYFSL-IGLLRVHCLLGDYY 139 (404)
T ss_pred cCcccHHHHHHHHHHHHHHHhHHHHHHHhhccCCc--hh-----hhccccc--ccHHHHhhHHHH-HHHHHHHHhccCHH
Confidence 578999887777777666543322111 1111111 01 0001100 001355565554 46789999999999
Q ss_pred hHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc-------------hHHHHHH
Q 018359 191 LCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS-------------EANIRMI 257 (357)
Q Consensus 191 l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~-------------~~n~r~I 257 (357)
.+-.++.+|+-...--++.. .+=.|+..||.|=-||.-.+|.+|-..|+..+..-.+.. .|.-.+.
T Consensus 140 ~Alk~l~~idl~~~~l~~~V-~~~~is~~YyvGFaylMlrRY~DAir~f~~iL~yi~r~k~~~~~~~~q~d~i~K~~eqM 218 (404)
T PF10255_consen 140 QALKVLENIDLNKKGLYTKV-PACHISTYYYVGFAYLMLRRYADAIRTFSQILLYIQRTKNQYHQRSYQYDQINKKNEQM 218 (404)
T ss_pred HHHHHhhccCcccchhhccC-cchheehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccccchhhHHHhHHHHH
Confidence 99999999885421112333 345688899999999999999999999999985322111 1333333
Q ss_pred HHHHHHHHhhc-CCCCChHhhcccCccccHHHHHHHhhCCHHHHHHHHHHhhHHhHh
Q 018359 258 LKYLIPVKLSI-GILPKDWLLEKYNLVEYSNIVQALRRGDLRLLRHALEEHEDQCIS 313 (357)
Q Consensus 258 L~~LIpv~Lll-G~~P~~~lL~~~~l~~y~~l~~avr~Gnl~~f~~~l~~~~~~f~k 313 (357)
...|.-|..+. +++|.. +...- -..|.+=...+..||+..|++....--..|+.
T Consensus 219 yaLlAic~~l~p~~lde~-i~~~l-keky~ek~~kmq~gd~~~f~elF~~acPKFIs 273 (404)
T PF10255_consen 219 YALLAICLSLCPQRLDES-ISSQL-KEKYGEKMEKMQRGDEEAFEELFSFACPKFIS 273 (404)
T ss_pred HHHHHHHHHhCCCCCCHH-HHHHH-HHHHHHHHHHHHccCHHHHHHHHHhhCCCccC
Confidence 33333333222 343322 22111 02387888889999999999999876555555
No 10
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=95.08 E-value=0.92 Score=44.09 Aligned_cols=213 Identities=15% Similarity=0.173 Sum_probs=128.4
Q ss_pred HHHHHHHHHHhcccCCceehHHHHHHHHHHHHHHHHHHHHHHh---CC------CChhHHHHHHHHHHHHHHhhhCCCCc
Q 018359 98 EKSANAFIQEFRNWESAWALEALYVIAYEIRVLAERADRELAS---NG------KSPEKLKAAGSFLMKVFGVLAGKGSK 168 (357)
Q Consensus 98 ~~~~~~l~~~~~~~~~~W~lp~L~~~~~~L~~la~~~D~~~~~---~~------~~~~~le~~a~~l~~~F~~~~~D~sK 168 (357)
.+.+..++.-|.. ..=.+|--..+|..++.+|.+-.+..-. .. -++....++-..|+-...-...= ..
T Consensus 84 ~KiirtLiekf~~--~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~YsdalalIn~ll~ElKk~-DD 160 (421)
T COG5159 84 TKIIRTLIEKFPY--SSDSLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGKYSDALALINPLLHELKKY-DD 160 (421)
T ss_pred HHHHHHHHHhcCC--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHhh-cC
Confidence 3456667777753 3335777777888888888654332200 00 00112233333333332222110 12
Q ss_pred hhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCc
Q 018359 169 RVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNP 248 (357)
Q Consensus 169 k~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~ 248 (357)
|.-..-+--..-|.|+++.|+.=.+.=+.+-..... ---.|..-|..----.|.+++.+.||..|+.+|-+||+--+.
T Consensus 161 K~~Li~vhllESKvyh~irnv~KskaSLTaArt~An--s~YCPpqlqa~lDL~sGIlhcdd~dyktA~SYF~Ea~Egft~ 238 (421)
T COG5159 161 KINLITVHLLESKVYHEIRNVSKSKASLTAARTLAN--SAYCPPQLQAQLDLLSGILHCDDRDYKTASSYFIEALEGFTL 238 (421)
T ss_pred ccceeehhhhhHHHHHHHHhhhhhhhHHHHHHHHhh--ccCCCHHHHHHHHHhccceeeccccchhHHHHHHHHHhcccc
Confidence 333333444667899999888777765555443221 113455556667778899999999999999999999987664
Q ss_pred CchHHHH-HHHHHHHHHHhhcCCCCCh-Hhh------cccC---ccccHHHHHHHhhCCHHHHHHHHHHhhHHhHhcC
Q 018359 249 QSEANIR-MILKYLIPVKLSIGILPKD-WLL------EKYN---LVEYSNIVQALRRGDLRLLRHALEEHEDQCISCA 315 (357)
Q Consensus 249 ~~~~n~r-~IL~~LIpv~LllG~~P~~-~lL------~~~~---l~~y~~l~~avr~Gnl~~f~~~l~~~~~~f~k~g 315 (357)
-...-+- ..|+|++-.++.++..-.. .+| +.|+ ......+.+|.-+-++..|+.++.++++++..+.
T Consensus 239 l~~d~kAc~sLkYmlLSkIMlN~~~evk~vl~~K~t~~~y~~r~I~am~avaea~~NRsL~df~~aL~qY~~el~~D~ 316 (421)
T COG5159 239 LKMDVKACVSLKYMLLSKIMLNRREEVKAVLRNKNTLKHYDDRMIRAMLAVAEAFGNRSLKDFSDALAQYSDELHQDS 316 (421)
T ss_pred ccchHHHHHHHHHHHHHHHHHhhHHHHHHHHccchhHhhhhhhhHHHHHHHHHHhCCCcHhhHHHHHHHhhHHhccCH
Confidence 3332222 3489999888887654332 233 2232 1235667778888999999999999877655443
No 11
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=94.41 E-value=0.12 Score=38.24 Aligned_cols=63 Identities=16% Similarity=0.042 Sum_probs=51.5
Q ss_pred HHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 179 LFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 179 L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
|..+|++-++++.+..++..+-.. .| +.+..+++.|.+++..++|.+|.+.|+.++..+|.+.
T Consensus 1 l~~~~~~~~~~~~A~~~~~~~l~~-~p--------~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~ 63 (73)
T PF13371_consen 1 LKQIYLQQEDYEEALEVLERALEL-DP--------DDPELWLQRARCLFQLGRYEEALEDLERALELSPDDP 63 (73)
T ss_pred CHHHHHhCCCHHHHHHHHHHHHHh-Cc--------ccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcH
Confidence 357899999999998877755422 12 2667888999999999999999999999999999654
No 12
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=92.89 E-value=4.1 Score=38.84 Aligned_cols=133 Identities=13% Similarity=0.140 Sum_probs=86.9
Q ss_pred HHHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHh
Q 018359 147 KLKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLE 226 (357)
Q Consensus 147 ~le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~ 226 (357)
..++|.....+.-.....++ +....--+...+-.+|.++++++-+-.++..+-..... +.-.+-..-.|..-.+.++
T Consensus 130 d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~--~~l~~~~~~~~~l~a~l~~ 206 (282)
T PF14938_consen 130 DYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLE--NNLLKYSAKEYFLKAILCH 206 (282)
T ss_dssp -HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCC--HCTTGHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhc--ccccchhHHHHHHHHHHHH
Confidence 56677777777766655554 34444556667888999999999999998866433110 0111112223566678888
Q ss_pred hhccChHHHHHHHHHHHHhcCcCchHHHHHHHHHHHHHHhhcCCCCChHhhcccCccccHHHHHHHhhCCHHHHHHHHHH
Q 018359 227 VFNENFPAADQKLSYALINCNPQSEANIRMILKYLIPVKLSIGILPKDWLLEKYNLVEYSNIVQALRRGDLRLLRHALEE 306 (357)
Q Consensus 227 ~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~~LIpv~LllG~~P~~~lL~~~~l~~y~~l~~avr~Gnl~~f~~~l~~ 306 (357)
+..+|+..|.+.++..-..||.=... +. ...-..|++|++.||...|..++.+
T Consensus 207 L~~~D~v~A~~~~~~~~~~~~~F~~s-------------------------~E--~~~~~~l~~A~~~~D~e~f~~av~~ 259 (282)
T PF14938_consen 207 LAMGDYVAARKALERYCSQDPSFASS-------------------------RE--YKFLEDLLEAYEEGDVEAFTEAVAE 259 (282)
T ss_dssp HHTT-HHHHHHHHHHHGTTSTTSTTS-------------------------HH--HHHHHHHHHHHHTT-CCCHHHHCHH
T ss_pred HHcCCHHHHHHHHHHHHhhCCCCCCc-------------------------HH--HHHHHHHHHHHHhCCHHHHHHHHHH
Confidence 99999999999888888777621110 00 0124678999999999999999998
Q ss_pred hhH
Q 018359 307 HED 309 (357)
Q Consensus 307 ~~~ 309 (357)
+..
T Consensus 260 ~d~ 262 (282)
T PF14938_consen 260 YDS 262 (282)
T ss_dssp HTT
T ss_pred Hcc
Confidence 865
No 13
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=92.88 E-value=0.28 Score=35.59 Aligned_cols=62 Identities=15% Similarity=0.083 Sum_probs=51.3
Q ss_pred HHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 179 LFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 179 L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
+-..|++.|+++-+...++.+-... | +-...+|.+|+++..++++.+|...++.++...|.+
T Consensus 3 ~a~~~~~~g~~~~A~~~~~~~l~~~-P--------~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~ 64 (65)
T PF13432_consen 3 LARALYQQGDYDEAIAAFEQALKQD-P--------DNPEAWYLLGRILYQQGRYDEALAYYERALELDPDN 64 (65)
T ss_dssp HHHHHHHCTHHHHHHHHHHHHHCCS-T--------THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHC-C--------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence 3467899999999999999886431 2 367789999999999999999999999999988854
No 14
>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=92.64 E-value=0.15 Score=32.26 Aligned_cols=31 Identities=16% Similarity=-0.014 Sum_probs=27.6
Q ss_pred hhhhhhhHhhhccChHHHHHHHHHHHHhcCc
Q 018359 218 YMYYTGRLEVFNENFPAADQKLSYALINCNP 248 (357)
Q Consensus 218 y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~ 248 (357)
-.|.+|..++..++|.+|.++++.|+...|.
T Consensus 3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~ 33 (34)
T PF00515_consen 3 AYYNLGNAYFQLGDYEEALEYYQRALELDPD 33 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence 3688999999999999999999999999884
No 15
>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=88.79 E-value=2.5 Score=34.75 Aligned_cols=65 Identities=12% Similarity=-0.031 Sum_probs=52.1
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCch
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQSE 251 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~ 251 (357)
.+-.+|++.++++.+...+...-.. .| +-...+|+.|.++...+++.+|...++.|+..+|.+..
T Consensus 56 ~la~~~~~~~~~~~A~~~~~~~~~~-~p--------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~ 120 (135)
T TIGR02552 56 GLAACCQMLKEYEEAIDAYALAAAL-DP--------DDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE 120 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc-CC--------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence 5667888999999998877755322 11 23567799999999999999999999999999997653
No 16
>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=88.68 E-value=2.7 Score=30.06 Aligned_cols=85 Identities=15% Similarity=0.028 Sum_probs=56.8
Q ss_pred HHHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHh
Q 018359 147 KLKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLE 226 (357)
Q Consensus 147 ~le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~ 226 (357)
..+++...+.+.....-.+ . .+...+-.+|...++++.+...+...-.. .|. .. ...+..|.++
T Consensus 15 ~~~~A~~~~~~~~~~~~~~----~---~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~------~~--~~~~~~~~~~ 78 (100)
T cd00189 15 DYDEALEYYEKALELDPDN----A---DAYYNLAAAYYKLGKYEEALEDYEKALEL-DPD------NA--KAYYNLGLAY 78 (100)
T ss_pred cHHHHHHHHHHHHhcCCcc----H---HHHHHHHHHHHHHHHHHHHHHHHHHHHhC-CCc------ch--hHHHHHHHHH
Confidence 3445555555554432221 1 23345667788889988888877755432 121 11 6778899999
Q ss_pred hhccChHHHHHHHHHHHHhcC
Q 018359 227 VFNENFPAADQKLSYALINCN 247 (357)
Q Consensus 227 ~~~~~~~~A~~~L~~A~~~c~ 247 (357)
...+++.+|..++..++..+|
T Consensus 79 ~~~~~~~~a~~~~~~~~~~~~ 99 (100)
T cd00189 79 YKLGKYEEALEAYEKALELDP 99 (100)
T ss_pred HHHHhHHHHHHHHHHHHccCC
Confidence 999999999999999998877
No 17
>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=87.99 E-value=1.5 Score=42.39 Aligned_cols=127 Identities=16% Similarity=0.180 Sum_probs=75.6
Q ss_pred HHHHHHHHHHHHhcCChhhHHHHHHHhhccC---C---------------CCC-----------CCCCccceeehhhhhh
Q 018359 173 LYLTCQLFKIYFKLGTVHLCRSVIRSIETAR---I---------------FDF-----------EEFPKRDKVTYMYYTG 223 (357)
Q Consensus 173 ~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~---~---------------p~~-----------~~~~~~~~v~y~YY~G 223 (357)
+-...+...+|.++|+++++++.+++++..+ + ..+ +.++.+ +.=..=++
T Consensus 131 lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t--~~~lng~A 208 (290)
T PF04733_consen 131 LELLALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGST--PKLLNGLA 208 (290)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--S--HHHHHHHH
T ss_pred ccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCC--HHHHHHHH
Confidence 4455678889999999999999999987431 0 000 112222 22234456
Q ss_pred hHhhhccChHHHHHHHHHHHHhcCcCchHHHHHHHHHHHHHHhhcCCCCC--hHhhcccC-ccccHHHHHHHhhCCHHHH
Q 018359 224 RLEVFNENFPAADQKLSYALINCNPQSEANIRMILKYLIPVKLSIGILPK--DWLLEKYN-LVEYSNIVQALRRGDLRLL 300 (357)
Q Consensus 224 r~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~~LIpv~LllG~~P~--~~lL~~~~-l~~y~~l~~avr~Gnl~~f 300 (357)
...+..++|.+|++.|..|+..-|. + .-.|.-+|.+..++|+-+. .+++.+.. ..+-.|++..+.. .-..|
T Consensus 209 ~~~l~~~~~~eAe~~L~~al~~~~~----~-~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~~~~~~~~-~~~~F 282 (290)
T PF04733_consen 209 VCHLQLGHYEEAEELLEEALEKDPN----D-PDTLANLIVCSLHLGKPTEAAERYLSQLKQSNPNHPLVKDLAE-KEAEF 282 (290)
T ss_dssp HHHHHCT-HHHHHHHHHHHCCC-CC----H-HHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSHHHHHHHH-HHHHH
T ss_pred HHHHHhCCHHHHHHHHHHHHHhccC----C-HHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCCChHHHHHHH-HHHHH
Confidence 6778899999999999998865442 2 2356678889999998753 34555422 1234555555543 23456
Q ss_pred HHHHHHh
Q 018359 301 RHALEEH 307 (357)
Q Consensus 301 ~~~l~~~ 307 (357)
|++..++
T Consensus 283 D~~~~ky 289 (290)
T PF04733_consen 283 DRAVAKY 289 (290)
T ss_dssp HHHHHCC
T ss_pred HHHHHhc
Confidence 6666543
No 18
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=87.44 E-value=1.6 Score=43.49 Aligned_cols=104 Identities=17% Similarity=0.242 Sum_probs=77.3
Q ss_pred CCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCch------HHHHHHHHHHHHHHhhcCCC---CChH---h
Q 018359 209 EFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQSE------ANIRMILKYLIPVKLSIGIL---PKDW---L 276 (357)
Q Consensus 209 ~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~------~n~r~IL~~LIpv~LllG~~---P~~~---l 276 (357)
..|.++-..|.||-|-++.=..+|+.|-.+|..+.-. |..+. .-+.-||.+|| +.|+. |+.. .
