Query 030744
Match_columns 172
No_of_seqs 118 out of 632
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 03:55:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030744.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030744hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10607 CLTH: CTLH/CRA C-term 100.0 3.1E-34 6.7E-39 214.2 14.4 141 10-152 1-144 (145)
2 KOG2659 LisH motif-containing 100.0 6.8E-34 1.5E-38 224.4 15.4 154 2-155 56-210 (228)
3 KOG0396 Uncharacterized conser 99.9 8.9E-21 1.9E-25 157.7 13.8 137 6-144 148-285 (389)
4 smart00757 CRA CT11-RanBPM. pr 99.8 1.9E-19 4.2E-24 125.9 11.0 94 64-157 2-98 (99)
5 KOG2817 Predicted E3 ubiquitin 99.7 3.9E-17 8.5E-22 137.3 11.8 132 11-144 156-291 (394)
6 smart00668 CTLH C-terminal to 99.5 1.1E-13 2.4E-18 87.6 5.9 56 11-66 2-57 (58)
7 KOG1477 SPRY domain-containing 99.0 7.8E-11 1.7E-15 103.2 0.9 157 14-171 308-468 (469)
8 KOG0293 WD40 repeat-containing 98.4 3.5E-06 7.5E-11 72.2 9.8 137 13-154 52-191 (519)
9 PF14559 TPR_19: Tetratricopep 89.3 2.1 4.5E-05 26.5 6.1 60 20-84 1-60 (68)
10 COG5109 Uncharacterized conser 81.7 17 0.00036 30.9 9.1 131 10-144 138-293 (396)
11 cd08044 TAF5_NTD2 TAF5_NTD2 is 78.8 0.88 1.9E-05 33.3 0.7 97 46-144 28-125 (133)
12 PRK02289 4-oxalocrotonate taut 65.3 10 0.00022 23.6 3.2 26 110-135 12-37 (60)
13 PF13838 Clathrin_H_link: Clat 65.0 15 0.00031 23.9 3.9 39 50-90 7-47 (66)
14 PF04494 TFIID_90kDa: WD40 ass 62.0 15 0.00033 27.0 4.2 47 46-94 39-85 (142)
15 COG3071 HemY Uncharacterized e 61.1 85 0.0018 27.5 9.0 74 15-100 268-341 (400)
16 PTZ00196 60S ribosomal protein 58.1 19 0.00042 25.2 3.8 32 49-80 48-79 (98)
17 KOG0275 Conserved WD40 repeat- 57.1 53 0.0011 28.3 6.9 131 12-154 42-176 (508)
18 PF14689 SPOB_a: Sensor_kinase 54.9 37 0.0008 21.3 4.5 31 11-41 24-54 (62)
19 PF12895 Apc3: Anaphase-promot 53.9 12 0.00026 24.3 2.3 19 17-35 32-50 (84)
20 PF13432 TPR_16: Tetratricopep 51.3 53 0.0011 19.8 5.4 56 17-77 4-59 (65)
21 PRK01271 4-oxalocrotonate taut 50.5 25 0.00055 23.3 3.3 26 110-135 13-38 (76)
22 PF01361 Tautomerase: Tautomer 48.4 25 0.00055 21.4 3.0 25 111-135 12-36 (60)
23 PF01158 Ribosomal_L36e: Ribos 46.7 37 0.0008 23.8 3.8 32 49-80 48-79 (98)
24 KOG2910 Uncharacterized conser 46.5 86 0.0019 24.7 6.1 63 12-76 41-116 (209)
25 PF14973 TINF2_N: TERF1-intera 46.4 73 0.0016 23.8 5.6 76 16-95 46-129 (145)
26 PF07721 TPR_4: Tetratricopept 45.9 27 0.00058 17.7 2.3 17 18-34 9-25 (26)
27 PF12854 PPR_1: PPR repeat 45.1 50 0.0011 17.8 3.7 26 10-35 7-32 (34)
28 KOG0396 Uncharacterized conser 43.7 1E+02 0.0022 26.8 6.7 86 12-100 118-206 (389)
29 PF14691 Fer4_20: Dihydroprymi 43.6 33 0.00072 24.3 3.3 23 16-38 44-66 (111)
30 cd00491 4Oxalocrotonate_Tautom 43.5 41 0.00088 20.1 3.3 25 111-135 12-36 (58)
31 TIGR00756 PPR pentatricopeptid 43.3 39 0.00085 17.1 2.9 22 15-36 5-26 (35)
32 PRK01964 4-oxalocrotonate taut 42.9 40 0.00088 20.9 3.3 26 110-135 12-37 (64)
33 PRK07143 hypothetical protein; 42.5 17 0.00037 30.1 1.9 24 15-38 153-176 (279)
34 PRK02220 4-oxalocrotonate taut 42.0 42 0.00092 20.4 3.3 26 110-135 12-37 (61)
35 TIGR00013 taut 4-oxalocrotonat 41.8 45 0.00097 20.4 3.4 26 110-135 12-37 (63)
36 COG4105 ComL DNA uptake lipopr 41.5 2E+02 0.0043 23.6 9.0 62 14-81 38-103 (254)
37 TIGR00083 ribF riboflavin kina 41.3 27 0.00059 29.0 2.9 24 15-38 147-170 (288)
38 COG0268 RpsT Ribosomal protein 41.1 48 0.001 22.7 3.6 28 15-42 33-60 (88)
39 PF04157 EAP30: EAP30/Vps36 fa 41.0 1.8E+02 0.0039 22.9 9.0 79 65-143 39-121 (223)
40 PF00627 UBA: UBA/TS-N domain; 40.7 46 0.001 18.4 3.0 19 15-33 17-37 (37)
41 KOG3452 60S ribosomal protein 40.4 53 0.0012 23.0 3.7 45 49-96 50-94 (102)
42 PF12793 SgrR_N: Sugar transpo 40.3 55 0.0012 23.3 4.0 24 14-38 74-97 (115)
43 PF07035 Mic1: Colon cancer-as 39.7 54 0.0012 25.1 4.1 62 14-75 49-115 (167)
44 PF04121 Nup84_Nup100: Nuclear 38.9 43 0.00093 31.3 4.1 29 8-36 131-159 (697)
45 KOG2235 Uncharacterized conser 38.3 72 0.0016 29.7 5.2 65 58-129 66-131 (776)
46 PF06957 COPI_C: Coatomer (COP 38.2 1.5E+02 0.0034 26.1 7.2 26 11-36 119-144 (422)
47 KOG3060 Uncharacterized conser 38.1 1.3E+02 0.0028 25.1 6.2 65 23-92 99-163 (289)
48 PF07208 DUF1414: Protein of u 37.2 60 0.0013 19.3 3.1 20 110-129 24-43 (44)
49 COG5443 FlbT Flagellar biosynt 37.1 59 0.0013 24.1 3.7 31 8-38 92-122 (148)
50 PF10827 DUF2552: Protein of u 37.1 23 0.0005 23.3 1.5 16 25-40 60-75 (79)
51 PRK00745 4-oxalocrotonate taut 36.8 60 0.0013 19.7 3.4 25 110-134 12-36 (62)
52 COG5051 RPL36A Ribosomal prote 36.7 78 0.0017 21.7 4.0 44 50-96 51-94 (97)
53 PF07079 DUF1347: Protein of u 36.2 2.9E+02 0.0062 25.1 8.4 51 14-64 132-190 (549)
54 PF13934 ELYS: Nuclear pore co 36.1 79 0.0017 25.2 4.7 16 60-75 151-166 (226)
55 KOG1156 N-terminal acetyltrans 35.5 3.8E+02 0.0083 25.2 13.4 127 11-144 186-332 (700)
56 PRK04984 fatty acid metabolism 35.2 82 0.0018 24.7 4.7 24 54-77 194-217 (239)
57 PRK00794 flbT flagellar biosyn 34.5 88 0.0019 23.0 4.4 30 9-38 92-121 (132)
58 PF14276 DUF4363: Domain of un 33.7 1.7E+02 0.0037 20.5 7.8 47 13-59 31-77 (121)
59 PRK05627 bifunctional riboflav 32.9 34 0.00074 28.7 2.2 24 15-38 164-187 (305)
60 PF12931 Sec16_C: Sec23-bindin 32.9 46 0.001 27.4 3.0 20 16-35 1-20 (284)
61 PF13371 TPR_9: Tetratricopept 32.8 1.2E+02 0.0026 18.5 7.0 55 20-79 5-59 (73)
62 PF07378 FlbT: Flagellar prote 32.5 87 0.0019 22.8 4.0 32 7-38 88-119 (126)
63 PF13041 PPR_2: PPR repeat fam 32.5 63 0.0014 18.6 2.8 24 14-37 7-30 (50)
64 PF12169 DNA_pol3_gamma3: DNA 32.4 1.1E+02 0.0025 21.7 4.8 23 15-37 19-41 (143)
65 PF13812 PPR_3: Pentatricopept 32.0 75 0.0016 16.2 2.9 23 14-36 5-27 (34)
66 PF01535 PPR: PPR repeat; Int 31.7 60 0.0013 16.1 2.4 22 15-36 5-26 (31)
67 TIGR01470 cysG_Nterm siroheme 31.6 1.2E+02 0.0027 23.6 5.1 64 12-76 135-204 (205)
68 PF10602 RPN7: 26S proteasome 30.6 2.4E+02 0.0052 21.4 7.2 53 16-68 79-132 (177)
69 COG1942 Uncharacterized protei 30.6 90 0.0019 20.2 3.5 26 110-135 13-38 (69)
70 PF14691 Fer4_20: Dihydroprymi 30.0 65 0.0014 22.8 3.0 26 50-75 39-64 (111)
71 PRK15359 type III secretion sy 29.7 2.1E+02 0.0045 20.6 5.8 57 16-77 30-86 (144)
72 COG5516 Conserved protein cont 29.7 1.4E+02 0.0031 23.2 4.9 57 112-171 42-99 (196)
73 KOG0989 Replication factor C, 29.2 2.5E+02 0.0055 24.1 6.7 73 21-93 219-299 (346)
74 PRK00239 rpsT 30S ribosomal pr 29.0 98 0.0021 21.1 3.6 27 16-42 34-60 (88)
75 PRK09239 chorismate mutase; Pr 28.8 2.1E+02 0.0045 20.0 6.2 49 108-158 50-102 (104)
76 PF14498 Glyco_hyd_65N_2: Glyc 28.3 38 0.00082 26.9 1.7 34 4-37 48-81 (236)
77 PRK10421 DNA-binding transcrip 28.3 1.4E+02 0.003 23.7 5.0 29 10-38 190-218 (253)
78 PF12569 NARP1: NMDA receptor- 28.2 1.4E+02 0.0031 27.0 5.5 71 20-95 14-84 (517)
79 PF10607 CLTH: CTLH/CRA C-term 27.5 72 0.0016 22.9 3.0 30 8-37 38-67 (145)
80 PF01649 Ribosomal_S20p: Ribos 25.7 1.2E+02 0.0027 20.4 3.6 28 15-42 32-59 (84)
81 PF00701 DHDPS: Dihydrodipicol 25.4 3.7E+02 0.008 21.8 8.0 19 15-33 215-233 (289)
82 TIGR03504 FimV_Cterm FimV C-te 25.1 1E+02 0.0023 18.0 2.8 19 18-36 7-25 (44)
83 PF13428 TPR_14: Tetratricopep 25.1 1E+02 0.0022 17.3 2.8 18 18-35 9-26 (44)
84 PRK10225 DNA-binding transcrip 25.0 1.2E+02 0.0027 24.0 4.2 26 53-78 201-226 (257)
85 PLN02150 terpene synthase/cycl 24.4 1.6E+02 0.0035 20.2 4.1 35 116-152 33-67 (96)
86 KOG3930 Uncharacterized conser 23.9 1.5E+02 0.0032 25.4 4.4 50 106-155 21-71 (389)
87 PF08625 Utp13: Utp13 specific 23.7 2.3E+02 0.005 20.9 5.1 22 15-36 2-23 (141)
88 PF10475 DUF2450: Protein of u 23.5 1.2E+02 0.0025 25.1 3.8 29 12-40 129-157 (291)
89 PF12862 Apc5: Anaphase-promot 23.4 2.3E+02 0.0051 18.8 6.3 28 17-44 5-32 (94)
90 PRK12791 flbT flagellar biosyn 22.8 1.7E+02 0.0038 21.5 4.2 27 12-38 92-118 (131)
91 COG5117 NOC3 Protein involved 22.6 5.9E+02 0.013 23.2 8.0 103 11-127 375-480 (657)
92 cd00194 UBA Ubiquitin Associat 22.4 69 0.0015 17.4 1.6 21 14-34 15-37 (38)
93 KOG2659 LisH motif-containing 22.2 2.1E+02 0.0045 23.1 4.8 63 14-78 31-93 (228)
94 PF07719 TPR_2: Tetratricopept 21.9 1.1E+02 0.0024 15.4 2.4 16 20-35 11-26 (34)
95 TIGR00029 S20 ribosomal protei 21.9 1.6E+02 0.0035 20.0 3.6 28 15-42 33-60 (87)
96 PF09712 PHA_synth_III_E: Poly 21.9 2.2E+02 0.0048 23.7 5.2 68 87-154 222-290 (293)
97 PRK09464 pdhR transcriptional 21.0 2.1E+02 0.0047 22.5 4.8 23 16-38 204-226 (254)
98 cd00686 Terpene_cyclase_cis_tr 20.8 1.8E+02 0.0038 25.2 4.3 79 89-172 214-294 (357)
99 COG3492 Uncharacterized protei 20.4 2.9E+02 0.0062 19.2 4.5 46 109-154 5-50 (104)
100 PF13424 TPR_12: Tetratricopep 20.1 2.3E+02 0.005 17.5 5.0 56 20-76 15-73 (78)
101 PRK04964 hypothetical protein; 20.1 99 0.0021 19.8 2.1 26 64-89 22-47 (66)
No 1
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=100.00 E-value=3.1e-34 Score=214.24 Aligned_cols=141 Identities=35% Similarity=0.574 Sum_probs=133.5
Q ss_pred hHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchhhHHHH
Q 030744 10 DMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKL 89 (172)
Q Consensus 10 ~~~~R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~~~~l 89 (172)
++.+|+.|+++|++|++++|++|+++++|.+++.++.++|.|++|+|||||+++++.+||+|||+++.++. ..+.+++
T Consensus 1 ~~~~r~~I~~~I~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~~~~Ai~y~r~~l~~~~--~~~~~~l 78 (145)
T PF10607_consen 1 SFKERKKIRQAILNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGDIMEAIEYARKHLSPFN--DEFLEEL 78 (145)
T ss_pred CHHHHHHHHHHHHcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhH--HHHHHHH
Confidence 47899999999999999999999999999999999999999999999999999999999999999997665 3689999
Q ss_pred HHHHhHhcccCCCC---CcchhcCCHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHH
Q 030744 90 EDFMALLAYEEPEK---SPMFHLLSLEYRQHVADNLNRAILAHAERPRYAAMERLIQQTTAVRQCL 152 (172)
Q Consensus 90 ~~~~~LLay~~~~~---sp~~~ll~~~~r~~la~~vn~aIL~~~g~~~~s~Le~l~~~~~~~~~~l 152 (172)
+++|+||+|++|.+ +|+++++++++|+.+|+.||++|+.+.|.|+.|+|+.++++..++..++
T Consensus 79 ~~~~~lL~~~~~~~~~~s~~~~l~~~~~~~~la~~~~~~~l~~~~~~~~s~L~~~~~~g~~~l~~l 144 (145)
T PF10607_consen 79 KKLMSLLAYPDPEEPLPSPYKELLSPERREELAEEFNSAILKSYGLPKESPLEVILKAGLSALKTL 144 (145)
T ss_pred HHHHHHHHcCCcccccchHHHHHhChHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHHHhhhc
Confidence 99999999999987 7999999999999999999999999999999999999999998887654
No 2
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=100.00 E-value=6.8e-34 Score=224.39 Aligned_cols=154 Identities=39% Similarity=0.539 Sum_probs=147.8
Q ss_pred CCchhcHHhHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCC
Q 030744 2 KQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGK 81 (172)
Q Consensus 2 ~~~~~~~~~~~~R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~ 81 (172)
++|..|++++..|..|+.+|..|+|+.|++.+++++|+++++|.+|.|.|++|+||||||.|..++||+|||+++++++.
