Query 028189
Match_columns 212
No_of_seqs 134 out of 740
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 07:39:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028189.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028189hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2659 LisH motif-containing 100.0 8.4E-41 1.8E-45 270.8 19.8 194 3-196 14-211 (228)
2 PF10607 CLTH: CTLH/CRA C-term 100.0 4.7E-31 1E-35 203.8 14.6 137 54-192 2-144 (145)
3 KOG0396 Uncharacterized conser 100.0 6.2E-29 1.4E-33 211.7 15.7 173 9-184 109-285 (389)
4 KOG2817 Predicted E3 ubiquitin 99.9 7.4E-24 1.6E-28 182.5 17.4 174 9-184 109-291 (394)
5 smart00757 CRA CT11-RanBPM. pr 99.7 3.8E-16 8.2E-21 112.8 11.0 90 107-196 2-97 (99)
6 smart00668 CTLH C-terminal to 99.5 1.5E-13 3.2E-18 89.6 5.9 55 54-108 2-56 (58)
7 KOG0293 WD40 repeat-containing 99.4 1.9E-12 4.2E-17 112.5 11.4 167 12-189 14-186 (519)
8 KOG1477 SPRY domain-containing 98.8 2.6E-09 5.6E-14 96.7 2.8 190 20-210 254-467 (469)
9 PF08513 LisH: LisH; InterPro 98.6 6.8E-08 1.5E-12 53.2 3.8 27 16-42 1-27 (27)
10 smart00667 LisH Lissencephaly 98.4 8.1E-07 1.7E-11 50.9 4.6 32 14-45 2-33 (34)
11 KOG0275 Conserved WD40 repeat- 98.1 7.4E-05 1.6E-09 64.2 11.6 173 10-198 2-180 (508)
12 COG5109 Uncharacterized conser 97.0 0.0037 8E-08 53.5 8.0 133 6-141 91-224 (396)
13 PF09398 FOP_dimer: FOP N term 91.8 0.34 7.4E-06 33.6 4.2 30 17-46 20-49 (81)
14 KOG1333 Uncharacterized conser 86.6 7.8 0.00017 31.6 8.9 115 16-131 6-128 (241)
15 PF14559 TPR_19: Tetratricopep 86.3 4.1 9E-05 25.9 6.3 59 63-126 1-59 (68)
16 PF10607 CLTH: CTLH/CRA C-term 84.4 7.3 0.00016 29.3 7.7 59 21-80 7-67 (145)
17 PF04494 TFIID_90kDa: WD40 ass 84.1 2.6 5.7E-05 32.1 5.1 48 88-137 38-85 (142)
18 cd08044 TAF5_NTD2 TAF5_NTD2 is 77.2 4.1 9E-05 30.7 4.1 48 89-138 28-75 (133)
19 TIGR03362 VI_chp_7 type VI sec 77.2 29 0.00063 30.0 9.8 100 15-116 132-274 (301)
20 KOG3060 Uncharacterized conser 73.8 56 0.0012 27.9 10.5 110 16-136 52-164 (289)
21 KOG0273 Beta-transducin family 73.2 1.3 2.8E-05 40.2 0.5 38 11-48 1-38 (524)
22 PF04053 Coatomer_WDAD: Coatom 70.0 22 0.00047 32.6 7.5 77 17-117 296-372 (443)
23 PF01726 LexA_DNA_bind: LexA D 69.6 7.5 0.00016 25.6 3.4 48 14-67 7-54 (65)
24 PF10602 RPN7: 26S proteasome 66.1 64 0.0014 25.4 11.9 109 14-123 34-144 (177)
25 PF12895 Apc3: Anaphase-promot 57.9 12 0.00027 25.1 2.9 52 59-116 31-82 (84)
26 PF13838 Clathrin_H_link: Clat 55.8 37 0.0008 22.5 4.7 41 93-133 7-47 (66)
27 PF14276 DUF4363: Domain of un 54.8 26 0.00057 25.6 4.4 47 55-101 30-76 (121)
28 KOG2910 Uncharacterized conser 53.2 77 0.0017 25.7 6.9 63 55-119 41-116 (209)
29 PF07035 Mic1: Colon cancer-as 50.3 1E+02 0.0022 24.4 7.2 89 10-118 24-115 (167)
30 KOG2437 Muskelin [Signal trans 50.1 61 0.0013 30.4 6.6 62 18-85 168-229 (723)
31 PTZ00196 60S ribosomal protein 50.0 35 0.00076 24.5 4.1 44 92-135 48-91 (98)
32 KOG1156 N-terminal acetyltrans 48.4 2.6E+02 0.0057 27.0 16.1 125 55-184 187-332 (700)
33 PF07729 FCD: FCD domain; Int 48.3 41 0.00088 23.4 4.5 29 52-80 95-123 (125)
34 PF06794 UPF0270: Uncharacteri 45.3 66 0.0014 21.6 4.7 44 12-68 7-50 (70)
35 PF09295 ChAPs: ChAPs (Chs5p-A 44.7 2.4E+02 0.0052 25.5 11.0 97 11-118 164-260 (395)
36 PF00627 UBA: UBA/TS-N domain; 44.2 41 0.00088 19.1 3.2 18 59-76 18-37 (37)
37 PRK10564 maltose regulon perip 44.1 28 0.0006 30.2 3.4 42 56-105 260-301 (303)
38 PRK00794 flbT flagellar biosyn 43.2 1.3E+02 0.0029 22.7 6.7 31 52-82 92-122 (132)
39 TIGR02531 yecD_yerC TrpR-relat 42.8 85 0.0018 21.9 5.2 56 18-76 4-59 (88)
40 PF01158 Ribosomal_L36e: Ribos 40.7 54 0.0012 23.5 4.0 44 92-135 48-91 (98)
41 PF07721 TPR_4: Tetratricopept 38.6 40 0.00086 17.4 2.4 17 61-77 9-25 (26)
42 PF13432 TPR_16: Tetratricopep 38.2 98 0.0021 19.1 6.0 51 61-119 5-58 (65)
43 COG5051 RPL36A Ribosomal prote 38.0 1E+02 0.0022 21.7 4.8 43 94-139 52-94 (97)
44 KOG0292 Vesicle coat complex C 37.3 9.1 0.0002 37.9 -0.6 48 18-79 622-669 (1202)
45 PF09312 SurA_N: SurA N-termin 37.0 70 0.0015 23.3 4.3 49 9-66 63-114 (118)
46 KOG2659 LisH motif-containing 35.7 1.4E+02 0.0031 24.8 6.3 68 13-80 60-130 (228)
47 COG5443 FlbT Flagellar biosynt 34.5 68 0.0015 24.3 3.8 58 25-82 65-123 (148)
48 KOG4594 Sequence-specific sing 34.5 49 0.0011 28.5 3.4 28 15-42 17-44 (354)
49 PF03477 ATP-cone: ATP cone do 34.0 42 0.00091 22.9 2.6 28 12-39 55-82 (90)
50 KOG0640 mRNA cleavage stimulat 33.7 72 0.0016 28.1 4.3 32 14-45 10-41 (430)
51 PF14689 SPOB_a: Sensor_kinase 33.2 1.3E+02 0.0029 19.3 4.7 33 52-84 22-54 (62)
52 TIGR01470 cysG_Nterm siroheme 32.6 1.6E+02 0.0035 23.7 6.1 64 55-119 135-204 (205)
53 PF10827 DUF2552: Protein of u 32.4 30 0.00065 23.3 1.4 16 68-83 60-75 (79)
54 cd00194 UBA Ubiquitin Associat 32.1 78 0.0017 17.7 3.1 12 66-77 26-37 (38)
55 KOG0989 Replication factor C, 31.9 3.6E+02 0.0078 23.8 9.7 76 61-136 216-299 (346)
56 PF14691 Fer4_20: Dihydroprymi 31.4 65 0.0014 23.5 3.3 30 92-122 38-67 (111)
57 PRK14962 DNA polymerase III su 30.5 4.4E+02 0.0095 24.3 11.8 103 9-117 192-305 (472)
58 KOG1538 Uncharacterized conser 29.8 1.4E+02 0.0029 29.2 5.7 58 59-117 779-842 (1081)
59 PF14973 TINF2_N: TERF1-intera 29.6 2.2E+02 0.0048 21.9 6.1 79 59-141 46-132 (145)
60 COG4105 ComL DNA uptake lipopr 28.8 3.6E+02 0.0078 22.8 9.0 66 53-124 34-103 (254)
61 TIGR00083 ribF riboflavin kina 27.9 56 0.0012 28.0 2.8 51 29-80 115-169 (288)
62 PF13371 TPR_9: Tetratricopept 27.5 1.6E+02 0.0035 18.4 6.9 53 63-120 5-57 (73)
63 PF12931 Sec16_C: Sec23-bindin 27.1 65 0.0014 27.4 3.0 21 59-79 1-21 (284)
64 PF13424 TPR_12: Tetratricopep 27.0 1.8E+02 0.0038 18.6 5.5 55 64-119 16-73 (78)
65 PRK11534 DNA-binding transcrip 27.0 1.1E+02 0.0023 24.6 4.2 28 53-80 183-210 (224)
66 PF07378 FlbT: Flagellar prote 26.7 1.5E+02 0.0032 22.3 4.5 32 51-82 89-120 (126)
67 PF13934 ELYS: Nuclear pore co 26.5 3.6E+02 0.0078 22.1 10.5 89 32-142 63-154 (226)
68 smart00165 UBA Ubiquitin assoc 26.2 1.1E+02 0.0024 16.9 3.1 11 66-76 26-36 (37)
69 COG5516 Conserved protein cont 25.8 2.6E+02 0.0056 22.4 5.8 57 155-211 42-99 (196)
70 TIGR03338 phnR_burk phosphonat 25.5 1.4E+02 0.003 23.7 4.5 28 53-80 179-206 (212)
71 smart00550 Zalpha Z-DNA-bindin 25.4 1.3E+02 0.0029 19.5 3.7 50 13-69 2-52 (68)
72 COG0268 RpsT Ribosomal protein 25.4 1.3E+02 0.0027 21.2 3.6 29 57-85 32-60 (88)
73 PF09976 TPR_21: Tetratricopep 25.4 2.8E+02 0.0061 20.4 9.4 60 55-117 50-110 (145)
74 COG3071 HemY Uncharacterized e 24.9 5.2E+02 0.011 23.4 9.7 141 9-174 180-360 (400)
75 KOG1585 Protein required for f 24.8 3.1E+02 0.0066 23.6 6.4 62 16-78 191-252 (308)
76 PF14691 Fer4_20: Dihydroprymi 24.4 1E+02 0.0023 22.4 3.3 26 56-81 41-66 (111)
77 PRK10225 DNA-binding transcrip 24.2 1.3E+02 0.0027 24.8 4.2 25 96-120 201-225 (257)
78 PRK04966 hypothetical protein; 24.1 76 0.0016 21.5 2.3 45 12-69 7-51 (72)
79 KOG3452 60S ribosomal protein 23.8 2.2E+02 0.0048 20.4 4.7 45 92-139 50-94 (102)
80 PF07208 DUF1414: Protein of u 23.8 1.1E+02 0.0023 18.7 2.6 17 154-170 25-41 (44)
81 PF06910 MEA1: Male enhanced a 23.4 1.6E+02 0.0035 23.3 4.3 39 125-163 123-161 (174)
82 PRK04984 fatty acid metabolism 22.8 1.5E+02 0.0031 24.1 4.3 28 53-80 189-216 (239)
83 PRK12791 flbT flagellar biosyn 22.7 1.7E+02 0.0038 22.1 4.3 30 53-82 90-119 (131)
84 PF12854 PPR_1: PPR repeat 22.5 1.4E+02 0.003 16.4 2.9 20 59-78 13-32 (34)
85 TIGR02812 fadR_gamma fatty aci 22.4 1.5E+02 0.0033 23.9 4.3 26 54-79 189-214 (235)
86 PF04840 Vps16_C: Vps16, C-ter 22.2 3.4E+02 0.0073 23.6 6.6 62 9-78 201-262 (319)
87 TIGR00756 PPR pentatricopeptid 22.2 1.3E+02 0.0028 15.4 3.0 22 59-80 6-27 (35)
88 PRK15179 Vi polysaccharide bio 22.0 7.5E+02 0.016 24.1 11.9 100 16-123 86-185 (694)
89 PRK00304 hypothetical protein; 21.9 88 0.0019 21.3 2.3 43 13-69 8-50 (75)
90 PF01877 RNA_binding: RNA bind 21.1 1.8E+02 0.004 21.3 4.1 44 52-100 56-100 (120)
91 PRK10421 DNA-binding transcrip 20.7 1.9E+02 0.0041 23.7 4.6 30 52-81 189-218 (253)
92 PRK00239 rpsT 30S ribosomal pr 20.4 1.8E+02 0.0039 20.3 3.7 29 57-85 32-60 (88)
93 PF12169 DNA_pol3_gamma3: DNA 20.4 3.5E+02 0.0077 19.8 6.7 26 55-80 16-41 (143)
94 smart00299 CLH Clathrin heavy 20.4 3.5E+02 0.0075 19.6 6.1 13 14-26 40-52 (140)
95 PLN03088 SGT1, suppressor of 20.3 5.8E+02 0.013 22.3 12.3 113 18-139 5-117 (356)
96 PRK03837 transcriptional regul 20.2 2E+02 0.0043 23.2 4.6 30 52-81 198-227 (241)
97 PRK11414 colanic acid/biofilm 20.2 1.7E+02 0.0036 23.5 4.1 29 52-80 180-208 (221)
No 1
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=100.00 E-value=8.4e-41 Score=270.77 Aligned_cols=194 Identities=36% Similarity=0.528 Sum_probs=183.9
Q ss_pred CChhhhhccCCCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHH
Q 028189 3 VDPRQYEHIAINDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQD 82 (212)
Q Consensus 3 ~~~~~~~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ 82 (212)
-|.+.+.++++..+++|+||++||+|+||.|+|..|++|+|++.|..+.+.+..|.+|+.+|..|+|..||+.++++.|.
T Consensus 14 ~w~~~~~~~~~~~~d~n~LVmnylv~eg~~EaA~~Fa~e~~i~~~~~d~~~~~eR~~Ir~~I~~G~Ie~Aie~in~l~Pe 93 (228)
T KOG2659|consen 14 EWEEQLMKVSVMREDLNRLVMNYLVHEGYVEAAEKFAKESGIKPPSIDLDSMDERLQIRRAIEEGQIEEAIEKVNQLNPE 93 (228)
T ss_pred hhHHHHhccCcchhhHHHHHHHHHHhccHHHHHHHhccccCCCCccCchhhHhHHHHHHHHHHhccHHHHHHHHHHhChH
Confidence 47889999999999999999999999999999999999999998777899999999999999999999999999999999
Q ss_pred HhccCccchhhhhHHHHHHHHhccChHHHHHHHHHhcCccCC-chhHHHHHHHHHhHhccCCCCCCchhhhCCHHHHHHH
Q 028189 83 LLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGK-VQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHV 161 (212)
Q Consensus 83 ll~~~~~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~-~~~~~~~l~~~~~lla~~~~~~s~~~~l~~~~~r~~l 161 (212)
+++.|.+|.|+|++|+||||||.|...+||+|+|++++|++. +++++.+++++|++|+|++|+.||++++++.++|.++
T Consensus 94 iLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~LA~~a~e~~~~~~elE~~l~lLvf~~~~~sp~~~l~~~s~R~kv 173 (228)
T KOG2659|consen 94 ILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKLAPFAEENPKKMEELERTLALLVFELSQESPSAELLSQSLRQKV 173 (228)
T ss_pred HHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHcCCcccCcHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999996 6789999999999999999999999999999999999
Q ss_pred HHHHHHHHhc---CCCchHHHHHHHHHHHHHHHHHhhc
Q 028189 162 ADNLNRAILE---RPRYAAMERLIQQTTAVRQCLSQEL 196 (212)
Q Consensus 162 a~~vn~~il~---~p~~s~Le~lv~~~~~~~~~l~~~~ 196 (212)
|++||++||. .+..+.|..|++...+.+..+..+.