T Consensus 176 h~~~k~fL~Y~yYgg~iciglk~fe~Al~~~e~~v~~-Pa~~vs~~hlEaYkkylLvsLI----~~GK~~ql~k~ts~~~ 250 (422)
T KOG2582|consen 176 HLDPKYFLLYLYYGGMICIGLKRFERALYLLEICVTT-PAMAVSHIHLEAYKKYLLVSLI----LTGKVFQLPKNTSQNA 250 (422)
T ss_pred CCCHHHHHHHHHhcceeeeccccHHHHHHHHHHHHhc-chhHHHHHHHHHHHHHHHHHhh----hcCceeeccccchhhh
Confidence 4678899999999999999999999999999888753 32221 24444444444 45764 5432 2
Q ss_pred hccc-Cc-cccHHHHHHHhhCCHHHHHHHHHHhhHHhHhcCch
Q 018359 277 LEKY-NL-VEYSNIVQALRRGDLRLLRHALEEHEDQCISCAGE 317 (357)
Q Consensus 277 L~~~-~l-~~y~~l~~avr~Gnl~~f~~~l~~~~~~f~k~gly 317 (357)
.+-+ ++ .+|.++..+--++.-...+..+.+|.+.|.|+|--
T Consensus 251 ~r~~K~ms~pY~ef~~~Y~~~~~~eLr~lVk~~~~rF~kDnnt 293 (422)
T KOG2582|consen 251 GRFFKPMSNPYHEFLNVYLKDSSTELRTLVKKHSERFTKDNNT 293 (422)
T ss_pred HHhcccCCchHHHHHHHHhcCCcHHHHHHHHHHHHHHhhcCcH
Confidence 2222 23 37999999999999999999999999999999653
No 19
>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=87.33 E-value=0.85 Score=28.52 Aligned_cols=30 Identities=17% Similarity=0.077 Sum_probs=27.9
Q ss_pred hhhhhhhHhhhccChHHHHHHHHHHHHhcC
Q 018359 218 YMYYTGRLEVFNENFPAADQKLSYALINCN 247 (357)
Q Consensus 218 y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~ 247 (357)
.+|-+|.++...+++.+|.+++..|++..|
T Consensus 3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~ 32 (34)
T PF13181_consen 3 AYYNLGKIYEQLGDYEEALEYFEKALELNP 32 (34)
T ss_dssp HHHHHHHHHHHTTSHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence 468899999999999999999999999877
No 20
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=86.82 E-value=3.7 Score=35.09 Aligned_cols=76 Identities=9% Similarity=-0.069 Sum_probs=59.8
Q ss_pred HHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc--hHHH
Q 018359 177 CQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS--EANI 254 (357)
Q Consensus 177 n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~--~~n~ 254 (357)
..+-.++.++|+++-+-..++..-.. .| +-...+|.+|..+...+++.+|.+.+..|+..+|.+. ..++
T Consensus 62 ~~lg~~~~~~g~~~~A~~~y~~Al~l-~p--------~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~ 132 (144)
T PRK15359 62 IALAGTWMMLKEYTTAINFYGHALML-DA--------SHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIR 132 (144)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHhc-CC--------CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHH
Confidence 45667788899999999888855432 12 3356889999999999999999999999999999764 4577
Q ss_pred HHHHHHH
Q 018359 255 RMILKYL 261 (357)
Q Consensus 255 r~IL~~L 261 (357)
..++.++
T Consensus 133 ~~~~~~l 139 (144)
T PRK15359 133 QNAQIMV 139 (144)
T ss_pred HHHHHHH
Confidence 6666543
No 21
>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=86.81 E-value=4.5 Score=28.81 Aligned_cols=64 Identities=14% Similarity=0.022 Sum_probs=49.1
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
.+-.+|++.|+++.+...++.+-.. .| ... ...+..|.++...+++.+|.++++.+....|...
T Consensus 5 ~~a~~~~~~~~~~~A~~~~~~~~~~-~~------~~~--~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~ 68 (100)
T cd00189 5 NLGNLYYKLGDYDEALEYYEKALEL-DP------DNA--DAYYNLAAAYYKLGKYEEALEDYEKALELDPDNA 68 (100)
T ss_pred HHHHHHHHHhcHHHHHHHHHHHHhc-CC------ccH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcch
Confidence 4556788899999988888755432 12 111 5688999999999999999999999999877554
No 22
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=86.77 E-value=2.2 Score=32.62 Aligned_cols=81 Identities=17% Similarity=0.253 Sum_probs=54.3
Q ss_pred HHHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHh
Q 018359 147 KLKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLE 226 (357)
Q Consensus 147 ~le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~ 226 (357)
..+.|.....++...--.+ + ....++ .+-.+||+.|+++-|-.+++..+.. + ..+..+|..|+.+
T Consensus 4 ~y~~Ai~~~~k~~~~~~~~-~-~~~~~~---~la~~~~~~~~y~~A~~~~~~~~~~--------~--~~~~~~~l~a~~~ 68 (84)
T PF12895_consen 4 NYENAIKYYEKLLELDPTN-P-NSAYLY---NLAQCYFQQGKYEEAIELLQKLKLD--------P--SNPDIHYLLARCL 68 (84)
T ss_dssp -HHHHHHHHHHHHHHHCGT-H-HHHHHH---HHHHHHHHTTHHHHHHHHHHCHTHH--------H--CHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHCCCC-h-hHHHHH---HHHHHHHHCCCHHHHHHHHHHhCCC--------C--CCHHHHHHHHHHH
Confidence 3456666666665543321 1 222222 3788999999999999998762211 1 1266777889999
Q ss_pred hhccChHHHHHHHHHH
Q 018359 227 VFNENFPAADQKLSYA 242 (357)
Q Consensus 227 ~~~~~~~~A~~~L~~A 242 (357)
+-.++|.+|.++|..|
T Consensus 69 ~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 69 LKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHTT-HHHHHHHHHHH
T ss_pred HHhCCHHHHHHHHhcC
Confidence 9999999999999876
No 23
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=84.28 E-value=1.3 Score=27.25 Aligned_cols=31 Identities=10% Similarity=0.039 Sum_probs=28.0
Q ss_pred hhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 219 MYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 219 ~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
.|.+|+.+...+++.+|.+.|+..+...|.+
T Consensus 3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~s 33 (33)
T PF13174_consen 3 LYRLARCYYKLGDYDEAIEYFQRLIKRYPDS 33 (33)
T ss_dssp HHHHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence 5889999999999999999999999988853
No 24
>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=83.60 E-value=1.6 Score=31.72 Aligned_cols=34 Identities=12% Similarity=0.089 Sum_probs=30.2
Q ss_pred ehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 217 TYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 217 ~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
...+-.|..++..++|.+|.++++.|+..+|.+.
T Consensus 4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~ 37 (69)
T PF13414_consen 4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNA 37 (69)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCH
Confidence 3567889999999999999999999999998654
No 25
>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=83.40 E-value=1.4 Score=32.95 Aligned_cols=71 Identities=14% Similarity=0.043 Sum_probs=54.1
Q ss_pred HHHHHHHHHHHHHhcCChhhHHHHHHHhhcc--CCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhc
Q 018359 172 ALYLTCQLFKIYFKLGTVHLCRSVIRSIETA--RIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINC 246 (357)
Q Consensus 172 ~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~--~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c 246 (357)
+....+.+-.+|+++|+++.+...++..-.- ..++ ...+.+...+-+|.++...+++.+|.++++.|+..+
T Consensus 4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~----~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i~ 76 (78)
T PF13424_consen 4 TANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGD----DHPDTANTLNNLGECYYRLGDYEEALEYYQKALDIF 76 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTT----HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence 3445678889999999999999887744321 1211 223568999999999999999999999999999754
No 26
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=82.28 E-value=2.1 Score=28.88 Aligned_cols=32 Identities=16% Similarity=-0.105 Sum_probs=29.0
Q ss_pred hhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 219 MYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 219 ~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
.+-+|+.+.-.|++.+|...|+.++..+|.+.
T Consensus 4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~ 35 (44)
T PF13428_consen 4 WLALARAYRRLGQPDEAERLLRRALALDPDDP 35 (44)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence 46689999999999999999999999999765
No 27
>KOG2300 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.11 E-value=18 Score=37.72 Aligned_cols=145 Identities=16% Similarity=0.152 Sum_probs=96.7
Q ss_pred CchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhc
Q 018359 167 SKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINC 246 (357)
Q Consensus 167 sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c 246 (357)
+++....+..-.+--+|.+.+...-...++.+|.... ..+..+......++|-.|.+.+++++|.||...|.+-+...
T Consensus 398 ~~~dl~a~~nlnlAi~YL~~~~~ed~y~~ld~i~p~n--t~s~ssq~l~a~~~~v~glfaf~qn~lnEaK~~l~e~Lkma 475 (629)
T KOG2300|consen 398 ESIDLQAFCNLNLAISYLRIGDAEDLYKALDLIGPLN--TNSLSSQRLEASILYVYGLFAFKQNDLNEAKRFLRETLKMA 475 (629)
T ss_pred hHHHHHHHHHHhHHHHHHHhccHHHHHHHHHhcCCCC--CCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc
Confidence 5666666777778889999999888888888876431 12233445667789999999999999999999999999876
Q ss_pred CcCchHHHHHHHHHHHHHH---hhc--------CCCCChHhhcccC-c-------cccHHHHHHHhhCCHHHHHHHHHHh
Q 018359 247 NPQSEANIRMILKYLIPVK---LSI--------GILPKDWLLEKYN-L-------VEYSNIVQALRRGDLRLLRHALEEH 307 (357)
Q Consensus 247 ~~~~~~n~r~IL~~LIpv~---Lll--------G~~P~~~lL~~~~-l-------~~y~~l~~avr~Gnl~~f~~~l~~~ 307 (357)
++..+-|+.--+|+-.+ +.+ |-.|+.++-+|-+ . ..|.+|-++...--...-.++..++
T Consensus 476 --naed~~rL~a~~LvLLs~v~lslgn~~es~nmvrpamqlAkKi~Di~vqLws~si~~~L~~a~g~~~~~~e~e~~~~~ 553 (629)
T KOG2300|consen 476 --NAEDLNRLTACSLVLLSHVFLSLGNTVESRNMVRPAMQLAKKIPDIPVQLWSSSILTDLYQALGEKGNEMENEAFRKH 553 (629)
T ss_pred --chhhHHHHHHHHHHHHHHHHHHhcchHHHHhccchHHHHHhcCCCchHHHHHHHHHHHHHHHhCcchhhHHHHHHHHH
Confidence 34455555433333333 223 4567777777643 2 3577787776542244555555554
Q ss_pred h---HHhHhcC
Q 018359 308 E---DQCISCA 315 (357)
Q Consensus 308 ~---~~f~k~g 315 (357)
+ ..++.+|
T Consensus 554 ql~Sr~lla~~ 564 (629)
T KOG2300|consen 554 QLQSRLLLADG 564 (629)
T ss_pred HHHHHHHHhcc
Confidence 3 2455665
No 28
>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=79.30 E-value=5.2 Score=28.92 Aligned_cols=62 Identities=16% Similarity=0.079 Sum_probs=48.0
Q ss_pred HHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhcc-ChHHHHHHHHHHHHhcC
Q 018359 177 CQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNE-NFPAADQKLSYALINCN 247 (357)
Q Consensus 177 n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~-~~~~A~~~L~~A~~~c~ 247 (357)
..+=.+|++.++++-+...++..-.. .| ..+..+|.+|..++..+ ++.+|.++++.|+..-|
T Consensus 7 ~~~g~~~~~~~~~~~A~~~~~~ai~~-~p--------~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P 69 (69)
T PF13414_consen 7 YNLGQIYFQQGDYEEAIEYFEKAIEL-DP--------NNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP 69 (69)
T ss_dssp HHHHHHHHHTTHHHHHHHHHHHHHHH-ST--------THHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHc-CC--------CCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence 35557889999999998877743322 11 23458999999999999 79999999999998655
No 29
>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=76.57 E-value=3.3 Score=23.53 Aligned_cols=30 Identities=17% Similarity=0.032 Sum_probs=26.2
Q ss_pred hhhhhhhHhhhccChHHHHHHHHHHHHhcC
Q 018359 218 YMYYTGRLEVFNENFPAADQKLSYALINCN 247 (357)
Q Consensus 218 y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~ 247 (357)
..+-+|..++..+++.+|..+++.|+..-|
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~ 32 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKALELDP 32 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence 457789999999999999999999987655
No 30
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=73.81 E-value=53 Score=27.62 Aligned_cols=82 Identities=16% Similarity=0.151 Sum_probs=58.3
Q ss_pred HHHHHHHHHHHHHHhhhCCCC-chhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhH
Q 018359 147 KLKAAGSFLMKVFGVLAGKGS-KRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRL 225 (357)
Q Consensus 147 ~le~~a~~l~~~F~~~~~D~s-Kk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~ 225 (357)
.+++|...+.++.... .|+. +... --.|-+++...|+++-+...+..+.... -.-.+....|.+
T Consensus 63 ~~~~A~~~l~~~~~~~-~d~~l~~~a----~l~LA~~~~~~~~~d~Al~~L~~~~~~~----------~~~~~~~~~Gdi 127 (145)
T PF09976_consen 63 DYDEAKAALEKALANA-PDPELKPLA----RLRLARILLQQGQYDEALATLQQIPDEA----------FKALAAELLGDI 127 (145)
T ss_pred CHHHHHHHHHHHHhhC-CCHHHHHHH----HHHHHHHHHHcCCHHHHHHHHHhccCcc----------hHHHHHHHHHHH
Confidence 5677778887776654 3321 1112 2246789999999999999987654221 123367789999
Q ss_pred hhhccChHHHHHHHHHHH
Q 018359 226 EVFNENFPAADQKLSYAL 243 (357)
Q Consensus 226 ~~~~~~~~~A~~~L~~A~ 243 (357)
++-+|++.+|...++.|+
T Consensus 128 ~~~~g~~~~A~~~y~~Al 145 (145)
T PF09976_consen 128 YLAQGDYDEARAAYQKAL 145 (145)
T ss_pred HHHCCCHHHHHHHHHHhC
Confidence 999999999999998874
No 31
>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=71.88 E-value=16 Score=28.60 Aligned_cols=66 Identities=12% Similarity=-0.009 Sum_probs=52.5
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCcc-ceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKR-DKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~-~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
.+-.+|++.|+++.+...++.+-.. .| .. .....+|..|..+.-.+++.+|..++..++..-|.+.
T Consensus 44 ~l~~~~~~~~~~~~A~~~~~~~~~~-~p------~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~ 110 (119)
T TIGR02795 44 WLGEAYYAQGKYADAAKAFLAVVKK-YP------KSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKRYPGSS 110 (119)
T ss_pred HHHHHHHhhccHHHHHHHHHHHHHH-CC------CCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHHCcCCh
Confidence 4677899999999999999876532 12 21 2245589999999999999999999999999977654
No 32
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=71.69 E-value=45 Score=36.06 Aligned_cols=85 Identities=14% Similarity=0.044 Sum_probs=62.5
Q ss_pred HHHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHH-hhccCCCCCCCCCccceeehhhhhhhH
Q 018359 147 KLKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRS-IETARIFDFEEFPKRDKVTYMYYTGRL 225 (357)
Q Consensus 147 ~le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~-i~~~~~p~~~~~~~~~~v~y~YY~Gr~ 225 (357)
...++.+.-+++.+.|-+. -.+ .|.|-.||-..|+++.+..+.+. ++- +|.+.... =-+|.+
T Consensus 335 ~V~ea~~cYnkaL~l~p~h---ada----m~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~--------nNLa~i 397 (966)
T KOG4626|consen 335 SVTEAVDCYNKALRLCPNH---ADA----MNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAH--------NNLASI 397 (966)
T ss_pred chHHHHHHHHHHHHhCCcc---HHH----HHHHHHHHHHhccchHHHHHHHHHHhh--Chhhhhhh--------hhHHHH
Confidence 4556677777777777663 122 45666799999999999998874 332 45544321 247888
Q ss_pred hhhccChHHHHHHHHHHHHhcCc
Q 018359 226 EVFNENFPAADQKLSYALINCNP 248 (357)
Q Consensus 226 ~~~~~~~~~A~~~L~~A~~~c~~ 248 (357)
|=.++++.+|-.|...|++--|.
T Consensus 398 ~kqqgnl~~Ai~~YkealrI~P~ 420 (966)
T KOG4626|consen 398 YKQQGNLDDAIMCYKEALRIKPT 420 (966)
T ss_pred HHhcccHHHHHHHHHHHHhcCch
Confidence 89999999999999999998884
No 33
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=69.76 E-value=5 Score=25.87 Aligned_cols=27 Identities=19% Similarity=0.111 Sum_probs=22.7
Q ss_pred hhhhhHhhhccChHHHHHHHHHHHHhc
Q 018359 220 YYTGRLEVFNENFPAADQKLSYALINC 246 (357)
Q Consensus 220 YY~Gr~~~~~~~~~~A~~~L~~A~~~c 246 (357)
..+|++|.-.++|.+|.+.++.|+..+
T Consensus 3 ~~Lg~~~~~~g~~~~Ai~~y~~aL~l~ 29 (36)
T PF13176_consen 3 NNLGRIYRQQGDYEKAIEYYEQALALA 29 (36)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence 468999999999999999999977543
No 34
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=65.42 E-value=91 Score=26.97 Aligned_cols=76 Identities=14% Similarity=-0.032 Sum_probs=56.1
Q ss_pred chhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcC
Q 018359 168 KRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCN 247 (357)
Q Consensus 168 Kk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~ 247 (357)
.+..-......+...|.+.|+++-+...++..-.. .|+ ..+....++-+|..+...++|.+|.+++..|+...|
T Consensus 30 ~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~~~-----~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p 103 (172)
T PRK02603 30 KKAKEAFVYYRDGMSAQADGEYAEALENYEEALKL-EED-----PNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP 103 (172)
T ss_pred cHhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-hhc-----cchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc
Confidence 34444444567788999999999998877744321 111 112356789999999999999999999999999877
Q ss_pred cC
Q 018359 248 PQ 249 (357)
Q Consensus 248 ~~ 249 (357)
..
T Consensus 104 ~~ 105 (172)
T PRK02603 104 KQ 105 (172)
T ss_pred cc
Confidence 54
No 35
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=64.94 E-value=12 Score=22.92 Aligned_cols=30 Identities=10% Similarity=0.142 Sum_probs=25.9
Q ss_pred HHHHHHHHHHhcCChhhHHHHHHHhhccCC
Q 018359 175 LTCQLFKIYFKLGTVHLCRSVIRSIETARI 204 (357)
Q Consensus 175 l~n~L~kiYfkl~~~~l~~nlik~i~~~~~ 204 (357)
.-|.+++.|.+.|+++.+..+++.++...+
T Consensus 3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv 32 (34)
T PF13812_consen 3 TYNALLRACAKAGDPDAALQLFDEMKEQGV 32 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence 357899999999999999999999986543
No 36
>TIGR01716 RGG_Cterm transcriptional activator, Rgg/GadR/MutR family, C-terminal domain. This model describes the whole, except for a 60 residue N-terminal helix-turn-helix DNA-binding domain (PFAM pfam01381) of the family of proteins related to the transcriptional regulator Rgg, also called RopB. Rgg is required for secretion of several proteins, including a cysteine proteinase associated with virulence. GadR is a positive regulator of a glutamate-dependent acid resistance mechanism. MutR is a transcriptional activator for mutacin biosynthesis genes in Streptococcus mutans. This family appears restricted to the low-GC Gram-positive bacteria, including at least eight members in Lactococcus lactis.