T Consensus 56 ~~~~~d~~~~~eR~~Ir~~I~~G~Ie~Aie~in~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~LA~~a~ 135 (228)
T KOG2659|consen 56 KPPSIDLDSMDERLQIRRAIEEGQIEEAIEKVNQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKLAPFAE 135 (228)
T ss_pred CCccCchhhHhHHHHHHHHHHhccHHHHHHHHHHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHcccccc
Confidence 45689999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred -chhhHHHHHHHHhHhcccCCCCCcchhcCCHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHHh
Q 030744 82 -VQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILAHAERPRYAAMERLIQQTTAVRQCLSQE 155 (172)
Q Consensus 82 -~~~~~~~l~~~~~LLay~~~~~sp~~~ll~~~~r~~la~~vn~aIL~~~g~~~~s~Le~l~~~~~~~~~~l~~~ 155 (172)
+++++.+++++|++|+|++|+.||++++++.++|+++|++||++||.+++.+..+.|..+++...+.+..+...
T Consensus 136 e~~~~~~elE~~l~lLvf~~~~~sp~~~l~~~s~R~kvA~~vN~aiL~~~~~~~~~~l~~llk~~~~~~~~~~~~ 210 (228)
T KOG2659|consen 136 ENPKKMEELERTLALLVFELSQESPSAELLSQSLRQKVASEVNSAILASQEHESEPKLPFLLKLISWAQEELDRE 210 (228)
T ss_pred ccHHHHHHHHHHHHHHHcCCcccCcHHHHHHHHHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHhHh
Confidence 77899999999999999999999999999999999999999999999999999999999999888888777665
No 3
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.86 E-value=8.9e-21 Score=157.71 Aligned_cols=137 Identities=22% Similarity=0.265 Sum_probs=128.4
Q ss_pred hcHHhHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchhh
Q 030744 6 NCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKY 85 (172)
Q Consensus 6 ~~~~~~~~R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~ 85 (172)
.|.+-.+.-+.|+++|+.|++.+|+.||++|.-.+-+.++.++|.++.|+|||||+.+++.+||+|++++|++++ .++
T Consensus 148 vD~Dv~~~~~~I~~sll~~~l~~~Lswc~ehk~~LkK~~S~lEf~lRlQefIELi~~~~~~~Ai~~akk~f~~~~--~~~ 225 (389)
T KOG0396|consen 148 VDSDVYKRAYGIRDSLLAGELEPALSWCKEHKVELKKEESSLEFQLRLQEFIELIKVDNYDKAIAFAKKHFAPWA--KSH 225 (389)
T ss_pred HhHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhhhh--hhh
Confidence 466777888999999999999999999999999999999999999999999999999999999999999999998 488
Q ss_pred HHHHHHHHhHhcccC-CCCCcchhcCCHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHH
Q 030744 86 VEKLEDFMALLAYEE-PEKSPMFHLLSLEYRQHVADNLNRAILAHAERPRYAAMERLIQQ 144 (172)
Q Consensus 86 ~~~l~~~~~LLay~~-~~~sp~~~ll~~~~r~~la~~vn~aIL~~~g~~~~s~Le~l~~~ 144 (172)
...++.+||+|||+. +..++|..+++.+||+.+++.+-+-.+...|+|..|+|-..++.
T Consensus 226 ~~~Lk~a~g~laF~~~t~~sky~~l~~~~rw~~l~~lF~s~a~~l~~i~~~~~L~~~l~~ 285 (389)
T KOG0396|consen 226 KSDLKLAMGLLAFPKYTSSSKYLNLLTADRWSVLADLFLSEALKLFGIPINPALTIYLQA 285 (389)
T ss_pred HHHHHHHHHhhcCccccCcccccCcccHHHHHHHHHHhhHHHHHHhCCCCCcHHHHHHHh
Confidence 999999999999986 55567999999999999999999999999999999999888874
No 4
>smart00757 CRA CT11-RanBPM. protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi)
Probab=99.82 E-value=1.9e-19 Score=125.93 Aligned_cols=94 Identities=39% Similarity=0.560 Sum_probs=87.1
Q ss_pred ChHHHHHHHHhhccCcCC-chhhHHHHHHHHhHhcccCC-CCCcchhcCCHHHHHHHHHHHHHHHHHhc-CCCCchHHHH
Q 030744 64 KCTEALEFAQTKLTPFGK-VQKYVEKLEDFMALLAYEEP-EKSPMFHLLSLEYRQHVADNLNRAILAHA-ERPRYAAMER 140 (172)
Q Consensus 64 ~~~eAi~~ar~~l~~~~~-~~~~~~~l~~~~~LLay~~~-~~sp~~~ll~~~~r~~la~~vn~aIL~~~-g~~~~s~Le~ 140 (172)
++.+||+|||+++++|.. ++.+.++++++||||||+++ +.+|+++++++++|+.+|++||++||... |.+.+|.|+.
T Consensus 2 ~~~eAi~yar~~l~~~~~~~~~~~~el~~~m~llaf~~~~~~sp~~~ll~~~~~~~la~~~n~~~l~~~~~~~~~s~L~~ 81 (99)
T smart00757 2 KIEEALAYARELLAPFAKEHEKFLKELEKTMALLAYPDPTEPSPYKELLSPSQREKLAEELNSAILELLHGKSSESPLEI 81 (99)
T ss_pred cHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHhcCCCCCCccHHHHCCHHHHHHHHHHHHHHHHHHccCCCCCChHHH
Confidence 578999999999999986 55568899999999999998 89999999999999999999999999998 9999999999
Q ss_pred HHHHHHHHHHHHHHhcC
Q 030744 141 LIQQTTAVRQCLSQELG 157 (172)
Q Consensus 141 l~~~~~~~~~~l~~~~~ 157 (172)
++++..++...+...++
T Consensus 82 ~~~~~~~~~~~l~~~~~ 98 (99)
T smart00757 82 LLSAGLAALKTLLEKGG 98 (99)
T ss_pred HHHHHHHHHHHHHHhcC
Confidence 99999999998887664
No 5
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.73 E-value=3.9e-17 Score=137.25 Aligned_cols=132 Identities=28% Similarity=0.387 Sum_probs=121.2
Q ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChH--HHHHHHHhhccCcCCchhhHHH
Q 030744 11 MEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCT--EALEFAQTKLTPFGKVQKYVEK 88 (172)
Q Consensus 11 ~~~R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~--eAi~~ar~~l~~~~~~~~~~~~ 88 (172)
.-+-++|.++|..||+++|++|+..+...|.+.++.|+|+|+.++|+++++.|.-. +||.|||++++||+ ..+.++
T Consensus 156 F~el~~Iv~~lke~Dl~~aLeWa~~~~~~L~~~~s~LE~~Lh~l~fl~l~~~g~~~~~eAl~Yar~~~~~F~--~~~~~e 233 (394)
T KOG2817|consen 156 FVELNQIVEALKERDLEPALEWAESNRQKLKEKSSSLEFKLHSLHFLSLIRGGKSDQREALRYARTHFAPFV--ADHLRE 233 (394)
T ss_pred HHHHHHHHHHHHhccchhHHHHHHHhhhhhccccccHHHHHHHHHHHHHHhcCCcCcHHHHHHHHHhcCccc--cchHHH
Confidence 44568899999999999999999999999999999999999999999999988766 99999999999998 456899
Q ss_pred HHHHHhHhccc-C-CCCCcchhcCCHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHH
Q 030744 89 LEDFMALLAYE-E-PEKSPMFHLLSLEYRQHVADNLNRAILAHAERPRYAAMERLIQQ 144 (172)
Q Consensus 89 l~~~~~LLay~-~-~~~sp~~~ll~~~~r~~la~~vn~aIL~~~g~~~~s~Le~l~~~ 144 (172)
++.+|++|.|- + .++|||.+++++..|..+.+++-+-.+..+|+|.+|+|-.++.-
T Consensus 234 IQklm~sl~~l~~gl~~spy~~~ls~~~w~~~~~~f~r~ycallg~s~eSPL~v~v~a 291 (394)
T KOG2817|consen 234 IQKLMGSLLYLRNGLEKSPYSEILSPKLWKELTEEFTREYCALLGISVESPLSVLVNA 291 (394)
T ss_pred HHHHHHHHHHHHcCCCCCChHHHhCHHHHHHHHHHHHHHHHHHcCCCccCcHHHHHHh
Confidence 99999999994 3 57999999999999999999999999999999999888877764
No 6
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=99.47 E-value=1.1e-13 Score=87.55 Aligned_cols=56 Identities=38% Similarity=0.524 Sum_probs=52.8
Q ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChH
Q 030744 11 MEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCT 66 (172)
Q Consensus 11 ~~~R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~ 66 (172)
..+|..|+++|+.|+|++|++|++.++|.+.+.++.+.|.|++|+|+||++.++..
T Consensus 2 ~~~~~~i~~~i~~g~~~~a~~~~~~~~~~l~~~~~~l~f~L~~q~~lell~~~~~~ 57 (58)
T smart00668 2 FDERKRIRELILKGDWDEALEWLSSLKPPLLERNSKLEFELRKQKFLELVRQGKLE 57 (58)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHcCHHHhccCCCchhHHHHHHHHHHHHcCCcC
Confidence 46899999999999999999999999999999999999999999999999987653
No 7
>KOG1477 consensus SPRY domain-containing proteins [General function prediction only]
Probab=99.00 E-value=7.8e-11 Score=103.16 Aligned_cols=157 Identities=24% Similarity=0.165 Sum_probs=130.6
Q ss_pred HHHHHHHHHcCCHHHHHHHHHHhcHHHHc-cCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCC---chhhHHHH
Q 030744 14 RKRILHFALEGNALKAIELTEELAQDLLE-KNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGK---VQKYVEKL 89 (172)
Q Consensus 14 R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~-~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~---~~~~~~~l 89 (172)
|+.+.....+|....|+.-....+....+ +.+...+.+.|+.+|.+.+.+.+...+++.+..+++... +.....++
T Consensus 308 ~~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~g~v~~e~~~~k~~l~~~~g~~~~~~~~~~~ 387 (469)
T KOG1477|consen 308 RKGRGQFTRNGAYNAALIPTYRKVGQVFEVDYPQRGAKDPCGLHVNLGRAGFVFIEANAKKWELAKDYGIKKNSAAVGML 387 (469)
T ss_pred hcCcceeechhhhcccccccccccceeecccccchhhccchhhhhhHHHHHHHHHHHHHHHHhhhhhhCcCccccccccc
Confidence 34444445555555555444444432222 457899999999999999999999999999988887654 66788999
Q ss_pred HHHHhHhcccCCCCCcchhcCCHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHHhcCCCCCCCcchhhh
Q 030744 90 EDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILAHAERPRYAAMERLIQQTTAVRQCLSQELGKDVHPPFSLKDF 169 (172)
Q Consensus 90 ~~~~~LLay~~~~~sp~~~ll~~~~r~~la~~vn~aIL~~~g~~~~s~Le~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 169 (172)
+.+++||+|++|..||...++++.+|+-+++.+|.+||...+.+..+.||+++.|+.++...+...+++.. .++++.+.
T Consensus 388 ~~s~~Llays~p~~s~~g~~~~~~~~e~v~~~~n~~il~t~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~ 466 (469)
T KOG1477|consen 388 SDSSSLLAYSDPEESPVGYLLDPIQREPVAEALNSAILETDNNSKDPDLERVLSQTPAELSLYARDNPPRN-DFVRDRDY 466 (469)
T ss_pred cchHHHHHhcCcccCccccccCcccchhHHhhhcccccccCCCCccchhhhhhccchhhHhhhhhcCCCcc-ceecchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999988877 78888877
Q ss_pred hc
Q 030744 170 MK 171 (172)
Q Consensus 170 ~~ 171 (172)
++
T Consensus 467 ~~ 468 (469)
T KOG1477|consen 467 FH 468 (469)
T ss_pred hc
Confidence 65
No 8
>KOG0293 consensus WD40 repeat-containing protein [Function unknown]
Probab=98.35 E-value=3.5e-06 Score=72.18 Aligned_cols=137 Identities=16% Similarity=0.139 Sum_probs=104.5
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHHh-cHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchhhHHHHHH
Q 030744 13 MRKRILHFALEGNALKAIELTEEL-AQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLED 91 (172)
Q Consensus 13 ~R~~I~~~I~~G~i~~Ai~~i~~~-~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~ 91 (172)
+-+...+++++|+|+.++..+... ++. ........|.+.+|.|+|.++.|++..|+...|..+.+.. .-.+.+.+
T Consensus 52 t~klf~q~vlqg~w~q~v~~~~~i~~~d-e~~~~ea~fLv~kQ~fLEf~k~~~is~al~~l~~~~~~lr---~~~kk~~e 127 (519)
T KOG0293|consen 52 TTKLFDQQVLQGQWDQQVMSLVRISFED-ERNRKEAMFLVNKQIFLEFLKTGSISHALPVLRNPVLYLR---KNKKKFHE 127 (519)
T ss_pred hHHHHHHHHHcccHHHHHHHHhhccCcc-hhhhHHHHHHHHHHHHHHHHhhccHhhhhHhhhcchhhhh---hhHHHHHH
Confidence 345678999999999999888877 554 5566789999999999999999999999999997665553 23456677
Q ss_pred HHhHhcccCCCCC-cc-hhcCCHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHH
Q 030744 92 FMALLAYEEPEKS-PM-FHLLSLEYRQHVADNLNRAILAHAERPRYAAMERLIQQTTAVRQCLSQ 154 (172)
Q Consensus 92 ~~~LLay~~~~~s-p~-~~ll~~~~r~~la~~vn~aIL~~~g~~~~s~Le~l~~~~~~~~~~l~~ 154 (172)
+.+.|.+++...+ .. ..-.....|.+|.+++...|-...-+| +-+||++++|+...+..-..
T Consensus 128 l~~sll~sn~~~~ne~~~~~~~~n~R~~ll~elskyi~p~illP-~rRLehLl~qAv~~Q~d~cv 191 (519)
T KOG0293|consen 128 LASSLLVSNDQFSNEENTTAQLNNERDKLLDELSKYIPPNILLP-KRRLEHLLEQAVKYQRDSCV 191 (519)
T ss_pred HHHHHhccccccccccchhhhhchhHHHHHHHHHhhCCHhhcCC-hHHHHHHHHHHHHHHHhHhH
Confidence 7777788764322 11 112233568899999999999988885 69999999999876544433
No 9
>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=89.34 E-value=2.1 Score=26.53 Aligned_cols=60 Identities=22% Similarity=0.117 Sum_probs=37.3
Q ss_pred HHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchh
Q 030744 20 FALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQK 84 (172)
Q Consensus 20 ~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~ 84 (172)
++..|+++.|++.+++... ....+.++.+.| -.=+++.|+.++|.....+.+.....++.
T Consensus 1 ll~~~~~~~A~~~~~~~l~-~~p~~~~~~~~l----a~~~~~~g~~~~A~~~l~~~~~~~~~~~~ 60 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKALQ-RNPDNPEARLLL----AQCYLKQGQYDEAEELLERLLKQDPDNPE 60 (68)
T ss_dssp HHHTTHHHHHHHHHHHHHH-HTTTSHHHHHHH----HHHHHHTT-HHHHHHHHHCCHGGGTTHHH
T ss_pred ChhccCHHHHHHHHHHHHH-HCCCCHHHHHHH----HHHHHHcCCHHHHHHHHHHHHHHCcCHHH
Confidence 5789999999999876531 111223333322 22356889999999999876665543333
No 10
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=81.72 E-value=17 Score=30.94 Aligned_cols=131 Identities=18% Similarity=0.261 Sum_probs=87.3
Q ss_pred hHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhh--HHHHHHHHhhcChHHHHHHHHhhccCcCCchhhHH
Q 030744 10 DMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLL--SLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVE 87 (172)
Q Consensus 10 ~~~~R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~--~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~~~ 87 (172)
-...-+.|.+-|.+.+...-++|. +....+-+.++..++.|. ...++-++-. .+++|+.+-++.++.|. +.+..