T Consensus 174 A~~vN~aiL~~~~~~~~~~l~~llk~~~~~~~~~~~~~ 211 (228)
T KOG2659|consen 174 ASEVNSAILASQEHESEPKLPFLLKLISWAQEELDREK 211 (228)
T ss_pred HHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHhHhh
Confidence 9999999999 5558899999988888887776553
No 2
>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=99.97 E-value=4.7e-31 Score=203.81 Aligned_cols=137 Identities=36% Similarity=0.601 Sum_probs=129.1
Q ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHH
Q 028189 54 MEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLE 133 (212)
Q Consensus 54 ~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~ 133 (212)
+.+|++|+++|++|++++|++|+++++|.+++.++.++|.|++|+|||||++|++.+||+|||+++.|+. .++.++++
T Consensus 2 ~~~r~~I~~~I~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~~~~Ai~y~r~~l~~~~--~~~~~~l~ 79 (145)
T PF10607_consen 2 FKERKKIRQAILNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGDIMEAIEYARKHLSPFN--DEFLEELK 79 (145)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhH--HHHHHHHH
Confidence 6899999999999999999999999999999999999999999999999999999999999999997775 46899999
Q ss_pred HHHhHhccCCCCC---CchhhhCCHHHHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHHHHHH
Q 028189 134 DFMALLAYEEPEK---SPMFHLLSLEYRQHVADNLNRAILE---RPRYAAMERLIQQTTAVRQCL 192 (212)
Q Consensus 134 ~~~~lla~~~~~~---s~~~~l~~~~~r~~la~~vn~~il~---~p~~s~Le~lv~~~~~~~~~l 192 (212)
++|++|+|++|.+ +||++++++++|+.|++.||++++. .|+.|.|+.++++..++...+
T Consensus 80 ~~~~lL~~~~~~~~~~s~~~~l~~~~~~~~la~~~~~~~l~~~~~~~~s~L~~~~~~g~~~l~~l 144 (145)
T PF10607_consen 80 KLMSLLAYPDPEEPLPSPYKELLSPERREELAEEFNSAILKSYGLPKESPLEVILKAGLSALKTL 144 (145)
T ss_pred HHHHHHHcCCcccccchHHHHHhChHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHHHhhhc
Confidence 9999999999987 7999999999999999999999998 888999999999988876543
No 3
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.96 E-value=6.2e-29 Score=211.67 Aligned_cols=173 Identities=20% Similarity=0.242 Sum_probs=159.0
Q ss_pred hccCCCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCc
Q 028189 9 EHIAINDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNK 88 (212)
Q Consensus 9 ~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~ 88 (212)
...+.++..++++|++||.|+||++||..|.++++++... |.+.+...+.|+++|+.|++.+|+.||++|.-.|.+.+|
T Consensus 109 ~~~~w~r~~l~r~vvdhmlr~gy~~~A~~L~K~s~ledlv-D~Dv~~~~~~I~~sll~~~l~~~Lswc~ehk~~LkK~~S 187 (389)
T KOG0396|consen 109 NSRKWPRNKLDRFVVDHMLRNGYFGAAVLLGKKSQLEDLV-DSDVYKRAYGIRDSLLAGELEPALSWCKEHKVELKKEES 187 (389)
T ss_pred HHHHhHHHHHHHHHHHHHHHcCchhHHHHHHHhhhhhhhH-hHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhccc
Confidence 3466778999999999999999999999999999987653 789999999999999999999999999999999999999
Q ss_pred cchhhhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHHHHHhHhccC-CCCCCchhhhCCHHHHHHHHHHHHH
Q 028189 89 DLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYE-EPEKSPMFHLLSLEYRQHVADNLNR 167 (212)
Q Consensus 89 ~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~lla~~-~~~~s~~~~l~~~~~r~~la~~vn~ 167 (212)
.++|.++.|+|||||+.+++.+||+|++++|+|++ .++.++++.+||++||+ .++.++|..+++..||+.+++.|-+
T Consensus 188 ~lEf~lRlQefIELi~~~~~~~Ai~~akk~f~~~~--~~~~~~Lk~a~g~laF~~~t~~sky~~l~~~~rw~~l~~lF~s 265 (389)
T KOG0396|consen 188 SLEFQLRLQEFIELIKVDNYDKAIAFAKKHFAPWA--KSHKSDLKLAMGLLAFPKYTSSSKYLNLLTADRWSVLADLFLS 265 (389)
T ss_pred hhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhhhh--hhhHHHHHHHHHhhcCccccCcccccCcccHHHHHHHHHHhhH
Confidence 99999999999999999999999999999999999 78899999999999996 4666779999999999999999988
Q ss_pred HHhc---CCCchHHHHHHHH
Q 028189 168 AILE---RPRYAAMERLIQQ 184 (212)
Q Consensus 168 ~il~---~p~~s~Le~lv~~ 184 (212)
-..+ .|..|+|-..++.
T Consensus 266 ~a~~l~~i~~~~~L~~~l~~ 285 (389)
T KOG0396|consen 266 EALKLFGIPINPALTIYLQA 285 (389)
T ss_pred HHHHHhCCCCCcHHHHHHHh
Confidence 6555 7888888888875
No 4
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=7.4e-24 Score=182.55 Aligned_cols=174 Identities=23% Similarity=0.383 Sum_probs=150.3
Q ss_pred hccCCCHHH-HHHHHHHHHHhhcHHHHHHHHHHhhCCCCC-CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhcc
Q 028189 9 EHIAINDND-IHNIVLSYLVHNCYKETVDSFISCTGMKQP-ANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEK 86 (212)
Q Consensus 9 ~~~~~~~~~-l~~lI~~yL~~~Gy~eta~~f~~es~~~~~-~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~ 86 (212)
.++..+... +|.+|+.|++++|..++|.+|++|+|...+ ......|.+.++|.++|..||+.+|++|+..+...|.+.
T Consensus 109 ~~v~~~~~~~ln~ai~~h~~rqGm~dv~~~l~~Ea~~~~~~~~~~~~F~el~~Iv~~lke~Dl~~aLeWa~~~~~~L~~~ 188 (394)
T KOG2817|consen 109 NSVDFDTSQVLNEAIVYHFYRQGMDDVGECLIKEAGLSEDESKSRTEFVELNQIVEALKERDLEPALEWAESNRQKLKEK 188 (394)
T ss_pred cCcChhHHHHHHHHHHHHHHHcCchHHHHHHHHHhcCCCcchhhhhhHHHHHHHHHHHHhccchhHHHHHHHhhhhhccc
Confidence 355555444 599999999999999999999999998765 334567889999999999999999999999999999999
Q ss_pred CccchhhhhHHHHHHHHhccChH--HHHHHHHHhcCccCCchhHHHHHHHHHhHhcc--CCCCCCchhhhCCHHHHHHHH
Q 028189 87 NKDLHFDLLSLHFVELVCSRKCT--EALEFAQTKLTPFGKVQKYVEKLEDFMALLAY--EEPEKSPMFHLLSLEYRQHVA 162 (212)
Q Consensus 87 ~~~l~F~L~~q~fIEli~~~~~~--eAi~~ar~~l~~~~~~~~~~~~l~~~~~lla~--~~~~~s~~~~l~~~~~r~~la 162 (212)
++.|+|.|+.++|+++++.|.-. +||.|||++++||+ ..+.++|+.+|+++.| ...+.|||.+++++..|.++.
T Consensus 189 ~s~LE~~Lh~l~fl~l~~~g~~~~~eAl~Yar~~~~~F~--~~~~~eIQklm~sl~~l~~gl~~spy~~~ls~~~w~~~~ 266 (394)
T KOG2817|consen 189 SSSLEFKLHSLHFLSLIRGGKSDQREALRYARTHFAPFV--ADHLREIQKLMGSLLYLRNGLEKSPYSEILSPKLWKELT 266 (394)
T ss_pred cccHHHHHHHHHHHHHHhcCCcCcHHHHHHHHHhcCccc--cchHHHHHHHHHHHHHHHcCCCCCChHHHhCHHHHHHHH
Confidence 99999999999999999988766 99999999999998 6679999999999999 336899999999999999999
Q ss_pred HHHHH---HHhcCCCchHHHHHHHH
Q 028189 163 DNLNR---AILERPRYAAMERLIQQ 184 (212)
Q Consensus 163 ~~vn~---~il~~p~~s~Le~lv~~ 184 (212)
..|-+ +++..|..|+|-.++..
T Consensus 267 ~~f~r~ycallg~s~eSPL~v~v~a 291 (394)
T KOG2817|consen 267 EEFTREYCALLGISVESPLSVLVNA 291 (394)
T ss_pred HHHHHHHHHHcCCCccCcHHHHHHh
Confidence 99977 44555655555555543
No 5
>smart00757 CRA CT11-RanBPM. protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi)
Probab=99.69 E-value=3.8e-16 Score=112.75 Aligned_cols=90 Identities=41% Similarity=0.588 Sum_probs=80.4
Q ss_pred ChHHHHHHHHHhcCccCC-chhHHHHHHHHHhHhccCCC-CCCchhhhCCHHHHHHHHHHHHHHHhc----CCCchHHHH
Q 028189 107 KCTEALEFAQTKLTPFGK-VQKYVEKLEDFMALLAYEEP-EKSPMFHLLSLEYRQHVADNLNRAILE----RPRYAAMER 180 (212)
Q Consensus 107 ~~~eAi~~ar~~l~~~~~-~~~~~~~l~~~~~lla~~~~-~~s~~~~l~~~~~r~~la~~vn~~il~----~p~~s~Le~ 180 (212)
++.+||+|||+++++|.. ++...++|+++|++|+|+++ +.+||++++++++|+.|+++||++|+. .|..|.|+.
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 578999999999999985 44457899999999999998 899999999999999999999999996 566899999
Q ss_pred HHHHHHHHHHHHHhhc
Q 028189 181 LIQQTTAVRQCLSQEL 196 (212)
Q Consensus 181 lv~~~~~~~~~l~~~~ 196 (212)
++++..++...+...+
T Consensus 82 ~~~~~~~~~~~l~~~~ 97 (99)
T smart00757 82 LLSAGLAALKTLLEKG 97 (99)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 9999999888776654
No 6
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=99.46 E-value=1.5e-13 Score=89.61 Aligned_cols=55 Identities=38% Similarity=0.534 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHHHHhccCh
Q 028189 54 MEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKC 108 (212)
Q Consensus 54 ~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIEli~~~~~ 108 (212)
+..|..|+++|+.|+|++|++|++.++|.+.+.++.+.|.|++|+|||+++.|+.
T Consensus 2 ~~~~~~i~~~i~~g~~~~a~~~~~~~~~~l~~~~~~l~f~L~~q~~lell~~~~~ 56 (58)
T smart00668 2 FDERKRIRELILKGDWDEALEWLSSLKPPLLERNSKLEFELRKQKFLELVRQGKL 56 (58)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHcCHHHhccCCCchhHHHHHHHHHHHHcCCc
Confidence 4678999999999999999999999999999999999999999999999998864
No 7
>KOG0293 consensus WD40 repeat-containing protein [Function unknown]
Probab=99.41 E-value=1.9e-12 Score=112.55 Aligned_cols=167 Identities=17% Similarity=0.178 Sum_probs=134.5
Q ss_pred CCCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHh-cHHHhccCccc
Q 028189 12 AINDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEEL-AQDLLEKNKDL 90 (212)
Q Consensus 12 ~~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~-~p~ll~~~~~l 90 (212)
-+.+.++.+++.+.|+..||.+++.+++.|+|+..+. ..-+.+.+.+++|+|+.++..+... ++. .++....
T Consensus 14 likk~efi~il~q~l~slgy~~S~~~lE~es~ll~~t------at~klf~q~vlqg~w~q~v~~~~~i~~~d-e~~~~ea 86 (519)
T KOG0293|consen 14 LIKKGEFIRILWQILYSLGYDHSSPLLEWESGLLIPT------ATTKLFDQQVLQGQWDQQVMSLVRISFED-ERNRKEA 86 (519)
T ss_pred eeccchhhHhHHHHHHhcCccccchhhHHhhCccccc------chHHHHHHHHHcccHHHHHHHHhhccCcc-hhhhHHH
Confidence 3557789999999999999999999999999998765 4556788999999999999888877 554 5556789
Q ss_pred hhhhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHHHHHhHhccCCCCCCc-h-hhhCCHHHHHHHHHHHHHH
Q 028189 91 HFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYEEPEKSP-M-FHLLSLEYRQHVADNLNRA 168 (212)
Q Consensus 91 ~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~lla~~~~~~s~-~-~~l~~~~~r~~la~~vn~~ 168 (212)
.|.+.+|+|+|.++.|++..|+...|+.+.+...+. +.+.++.+.|++++...+- . -.-.....|..|.+++...
T Consensus 87 ~fLv~kQ~fLEf~k~~~is~al~~l~~~~~~lr~~~---kk~~el~~sll~sn~~~~ne~~~~~~~~n~R~~ll~elsky 163 (519)
T KOG0293|consen 87 MFLVNKQIFLEFLKTGSISHALPVLRNPVLYLRKNK---KKFHELASSLLVSNDQFSNEENTTAQLNNERDKLLDELSKY 163 (519)
T ss_pred HHHHHHHHHHHHHhhccHhhhhHhhhcchhhhhhhH---HHHHHHHHHHhccccccccccchhhhhchhHHHHHHHHHhh
Confidence 999999999999999999999999998787776443 4566677888886543221 1 1111245688999999999
Q ss_pred Hhc---CCCchHHHHHHHHHHHHH
Q 028189 169 ILE---RPRYAAMERLIQQTTAVR 189 (212)
Q Consensus 169 il~---~p~~s~Le~lv~~~~~~~ 189 (212)
|.. .| ..+||.|++|+...+
T Consensus 164 i~p~illP-~rRLehLl~qAv~~Q 186 (519)
T KOG0293|consen 164 IPPNILLP-KRRLEHLLEQAVKYQ 186 (519)
T ss_pred CCHhhcCC-hHHHHHHHHHHHHHH
Confidence 988 67 469999999998863
No 8
>KOG1477 consensus SPRY domain-containing proteins [General function prediction only]
Probab=98.79 E-value=2.6e-09 Score=96.73 Aligned_cols=190 Identities=19% Similarity=0.108 Sum_probs=147.4
Q ss_pred HHHHHHHHhhcHHHHHHHHHHhhCCCCCC----CCHHHHH-------HHHHHHHHHHcCCHHHHHHHHHHhcHHHhc---
Q 028189 20 NIVLSYLVHNCYKETVDSFISCTGMKQPA----NCLEDME-------MRKRILHFALEGNALKAIELTEELAQDLLE--- 85 (212)
Q Consensus 20 ~lI~~yL~~~Gy~eta~~f~~es~~~~~~----~~~~~~~-------~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~--- 85 (212)
..+..|+++.||.+++..|+..+.-..++ +...... .+...+.-+-.|.+..+.+.+.+..+....