Probab=63.65 E-value=56 Score=29.42 Aligned_cols=72 Identities=7% Similarity=0.092 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhc
Q 018359 172 ALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINC 246 (357)
Q Consensus 172 ~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c 246 (357)
+..++...+-++.+-+++..|..++..++.-..|+ .-.-+++.+.||.|.+...+++-.++.+....|+.-+
T Consensus 127 i~~il~N~~~~~i~~~~~~~a~~~l~~l~~l~~~~---~~~~~ki~~~f~~~l~~y~~g~~~~~~~~i~~~i~~l 198 (220)
T TIGR01716 127 VIQLLLNIAVLLIEKNEFSYAQYFLEKLEKILDPE---DDLYERILFNFLKGIILYKEGQKESGEEKIEQAIEIF 198 (220)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhchh---hhHHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHH
Confidence 33344444445556678899999999998754442 1233799999999999999998777777777776543
No 37
>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=63.16 E-value=52 Score=28.28 Aligned_cols=67 Identities=10% Similarity=-0.025 Sum_probs=50.6
Q ss_pred HHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 176 TCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 176 ~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
...+-.+|++.|+++-+...+...-.. +. ........+.+|..+...+++.+|...+..|+...|..
T Consensus 102 ~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~ 168 (234)
T TIGR02521 102 LNNYGTFLCQQGKYEQAMQQFEQAIED--PL-----YPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQR 168 (234)
T ss_pred HHHHHHHHHHcccHHHHHHHHHHHHhc--cc-----cccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCC
Confidence 345667889999999999888866532 11 12233456678999999999999999999999987754
No 38
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=61.97 E-value=9.6 Score=24.31 Aligned_cols=28 Identities=14% Similarity=-0.065 Sum_probs=23.5
Q ss_pred hhhhhhHhhhccChHHHHHHHHHHHHhc
Q 018359 219 MYYTGRLEVFNENFPAADQKLSYALINC 246 (357)
Q Consensus 219 ~YY~Gr~~~~~~~~~~A~~~L~~A~~~c 246 (357)
..-+|..+...++|.+|...+..|+..+
T Consensus 5 ~~~la~~~~~~g~~~~A~~~~~~al~~~ 32 (42)
T PF13374_consen 5 LNNLANAYRAQGRYEEALELLEEALEIR 32 (42)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhhcchhhHHHHHHHHHH
Confidence 3457899999999999999999999865
No 39
>PRK11189 lipoprotein NlpI; Provisional
Probab=61.88 E-value=14 Score=35.43 Aligned_cols=43 Identities=14% Similarity=0.094 Sum_probs=35.6
Q ss_pred eehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCchHHHHHHH
Q 018359 216 VTYMYYTGRLEVFNENFPAADQKLSYALINCNPQSEANIRMIL 258 (357)
Q Consensus 216 v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL 258 (357)
..-+||+|+.+...+++.+|..++..|+...|++....+-..+
T Consensus 236 ~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~e~~~~~~ 278 (296)
T PRK11189 236 CETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFVEHRYALL 278 (296)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHHHHHHHHH
Confidence 4468999999999999999999999999998877655444333
No 40
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=61.82 E-value=36 Score=30.76 Aligned_cols=80 Identities=9% Similarity=-0.004 Sum_probs=55.1
Q ss_pred HHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCC-----CCC---------CCCccceeehhhhhhhHhhhccChHHHH
Q 018359 171 GALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIF-----DFE---------EFPKRDKVTYMYYTGRLEVFNENFPAAD 236 (357)
Q Consensus 171 g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p-----~~~---------~~~~~~~v~y~YY~Gr~~~~~~~~~~A~ 236 (357)
+++.+.....-.||++|+++....=-..+.....+ ..+ .-...+-+...+.+|++++..+++.+|.
T Consensus 14 ~~~~~~~~~~~~Y~~~g~~~~v~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~~~A~ 93 (198)
T PRK10370 14 LTILMVFLCVGSYLLSPKWQAVRAEYQRLADPLHQFASQQTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDYDNAL 93 (198)
T ss_pred HHHHHHHHHHHHHHHcchHHHHHHHHHHHhCccccccCchhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence 55666777788999999987765544332211000 000 0112344668899999999999999999
Q ss_pred HHHHHHHHhcCcCc
Q 018359 237 QKLSYALINCNPQS 250 (357)
Q Consensus 237 ~~L~~A~~~c~~~~ 250 (357)
+.+..|++.-|.+.
T Consensus 94 ~a~~~Al~l~P~~~ 107 (198)
T PRK10370 94 LAYRQALQLRGENA 107 (198)
T ss_pred HHHHHHHHhCCCCH
Confidence 99999999988553
No 41
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=61.56 E-value=1.2e+02 Score=27.17 Aligned_cols=95 Identities=6% Similarity=-0.047 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhc--------CChhhHHHHHHHhhccCCCCCCCCCcccee--
Q 018359 147 KLKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKL--------GTVHLCRSVIRSIETARIFDFEEFPKRDKV-- 216 (357)
Q Consensus 147 ~le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl--------~~~~l~~nlik~i~~~~~p~~~~~~~~~~v-- 216 (357)
..++|...+.+..+..-++..-..+.+. +-.+|++. ++++.+...+..+-.. .|.- +..+..
T Consensus 85 ~~~~A~~~~~~~l~~~p~~~~~~~a~~~----~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~p~~---~~~~~a~~ 156 (235)
T TIGR03302 85 DYAEAIAAADRFIRLHPNHPDADYAYYL----RGLSNYNQIDRVDRDQTAAREAFEAFQELIRR-YPNS---EYAPDAKK 156 (235)
T ss_pred CHHHHHHHHHHHHHHCcCCCchHHHHHH----HHHHHHHhcccccCCHHHHHHHHHHHHHHHHH-CCCC---hhHHHHHH
Confidence 4556666666665543332222223333 33445544 5666666666655322 2321 111111
Q ss_pred ----------ehhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 217 ----------TYMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 217 ----------~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
.+.+.+|.+++-.+++.+|...++.++..+|.+
T Consensus 157 ~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~ 199 (235)
T TIGR03302 157 RMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDT 199 (235)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCC
Confidence 235689999999999999999999999999865
No 42
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=61.53 E-value=30 Score=33.62 Aligned_cols=65 Identities=9% Similarity=0.090 Sum_probs=36.5
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcC
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCN 247 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~ 247 (357)
.+-.+|++.|+++-+..+++.+... |+ .+........+.+|..++-.+++.+|...+..+....|
T Consensus 74 ~la~~~~~~g~~~~A~~~~~~~l~~--~~---~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~~ 138 (389)
T PRK11788 74 ALGNLFRRRGEVDRAIRIHQNLLSR--PD---LTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEGD 138 (389)
T ss_pred HHHHHHHHcCcHHHHHHHHHHHhcC--CC---CCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCc
Confidence 4555666677776666666654432 11 11222334455666666666777777766666665433
No 43
>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=61.43 E-value=40 Score=26.21 Aligned_cols=66 Identities=8% Similarity=0.016 Sum_probs=49.1
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
.+-..+++.|++.-+...+..+... .|+ .+ ....-+|.+|+.++-.++|.+|...+..+....|.+
T Consensus 7 ~~~~~~~~~~~~~~A~~~~~~~~~~-~~~---~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~ 72 (119)
T TIGR02795 7 DAALLVLKAGDYADAIQAFQAFLKK-YPK---ST--YAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKS 72 (119)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHH-CCC---cc--ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCC
Confidence 4456678889999888888766532 221 11 123447889999999999999999999999988754
No 44
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=61.05 E-value=36 Score=33.09 Aligned_cols=70 Identities=17% Similarity=0.088 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCc
Q 018359 175 LTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNP 248 (357)
Q Consensus 175 l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~ 248 (357)
..+.+..+|.+.|+++-+...++.+-... |. .+......|++-+|..++-++++.+|.+.+..++...|.
T Consensus 143 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~---~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~ 212 (389)
T PRK11788 143 ALQQLLEIYQQEKDWQKAIDVAERLEKLG-GD---SLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQ 212 (389)
T ss_pred HHHHHHHHHHHhchHHHHHHHHHHHHHhc-CC---cchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcC
Confidence 34566677888888888777777654321 11 111233445555677777777777777777777776554
No 45
>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=59.27 E-value=11 Score=28.04 Aligned_cols=32 Identities=13% Similarity=-0.147 Sum_probs=27.5
Q ss_pred eeehhhhhhhHhhhccChHHHHHHHHHHHHhc
Q 018359 215 KVTYMYYTGRLEVFNENFPAADQKLSYALINC 246 (357)
Q Consensus 215 ~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c 246 (357)
..+..+.+|.++...++|.+|.++++.|+..+
T Consensus 4 ~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~ 35 (78)
T PF13424_consen 4 TANAYNNLARVYRELGRYDEALDYYEKALDIE 35 (78)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 45667899999999999999999999999874
No 46
>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A.
Probab=57.61 E-value=16 Score=26.22 Aligned_cols=32 Identities=13% Similarity=-0.005 Sum_probs=28.1
Q ss_pred hhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 218 YMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 218 y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
+.||++.-+.--++|.+|.++...+++.-|.+
T Consensus 3 ~lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~N 34 (53)
T PF14853_consen 3 CLYYLAIGHYKLGEYEKARRYCDALLEIEPDN 34 (53)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHTTS-
T ss_pred hHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCc
Confidence 68999999999999999999999999998854
No 47
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=57.55 E-value=1.7e+02 Score=27.40 Aligned_cols=137 Identities=11% Similarity=0.098 Sum_probs=82.2
Q ss_pred HHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCchHHHHHHHH
Q 018359 180 FKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQSEANIRMILK 259 (357)
Q Consensus 180 ~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~ 259 (357)
-..+++-|+++.+...++.+... .|. -+..++. .|.+|..++-.++|.+|...++..++.-|.+... .-++-
T Consensus 39 A~~~~~~g~y~~Ai~~f~~l~~~-yP~---s~~a~~a--~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~--~~a~Y 110 (243)
T PRK10866 39 AQQKLQDGNWKQAITQLEALDNR-YPF---GPYSQQV--QLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNI--DYVLY 110 (243)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHh-CCC---ChHHHHH--HHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCch--HHHHH
Confidence 34567789999999999888754 331 1333444 6899999999999999999999999998866421 11111
Q ss_pred HHHHHHhhc------CCCC--C---------------hHhhcccCccccHHHHHHHhhCCHHHHHHHHHHhh----HHhH
Q 018359 260 YLIPVKLSI------GILP--K---------------DWLLEKYNLVEYSNIVQALRRGDLRLLRHALEEHE----DQCI 312 (357)
Q Consensus 260 ~LIpv~Lll------G~~P--~---------------~~lL~~~~l~~y~~l~~avr~Gnl~~f~~~l~~~~----~~f~ 312 (357)
.+.-+.+-+ +..+ . ..++++||=..|.+.++.- +......|.+|| .++.
T Consensus 111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~r----l~~l~~~la~~e~~ia~~Y~ 186 (243)
T PRK10866 111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKR----LVFLKDRLAKYELSVAEYYT 186 (243)
T ss_pred HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHH----HHHHHHHHHHHHHHHHHHHH
Confidence 111111111 1111 0 1344556555565555421 233444555553 3678
Q ss_pred hcCchh-hhhhhhHHHh
Q 018359 313 SCAGET-RAPSLSKIVQ 328 (357)
Q Consensus 313 k~glyl-llerlr~lv~ 328 (357)
++|-|. .+.|.+.++-
T Consensus 187 ~~~~y~AA~~r~~~v~~ 203 (243)
T PRK10866 187 KRGAYVAVVNRVEQMLR 203 (243)
T ss_pred HcCchHHHHHHHHHHHH
Confidence 888887 6677776653
No 48
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=55.93 E-value=30 Score=32.43 Aligned_cols=88 Identities=11% Similarity=0.063 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhh
Q 018359 148 LKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEV 227 (357)
Q Consensus 148 le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~ 227 (357)
.++|.+++.+.|..-. .. ......+.+|.+.+..+-+..+++.+... + . ..+-..|.+..|.++.
T Consensus 93 ~~~A~~~~~~~~~~~~-----~~---~~l~~~l~~~~~~~~~~~~~~~l~~~~~~--~---~--~~~~~~~~~~~a~~~~ 157 (280)
T PF13429_consen 93 PEEALKLAEKAYERDG-----DP---RYLLSALQLYYRLGDYDEAEELLEKLEEL--P---A--APDSARFWLALAEIYE 157 (280)
T ss_dssp ---------------------------------H-HHHTT-HHHHHHHHHHHHH---T--------T-HHHHHHHHHHHH
T ss_pred cccccccccccccccc-----cc---chhhHHHHHHHHHhHHHHHHHHHHHHHhc--c---C--CCCCHHHHHHHHHHHH
Confidence 3455666666664321 11 12345677899999999999999987742 1 1 2255778899999999
Q ss_pred hccChHHHHHHHHHHHHhcCcCc
Q 018359 228 FNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 228 ~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
-.|+..+|.+.+..|+..-|.+.
T Consensus 158 ~~G~~~~A~~~~~~al~~~P~~~ 180 (280)
T PF13429_consen 158 QLGDPDKALRDYRKALELDPDDP 180 (280)
T ss_dssp HCCHHHHHHHHHHHHHHH-TT-H
T ss_pred HcCCHHHHHHHHHHHHHcCCCCH
Confidence 99999999999999999988654
No 49
>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=54.44 E-value=82 Score=26.99 Aligned_cols=63 Identities=11% Similarity=-0.009 Sum_probs=39.5
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
.+-..|++.|+++-+...+...-.. .| . .....+.+|.++...+++.+|.+.+..|+...|..
T Consensus 36 ~la~~~~~~~~~~~A~~~~~~~l~~-~p------~--~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~ 98 (234)
T TIGR02521 36 QLALGYLEQGDLEVAKENLDKALEH-DP------D--DYLAYLALALYYQQLGELEKAEDSFRRALTLNPNN 98 (234)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHh-Cc------c--cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence 4556777777777777666543221 11 1 12455667777777777777777777777766644
No 50
>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=53.92 E-value=88 Score=25.28 Aligned_cols=65 Identities=8% Similarity=-0.055 Sum_probs=50.6
Q ss_pred HHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 176 TCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 176 ~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
...+-..|++.+++.-+...+..+-.. .|. -....+.+|..+...+++.+|...+..|....|.+
T Consensus 20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~-~p~--------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~ 84 (135)
T TIGR02552 20 IYALAYNLYQQGRYDEALKLFQLLAAY-DPY--------NSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDD 84 (135)
T ss_pred HHHHHHHHHHcccHHHHHHHHHHHHHh-CCC--------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 345666788999999999888876432 121 23677899999999999999999999999887754
No 51
>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=53.32 E-value=79 Score=28.15 Aligned_cols=91 Identities=11% Similarity=0.108 Sum_probs=62.3
Q ss_pred HHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhh
Q 018359 148 LKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEV 227 (357)
Q Consensus 148 le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~ 227 (357)
++.|.+...++..-|.+. +.+.. +.-.++++.+-.++...+.+.+...++.. .. .-+..-+.+.+=|.|..++
T Consensus 52 ~~~A~k~y~~~~~~~~~~-~~~id---~~l~~irv~i~~~d~~~v~~~i~ka~~~~--~~-~~d~~~~nrlk~~~gL~~l 124 (177)
T PF10602_consen 52 LEEALKAYSRARDYCTSP-GHKID---MCLNVIRVAIFFGDWSHVEKYIEKAESLI--EK-GGDWERRNRLKVYEGLANL 124 (177)
T ss_pred HHHHHHHHHHHhhhcCCH-HHHHH---HHHHHHHHHHHhCCHHHHHHHHHHHHHHH--hc-cchHHHHHHHHHHHHHHHH
Confidence 344445555555545442 22333 33378899999999999999888777641 11 1234455668999999999
Q ss_pred hccChHHHHHHHHHHHHh
Q 018359 228 FNENFPAADQKLSYALIN 245 (357)
Q Consensus 228 ~~~~~~~A~~~L~~A~~~ 245 (357)
.+++|.+|-+.|..+...
T Consensus 125 ~~r~f~~AA~~fl~~~~t 142 (177)
T PF10602_consen 125 AQRDFKEAAELFLDSLST 142 (177)
T ss_pred HhchHHHHHHHHHccCcC
Confidence 999999999988777643
No 52
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=51.71 E-value=1.8e+02 Score=32.88 Aligned_cols=167 Identities=14% Similarity=0.037 Sum_probs=94.1
Q ss_pred hhHHHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhh
Q 018359 145 PEKLKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGR 224 (357)
Q Consensus 145 ~~~le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr 224 (357)
.+...++-..+++.|..=-.++ . +.|.|-.-||--+++..|-.+--+.-.. .+..+-...=+|.+||
T Consensus 249 ~~s~~~~~~ll~~ay~~n~~nP----~---~l~~LAn~fyfK~dy~~v~~la~~ai~~------t~~~~~~aes~Y~~gR 315 (1018)
T KOG2002|consen 249 SDSYKKGVQLLQRAYKENNENP----V---ALNHLANHFYFKKDYERVWHLAEHAIKN------TENKSIKAESFYQLGR 315 (1018)
T ss_pred hHHHHHHHHHHHHHHhhcCCCc----H---HHHHHHHHHhhcccHHHHHHHHHHHHHh------hhhhHHHHHHHHHHHH
Confidence 4567777788888887644332 2 3344444555556666665544332211 1233444455799999
Q ss_pred HhhhccChHHHHHHHHHHHHhcCcCc--------------------hHHHHHHHHH-------HHHHHhh-c--CCCCCh
Q 018359 225 LEVFNENFPAADQKLSYALINCNPQS--------------------EANIRMILKY-------LIPVKLS-I--GILPKD 274 (357)
Q Consensus 225 ~~~~~~~~~~A~~~L~~A~~~c~~~~--------------------~~n~r~IL~~-------LIpv~Ll-l--G~~P~~ 274 (357)
-|=-+|||.+|+.++..|..-.|... ..+...+++- +-..+.+ . ++-|..