T Consensus 138 ~f~~lK~v~~gI~~k~~~l~iE~~-Qi~gyl~kgdtesel~l~~~~~esl~l~hk-~~~~a~r~c~t~~a~f~--~kh~~ 213 (396)
T COG5109 138 GFVKLKKVISGISEKSTFLLIEFL-QIEGYLSKGDTESELELYLVSHESLLLIHK-RYDEALRLCFTKLASFV--PKHIQ 213 (396)
T ss_pred HHHHHHHHHHhhccchhHhHHHHH-HhcCccccCCchhhhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH--HHhcc
Confidence 344455666777778888888888 444444444444444444 4444444443 89999999999999988 66777
Q ss_pred HHHHHHhHhcccCC------CC-C--cchhcCC--------------HHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHH
Q 030744 88 KLEDFMALLAYEEP------EK-S--PMFHLLS--------------LEYRQHVADNLNRAILAHAERPRYAAMERLIQQ 144 (172)
Q Consensus 88 ~l~~~~~LLay~~~------~~-s--p~~~ll~--------------~~~r~~la~~vn~aIL~~~g~~~~s~Le~l~~~ 144 (172)
.++..|-.+.+-+. ++ + ...+++. ..-|..+-+.+-+-.+...|++-.|+|..++..
T Consensus 214 dv~~~~~~l~nap~dcfrhrekelmqnI~~~l~ksligqPiEdIDkvnk~~k~l~~lF~~eycaa~gm~~~spL~~~v~t 293 (396)
T COG5109 214 DVKPLLRFLVNAPTDCFRHREKELMQNIQEALKKSLIGQPIEDIDKVNKSRKKLIELFKSEYCAANGMPNRSPLRELVET 293 (396)
T ss_pred chHHHHHHHHcCchHHhhhcchhHHHHHHHHHHHhhcCCcHHHHHHhhhhHHHHHHHHHHHHHHhcCCCccChHHHHHHh
Confidence 77777776666321 11 0 0111111 135788888999999999999999999988875
No 11
>cd08044 TAF5_NTD2 TAF5_NTD2 is the second conserved N-terminal region of TATA Binding Protein (TBP) Associated Factor 5 (TAF5), involved in forming Transcription Factor IID (TFIID). The TATA Binding Protein (TBP) Associated Factor 5 (TAF5) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TAF5 contains three domains, two conserved sequence motifs at the N-terminal and one at the C-terminal region. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the preinitiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. In yeast and human cells, TAFs have been found as components of other complexes besides TFIID. TAF5 may play a major role in forming TFIID and its related complexes. TAFs from various
Probab=78.82 E-value=0.88 Score=33.31 Aligned_cols=97 Identities=14% Similarity=0.210 Sum_probs=58.1
Q ss_pred cceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchhhHHHHHHHHhHhcccCCCCCcch-hcCCHHHHHHHHHHHHH
Q 030744 46 DLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSPMF-HLLSLEYRQHVADNLNR 124 (172)
Q Consensus 46 ~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~LLay~~~~~sp~~-~ll~~~~r~~la~~vn~ 124 (172)
.+.|=+-+.=|++||.+|...+|..|-.+.-..+. +.+.+.++.+.++..-....+.+.. .+-+..-+-.+....-.
T Consensus 28 ~lLyPiFvh~yL~lv~~~~~~~A~~F~~~f~~~~~--~~~~~~i~~L~~i~~p~~l~~n~~~~~~r~~Ky~i~ms~~s~~ 105 (133)
T cd08044 28 QLLYPIFVHSYLDLVASGHLEEAKSFFERFSGDFE--DSHSEDIKKLSSITTPEHLKENELAKLFRSNKYVIRMSRDAYS 105 (133)
T ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhHhhH--HHHHHHHHHHHccCCHHHHhhhHHHHHHHhCCEEEEECHHHHH
Confidence 36788888889999999999999999987655553 5677777777644333332333322 22233334444444444
Q ss_pred HHHHhcCCCCchHHHHHHHH
Q 030744 125 AILAHAERPRYAAMERLIQQ 144 (172)
Q Consensus 125 aIL~~~g~~~~s~Le~l~~~ 144 (172)
.++.++.....+.+..++++
T Consensus 106 lL~~~L~~~~~~~~~~il~~ 125 (133)
T cd08044 106 LLLRFLESWGGSLLLKILNE 125 (133)
T ss_pred HHHHHHHHCCcHHHHHHHHh
Confidence 44444433444555555554
No 12
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=65.31 E-value=10 Score=23.57 Aligned_cols=26 Identities=19% Similarity=0.249 Sum_probs=23.5
Q ss_pred CCHHHHHHHHHHHHHHHHHhcCCCCc
Q 030744 110 LSLEYRQHVADNLNRAILAHAERPRY 135 (172)
Q Consensus 110 l~~~~r~~la~~vn~aIL~~~g~~~~ 135 (172)
.+.+++++|++.|..++.+.+|.|+.
T Consensus 12 rs~EqK~~L~~~it~a~~~~~~~p~~ 37 (60)
T PRK02289 12 RSQEQKNALAREVTEVVSRIAKAPKE 37 (60)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcCcc
Confidence 47899999999999999999999764
No 13
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=64.99 E-value=15 Score=23.87 Aligned_cols=39 Identities=26% Similarity=0.454 Sum_probs=27.6
Q ss_pred hhhHHHHHHHHhhcChHHHHHHHHhhccCcC--CchhhHHHHH
Q 030744 50 DLLSLHFVELVCSRKCTEALEFAQTKLTPFG--KVQKYVEKLE 90 (172)
Q Consensus 50 ~L~~q~fIELir~~~~~eAi~~ar~~l~~~~--~~~~~~~~l~ 90 (172)
.|..++|=+++..|++.+|-+.|-+ +|-. .+++.+.+++
T Consensus 7 ~l~~~~F~~l~~~g~y~eAA~~AA~--sP~giLRt~~Ti~rFk 47 (66)
T PF13838_consen 7 DLYVQQFNELFSQGQYEEAAKVAAN--SPRGILRTPETINRFK 47 (66)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHH--SGGGTT-SHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHh--CccchhcCHHHHHHHH
Confidence 4678999999999999999998874 3322 2556555555
No 14
>PF04494 TFIID_90kDa: WD40 associated region in TFIID subunit; InterPro: IPR007582 This region, possibly a domain is found in subunits of transcription factor TFIID. The function of this region is unknown.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2J4B_D 2J49_A 2NXP_F.
Probab=62.00 E-value=15 Score=27.04 Aligned_cols=47 Identities=19% Similarity=0.302 Sum_probs=37.4
Q ss_pred cceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchhhHHHHHHHHh
Q 030744 46 DLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMA 94 (172)
Q Consensus 46 ~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~ 94 (172)
.+.|=+-+.=|++||.+|...+|-.|-.++-..+. ..+...|+.+.+
T Consensus 39 ~lLyPvFvh~YL~Lv~~~~~~~A~~F~~kf~~~~~--~~~~~~i~~L~~ 85 (142)
T PF04494_consen 39 RLLYPVFVHSYLDLVSKGHPEEAKSFLEKFSPDFE--DSHQEDIEKLSS 85 (142)
T ss_dssp GGHHHHHHHHHHHHHHTT-HHHHHHHHHHHGGGGH--GHGHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHh--HHHHHHHHHHHh
Confidence 47888889999999999999999999998766665 456666777763
No 15
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=61.15 E-value=85 Score=27.47 Aligned_cols=74 Identities=12% Similarity=0.054 Sum_probs=56.2
Q ss_pred HHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchhhHHHHHHHHh
Q 030744 15 KRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMA 94 (172)
Q Consensus 15 ~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~ 94 (172)
.-+.++|..|+-++|.+++.+..+.-.+.+ ...||.-++-++...-++-+++-+.....+| .+-.+.|
T Consensus 268 ~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~--------L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p----~L~~tLG 335 (400)
T COG3071 268 AYAERLIRLGDHDEAQEIIEDALKRQWDPR--------LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP----LLLSTLG 335 (400)
T ss_pred HHHHHHHHcCChHHHHHHHHHHHHhccChh--------HHHHHhhcCCCCchHHHHHHHHHHHhCCCCh----hHHHHHH
Confidence 356789999999999999999888777664 4568888888888888888887777665444 5566667
Q ss_pred HhcccC
Q 030744 95 LLAYEE 100 (172)
Q Consensus 95 LLay~~ 100 (172)
-||+.+
T Consensus 336 ~L~~k~ 341 (400)
T COG3071 336 RLALKN 341 (400)
T ss_pred HHHHHh
Confidence 777764
No 16
>PTZ00196 60S ribosomal protein L36; Provisional
Probab=58.10 E-value=19 Score=25.16 Aligned_cols=32 Identities=25% Similarity=0.364 Sum_probs=27.4
Q ss_pred ehhhHHHHHHHHhhcChHHHHHHHHhhccCcC
Q 030744 49 FDLLSLHFVELVCSRKCTEALEFAQTKLTPFG 80 (172)
Q Consensus 49 F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~ 80 (172)
|-=+-.+.+||++.+.--.|++|+++.+..+.
T Consensus 48 faPYErr~mELLkv~kdKrAlKfaKkRlGth~ 79 (98)
T PTZ00196 48 FSPYERRMIELLKVGKDKRALKYAKKRLGTHK 79 (98)
T ss_pred ccHHHHHHHHHHHhcchHHHHHHHHHHhhhHH
Confidence 44567789999999999999999999987765
No 17
>KOG0275 consensus Conserved WD40 repeat-containing protein [General function prediction only]
Probab=57.13 E-value=53 Score=28.29 Aligned_cols=131 Identities=15% Similarity=0.119 Sum_probs=79.0
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCC----chhhHH
Q 030744 12 EMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGK----VQKYVE 87 (172)
Q Consensus 12 ~~R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~----~~~~~~ 87 (172)
..--...+.|-+|+||.++..+++..- -..-...|+.|-.+|||.-..+..|-..+|+. .|..- .|+-.-
T Consensus 42 DSvd~Fv~dI~sG~WD~VL~~vqsLKL-----P~kkL~dLYEqivlEliELREL~tAR~~lRQT-dpM~~lKQ~~peRy~ 115 (508)
T KOG0275|consen 42 DSVDGFVNDINSGHWDTVLKTVQSLKL-----PDKKLIDLYEQIVLELIELRELGTARSLLRQT-DPMIMLKQIQPERYI 115 (508)
T ss_pred hhHHHHHHhcccCchHHHHHHHHhccC-----chhHHHHHHHHHHHHHHHHHhhhHHHHHHhcc-CceehhhccChHHHH
Confidence 333456678889999999998877531 11224567888899998766666666666632 22221 344444
Q ss_pred HHHHHHhHhcccCCCCCcchhcCCHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHH
Q 030744 88 KLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILAHAERPRYAAMERLIQQTTAVRQCLSQ 154 (172)
Q Consensus 88 ~l~~~~~LLay~~~~~sp~~~ll~~~~r~~la~~vn~aIL~~~g~~~~s~Le~l~~~~~~~~~~l~~ 154 (172)
.++.++.= .|-|| ...|++--...+|..+|..+.. ..+.-+.|+|-.++-|+-.+++....
T Consensus 116 ~lE~ll~R-~YFDp-~EaY~dssKEkrRa~IAQ~ls~----EV~VVppSRLlaLlGQaLKWQqHQGL 176 (508)
T KOG0275|consen 116 RLENLLNR-SYFDP-REAYGDSSKEKRRAVIAQALSG----EVHVVPPSRLLALLGQALKWQQHQGL 176 (508)
T ss_pred HHHHHhcc-cccCh-hhhcCcchHHHHHHHHHHHhcC----ceEEcChHHHHHHHHHHhhhHhhcCC
Confidence 55554422 23343 2335553334566777776653 33444669999999998777655443
No 18
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=54.93 E-value=37 Score=21.31 Aligned_cols=31 Identities=26% Similarity=0.261 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHhcHHHH
Q 030744 11 MEMRKRILHFALEGNALKAIELTEELAQDLL 41 (172)
Q Consensus 11 ~~~R~~I~~~I~~G~i~~Ai~~i~~~~p~ll 41 (172)
+..=+-|...+..|++++|.+.+++..-++-
T Consensus 24 ~NhLqvI~gllqlg~~~~a~eYi~~~~~~~~ 54 (62)
T PF14689_consen 24 LNHLQVIYGLLQLGKYEEAKEYIKELSKDLQ 54 (62)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 4445667788889999999999987765443
No 19
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=53.89 E-value=12 Score=24.25 Aligned_cols=19 Identities=26% Similarity=0.324 Sum_probs=12.4
Q ss_pred HHHHHHcCCHHHHHHHHHH
Q 030744 17 ILHFALEGNALKAIELTEE 35 (172)
Q Consensus 17 I~~~I~~G~i~~Ai~~i~~ 35 (172)
-.-....|+++.|+++++.
T Consensus 32 a~~~~~~~~y~~A~~~~~~ 50 (84)
T PF12895_consen 32 AQCYFQQGKYEEAIELLQK 50 (84)
T ss_dssp HHHHHHTTHHHHHHHHHHC
T ss_pred HHHHHHCCCHHHHHHHHHH
Confidence 4445666777777777755
No 20
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=51.26 E-value=53 Score=19.78 Aligned_cols=56 Identities=21% Similarity=0.162 Sum_probs=33.2
Q ss_pred HHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhcc
Q 030744 17 ILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLT 77 (172)
Q Consensus 17 I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~ 77 (172)
-+.++..|+++.|++.+++ +++.+++-. ..+...-.=+...|+..+|+.+-++.+.
T Consensus 4 a~~~~~~g~~~~A~~~~~~----~l~~~P~~~-~a~~~lg~~~~~~g~~~~A~~~~~~a~~ 59 (65)
T PF13432_consen 4 ARALYQQGDYDEAIAAFEQ----ALKQDPDNP-EAWYLLGRILYQQGRYDEALAYYERALE 59 (65)
T ss_dssp HHHHHHCTHHHHHHHHHHH----HHCCSTTHH-HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHcCCHHHHHHHHHH----HHHHCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 3567889999999988754 445544311 1111111123367899999988886544
No 21
>PRK01271 4-oxalocrotonate tautomerase; Provisional
Probab=50.48 E-value=25 Score=23.26 Aligned_cols=26 Identities=19% Similarity=0.301 Sum_probs=23.5
Q ss_pred CCHHHHHHHHHHHHHHHHHhcCCCCc
Q 030744 110 LSLEYRQHVADNLNRAILAHAERPRY 135 (172)
Q Consensus 110 l~~~~r~~la~~vn~aIL~~~g~~~~ 135 (172)
.+.++.+.+|++|.+++-+.+|.+++
T Consensus 13 ~s~EqK~~La~~iT~a~~~~lg~~~e 38 (76)
T PRK01271 13 LDEEQKAALAADITDVIIRHLNSKDS 38 (76)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcCcc
Confidence 57899999999999999999999863
No 22
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=48.43 E-value=25 Score=21.42 Aligned_cols=25 Identities=16% Similarity=0.286 Sum_probs=21.2
Q ss_pred CHHHHHHHHHHHHHHHHHhcCCCCc
Q 030744 111 SLEYRQHVADNLNRAILAHAERPRY 135 (172)
Q Consensus 111 ~~~~r~~la~~vn~aIL~~~g~~~~ 135 (172)
+.+++.+++..+..++.+.+|.|+.