T Consensus 254 ~~~~~~~l~~~~~~s~~~~s~~~~~~~~~~~~~e~~s~~~~~~~~~~~~~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~ 333 (469)
T KOG1477|consen 254 VPYPYFLLPGGYEESIAYFSTGARRFNDPFTGKEENSIDAVGSQTDKIGLDYHQRKGRGQFTRNGAYNAALIPTYRKVGQ 333 (469)
T ss_pred CCccceecCcchhhhhhhhcchhhccCCcccchhhhhhhccccccchhhhhhhhhcCcceeechhhhcccccccccccce
Confidence 57889999999999999999876432111 0011111 233344444445555666666555555444
Q ss_pred ----cCccchhhhhHHHHHHHHhccChHHHHHHHHHhcCccCC---chhHHHHHHHHHhHhccCCCCCCchhhhCCHHHH
Q 028189 86 ----KNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGK---VQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYR 158 (212)
Q Consensus 86 ----~~~~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~---~~~~~~~l~~~~~lla~~~~~~s~~~~l~~~~~r 158 (212)
..+...+.+.|+.+|.+.+-+.+...+++.+..+++... +.....++...++|++|.+|..||...++++..|
T Consensus 334 ~~~~~~~~~~~~~~~~~~v~~~~~g~v~~e~~~~k~~l~~~~g~~~~~~~~~~~~~s~~Llays~p~~s~~g~~~~~~~~ 413 (469)
T KOG1477|consen 334 VFEVDYPQRGAKDPCGLHVNLGRAGFVFIEANAKKWELAKDYGIKKNSAAVGMLSDSSSLLAYSDPEESPVGYLLDPIQR 413 (469)
T ss_pred eecccccchhhccchhhhhhHHHHHHHHHHHHHHHHhhhhhhCcCccccccccccchHHHHHhcCcccCccccccCcccc
Confidence 346788999999999999999999999999999888765 6678889999999999999999999999999999
Q ss_pred HHHHHHHHHHHhc---CCCchHHHHHHHHHHHHHHHHHhhcCCCCCCCCChhhhh
Q 028189 159 QHVADNLNRAILE---RPRYAAMERLIQQTTAVRQCLSQELGKDVHPPFSLKDFM 210 (212)
Q Consensus 159 ~~la~~vn~~il~---~p~~s~Le~lv~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 210 (212)
+-+++.+|.+||. .++.+.|+.++.|+.++...+....+++. .+++..+++
T Consensus 414 e~v~~~~n~~il~t~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~ 467 (469)
T KOG1477|consen 414 EPVAEALNSAILETDNNSKDPDLERVLSQTPAELSLYARDNPPRN-DFVRDRDYF 467 (469)
T ss_pred hhHHhhhcccccccCCCCccchhhhhhccchhhHhhhhhcCCCcc-ceecchhhh
Confidence 9999999999999 56677899999999999888888777655 566666654
No 9
>PF08513 LisH: LisH; InterPro: IPR013720 The LisH motif is found in a large number of eukaryotic proteins, from metazoa, fungi and plants that have a wide range of functions. The recently solved structure of the LisH domain in the N-terminal region of LIS1 depicted it as a novel dimerization motif, and that other structural elements are likely to play an important role in dimerisation [, , ]. The LisH (lis homology) domain mediates protein dimerisation and tetramerisation. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex []. ; PDB: 2XTE_L 2XTC_B 2XTD_A 1UUJ_B.
Probab=98.60 E-value=6.8e-08 Score=53.20 Aligned_cols=27 Identities=33% Similarity=0.677 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHhh
Q 028189 16 NDIHNIVLSYLVHNCYKETVDSFISCT 42 (212)
Q Consensus 16 ~~l~~lI~~yL~~~Gy~eta~~f~~es 42 (212)
++||++|.+||.++||.+||.+|.+|+
T Consensus 1 ~~Ln~lI~~YL~~~Gy~~tA~~f~~Ea 27 (27)
T PF08513_consen 1 EELNQLIYDYLVENGYKETAKAFAKEA 27 (27)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHCCcHHHHHHHHhcC
Confidence 469999999999999999999999985
No 10
>smart00667 LisH Lissencephaly type-1-like homology motif. Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.
Probab=98.37 E-value=8.1e-07 Score=50.91 Aligned_cols=32 Identities=25% Similarity=0.648 Sum_probs=29.3
Q ss_pred CHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCC
Q 028189 14 NDNDIHNIVLSYLVHNCYKETVDSFISCTGMK 45 (212)
Q Consensus 14 ~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~ 45 (212)
.+..++++|++||.++||.+||.+|++|+++.
T Consensus 2 ~~~~l~~lI~~yL~~~g~~~ta~~l~~e~~~~ 33 (34)
T smart00667 2 SRSELNRLILEYLLRNGYEETAETLQKESGLS 33 (34)
T ss_pred cHHHHHHHHHHHHHHcCHHHHHHHHHHHhCCC
Confidence 46789999999999999999999999999864
No 11
>KOG0275 consensus Conserved WD40 repeat-containing protein [General function prediction only]
Probab=98.05 E-value=7.4e-05 Score=64.25 Aligned_cols=173 Identities=17% Similarity=0.162 Sum_probs=121.8
Q ss_pred ccCCCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCcc
Q 028189 10 HIAINDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKD 89 (212)
Q Consensus 10 ~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~ 89 (212)
++.+...++.|+|.+||-.+....|...+.+|+++... +......+...|-+|.||..+..+.... .-..
T Consensus 2 sieiessdVIrli~QflKE~~L~rtl~tLQeEt~VSLN-----TVDSvd~Fv~dI~sG~WD~VL~~vqsLK-----LP~k 71 (508)
T KOG0275|consen 2 SIEIESSDVIRLIEQFLKENSLHRTLQTLQEETNVSLN-----TVDSVDGFVNDINSGHWDTVLKTVQSLK-----LPDK 71 (508)
T ss_pred ceeeecchHHHHHHHHHhhhhHHHHHHHHHHhhcccee-----echhHHHHHHhcccCchHHHHHHHHhcc-----Cchh
Confidence 34556678999999999999999999999999997543 3344567889999999999999988763 2123
Q ss_pred chhhhhHHHHHHHHhccChHHHHHHHHHhcCccC----CchhHHHHHHHHHhHhc--cCCCCCCchhhhCCHHHHHHHHH
Q 028189 90 LHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFG----KVQKYVEKLEDFMALLA--YEEPEKSPMFHLLSLEYRQHVAD 163 (212)
Q Consensus 90 l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~----~~~~~~~~l~~~~~lla--~~~~~~s~~~~l~~~~~r~~la~ 163 (212)
-...|+-|-.+|||.-..+..|-..+|+.- |-. ..|+..-.++ .+|. |-||. ..|.+--.+.+|..+|.
T Consensus 72 kL~dLYEqivlEliELREL~tAR~~lRQTd-pM~~lKQ~~peRy~~lE---~ll~R~YFDp~-EaY~dssKEkrRa~IAQ 146 (508)
T KOG0275|consen 72 KLIDLYEQIVLELIELRELGTARSLLRQTD-PMIMLKQIQPERYIRLE---NLLNRSYFDPR-EAYGDSSKEKRRAVIAQ 146 (508)
T ss_pred HHHHHHHHHHHHHHHHHhhhHHHHHHhccC-ceehhhccChHHHHHHH---HHhcccccChh-hhcCcchHHHHHHHHHH
Confidence 446789999999998777777777777532 221 1455555555 4444 44553 23555333567888888
Q ss_pred HHHHHHhcCCCchHHHHHHHHHHHHHHHHHhhcCC
Q 028189 164 NLNRAILERPRYAAMERLIQQTTAVRQCLSQELGK 198 (212)
Q Consensus 164 ~vn~~il~~p~~s~Le~lv~~~~~~~~~l~~~~~~ 198 (212)
.+.....-.|+ |+|-.|+-|+..-++..+..-+|
T Consensus 147 ~ls~EV~VVpp-SRLlaLlGQaLKWQqHQGLLPPG 180 (508)
T KOG0275|consen 147 ALSGEVHVVPP-SRLLALLGQALKWQQHQGLLPPG 180 (508)
T ss_pred HhcCceEEcCh-HHHHHHHHHHhhhHhhcCCCCCC
Confidence 77665555774 79999999987766665544333
No 12
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.00 E-value=0.0037 Score=53.53 Aligned_cols=133 Identities=14% Similarity=0.128 Sum_probs=107.1
Q ss_pred hhhhccCCCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhc
Q 028189 6 RQYEHIAINDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLE 85 (212)
Q Consensus 6 ~~~~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~ 85 (212)
+.+...+++...++.+--.++.+.|-..-+..|+.+.|...+....+.+...+.|.+.|.+.+...-|+|+ +....+.+
T Consensus 91 n~~~~f~~~~v~~~~~~~l~~~n~~dv~~~hi~~~~~g~~e~~~~~~~f~~lK~v~~gI~~k~~~l~iE~~-Qi~gyl~k 169 (396)
T COG5109 91 NQIYPFSTQTVTYLVVYYLLENNCADVVERHISETKDGKDEIIKIRDGFVKLKKVISGISEKSTFLLIEFL-QIEGYLSK 169 (396)
T ss_pred hhcCCCccceeeehHHHHHHHhhHHHHHHHHHHHhhcCccchhhHHHHHHHHHHHHHhhccchhHhHHHHH-HhcCcccc
Confidence 34455666666777788888888999999999999999887776778899999999999999999999999 56566777
Q ss_pred cCccchhhhhHHHHHHHHh-ccChHHHHHHHHHhcCccCCchhHHHHHHHHHhHhcc
Q 028189 86 KNKDLHFDLLSLHFVELVC-SRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALLAY 141 (212)
Q Consensus 86 ~~~~l~F~L~~q~fIEli~-~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~lla~ 141 (212)
.++..++.|+......+.. ..++++|+-+.+++++.|. +.|...++.+|-.+.+
T Consensus 170 gdtesel~l~~~~~esl~l~hk~~~~a~r~c~t~~a~f~--~kh~~dv~~~~~~l~n 224 (396)
T COG5109 170 GDTESELELYLVSHESLLLIHKRYDEALRLCFTKLASFV--PKHIQDVKPLLRFLVN 224 (396)
T ss_pred CCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHhccchHHHHHHHHc
Confidence 7777666666655444432 2389999999999999998 8888889988888877
No 13
>PF09398 FOP_dimer: FOP N terminal dimerisation domain; InterPro: IPR018993 Fibroblast growth factor receptor 1 (FGFR1) oncogene partner (FOP) is a centrosomal protein that is involved in anchoring microtubules to centrosomes. This domain includes a Lis-homology motif. It forms an alpha-helical bundle and is involved in dimerisation []. ; GO: 0034453 microtubule anchoring, 0005813 centrosome; PDB: 2D68_A.
Probab=91.80 E-value=0.34 Score=33.63 Aligned_cols=30 Identities=23% Similarity=0.336 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHhhcHHHHHHHHHHhhCCCC
Q 028189 17 DIHNIVLSYLVHNCYKETVDSFISCTGMKQ 46 (212)
Q Consensus 17 ~l~~lI~~yL~~~Gy~eta~~f~~es~~~~ 46 (212)
.++.||.+||--+||.=|+..|..|+|.+.
T Consensus 20 Li~eLIrEyLef~~l~~TlsVf~~Es~~~~ 49 (81)
T PF09398_consen 20 LINELIREYLEFNNLDYTLSVFQPESGQPE 49 (81)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHT-TT
T ss_pred HHHHHHHHHHHHcCCccHHHHHhhccCCCC
Confidence 579999999999999999999999999764
No 14
>KOG1333 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.61 E-value=7.8 Score=31.63 Aligned_cols=115 Identities=11% Similarity=0.136 Sum_probs=73.9
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHH----HHHhcHHHhccC----
Q 028189 16 NDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIEL----TEELAQDLLEKN---- 87 (212)
Q Consensus 16 ~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~----~~~~~p~ll~~~---- 87 (212)
+..+.+|-+||+-.|+.-|.++|-.|....-... ...=....++.++|...|++.--+. =++.+..|....
T Consensus 6 ~~tDelvReYL~frgf~~tLkalD~E~~~~Ke~~-frvdrivdq~~~a~q~~Dl~aLr~~W~~l~~r~Fs~Le~~y~~~~ 84 (241)
T KOG1333|consen 6 ERTDELVREYLLFRGFTHTLKALDAEIKADKEKG-FRVDRIVDQLQQAMQVYDLAALRDYWSYLERRLFSRLEDIYRPTI 84 (241)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHhHHHhhhhhcC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHH
Confidence 4578999999999999999999988765432211 0111334566777877777664432 234444443321
Q ss_pred ccchhhhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHH
Q 028189 88 KDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEK 131 (212)
Q Consensus 88 ~~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~ 131 (212)
..++=-|.+..++-.+.++..++|=+|-++.-+...++++..++
T Consensus 85 ~kle~Sl~r~yLV~~~q~nr~~K~~EFF~K~a~~lqnq~eWkDW 128 (241)
T KOG1333|consen 85 HKLETSLFRFYLVYTIQTNRNDKAQEFFAKQATELQNQAEWKDW 128 (241)
T ss_pred HHHHHHHHHHHHhhhhhcCChHHHHHHHHHHHHHHhcchhhhhh
Confidence 23555666777777888888999988888755444445544443
No 15
>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=86.27 E-value=4.1 Score=25.94 Aligned_cols=59 Identities=22% Similarity=0.112 Sum_probs=36.6
Q ss_pred HHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHHHHhccChHHHHHHHHHhcCccCCch
Q 028189 63 FALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQ 126 (212)
Q Consensus 63 ~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~ 126 (212)
++..|++++|++.+++... ....+..+.+.| -.=+++.|+.++|.....+.+.....++
T Consensus 1 ll~~~~~~~A~~~~~~~l~-~~p~~~~~~~~l----a~~~~~~g~~~~A~~~l~~~~~~~~~~~ 59 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKALQ-RNPDNPEARLLL----AQCYLKQGQYDEAEELLERLLKQDPDNP 59 (68)
T ss_dssp HHHTTHHHHHHHHHHHHHH-HTTTSHHHHHHH----HHHHHHTT-HHHHHHHHHCCHGGGTTHH
T ss_pred ChhccCHHHHHHHHHHHHH-HCCCCHHHHHHH----HHHHHHcCCHHHHHHHHHHHHHHCcCHH
Confidence 4678999999999986531 122233444432 2224578999999999987665554333
No 16
>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=84.38 E-value=7.3 Score=29.25 Aligned_cols=59 Identities=14% Similarity=0.117 Sum_probs=42.0
Q ss_pred HHHHHHHhhcHHHHHHHHHHhhC--CCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 028189 21 IVLSYLVHNCYKETVDSFISCTG--MKQPANCLEDMEMRKRILHFALEGNALKAIELTEELA 80 (212)
Q Consensus 21 lI~~yL~~~Gy~eta~~f~~es~--~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~ 80 (212)
-|.+.+ ..|-.+.|-..+++.. +.........--.++++.+.|.+|++.+|+++++.+.