T Consensus 316 s~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~ 395 (1018)
T KOG2002|consen 316 SYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEK 395 (1018)
T ss_pred HHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHH
Confidence 99999999999999999998666541 1133333321 0111111 1 111111
Q ss_pred H-----hh----cccCc--cccHHHHHHHhhCCHHHHHHHHHHhhHHhHhcCchhhhhhhh
Q 018359 275 W-----LL----EKYNL--VEYSNIVQALRRGDLRLLRHALEEHEDQCISCAGETRAPSLS 324 (357)
Q Consensus 275 ~-----lL----~~~~l--~~y~~l~~avr~Gnl~~f~~~l~~~~~~f~k~glylllerlr 324 (357)
. ++ +..+- ..|..+.+....+|..+=-.++.+--+.+...|-.+-.|-+.
T Consensus 396 ~d~a~~~l~K~~~~~~~d~~a~l~laql~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LN 456 (1018)
T KOG2002|consen 396 RDKASNVLGKVLEQTPVDSEAWLELAQLLEQTDPWASLDAYGNALDILESKGKQIPPEVLN 456 (1018)
T ss_pred HHHHHHHHHHHHhcccccHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence 0 11 11111 247888888888888776666666666677666554434333
No 53
>PF07729 FCD: FCD domain; InterPro: IPR011711 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector binding or oligomerisation domain at the C terminus. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family (IPR000524 from INTERPRO), and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR (IPR008920 from INTERPRO), HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA []. This entry represents the C-terminal ligand binding domain of many members of the GntR family. This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in P45427 from SWISSPROT and P31460 from SWISSPROT that are regulators of sugar biosynthesis operons.; PDB: 3SXK_A 3SXY_A 3SXM_B 3SXZ_A 3FMS_A 2DI3_B 2HS5_A 3IHU_B 3C7J_A.
Probab=51.49 E-value=91 Score=24.29 Aligned_cols=73 Identities=26% Similarity=0.267 Sum_probs=40.2
Q ss_pred hHHHHHHHHHHHHhcCcCc--hHHHHHHHHHHHHHHhhcCCCCChHhhcccCccccHHHHHHHhhCCHHHHHHHHHHh
Q 018359 232 FPAADQKLSYALINCNPQS--EANIRMILKYLIPVKLSIGILPKDWLLEKYNLVEYSNIVQALRRGDLRLLRHALEEH 307 (357)
Q Consensus 232 ~~~A~~~L~~A~~~c~~~~--~~n~r~IL~~LIpv~LllG~~P~~~lL~~~~l~~y~~l~~avr~Gnl~~f~~~l~~~ 307 (357)
+.++...|-.++-.+..+. ....+.+...+-++....+. ...-++. ....+..+++||+.||...-.+++.+|
T Consensus 48 ~~~~~~~fh~~l~~~~~N~~l~~~~~~l~~~~~~~~~~~~~--~~~~~~~-~~~~h~~i~~ai~~~d~~~a~~~~~~h 122 (125)
T PF07729_consen 48 FIEADIEFHRALAEASGNPYLIQILERLRDRLQRFRYLSIR--SKEDLER-SLEEHREIIDAIRAGDPEAAREALRQH 122 (125)
T ss_dssp HHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCC--HHHHHHH-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHHHHHhhh--hhhhhhh-hHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 4556666666665544332 12223333333332222222 2222221 134689999999999999999999887
No 54
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=50.88 E-value=1.1e+02 Score=33.59 Aligned_cols=144 Identities=13% Similarity=0.033 Sum_probs=91.9
Q ss_pred HHHHHHHHHhcCChhhHHHHHHHhhccCCCC-------CCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCc
Q 018359 176 TCQLFKIYFKLGTVHLCRSVIRSIETARIFD-------FEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNP 248 (357)
Q Consensus 176 ~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~-------~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~ 248 (357)
...|+..|.+.++++-+...+..+... .|+ ....|..+.....+..|.++...+++.+|.+.|+.+...-|.
T Consensus 313 ~~~L~~a~~~~g~~~eA~~~l~~~~~~-~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~ 391 (765)
T PRK10049 313 LADLFYSLLESENYPGALTVTAHTINN-SPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPG 391 (765)
T ss_pred HHHHHHHHHhcccHHHHHHHHHHHhhc-CCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence 345666788999999998888877654 221 123456667778899999999999999999999999998885
Q ss_pred CchHHHHHHHHHHHHHHhhcCCCCChH-hhcc----cCc---cccHHHHHHHhhCCHHHHHHHHHHhhHHhHhcCchhhh
Q 018359 249 QSEANIRMILKYLIPVKLSIGILPKDW-LLEK----YNL---VEYSNIVQALRRGDLRLLRHALEEHEDQCISCAGETRA 320 (357)
Q Consensus 249 ~~~~n~r~IL~~LIpv~LllG~~P~~~-lL~~----~~l---~~y~~l~~avr~Gnl~~f~~~l~~~~~~f~k~glylll 320 (357)
+. .++..+.-+-+-.|+..... .+++ .|- ..|....-+++.|++..-.+.+++-...+=.+....-+
T Consensus 392 n~-----~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~~~~ 466 (765)
T PRK10049 392 NQ-----GLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGVQRL 466 (765)
T ss_pred CH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence 53 23444444444456643221 1111 111 13566667899998766666665554444444444445
Q ss_pred hhhhH
Q 018359 321 PSLSK 325 (357)
Q Consensus 321 erlr~ 325 (357)
.|.+.
T Consensus 467 ~~~~~ 471 (765)
T PRK10049 467 ARARD 471 (765)
T ss_pred HHHHH
Confidence 55554
No 55
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=49.34 E-value=39 Score=29.93 Aligned_cols=46 Identities=13% Similarity=0.021 Sum_probs=35.1
Q ss_pred ehhhhhhhHhhhccChHHHHHHHHHHHHhcC--cCchHHHHHHHHHHH
Q 018359 217 TYMYYTGRLEVFNENFPAADQKLSYALINCN--PQSEANIRMILKYLI 262 (357)
Q Consensus 217 ~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~--~~~~~n~r~IL~~LI 262 (357)
+-.||.|..++.-++...|.+.|..|+..|. +....=+++.-.+|-
T Consensus 104 ~~~~~ag~c~L~lG~~~~A~~aF~~Ai~~~~~~~~~~~l~~~A~~~L~ 151 (157)
T PRK15363 104 QAPWAAAECYLACDNVCYAIKALKAVVRICGEVSEHQILRQRAEKMLQ 151 (157)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHHHHHhccChhHHHHHHHHHHHHH
Confidence 3468999999999999999999999999994 222344455555543
No 56
>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=48.19 E-value=20 Score=25.63 Aligned_cols=57 Identities=11% Similarity=0.063 Sum_probs=41.5
Q ss_pred HhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 184 FKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 184 fkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
++-|+++-+-.+++.+-.. .|. -...++.+|++++-.+++.+|.+.|..+....|.+
T Consensus 2 l~~~~~~~A~~~~~~~l~~-------~p~--~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~ 58 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQR-------NPD--NPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDN 58 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHH-------TTT--SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTH
T ss_pred hhccCHHHHHHHHHHHHHH-------CCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCH
Confidence 4566777777777765432 233 23456689999999999999999999999988863
No 57
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=47.60 E-value=23 Score=40.25 Aligned_cols=92 Identities=10% Similarity=-0.018 Sum_probs=63.8
Q ss_pred cceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCchHHHHHHHHHHHHHHhhcCCCCChHhhcccC--cc----ccH
Q 018359 213 RDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQSEANIRMILKYLIPVKLSIGILPKDWLLEKYN--LV----EYS 286 (357)
Q Consensus 213 ~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~~LIpv~LllG~~P~~~lL~~~~--l~----~y~ 286 (357)
.-+|.|+|-.|+.+..++|+.+|+..|..|+..-|.+. -+...|.-.-+..|+.+...-.-+-. +. .|.
T Consensus 41 ~~~~~~~f~~a~~~~~~Gd~~~A~~~l~~Al~~dP~n~-----~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~ 115 (987)
T PRK09782 41 HFVIYPRLDKALKAQKNNDEATAIREFEYIHQQVPDNI-----PLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLE 115 (987)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCH-----HHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHH
Confidence 45788999999999999999999999999999988663 22355555566678887665432211 11 233
Q ss_pred HHHHHHhhCCHHHHHHHHHHhhHHhHhc
Q 018359 287 NIVQALRRGDLRLLRHALEEHEDQCISC 314 (357)
Q Consensus 287 ~l~~avr~Gnl~~f~~~l~~~~~~f~k~ 314 (357)
.+. |.+..++++++.++......
T Consensus 116 ~~L-----a~i~~~~kA~~~ye~l~~~~ 138 (987)
T PRK09782 116 RSL-----AAIPVEVKSVTTVEELLAQQ 138 (987)
T ss_pred HHH-----HHhccChhHHHHHHHHHHhC
Confidence 333 45577778888777765554
No 58
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=46.99 E-value=55 Score=31.22 Aligned_cols=61 Identities=10% Similarity=-0.007 Sum_probs=43.3
Q ss_pred HhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 184 FKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 184 fkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
++-++++-+-..++.+-.. .|.-. ..-.-+|++|..|+-.++|.+|..++...+..-|.+.
T Consensus 154 ~~~~~y~~Ai~af~~fl~~-yP~s~-----~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~ 214 (263)
T PRK10803 154 QDKSRQDDAIVAFQNFVKK-YPDST-----YQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSP 214 (263)
T ss_pred HhcCCHHHHHHHHHHHHHH-CcCCc-----chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCc
Confidence 3447777777777665432 33211 1223469999999999999999999999998877553
No 59
>PRK11189 lipoprotein NlpI; Provisional
Probab=46.49 E-value=2.5e+02 Score=26.76 Aligned_cols=65 Identities=9% Similarity=-0.066 Sum_probs=41.1
Q ss_pred HHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 177 CQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 177 n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
+.+-.+|.+.|+++.+...+...-.. .|. . ...++.+|..+...+++.+|.+.+..|+...|.+.
T Consensus 102 ~~lg~~~~~~g~~~~A~~~~~~Al~l-~P~------~--~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~ 166 (296)
T PRK11189 102 NYLGIYLTQAGNFDAAYEAFDSVLEL-DPT------Y--NYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDP 166 (296)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHh-CCC------C--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH
Confidence 45556777777777776655533211 121 1 12456677777777888888888888887777554
No 60
>KOG4234 consensus TPR repeat-containing protein [General function prediction only]
Probab=45.62 E-value=38 Score=31.68 Aligned_cols=88 Identities=23% Similarity=0.215 Sum_probs=49.3
Q ss_pred hhHhhhccChHHHHHHHHHHHHhcCcCchHHHHHHHHHHHHHHhh-cCCCCChHhhcc----cCccc-c-HHHHH-HHhh
Q 018359 223 GRLEVFNENFPAADQKLSYALINCNPQSEANIRMILKYLIPVKLS-IGILPKDWLLEK----YNLVE-Y-SNIVQ-ALRR 294 (357)
Q Consensus 223 Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~~LIpv~Ll-lG~~P~~~lL~~----~~l~~-y-~~l~~-avr~ 294 (357)
|--.|.+++|.+|...++.|+..||..+.. .|.||-.==.+.++ +|+--+. ... ..|.+ | ..|.+ |---
T Consensus 102 GN~~F~ngdyeeA~skY~~Ale~cp~~~~e-~rsIly~Nraaa~iKl~k~e~a--I~dcsKaiel~pty~kAl~RRAeay 178 (271)
T KOG4234|consen 102 GNELFKNGDYEEANSKYQEALESCPSTSTE-ERSILYSNRAAALIKLRKWESA--IEDCSKAIELNPTYEKALERRAEAY 178 (271)
T ss_pred HHHhhhcccHHHHHHHHHHHHHhCccccHH-HHHHHHhhhHHHHHHhhhHHHH--HHHHHhhHhcCchhHHHHHHHHHHH
Confidence 445578899999999999999999987753 34444322222222 3332110 000 01111 2 22222 5555
Q ss_pred CCHHHHHHHHHHhhHHhHh
Q 018359 295 GDLRLLRHALEEHEDQCIS 313 (357)
Q Consensus 295 Gnl~~f~~~l~~~~~~f~k 313 (357)
-+..+|+.+|+.+...+-.
T Consensus 179 ek~ek~eealeDyKki~E~ 197 (271)
T KOG4234|consen 179 EKMEKYEEALEDYKKILES 197 (271)
T ss_pred HhhhhHHHHHHHHHHHHHh
Confidence 6667888888877655443
No 61
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=45.53 E-value=19 Score=21.42 Aligned_cols=23 Identities=13% Similarity=-0.009 Sum_probs=20.4
Q ss_pred hhhhhhhHhhhccChHHHHHHHH
Q 018359 218 YMYYTGRLEVFNENFPAADQKLS 240 (357)
Q Consensus 218 y~YY~Gr~~~~~~~~~~A~~~L~ 240 (357)
.++.+|+.+...|++.+|..++.
T Consensus 3 a~~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 3 ARLALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHh
Confidence 46789999999999999999875
No 62
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=43.33 E-value=31 Score=24.45 Aligned_cols=30 Identities=17% Similarity=0.088 Sum_probs=26.2
Q ss_pred hhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 220 YYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 220 YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
|=.|+.++-.++|.+|.+.++.++..-|.+
T Consensus 1 ~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~ 30 (65)
T PF13432_consen 1 YALARALYQQGDYDEAIAAFEQALKQDPDN 30 (65)
T ss_dssp HHHHHHHHHCTHHHHHHHHHHHHHCCSTTH
T ss_pred ChHHHHHHHcCCHHHHHHHHHHHHHHCCCC
Confidence 457899999999999999999999987753
No 63
>PF13041 PPR_2: PPR repeat family
Probab=43.19 E-value=39 Score=22.97 Aligned_cols=30 Identities=17% Similarity=0.216 Sum_probs=26.7
Q ss_pred HHHHHHHHHHhcCChhhHHHHHHHhhccCC
Q 018359 175 LTCQLFKIYFKLGTVHLCRSVIRSIETARI 204 (357)
Q Consensus 175 l~n~L~kiYfkl~~~~l~~nlik~i~~~~~ 204 (357)
.-|.++..|.+-|+++.|..+++.+....+
T Consensus 5 ~yn~li~~~~~~~~~~~a~~l~~~M~~~g~ 34 (50)
T PF13041_consen 5 TYNTLISGYCKAGKFEEALKLFKEMKKRGI 34 (50)
T ss_pred HHHHHHHHHHHCcCHHHHHHHHHHHHHcCC
Confidence 458899999999999999999999997654
No 64
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=42.98 E-value=92 Score=30.83 Aligned_cols=88 Identities=10% Similarity=-0.013 Sum_probs=60.2
Q ss_pred HHHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHh
Q 018359 147 KLKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLE 226 (357)
Q Consensus 147 ~le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~ 226 (357)
..++|.+.+.++...--+ ....+ ..+...|.++|+++.+...+...-.. .| .....+|.+|..+
T Consensus 17 ~~~~Ai~~~~~Al~~~P~----~~~a~---~~~a~~~~~~g~~~eAl~~~~~Al~l-~P--------~~~~a~~~lg~~~ 80 (356)
T PLN03088 17 DFALAVDLYTQAIDLDPN----NAELY---ADRAQANIKLGNFTEAVADANKAIEL-DP--------SLAKAYLRKGTAC 80 (356)
T ss_pred CHHHHHHHHHHHHHhCCC----CHHHH---HHHHHHHHHcCCHHHHHHHHHHHHHh-Cc--------CCHHHHHHHHHHH
Confidence 445556655555443222 22222 36667889999999998877644322 12 1234578899999
Q ss_pred hhccChHHHHHHHHHHHHhcCcCc
Q 018359 227 VFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 227 ~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
+..++|.+|..+|..|+..-|.+.
T Consensus 81 ~~lg~~~eA~~~~~~al~l~P~~~ 104 (356)
T PLN03088 81 MKLEEYQTAKAALEKGASLAPGDS 104 (356)
T ss_pred HHhCCHHHHHHHHHHHHHhCCCCH
Confidence 999999999999999999888654
No 65
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=42.54 E-value=69 Score=28.86 Aligned_cols=66 Identities=6% Similarity=-0.142 Sum_probs=51.1
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCcc-ceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKR-DKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~-~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
.+-..|++.++++.+...++.+-.. .| .+ ....-+|.+|..+.-.+++.+|...+..+++..|.+.