T Consensus 12 ~~e~K~~l~~~it~~~~~~lg~~~~ 36 (60)
T PF01361_consen 12 TAEQKRELAEAITDAVVEVLGIPPE 36 (60)
T ss_dssp -HHHHHHHHHHHHHHHHHHHTS-GG
T ss_pred CHHHHHHHHHHHHHHHHHHhCcCCC
Confidence 7789999999999999999999754
No 23
>PF01158 Ribosomal_L36e: Ribosomal protein L36e; InterPro: IPR000509 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic ribosomal proteins can be grouped on the basis of sequence similarities. The L36E ribosomal family consists of mammalian, Caenorhabditis elegans and Drosophila L36, Candida albicans L39, and yeast YL39 ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1B_Q 4A1D_Q 4A19_Q 4A18_Q 3IZS_k 3IZR_k.
Probab=46.75 E-value=37 Score=23.76 Aligned_cols=32 Identities=28% Similarity=0.293 Sum_probs=26.9
Q ss_pred ehhhHHHHHHHHhhcChHHHHHHHHhhccCcC
Q 030744 49 FDLLSLHFVELVCSRKCTEALEFAQTKLTPFG 80 (172)
Q Consensus 49 F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~ 80 (172)
|-=+-.+-+||++.+.--.|+.|+++.+....
T Consensus 48 faPYEkr~mELlkv~kdKrAlKf~KKRlGth~ 79 (98)
T PF01158_consen 48 FAPYEKRAMELLKVSKDKRALKFAKKRLGTHI 79 (98)
T ss_dssp HCHHHHHHHHHHHHCCHHHHHHHHHHHHCHHH
T ss_pred CChHHHHHHHHHhcchhHHHHHHHHHHhhhhH
Confidence 34456789999999999999999999987664
No 24
>KOG2910 consensus Uncharacterized conserved protein predicted to be involved in protein sorting [General function prediction only]
Probab=46.46 E-value=86 Score=24.73 Aligned_cols=63 Identities=21% Similarity=0.264 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHh--cHHHHcc-----------CCcceehhhHHHHHHHHhhcChHHHHHHHHhhc
Q 030744 12 EMRKRILHFALEGNALKAIELTEEL--AQDLLEK-----------NKDLHFDLLSLHFVELVCSRKCTEALEFAQTKL 76 (172)
Q Consensus 12 ~~R~~I~~~I~~G~i~~Ai~~i~~~--~p~ll~~-----------~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l 76 (172)
.+|...|++|+.|+=+.|+-++... +-+++.. -++++|.....++++=++.|+ +||+-.++.|
T Consensus 41 ~Er~~Ar~lird~rKdrAlllLKkKryQE~Ll~qt~~qL~nlEqmvsdiEft~vqk~V~~gLk~GN--~~lkkl~~~~ 116 (209)
T KOG2910|consen 41 AERQLARDLIRDGRKDRALLLLKKKRYQEELLTQTDNQLINLEQMVSDIEFTQVQKKVMEGLKQGN--EALKKLQQEF 116 (209)
T ss_pred HHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhc
Confidence 4688899999999999998777543 2244442 358999999999999999883 5666666543
No 25
>PF14973 TINF2_N: TERF1-interacting nuclear factor 2 N-terminus
Probab=46.43 E-value=73 Score=23.83 Aligned_cols=76 Identities=17% Similarity=0.261 Sum_probs=45.0
Q ss_pred HHHHHHHcCCHHHHHHHHHHhcHHHHcc-----CCcceehhhHHHHHHHHhh--cChHHHHHHHHhhcc-CcCCchhhHH
Q 030744 16 RILHFALEGNALKAIELTEELAQDLLEK-----NKDLHFDLLSLHFVELVCS--RKCTEALEFAQTKLT-PFGKVQKYVE 87 (172)
Q Consensus 16 ~I~~~I~~G~i~~Ai~~i~~~~p~ll~~-----~~~l~F~L~~q~fIELir~--~~~~eAi~~ar~~l~-~~~~~~~~~~ 87 (172)
.|.+++++|.-.. +..|+.|+|.+ .. .++..-.--...|..++++ .+-.+--.|-++.|. .|+ +.|..
T Consensus 46 lILELc~~~~~~d-l~~I~~Hl~~~-~~~~~~~~~D~~~~~~~~~F~~LV~~Ll~dp~~r~~f~qe~f~~eYG--~~f~~ 121 (145)
T PF14973_consen 46 LILELCRQERPWD-LKAIQPHLPRI-PQDPNATSKDHKMEEAHENFCQLVQNLLEDPEERENFFQEVFPQEYG--EPFDA 121 (145)
T ss_pred HHHHHHhCCCCch-HHHHHHhcccc-cccccccccHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHC--hHHHH
Confidence 4567777665444 99999999998 32 2233334455667777764 344444455554443 444 56666
Q ss_pred HHHHHHhH
Q 030744 88 KLEDFMAL 95 (172)
Q Consensus 88 ~l~~~~~L 95 (172)
.+++++.=
T Consensus 122 ~Le~L~~e 129 (145)
T PF14973_consen 122 ALEKLLWE 129 (145)
T ss_pred HHHHHHHH
Confidence 66666543
No 26
>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=45.92 E-value=27 Score=17.65 Aligned_cols=17 Identities=18% Similarity=0.155 Sum_probs=13.7
Q ss_pred HHHHHcCCHHHHHHHHH
Q 030744 18 LHFALEGNALKAIELTE 34 (172)
Q Consensus 18 ~~~I~~G~i~~Ai~~i~ 34 (172)
+-+...|++++|..++.
T Consensus 9 ~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 9 RALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHcCCHHHHHHHHh
Confidence 45678899999998875
No 27
>PF12854 PPR_1: PPR repeat
Probab=45.09 E-value=50 Score=17.80 Aligned_cols=26 Identities=23% Similarity=0.233 Sum_probs=20.8
Q ss_pred hHHHHHHHHHHHHcCCHHHHHHHHHH
Q 030744 10 DMEMRKRILHFALEGNALKAIELTEE 35 (172)
Q Consensus 10 ~~~~R~~I~~~I~~G~i~~Ai~~i~~ 35 (172)
...--..|.-.-.+|++++|++++++
T Consensus 7 ~~ty~~lI~~~Ck~G~~~~A~~l~~~ 32 (34)
T PF12854_consen 7 VVTYNTLIDGYCKAGRVDEAFELFDE 32 (34)
T ss_pred HhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence 34555678888899999999998865
No 28
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.73 E-value=1e+02 Score=26.80 Aligned_cols=86 Identities=15% Similarity=0.153 Sum_probs=62.5
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCC---chhhHHH
Q 030744 12 EMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGK---VQKYVEK 88 (172)
Q Consensus 12 ~~R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~---~~~~~~~ 88 (172)
-+|.-+...+++|.|++|..++.+..-+-+ .|+-+...-+.-..-+..|.+.+|+.|-.++=..+.+ .=++.-.
T Consensus 118 l~r~vvdhmlr~gy~~~A~~L~K~s~ledl---vD~Dv~~~~~~I~~sll~~~l~~~Lswc~ehk~~LkK~~S~lEf~lR 194 (389)
T KOG0396|consen 118 LDRFVVDHMLRNGYFGAAVLLGKKSQLEDL---VDSDVYKRAYGIRDSLLAGELEPALSWCKEHKVELKKEESSLEFQLR 194 (389)
T ss_pred HHHHHHHHHHHcCchhHHHHHHHhhhhhhh---HhHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhccchhhhHHH
Confidence 357777889999999999999977544322 3344555566677788899999999999877665543 2356777
Q ss_pred HHHHHhHhcccC
Q 030744 89 LEDFMALLAYEE 100 (172)
Q Consensus 89 l~~~~~LLay~~ 100 (172)
+++...|+=-++
T Consensus 195 lQefIELi~~~~ 206 (389)
T KOG0396|consen 195 LQEFIELIKVDN 206 (389)
T ss_pred HHHHHHHHHhcc
Confidence 888887776553
No 29
>PF14691 Fer4_20: Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; PDB: 2VDC_G 1H7X_C 1H7W_A 1GT8_A 1GTE_B 1GTH_B.
Probab=43.65 E-value=33 Score=24.34 Aligned_cols=23 Identities=30% Similarity=0.307 Sum_probs=13.6
Q ss_pred HHHHHHHcCCHHHHHHHHHHhcH
Q 030744 16 RILHFALEGNALKAIELTEELAQ 38 (172)
Q Consensus 16 ~I~~~I~~G~i~~Ai~~i~~~~p 38 (172)
.+..+|..|++++|++++.+..|
T Consensus 44 ~~i~~i~~g~~~~A~~~i~~~np 66 (111)
T PF14691_consen 44 EYIRLIREGNFKEAYELIREDNP 66 (111)
T ss_dssp HHHHHHHCT-HHHHHHHHHHH-T
T ss_pred HHHHHHHCCCHHHHHHHHHHhCC
Confidence 44566677777777777766544
No 30
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=43.51 E-value=41 Score=20.09 Aligned_cols=25 Identities=12% Similarity=0.203 Sum_probs=22.5
Q ss_pred CHHHHHHHHHHHHHHHHHhcCCCCc
Q 030744 111 SLEYRQHVADNLNRAILAHAERPRY 135 (172)
Q Consensus 111 ~~~~r~~la~~vn~aIL~~~g~~~~ 135 (172)
+.+++.++++.+..++-..+|.|+.
T Consensus 12 t~eqk~~l~~~i~~~l~~~~g~~~~ 36 (58)
T cd00491 12 TDEQKRELIERVTEAVSEILGAPEA 36 (58)
T ss_pred CHHHHHHHHHHHHHHHHHHhCcCcc
Confidence 6899999999999999999999764
No 31
>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=43.31 E-value=39 Score=17.11 Aligned_cols=22 Identities=27% Similarity=0.312 Sum_probs=18.4
Q ss_pred HHHHHHHHcCCHHHHHHHHHHh
Q 030744 15 KRILHFALEGNALKAIELTEEL 36 (172)
Q Consensus 15 ~~I~~~I~~G~i~~Ai~~i~~~ 36 (172)
..|......|++++|.+++++.
T Consensus 5 ~li~~~~~~~~~~~a~~~~~~M 26 (35)
T TIGR00756 5 TLIDGLCKAGRVEEALELFKEM 26 (35)
T ss_pred HHHHHHHHCCCHHHHHHHHHHH
Confidence 4577888999999999998765
No 32
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=42.90 E-value=40 Score=20.85 Aligned_cols=26 Identities=19% Similarity=0.194 Sum_probs=23.2
Q ss_pred CCHHHHHHHHHHHHHHHHHhcCCCCc
Q 030744 110 LSLEYRQHVADNLNRAILAHAERPRY 135 (172)
Q Consensus 110 l~~~~r~~la~~vn~aIL~~~g~~~~ 135 (172)
-+.+++.+++..|..++-..+|.|+.
T Consensus 12 rt~eqk~~l~~~it~~l~~~lg~p~~ 37 (64)
T PRK01964 12 RPEEKIKNLIREVTEAISATLDVPKE 37 (64)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcChh
Confidence 37799999999999999999999863
No 33
>PRK07143 hypothetical protein; Provisional
Probab=42.54 E-value=17 Score=30.10 Aligned_cols=24 Identities=13% Similarity=-0.136 Sum_probs=21.1
Q ss_pred HHHHHHHHcCCHHHHHHHHHHhcH
Q 030744 15 KRILHFALEGNALKAIELTEELAQ 38 (172)
Q Consensus 15 ~~I~~~I~~G~i~~Ai~~i~~~~p 38 (172)
..||++|.+|+++.|-+++-+.|.
T Consensus 153 T~IR~~l~~G~i~~A~~lLGr~y~ 176 (279)
T PRK07143 153 SLLKEFIEFGDIELLNSLLLYNYS 176 (279)
T ss_pred HHHHHHHHcCCHHHHHHHcCCCcE
Confidence 579999999999999999977663
No 34
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=42.01 E-value=42 Score=20.37 Aligned_cols=26 Identities=12% Similarity=0.142 Sum_probs=23.2
Q ss_pred CCHHHHHHHHHHHHHHHHHhcCCCCc
Q 030744 110 LSLEYRQHVADNLNRAILAHAERPRY 135 (172)
Q Consensus 110 l~~~~r~~la~~vn~aIL~~~g~~~~ 135 (172)
.+.+++.+++..|..++...+|.|+.
T Consensus 12 rs~eqk~~l~~~it~~l~~~~~~p~~ 37 (61)
T PRK02220 12 RTEEQLKALVKDVTAAVSKNTGAPAE 37 (61)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcChh
Confidence 47899999999999999999999753
No 35
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=41.84 E-value=45 Score=20.38 Aligned_cols=26 Identities=8% Similarity=0.059 Sum_probs=23.3
Q ss_pred CCHHHHHHHHHHHHHHHHHhcCCCCc
Q 030744 110 LSLEYRQHVADNLNRAILAHAERPRY 135 (172)
Q Consensus 110 l~~~~r~~la~~vn~aIL~~~g~~~~ 135 (172)
.+.+++.+++..+..++-..+|.|+.
T Consensus 12 rt~eqK~~l~~~it~~l~~~lg~~~~ 37 (63)
T TIGR00013 12 RTDEQKRQLIEGVTEAMAETLGANLE 37 (63)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 47899999999999999999999864
No 36
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=41.52 E-value=2e+02 Score=23.65 Aligned_cols=62 Identities=16% Similarity=0.115 Sum_probs=46.1
Q ss_pred HHHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHH----hhcChHHHHHHHHhhccCcCC
Q 030744 14 RKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELV----CSRKCTEALEFAQTKLTPFGK 81 (172)
Q Consensus 14 R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELi----r~~~~~eAi~~ar~~l~~~~~ 81 (172)
=......+..|++++|++..+.. ...++.-.+. .|--|+++ ++++.++|+.++-..+.-|..
T Consensus 38 Y~~g~~~L~~gn~~~A~~~fe~l----~~~~p~s~~~--~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~ 103 (254)
T COG4105 38 YNEGLTELQKGNYEEAIKYFEAL----DSRHPFSPYS--EQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPT 103 (254)
T ss_pred HHHHHHHHhcCCHHHHHHHHHHH----HHcCCCCccc--HHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCC
Confidence 46788899999999999877553 4555554544 66666665 567999999999888776654
No 37
>TIGR00083 ribF riboflavin kinase/FMN adenylyltransferase. multifunctional enzyme: riboflavin kinase (EC 2.7.1.26) (flavokinase) / FMN adenylyltransferase (EC 2.7.7.2) (FAD pyrophosphorylase) (FAD synthetase).
Probab=41.34 E-value=27 Score=29.04 Aligned_cols=24 Identities=17% Similarity=-0.046 Sum_probs=21.4
Q ss_pred HHHHHHHHcCCHHHHHHHHHHhcH
Q 030744 15 KRILHFALEGNALKAIELTEELAQ 38 (172)
Q Consensus 15 ~~I~~~I~~G~i~~Ai~~i~~~~p 38 (172)
..||++|.+|+++.|-+++-..|.
T Consensus 147 T~IR~~l~~G~i~~A~~lLGr~y~ 170 (288)
T TIGR00083 147 SAIRQALKNGDLELANKLLGRPYF 170 (288)
T ss_pred HHHHHHHHcCCHHHHHHhhhhhhc
Confidence 579999999999999999987664
No 38
>COG0268 RpsT Ribosomal protein S20 [Translation, ribosomal structure and biogenesis]
Probab=41.07 E-value=48 Score=22.72 Aligned_cols=28 Identities=14% Similarity=0.096 Sum_probs=23.5
Q ss_pred HHHHHHHHcCCHHHHHHHHHHhcHHHHc
Q 030744 15 KRILHFALEGNALKAIELTEELAQDLLE 42 (172)
Q Consensus 15 ~~I~~~I~~G~i~~Ai~~i~~~~p~ll~ 42 (172)
+.+..+|..||.+.|.+.+..-+|.+-.