T Consensus 7 ~I~~~I-~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~~~~Ai~y~r~~l 67 (145)
T PF10607_consen 7 KIRQAI-LNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGDIMEAIEYARKHL 67 (145)
T ss_pred HHHHHH-HcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 355666 8888888888877642 1111123455556778999999999999999999865
No 17
>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=84.11 E-value=2.6 Score=32.15 Aligned_cols=48 Identities=19% Similarity=0.297 Sum_probs=38.7
Q ss_pred ccchhhhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHHHHHh
Q 028189 88 KDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMA 137 (212)
Q Consensus 88 ~~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~ 137 (212)
..+.|=+-+.-|++|+.+|...+|..|..+.-..+. ..+.++|+++.+
T Consensus 38 ~~lLyPvFvh~YL~Lv~~~~~~~A~~F~~kf~~~~~--~~~~~~i~~L~~ 85 (142)
T PF04494_consen 38 SRLLYPVFVHSYLDLVSKGHPEEAKSFLEKFSPDFE--DSHQEDIEKLSS 85 (142)
T ss_dssp GGGHHHHHHHHHHHHHHTT-HHHHHHHHHHHGGGGH--GHGHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHh--HHHHHHHHHHHh
Confidence 358899999999999999999999999998766665 556777776654
No 18
>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=77.24 E-value=4.1 Score=30.65 Aligned_cols=48 Identities=19% Similarity=0.328 Sum_probs=38.7
Q ss_pred cchhhhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHHHHHhH
Q 028189 89 DLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMAL 138 (212)
Q Consensus 89 ~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~l 138 (212)
.+.|=+.+.-|++||.+|...+|..|..+.-..+. +.+.+.|+.+.++
T Consensus 28 ~lLyPiFvh~yL~lv~~~~~~~A~~F~~~f~~~~~--~~~~~~i~~L~~i 75 (133)
T cd08044 28 QLLYPIFVHSYLDLVASGHLEEAKSFFERFSGDFE--DSHSEDIKKLSSI 75 (133)
T ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhHhhH--HHHHHHHHHHHcc
Confidence 47888999999999999999999999997655553 6677788866443
No 19
>TIGR03362 VI_chp_7 type VI secretion-associated protein, VC_A0119 family. This protein family is one of two related families in type VI secretion systems that contain an ImpA-related N-terminal domain (pfam06812).
Probab=77.20 E-value=29 Score=30.02 Aligned_cols=100 Identities=16% Similarity=0.112 Sum_probs=65.1
Q ss_pred HHHHHHHHHHHHHhhcHHHHHHHHHHhhC-----------------CCCCCC------------------------C--H
Q 028189 15 DNDIHNIVLSYLVHNCYKETVDSFISCTG-----------------MKQPAN------------------------C--L 51 (212)
Q Consensus 15 ~~~l~~lI~~yL~~~Gy~eta~~f~~es~-----------------~~~~~~------------------------~--~ 51 (212)
.-++++++.+.|.+.||.+.+.++..+.. .++-+. . .
T Consensus 132 WLDgq~~~~qal~~lG~~~~a~aI~~el~~fL~RlP~L~~L~F~DGtPFad~~T~~WL~~~~~~~~~~~~~~~~~~~~~~ 211 (301)
T TIGR03362 132 WLDGQRLSAQALERLGYAAVAQAIRDELAAFLERLPGLLELKFSDGTPFADDETRAWLAQHATRSNAASVAPVAEVGEES 211 (301)
T ss_pred hhHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCcChhhcccCCCCCCCCHHHHHHHHhcccccccccccccccCcccc
Confidence 34688999999999999999999988852 111000 0 1
Q ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHHHHhccChHHHHHHHH
Q 028189 52 EDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQ 116 (212)
Q Consensus 52 ~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIEli~~~~~~eAi~~ar 116 (212)
+......+.+..+.+|.+++|+.|+++..+..-.....+...|..-+..+- .|...-|....+
T Consensus 212 ~~~~~~~eA~~l~~~~gl~~Al~~L~~~~~~~~s~R~rf~~rL~~A~l~~~--~g~~~lA~~ll~ 274 (301)
T TIGR03362 212 DWEELREEARALAAEGGLEAALQRLQQRLAQAREPRERFHWRLLLARLLEQ--AGKAELAQQLYA 274 (301)
T ss_pred cHHHHHHHHHHHHHcCCHHHHHHHHHhhcccCCChHHHHHHHHHHHHHHHH--cCCHHHHHHHHH
Confidence 123445678888999999999999998655544444445555555554443 444455554444
No 20
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.80 E-value=56 Score=27.89 Aligned_cols=110 Identities=21% Similarity=0.156 Sum_probs=76.8
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHH-H--cCCHHHHHHHHHHhcHHHhccCccchh
Q 028189 16 NDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFA-L--EGNALKAIELTEELAQDLLEKNKDLHF 92 (212)
Q Consensus 16 ~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I-~--~G~i~~Ai~~~~~~~p~ll~~~~~l~F 92 (212)
-.+...|.=-.+..|-.+.|....+...-.+|. +.|-....+. + .|++++|++..++ +++++ ...+
T Consensus 52 w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~------S~RV~~lkam~lEa~~~~~~A~e~y~~----lL~dd-pt~~ 120 (289)
T KOG3060|consen 52 WTLYEQVFIAALDTGRDDLAQKCINQLRDRFPG------SKRVGKLKAMLLEATGNYKEAIEYYES----LLEDD-PTDT 120 (289)
T ss_pred HHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCC------ChhHHHHHHHHHHHhhchhhHHHHHHH----HhccC-cchh
Confidence 345555555666777777777766665555554 2343333333 2 6999999988764 45654 6778
Q ss_pred hhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHHHHH
Q 028189 93 DLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFM 136 (212)
Q Consensus 93 ~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~ 136 (212)
-.++.+..=+-..|+..+||.-..+.+..|-.|++...++.++.
T Consensus 121 v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY 164 (289)
T KOG3060|consen 121 VIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIY 164 (289)
T ss_pred HHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence 88888888777889999999999999988987777666665543
No 21
>KOG0273 consensus Beta-transducin family (WD-40 repeat) protein [Chromatin structure and dynamics]
Probab=73.23 E-value=1.3 Score=40.25 Aligned_cols=38 Identities=21% Similarity=0.405 Sum_probs=34.0
Q ss_pred cCCCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCC
Q 028189 11 IAINDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPA 48 (212)
Q Consensus 11 ~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~ 48 (212)
++++++++|.||--||...||.=+|=+|..|+++...+
T Consensus 1 msitsdEvN~LV~RYLqE~G~~hsaftf~~Et~is~~n 38 (524)
T KOG0273|consen 1 MSITSDEVNFLVWRYLQESGFSHSAFTFGIETGISQSN 38 (524)
T ss_pred CcccHHHHHHHHHHHHHHcCcceeeEEeeecccccccC
Confidence 46789999999999999999999999999999986543
No 22
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=69.99 E-value=22 Score=32.56 Aligned_cols=77 Identities=21% Similarity=0.107 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhH
Q 028189 17 DIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLS 96 (212)
Q Consensus 17 ~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~ 96 (212)
....-|+.||...||.|.|-.|+++ .++++.=+|.-|+++.|.+.+.+... -..++
T Consensus 296 ~~~~~i~~fL~~~G~~e~AL~~~~D--------------~~~rFeLAl~lg~L~~A~~~a~~~~~----------~~~W~ 351 (443)
T PF04053_consen 296 DQGQSIARFLEKKGYPELALQFVTD--------------PDHRFELALQLGNLDIALEIAKELDD----------PEKWK 351 (443)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHSS---------------HHHHHHHHHHCT-HHHHHHHCCCCST----------HHHHH
T ss_pred hHHHHHHHHHHHCCCHHHHHhhcCC--------------hHHHhHHHHhcCCHHHHHHHHHhcCc----------HHHHH
Confidence 3477789999999999999999643 34788899999999999999865431 12444
Q ss_pred HHHHHHHhccChHHHHHHHHH
Q 028189 97 LHFVELVCSRKCTEALEFAQT 117 (212)
Q Consensus 97 q~fIEli~~~~~~eAi~~ar~ 117 (212)
|=-=+-+++|++.-|-...++
T Consensus 352 ~Lg~~AL~~g~~~lAe~c~~k 372 (443)
T PF04053_consen 352 QLGDEALRQGNIELAEECYQK 372 (443)
T ss_dssp HHHHHHHHTTBHHHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHh
Confidence 444455678888888766664
No 23
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=69.62 E-value=7.5 Score=25.61 Aligned_cols=48 Identities=17% Similarity=0.416 Sum_probs=33.6
Q ss_pred CHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcC
Q 028189 14 NDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEG 67 (212)
Q Consensus 14 ~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G 67 (212)
.+.++-..|.+|...+||.=|...+++..|+..++ .....++.+-..|
T Consensus 7 rQ~~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~S~~------tv~~~L~~Le~kG 54 (65)
T PF01726_consen 7 RQKEVLEFIREYIEENGYPPTVREIAEALGLKSTS------TVQRHLKALERKG 54 (65)
T ss_dssp HHHHHHHHHHHHHHHHSS---HHHHHHHHTSSSHH------HHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCChH------HHHHHHHHHHHCc
Confidence 45678889999999999999999999999987443 3444555555454
No 24
>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=66.07 E-value=64 Score=25.43 Aligned_cols=109 Identities=11% Similarity=-0.072 Sum_probs=74.8
Q ss_pred CHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHH-HHHHHHHHHHcCCHHHHHHHHHHhcHHHhcc-Cccch
Q 028189 14 NDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDME-MRKRILHFALEGNALKAIELTEELAQDLLEK-NKDLH 91 (212)
Q Consensus 14 ~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~-~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~-~~~l~ 91 (212)
+-.....-+++|+.+.|-.+.|-.....+--.... ....+. ...-|+-+|..|||..+...+.+...-+.+. +....
T Consensus 34 sir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~-~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~ 112 (177)
T PF10602_consen 34 SIRMALEDLADHYCKIGDLEEALKAYSRARDYCTS-PGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERR 112 (177)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCC-HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHH
Confidence 33345567899999999877776655543211111 122333 3567889999999999999998876555552 34677
Q ss_pred hhhhHHHHHHHHhccChHHHHHHHHHhcCccC
Q 028189 92 FDLLSLHFVELVCSRKCTEALEFAQTKLTPFG 123 (212)
Q Consensus 92 F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~ 123 (212)
-+|.+-+-+-.+..++..+|-..--...+.|.
T Consensus 113 nrlk~~~gL~~l~~r~f~~AA~~fl~~~~t~~ 144 (177)
T PF10602_consen 113 NRLKVYEGLANLAQRDFKEAAELFLDSLSTFT 144 (177)
T ss_pred HHHHHHHHHHHHHhchHHHHHHHHHccCcCCC
Confidence 78999999999999998888665555555553
No 25
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=57.87 E-value=12 Score=25.06 Aligned_cols=52 Identities=25% Similarity=0.302 Sum_probs=32.1
Q ss_pred HHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHHHHhccChHHHHHHHH
Q 028189 59 RILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQ 116 (212)
Q Consensus 59 ~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIEli~~~~~~eAi~~ar 116 (212)
.-.-....|+.+.|+++++. ...-..+....+.+ -+.+++ -|+.++|+....
T Consensus 31 la~~~~~~~~y~~A~~~~~~--~~~~~~~~~~~~l~-a~~~~~---l~~y~eAi~~l~ 82 (84)
T PF12895_consen 31 LAQCYFQQGKYEEAIELLQK--LKLDPSNPDIHYLL-ARCLLK---LGKYEEAIKALE 82 (84)
T ss_dssp HHHHHHHTTHHHHHHHHHHC--HTHHHCHHHHHHHH-HHHHHH---TT-HHHHHHHHH
T ss_pred HHHHHHHCCCHHHHHHHHHH--hCCCCCCHHHHHHH-HHHHHH---hCCHHHHHHHHh
Confidence 34566778999999999977 23333333444433 455554 477888887655
No 26
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=55.77 E-value=37 Score=22.53 Aligned_cols=41 Identities=20% Similarity=0.271 Sum_probs=26.4
Q ss_pred hhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHH
Q 028189 93 DLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLE 133 (212)
Q Consensus 93 ~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~ 133 (212)
.|..++|=+++..|++.+|-..|-+.=.-.-.+++....++
T Consensus 7 ~l~~~~F~~l~~~g~y~eAA~~AA~sP~giLRt~~Ti~rFk 47 (66)
T PF13838_consen 7 DLYVQQFNELFSQGQYEEAAKVAANSPRGILRTPETINRFK 47 (66)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHSGGGTT-SHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhCccchhcCHHHHHHHH
Confidence 46789999999999999998888752111212444444444
No 27
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=54.75 E-value=26 Score=25.59 Aligned_cols=47 Identities=19% Similarity=0.078 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHH
Q 028189 55 EMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVE 101 (212)
Q Consensus 55 ~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIE 101 (212)
.....+.+.|.+++|+.|...+.+....-.+..+.+.|.+..+++=+
T Consensus 30 ~~l~~i~~~i~~~dW~~A~~~~~~l~~~W~k~~~~~~~~~~h~eid~ 76 (121)
T PF14276_consen 30 EQLEQIEEAIENEDWEKAYKETEELEKEWDKNKKRWSILIEHQEIDN 76 (121)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhhchheeeeecHHHHHH
Confidence 56678999999999999999998877666666777888888887644
No 28
>KOG2910 consensus Uncharacterized conserved protein predicted to be involved in protein sorting [General function prediction only]
Probab=53.21 E-value=77 Score=25.67 Aligned_cols=63 Identities=21% Similarity=0.245 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHhc--HHHhc-----------cCccchhhhhHHHHHHHHhccChHHHHHHHHHhc
Q 028189 55 EMRKRILHFALEGNALKAIELTEELA--QDLLE-----------KNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKL 119 (212)
Q Consensus 55 ~~r~~I~~~I~~G~i~~Ai~~~~~~~--p~ll~-----------~~~~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l 119 (212)
.+|..-|++|+.|+=+.|+-.++... ..|+. .-++++|..-..++++=++.| ++||.-.++.|
T Consensus 41 ~Er~~Ar~lird~rKdrAlllLKkKryQE~Ll~qt~~qL~nlEqmvsdiEft~vqk~V~~gLk~G--N~~lkkl~~~~ 116 (209)
T KOG2910|consen 41 AERQLARDLIRDGRKDRALLLLKKKRYQEELLTQTDNQLINLEQMVSDIEFTQVQKKVMEGLKQG--NEALKKLQQEF 116 (209)
T ss_pred HHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHhc
Confidence 45777889999999999987775432 23333 226899999999999999988 46666666544
No 29
>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=50.25 E-value=1e+02 Score=24.36 Aligned_cols=89 Identities=15% Similarity=0.187 Sum_probs=48.0
Q ss_pred ccCCCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCcc
Q 028189 10 HIAINDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKD 89 (212)
Q Consensus 10 ~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~ 89 (212)
+++++.. +..++.+=|++.|-......|.+-.-++++ .+.. ...+--|. .+|....-.-+
T Consensus 24 ~i~~~~~-L~~lli~lLi~~~~~~~L~qllq~~Vi~DS---k~lA------~~LLs~~~----------~~~~~~Ql~lD 83 (167)
T PF07035_consen 24 NIPVQHE-LYELLIDLLIRNGQFSQLHQLLQYHVIPDS---KPLA------CQLLSLGN----------QYPPAYQLGLD 83 (167)
T ss_pred CCCCCHH-HHHHHHHHHHHcCCHHHHHHHHhhcccCCc---HHHH------HHHHHhHc----------cChHHHHHHHH
Confidence 3444433 777777777777776666666654332211 1111 11111111 23444443344
Q ss_pred chhhhh--HHHHHH-HHhccChHHHHHHHHHh
Q 028189 90 LHFDLL--SLHFVE-LVCSRKCTEALEFAQTK 118 (212)
Q Consensus 90 l~F~L~--~q~fIE-li~~~~~~eAi~~ar~~ 118 (212)
+...|. .-..+| |+..|++-+|+.|+|+.