T Consensus 38 ~~g~~~~~~~~~~~A~~~~~~~~~~-~p------~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~ 104 (235)
T TIGR03302 38 EEAKEALDSGDYTEAIKYFEALESR-YP------FSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHP 104 (235)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHh-CC------CchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCC
Confidence 4556789999999998888766432 22 22 2223479999999999999999999999999999655
No 66
>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=41.97 E-value=50 Score=19.63 Aligned_cols=29 Identities=17% Similarity=0.141 Sum_probs=25.5
Q ss_pred HHHHHHHHHhcCChhhHHHHHHHhhccCC
Q 018359 176 TCQLFKIYFKLGTVHLCRSVIRSIETARI 204 (357)
Q Consensus 176 ~n~L~kiYfkl~~~~l~~nlik~i~~~~~ 204 (357)
-|.+++.|.+.|.++-+..+++.+....+
T Consensus 3 ~n~li~~~~~~~~~~~a~~~~~~M~~~g~ 31 (35)
T TIGR00756 3 YNTLIDGLCKAGRVEEALELFKEMLERGI 31 (35)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence 47889999999999999999999987643
No 67
>PLN03077 Protein ECB2; Provisional
Probab=41.22 E-value=2e+02 Score=31.72 Aligned_cols=66 Identities=17% Similarity=0.169 Sum_probs=50.7
Q ss_pred HHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 173 LYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 173 ~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
..+.|.|+..|.|.|+++-+..+++.+.. .+.++|.-- ..-+...+++.+|.+.+.......+++.
T Consensus 424 ~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-----------~d~vs~~~m-i~~~~~~g~~~eA~~lf~~m~~~~~pd~ 489 (857)
T PLN03077 424 VVVANALIEMYSKCKCIDKALEVFHNIPE-----------KDVISWTSI-IAGLRLNNRCFEALIFFRQMLLTLKPNS 489 (857)
T ss_pred hHHHHHHHHHHHHcCCHHHHHHHHHhCCC-----------CCeeeHHHH-HHHHHHCCCHHHHHHHHHHHHhCCCCCH
Confidence 45779999999999999999999987653 234566543 3455788999999999999887655543
No 68
>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=40.23 E-value=2.2e+02 Score=30.12 Aligned_cols=63 Identities=17% Similarity=0.074 Sum_probs=42.6
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
.+-.+|++.|+++-+..++..+-.. .|. .....++.|.+++..+++.+|.+.+..|+...|.+
T Consensus 164 ~la~~~~~~~~~~~A~~~~~~~~~~-~~~--------~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~ 226 (899)
T TIGR02917 164 GLAQLALAENRFDEARALIDEVLTA-DPG--------NVDALLLKGDLLLSLGNIELALAAYRKAIALRPNN 226 (899)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHh-CCC--------ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCC
Confidence 3455677788888887777765432 121 23456777888888888888888888888776654
No 69
>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=38.17 E-value=97 Score=32.78 Aligned_cols=63 Identities=19% Similarity=0.164 Sum_probs=46.4
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
.+-.+|+++|+++-+...++..-.. .| . ....+++.|.++...++|.+|.+.+..|+...|..
T Consensus 438 ~la~~~~~~g~~~eA~~~~~~al~~-~P------~--~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~ 500 (615)
T TIGR00990 438 QLGVTQYKEGSIASSMATFRRCKKN-FP------E--APDVYNYYGELLLDQNKFDEAIEKFDTAIELEKET 500 (615)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHh-CC------C--ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCcc
Confidence 5566778888888888777754321 22 2 13356778999999999999999999999988854
No 70
>PF10516 SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetratrico peptide repeat region (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. This entry represents SHNi-TPR (Sim3-Hif1-NASP interrupted TPR), a sequence that is an interrupted form of TPR repeat [].
Probab=38.02 E-value=41 Score=22.42 Aligned_cols=24 Identities=33% Similarity=0.333 Sum_probs=22.0
Q ss_pred hhhHhhhccChHHHHHHHHHHHHh
Q 018359 222 TGRLEVFNENFPAADQKLSYALIN 245 (357)
Q Consensus 222 ~Gr~~~~~~~~~~A~~~L~~A~~~ 245 (357)
+|-+.+-.++|.+|-+.+..|+..
T Consensus 7 Lgeisle~e~f~qA~~D~~~aL~i 30 (38)
T PF10516_consen 7 LGEISLENENFEQAIEDYEKALEI 30 (38)
T ss_pred HHHHHHHhccHHHHHHHHHHHHHH
Confidence 688999999999999999999964
No 71
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=37.52 E-value=73 Score=27.59 Aligned_cols=39 Identities=15% Similarity=0.060 Sum_probs=34.2
Q ss_pred CCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCc
Q 018359 210 FPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNP 248 (357)
Q Consensus 210 ~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~ 248 (357)
.+......++|..|..+...+++.+|..++..|+...|.
T Consensus 29 ~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~ 67 (172)
T PRK02603 29 NKKAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEED 67 (172)
T ss_pred ccHhhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhc
Confidence 356778889999999999999999999999999987553
No 72
>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=37.12 E-value=1.7e+02 Score=30.93 Aligned_cols=69 Identities=10% Similarity=-0.016 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCc
Q 018359 171 GALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNP 248 (357)
Q Consensus 171 g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~ 248 (357)
.+..+.+...-.|-..+++.-+..++...-.. .|... ..+..+|+++...+++.+|.+.++.|...++.
T Consensus 506 ~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l-------~p~~~--~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~ 574 (615)
T TIGR00990 506 NVLPLINKALALFQWKQDFIEAENLCEKALII-------DPECD--IAVATMAQLLLQQGDVDEALKLFERAAELART 574 (615)
T ss_pred cHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc-------CCCcH--HHHHHHHHHHHHccCHHHHHHHHHHHHHHhcc
Confidence 33444555555555678888888877643211 12222 24667899999999999999999999988764
No 73
>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=36.42 E-value=53 Score=19.23 Aligned_cols=27 Identities=19% Similarity=0.241 Sum_probs=23.7
Q ss_pred HHHHHHHHHhcCChhhHHHHHHHhhcc
Q 018359 176 TCQLFKIYFKLGTVHLCRSVIRSIETA 202 (357)
Q Consensus 176 ~n~L~kiYfkl~~~~l~~nlik~i~~~ 202 (357)
-|.+++.|.+.|+++-+..+++-+...
T Consensus 3 y~~li~~~~~~~~~~~a~~~~~~M~~~ 29 (31)
T PF01535_consen 3 YNSLISGYCKMGQFEEALEVFDEMRER 29 (31)
T ss_pred HHHHHHHHHccchHHHHHHHHHHHhHC
Confidence 478999999999999999999988643
No 74
>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans. In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.
Probab=35.02 E-value=2.2e+02 Score=29.40 Aligned_cols=50 Identities=16% Similarity=0.379 Sum_probs=40.9
Q ss_pred cCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHH
Q 018359 186 LGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALI 244 (357)
Q Consensus 186 l~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~ 244 (357)
-...+.|+.++..+.. .||. -+-|.|+.||++..+++..+|-+.|+.|..
T Consensus 246 ~~~~~~a~~lL~~~~~-------~yP~--s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~ 295 (468)
T PF10300_consen 246 DVPLEEAEELLEEMLK-------RYPN--SALFLFFEGRLERLKGNLEEAIESFERAIE 295 (468)
T ss_pred CCCHHHHHHHHHHHHH-------hCCC--cHHHHHHHHHHHHHhcCHHHHHHHHHHhcc
Confidence 4567778888887764 3553 467899999999999999999999999884
No 75
>KOG3677 consensus RNA polymerase I-associated factor - PAF67 [Translation, ribosomal structure and biogenesis; Transcription]
Probab=34.55 E-value=5.5e+02 Score=26.68 Aligned_cols=70 Identities=19% Similarity=0.269 Sum_probs=47.5
Q ss_pred CchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCC-CCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHH
Q 018359 167 SKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFD-FEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALI 244 (357)
Q Consensus 167 sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~-~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~ 244 (357)
-++.|.+.+++ |+|...-+|. +.+ ....++-.. |. .+..| .=+|| ||.|=-|+.-++|.+|-.-+...+.
T Consensus 230 y~~LgyfsL~G-LlR~H~lLgD-hQa--t~q~idi~p-k~iy~t~p-~c~VT--Y~VGFayLmmrryadai~~F~niLl 300 (525)
T KOG3677|consen 230 YANLGYFSLLG-LLRMHILLGD-HQA--TSQILDIMP-KEIYGTEP-MCRVT--YQVGFAYLMMRRYADAIRVFLNILL 300 (525)
T ss_pred HHhhhHHHHHH-HHHHHHHhhh-hHh--hhhhhhcCc-hhhcCccc-ceeEe--eehhHHHHHHHHHHHHHHHHHHHHH
Confidence 57888888776 4577777787 555 333343210 11 12222 34666 9999999999999999998888775
No 76
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=33.98 E-value=1.3e+02 Score=25.67 Aligned_cols=68 Identities=9% Similarity=-0.097 Sum_probs=44.0
Q ss_pred HHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHH
Q 018359 175 LTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALI 244 (357)
Q Consensus 175 l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~ 244 (357)
....+-.+|.+.|+++-+...++..-.. .|.. ..........++..|+.+.-.+++.+|...+..|+.
T Consensus 74 ~~~~lg~~~~~~g~~~eA~~~~~~Al~~-~~~~-~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~ 141 (168)
T CHL00033 74 ILYNIGLIHTSNGEHTKALEYYFQALER-NPFL-PQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAE 141 (168)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHh-CcCc-HHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHH
Confidence 4456788999999999999887754332 1211 112233444556666666688898877777776654
No 77
>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=33.56 E-value=1.2e+02 Score=32.32 Aligned_cols=63 Identities=11% Similarity=0.035 Sum_probs=36.6
Q ss_pred HHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 179 LFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 179 L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
+-++|.+.|+++.+-..+...... +.......++..|..+...+++.+|...|..|...+|.+
T Consensus 96 ~a~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~ 158 (899)
T TIGR02917 96 LARAYLLQGKFQQVLDELPGKTLL--------DDEGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPRS 158 (899)
T ss_pred HHHHHHHCCCHHHHHHhhcccccC--------CchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Confidence 446677777777665554433211 122334456666777666677777777777666666643
No 78
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.62 E-value=1.2e+02 Score=29.06 Aligned_cols=66 Identities=9% Similarity=0.136 Sum_probs=46.8
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
.-++. ++-|++.-+..-|++.-.. .|.-...|. =+||+|..++-+++|.+|-..+..+.+.-|++.
T Consensus 147 ~A~~~-~ksgdy~~A~~~F~~fi~~-YP~s~~~~n-----A~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~ 212 (262)
T COG1729 147 AALDL-YKSGDYAEAEQAFQAFIKK-YPNSTYTPN-----AYYWLGESLYAQGDYEDAAYIFARVVKDYPKSP 212 (262)
T ss_pred HHHHH-HHcCCHHHHHHHHHHHHHc-CCCCcccch-----hHHHHHHHHHhcccchHHHHHHHHHHHhCCCCC
Confidence 33443 4566788888877765432 443222333 379999999999999999999999998777543
No 79
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=32.26 E-value=2.1e+02 Score=24.11 Aligned_cols=63 Identities=8% Similarity=-0.174 Sum_probs=48.6
Q ss_pred HHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 179 LFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 179 L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
+=..+++.|+++-+-..++..-.. -| ....+++-+|..+...+++.+|...+..|+...|.+.
T Consensus 30 ~g~~~~~~g~~~~A~~~~~~al~~-~P--------~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~ 92 (144)
T PRK15359 30 SGYASWQEGDYSRAVIDFSWLVMA-QP--------WSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHP 92 (144)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHc-CC--------CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCc
Confidence 456778999999887776644321 11 1346778899999999999999999999999888665
No 80
>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=32.10 E-value=78 Score=22.34 Aligned_cols=24 Identities=17% Similarity=0.111 Sum_probs=20.7
Q ss_pred hhccChHHHHHHHHHHHHhcCcCc
Q 018359 227 VFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 227 ~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
+-+++|.+|.+.|+.++..-|.+.
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p~~~ 25 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNPDNP 25 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTTTSH
T ss_pred hhccCHHHHHHHHHHHHHHCCCCH
Confidence 457899999999999999988654
No 81
>PF02064 MAS20: MAS20 protein import receptor; InterPro: IPR002056 Virtually all mitochondrial precursors are imported via the same mechanism []: precursors first bind to receptors on the mitochondrial surface, then insert into the translocation channel in the outer membrane. Many outer-membrane proteins participate in the early stages of import, four of which (MAS20, MAS22, MAS37 and MAS70) are components of the receptor. MAS20, which forms a subcomplex with MAS22, seems to interact with most or all mitochondrial precursors, suggesting that the protein binds directly to mitochondrial targeting sequences. The MAS37 and MAS70 components also form a subcomplex, the two subcomplexes possibly binding via their trans- membrane (TM) regions - the TM region of MAS70 promotes oligomerisation of attatched protein domains and shares sequence similarity with the TM region of MAS20 []. MAS20 is also known as TOM20.; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0005742 mitochondrial outer membrane translocase complex; PDB: 3AX3_A 3AWR_B 2V1S_A 3AX5_C 3AX2_C 1OM2_A 2V1T_B.
Probab=31.57 E-value=1e+02 Score=26.04 Aligned_cols=29 Identities=17% Similarity=0.245 Sum_probs=24.5
Q ss_pred hhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 221 YTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 221 Y~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
-+|.-.+-+|++.+|-.||..|+.-||+.
T Consensus 68 ~lGE~L~~~G~~~~aa~hf~nAl~V~~qP 96 (121)
T PF02064_consen 68 QLGEQLLAQGDYEEAAEHFYNALKVCPQP 96 (121)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHHTSSSH
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHhCCCH
Confidence 36777788999999999999999999953
No 82
>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=31.32 E-value=2.1e+02 Score=29.15 Aligned_cols=95 Identities=16% Similarity=0.065 Sum_probs=62.6
Q ss_pred HHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhc
Q 018359 150 AAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFN 229 (357)
Q Consensus 150 ~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~ 229 (357)
+|.+++++.....-. . +-+.+..-+.+.+-+++++|-.+.+..-+. .| +. ....|++++.|...
T Consensus 218 ~AI~ll~~aL~~~p~-----d--~~LL~~Qa~fLl~k~~~~lAL~iAk~av~l-sP--~~------f~~W~~La~~Yi~~ 281 (395)
T PF09295_consen 218 EAIRLLNEALKENPQ-----D--SELLNLQAEFLLSKKKYELALEIAKKAVEL-SP--SE------FETWYQLAECYIQL 281 (395)
T ss_pred HHHHHHHHHHHhCCC-----C--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-Cc--hh------HHHHHHHHHHHHhc
Confidence 455566665532211 2 566778888899999999999988854432 12 12 24578899999999
Q ss_pred cChHHHHHHHHHHHHhcCcCchHHHHHHHHHHHHHH
Q 018359 230 ENFPAADQKLSYALINCNPQSEANIRMILKYLIPVK 265 (357)
Q Consensus 230 ~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~~LIpv~ 265 (357)
+||.+|-. |+..||-...+. +-.++...|..
T Consensus 282 ~d~e~ALl----aLNs~Pm~~~~~-k~~~~~~~p~~ 312 (395)
T PF09295_consen 282 GDFENALL----ALNSCPMLTYKD-KYKLKRPVPAK 312 (395)
T ss_pred CCHHHHHH----HHhcCcCCCCcc-chhhhcCCCcc
Confidence 99999985 777888554332 23444445544
No 83
>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []. It is also involved in sporulation [].
Probab=30.03 E-value=1.2e+02 Score=28.77 Aligned_cols=86 Identities=14% Similarity=0.096 Sum_probs=58.6
Q ss_pred HhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhcc-ChHHHHHHHHHHHHhcCc---C------chHH
Q 018359 184 FKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNE-NFPAADQKLSYALINCNP---Q------SEAN 253 (357)
Q Consensus 184 fkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~-~~~~A~~~L~~A~~~c~~---~------~~~n 253 (357)
.+-|+++++..++..++... +..+.-.......=.|-.|+-..-++ +|.+|-.+|+.|+..|.. . ...-
T Consensus 4 ~~~~~~~~A~~~~~K~~~~~-~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el 82 (278)
T PF08631_consen 4 WKQGDLDLAEHMYSKAKDLL-NSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL 82 (278)
T ss_pred hhhCCHHHHHHHHHHhhhHH-hcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence 45688999999988887532 01112233466667788899999999 999999999999998732 1 1124
Q ss_pred HHHHHHHHHHHHhhcCC
Q 018359 254 IRMILKYLIPVKLSIGI 270 (357)
Q Consensus 254 ~r~IL~~LIpv~LllG~ 270 (357)
+-.||..|+-+-+-.|.
T Consensus 83 r~~iL~~La~~~l~~~~ 99 (278)
T PF08631_consen 83 RLSILRLLANAYLEWDT 99 (278)
T ss_pred HHHHHHHHHHHHHcCCC
Confidence 55667777655544443
No 84
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=29.57 E-value=83 Score=26.42 Aligned_cols=104 Identities=13% Similarity=0.123 Sum_probs=57.4
Q ss_pred hcCChhhHHHHHHHhhccCCCCCCCCCcc-ceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCchHHHHHHHHHHHH
Q 018359 185 KLGTVHLCRSVIRSIETARIFDFEEFPKR-DKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQSEANIRMILKYLIP 263 (357)
Q Consensus 185 kl~~~~l~~nlik~i~~~~~p~~~~~~~~-~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~~LIp 263 (357)
.-++..-+...+..+... +|.+ ....=.+.+|..++.+++|.+|.+.|.++....|....+. .+...|.=
T Consensus 23 ~~~~~~~~~~~~~~l~~~-------~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~--~a~l~LA~ 93 (145)
T PF09976_consen 23 QAGDPAKAEAAAEQLAKD-------YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKP--LARLRLAR 93 (145)
T ss_pred HCCCHHHHHHHHHHHHHH-------CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHH--HHHHHHHH
Confidence 345555555555555432 2222 2223366799999999999999999999999875443321 22222333
Q ss_pred HHhhcCCCCCh-HhhcccCccccHHHHHHHhhCCHH
Q 018359 264 VKLSIGILPKD-WLLEKYNLVEYSNIVQALRRGDLR 298 (357)
Q Consensus 264 v~LllG~~P~~-~lL~~~~l~~y~~l~~avr~Gnl~ 298 (357)
+.+-.|++... ..|++..-..|.+.+.. ..||+.