T Consensus 33 Kk~~~ai~~gd~~~A~~~l~~a~~~idk 60 (88)
T COG0268 33 KKVEAAIEAGDKEAAKAALKEAQKKIDK 60 (88)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence 3456788999999999999999987765
No 39
>PF04157 EAP30: EAP30/Vps36 family; InterPro: IPR007286 EAP30 is a subunit of the ELL complex. The ELL is an 80kDa RNA polymerase II transcription factor. ELL interacts with three other proteins to form the complex known as ELL complex. The ELL complex is capable of increasing that catalytic rate of transcription elongation, but is unable to repress initiation of transcription by RNA polymerase II as is the case of ELL. EAP30 is thought to lead to the derepression of ELL's transcriptional inhibitory activity. ; PDB: 2ZME_A 3CUQ_A 1W7P_D 1U5T_B.
Probab=41.03 E-value=1.8e+02 Score=22.94 Aligned_cols=79 Identities=13% Similarity=0.125 Sum_probs=56.1
Q ss_pred hHHHHHHHHhhccCcCCchhhHHHHHHHHhHhcccCCCCCc-chhcC-CHH-HHHHHHHHHHHHHHHhcCCCC-chHHHH
Q 030744 65 CTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSP-MFHLL-SLE-YRQHVADNLNRAILAHAERPR-YAAMER 140 (172)
Q Consensus 65 ~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~LLay~~~~~sp-~~~ll-~~~-~r~~la~~vn~aIL~~~g~~~-~s~Le~ 140 (172)
..-+-+|++++-.....+|++..++.+.+.-|-.++|...+ ....+ +.. ...+||-+|-..++....... .-.|..
T Consensus 39 ~~~l~~fa~k~~~~i~~~~~~r~~f~~~~~~lGvdp~~s~~~~s~~l~~~~~f~~ELa~qi~e~c~~~~~~~GGii~L~d 118 (223)
T PF04157_consen 39 VELLENFARKHKSEIKSDPEFRSQFQSMCASLGVDPLASSKFWSESLKGSGDFYYELAVQIAEVCLATRSKNGGIISLSD 118 (223)
T ss_dssp HHHHHHHHHHHCCCCCCSHHHHHHHHHHHHHHT--CHCCTTCCCCCCSCHHHHHHHHHHHHHHHHHHHCCTTTSEEEHHH
T ss_pred HHHHHHHHHHhhccccCCchHHHHHHHHHHHcCCCcccchhhhhhccccchhHHHHHHHHHHHHHHHHHhcCCCEEEHHH
Confidence 34566789988887777899999999999999998886666 33444 554 449999999999998875543 334444
Q ss_pred HHH
Q 030744 141 LIQ 143 (172)
Q Consensus 141 l~~ 143 (172)
+++
T Consensus 119 l~~ 121 (223)
T PF04157_consen 119 LYC 121 (223)
T ss_dssp HHH
T ss_pred HHH
Confidence 444
No 40
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=40.71 E-value=46 Score=18.35 Aligned_cols=19 Identities=16% Similarity=0.211 Sum_probs=12.1
Q ss_pred HHHHHHHH--cCCHHHHHHHH
Q 030744 15 KRILHFAL--EGNALKAIELT 33 (172)
Q Consensus 15 ~~I~~~I~--~G~i~~Ai~~i 33 (172)
...+.++. .|+++.|++|+
T Consensus 17 ~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 17 EQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHTTTSHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHhC
Confidence 34444444 36888888885
No 41
>KOG3452 consensus 60S ribosomal protein L36 [Translation, ribosomal structure and biogenesis]
Probab=40.39 E-value=53 Score=22.96 Aligned_cols=45 Identities=22% Similarity=0.263 Sum_probs=32.1
Q ss_pred ehhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchhhHHHHHHHHhHh
Q 030744 49 FDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALL 96 (172)
Q Consensus 49 F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~LL 96 (172)
|-=+-.+-+||++..+-..|++++++.+..+. .-..+.+++...|
T Consensus 50 ~aPyErr~meLlkvskdkrA~K~lKkRlGth~---RAk~KrEELsnvl 94 (102)
T KOG3452|consen 50 FAPYERRAMELLKVSKDKRALKLLKKRLGTHK---RAKRKREELSNVL 94 (102)
T ss_pred CChHHHHHHHHHHHcccHHHHHHHHHHhhHHH---HHHHHHHHHHHHH
Confidence 34456678999999999999999999988775 2233444444433
No 42
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=40.28 E-value=55 Score=23.34 Aligned_cols=24 Identities=17% Similarity=0.286 Sum_probs=20.2
Q ss_pred HHHHHHHHHcCCHHHHHHHHHHhcH
Q 030744 14 RKRILHFALEGNALKAIELTEELAQ 38 (172)
Q Consensus 14 R~~I~~~I~~G~i~~Ai~~i~~~~p 38 (172)
...++++|.+|+++.|++++. .++
T Consensus 74 ~~~~~~~l~~g~~~~a~~ll~-~~~ 97 (115)
T PF12793_consen 74 EQQAEELLEQGKYEQALQLLD-FDQ 97 (115)
T ss_pred HHHHHHHHHcCCHHHHHHHHH-hCH
Confidence 467889999999999999998 444
No 43
>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1.
Probab=39.69 E-value=54 Score=25.11 Aligned_cols=62 Identities=16% Similarity=0.141 Sum_probs=38.7
Q ss_pred HHHHHHHHHcCCHHHHHHHHHH--hcHHHHccCCcceehhh-HHH-HHH-HHhhcChHHHHHHHHhh
Q 030744 14 RKRILHFALEGNALKAIELTEE--LAQDLLEKNKDLHFDLL-SLH-FVE-LVCSRKCTEALEFAQTK 75 (172)
Q Consensus 14 R~~I~~~I~~G~i~~Ai~~i~~--~~p~ll~~~~~l~F~L~-~q~-fIE-Lir~~~~~eAi~~ar~~ 75 (172)
++-|+..+..-...-|..++.- .+|...+..-|+...|. .-. -+| |+..|++-+|+.|+|+.
T Consensus 49 ~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~~~~~~iievLL~~g~vl~ALr~ar~~ 115 (167)
T PF07035_consen 49 HQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLGTAYEEIIEVLLSKGQVLEALRYARQY 115 (167)
T ss_pred HHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhhhhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence 3444444444455555555543 45666665556666665 333 345 77889999999999974
No 44
>PF04121 Nup84_Nup100: Nuclear pore protein 84 / 107 ; InterPro: IPR007252 Nup84p forms a complex with five proteins, including Nup120p, Nup85p, Sec13p, and a Sec13p homolog. This Nup84p complex in conjunction with Sec13-type proteins is required for correct nuclear pore biogenesis [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 3CQC_A 3CQG_A 3I4R_A 3IKO_I 3JRO_C.
Probab=38.95 E-value=43 Score=31.25 Aligned_cols=29 Identities=24% Similarity=0.252 Sum_probs=22.0
Q ss_pred HHhHHHHHHHHHHHHcCCHHHHHHHHHHh
Q 030744 8 LEDMEMRKRILHFALEGNALKAIELTEEL 36 (172)
Q Consensus 8 ~~~~~~R~~I~~~I~~G~i~~Ai~~i~~~ 36 (172)
...-..=+.|-.+|++|++++|.+||++.
T Consensus 131 ~~e~~~~~~i~~llR~G~~~eA~~lc~~~ 159 (697)
T PF04121_consen 131 EDERALLKYIFELLRAGRIEEAQELCRER 159 (697)
T ss_dssp HHHHHHHHHHHHHHHTT-HHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHHHC
Confidence 33344456788999999999999999875
No 45
>KOG2235 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.30 E-value=72 Score=29.69 Aligned_cols=65 Identities=15% Similarity=0.242 Sum_probs=43.8
Q ss_pred HHHhhcChHHHHHHHHhhccCcCCchhhHHHHHHHHhHhcccCCCC-CcchhcCCHHHHHHHHHHHHHHHHHh
Q 030744 58 ELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEK-SPMFHLLSLEYRQHVADNLNRAILAH 129 (172)
Q Consensus 58 ELir~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~LLay~~~~~-sp~~~ll~~~~r~~la~~vn~aIL~~ 129 (172)
|++..|.....++.+.+.--. ...++.....+.-.++.- -..+.+++.+.|.++|++||..+-+.
T Consensus 66 El~v~GgRaslvDla~tlnVD-------l~hIEk~a~dIv~~d~~v~Lv~geiide~Y~d~iaeEinekLqE~ 131 (776)
T KOG2235|consen 66 ELIVAGGRASLVDLAVTLNVD-------LDHIEKTARDIVSTDDEVTLVLGEIIDEEYVDRIAEEINEKLQEQ 131 (776)
T ss_pred HHHHhCCcchhHHHHHHhCcC-------HHHHHHHHHHHhhcCCceEEehhhhhhHHHHHHHHHHHHHHHHHh
Confidence 444445444555555543222 346777777777777654 35689999999999999999876554
No 46
>PF06957 COPI_C: Coatomer (COPI) alpha subunit C-terminus; InterPro: IPR010714 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 C terminus (approximately 500 residues) of the eukaryotic coatomer alpha subunit [, ]. This domain is found along with the IPR006692 from INTERPRO domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0005515 protein binding, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030126 COPI vesicle coat; PDB: 3MKR_B 3MV2_E 3MKQ_B 3MV3_A.
Probab=38.16 E-value=1.5e+02 Score=26.13 Aligned_cols=26 Identities=12% Similarity=0.082 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHh
Q 030744 11 MEMRKRILHFALEGNALKAIELTEEL 36 (172)
Q Consensus 11 ~~~R~~I~~~I~~G~i~~Ai~~i~~~ 36 (172)
.++-...-++|..|.++.|+.++++.
T Consensus 119 ~~nS~laadhvAAGsFetAm~LLnrQ 144 (422)
T PF06957_consen 119 VRNSSLAADHVAAGSFETAMQLLNRQ 144 (422)
T ss_dssp HHH--SHHHHHHCT-HHHHHHHHHHH
T ss_pred HHcCCcHHHHHHhCCHHHHHHHHHHH
Confidence 44555677999999999999999886
No 47
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.11 E-value=1.3e+02 Score=25.07 Aligned_cols=65 Identities=26% Similarity=0.228 Sum_probs=48.1
Q ss_pred cCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchhhHHHHHHH
Q 030744 23 EGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDF 92 (172)
Q Consensus 23 ~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~ 92 (172)
.|++++|++..+ .+++++ ...+..+..+..=+--.|+-.+||+-..+++..|-.|.+-..++.++
T Consensus 99 ~~~~~~A~e~y~----~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaei 163 (289)
T KOG3060|consen 99 TGNYKEAIEYYE----SLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEI 163 (289)
T ss_pred hhchhhHHHHHH----HHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence 588888887764 455664 56777788777766667888899999999988887766666665554
No 48
>PF07208 DUF1414: Protein of unknown function (DUF1414); InterPro: IPR009857 This family consists of several hypothetical bacterial proteins of around 70 residues in length. Members of this family are often referred to as YejL. The function of this family is unknown.; PDB: 2JPQ_A 2JUZ_B 2JUW_B 2QTI_A 2OTA_A 2JR2_A 2JRX_A.
Probab=37.15 E-value=60 Score=19.31 Aligned_cols=20 Identities=20% Similarity=0.351 Sum_probs=16.6
Q ss_pred CCHHHHHHHHHHHHHHHHHh
Q 030744 110 LSLEYRQHVADNLNRAILAH 129 (172)
Q Consensus 110 l~~~~r~~la~~vn~aIL~~ 129 (172)
+.+++|+.+|+.+..++..+
T Consensus 24 V~~~qR~~iAe~Fa~AL~~S 43 (44)
T PF07208_consen 24 VPPAQRQAIAEKFAQALKSS 43 (44)
T ss_dssp S-HHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHhc
Confidence 46789999999999998765
No 49
>COG5443 FlbT Flagellar biosynthesis regulator FlbT [Cell motility and secretion]
Probab=37.13 E-value=59 Score=24.06 Aligned_cols=31 Identities=26% Similarity=0.305 Sum_probs=27.0
Q ss_pred HHhHHHHHHHHHHHHcCCHHHHHHHHHHhcH
Q 030744 8 LEDMEMRKRILHFALEGNALKAIELTEELAQ 38 (172)
Q Consensus 8 ~~~~~~R~~I~~~I~~G~i~~Ai~~i~~~~p 38 (172)
-+-+..-+.|-.++.+|.+-+|++.++..||
T Consensus 92 ~eil~~lk~Id~lV~~~~~feALkaiR~lyp 122 (148)
T COG5443 92 AEILAALKRIDGLVMAGRAFEALKAIRGLYP 122 (148)
T ss_pred HHHHHHHHHHHHHHhccHHHHHHHHHhhhch
Confidence 4556778889999999999999999999998
No 50
>PF10827 DUF2552: Protein of unknown function (DUF2552) ; InterPro: IPR020157 This entry contains proteins with no known function.
Probab=37.09 E-value=23 Score=23.31 Aligned_cols=16 Identities=19% Similarity=0.034 Sum_probs=14.0
Q ss_pred CHHHHHHHHHHhcHHH
Q 030744 25 NALKAIELTEELAQDL 40 (172)
Q Consensus 25 ~i~~Ai~~i~~~~p~l 40 (172)
-++.|++||.++.|.+
T Consensus 60 tld~Ai~Wi~e~M~~i 75 (79)
T PF10827_consen 60 TLDLAIAWIGEHMPHI 75 (79)
T ss_pred cHHHHHHHHHhcccch
Confidence 4799999999999875
No 51
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=36.83 E-value=60 Score=19.75 Aligned_cols=25 Identities=12% Similarity=0.332 Sum_probs=22.7
Q ss_pred CCHHHHHHHHHHHHHHHHHhcCCCC
Q 030744 110 LSLEYRQHVADNLNRAILAHAERPR 134 (172)
Q Consensus 110 l~~~~r~~la~~vn~aIL~~~g~~~ 134 (172)
.+.+++.+|+..|..++...+|.|+
T Consensus 12 rs~eqk~~l~~~it~~l~~~~~~p~ 36 (62)
T PRK00745 12 RTVEQKRKLVEEITRVTVETLGCPP 36 (62)
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCCh
Confidence 3789999999999999999999976
No 52
>COG5051 RPL36A Ribosomal protein L36E [Translation, ribosomal structure and biogenesis]
Probab=36.68 E-value=78 Score=21.71 Aligned_cols=44 Identities=16% Similarity=0.301 Sum_probs=33.1
Q ss_pred hhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchhhHHHHHHHHhHh
Q 030744 50 DLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALL 96 (172)
Q Consensus 50 ~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~LL 96 (172)
.=+-.+.|+||++.+-..|-+.+++.|..+. .-..+++++-..|
T Consensus 51 sPyErr~i~Lirns~~krArKlakKRLGs~k---RAkaKvEel~~~i 94 (97)
T COG5051 51 SPYERRVIELIRNSQDKRARKLAKKRLGSLK---RAKAKVEELTSVI 94 (97)
T ss_pred CHHHHHHHHHHHhcccHHHHHHHHHHhhhHH---HHHHHHHHHHHHH
Confidence 3356779999999999999999999998875 4455566655544
No 53
>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length. Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.
Probab=36.19 E-value=2.9e+02 Score=25.06 Aligned_cols=51 Identities=16% Similarity=0.115 Sum_probs=40.6
Q ss_pred HHHHHHHHHcCCHHHHHHHHHHhcHHHHccCC--------cceehhhHHHHHHHHhhcC
Q 030744 14 RKRILHFALEGNALKAIELTEELAQDLLEKNK--------DLHFDLLSLHFVELVCSRK 64 (172)
Q Consensus 14 R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~--------~l~F~L~~q~fIELir~~~ 64 (172)
-..+-.+|..|.+.++...+|+..|.+++... .+...|-+-.|+|+.....