T Consensus 84 MLkRL~~~~~~iievLL~~g~vl~ALr~ar~~ 115 (167)
T PF07035_consen 84 MLKRLGTAYEEIIEVLLSKGQVLEALRYARQY 115 (167)
T ss_pred HHHHhhhhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence 555554 334556 67899999999999973
No 30
>KOG2437 consensus Muskelin [Signal transduction mechanisms]
Probab=50.14 E-value=61 Score=30.39 Aligned_cols=62 Identities=11% Similarity=0.090 Sum_probs=45.5
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhc
Q 028189 18 IHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLE 85 (212)
Q Consensus 18 l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~ 85 (212)
--|..+.||-.+||.|..+.+.+.+.+..+. +....|++++....-+..........|.|+.
T Consensus 168 a~r~cL~~fr~~G~~DI~e~l~k~~~~~Ieh------~~l~~i~d~l~~~gd~~~e~i~~~~~~~lf~ 229 (723)
T KOG2437|consen 168 AIRLCLKHFRQHGYTDIFESLQKKTKIAIEH------PMLTDIHDKLVLKGDACEELIEKAVNDGLFN 229 (723)
T ss_pred HHHHHHHHHHHcCchHHHHHHHHhhcccCCC------hHHHHHHHHHHHcccHHHHHHHhhhccHHHh
Confidence 4567889999999999999999999877665 5567888887765555444555555555544
No 31
>PTZ00196 60S ribosomal protein L36; Provisional
Probab=49.97 E-value=35 Score=24.51 Aligned_cols=44 Identities=18% Similarity=0.330 Sum_probs=32.0
Q ss_pred hhhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHHHH
Q 028189 92 FDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDF 135 (212)
Q Consensus 92 F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~ 135 (212)
|.=+-.+.+|||+.|.--.|+.|++..+..+.......++++.+
T Consensus 48 faPYErr~mELLkv~kdKrAlKfaKkRlGth~RaK~Kreel~~v 91 (98)
T PTZ00196 48 FSPYERRMIELLKVGKDKRALKYAKKRLGTHKRAKAKRDEIQEA 91 (98)
T ss_pred ccHHHHHHHHHHHhcchHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 55567789999999988999999999987765222333444443
No 32
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=48.43 E-value=2.6e+02 Score=27.01 Aligned_cols=125 Identities=18% Similarity=0.213 Sum_probs=79.2
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHHH
Q 028189 55 EMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLED 134 (212)
Q Consensus 55 ~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~ 134 (212)
....+++.++..|..+.|++.+..+-|.+.++ +.|...+-.+.. +-+.+++|+...+..+.+...|-.+-..++.
T Consensus 187 ~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dk---la~~e~ka~l~~--kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~ 261 (700)
T KOG1156|consen 187 LLLYQNQILIEAGSLQKALEHLLDNEKQIVDK---LAFEETKADLLM--KLGQLEEAVKVYRRLLERNPDNLDYYEGLEK 261 (700)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHhhhhHHHHH---HHHhhhHHHHHH--HHhhHHhHHHHHHHHHhhCchhHHHHHHHHH
Confidence 34557788899999999999999998887764 334444444332 3467899999999888887755555566666
Q ss_pred HHh--------H-hccC----CCC--CCc----hhhhCCHHHHHHHHHHHHHHHhc-CCC-chHHHHHHHH
Q 028189 135 FMA--------L-LAYE----EPE--KSP----MFHLLSLEYRQHVADNLNRAILE-RPR-YAAMERLIQQ 184 (212)
Q Consensus 135 ~~~--------l-la~~----~~~--~s~----~~~l~~~~~r~~la~~vn~~il~-~p~-~s~Le~lv~~ 184 (212)
+++ + .+|. .+. .+| ..-+-..+.+..+..-++..+-+ .|+ -+.|+.|.+.
T Consensus 262 ~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~ 332 (700)
T KOG1156|consen 262 ALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYKD 332 (700)
T ss_pred HHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHhc
Confidence 664 1 1221 111 233 22333456678888888877766 342 3445555554
No 33
>PF07729 FCD: FCD domain; InterPro: IPR011711 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector binding or oligomerisation domain at the C terminus. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family (IPR000524 from INTERPRO), and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR (IPR008920 from INTERPRO), HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA []. This entry represents the C-terminal ligand binding domain of many members of the GntR family. This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in P45427 from SWISSPROT and P31460 from SWISSPROT that are regulators of sugar biosynthesis operons.; PDB: 3SXK_A 3SXY_A 3SXM_B 3SXZ_A 3FMS_A 2DI3_B 2HS5_A 3IHU_B 3C7J_A.
Probab=48.32 E-value=41 Score=23.42 Aligned_cols=29 Identities=17% Similarity=0.201 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 028189 52 EDMEMRKRILHFALEGNALKAIELTEELA 80 (212)
Q Consensus 52 ~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~ 80 (212)
........|.++|.+||.+.|.+++..|.
T Consensus 95 ~~~~~h~~i~~ai~~~d~~~a~~~~~~h~ 123 (125)
T PF07729_consen 95 RSLEEHREIIDAIRAGDPEAAREALRQHI 123 (125)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence 44566777888888888888887777664
No 34
>PF06794 UPF0270: Uncharacterised protein family (UPF0270); InterPro: IPR010648 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 1Y0N_A.
Probab=45.30 E-value=66 Score=21.60 Aligned_cols=44 Identities=11% Similarity=0.194 Sum_probs=24.7
Q ss_pred CCCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCC
Q 028189 12 AINDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGN 68 (212)
Q Consensus 12 ~~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~ 68 (212)
..+.+.|++||-+|..|+|..- |.. ....-....+++..+.+|+
T Consensus 7 ~L~~eTL~nLIeefv~ReGTdy---------G~~----E~sL~~kv~qv~~qL~~G~ 50 (70)
T PF06794_consen 7 QLPPETLNNLIEEFVLREGTDY---------GEQ----ELSLEEKVEQVKQQLKSGE 50 (70)
T ss_dssp GS-HHHHHHHHHHHHH-------------------------HHHHHHHHHHHHHTTS
T ss_pred HCCHHHHHHHHHHHHHccCccc---------Ccc----cccHHHHHHHHHHHHHcCC
Confidence 4678899999999999999542 211 1122245678888888886
No 35
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=44.72 E-value=2.4e+02 Score=25.45 Aligned_cols=97 Identities=22% Similarity=0.236 Sum_probs=65.3
Q ss_pred cCCCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccc
Q 028189 11 IAINDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDL 90 (212)
Q Consensus 11 ~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l 90 (212)
.+.-.+-|..-++.|+...|-.+.|..+.++.....|. .. ..-.+-.+..++-.+|+.++++.- ..++ -
T Consensus 164 ~t~~~NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pe--v~----~~LA~v~l~~~~E~~AI~ll~~aL----~~~p-~ 232 (395)
T PF09295_consen 164 PTIVNNYLVDTLLKYLSLTQRYDEAIELLEKLRERDPE--VA----VLLARVYLLMNEEVEAIRLLNEAL----KENP-Q 232 (395)
T ss_pred CCCcchHHHHHHHHHHhhcccHHHHHHHHHHHHhcCCc--HH----HHHHHHHHhcCcHHHHHHHHHHHH----HhCC-C
Confidence 44556677777788888888888888887776654443 11 123445556788889999998753 2222 1
Q ss_pred hhhhhHHHHHHHHhccChHHHHHHHHHh
Q 028189 91 HFDLLSLHFVELVCSRKCTEALEFAQTK 118 (212)
Q Consensus 91 ~F~L~~q~fIEli~~~~~~eAi~~ar~~ 118 (212)
...|...+-==++.+++.+.|+..|++-
T Consensus 233 d~~LL~~Qa~fLl~k~~~~lAL~iAk~a 260 (395)
T PF09295_consen 233 DSELLNLQAEFLLSKKKYELALEIAKKA 260 (395)
T ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 2555555555567888999999999963
No 36
>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=44.18 E-value=41 Score=19.09 Aligned_cols=18 Identities=17% Similarity=0.200 Sum_probs=12.2
Q ss_pred HHHHHHH--cCCHHHHHHHH
Q 028189 59 RILHFAL--EGNALKAIELT 76 (212)
Q Consensus 59 ~I~~~I~--~G~i~~Ai~~~ 76 (212)
..+.++. .|+++.|++|+
T Consensus 18 ~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 18 QAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHTTTSHHHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHhC
Confidence 3444444 57899999886
No 37
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=44.14 E-value=28 Score=30.20 Aligned_cols=42 Identities=21% Similarity=0.223 Sum_probs=29.5
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHHHHhc
Q 028189 56 MRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCS 105 (212)
Q Consensus 56 ~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIEli~~ 105 (212)
-.+.|++++..|||+.|+.++++-. .+=+.=-++-||.-|+.
T Consensus 260 y~~aI~~AVk~gDi~KAL~LldEAe--------~LG~~~Ar~tFik~V~~ 301 (303)
T PRK10564 260 FNQAIKQAVKKGDVDKALKLLDEAE--------RLGSTSARSTFISSVKG 301 (303)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHH--------HhCCchHHHHHHHHhhc
Confidence 4579999999999999999998752 22233345566665543
No 38
>PRK00794 flbT flagellar biosynthesis repressor FlbT; Reviewed
Probab=43.22 E-value=1.3e+02 Score=22.70 Aligned_cols=31 Identities=16% Similarity=0.062 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHhcHH
Q 028189 52 EDMEMRKRILHFALEGNALKAIELTEELAQD 82 (212)
Q Consensus 52 ~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ 82 (212)
+.......|.++|..|++.+|++.+....|.
T Consensus 92 ~~~~~l~~i~~~V~~g~~y~ALk~lR~L~~~ 122 (132)
T PRK00794 92 DILAGLKAIDELVEAGRYYEALKALRGLYPI 122 (132)
T ss_pred HHHHHHHHHHHHHHCCcHHHHHHHHHHhhHH
Confidence 4446677889999999999999999988764
No 39
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD. This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence.
Probab=42.80 E-value=85 Score=21.95 Aligned_cols=56 Identities=13% Similarity=0.202 Sum_probs=44.7
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHH
Q 028189 18 IHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELT 76 (212)
Q Consensus 18 l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~ 76 (212)
..+.+.+.|+..+-.|.+..|..+.-.+ ...+.+..|..|...+..|....+|+-.
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~l~t~---~e~~~Ls~R~~I~~ll~~G~S~~eIA~~ 59 (88)
T TIGR02531 4 LLDELFDAILTLKNREECYRFFDDIATI---NEIQSLAQRLQVAKMLKQGKTYSDIEAE 59 (88)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHhCCH---HHHHhhhHHHHHHHHHHCCCCHHHHHHH
Confidence 4567889999999999999999876532 2356789999999999999877777554
No 40
>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=40.74 E-value=54 Score=23.55 Aligned_cols=44 Identities=25% Similarity=0.321 Sum_probs=31.6
Q ss_pred hhhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHHHH
Q 028189 92 FDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDF 135 (212)
Q Consensus 92 F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~ 135 (212)
|.=+-.+-+|||+.+.--.|+.|+++.+..+.......++|..+
T Consensus 48 faPYEkr~mELlkv~kdKrAlKf~KKRlGth~RAKrKrEel~~v 91 (98)
T PF01158_consen 48 FAPYEKRAMELLKVSKDKRALKFAKKRLGTHIRAKRKREELSNV 91 (98)
T ss_dssp HCHHHHHHHHHHHHCCHHHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred CChHHHHHHHHHhcchhHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence 55567889999999988999999999887664222333444433
No 41
>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=38.64 E-value=40 Score=17.42 Aligned_cols=17 Identities=18% Similarity=0.155 Sum_probs=12.3
Q ss_pred HHHHHcCCHHHHHHHHH
Q 028189 61 LHFALEGNALKAIELTE 77 (212)
Q Consensus 61 ~~~I~~G~i~~Ai~~~~ 77 (212)
+-+...|++++|..++.
T Consensus 9 ~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 9 RALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHcCCHHHHHHHHh
Confidence 34566788888887764
No 42
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=38.18 E-value=98 Score=19.13 Aligned_cols=51 Identities=24% Similarity=0.240 Sum_probs=31.0
Q ss_pred HHHHHcCCHHHHHHHHHHhcHHHhccCcc---chhhhhHHHHHHHHhccChHHHHHHHHHhc
Q 028189 61 LHFALEGNALKAIELTEELAQDLLEKNKD---LHFDLLSLHFVELVCSRKCTEALEFAQTKL 119 (212)
Q Consensus 61 ~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~---l~F~L~~q~fIEli~~~~~~eAi~~ar~~l 119 (212)
+..+..|+++.|++.+++. ++.++. ..+.|=. =+...|+..+|+.+.+.-+
T Consensus 5 ~~~~~~g~~~~A~~~~~~~----l~~~P~~~~a~~~lg~----~~~~~g~~~~A~~~~~~a~ 58 (65)
T PF13432_consen 5 RALYQQGDYDEAIAAFEQA----LKQDPDNPEAWYLLGR----ILYQQGRYDEALAYYERAL 58 (65)
T ss_dssp HHHHHCTHHHHHHHHHHHH----HCCSTTHHHHHHHHHH----HHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHcCCHHHHHHHHHHH----HHHCCCCHHHHHHHHH----HHHHcCCHHHHHHHHHHHH
Confidence 4567889999999888653 444432 2222211 1225788999988887644
No 43
>COG5051 RPL36A Ribosomal protein L36E [Translation, ribosomal structure and biogenesis]
Probab=38.00 E-value=1e+02 Score=21.66 Aligned_cols=43 Identities=16% Similarity=0.304 Sum_probs=33.1
Q ss_pred hhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHHHHHhHh
Q 028189 94 LLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALL 139 (212)
Q Consensus 94 L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~ll 139 (212)
=+-.+.|+||++.+-..|-..+++.|..+. .-...++++-..|
T Consensus 52 PyErr~i~Lirns~~krArKlakKRLGs~k---RAkaKvEel~~~i 94 (97)
T COG5051 52 PYERRVIELIRNSQDKRARKLAKKRLGSLK---RAKAKVEELTSVI 94 (97)
T ss_pred HHHHHHHHHHHhcccHHHHHHHHHHhhhHH---HHHHHHHHHHHHH
Confidence 355788999999999999999999998874 4455666665554
No 44
>KOG0292 consensus Vesicle coat complex COPI, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=37.25 E-value=9.1 Score=37.85 Aligned_cols=48 Identities=23% Similarity=0.289 Sum_probs=36.9
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHh
Q 028189 18 IHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEEL 79 (212)
Q Consensus 18 l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~ 79 (212)
+-+-|..||...||.|.|--|.++.. .++.-++..|+++.|++.+...