T Consensus 94 ~~~~~~~~d~Al~~L~~~~~~~~~~~~~~-~~Gdi~ 128 (145)
T PF09976_consen 94 ILLQQGQYDEALATLQQIPDEAFKALAAE-LLGDIY 128 (145)
T ss_pred HHHHcCCHHHHHHHHHhccCcchHHHHHH-HHHHHH
Confidence 33335655332 22333222346655543 345543
No 85
>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function.; PDB: 3LKU_E 2WPV_G.
Probab=29.50 E-value=1.4e+02 Score=28.24 Aligned_cols=43 Identities=9% Similarity=0.078 Sum_probs=31.3
Q ss_pred HHHHHHHhhCCHHHHHHHHHHhhHHhHhcCchh-hhhhhhHHHh
Q 018359 286 SNIVQALRRGDLRLLRHALEEHEDQCISCAGET-RAPSLSKIVQ 328 (357)
Q Consensus 286 ~~l~~avr~Gnl~~f~~~l~~~~~~f~k~glyl-llerlr~lv~ 328 (357)
.=|+.++.+||...|....++++..+.++..|. .++++..+-+
T Consensus 196 ~lLl~t~e~~~~~~F~~L~~~Y~~~L~rd~~~~~~L~~IG~~yF 239 (260)
T PF04190_consen 196 QLLLLTCERDNLPLFKKLCEKYKPSLKRDPSFKEYLDKIGQLYF 239 (260)
T ss_dssp HHHHHHHHHT-HHHHHHHHHHTHH---HHHHTHHHHHHHHHHHH
T ss_pred HHHHHHHhcCcHHHHHHHHHHhCccccccHHHHHHHHHHHHHHC
Confidence 557889999999999999999999887775665 6677766543
No 86
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=29.45 E-value=38 Score=35.85 Aligned_cols=88 Identities=16% Similarity=0.211 Sum_probs=58.2
Q ss_pred hHHHHHHHHHHH-----------HHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHH
Q 018359 170 VGALYLTCQLFK-----------IYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQK 238 (357)
Q Consensus 170 ~g~~~l~n~L~k-----------iYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~ 238 (357)
.+.|+.+..||. -|.++||..+++.+++.--.. + .++.+..+ ++|.++.-.++|.+|..+
T Consensus 366 maaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai-------~-P~Dplv~~-Elgvvay~~~~y~~A~~~ 436 (611)
T KOG1173|consen 366 MAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAI-------A-PSDPLVLH-ELGVVAYTYEEYPEALKY 436 (611)
T ss_pred HHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhc-------C-CCcchhhh-hhhheeehHhhhHHHHHH
Confidence 455666666654 377899999999999844321 1 12333333 589999999999999999
Q ss_pred HHHHHHhcCcCchHHHHHHHHHHHHHHhhcCCC
Q 018359 239 LSYALINCNPQSEANIRMILKYLIPVKLSIGIL 271 (357)
Q Consensus 239 L~~A~~~c~~~~~~n~r~IL~~LIpv~LllG~~ 271 (357)
|+.|+..-+.. ..+.| .+.|.-..+|+.
T Consensus 437 f~~~l~~ik~~---~~e~~--~w~p~~~NLGH~ 464 (611)
T KOG1173|consen 437 FQKALEVIKSV---LNEKI--FWEPTLNNLGHA 464 (611)
T ss_pred HHHHHHHhhhc---ccccc--chhHHHHhHHHH
Confidence 99999543321 11122 566666666643
No 87
>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ]. The alignment contains one highly conserved negatively charged residue and one highly conserved positively charged residue that are probably important for the function of these proteins. The family includes the yeast nuclear export factor Sac3 [], and mammalian GANP/MCM3-associated proteins, which facilitate the nuclear localisation of MCM3, a protein that associates with chromatin in the G1 phase of the cell-cycle. The 26S protease (or 26S proteasome) is responsible for degrading ubiquitin conjugates. It consists of 19S regulatory complexes associated with the ends of 20S proteasomes. The 19S regulatory complex is composed of about 20 different polypeptides and confers ATP-dependence and substrate specificity to the 26S enzyme. The conserved region occurs at the C-terminal of the Nin1-like regulatory subunit [, , ]. This family includes several eukaryotic translation initiation factor 3 subunit 11 (eIF-3 p25) proteins. Eukaryotic initiation factor 3 (eIF3) is a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilisation of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits [].; PDB: 3T5V_D.
Probab=28.96 E-value=1.1e+02 Score=27.17 Aligned_cols=103 Identities=12% Similarity=0.073 Sum_probs=52.8
Q ss_pred cChHHHHHHHHHHHHhcCc-CchHHHHHHHHHHHHHHhhcCCCCChHh-hcccC--------ccccHHHHHHHhhCCHHH
Q 018359 230 ENFPAADQKLSYALINCNP-QSEANIRMILKYLIPVKLSIGILPKDWL-LEKYN--------LVEYSNIVQALRRGDLRL 299 (357)
Q Consensus 230 ~~~~~A~~~L~~A~~~c~~-~~~~n~r~IL~~LIpv~LllG~~P~~~l-L~~~~--------l~~y~~l~~avr~Gnl~~ 299 (357)
++|.+....|...+..... ....|+..+.-|.+-..+..+..|.... +...+ ...=..+.+|+.+||+..
T Consensus 73 ~qf~~c~~~L~~lY~~~~~~~~~~~~~ef~~y~lL~~l~~~~~~~~~~~l~~l~~~~~~~~~i~~al~l~~a~~~gny~~ 152 (204)
T PF03399_consen 73 EQFNQCLSQLKELYDDLRDLPPSPNEAEFIAYYLLYLLCQNNIPDFHMELELLPSEILSSPYIQFALELCRALMEGNYVR 152 (204)
T ss_dssp HHHHHHHHHHHHHHHHHHHT---TTHHHHHHHHHHHTT-T---THHHHHHTTS-HHHHTSHHHHHHHHHHHHH--TTHHH
T ss_pred HHHHHHHHHHHHHHHhhccCCCCCCHHHHHHHHHHHHHHcccchHHHHHHHHCchhhhcCHHHHHHHHHHHHHHcCCHHH
Confidence 4455555566655555311 1234666666666644444443333322 12211 111268889999999999
Q ss_pred HHHHHHHhhHHhHhcCch-hhhhhhhHHHhHHhh
Q 018359 300 LRHALEEHEDQCISCAGE-TRAPSLSKIVQENLH 332 (357)
Q Consensus 300 f~~~l~~~~~~f~k~gly-lllerlr~lv~RnL~ 332 (357)
|=+.+++.+.-.+..-+. ..+.++|.-+++.+-
T Consensus 153 ff~l~~~~~~~~l~~~l~~~~~~~iR~~al~~i~ 186 (204)
T PF03399_consen 153 FFRLYRSKSAPYLFACLMERFFNRIRLRALQSIS 186 (204)
T ss_dssp HHHHHT-TTS-HHHHHHHGGGHHHHHHHHHHHHH
T ss_pred HHHHHhccCCChHHHHHHHHHHHHHHHHHHHHHH
Confidence 999994444333333332 366888888877765
No 88
>PHA02608 67 prohead core protein; Provisional
Probab=28.76 E-value=63 Score=25.20 Aligned_cols=43 Identities=12% Similarity=0.237 Sum_probs=25.3
Q ss_pred HHHHHHHhhCCHHHHHHHHHHhhHHhHhcCchhhhhhhhHHHhHHhh
Q 018359 286 SNIVQALRRGDLRLLRHALEEHEDQCISCAGETRAPSLSKIVQENLH 332 (357)
Q Consensus 286 ~~l~~avr~Gnl~~f~~~l~~~~~~f~k~glylllerlr~lv~RnL~ 332 (357)
..|+.|||+|||..-.+....- +...+--+++..|.-.=|+.+
T Consensus 2 e~lIeAIKS~DLV~akK~F~~~----Me~rt~~li~e~k~eIA~sv~ 44 (80)
T PHA02608 2 EDLIEAIKSGDLVEAKKEFASI----MEARTEALIEEEKVEIARSVM 44 (80)
T ss_pred hHHHHHHhcCcHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHh
Confidence 3689999999998755554432 112233344555555555555
No 89
>PRK14574 hmsH outer membrane protein; Provisional
Probab=28.35 E-value=7.8e+02 Score=27.60 Aligned_cols=118 Identities=12% Similarity=0.019 Sum_probs=76.2
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhh--ccChHHHHHHHHHHHHhcCcCchHHHH
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVF--NENFPAADQKLSYALINCNPQSEANIR 255 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~--~~~~~~A~~~L~~A~~~c~~~~~~n~r 255 (357)
.+..+|.+.++...+...++.+... .|. ..+|+++.++. .+++.+|.+.++.++..-|.+ .+
T Consensus 141 gLa~~y~~~~q~~eAl~~l~~l~~~-------dp~-----~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~n----~e 204 (822)
T PRK14574 141 GMIMTQADAGRGGVVLKQATELAER-------DPT-----VQNYMTLSYLNRATDRNYDALQASSEAVRLAPTS----EE 204 (822)
T ss_pred HHHHHHhhcCCHHHHHHHHHHhccc-------Ccc-----hHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCCC----HH
Confidence 5589999999999999988877643 122 44558888876 455666999999999987743 33
Q ss_pred HHHHHHHHHHhhcC-CCCChHhhcccC-------c--cccHHHHHHHhhCC---------HHHHHHHHHHhhHHhH
Q 018359 256 MILKYLIPVKLSIG-ILPKDWLLEKYN-------L--VEYSNIVQALRRGD---------LRLLRHALEEHEDQCI 312 (357)
Q Consensus 256 ~IL~~LIpv~LllG-~~P~~~lL~~~~-------l--~~y~~l~~avr~Gn---------l~~f~~~l~~~~~~f~ 312 (357)
..+.|.-...- .| .-|-.++.++++ . .+...+++.||.+- ...-|+++...+..+.
T Consensus 205 ~~~~~~~~l~~-~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~ 279 (822)
T PRK14574 205 VLKNHLEILQR-NRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLT 279 (822)
T ss_pred HHHHHHHHHHH-cCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHh
Confidence 33444322222 23 334455566554 1 34678888887761 2355667777666554
No 90
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=27.94 E-value=5e+02 Score=24.16 Aligned_cols=169 Identities=12% Similarity=0.107 Sum_probs=90.3
Q ss_pred HHHHHhhhhccCCHHHHHHHHHHHHHHHHHHhcccCCceehHHHHHHHHHHHHHHHHHHHHHHhCCCChhHHHHHHHHHH
Q 018359 77 PLFRSLQHYRTGNLVDAYLAFEKSANAFIQEFRNWESAWALEALYVIAYEIRVLAERADRELASNGKSPEKLKAAGSFLM 156 (357)
Q Consensus 77 ~~l~~~~~~~~~~~~~af~~~~~~~~~l~~~~~~~~~~W~lp~L~~~~~~L~~la~~~D~~~~~~~~~~~~le~~a~~l~ 156 (357)
.|.+....+..+++.+|.+.+.+++. .+. ++.|.....+.++.- ... ....+.|.....
T Consensus 35 ~Y~~A~~~~~~g~y~~Ai~~f~~l~~----~yP--~s~~a~~a~l~la~a----------yy~-----~~~y~~A~~~~e 93 (243)
T PRK10866 35 IYATAQQKLQDGNWKQAITQLEALDN----RYP--FGPYSQQVQLDLIYA----------YYK-----NADLPLAQAAID 93 (243)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHH----hCC--CChHHHHHHHHHHHH----------HHh-----cCCHHHHHHHHH
Confidence 56777777888899999887666543 332 344444433222211 111 112444444444
Q ss_pred HHHHhhhCCCCchhHHHHHHHHH--------HHHHHhcCC----hhhHHHHHHHhhc--cCCCCCCC---------CCcc
Q 018359 157 KVFGVLAGKGSKRVGALYLTCQL--------FKIYFKLGT----VHLCRSVIRSIET--ARIFDFEE---------FPKR 213 (357)
Q Consensus 157 ~~F~~~~~D~sKk~g~~~l~n~L--------~kiYfkl~~----~~l~~nlik~i~~--~~~p~~~~---------~~~~ 213 (357)
+..+.= .+..+-.-++|..... |.-|+.++. ...++.-++.++. ...|+-+- .-+.
T Consensus 94 ~fi~~~-P~~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~ 172 (243)
T PRK10866 94 RFIRLN-PTHPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKD 172 (243)
T ss_pred HHHHhC-cCCCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHH
Confidence 443322 2223334444444332 223344332 2334433333332 12443222 1234
Q ss_pred ceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCchHHHHHHHHHHHHHHhhcC
Q 018359 214 DKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQSEANIRMILKYLIPVKLSIG 269 (357)
Q Consensus 214 ~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~~LIpv~LllG 269 (357)
.....-++.|++|+-.++|..|-..+++.+.+-|.+.. ....|.+++-.-.-+|
T Consensus 173 ~la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~--~~eal~~l~~ay~~lg 226 (243)
T PRK10866 173 RLAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQA--TRDALPLMENAYRQLQ 226 (243)
T ss_pred HHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCch--HHHHHHHHHHHHHHcC
Confidence 55667899999999999999999999999999886543 3444555554443344
No 91
>KOG0889 consensus Histone acetyltransferase SAGA, TRRAP/TRA1 component, PI-3 kinase superfamily [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]
Probab=27.61 E-value=8.3e+02 Score=32.09 Aligned_cols=92 Identities=16% Similarity=0.144 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHh
Q 018359 147 KLKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLE 226 (357)
Q Consensus 147 ~le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~ 226 (357)
.-.-|...+.++|..-..+ =.-.+.=.-.-.+.|. ++..-++.=+..++++ ++..|+..|..+|.+..|.+.
T Consensus 2751 l~~vcl~~L~~iytlp~ve---iqdaF~K~req~~c~l--~~~~e~~~gLevi~sT---Nl~yF~~~q~aeff~lkG~f~ 2822 (3550)
T KOG0889|consen 2751 LPDVCLNQLAKIYTLPNVE---IQDAFQKLREQAKCYL--QNKNELKTGLEVIEST---NLMYFSDRQKAEFFTLKGMFL 2822 (3550)
T ss_pred ChHHHHHHHHHHhccCcch---HHHHHHHHHHHHHHHh--cChHHHHHHHHHHhcc---cHHHHhhHHHHHHHHhhhHHH
Confidence 3445556666776655443 1111111223334443 3335666667777776 345799999999999999999
Q ss_pred hhccChHHHHHHHHHHHHhc
Q 018359 227 VFNENFPAADQKLSYALINC 246 (357)
Q Consensus 227 ~~~~~~~~A~~~L~~A~~~c 246 (357)
.--+++++|.+.+..|.+.|
T Consensus 2823 ~kL~~~eeAn~~fs~AvQi~ 2842 (3550)
T KOG0889|consen 2823 EKLGKFEEANKAFSAAVQID 2842 (3550)
T ss_pred HHhcCcchhHHHHHHHHHHH
Confidence 99999999999999998754
No 92
>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=27.58 E-value=69 Score=32.10 Aligned_cols=39 Identities=15% Similarity=0.052 Sum_probs=31.3
Q ss_pred CCccceeehhhhhhhHhhhccChHHHHHHHH--HHHHhcCc
Q 018359 210 FPKRDKVTYMYYTGRLEVFNENFPAADQKLS--YALINCNP 248 (357)
Q Consensus 210 ~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~--~A~~~c~~ 248 (357)
.|.+..+.++..+|++++-++++.+|.++|+ .|+...|.
T Consensus 329 ~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~ 369 (409)
T TIGR00540 329 VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLD 369 (409)
T ss_pred CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCC
Confidence 3444446888899999999999999999999 67776653
No 93
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=27.48 E-value=88 Score=28.20 Aligned_cols=61 Identities=15% Similarity=0.212 Sum_probs=45.7
Q ss_pred HHHhcCC--hhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCch
Q 018359 182 IYFKLGT--VHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQSE 251 (357)
Q Consensus 182 iYfkl~~--~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~ 251 (357)
.|++.|+ .+-+..+++..-..+ | .-++.++.+|..++-.++|.+|..+++.++..-|++..
T Consensus 117 L~~~~g~~~~~~A~~~l~~al~~d-P--------~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~~~~ 179 (198)
T PRK10370 117 LYYQAGQHMTPQTREMIDKALALD-A--------NEVTALMLLASDAFMQADYAQAIELWQKVLDLNSPRVN 179 (198)
T ss_pred HHHhcCCCCcHHHHHHHHHHHHhC-C--------CChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcc
Confidence 3577777 366777766544321 2 12467899999999999999999999999999887663
No 94
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=26.88 E-value=5.6e+02 Score=27.48 Aligned_cols=24 Identities=25% Similarity=0.440 Sum_probs=12.2
Q ss_pred HHHHHHHHHhcCChhhHHHHHHHh
Q 018359 176 TCQLFKIYFKLGTVHLCRSVIRSI 199 (357)
Q Consensus 176 ~n~L~kiYfkl~~~~l~~nlik~i 199 (357)
.|.|...|.|.|+++-+..++..+
T Consensus 363 ~~~Li~~y~k~G~~~~A~~vf~~m 386 (697)
T PLN03081 363 NTALVDLYSKWGRMEDARNVFDRM 386 (697)
T ss_pred hHHHHHHHHHCCCHHHHHHHHHhC
Confidence 344555555555555555555443
No 95
>PRK11906 transcriptional regulator; Provisional
Probab=26.68 E-value=96 Score=32.15 Aligned_cols=42 Identities=17% Similarity=0.200 Sum_probs=31.5
Q ss_pred hhhhhhhHhhhccChHHHHHHHHHHHHhcCcCchHHHHHHHHHHH
Q 018359 218 YMYYTGRLEVFNENFPAADQKLSYALINCNPQSEANIRMILKYLI 262 (357)
Q Consensus 218 y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~~LI 262 (357)
=.||.|.+.++.|+..+|.+++..|++.-|. +-+--|++..|
T Consensus 374 ~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~---~~~~~~~~~~~ 415 (458)
T PRK11906 374 LYYYRALVHFHNEKIEEARICIDKSLQLEPR---RRKAVVIKECV 415 (458)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHhccCch---hhHHHHHHHHH
Confidence 3688999999999999999999999998773 33334444444
No 96
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=26.50 E-value=5.4e+02 Score=29.73 Aligned_cols=69 Identities=12% Similarity=0.055 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 173 LYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 173 ~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
+++...+-.++++.|+++.+...++..-.. .| .. ..-++.+|.++.-++++.+|.++++.|+..-|.+.