T Consensus 132 ~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s 190 (549)
T PF07079_consen 132 EIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMS 190 (549)
T ss_pred HHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcc
Confidence 45567889999999999999999999999532 3555777888899876543
No 54
>PF13934 ELYS: Nuclear pore complex assembly
Probab=36.14 E-value=79 Score=25.16 Aligned_cols=16 Identities=25% Similarity=0.387 Sum_probs=7.9
Q ss_pred HhhcChHHHHHHHHhh
Q 030744 60 VCSRKCTEALEFAQTK 75 (172)
Q Consensus 60 ir~~~~~eAi~~ar~~ 75 (172)
+.++.+.||+.|.|++
T Consensus 151 La~~~v~EAf~~~R~~ 166 (226)
T PF13934_consen 151 LANGLVTEAFSFQRSY 166 (226)
T ss_pred HHcCCHHHHHHHHHhC
Confidence 4445555555555543
No 55
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=35.49 E-value=3.8e+02 Score=25.20 Aligned_cols=127 Identities=19% Similarity=0.216 Sum_probs=79.3
Q ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchhhHHHHH
Q 030744 11 MEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLE 90 (172)
Q Consensus 11 ~~~R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~~~~l~ 90 (172)
...-.+++-.+.+|..+.|++.+..+-|.+++. +.|....-.+ +.+-+++++|+...+..+.....|-.+...++
T Consensus 186 e~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dk---la~~e~ka~l--~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~ 260 (700)
T KOG1156|consen 186 ELLLYQNQILIEAGSLQKALEHLLDNEKQIVDK---LAFEETKADL--LMKLGQLEEAVKVYRRLLERNPDNLDYYEGLE 260 (700)
T ss_pred HHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHH---HHHhhhHHHH--HHHHhhHHhHHHHHHHHHhhCchhHHHHHHHH
Confidence 334556778899999999999999999988875 2333333332 23457889999999998888765555666666
Q ss_pred HHHh--------H-hccc----CC--CCCc----chhcCCHHHHHHHHHHHHHHHHHhcCCCC-chHHHHHHHH
Q 030744 91 DFMA--------L-LAYE----EP--EKSP----MFHLLSLEYRQHVADNLNRAILAHAERPR-YAAMERLIQQ 144 (172)
Q Consensus 91 ~~~~--------L-Lay~----~~--~~sp----~~~ll~~~~r~~la~~vn~aIL~~~g~~~-~s~Le~l~~~ 144 (172)
.+++ + .+|. .+ ..+| ...+-..+-+..+..-++..+-. |+|+ -+.|+.+.+.
T Consensus 261 ~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~K--g~p~vf~dl~SLyk~ 332 (700)
T KOG1156|consen 261 KALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSK--GVPSVFKDLRSLYKD 332 (700)
T ss_pred HHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhc--CCCchhhhhHHHHhc
Confidence 6664 1 1222 11 1234 33333455666666666655443 3443 4566666655
No 56
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=35.16 E-value=82 Score=24.70 Aligned_cols=24 Identities=8% Similarity=-0.050 Sum_probs=11.6
Q ss_pred HHHHHHHhhcChHHHHHHHHhhcc
Q 030744 54 LHFVELVCSRKCTEALEFAQTKLT 77 (172)
Q Consensus 54 q~fIELir~~~~~eAi~~ar~~l~ 77 (172)
.+.++.|+.|+.+.|.+..+.|+.
T Consensus 194 ~~I~~Ai~~~D~~~a~~~~~~H~~ 217 (239)
T PRK04984 194 HKLSALCEEGNHDQVPECVRQYGI 217 (239)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHH
Confidence 344445555555555444444443
No 57
>PRK00794 flbT flagellar biosynthesis repressor FlbT; Reviewed
Probab=34.50 E-value=88 Score=23.02 Aligned_cols=30 Identities=17% Similarity=0.106 Sum_probs=23.8
Q ss_pred HhHHHHHHHHHHHHcCCHHHHHHHHHHhcH
Q 030744 9 EDMEMRKRILHFALEGNALKAIELTEELAQ 38 (172)
Q Consensus 9 ~~~~~R~~I~~~I~~G~i~~Ai~~i~~~~p 38 (172)
+....=..|.++|.+|++-+|++.+...+|
T Consensus 92 ~~~~~l~~i~~~V~~g~~y~ALk~lR~L~~ 121 (132)
T PRK00794 92 DILAGLKAIDELVEAGRYYEALKALRGLYP 121 (132)
T ss_pred HHHHHHHHHHHHHHCCcHHHHHHHHHHhhH
Confidence 334555678889999999999999988877
No 58
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=33.73 E-value=1.7e+02 Score=20.54 Aligned_cols=47 Identities=17% Similarity=0.072 Sum_probs=38.5
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHH
Q 030744 13 MRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVEL 59 (172)
Q Consensus 13 ~R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIEL 59 (172)
.=..+.+.|.+++|+.|.+.+.+..-.--+..+.+.|.+..+++=++
T Consensus 31 ~l~~i~~~i~~~dW~~A~~~~~~l~~~W~k~~~~~~~~~~h~eid~i 77 (121)
T PF14276_consen 31 QLEQIEEAIENEDWEKAYKETEELEKEWDKNKKRWSILIEHQEIDNI 77 (121)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHHHhhchheeeeecHHHHHHH
Confidence 35678899999999999999988777767777788888888886443
No 59
>PRK05627 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed
Probab=32.94 E-value=34 Score=28.66 Aligned_cols=24 Identities=21% Similarity=0.043 Sum_probs=21.1
Q ss_pred HHHHHHHHcCCHHHHHHHHHHhcH
Q 030744 15 KRILHFALEGNALKAIELTEELAQ 38 (172)
Q Consensus 15 ~~I~~~I~~G~i~~Ai~~i~~~~p 38 (172)
..||++|.+|+++.|-+++-..|-
T Consensus 164 T~IR~~I~~G~i~~A~~lLg~~y~ 187 (305)
T PRK05627 164 TAIRQALAEGDLELANKLLGRPYS 187 (305)
T ss_pred HHHHHHHHcCCHHHHHhhhcCCCc
Confidence 579999999999999999977664
No 60
>PF12931 Sec16_C: Sec23-binding domain of Sec16; PDB: 3MZK_C.
Probab=32.93 E-value=46 Score=27.37 Aligned_cols=20 Identities=35% Similarity=0.517 Sum_probs=12.1
Q ss_pred HHHHHHHcCCHHHHHHHHHH
Q 030744 16 RILHFALEGNALKAIELTEE 35 (172)
Q Consensus 16 ~I~~~I~~G~i~~Ai~~i~~ 35 (172)
+|+++++.|+.++|++++-+
T Consensus 1 ~I~~~Ll~G~~~~Av~~al~ 20 (284)
T PF12931_consen 1 KIQQLLLVGNREEAVELALD 20 (284)
T ss_dssp HHHHHHHTT-HHHHHHHHHH
T ss_pred CHHHHHhCCCHHHHHHHHHH
Confidence 46666777777777666643
No 61
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=32.82 E-value=1.2e+02 Score=18.48 Aligned_cols=55 Identities=24% Similarity=0.161 Sum_probs=37.4
Q ss_pred HHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCc
Q 030744 20 FALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPF 79 (172)
Q Consensus 20 ~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~ 79 (172)
++.+|+++.|++.++.. +..+|+ ...++...=.=+.+.|+..+|++...+.+...
T Consensus 5 ~~~~~~~~~A~~~~~~~----l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~ 59 (73)
T PF13371_consen 5 YLQQEDYEEALEVLERA----LELDPD-DPELWLQRARCLFQLGRYEEALEDLERALELS 59 (73)
T ss_pred HHhCCCHHHHHHHHHHH----HHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence 57889999999988653 344444 33344444444567789999999988776543
No 62
>PF07378 FlbT: Flagellar protein FlbT; InterPro: IPR009967 This family consists of several FlbT proteins. FlbT is a post-transcriptional repressor function in flagellum biogenesis. FlbT is associated with the 5' untranslated region (UTR) of fljK (25 kDa flagellin) mRNA and that this association requires a predicted loop structure in the transcript. Mutations within this loop abolish FlbT association and result in increased mRNA stability. It is therefore thought that FlbT promotes the degradation of flagellin mRNA by associating with the 5' UTR [].; GO: 0048027 mRNA 5'-UTR binding, 0006402 mRNA catabolic process, 0045718 negative regulation of flagellum assembly
Probab=32.48 E-value=87 Score=22.83 Aligned_cols=32 Identities=16% Similarity=0.068 Sum_probs=25.7
Q ss_pred cHHhHHHHHHHHHHHHcCCHHHHHHHHHHhcH
Q 030744 7 CLEDMEMRKRILHFALEGNALKAIELTEELAQ 38 (172)
Q Consensus 7 ~~~~~~~R~~I~~~I~~G~i~~Ai~~i~~~~p 38 (172)
+.+....=..|.++|.+|++-+|++.+...+|
T Consensus 88 ~p~~~~~l~~~~~~v~~g~~y~ALk~~R~L~~ 119 (126)
T PF07378_consen 88 DPDAREGLDEANELVEAGRYYKALKALRKLIP 119 (126)
T ss_pred CHHHHHHHHHHHHHHHCCcHHHHHHHHHHhHH
Confidence 44555666778899999999999999988876
No 63
>PF13041 PPR_2: PPR repeat family
Probab=32.47 E-value=63 Score=18.63 Aligned_cols=24 Identities=21% Similarity=0.295 Sum_probs=18.9
Q ss_pred HHHHHHHHHcCCHHHHHHHHHHhc
Q 030744 14 RKRILHFALEGNALKAIELTEELA 37 (172)
Q Consensus 14 R~~I~~~I~~G~i~~Ai~~i~~~~ 37 (172)
=..|.-....|++++|.++.++.-
T Consensus 7 n~li~~~~~~~~~~~a~~l~~~M~ 30 (50)
T PF13041_consen 7 NTLISGYCKAGKFEEALKLFKEMK 30 (50)
T ss_pred HHHHHHHHHCcCHHHHHHHHHHHH
Confidence 346778888999999999887653
No 64
>PF12169 DNA_pol3_gamma3: DNA polymerase III subunits gamma and tau domain III; InterPro: IPR022754 This domain is found in bacteria and eukaryotes, and is approximately 110 amino acids in length. It is found in association with PF00004 from PFAM. This domain is also present in the tau subunit before it undergoes cleavage. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G.
Probab=32.40 E-value=1.1e+02 Score=21.75 Aligned_cols=23 Identities=43% Similarity=0.563 Sum_probs=14.2
Q ss_pred HHHHHHHHcCCHHHHHHHHHHhc
Q 030744 15 KRILHFALEGNALKAIELTEELA 37 (172)
Q Consensus 15 ~~I~~~I~~G~i~~Ai~~i~~~~ 37 (172)
..+-++|.+||..+|+..+++.+
T Consensus 19 ~~l~~ai~~~d~~~~l~~~~~l~ 41 (143)
T PF12169_consen 19 FELLDAILEGDAAEALELLNELL 41 (143)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHHHH
Confidence 34566777777777777776544
No 65
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=31.98 E-value=75 Score=16.15 Aligned_cols=23 Identities=22% Similarity=0.284 Sum_probs=18.1
Q ss_pred HHHHHHHHHcCCHHHHHHHHHHh
Q 030744 14 RKRILHFALEGNALKAIELTEEL 36 (172)
Q Consensus 14 R~~I~~~I~~G~i~~Ai~~i~~~ 36 (172)
...|+-....|+++.|.++++..
T Consensus 5 ~~ll~a~~~~g~~~~a~~~~~~M 27 (34)
T PF13812_consen 5 NALLRACAKAGDPDAALQLFDEM 27 (34)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHH
Confidence 34577888899999999888653
No 66
>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=31.72 E-value=60 Score=16.09 Aligned_cols=22 Identities=23% Similarity=0.317 Sum_probs=17.2
Q ss_pred HHHHHHHHcCCHHHHHHHHHHh
Q 030744 15 KRILHFALEGNALKAIELTEEL 36 (172)
Q Consensus 15 ~~I~~~I~~G~i~~Ai~~i~~~ 36 (172)
..|.-....|++++|.++.++.
T Consensus 5 ~li~~~~~~~~~~~a~~~~~~M 26 (31)
T PF01535_consen 5 SLISGYCKMGQFEEALEVFDEM 26 (31)
T ss_pred HHHHHHHccchHHHHHHHHHHH
Confidence 3466778889999999888663
No 67
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=31.63 E-value=1.2e+02 Score=23.59 Aligned_cols=64 Identities=16% Similarity=0.125 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHhcHHHHccCC------cceehhhHHHHHHHHhhcChHHHHHHHHhhc
Q 030744 12 EMRKRILHFALEGNALKAIELTEELAQDLLEKNK------DLHFDLLSLHFVELVCSRKCTEALEFAQTKL 76 (172)
Q Consensus 12 ~~R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~------~l~F~L~~q~fIELir~~~~~eAi~~ar~~l 76 (172)
.-|.+|...+-. .++.-++++......+.+..+ .+...+..-.|.+++++|+..+|.+.+.+.+
T Consensus 135 ~lr~~ie~~l~~-~~~~~~~~~~~~R~~~k~~~~~~~~r~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 204 (205)
T TIGR01470 135 LLRERIETLLPP-SLGDLATLAATWRDAVKKRLPNGAARRRFWEKFFDGAFAERVLAGREEQAERVLATRL 204 (205)
T ss_pred HHHHHHHHhcch-hHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHhccHHHHHHHcCCHHHHHHHHHHhh
Confidence 346667766643 556677777777776665433 2333344446788899999999988887654
No 68
>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=30.65 E-value=2.4e+02 Score=21.38 Aligned_cols=53 Identities=13% Similarity=-0.006 Sum_probs=24.2
Q ss_pred HHHHHHHcCCHHHHHHHHHHhcHHHHcc-CCcceehhhHHHHHHHHhhcChHHH
Q 030744 16 RILHFALEGNALKAIELTEELAQDLLEK-NKDLHFDLLSLHFVELVCSRKCTEA 68 (172)
Q Consensus 16 ~I~~~I~~G~i~~Ai~~i~~~~p~ll~~-~~~l~F~L~~q~fIELir~~~~~eA 68 (172)
.||-+|.-|||..+...+++...-+-+. +....-+|++..-+-.+..++..+|
T Consensus 79 ~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~~~gL~~l~~r~f~~A 132 (177)
T PF10602_consen 79 VIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKVYEGLANLAQRDFKEA 132 (177)
T ss_pred HHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHhchHHHH
Confidence 3444555555555555544433322221 1233444555555555555555554
No 69
>COG1942 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]
Probab=30.57 E-value=90 Score=20.24 Aligned_cols=26 Identities=12% Similarity=0.158 Sum_probs=22.2
Q ss_pred CCHHHHHHHHHHHHHHHHHhcCCCCc
Q 030744 110 LSLEYRQHVADNLNRAILAHAERPRY 135 (172)
Q Consensus 110 l~~~~r~~la~~vn~aIL~~~g~~~~ 135 (172)
.+.++..+||+.|..++...+|.++.
T Consensus 13 ~~~~~K~~la~~vT~~~~~~lg~~~~ 38 (69)
T COG1942 13 LDEEQKAELAAEVTEVTVETLGKDPS 38 (69)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 45567899999999999999999763
No 70
>PF14691 Fer4_20: Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; PDB: 2VDC_G 1H7X_C 1H7W_A 1GT8_A 1GTE_B 1GTH_B.
Probab=30.05 E-value=65 Score=22.82 Aligned_cols=26 Identities=15% Similarity=0.271 Sum_probs=19.9
Q ss_pred hhhHHHHHHHHhhcChHHHHHHHHhh
Q 030744 50 DLLSLHFVELVCSRKCTEALEFAQTK 75 (172)
Q Consensus 50 ~L~~q~fIELir~~~~~eAi~~ar~~ 75 (172)
.+....||.+|+.|+..+|++..++.