T Consensus 622 vGqaiIaYLqKkgypeiAL~FVkD~~--------------tRF~LaLe~gnle~ale~akkl 669 (1202)
T KOG0292|consen 622 VGQAIIAYLQKKGYPEIALHFVKDER--------------TRFELALECGNLEVALEAAKKL 669 (1202)
T ss_pred ccHHHHHHHHhcCCcceeeeeecCcc--------------hheeeehhcCCHHHHHHHHHhc
Confidence 44678899999999999998887543 4555677788888888877654
No 45
>PF09312 SurA_N: SurA N-terminal domain; InterPro: IPR015391 The correct folding of outer membrane proteins in Gram negative bacteria is facilitated by the survival protein SurA []. This entry represents the domain found at the N terminus of the chaperone SurA. It is a helical domain of unknown function. The C terminus of the SurA protein folds back and forms part of this domain also but is not included in the current alignment. ; PDB: 3RGC_B 2PV3_B 1M5Y_A.
Probab=37.03 E-value=70 Score=23.29 Aligned_cols=49 Identities=18% Similarity=0.270 Sum_probs=27.5
Q ss_pred hccCCCHHHHHHHHHHHHHhhcHHHHHHHHHHh---hCCCCCCCCHHHHHHHHHHHHHHHc
Q 028189 9 EHIAINDNDIHNIVLSYLVHNCYKETVDSFISC---TGMKQPANCLEDMEMRKRILHFALE 66 (212)
Q Consensus 9 ~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~e---s~~~~~~~~~~~~~~r~~I~~~I~~ 66 (212)
.++.++..++++.|.+..-++|. |...|.+. .|+.. -.-|..|++.|.-
T Consensus 63 ~gI~vsd~evd~~i~~ia~~n~l--s~~ql~~~L~~~G~s~-------~~~r~~ir~~i~~ 114 (118)
T PF09312_consen 63 LGIKVSDEEVDEAIANIAKQNNL--SVEQLRQQLEQQGISY-------EEYREQIRKQILI 114 (118)
T ss_dssp CT----HHHHHHHHHHHHHHTT----HHHHHHHCHHCT--H-------HHHHHHHHHHHHH
T ss_pred cCCCCCHHHHHHHHHHHHHHcCC--CHHHHHHHHHHcCCCH-------HHHHHHHHHHHHH
Confidence 56788888888888888888887 45566554 34422 1456777766653
No 46
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=35.70 E-value=1.4e+02 Score=24.76 Aligned_cols=68 Identities=10% Similarity=0.060 Sum_probs=50.5
Q ss_pred CCHHHHH-HHHHHHHHhhcHHHHHHHHHHhhCCCCC--CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 028189 13 INDNDIH-NIVLSYLVHNCYKETVDSFISCTGMKQP--ANCLEDMEMRKRILHFALEGNALKAIELTEELA 80 (212)
Q Consensus 13 ~~~~~l~-~lI~~yL~~~Gy~eta~~f~~es~~~~~--~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~ 80 (212)
++.+.++ |+....++..|-.+.|-.+.....=+.- +.++...-..+++.+.|++|..++|++.++..-
T Consensus 60 ~d~~~~~eR~~Ir~~I~~G~Ie~Aie~in~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~L 130 (228)
T KOG2659|consen 60 IDLDSMDERLQIRRAIEEGQIEEAIEKVNQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKL 130 (228)
T ss_pred CchhhHhHHHHHHHHHHhccHHHHHHHHHHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHc
Confidence 3444555 8888999999999999998876542111 112345566778999999999999999998653
No 47
>COG5443 FlbT Flagellar biosynthesis regulator FlbT [Cell motility and secretion]
Probab=34.50 E-value=68 Score=24.33 Aligned_cols=58 Identities=17% Similarity=0.142 Sum_probs=43.5
Q ss_pred HHHhhcHHHHHHHHHHhhCCCCC-CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHH
Q 028189 25 YLVHNCYKETVDSFISCTGMKQP-ANCLEDMEMRKRILHFALEGNALKAIELTEELAQD 82 (212)
Q Consensus 25 yL~~~Gy~eta~~f~~es~~~~~-~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ 82 (212)
|+--.|-.++...|.+..+.-.. -.+.+.+...+.|-.++.+|++-+|+..+...||.
T Consensus 65 linp~gaeq~~~~F~~~l~~l~~~f~~~eil~~lk~Id~lV~~~~~feALkaiR~lyp~ 123 (148)
T COG5443 65 LINPAGAEQATEMFRKSLNMLLACFKDAEILAALKRIDGLVMAGRAFEALKAIRGLYPI 123 (148)
T ss_pred hcCHhhHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccHHHHHHHHHhhhchh
Confidence 44556777777788776542110 02457788899999999999999999999999985
No 48
>KOG4594 consensus Sequence-specific single-stranded-DNA-binding protein [Replication, recombination and repair; Transcription; General function prediction only]
Probab=34.46 E-value=49 Score=28.54 Aligned_cols=28 Identities=21% Similarity=0.374 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHhhcHHHHHHHHHHhh
Q 028189 15 DNDIHNIVLSYLVHNCYKETVDSFISCT 42 (212)
Q Consensus 15 ~~~l~~lI~~yL~~~Gy~eta~~f~~es 42 (212)
++.|.--|-+||+|-|-.++|+.|..|.
T Consensus 17 rekLa~YvYEYLlhvgaqksaqtflsei 44 (354)
T KOG4594|consen 17 REKLALYVYEYLLHVGAQKSAQTFLSEI 44 (354)
T ss_pred HHHHHHHHHHHHHHhhhhhhhhhhHHHH
Confidence 6778888999999999999999998764
No 49
>PF03477 ATP-cone: ATP cone domain; InterPro: IPR005144 The ATP-cone is an evolutionarily mobile, ATP-binding regulatory domain which is found in a variety of proteins including ribonucleotide reductases, phosphoglycerate kinases and transcriptional regulators []. In ribonucleotide reductase protein R1 (P28903 from SWISSPROT) from Escherichia coli this domain is located at the N terminus, and is composed mostly of helices []. It forms part of the allosteric effector region and contains the general allosteric activity site in a cleft located at the tip of the N-terminal region []. This site binds either ATP (activating) or dATP (inhibitory), with the base bound in a hydrophobic pocket and the phosphates bound to basic residues. Substrate binding to this site is thought to affect enzyme activity by altering the relative positions of the two subunits of ribonucleotide reductase.; PDB: 2XO4_A 1RLR_A 7R1R_B 5R1R_A 2XO5_B 2XAW_A 2R1R_C 2XAY_B 2X0X_C 2XAZ_A ....
Probab=34.03 E-value=42 Score=22.90 Aligned_cols=28 Identities=21% Similarity=0.475 Sum_probs=25.1
Q ss_pred CCCHHHHHHHHHHHHHhhcHHHHHHHHH
Q 028189 12 AINDNDIHNIVLSYLVHNCYKETVDSFI 39 (212)
Q Consensus 12 ~~~~~~l~~lI~~yL~~~Gy~eta~~f~ 39 (212)
.++..++..+|.+.|...|+.+.|++..
T Consensus 55 ~is~~eI~~~v~~~L~~~~~~~~a~~yi 82 (90)
T PF03477_consen 55 EISTEEIQDIVENALMEEGFYDVARAYI 82 (90)
T ss_dssp TEEHHHHHHHHHHHHHTSTTHHHHHHHH
T ss_pred CeeHHHHHHHHHHHHHcCChHHHHHHHH
Confidence 5788899999999999999999998764
No 50
>KOG0640 consensus mRNA cleavage stimulating factor complex; subunit 1 [RNA processing and modification]
Probab=33.69 E-value=72 Score=28.06 Aligned_cols=32 Identities=9% Similarity=0.131 Sum_probs=28.3
Q ss_pred CHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCC
Q 028189 14 NDNDIHNIVLSYLVHNCYKETVDSFISCTGMK 45 (212)
Q Consensus 14 ~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~ 45 (212)
+++.+-|||...|.+.||...|.+++.....+
T Consensus 10 dre~lyrLiisqL~ydg~~qiA~~lan~~~~~ 41 (430)
T KOG0640|consen 10 DREILYRLIISQLRYDGLSQIASALANATMTP 41 (430)
T ss_pred hHHHHHHHHHHHHhhccHHHHHHHHHHhhcCc
Confidence 67889999999999999999999999866544
No 51
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=33.20 E-value=1.3e+02 Score=19.26 Aligned_cols=33 Identities=24% Similarity=0.227 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHh
Q 028189 52 EDMEMRKRILHFALEGNALKAIELTEELAQDLL 84 (212)
Q Consensus 52 ~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll 84 (212)
+.....+-|...+..|+.++|.+.+++....+-
T Consensus 22 D~~NhLqvI~gllqlg~~~~a~eYi~~~~~~~~ 54 (62)
T PF14689_consen 22 DFLNHLQVIYGLLQLGKYEEAKEYIKELSKDLQ 54 (62)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 444566777888889999999999988765443
No 52
>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=32.60 E-value=1.6e+02 Score=23.69 Aligned_cols=64 Identities=16% Similarity=0.119 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCc------cchhhhhHHHHHHHHhccChHHHHHHHHHhc
Q 028189 55 EMRKRILHFALEGNALKAIELTEELAQDLLEKNK------DLHFDLLSLHFVELVCSRKCTEALEFAQTKL 119 (212)
Q Consensus 55 ~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~------~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l 119 (212)
..|.+|.+.+- -+++.-++++......+.+..+ .+...+..-.|.+++++|+..+|..++.+.+
T Consensus 135 ~lr~~ie~~l~-~~~~~~~~~~~~~R~~~k~~~~~~~~r~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 204 (205)
T TIGR01470 135 LLRERIETLLP-PSLGDLATLAATWRDAVKKRLPNGAARRRFWEKFFDGAFAERVLAGREEQAERVLATRL 204 (205)
T ss_pred HHHHHHHHhcc-hhHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHhccHHHHHHHcCCHHHHHHHHHHhh
Confidence 44666666653 3567777777777776655422 2333444456888899999999888887654
No 53
>PF10827 DUF2552: Protein of unknown function (DUF2552) ; InterPro: IPR020157 This entry contains proteins with no known function.
Probab=32.36 E-value=30 Score=23.29 Aligned_cols=16 Identities=19% Similarity=0.034 Sum_probs=13.6
Q ss_pred CHHHHHHHHHHhcHHH
Q 028189 68 NALKAIELTEELAQDL 83 (212)
Q Consensus 68 ~i~~Ai~~~~~~~p~l 83 (212)
-++.|++|+.++-|.+
T Consensus 60 tld~Ai~Wi~e~M~~i 75 (79)
T PF10827_consen 60 TLDLAIAWIGEHMPHI 75 (79)
T ss_pred cHHHHHHHHHhcccch
Confidence 4789999999998765
No 54
>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=32.10 E-value=78 Score=17.70 Aligned_cols=12 Identities=25% Similarity=0.263 Sum_probs=9.9
Q ss_pred cCCHHHHHHHHH
Q 028189 66 EGNALKAIELTE 77 (212)
Q Consensus 66 ~G~i~~Ai~~~~ 77 (212)
.|+++.|+.|+-
T Consensus 26 ~~d~~~A~~~L~ 37 (38)
T cd00194 26 NNNVERAVEWLL 37 (38)
T ss_pred CCCHHHHHHHHh
Confidence 689999998873
No 55
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=31.94 E-value=3.6e+02 Score=23.81 Aligned_cols=76 Identities=13% Similarity=0.069 Sum_probs=49.4
Q ss_pred HHHHHcCCHHHHHHHHHHhcHHHhccC-cc-------chhhhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHH
Q 028189 61 LHFALEGNALKAIELTEELAQDLLEKN-KD-------LHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKL 132 (212)
Q Consensus 61 ~~~I~~G~i~~Ai~~~~~~~p~ll~~~-~~-------l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l 132 (212)
.-.+-.|++..|+-.+++..+...... +- +.=.-....++|+.++++..+-+.++|+.+..-..--..+.++
T Consensus 216 I~~~S~GdLR~Ait~Lqsls~~gk~It~~~~~e~~~GvVp~~~l~~lle~a~S~d~~~~v~~~Rei~~sg~~~~~lmsQL 295 (346)
T KOG0989|consen 216 IAKISDGDLRRAITTLQSLSLLGKRITTSLVNEELAGVVPDEKLLDLLELALSADTPNTVKRVREIMRSGYSPLQLMSQL 295 (346)
T ss_pred HHHHcCCcHHHHHHHHHHhhccCcccchHHHHHHHhccCCHHHHHHHHHHHHccChHHHHHHHHHHHHhccCHHHHHHHH
Confidence 345678999999999999987322222 22 2223345688899999999999999998665432111344444
Q ss_pred HHHH
Q 028189 133 EDFM 136 (212)
Q Consensus 133 ~~~~ 136 (212)
.+++
T Consensus 296 a~vi 299 (346)
T KOG0989|consen 296 AEVI 299 (346)
T ss_pred HHHH
Confidence 4333
No 56
>PF14691 Fer4_20: Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; PDB: 2VDC_G 1H7X_C 1H7W_A 1GT8_A 1GTE_B 1GTH_B.
Probab=31.43 E-value=65 Score=23.51 Aligned_cols=30 Identities=20% Similarity=0.377 Sum_probs=21.5
Q ss_pred hhhhHHHHHHHHhccChHHHHHHHHHhcCcc
Q 028189 92 FDLLSLHFVELVCSRKCTEALEFAQTKLTPF 122 (212)
Q Consensus 92 F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~ 122 (212)
..+....||.+++.|+..+|++..++. .||
T Consensus 38 ~~~dip~~i~~i~~g~~~~A~~~i~~~-np~ 67 (111)
T PF14691_consen 38 AHIDIPEYIRLIREGNFKEAYELIRED-NPF 67 (111)
T ss_dssp T---HHHHHHHHHCT-HHHHHHHHHHH--TT
T ss_pred CCCcHHHHHHHHHCCCHHHHHHHHHHh-CCC
Confidence 466778999999999999999999863 345
No 57
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.46 E-value=4.4e+02 Score=24.31 Aligned_cols=103 Identities=12% Similarity=0.214 Sum_probs=56.7
Q ss_pred hccCCCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHH---------HHHHHHHHHHHHHcCCHHHHHHHHHHh
Q 028189 9 EHIAINDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLE---------DMEMRKRILHFALEGNALKAIELTEEL 79 (212)
Q Consensus 9 ~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~---------~~~~r~~I~~~I~~G~i~~Ai~~~~~~ 79 (212)
+++.++.+.+..++. ....++..+...+.+-..........+ .......+.++|+.||.+.|+.|+.+.
T Consensus 192 egi~i~~eal~~Ia~--~s~GdlR~aln~Le~l~~~~~~~It~e~V~~~l~~~~~~~i~~li~si~~~d~~~Al~~l~~l 269 (472)
T PRK14962 192 EGIEIDREALSFIAK--RASGGLRDALTMLEQVWKFSEGKITLETVHEALGLIPIEVVRDYINAIFNGDVKRVFTVLDDV 269 (472)
T ss_pred cCCCCCHHHHHHHHH--HhCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 356677666655443 123455555555554221100001111 124556788999999999999999864
Q ss_pred cHHHhccCccchhhhhHH--HHHHHHhccChHHHHHHHHH
Q 028189 80 AQDLLEKNKDLHFDLLSL--HFVELVCSRKCTEALEFAQT 117 (212)
Q Consensus 80 ~p~ll~~~~~l~F~L~~q--~fIEli~~~~~~eAi~~ar~ 117 (212)
+..+.+..+-+++. ...|.+...+...|+.++..