T Consensus 351 ~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~-~P------~~--~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~ 419 (1157)
T PRK11447 351 YWLLIQQGDAALKANNLAQAERLYQQARQV-DN------TD--SYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNT 419 (1157)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CC------CC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH
Confidence 444555677889999999999988865432 12 11 23466789999999999999999999999888654
No 97
>PRK15331 chaperone protein SicA; Provisional
Probab=26.25 E-value=1e+02 Score=27.54 Aligned_cols=36 Identities=14% Similarity=0.184 Sum_probs=30.2
Q ss_pred hhhhhhHhhhccChHHHHHHHHHHHHhcCcCchHHH
Q 018359 219 MYYTGRLEVFNENFPAADQKLSYALINCNPQSEANI 254 (357)
Q Consensus 219 ~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~ 254 (357)
.||.|..++.-++..+|...|..|..+|.....+.|
T Consensus 108 ~f~agqC~l~l~~~~~A~~~f~~a~~~~~~~~l~~~ 143 (165)
T PRK15331 108 VFFTGQCQLLMRKAAKARQCFELVNERTEDESLRAK 143 (165)
T ss_pred cchHHHHHHHhCCHHHHHHHHHHHHhCcchHHHHHH
Confidence 799999999999999999999999997654444433
No 98
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.22 E-value=1.4e+02 Score=29.01 Aligned_cols=45 Identities=20% Similarity=0.123 Sum_probs=37.0
Q ss_pred hhHhhhccChHHHHHHHHHHHHhcCcCchHHHHHHHHHHHHHHhhcCCCC
Q 018359 223 GRLEVFNENFPAADQKLSYALINCNPQSEANIRMILKYLIPVKLSIGILP 272 (357)
Q Consensus 223 Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~~LIpv~LllG~~P 272 (357)
...++..++|.+|+..|..|+..-|.. --.|.-+|.+.+.+|+=|
T Consensus 214 Av~~l~~~~~eeAe~lL~eaL~kd~~d-----petL~Nliv~a~~~Gkd~ 258 (299)
T KOG3081|consen 214 AVCHLQLGRYEEAESLLEEALDKDAKD-----PETLANLIVLALHLGKDA 258 (299)
T ss_pred HHHHHHhcCHHHHHHHHHHHHhccCCC-----HHHHHHHHHHHHHhCCCh
Confidence 345688999999999999999987755 334777999999999864
No 99
>KOG4056 consensus Translocase of outer mitochondrial membrane complex, subunit TOM20 [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.06 E-value=76 Score=27.54 Aligned_cols=39 Identities=13% Similarity=0.247 Sum_probs=30.6
Q ss_pred ccceeehhhh-----hhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 212 KRDKVTYMYY-----TGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 212 ~~~~v~y~YY-----~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
......=+|| +|.-++-++++.++-.||..|+.-|++..
T Consensus 72 ~d~~~~E~~Fmqqv~lGE~L~~qg~~e~ga~h~~nAi~vcgqpa 115 (143)
T KOG4056|consen 72 SDAEEVEKFFMQQVQLGEELLAQGNEEEGAEHLANAIVVCGQPA 115 (143)
T ss_pred CCHHHHHHHHHHHHHhHHHHHHccCHHHHHHHHHHHHhhcCCHH
Confidence 3444444555 57888899999999999999999999654
No 100
>PLN03077 Protein ECB2; Provisional
Probab=26.01 E-value=5.4e+02 Score=28.38 Aligned_cols=57 Identities=19% Similarity=0.141 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHH
Q 018359 174 YLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYA 242 (357)
Q Consensus 174 ~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A 242 (357)
++.|.|+..|.+.|+++.+..++..+... +.++|.- +..-|.-.+++.+|.+.|...
T Consensus 324 ~~~n~Li~~y~k~g~~~~A~~vf~~m~~~-----------d~~s~n~-li~~~~~~g~~~~A~~lf~~M 380 (857)
T PLN03077 324 SVCNSLIQMYLSLGSWGEAEKVFSRMETK-----------DAVSWTA-MISGYEKNGLPDKALETYALM 380 (857)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHhhCCCC-----------CeeeHHH-HHHHHHhCCCHHHHHHHHHHH
Confidence 34566666666666666666666554321 2233332 223344555555555555543
No 101
>COG1849 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.57 E-value=77 Score=25.44 Aligned_cols=31 Identities=19% Similarity=0.155 Sum_probs=26.0
Q ss_pred ceeehhhhhhhHhhhccChHHHHHHHHHHHH
Q 018359 214 DKVTYMYYTGRLEVFNENFPAADQKLSYALI 244 (357)
Q Consensus 214 ~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~ 244 (357)
+.+.=+|.-|++++-+||+..|+..+++|.-
T Consensus 39 ~ma~~Y~~Dakyf~ekGD~vtAfa~~sYa~g 69 (90)
T COG1849 39 DMAESYFEDAKYFLEKGDYVTAFAALSYAHG 69 (90)
T ss_pred HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHH
Confidence 3344567789999999999999999999975
No 102
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=25.30 E-value=74 Score=32.27 Aligned_cols=34 Identities=26% Similarity=0.204 Sum_probs=30.2
Q ss_pred ehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 217 TYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 217 ~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
--++++|++++-+..+.+|.++|..|+..-|..+
T Consensus 329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~ 362 (400)
T COG3071 329 LLLSTLGRLALKNKLWGKASEALEAALKLRPSAS 362 (400)
T ss_pred hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChh
Confidence 6689999999999999999999999998766544
No 103
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.11 E-value=4.3e+02 Score=25.58 Aligned_cols=78 Identities=18% Similarity=0.175 Sum_probs=57.6
Q ss_pred HHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 171 GALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 171 g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
-.+.+.-++|-.-.-.|..+++...++.+.- +||.|.+|.=.+ |...=..++|.+|.+.+..=+..-|.+.
T Consensus 50 e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~-------~fp~S~RV~~lk--am~lEa~~~~~~A~e~y~~lL~ddpt~~ 120 (289)
T KOG3060|consen 50 EIWTLYEQVFIAALDTGRDDLAQKCINQLRD-------RFPGSKRVGKLK--AMLLEATGNYKEAIEYYESLLEDDPTDT 120 (289)
T ss_pred hHHHHHHHHHHHHHHhcchHHHHHHHHHHHH-------hCCCChhHHHHH--HHHHHHhhchhhHHHHHHHHhccCcchh
Confidence 3555666788888888999999999998873 578888873221 2223356899999999999998888877
Q ss_pred hHHHHHH
Q 018359 251 EANIRMI 257 (357)
Q Consensus 251 ~~n~r~I 257 (357)
.--||+|
T Consensus 121 v~~KRKl 127 (289)
T KOG3060|consen 121 VIRKRKL 127 (289)
T ss_pred HHHHHHH
Confidence 5555554
No 104
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=24.90 E-value=2.5e+02 Score=26.76 Aligned_cols=67 Identities=12% Similarity=0.059 Sum_probs=50.7
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
.+=.+|+..|+++-+...++.+-.. .|. .|+ .-.-.|.+|.++.-.+++.+|...|+.....-|.+.
T Consensus 185 ~LG~~y~~~g~~~~A~~~f~~vv~~-yP~---s~~--~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~yP~s~ 251 (263)
T PRK10803 185 WLGQLNYNKGKKDDAAYYFASVVKN-YPK---SPK--AADAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPGTD 251 (263)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHH-CCC---Ccc--hhHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence 4446788999999999988877532 231 122 223466799999999999999999999999888665
No 105
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=24.67 E-value=9.4e+02 Score=26.28 Aligned_cols=78 Identities=14% Similarity=0.185 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHhcCChhhHHHHHHHhhc----cCCCCCC----CCCccceeehhhhhhhHhhhccChHHHHHHHHHH
Q 018359 171 GALYLTCQLFKIYFKLGTVHLCRSVIRSIET----ARIFDFE----EFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYA 242 (357)
Q Consensus 171 g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~----~~~p~~~----~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A 242 (357)
|+-++..-+-..|-.-.+.+..+.++-...+ +...+++ .-|....+.=.||+..-+-.-++|..|.+++.-|
T Consensus 318 g~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~A 397 (700)
T KOG1156|consen 318 GVPSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLA 397 (700)
T ss_pred CCCchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence 4444444555555444444455554444433 2211111 1366778888999999999999999999999999
Q ss_pred HHhcCc
Q 018359 243 LINCNP 248 (357)
Q Consensus 243 ~~~c~~ 248 (357)
+.|||+
T Consensus 398 IdHTPT 403 (700)
T KOG1156|consen 398 IDHTPT 403 (700)
T ss_pred hccCch
Confidence 999994
No 106
>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=24.62 E-value=4e+02 Score=25.29 Aligned_cols=66 Identities=6% Similarity=-0.094 Sum_probs=47.7
Q ss_pred HHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHh
Q 018359 175 LTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALIN 245 (357)
Q Consensus 175 l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~ 245 (357)
....+-.+|...|+++-+...+...-.. .|. +....+...+.+|++++.++++.+|...+..+...
T Consensus 150 ~~~~la~i~~~~g~~~eA~~~l~~~l~~-~~~----~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~ 215 (355)
T cd05804 150 AVHAVAHVLEMQGRFKEGIAFMESWRDT-WDC----SSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAP 215 (355)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHhhhhc-cCC----CcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc
Confidence 4456778899999999999887755432 121 11222344567999999999999999999999643
No 107
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=24.61 E-value=3e+02 Score=29.68 Aligned_cols=68 Identities=4% Similarity=-0.026 Sum_probs=49.9
Q ss_pred HHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCchHHH
Q 018359 178 QLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQSEANI 254 (357)
Q Consensus 178 ~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~ 254 (357)
.+-.+|.+.|+++-+...++.+-.. .| +...+.++.|..+...+++.+|..+|..|+...|.......
T Consensus 323 ~La~~l~~~G~~~eA~~~l~~al~~-~P--------~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~~~~~ 390 (656)
T PRK15174 323 MYARALRQVGQYTAASDEFVQLARE-KG--------VTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHLPQSF 390 (656)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHh-Cc--------cchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhchhhH
Confidence 4567888888888888777755432 12 12346677788889999999999999999999887654433
No 108
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=24.47 E-value=39 Score=21.49 Aligned_cols=20 Identities=10% Similarity=-0.006 Sum_probs=17.6
Q ss_pred ehhhhhhhHhhhccChHHHH
Q 018359 217 TYMYYTGRLEVFNENFPAAD 236 (357)
Q Consensus 217 ~y~YY~Gr~~~~~~~~~~A~ 236 (357)
.-+|.+|.++...+++.+|.
T Consensus 14 ~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 14 EAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred HHHHHHHHHHHHCcCHHhhc
Confidence 45789999999999999986
No 109
>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=24.30 E-value=4.6e+02 Score=24.88 Aligned_cols=71 Identities=10% Similarity=-0.110 Sum_probs=54.4
Q ss_pred hhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCc
Q 018359 169 RVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNP 248 (357)
Q Consensus 169 k~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~ 248 (357)
.....+....+-.+|...|+++-+...++..-.. .|. . ......+|.++...+++.+|..++..++...|.
T Consensus 110 ~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~-~p~------~--~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~ 180 (355)
T cd05804 110 NPDYWYLLGMLAFGLEEAGQYDRAEEAARRALEL-NPD------D--AWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC 180 (355)
T ss_pred CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CCC------C--cHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC
Confidence 3445566667778999999999998887755332 122 1 456788899999999999999999999988764
No 110
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=24.01 E-value=94 Score=23.22 Aligned_cols=44 Identities=25% Similarity=0.335 Sum_probs=29.5
Q ss_pred HHHHHhhCCHHHHHHHHHHhhHH--hHhcCc-hhhhhhhhHHHhHHh
Q 018359 288 IVQALRRGDLRLLRHALEEHEDQ--CISCAG-ETRAPSLSKIVQENL 331 (357)
Q Consensus 288 l~~avr~Gnl~~f~~~l~~~~~~--f~k~gl-ylllerlr~lv~RnL 331 (357)
+++|+++||+..|.+.+.++... ....+. ..-+..++..+-...
T Consensus 1 m~~al~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~G 47 (85)
T PF08544_consen 1 MIKALAEGDLELLGELMNENQENEPENYREVLTPEIDELKEAAEENG 47 (85)
T ss_dssp HHHHHHTTCHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHTT
T ss_pred CHHHHHCcCHHHHHHHHHHhhhhcchHHHHHcCHHHHHHHHHHHHCC
Confidence 47899999999999999988663 223333 335555555554443
No 111
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=23.98 E-value=8.7e+02 Score=25.62 Aligned_cols=155 Identities=12% Similarity=0.043 Sum_probs=0.0
Q ss_pred HHHHHHHHHhhh--hccCCHHHHHHHHHHHHHHHHHHhcccCCceehHHHHHHHHHHHHHHHHHHHHHHhCCCChhHHHH
Q 018359 73 DITVPLFRSLQH--YRTGNLVDAYLAFEKSANAFIQEFRNWESAWALEALYVIAYEIRVLAERADRELASNGKSPEKLKA 150 (357)
Q Consensus 73 ~vv~~~l~~~~~--~~~~~~~~af~~~~~~~~~l~~~~~~~~~~W~lp~L~~~~~~L~~la~~~D~~~~~~~~~~~~le~ 150 (357)
.+|...+..+.. .+.+.+.+|-+.|.+.+......|.. +.-=..-++..++.-+..-....+.+ +.++.
T Consensus 238 l~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~-~h~~va~~l~nLa~ly~~~GKf~EA~--------~~~e~ 308 (508)
T KOG1840|consen 238 LVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGE-DHPAVAATLNNLAVLYYKQGKFAEAE--------EYCER 308 (508)
T ss_pred HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHhccCChHHHH--------HHHHH
Q ss_pred HHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccc--eeehhhhhhhHhhh
Q 018359 151 AGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRD--KVTYMYYTGRLEVF 228 (357)
Q Consensus 151 ~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~--~v~y~YY~Gr~~~~ 228 (357)
|-++..+ ....-..-+--..+.+--+|--.|.++.+..+.+.--.- ..+.+...+ ..-++==+|+.|..
T Consensus 309 Al~I~~~------~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i---~~~~~g~~~~~~a~~~~nl~~l~~~ 379 (508)
T KOG1840|consen 309 ALEIYEK------LLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKI---YLDAPGEDNVNLAKIYANLAELYLK 379 (508)
T ss_pred HHHHHHH------hhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHH---HHhhccccchHHHHHHHHHHHHHHH
Q ss_pred ccChHHHHHHHHHHHHh
Q 018359 229 NENFPAADQKLSYALIN 245 (357)
Q Consensus 229 ~~~~~~A~~~L~~A~~~ 245 (357)
.++|.+|++.+..|+..
T Consensus 380 ~gk~~ea~~~~k~ai~~ 396 (508)
T KOG1840|consen 380 MGKYKEAEELYKKAIQI 396 (508)
T ss_pred hcchhHHHHHHHHHHHH
No 112
>PF08898 DUF1843: Domain of unknown function (DUF1843); InterPro: IPR014994 This domain is found in functionally uncharacterised proteins. It can be found independently or at the C terminus of the protein.
Probab=23.70 E-value=1.4e+02 Score=21.53 Aligned_cols=40 Identities=23% Similarity=0.253 Sum_probs=31.5
Q ss_pred HHHHHHHhhCCHHHHHHHHHHhhHHhHhcCchh-hhhhhhH
Q 018359 286 SNIVQALRRGDLRLLRHALEEHEDQCISCAGET-RAPSLSK 325 (357)
Q Consensus 286 ~~l~~avr~Gnl~~f~~~l~~~~~~f~k~glyl-llerlr~ 325 (357)
-+|-+|+.+||+..........+..+-..|-.- .++.|+.