T Consensus 39 ~~dip~~i~~i~~g~~~~A~~~i~~~ 64 (111)
T PF14691_consen 39 HIDIPEYIRLIREGNFKEAYELIRED 64 (111)
T ss_dssp ---HHHHHHHHHCT-HHHHHHHHHHH
T ss_pred CCcHHHHHHHHHCCCHHHHHHHHHHh
Confidence 45568899999999999999999863
No 71
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=29.74 E-value=2.1e+02 Score=20.58 Aligned_cols=57 Identities=14% Similarity=-0.034 Sum_probs=35.2
Q ss_pred HHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhcc
Q 030744 16 RILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLT 77 (172)
Q Consensus 16 ~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~ 77 (172)
.-..+...|++++|++.+.. .+..++. ....+...=.-+.+.|+..+|+.+-+.-+.
T Consensus 30 ~g~~~~~~g~~~~A~~~~~~----al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~ 86 (144)
T PRK15359 30 SGYASWQEGDYSRAVIDFSW----LVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALM 86 (144)
T ss_pred HHHHHHHcCCHHHHHHHHHH----HHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence 35567889999999887755 3444433 222223333334566788888887776554
No 72
>COG5516 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]
Probab=29.70 E-value=1.4e+02 Score=23.20 Aligned_cols=57 Identities=12% Similarity=0.064 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHH-hcCCCCCCCcchhhhhc
Q 030744 112 LEYRQHVADNLNRAILAHAERPRYAAMERLIQQTTAVRQCLSQ-ELGKDVHPPFSLKDFMK 171 (172)
Q Consensus 112 ~~~r~~la~~vn~aIL~~~g~~~~s~Le~l~~~~~~~~~~l~~-~~~~~~~~~~~~~~~~~ 171 (172)
.+++.+.|.+++.... +.++.+.|-..+.++..++..|-+ ..+++.+.+-|+.+||.
T Consensus 42 isr~~~aA~e~~~~~~---~v~ap~al~~vai~LRE~i~~l~~~r~~g~~~rt~dl~~flr 99 (196)
T COG5516 42 ISRFAMAAGEVDETLA---GVYAPGALLAVAIHLREVIDRLFRTRKAGKRVRTDDLPDFLR 99 (196)
T ss_pred HHHHHHHhhhhhhhhc---CCCCchhHHHHHHHHHHHHHHHHHHHhccCcCChhhHHHHHH
Confidence 4688888888887543 556667777778888777766655 34555668999999985
No 73
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=29.16 E-value=2.5e+02 Score=24.06 Aligned_cols=73 Identities=14% Similarity=0.094 Sum_probs=50.7
Q ss_pred HHcCCHHHHHHHHHHhcHHHHccC--------CcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchhhHHHHHHH
Q 030744 21 ALEGNALKAIELTEELAQDLLEKN--------KDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDF 92 (172)
Q Consensus 21 I~~G~i~~Ai~~i~~~~p~ll~~~--------~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~ 92 (172)
+-.|+.-.|+-.+++..+.--... ..+.-.-....++|+.++++..+.++++|+.+..-..--..+.+|.++
T Consensus 219 ~S~GdLR~Ait~Lqsls~~gk~It~~~~~e~~~GvVp~~~l~~lle~a~S~d~~~~v~~~Rei~~sg~~~~~lmsQLa~v 298 (346)
T KOG0989|consen 219 ISDGDLRRAITTLQSLSLLGKRITTSLVNEELAGVVPDEKLLDLLELALSADTPNTVKRVREIMRSGYSPLQLMSQLAEV 298 (346)
T ss_pred HcCCcHHHHHHHHHHhhccCcccchHHHHHHHhccCCHHHHHHHHHHHHccChHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence 456999999999999988111111 124455567889999999999999999998776533212445555555
Q ss_pred H
Q 030744 93 M 93 (172)
Q Consensus 93 ~ 93 (172)
+
T Consensus 299 i 299 (346)
T KOG0989|consen 299 I 299 (346)
T ss_pred H
Confidence 4
No 74
>PRK00239 rpsT 30S ribosomal protein S20; Reviewed
Probab=29.02 E-value=98 Score=21.06 Aligned_cols=27 Identities=11% Similarity=0.057 Sum_probs=20.0
Q ss_pred HHHHHHHcCCHHHHHHHHHHhcHHHHc
Q 030744 16 RILHFALEGNALKAIELTEELAQDLLE 42 (172)
Q Consensus 16 ~I~~~I~~G~i~~Ai~~i~~~~p~ll~ 42 (172)
.+..+|..|+.++|.+.+...++.|-.
T Consensus 34 k~~~ai~~~~~~~a~~~~~~a~s~iDk 60 (88)
T PRK00239 34 KVEAAIAAGDKEAAEEALKAAQSKIDK 60 (88)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence 455777789999988888877765543
No 75
>PRK09239 chorismate mutase; Provisional
Probab=28.80 E-value=2.1e+02 Score=20.00 Aligned_cols=49 Identities=10% Similarity=0.106 Sum_probs=31.5
Q ss_pred hcCCHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHH----HHHHHHHHHHHhcCC
Q 030744 108 HLLSLEYRQHVADNLNRAILAHAERPRYAAMERLIQ----QTTAVRQCLSQELGK 158 (172)
Q Consensus 108 ~ll~~~~r~~la~~vn~aIL~~~g~~~~s~Le~l~~----~~~~~~~~l~~~~~~ 158 (172)
..++++|+..+.+.+. ......|+++ ...+.+++ ....-+.......|+
T Consensus 50 ~i~dp~RE~~vl~~~~-~~a~~~gl~p-~~~~~i~~~ii~esir~q~~i~~~~~~ 102 (104)
T PRK09239 50 PPADPAREAYQIERLR-QLAKDANLDP-DFAEKFLNFIIKEVIRHHERIAAEHGD 102 (104)
T ss_pred CCCCHHHHHHHHHHHH-HHHHHCCCCH-HHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 3788999999999985 4667789975 34444444 444444544444444
No 76
>PF14498 Glyco_hyd_65N_2: Glycosyl hydrolase family 65, N-terminal domain; PDB: 2EAE_A 2EAB_B 2EAC_A 2EAD_B 2RDY_A.
Probab=28.34 E-value=38 Score=26.92 Aligned_cols=34 Identities=26% Similarity=0.197 Sum_probs=24.6
Q ss_pred chhcHHhHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 030744 4 PANCLEDMEMRKRILHFALEGNALKAIELTEELA 37 (172)
Q Consensus 4 ~~~~~~~~~~R~~I~~~I~~G~i~~Ai~~i~~~~ 37 (172)
+.........=.+||++|.+|++++|-+++++++
T Consensus 48 ~~~~~~~~~~L~~iR~l~~~g~~~~A~~l~~~~~ 81 (236)
T PF14498_consen 48 DRTPPDAAEYLPEIRELLFEGDYEEAEELAEENF 81 (236)
T ss_dssp SSSSHHHHHHHHHHHHHHHTT-CCHHHHHHCCS-
T ss_pred cccCccHHHHHHHHHHHHHcCChhHHHHHHHHhc
Confidence 3344445666778999999999999999886554
No 77
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=28.26 E-value=1.4e+02 Score=23.72 Aligned_cols=29 Identities=17% Similarity=0.100 Sum_probs=17.6
Q ss_pred hHHHHHHHHHHHHcCCHHHHHHHHHHhcH
Q 030744 10 DMEMRKRILHFALEGNALKAIELTEELAQ 38 (172)
Q Consensus 10 ~~~~R~~I~~~I~~G~i~~Ai~~i~~~~p 38 (172)
.+..=..|.++|.+||.+.|...+..|.-
T Consensus 190 ~~~~H~~I~~AI~~~D~~~A~~~~~~H~~ 218 (253)
T PRK10421 190 LTEQHQAVMDAILAGDAEGARKAMMAHLS 218 (253)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 34455566666666666666666666543
No 78
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=28.23 E-value=1.4e+02 Score=26.97 Aligned_cols=71 Identities=20% Similarity=0.162 Sum_probs=46.7
Q ss_pred HHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCCchhhHHHHHHHHhH
Q 030744 20 FALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMAL 95 (172)
Q Consensus 20 ~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~L 95 (172)
....|+.+.|++.+.++-..+++.-.-++ .+--=+++-|..++|-..-+..+.....|..|..-+..++++
T Consensus 14 l~e~g~~~~AL~~L~~~~~~I~Dk~~~~E-----~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~ 84 (517)
T PF12569_consen 14 LEEAGDYEEALEHLEKNEKQILDKLAVLE-----KRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGL 84 (517)
T ss_pred HHHCCCHHHHHHHHHhhhhhCCCHHHHHH-----HHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhh
Confidence 46789999999999888776666421111 111124556888888888887776654455666666666643
No 79
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=27.49 E-value=72 Score=22.89 Aligned_cols=30 Identities=23% Similarity=0.278 Sum_probs=24.7
Q ss_pred HHhHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 030744 8 LEDMEMRKRILHFALEGNALKAIELTEELA 37 (172)
Q Consensus 8 ~~~~~~R~~I~~~I~~G~i~~Ai~~i~~~~ 37 (172)
+..--.++...+.|+.|++.+|+++++.+.
T Consensus 38 L~f~L~~q~fiell~~~~~~~Ai~y~r~~l 67 (145)
T PF10607_consen 38 LEFELRCQQFIELLREGDIMEAIEYARKHL 67 (145)
T ss_pred hhHHHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 344445788889999999999999999965
No 80
>PF01649 Ribosomal_S20p: Ribosomal protein S20; InterPro: IPR002583 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family consists of bacterial (and chloroplast) examples of the ribosomal small subunit protein S20. Bacterial ribosomal protein S20 forms part of the 30S ribosomal subunit, and interacts with 16S rRNA.; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1I94_T 1FJG_T 4DH9_T 3KNJ_T 3TVG_W 3UYF_W 3V28_T 3KIS_t 3HUY_T 1HNX_T ....
Probab=25.70 E-value=1.2e+02 Score=20.35 Aligned_cols=28 Identities=18% Similarity=0.129 Sum_probs=20.9
Q ss_pred HHHHHHHHcCCHHHHHHHHHHhcHHHHc
Q 030744 15 KRILHFALEGNALKAIELTEELAQDLLE 42 (172)
Q Consensus 15 ~~I~~~I~~G~i~~Ai~~i~~~~p~ll~ 42 (172)
+.++.+|..|+-+.|.+.+...++.|-.
T Consensus 32 Kk~~~ai~~~~~~~a~~~l~~a~s~iDk 59 (84)
T PF01649_consen 32 KKFREAIEAGDKEEAKELLRKAYSAIDK 59 (84)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHccChHHHHHHHHHHHHHHHH
Confidence 3567788889999999999887776544
No 81
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=25.35 E-value=3.7e+02 Score=21.77 Aligned_cols=19 Identities=26% Similarity=0.144 Sum_probs=10.8
Q ss_pred HHHHHHHHcCCHHHHHHHH
Q 030744 15 KRILHFALEGNALKAIELT 33 (172)
Q Consensus 15 ~~I~~~I~~G~i~~Ai~~i 33 (172)
..|.+++.+|+++.|.++-
T Consensus 215 ~~i~~~~~~Gd~~~A~~l~ 233 (289)
T PF00701_consen 215 VEIYDAFQAGDWEEARELQ 233 (289)
T ss_dssp HHHHHHHHTTCHHHHHHHH
T ss_pred HHHHHHHHcCcHHHHHHHH
Confidence 4456666666666665443
No 82
>TIGR03504 FimV_Cterm FimV C-terminal domain. This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.
Probab=25.08 E-value=1e+02 Score=18.02 Aligned_cols=19 Identities=32% Similarity=0.274 Sum_probs=13.7
Q ss_pred HHHHHcCCHHHHHHHHHHh
Q 030744 18 LHFALEGNALKAIELTEEL 36 (172)
Q Consensus 18 ~~~I~~G~i~~Ai~~i~~~ 36 (172)
+-.|.-|+.+.|.+++++.
T Consensus 7 ~ayie~Gd~e~Ar~lL~ev 25 (44)
T TIGR03504 7 RAYIEMGDLEGARELLEEV 25 (44)
T ss_pred HHHHHcCChHHHHHHHHHH
Confidence 4567778888888877654
No 83
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=25.06 E-value=1e+02 Score=17.29 Aligned_cols=18 Identities=17% Similarity=0.093 Sum_probs=11.7
Q ss_pred HHHHHcCCHHHHHHHHHH
Q 030744 18 LHFALEGNALKAIELTEE 35 (172)
Q Consensus 18 ~~~I~~G~i~~Ai~~i~~ 35 (172)
+-....|+.+.|++++++
T Consensus 9 ~~~~~~G~~~~A~~~~~~ 26 (44)
T PF13428_consen 9 RAYRRLGQPDEAERLLRR 26 (44)
T ss_pred HHHHHcCCHHHHHHHHHH
Confidence 345667777777776654
No 84
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=25.00 E-value=1.2e+02 Score=24.01 Aligned_cols=26 Identities=8% Similarity=0.005 Sum_probs=14.8
Q ss_pred HHHHHHHHhhcChHHHHHHHHhhccC
Q 030744 53 SLHFVELVCSRKCTEALEFAQTKLTP 78 (172)
Q Consensus 53 ~q~fIELir~~~~~eAi~~ar~~l~~ 78 (172)
..+.++.|++|+.+.|.+..+.|+..
T Consensus 201 H~~I~~Ai~~~D~~~A~~~m~~Hi~~ 226 (257)
T PRK10225 201 HKQILAALIKKDARAAKLAMWQHLEN 226 (257)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 34455566666666666666666543
No 85
>PLN02150 terpene synthase/cyclase family protein
Probab=24.42 E-value=1.6e+02 Score=20.18 Aligned_cols=35 Identities=6% Similarity=0.034 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHH
Q 030744 116 QHVADNLNRAILAHAERPRYAAMERLIQQTTAVRQCL 152 (172)
Q Consensus 116 ~~la~~vn~aIL~~~g~~~~s~Le~l~~~~~~~~~~l 152 (172)
+..|..+|...+..... +.+.++.++.-++ +.+.+
T Consensus 33 ~~~WK~iN~e~l~~~~~-p~~~~~~~~NlaR-~~~~~ 67 (96)
T PLN02150 33 RDNYKIVMEEFLTIKDV-PRPVLVRCLNLAR-LIDVY 67 (96)
T ss_pred HHHHHHHHHHHcCCCCC-CHHHHHHHHHHHH-HHHhh
Confidence 45788899999886666 4677888777554 44444
No 86
>KOG3930 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.89 E-value=1.5e+02 Score=25.35 Aligned_cols=50 Identities=12% Similarity=0.167 Sum_probs=38.6
Q ss_pred chhcCCHHHH-HHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHHh
Q 030744 106 MFHLLSLEYR-QHVADNLNRAILAHAERPRYAAMERLIQQTTAVRQCLSQE 155 (172)
Q Consensus 106 ~~~ll~~~~r-~~la~~vn~aIL~~~g~~~~s~Le~l~~~~~~~~~~l~~~ 155 (172)
|++.+-..|- ..+.-.+|..+|..+|+.-.--+-.|++|.++++.+....
T Consensus 21 YA~~Fv~NRIqk~MLldLnKe~l~ElGvT~iGDiiaILrh~K~v~~q~~re 71 (389)
T KOG3930|consen 21 YAKSFVTNRIQKEMLLDLNKETLSELGVTAIGDIIAILRHIKAVKSQIERE 71 (389)
T ss_pred HHHHHHhhhhhHHHHhhhhHHHHHHhchhhhhhHHHHHHHHHHHHHHHHHh
Confidence 5544433332 5677789999999999999999999999999987776554
No 87
>PF08625 Utp13: Utp13 specific WD40 associated domain; InterPro: IPR013934 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. Utp13 is a nucleolar protein and component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA []. Upt13 is also a component of the Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome []. Components of the Pwp2 complex are: Utp1 (Pwp2), Utp6, Utp12 (Dip2), Utp13, Utp18, and Utp21. The relationship between the Pwp2 complex and the t-Utps complex [] that also associates with the 5' end of nascent pre-18S rRNA is unclear. ; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=23.68 E-value=2.3e+02 Score=20.88 Aligned_cols=22 Identities=14% Similarity=0.224 Sum_probs=18.3
Q ss_pred HHHHHHHHcCCHHHHHHHHHHh
Q 030744 15 KRILHFALEGNALKAIELTEEL 36 (172)
Q Consensus 15 ~~I~~~I~~G~i~~Ai~~i~~~ 36 (172)
+.+.+++.+|++.+|+.++=+.