T Consensus 270 ----l~~Gedp~~i~r~l~~~~~edi~~a~~~~~~~~~~~ 305 (472)
T PRK14962 270 ----YYSGKDYEVLIQQAIEDLVEDLERERANDIIQVSRQ 305 (472)
T ss_pred ----HHcCCCHHHHHHHHHHHHHHHccCCCchHHHHHHHH
Confidence 45555555555443 23344444555556655554
No 58
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=29.84 E-value=1.4e+02 Score=29.22 Aligned_cols=58 Identities=12% Similarity=0.028 Sum_probs=41.7
Q ss_pred HHHHHHHcCCHHHHHHHHHHhcHHHhccC--ccchhhhhHHHHHHH----HhccChHHHHHHHHH
Q 028189 59 RILHFALEGNALKAIELTEELAQDLLEKN--KDLHFDLLSLHFVEL----VCSRKCTEALEFAQT 117 (212)
Q Consensus 59 ~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~--~~l~F~L~~q~fIEl----i~~~~~~eAi~~ar~ 117 (212)
-+.-+|..|+|++|.+.+.++ |+++..- +.-.|.--.-+|+|. ++.|...||+....+
T Consensus 779 iVqlHve~~~W~eAFalAe~h-Pe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQ 842 (1081)
T KOG1538|consen 779 LVQLHVETQRWDEAFALAEKH-PEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQ 842 (1081)
T ss_pred HhhheeecccchHhHhhhhhC-ccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHH
Confidence 345678899999999998776 7777652 245566666788884 466777888776664
No 59
>PF14973 TINF2_N: TERF1-interacting nuclear factor 2 N-terminus
Probab=29.57 E-value=2.2e+02 Score=21.85 Aligned_cols=79 Identities=16% Similarity=0.258 Sum_probs=45.8
Q ss_pred HHHHHHHcCCHHHHHHHHHHhcHHHhccC-----ccchhhhhHHHHHHHHhc--cChHHHHHHHHHhcC-ccCCchhHHH
Q 028189 59 RILHFALEGNALKAIELTEELAQDLLEKN-----KDLHFDLLSLHFVELVCS--RKCTEALEFAQTKLT-PFGKVQKYVE 130 (212)
Q Consensus 59 ~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~-----~~l~F~L~~q~fIEli~~--~~~~eAi~~ar~~l~-~~~~~~~~~~ 130 (212)
-|.++++++.-.. +..++.|+|.+ ..+ ++..-.=-...|..++++ .+..+--.|-++.|. .|+ +.+..
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 4567777554333 99999999998 221 222223334467777654 455555666665554 344 55666
Q ss_pred HHHHHHhHhcc
Q 028189 131 KLEDFMALLAY 141 (212)
Q Consensus 131 ~l~~~~~lla~ 141 (212)
.+++++.-..+
T Consensus 122 ~Le~L~~efL~ 132 (145)
T PF14973_consen 122 ALEKLLWEFLC 132 (145)
T ss_pred HHHHHHHHHHH
Confidence 66666554443
No 60
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=28.84 E-value=3.6e+02 Score=22.83 Aligned_cols=66 Identities=17% Similarity=0.131 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHHHH----hccChHHHHHHHHHhcCccCC
Q 028189 53 DMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELV----CSRKCTEALEFAQTKLTPFGK 124 (212)
Q Consensus 53 ~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIEli----~~~~~~eAi~~ar~~l~~~~~ 124 (212)
.-..-.+....+..|+++.|++..+.. ...++.=.+. .|--|+++ ++++..+|+.++-..+.-|..
T Consensus 34 ~~~LY~~g~~~L~~gn~~~A~~~fe~l----~~~~p~s~~~--~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~ 103 (254)
T COG4105 34 ASELYNEGLTELQKGNYEEAIKYFEAL----DSRHPFSPYS--EQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPT 103 (254)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHH----HHcCCCCccc--HHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCC
Confidence 335567889999999999999888754 3444433333 66666666 678999999888876665543
No 61
>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=27.88 E-value=56 Score=28.05 Aligned_cols=51 Identities=14% Similarity=-0.080 Sum_probs=34.7
Q ss_pred hcHHHHHHHHHHhhCCCC---CCCC-HHHHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 028189 29 NCYKETVDSFISCTGMKQ---PANC-LEDMEMRKRILHFALEGNALKAIELTEELA 80 (212)
Q Consensus 29 ~Gy~eta~~f~~es~~~~---~~~~-~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~ 80 (212)
.|-.+..+.++++.|+.. +... ...+ .=..||++|..|+++.|-+++-..|
T Consensus 115 ~G~~~~L~~~~~~~g~~v~~~~~~~~~~~I-SST~IR~~l~~G~i~~A~~lLGr~y 169 (288)
T TIGR00083 115 QGDFLLLQLFGNTTIFCVIVKQLFCQDIRI-SSSAIRQALKNGDLELANKLLGRPY 169 (288)
T ss_pred CCCHHHHHHhccccCcEEEEeccccCCCeE-CHHHHHHHHHcCCHHHHHHhhhhhh
Confidence 477788888888777421 1100 0111 1258999999999999999998765
No 62
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=27.52 E-value=1.6e+02 Score=18.42 Aligned_cols=53 Identities=25% Similarity=0.199 Sum_probs=35.1
Q ss_pred HHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHHHHhccChHHHHHHHHHhcC
Q 028189 63 FALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLT 120 (212)
Q Consensus 63 ~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~ 120 (212)
++..++++.|++.++.. +..++. ...++...=.=+...|+..+|+....+.+.
T Consensus 5 ~~~~~~~~~A~~~~~~~----l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~ 57 (73)
T PF13371_consen 5 YLQQEDYEEALEVLERA----LELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE 57 (73)
T ss_pred HHhCCCHHHHHHHHHHH----HHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 57789999999998754 333333 333333344444567889999988887654
No 63
>PF12931 Sec16_C: Sec23-binding domain of Sec16; PDB: 3MZK_C.
Probab=27.11 E-value=65 Score=27.42 Aligned_cols=21 Identities=33% Similarity=0.445 Sum_probs=14.8
Q ss_pred HHHHHHHcCCHHHHHHHHHHh
Q 028189 59 RILHFALEGNALKAIELTEEL 79 (212)
Q Consensus 59 ~I~~~I~~G~i~~Ai~~~~~~ 79 (212)
+|+++++.|+.++|+++|-+.
T Consensus 1 ~I~~~Ll~G~~~~Av~~al~~ 21 (284)
T PF12931_consen 1 KIQQLLLVGNREEAVELALDN 21 (284)
T ss_dssp HHHHHHHTT-HHHHHHHHHHT
T ss_pred CHHHHHhCCCHHHHHHHHHHC
Confidence 477788888888888777554
No 64
>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=26.98 E-value=1.8e+02 Score=18.64 Aligned_cols=55 Identities=22% Similarity=0.114 Sum_probs=29.1
Q ss_pred HHcCCHHHHHHHHHHhcHHHhcc-CccchhhhhHHHHHH--HHhccChHHHHHHHHHhc
Q 028189 64 ALEGNALKAIELTEELAQDLLEK-NKDLHFDLLSLHFVE--LVCSRKCTEALEFAQTKL 119 (212)
Q Consensus 64 I~~G~i~~Ai~~~~~~~p~ll~~-~~~l~F~L~~q~fIE--li~~~~~~eAi~~ar~~l 119 (212)
...|++++|+++.++--.. .+. +..-........=+- ....|+.++|++|.++-+
T Consensus 16 ~~~~~~~~A~~~~~~al~~-~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al 73 (78)
T PF13424_consen 16 RELGRYDEALDYYEKALDI-EEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL 73 (78)
T ss_dssp HHTT-HHHHHHHHHHHHHH-HHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HHcCCHHHHHHHHHHHHHH-HHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 3579999999888876544 322 211111111111111 124578888988888643
No 65
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=26.96 E-value=1.1e+02 Score=24.62 Aligned_cols=28 Identities=14% Similarity=0.172 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 028189 53 DMEMRKRILHFALEGNALKAIELTEELA 80 (212)
Q Consensus 53 ~~~~r~~I~~~I~~G~i~~Ai~~~~~~~ 80 (212)
.+.+...|.++|.+||.+.|...+..|.
T Consensus 183 ~~~eH~~Il~Ai~~~D~~~A~~~~~~Hi 210 (224)
T PRK11534 183 KHDQHQTLTAAILARDTARASELMRQHL 210 (224)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 3455666666666666666666666654
No 66
>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=26.74 E-value=1.5e+02 Score=22.28 Aligned_cols=32 Identities=16% Similarity=0.072 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHH
Q 028189 51 LEDMEMRKRILHFALEGNALKAIELTEELAQD 82 (212)
Q Consensus 51 ~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ 82 (212)
.+.......+.++|..|+.-+|++.+....|.
T Consensus 89 p~~~~~l~~~~~~v~~g~~y~ALk~~R~L~~~ 120 (126)
T PF07378_consen 89 PDAREGLDEANELVEAGRYYKALKALRKLIPY 120 (126)
T ss_pred HHHHHHHHHHHHHHHCCcHHHHHHHHHHhHHH
Confidence 35567778899999999999999999987653
No 67
>PF13934 ELYS: Nuclear pore complex assembly
Probab=26.50 E-value=3.6e+02 Score=22.07 Aligned_cols=89 Identities=22% Similarity=0.270 Sum_probs=45.0
Q ss_pred HHHHHHHHHhhCCCCCCCCHHHHHHHHHHH--HHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHH-HHhccCh
Q 028189 32 KETVDSFISCTGMKQPANCLEDMEMRKRIL--HFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVE-LVCSRKC 108 (212)
Q Consensus 32 ~eta~~f~~es~~~~~~~~~~~~~~r~~I~--~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIE-li~~~~~ 108 (212)
.+.+..|+...+++. .-++.|+ =++-.|+++.|++.+.+ |.+... | ..+.+. |+++|+.
T Consensus 63 ~~~~~~Fa~~f~ip~--------~~~~~~~g~W~LD~~~~~~A~~~L~~--ps~~~~-----~---~~~Il~~L~~~~~~ 124 (226)
T PF13934_consen 63 SELAESFARAFGIPP--------KYIKFIQGFWLLDHGDFEEALELLSH--PSLIPW-----F---PDKILQALLRRGDP 124 (226)
T ss_pred ccHHHHHHHHhCCCH--------HHHHHHHHHHHhChHhHHHHHHHhCC--CCCCcc-----c---HHHHHHHHHHCCCh
Confidence 467888888888752 1122222 12334777778777732 211111 1 112333 2346777
Q ss_pred HHHHHHHHHhcCccCCchhHHHHHHHHHhHhccC
Q 028189 109 TEALEFAQTKLTPFGKVQKYVEKLEDFMALLAYE 142 (212)
Q Consensus 109 ~eAi~~ar~~l~~~~~~~~~~~~l~~~~~lla~~ 142 (212)
..|+.|.|..-.|.. ++ +.+.-.+.+|+..
T Consensus 125 ~lAL~y~~~~~p~l~-s~---~~~~~~~~~La~~ 154 (226)
T PF13934_consen 125 KLALRYLRAVGPPLS-SP---EALTLYFVALANG 154 (226)
T ss_pred hHHHHHHHhcCCCCC-CH---HHHHHHHHHHHcC
Confidence 777777776444443 21 3444444555544
No 68
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=26.19 E-value=1.1e+02 Score=16.92 Aligned_cols=11 Identities=36% Similarity=0.462 Sum_probs=9.2
Q ss_pred cCCHHHHHHHH
Q 028189 66 EGNALKAIELT 76 (212)
Q Consensus 66 ~G~i~~Ai~~~ 76 (212)
.|+++.|++|+
T Consensus 26 ~~d~~~A~~~L 36 (37)
T smart00165 26 NGNVERAAEYL 36 (37)
T ss_pred CCCHHHHHHHH
Confidence 68899998886
No 69
>COG5516 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]
Probab=25.79 E-value=2.6e+02 Score=22.35 Aligned_cols=57 Identities=9% Similarity=0.078 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHhcCCCchHHHHHHHHH-HHHHHHHHhhcCCCCCCCCChhhhhc
Q 028189 155 LEYRQHVADNLNRAILERPRYAAMERLIQQT-TAVRQCLSQELGKDVHPPFSLKDFMK 211 (212)
Q Consensus 155 ~~~r~~la~~vn~~il~~p~~s~Le~lv~~~-~~~~~~l~~~~~~~~~~~~~~~~~~~ 211 (212)
.+++..-|.+++......++.+.|-..+.++ ..+...+....+|+.+..=|+.+|+.
T Consensus 42 isr~~~aA~e~~~~~~~v~ap~al~~vai~LRE~i~~l~~~r~~g~~~rt~dl~~flr 99 (196)
T COG5516 42 ISRFAMAAGEVDETLAGVYAPGALLAVAIHLREVIDRLFRTRKAGKRVRTDDLPDFLR 99 (196)
T ss_pred HHHHHHHhhhhhhhhcCCCCchhHHHHHHHHHHHHHHHHHHHhccCcCChhhHHHHHH
Confidence 5678888888888877733334454445554 44455555555666778888998873
No 70
>TIGR03338 phnR_burk phosphonate utilization associated transcriptional regulator. This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Polaromonas, Burkholderia, Ralstonia and Verminephrobacter.
Probab=25.50 E-value=1.4e+02 Score=23.71 Aligned_cols=28 Identities=18% Similarity=0.164 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 028189 53 DMEMRKRILHFALEGNALKAIELTEELA 80 (212)
Q Consensus 53 ~~~~r~~I~~~I~~G~i~~Ai~~~~~~~ 80 (212)
.+.+...|.++|..||.+.|.+.+..|.
T Consensus 179 ~~~~H~~i~~ai~~~d~~~A~~~~~~Hl 206 (212)
T TIGR03338 179 SAAEHRAIVDAIASGDAERAGALMRAHV 206 (212)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 4456666677777777777776666664
No 71
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=25.42 E-value=1.3e+02 Score=19.51 Aligned_cols=50 Identities=12% Similarity=0.302 Sum_probs=36.6
Q ss_pred CCHHHHHHHHHHHHHhhcH-HHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCH
Q 028189 13 INDNDIHNIVLSYLVHNCY-KETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNA 69 (212)
Q Consensus 13 ~~~~~l~~lI~~yL~~~Gy-~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i 69 (212)
++.....+-|+.+|...|- .=++..++++.|++.. ..++.+..+...|-+
T Consensus 2 ~~~~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~-------~v~r~L~~L~~~G~V 52 (68)
T smart00550 2 LTQDSLEEKILEFLENSGDETSTALQLAKNLGLPKK-------EVNRVLYSLEKKGKV 52 (68)
T ss_pred CCchHHHHHHHHHHHHCCCCCcCHHHHHHHHCCCHH-------HHHHHHHHHHHCCCE
Confidence 4566788899999999987 3678999999997532 345556666666654
No 72
>COG0268 RpsT Ribosomal protein S20 [Translation, ribosomal structure and biogenesis]
Probab=25.40 E-value=1.3e+02 Score=21.24 Aligned_cols=29 Identities=14% Similarity=0.066 Sum_probs=24.8
Q ss_pred HHHHHHHHHcCCHHHHHHHHHHhcHHHhc
Q 028189 57 RKRILHFALEGNALKAIELTEELAQDLLE 85 (212)
Q Consensus 57 r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~ 85 (212)
.+.+..+|..||.+.|.+.+..-+|.+..