T Consensus 5 vaiq~AiasGDLa~MK~l~~~aeq~L~~~~~i~~al~~Lk~ 45 (53)
T PF08898_consen 5 VAIQQAIASGDLAQMKALAAQAEQQLAEAGDIAAALEKLKA 45 (53)
T ss_pred HHHHHHHHcCcHHHHHHHHHHHHHHHccchHHHHHHHHHHH
Confidence 467789999999999999999988888776544 5566553
No 113
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=23.50 E-value=5.5e+02 Score=27.02 Aligned_cols=159 Identities=16% Similarity=0.140 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhhhhccCCHHHHHHHHHHHHHHHHHHhcccCCceehHHHHHHHHHHHHHHHHHHHHHHhCCCChhHHHHH
Q 018359 72 ADITVPLFRSLQHYRTGNLVDAYLAFEKSANAFIQEFRNWESAWALEALYVIAYEIRVLAERADRELASNGKSPEKLKAA 151 (357)
Q Consensus 72 ~~vv~~~l~~~~~~~~~~~~~af~~~~~~~~~l~~~~~~~~~~W~lp~L~~~~~~L~~la~~~D~~~~~~~~~~~~le~~ 151 (357)
..+-..|++-+..-+..+..++.-...+++..++.---.....|.+..+. ...-..+|+.++-.....--++.-.|.|
T Consensus 361 eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk--~s~~~~la~dlei~ka~~~lk~~d~~~a 438 (840)
T KOG2003|consen 361 EAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLK--ASQHAELAIDLEINKAGELLKNGDIEGA 438 (840)
T ss_pred HHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHH--HhhhhhhhhhhhhhHHHHHHhccCHHHH
Q ss_pred HHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccC
Q 018359 152 GSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNEN 231 (357)
Q Consensus 152 a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~ 231 (357)
.. |.+.|+. ......-.-+|.|+-+||--|-.+++.---=+=..- ..+.|..+-++. .|-+.+.++|
T Consensus 439 ie-ilkv~~~-----kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~al---n~dryn~~a~~n----kgn~~f~ngd 505 (840)
T KOG2003|consen 439 IE-ILKVFEK-----KDNKTASAAANNLCALRFLQGGKDFADAQQYADIAL---NIDRYNAAALTN----KGNIAFANGD 505 (840)
T ss_pred HH-HHHHHHh-----ccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHh---cccccCHHHhhc----CCceeeecCc
Q ss_pred hHHHHHHHHHHHHh
Q 018359 232 FPAADQKLSYALIN 245 (357)
Q Consensus 232 ~~~A~~~L~~A~~~ 245 (357)
+.+|-+.+..|+++
T Consensus 506 ~dka~~~ykeal~n 519 (840)
T KOG2003|consen 506 LDKAAEFYKEALNN 519 (840)
T ss_pred HHHHHHHHHHHHcC
No 114
>PRK14574 hmsH outer membrane protein; Provisional
Probab=23.35 E-value=4.3e+02 Score=29.61 Aligned_cols=139 Identities=10% Similarity=0.023 Sum_probs=91.6
Q ss_pred HHHHHHHHHhcCChhhHHHHHHHhhccCCCC-------CCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCc
Q 018359 176 TCQLFKIYFKLGTVHLCRSVIRSIETARIFD-------FEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNP 248 (357)
Q Consensus 176 ~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~-------~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~ 248 (357)
...||-.|..-++++-+..++..+... .|. -...|..+..++.+-.+.+++..+++.+|++.|+......|-
T Consensus 370 ~~~L~yA~ld~e~~~~A~~~l~~~~~~-~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~ 448 (822)
T PRK14574 370 ADDLYYSLNESEQLDKAYQFAVNYSEQ-TPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPA 448 (822)
T ss_pred HHHHHHHHHhcccHHHHHHHHHHHHhc-CCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence 457899999999999999999999863 331 124688899999999999999999999999999999999985
Q ss_pred CchHHHHHHHHHHHHHHhhc-CCCCChH--hhcc----cC--c-cccHHHHHHHhhCCHHHHHHHHHHhhHHhHhcCchh
Q 018359 249 QSEANIRMILKYLIPVKLSI-GILPKDW--LLEK----YN--L-VEYSNIVQALRRGDLRLLRHALEEHEDQCISCAGET 318 (357)
Q Consensus 249 ~~~~n~r~IL~~LIpv~Lll-G~~P~~~--lL~~----~~--l-~~y~~l~~avr~Gnl~~f~~~l~~~~~~f~k~glyl 318 (357)
+. ...+.+ ..+.. ..-|... .++. .+ . ..+.....+...|++..-++.+++-...+=.+.-..
T Consensus 449 n~----~l~~~~---A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~~ 521 (822)
T PRK14574 449 NQ----NLRIAL---ASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIPSQ 521 (822)
T ss_pred CH----HHHHHH---HHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchhHH
Confidence 53 211111 11111 1122111 1111 11 1 236677778888888888777766555444444333
Q ss_pred hhhh
Q 018359 319 RAPS 322 (357)
Q Consensus 319 ller 322 (357)
-+.|
T Consensus 522 ~l~r 525 (822)
T PRK14574 522 ELDR 525 (822)
T ss_pred HHHH
Confidence 3333
No 115
>COG3197 FixS Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]
Probab=23.25 E-value=20 Score=26.38 Aligned_cols=15 Identities=47% Similarity=0.786 Sum_probs=12.3
Q ss_pred HHHHHHHHHhhcCCC
Q 018359 257 ILKYLIPVKLSIGIL 271 (357)
Q Consensus 257 IL~~LIpv~LllG~~ 271 (357)
||.+|||+++++|-+
T Consensus 3 ~l~~Lipvsi~l~~v 17 (58)
T COG3197 3 ILYILIPVSILLGAV 17 (58)
T ss_pred eeeeHHHHHHHHHHH
Confidence 678999999998743
No 116
>PLN03218 maturation of RBCL 1; Provisional
Probab=22.80 E-value=1.2e+03 Score=27.13 Aligned_cols=64 Identities=11% Similarity=0.029 Sum_probs=44.2
Q ss_pred HHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhc
Q 018359 175 LTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINC 246 (357)
Q Consensus 175 l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c 246 (357)
.-|.++..|.+.|+++-+..+++.+....+ ..+.+||.-.+ ..+.-.+++.+|.+.+..+.+..
T Consensus 721 tyN~LI~gy~k~G~~eeAlelf~eM~~~Gi-------~Pd~~Ty~sLL-~a~~k~G~le~A~~l~~~M~k~G 784 (1060)
T PLN03218 721 TMNALITALCEGNQLPKALEVLSEMKRLGL-------CPNTITYSILL-VASERKDDADVGLDLLSQAKEDG 784 (1060)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-------CCCHHHHHHHH-HHHHHCCCHHHHHHHHHHHHHcC
Confidence 457778888888888888888887764432 23456666655 45566788888888888877653
No 117
>PRK12370 invasion protein regulator; Provisional
Probab=22.66 E-value=3.2e+02 Score=28.59 Aligned_cols=62 Identities=11% Similarity=-0.036 Sum_probs=46.4
Q ss_pred HHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCc
Q 018359 180 FKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 180 ~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
-.+|...|+++-+...++..-.. .| .+ ...+|++|..++..+++.+|.+++..|++..|...
T Consensus 345 g~~~~~~g~~~~A~~~~~~Al~l-~P------~~--~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~ 406 (553)
T PRK12370 345 GLINTIHSEYIVGSLLFKQANLL-SP------IS--ADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRA 406 (553)
T ss_pred HHHHHHccCHHHHHHHHHHHHHh-CC------CC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCh
Confidence 34677889988888777643322 12 22 12468899999999999999999999999988654
No 118
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=22.65 E-value=2e+02 Score=19.79 Aligned_cols=32 Identities=13% Similarity=0.080 Sum_probs=27.4
Q ss_pred cHHHHHHHhhCCHHHHHHHHHHhhHHhHhcCc
Q 018359 285 YSNIVQALRRGDLRLLRHALEEHEDQCISCAG 316 (357)
Q Consensus 285 y~~l~~avr~Gnl~~f~~~l~~~~~~f~k~gl 316 (357)
-..+.++|..||+..--++++++...+.+++-
T Consensus 5 ~~~i~~~i~~g~~~~a~~~~~~~~~~l~~~~~ 36 (58)
T smart00668 5 RKRIRELILKGDWDEALEWLSSLKPPLLERNS 36 (58)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHcCHHHhccCC
Confidence 35688999999999999999999888877754
No 119
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=21.91 E-value=7.1e+02 Score=23.83 Aligned_cols=108 Identities=16% Similarity=0.147 Sum_probs=65.9
Q ss_pred eehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCchHHHHHHHHHHHHHHhhcCC--------------CCC--------
Q 018359 216 VTYMYYTGRLEVFNENFPAADQKLSYALINCNPQSEANIRMILKYLIPVKLSIGI--------------LPK-------- 273 (357)
Q Consensus 216 v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~~LIpv~LllG~--------------~P~-------- 273 (357)
+.-.|=.|.-.+..++|.+|.++|......-|-+... ++++.-|+=...-.|. +|+
T Consensus 34 ~~~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~--~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~ 111 (254)
T COG4105 34 ASELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYS--EQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAY 111 (254)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccc--HHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHH
Confidence 4567888888899999999999999888776655433 2222222222222222 221
Q ss_pred ----------------------------hHhhcccCccccHHHHHHHhhCCHHHHHHHHHHhh----HHhHhcCchh-hh
Q 018359 274 ----------------------------DWLLEKYNLVEYSNIVQALRRGDLRLLRHALEEHE----DQCISCAGET-RA 320 (357)
Q Consensus 274 ----------------------------~~lL~~~~l~~y~~l~~avr~Gnl~~f~~~l~~~~----~~f~k~glyl-ll 320 (357)
..++++||=.+|.+-+++ .+..++..|..|| .++.++|-|+ .+
T Consensus 112 YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~----~i~~~~d~LA~~Em~IaryY~kr~~~~AA~ 187 (254)
T COG4105 112 YLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKA----RIVKLNDALAGHEMAIARYYLKRGAYVAAI 187 (254)
T ss_pred HHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHH----HHHHHHHHHHHHHHHHHHHHHHhcChHHHH
Confidence 113334444455555444 3566777777774 3889999988 55
Q ss_pred hhhhHHHhH
Q 018359 321 PSLSKIVQE 329 (357)
Q Consensus 321 erlr~lv~R 329 (357)
.|.+.++-+
T Consensus 188 nR~~~v~e~ 196 (254)
T COG4105 188 NRFEEVLEN 196 (254)
T ss_pred HHHHHHHhc
Confidence 888776643
No 120
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=21.88 E-value=1.6e+02 Score=29.18 Aligned_cols=64 Identities=13% Similarity=-0.044 Sum_probs=46.9
Q ss_pred HHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcCchH
Q 018359 180 FKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQSEA 252 (357)
Q Consensus 180 ~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~ 252 (357)
-.-+|+-+++.-+-..++..-.. .|. -..+++.+|..++..++|.+|...+..|+...|.....
T Consensus 9 a~~a~~~~~~~~Ai~~~~~Al~~-~P~--------~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a 72 (356)
T PLN03088 9 AKEAFVDDDFALAVDLYTQAIDL-DPN--------NAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKA 72 (356)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHh-CCC--------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHH
Confidence 34567778888777766644321 121 13577899999999999999999999999998865533
No 121
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=21.61 E-value=3e+02 Score=25.56 Aligned_cols=86 Identities=12% Similarity=-0.030 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhh
Q 018359 149 KAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVF 228 (357)
Q Consensus 149 e~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~ 228 (357)
++|.+.+.++.+.--.| --+.+.+..++...|+.+-++.+++...... | .+. .+....|..++.
T Consensus 163 ~~A~~~~~~al~~~P~~-------~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~------~~~--~~~~~la~~~~~ 226 (280)
T PF13429_consen 163 DKALRDYRKALELDPDD-------PDARNALAWLLIDMGDYDEAREALKRLLKAA-P------DDP--DLWDALAAAYLQ 226 (280)
T ss_dssp HHHHHHHHHHHHH-TT--------HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--H------TSC--CHCHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCC-------HHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-c------CHH--HHHHHHHHHhcc
Confidence 44555555554433222 1145567777889999998888888776542 1 111 256677999999
Q ss_pred ccChHHHHHHHHHHHHhcCcCc
Q 018359 229 NENFPAADQKLSYALINCNPQS 250 (357)
Q Consensus 229 ~~~~~~A~~~L~~A~~~c~~~~ 250 (357)
-+++.+|..++..++..-|.+.
T Consensus 227 lg~~~~Al~~~~~~~~~~p~d~ 248 (280)
T PF13429_consen 227 LGRYEEALEYLEKALKLNPDDP 248 (280)
T ss_dssp HT-HHHHHHHHHHHHHHSTT-H
T ss_pred cccccccccccccccccccccc
Confidence 9999999999999998766543
No 122
>PF12341 DUF3639: Protein of unknown function (DUF3639) ; InterPro: IPR022100 This domain family is found in eukaryotes, and is approximately 30 amino acids in length. The family is found in association with PF00400 from PFAM. There are two completely conserved residues (E and R) that may be functionally important.
Probab=21.56 E-value=36 Score=21.15 Aligned_cols=11 Identities=18% Similarity=0.413 Sum_probs=9.6
Q ss_pred ccccccccccc
Q 018359 345 DEVGCNCEGTE 355 (357)
Q Consensus 345 ~~~~~~~~~~~ 355 (357)
|+++||++|..
T Consensus 2 E~i~aia~g~~ 12 (27)
T PF12341_consen 2 EEIEAIAAGDS 12 (27)
T ss_pred ceEEEEEccCC
Confidence 78999999974
No 123
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=21.08 E-value=1.8e+02 Score=16.73 Aligned_cols=18 Identities=17% Similarity=0.076 Sum_probs=15.9
Q ss_pred cChHHHHHHHHHHHHhcC
Q 018359 230 ENFPAADQKLSYALINCN 247 (357)
Q Consensus 230 ~~~~~A~~~L~~A~~~c~ 247 (357)
+++..|.+-++.|+..||
T Consensus 1 ~~~~~~r~i~e~~l~~~~ 18 (33)
T smart00386 1 GDIERARKIYERALEKFP 18 (33)
T ss_pred CcHHHHHHHHHHHHHHCC
Confidence 467889999999999998
No 124
>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]
Probab=21.02 E-value=4.7e+02 Score=25.17 Aligned_cols=84 Identities=17% Similarity=0.164 Sum_probs=56.2
Q ss_pred hhHHHHHHHHHHHHHHhhhCCCCchhHHHHHHHHHHHHHHhcCChhhHH-HHHHHhhccCCCCCCCCCccceeehhhhhh
Q 018359 145 PEKLKAAGSFLMKVFGVLAGKGSKRVGALYLTCQLFKIYFKLGTVHLCR-SVIRSIETARIFDFEEFPKRDKVTYMYYTG 223 (357)
Q Consensus 145 ~~~le~~a~~l~~~F~~~~~D~sKk~g~~~l~n~L~kiYfkl~~~~l~~-nlik~i~~~~~p~~~~~~~~~~v~y~YY~G 223 (357)
+.++-.|++..+|.. |.+- .+.-|..|.. -.|+|+++.++|. .-.++++- ....|.=+|++|
T Consensus 23 ~k~y~~ai~~y~raI--~~nP----~~~~Y~tnra-lchlk~~~~~~v~~dcrralql----------~~N~vk~h~flg 85 (284)
T KOG4642|consen 23 PKRYDDAIDCYSRAI--CINP----TVASYYTNRA-LCHLKLKHWEPVEEDCRRALQL----------DPNLVKAHYFLG 85 (284)
T ss_pred hhhhchHHHHHHHHH--hcCC----CcchhhhhHH-HHHHHhhhhhhhhhhHHHHHhc----------ChHHHHHHHHHH
Confidence 566777777666543 4442 1323333332 2578899988875 44445541 123466789999
Q ss_pred hHhhhccChHHHHHHHHHHHHh
Q 018359 224 RLEVFNENFPAADQKLSYALIN 245 (357)
Q Consensus 224 r~~~~~~~~~~A~~~L~~A~~~ 245 (357)
...+....|.+|-.+|+.|+.+
T Consensus 86 ~~~l~s~~~~eaI~~Lqra~sl 107 (284)
T KOG4642|consen 86 QWLLQSKGYDEAIKVLQRAYSL 107 (284)
T ss_pred HHHHhhccccHHHHHHHHHHHH
Confidence 9999999999999999999654
No 125
>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=20.58 E-value=2.2e+02 Score=25.32 Aligned_cols=51 Identities=16% Similarity=0.001 Sum_probs=36.8
Q ss_pred hhhhhhHhhhccChHHHHHHHHHHHHhcCcCchHHHHHHHHHHHHHHhhcCCC
Q 018359 219 MYYTGRLEVFNENFPAADQKLSYALINCNPQSEANIRMILKYLIPVKLSIGIL 271 (357)
Q Consensus 219 ~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~~~~n~r~IL~~LIpv~LllG~~ 271 (357)
+--+|.+|+--||+.+|.+.+..+...|. +.+.+--+...+|=+++..|..
T Consensus 39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~--~~~~~id~~l~~irv~i~~~d~ 89 (177)
T PF10602_consen 39 LEDLADHYCKIGDLEEALKAYSRARDYCT--SPGHKIDMCLNVIRVAIFFGDW 89 (177)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHhhhcC--CHHHHHHHHHHHHHHHHHhCCH
Confidence 45678899999999999999999999885 3344444455556565555543
No 126
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=20.32 E-value=91 Score=32.78 Aligned_cols=54 Identities=13% Similarity=0.010 Sum_probs=40.6
Q ss_pred cCChhhHHHHHHHhhccCCCCCCCCCccceeehhhhhhhHhhhccChHHHHHHHHHHHHhcCcC
Q 018359 186 LGTVHLCRSVIRSIETARIFDFEEFPKRDKVTYMYYTGRLEVFNENFPAADQKLSYALINCNPQ 249 (357)
Q Consensus 186 l~~~~l~~nlik~i~~~~~p~~~~~~~~~~v~y~YY~Gr~~~~~~~~~~A~~~L~~A~~~c~~~ 249 (357)
-|+++.+..-++..-. ++ | + +..++++|+++...|++.+|.++++.|++.-|..
T Consensus 433 ~g~~~~A~~~l~rAl~-----L~--p-s--~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~ 486 (517)
T PRK10153 433 KGKTDEAYQAINKAID-----LE--M-S--WLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGE 486 (517)
T ss_pred cCCHHHHHHHHHHHHH-----cC--C-C--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Confidence 4777777766553221 11 2 2 4588999999999999999999999999987753
Done!