T Consensus 2 Q~L~N~l~~~~y~~Al~LAl~L 23 (141)
T PF08625_consen 2 QELSNLLRQKDYKEALRLALKL 23 (141)
T ss_pred chHHHHHHhhhHHHHHHHHHhc
Confidence 4678899999999999987554
No 88
>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known.
Probab=23.48 E-value=1.2e+02 Score=25.07 Aligned_cols=29 Identities=31% Similarity=0.384 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHhcHHH
Q 030744 12 EMRKRILHFALEGNALKAIELTEELAQDL 40 (172)
Q Consensus 12 ~~R~~I~~~I~~G~i~~Ai~~i~~~~p~l 40 (172)
+....|+.++.+|++..|++++.+..--+
T Consensus 129 ~~~~~l~~ll~~~dy~~Al~li~~~~~~l 157 (291)
T PF10475_consen 129 QTQSRLQELLEEGDYPGALDLIEECQQLL 157 (291)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence 45778899999999999999998876544
No 89
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=23.36 E-value=2.3e+02 Score=18.79 Aligned_cols=28 Identities=14% Similarity=0.109 Sum_probs=21.5
Q ss_pred HHHHHHcCCHHHHHHHHHHhcHHHHccC
Q 030744 17 ILHFALEGNALKAIELTEELAQDLLEKN 44 (172)
Q Consensus 17 I~~~I~~G~i~~Ai~~i~~~~p~ll~~~ 44 (172)
--+++..||+..|++.+.+.+---...+
T Consensus 5 ~~~~~~~~dy~~A~d~L~~~fD~~~~~~ 32 (94)
T PF12862_consen 5 YLNALRSGDYSEALDALHRYFDYAKQSN 32 (94)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHhhcc
Confidence 3478999999999999988875444443
No 90
>PRK12791 flbT flagellar biosynthesis repressor FlbT; Reviewed
Probab=22.79 E-value=1.7e+02 Score=21.46 Aligned_cols=27 Identities=22% Similarity=0.299 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHhcH
Q 030744 12 EMRKRILHFALEGNALKAIELTEELAQ 38 (172)
Q Consensus 12 ~~R~~I~~~I~~G~i~~Ai~~i~~~~p 38 (172)
..=..|.++|.+|++-+|++.+...+|
T Consensus 92 ~~l~~~~~~v~~g~~Y~ALK~~R~Li~ 118 (131)
T PRK12791 92 PIIEAINNHILNGDLYKALKELRKLIA 118 (131)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHhHH
Confidence 334456778888888888888887776
No 91
>COG5117 NOC3 Protein involved in the nuclear export of pre-ribosomes [Translation, ribosomal structure and biogenesis / Intracellular trafficking and secretion]
Probab=22.57 E-value=5.9e+02 Score=23.18 Aligned_cols=103 Identities=17% Similarity=0.162 Sum_probs=59.4
Q ss_pred HHHHHHHHHHHHcC-CHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccCcCC--chhhHH
Q 030744 11 MEMRKRILHFALEG-NALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGK--VQKYVE 87 (172)
Q Consensus 11 ~~~R~~I~~~I~~G-~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~~~~--~~~~~~ 87 (172)
-++|++|.+..++- ++..|++.- .+-.++++.=-.++|+. -+|+.-..|-|+=+-+..|.. |+++..
T Consensus 375 ~KE~~~I~~Emr~ae~i~~a~e~e-knqseIlkiif~~Yf~v---------Lk~~~k~lig~vleGl~k~~~~~n~eflG 444 (657)
T COG5117 375 EKERLRIQSEMRDAEDIEEAIEEE-KNQSEILKIIFRLYFMV---------LKGDRKDLIGYVLEGLVKYRKIINPEFLG 444 (657)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHH-hhHHHHHHHHHHHHHHH---------HhcchHHHHHHHHHHHHHHHhhcCHHHHh
Confidence 45678888777654 444554433 23345555422233332 234444455555555555554 678887
Q ss_pred HHHHHHhHhcccCCCCCcchhcCCHHHHHHHHHHHHHHHH
Q 030744 88 KLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAIL 127 (172)
Q Consensus 88 ~l~~~~~LLay~~~~~sp~~~ll~~~~r~~la~~vn~aIL 127 (172)
.+-++|--|.-++ |+..+-+.++|+.+.--+.+.=+
T Consensus 445 D~Levl~eL~~d~----~~dk~ss~a~r~alLcI~tAF~i 480 (657)
T COG5117 445 DLLEVLYELLNDN----PLDKISSDARRQALLCILTAFEI 480 (657)
T ss_pred HHHHHHHHHHcCC----chhhhhHHHHHHHHHHhhHHHHH
Confidence 7777777666665 55566677888887766644333
No 92
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=22.39 E-value=69 Score=17.43 Aligned_cols=21 Identities=19% Similarity=0.123 Sum_probs=14.6
Q ss_pred HHHHHHHHH--cCCHHHHHHHHH
Q 030744 14 RKRILHFAL--EGNALKAIELTE 34 (172)
Q Consensus 14 R~~I~~~I~--~G~i~~Ai~~i~ 34 (172)
+..++.++. .|+++.|++|+-
T Consensus 15 ~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 15 REEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHh
Confidence 445555543 589999999873
No 93
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=22.15 E-value=2.1e+02 Score=23.14 Aligned_cols=63 Identities=17% Similarity=0.067 Sum_probs=40.4
Q ss_pred HHHHHHHHHcCCHHHHHHHHHHhcHHHHccCCcceehhhHHHHHHHHhhcChHHHHHHHHhhccC
Q 030744 14 RKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTP 78 (172)
Q Consensus 14 R~~I~~~I~~G~i~~Ai~~i~~~~p~ll~~~~~l~F~L~~q~fIELir~~~~~eAi~~ar~~l~~ 78 (172)
|--|-..+-.|..+.|.....+. ++-....++.+.=.+.+-.++|+.|++++||+...+....
T Consensus 31 ~LVmnylv~eg~~EaA~~Fa~e~--~i~~~~~d~~~~~eR~~Ir~~I~~G~Ie~Aie~in~l~Pe 93 (228)
T KOG2659|consen 31 RLVMNYLVHEGYVEAAEKFAKES--GIKPPSIDLDSMDERLQIRRAIEEGQIEEAIEKVNQLNPE 93 (228)
T ss_pred HHHHHHHHhccHHHHHHHhcccc--CCCCccCchhhHhHHHHHHHHHHhccHHHHHHHHHHhChH
Confidence 44444555566666555544332 1111134666666778888899999999999999975543
No 94
>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=21.87 E-value=1.1e+02 Score=15.44 Aligned_cols=16 Identities=38% Similarity=0.370 Sum_probs=11.1
Q ss_pred HHHcCCHHHHHHHHHH
Q 030744 20 FALEGNALKAIELTEE 35 (172)
Q Consensus 20 ~I~~G~i~~Ai~~i~~ 35 (172)
....|++++|++.+++
T Consensus 11 ~~~~~~~~~A~~~~~~ 26 (34)
T PF07719_consen 11 YYQLGNYEEAIEYFEK 26 (34)
T ss_dssp HHHTT-HHHHHHHHHH
T ss_pred HHHhCCHHHHHHHHHH
Confidence 4567888888887754
No 95
>TIGR00029 S20 ribosomal protein S20. This family consists of bacterial (and chloroplast) examples of the bacteria ribosomal small subunit protein S20.
Probab=21.86 E-value=1.6e+02 Score=20.00 Aligned_cols=28 Identities=29% Similarity=0.247 Sum_probs=20.2
Q ss_pred HHHHHHHHcCCHHHHHHHHHHhcHHHHc
Q 030744 15 KRILHFALEGNALKAIELTEELAQDLLE 42 (172)
Q Consensus 15 ~~I~~~I~~G~i~~Ai~~i~~~~p~ll~ 42 (172)
+.+..+|..|+.+.|.+.+..-++.|-.
T Consensus 33 Kk~~~ai~~~d~~~a~~~l~~a~s~iDk 60 (87)
T TIGR00029 33 KKVYAAIAAGDKDKAQEAFKEAAKKLDR 60 (87)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 3456777889988888888777665544
No 96
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=21.86 E-value=2.2e+02 Score=23.67 Aligned_cols=68 Identities=12% Similarity=0.121 Sum_probs=44.6
Q ss_pred HHHHHHHhHhcccCCCCCcchhcCCHHHH-HHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHH
Q 030744 87 EKLEDFMALLAYEEPEKSPMFHLLSLEYR-QHVADNLNRAILAHAERPRYAAMERLIQQTTAVRQCLSQ 154 (172)
Q Consensus 87 ~~l~~~~~LLay~~~~~sp~~~ll~~~~r-~~la~~vn~aIL~~~g~~~~s~Le~l~~~~~~~~~~l~~ 154 (172)
...++++.-+++++...--++.+++.... ..-...+...+|..+|+|..+-+..+.+.+..+...++.
T Consensus 222 ~~ae~~~~~~~~S~ef~~~~g~~~~a~m~~r~~~~~~~e~~L~~l~lPTr~evd~l~k~l~eLrre~r~ 290 (293)
T PF09712_consen 222 DAAEEAYEELFRSEEFAQAYGQLVNALMDLRKQQQEVVEEYLRSLNLPTRSEVDELYKRLHELRREVRA 290 (293)
T ss_pred HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444433222224555555433 455666777899999999999999999999888777654
No 97
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=21.02 E-value=2.1e+02 Score=22.53 Aligned_cols=23 Identities=26% Similarity=0.281 Sum_probs=14.2
Q ss_pred HHHHHHHcCCHHHHHHHHHHhcH
Q 030744 16 RILHFALEGNALKAIELTEELAQ 38 (172)
Q Consensus 16 ~I~~~I~~G~i~~Ai~~i~~~~p 38 (172)
.|.++|.+||.+.|...+.+|.-
T Consensus 204 ~I~~Ai~~~D~~~A~~~~~~Hl~ 226 (254)
T PRK09464 204 RIFEAIVAGKPEKAREASHRHLA 226 (254)
T ss_pred HHHHHHHhCCHHHHHHHHHHHHH
Confidence 56666666666666666666543
No 98
>cd00686 Terpene_cyclase_cis_trans_C1 Cis, Trans, Terpene Cyclases, Class 1. This CD includes the terpenoid cyclase, trichodiene synthase, which catalyzes the cyclization of farnesyl diphosphate (FPP) to trichodiene using a cis-trans pathway, and is the first committed step in the biosynthesis of trichothecene toxins and antibiotics. As with other enzymes with the 'terpenoid synthase fold', this enzyme has two conserved metal binding motifs that coordinate Mg2+ ion-bridged binding of the diphosphate moiety of FPP. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade. These enzymes function as homodimers and are found in several genera of fungi.
Probab=20.84 E-value=1.8e+02 Score=25.17 Aligned_cols=79 Identities=13% Similarity=0.058 Sum_probs=42.9
Q ss_pred HHHHHhHhcccCCCCCcchhcCCH-HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHHhcCCCCC-CCcch
Q 030744 89 LEDFMALLAYEEPEKSPMFHLLSL-EYRQHVADNLNRAILAHAERPRYAAMERLIQQTTAVRQCLSQELGKDVH-PPFSL 166 (172)
Q Consensus 89 l~~~~~LLay~~~~~sp~~~ll~~-~~r~~la~~vn~aIL~~~g~~~~s~Le~l~~~~~~~~~~l~~~~~~~~~-~~~~~ 166 (172)
+.+++..+.|-|.--|=|++.+.+ ++=..+.+.++ ..|.+...+|+.+.+.+......+..--|+..| -.--+
T Consensus 214 Ip~~~~~i~~~NDILSFYKEe~~~~E~~n~V~Nya~-----~~GiS~~eAL~~lt~dTv~~s~rv~~VLse~dp~l~~av 288 (357)
T cd00686 214 IAQMENWMVWVNDLMSFYKEFDDERDQISLVKNYVV-----SDEISLHEALEKLTQDTLHSSKQMVAVFSDKDPQVMDTI 288 (357)
T ss_pred HHHHHHHHHhhhhhhheehhhcccccccchHHHhhh-----hcCCCHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHH
Confidence 333333334443323445554432 33344555554 389999999999998887777666555433321 03345
Q ss_pred hhhhcC
Q 030744 167 KDFMKS 172 (172)
Q Consensus 167 ~~~~~~ 172 (172)
+.|++|
T Consensus 289 ~~Fi~G 294 (357)
T cd00686 289 ECFMHG 294 (357)
T ss_pred HHHHHH
Confidence 555554
No 99
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.43 E-value=2.9e+02 Score=19.18 Aligned_cols=46 Identities=24% Similarity=0.281 Sum_probs=33.4
Q ss_pred cCCHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHH
Q 030744 109 LLSLEYRQHVADNLNRAILAHAERPRYAAMERLIQQTTAVRQCLSQ 154 (172)
Q Consensus 109 ll~~~~r~~la~~vn~aIL~~~g~~~~s~Le~l~~~~~~~~~~l~~ 154 (172)
-+++++|.++....-+.++.++...+.-.=-.+..-+--++++|+.
T Consensus 5 ~ls~~q~~~leAAaFRrLv~HL~~rsdvQNIDLMnLAgFCRNCLs~ 50 (104)
T COG3492 5 ELSEEQRDRLEAAAFRRLVEHLQERSDVQNIDLMNLAGFCRNCLSN 50 (104)
T ss_pred hcCHHHHHHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHH
Confidence 4678899999999999999997664444334455556667777764
No 100
>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=20.10 E-value=2.3e+02 Score=17.46 Aligned_cols=56 Identities=21% Similarity=0.096 Sum_probs=30.3
Q ss_pred HHHcCCHHHHHHHHHHhcHHHHccCCc-ceehhhHHHHHHH--HhhcChHHHHHHHHhhc
Q 030744 20 FALEGNALKAIELTEELAQDLLEKNKD-LHFDLLSLHFVEL--VCSRKCTEALEFAQTKL 76 (172)
Q Consensus 20 ~I~~G~i~~Ai~~i~~~~p~ll~~~~~-l~F~L~~q~fIEL--ir~~~~~eAi~~ar~~l 76 (172)
....|+++.|+++.++--.- .+.-.+ -.....+..=+-. .+.|+.++|+++.++-+
T Consensus 15 ~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al 73 (78)
T PF13424_consen 15 YRELGRYDEALDYYEKALDI-EEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL 73 (78)
T ss_dssp HHHTT-HHHHHHHHHHHHHH-HHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HHHcCCHHHHHHHHHHHHHH-HHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 44789999999999776544 332111 1111222111111 24578888888887643
No 101
>PRK04964 hypothetical protein; Provisional
Probab=20.07 E-value=99 Score=19.82 Aligned_cols=26 Identities=15% Similarity=0.142 Sum_probs=16.2
Q ss_pred ChHHHHHHHHhhccCcCCchhhHHHH
Q 030744 64 KCTEALEFAQTKLTPFGKVQKYVEKL 89 (172)
Q Consensus 64 ~~~eAi~~ar~~l~~~~~~~~~~~~l 89 (172)
-+..||..+-+-|...+.|+....++
T Consensus 22 YiP~Ai~ca~k~L~~IAad~~Lp~~v 47 (66)
T PRK04964 22 YVPDALGCVLKALNEIAADEALPESV 47 (66)
T ss_pred cCcHHHHHHHHHHHHHhccccCCHHH
Confidence 47888888877776665444433333
Done!