T Consensus 32 iKk~~~ai~~gd~~~A~~~l~~a~~~idk 60 (88)
T COG0268 32 IKKVEAAIEAGDKEAAKAALKEAQKKIDK 60 (88)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence 35778899999999999999998887755
No 73
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=25.38 E-value=2.8e+02 Score=20.40 Aligned_cols=60 Identities=18% Similarity=0.125 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHH-HHhccChHHHHHHHHH
Q 028189 55 EMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVE-LVCSRKCTEALEFAQT 117 (212)
Q Consensus 55 ~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIE-li~~~~~~eAi~~ar~ 117 (212)
.....-...+..|++++|++.++...-.- .++.+. .+-....-. ++..|+.++|+...+.
T Consensus 50 A~l~lA~~~~~~g~~~~A~~~l~~~~~~~--~d~~l~-~~a~l~LA~~~~~~~~~d~Al~~L~~ 110 (145)
T PF09976_consen 50 AALQLAKAAYEQGDYDEAKAALEKALANA--PDPELK-PLARLRLARILLQQGQYDEALATLQQ 110 (145)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCHHHH-HHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence 33334456667788888887776542111 111111 111111122 2356778888888766
No 74
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=24.90 E-value=5.2e+02 Score=23.39 Aligned_cols=141 Identities=11% Similarity=0.086 Sum_probs=73.6
Q ss_pred hccCCCHHHHHHHHHHHHHhhcHHHHHHHHHHh---hCCCCCCCCHHHH-------------------------------
Q 028189 9 EHIAINDNDIHNIVLSYLVHNCYKETVDSFISC---TGMKQPANCLEDM------------------------------- 54 (212)
Q Consensus 9 ~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~e---s~~~~~~~~~~~~------------------------------- 54 (212)
..+.-...++-+|-.++.++.|-+..+-++-.. +|+-.+++ ...+
T Consensus 180 l~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e-~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~ 258 (400)
T COG3071 180 LEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEE-AARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK 258 (400)
T ss_pred HHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHH-HHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH
Confidence 334445567888999999999988877665433 22211100 0000
Q ss_pred ------HHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhH
Q 028189 55 ------EMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKY 128 (212)
Q Consensus 55 ------~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~ 128 (212)
-...-+...|..|+-++|.+|+.+..+.-.+.+ ...+|.-++-++...-++-+++-+.....+|
T Consensus 259 lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~--------L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p-- 328 (400)
T COG3071 259 LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR--------LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP-- 328 (400)
T ss_pred hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh--------HHHHHhhcCCCCchHHHHHHHHHHHhCCCCh--
Confidence 112234566666777777777766544433322 3445555555655555555555444443333
Q ss_pred HHHHHHHHhHhccCCCCCCchhhhCCHHHHHHHHHHHHHHHhcCCC
Q 028189 129 VEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVADNLNRAILERPR 174 (212)
Q Consensus 129 ~~~l~~~~~lla~~~~~~s~~~~l~~~~~r~~la~~vn~~il~~p~ 174 (212)
.+-.+.|-|++. ...|.+-.+.+-.+|...|+
T Consensus 329 --~L~~tLG~L~~k------------~~~w~kA~~~leaAl~~~~s 360 (400)
T COG3071 329 --LLLSTLGRLALK------------NKLWGKASEALEAALKLRPS 360 (400)
T ss_pred --hHHHHHHHHHHH------------hhHHHHHHHHHHHHHhcCCC
Confidence 333444455554 23455555555555554443
No 75
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.82 E-value=3.1e+02 Score=23.56 Aligned_cols=62 Identities=16% Similarity=0.202 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 028189 16 NDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEE 78 (212)
Q Consensus 16 ~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~ 78 (212)
......|+=||..+-|..+=+++...+.++.-. ..+......++...--.||++++-..++.
T Consensus 191 k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~-~sed~r~lenLL~ayd~gD~E~~~kvl~s 252 (308)
T KOG1585|consen 191 KAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFL-KSEDSRSLENLLTAYDEGDIEEIKKVLSS 252 (308)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHhcchhcCcccc-ChHHHHHHHHHHHHhccCCHHHHHHHHcC
Confidence 346677888999999999999998877776432 33444556677778889999998887764
No 76
>PF14691 Fer4_20: Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; PDB: 2VDC_G 1H7X_C 1H7W_A 1GT8_A 1GTE_B 1GTH_B.
Probab=24.39 E-value=1e+02 Score=22.42 Aligned_cols=26 Identities=27% Similarity=0.195 Sum_probs=19.9
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHHhcH
Q 028189 56 MRKRILHFALEGNALKAIELTEELAQ 81 (212)
Q Consensus 56 ~r~~I~~~I~~G~i~~Ai~~~~~~~p 81 (212)
.-..+..+|..|++.+|++.+.+..|
T Consensus 41 dip~~i~~i~~g~~~~A~~~i~~~np 66 (111)
T PF14691_consen 41 DIPEYIRLIREGNFKEAYELIREDNP 66 (111)
T ss_dssp -HHHHHHHHHCT-HHHHHHHHHHH-T
T ss_pred cHHHHHHHHHCCCHHHHHHHHHHhCC
Confidence 34678899999999999999987654
No 77
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=24.20 E-value=1.3e+02 Score=24.84 Aligned_cols=25 Identities=8% Similarity=0.017 Sum_probs=15.7
Q ss_pred HHHHHHHHhccChHHHHHHHHHhcC
Q 028189 96 SLHFVELVCSRKCTEALEFAQTKLT 120 (212)
Q Consensus 96 ~q~fIEli~~~~~~eAi~~ar~~l~ 120 (212)
..+.++.|++||...|....+.|+.
T Consensus 201 H~~I~~Ai~~~D~~~A~~~m~~Hi~ 225 (257)
T PRK10225 201 HKQILAALIKKDARAAKLAMWQHLE 225 (257)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 3455666666666666666666664
No 78
>PRK04966 hypothetical protein; Provisional
Probab=24.12 E-value=76 Score=21.46 Aligned_cols=45 Identities=11% Similarity=0.133 Sum_probs=30.5
Q ss_pred CCCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCH
Q 028189 12 AINDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNA 69 (212)
Q Consensus 12 ~~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i 69 (212)
..+.+.|+.||-+|+.|.|-. .|.. ....-....+++..+.+|+.
T Consensus 7 ~L~~eTL~nLIeefv~ReGTd---------yG~~----E~sl~~kv~qv~~qL~~G~~ 51 (72)
T PRK04966 7 DLAPETLENLIESFVLREGTD---------YGEH----ERSLEQKVADVKRQLQSGEA 51 (72)
T ss_pred hCCHHHHHHHHHHHHhccCcc---------CCcc----cccHHHHHHHHHHHHHcCCE
Confidence 467889999999999998842 2321 11222456778888888863
No 79
>KOG3452 consensus 60S ribosomal protein L36 [Translation, ribosomal structure and biogenesis]
Probab=23.79 E-value=2.2e+02 Score=20.41 Aligned_cols=45 Identities=22% Similarity=0.263 Sum_probs=31.9
Q ss_pred hhhhHHHHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHHHHHhHh
Q 028189 92 FDLLSLHFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALL 139 (212)
Q Consensus 92 F~L~~q~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~ll 139 (212)
|-=+-.+-+||++.++-..|+.++++.+..+. .-....+++...|
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 44456788999999988999999999988774 2233444444444
No 80
>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=23.78 E-value=1.1e+02 Score=18.67 Aligned_cols=17 Identities=24% Similarity=0.360 Sum_probs=14.1
Q ss_pred CHHHHHHHHHHHHHHHh
Q 028189 154 SLEYRQHVADNLNRAIL 170 (212)
Q Consensus 154 ~~~~r~~la~~vn~~il 170 (212)
.+.+|+.+|+.|..++.
T Consensus 25 ~~~qR~~iAe~Fa~AL~ 41 (44)
T PF07208_consen 25 PPAQRQAIAEKFAQALK 41 (44)
T ss_dssp -HHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHH
Confidence 47899999999988875
No 81
>PF06910 MEA1: Male enhanced antigen 1 (MEA1); InterPro: IPR009685 This family consists of several mammalian male enhanced antigen 1 (MEA1) proteins. The Mea-1 gene is found to be localised in primary and secondary spermatocytes and spermatids, but the protein products are detected only in spermatids. Intensive transcription of Mea-1 gene and specific localisation of the gene product suggest that Mea-1 may play a important role in the late stage of spermatogenesis [].; GO: 0007283 spermatogenesis
Probab=23.38 E-value=1.6e+02 Score=23.34 Aligned_cols=39 Identities=18% Similarity=0.065 Sum_probs=32.3
Q ss_pred chhHHHHHHHHHhHhccCCCCCCchhhhCCHHHHHHHHH
Q 028189 125 VQKYVEKLEDFMALLAYEEPEKSPMFHLLSLEYRQHVAD 163 (212)
Q Consensus 125 ~~~~~~~l~~~~~lla~~~~~~s~~~~l~~~~~r~~la~ 163 (212)
++++...|+++|+-+.-+...-...+...+.++|..+..
T Consensus 123 D~~~ve~Vk~~Ma~i~LP~~~vP~WA~~IseeqWk~~l~ 161 (174)
T PF06910_consen 123 DAEHVELVKRTMAGITLPSSAVPEWAKEISEEQWKDVLQ 161 (174)
T ss_pred CHHHHHHHHHHHhcccCCCCCCcHHHhhCCHHHHHHHHH
Confidence 688999999999999988766666788999999976544
No 82
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=22.81 E-value=1.5e+02 Score=24.10 Aligned_cols=28 Identities=14% Similarity=0.208 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 028189 53 DMEMRKRILHFALEGNALKAIELTEELA 80 (212)
Q Consensus 53 ~~~~r~~I~~~I~~G~i~~Ai~~~~~~~ 80 (212)
.+.....|.++|..||.+.|...+..|.
T Consensus 189 ~~~~H~~I~~Ai~~~D~~~a~~~~~~H~ 216 (239)
T PRK04984 189 ALGFYHKLSALCEEGNHDQVPECVRQYG 216 (239)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 4456667777777777777777766654
No 83
>PRK12791 flbT flagellar biosynthesis repressor FlbT; Reviewed
Probab=22.67 E-value=1.7e+02 Score=22.08 Aligned_cols=30 Identities=20% Similarity=0.252 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHhcHH
Q 028189 53 DMEMRKRILHFALEGNALKAIELTEELAQD 82 (212)
Q Consensus 53 ~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ 82 (212)
.......+.++|..|++-+|++.+....|.
T Consensus 90 ~~~~l~~~~~~v~~g~~Y~ALK~~R~Li~~ 119 (131)
T PRK12791 90 AWPIIEAINNHILNGDLYKALKELRKLIAR 119 (131)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHhHHH
Confidence 445667788999999999999999887764
No 84
>PF12854 PPR_1: PPR repeat
Probab=22.52 E-value=1.4e+02 Score=16.44 Aligned_cols=20 Identities=30% Similarity=0.321 Sum_probs=14.5
Q ss_pred HHHHHHHcCCHHHHHHHHHH
Q 028189 59 RILHFALEGNALKAIELTEE 78 (212)
Q Consensus 59 ~I~~~I~~G~i~~Ai~~~~~ 78 (212)
-|.-.-..|++++|++.+++
T Consensus 13 lI~~~Ck~G~~~~A~~l~~~ 32 (34)
T PF12854_consen 13 LIDGYCKAGRVDEAFELFDE 32 (34)
T ss_pred HHHHHHHCCCHHHHHHHHHh
Confidence 45566678888888887765
No 85
>TIGR02812 fadR_gamma fatty acid metabolism transcriptional regulator FadR. Members of this family are FadR, a transcriptional regulator of fatty acid metabolism, including both biosynthesis and beta-oxidation. It is found exclusively in a subset of Gammaproteobacteria, with strictly one copy per genome. It has an N-terminal DNA-binding domain and a less well conserved C-terminal long chain acyl-CoA-binding domain. FadR from this family heterologously expressed in Escherichia coli show differences in regulatory response and fatty acid binding profiles. The family is nevertheless designated equivalog, as all member proteins have at least nominally the same function.
Probab=22.41 E-value=1.5e+02 Score=23.94 Aligned_cols=26 Identities=12% Similarity=0.203 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHh
Q 028189 54 MEMRKRILHFALEGNALKAIELTEEL 79 (212)
Q Consensus 54 ~~~r~~I~~~I~~G~i~~Ai~~~~~~ 79 (212)
+.....|.++|..||.+.|...+..|
T Consensus 189 ~~~H~~I~~Ai~~~d~~~A~~~m~~H 214 (235)
T TIGR02812 189 LQFYKELQALCKAGNHDEVPDCIRQY 214 (235)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 34445555555555555555555544
No 86
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=22.22 E-value=3.4e+02 Score=23.60 Aligned_cols=62 Identities=15% Similarity=0.167 Sum_probs=42.1
Q ss_pred hccCCCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 028189 9 EHIAINDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEE 78 (212)
Q Consensus 9 ~~~~~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~ 78 (212)
...+|+....-++.+.-|...|.++-...|.++-. .|-. .+. =|...+..|+..+|..++..
T Consensus 201 k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~skK--sPIG-yep-----Fv~~~~~~~~~~eA~~yI~k 262 (319)
T PF04840_consen 201 KEFKVPDKRFWWLKIKALAENKDWDELEKFAKSKK--SPIG-YEP-----FVEACLKYGNKKEASKYIPK 262 (319)
T ss_pred HHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhCCC--CCCC-hHH-----HHHHHHHCCCHHHHHHHHHh
Confidence 44677777888888888888888888888876532 2221 122 23445678888888888876
No 87
>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=22.19 E-value=1.3e+02 Score=15.42 Aligned_cols=22 Identities=27% Similarity=0.292 Sum_probs=16.3
Q ss_pred HHHHHHHcCCHHHHHHHHHHhc
Q 028189 59 RILHFALEGNALKAIELTEELA 80 (212)
Q Consensus 59 ~I~~~I~~G~i~~Ai~~~~~~~ 80 (212)
-|......|++++|.+..++..
T Consensus 6 li~~~~~~~~~~~a~~~~~~M~ 27 (35)
T TIGR00756 6 LIDGLCKAGRVEEALELFKEML 27 (35)
T ss_pred HHHHHHHCCCHHHHHHHHHHHH
Confidence 3556777888998888887653
No 88
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=22.02 E-value=7.5e+02 Score=24.13 Aligned_cols=100 Identities=7% Similarity=-0.144 Sum_probs=62.5
Q ss_pred HHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhh
Q 028189 16 NDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLL 95 (212)
Q Consensus 16 ~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~ 95 (212)
.+..++++.=+.+.|..|-|..+-...---.|. ... .......-+...+++++|++|+++..+ .++ =...-+
T Consensus 86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~--a~~~~a~~L~~~~~~eeA~~~~~~~l~----~~p-~~~~~~ 157 (694)
T PRK15179 86 ELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSE--AFILMLRGVKRQQGIEAGRAEIELYFS----GGS-SSAREI 157 (694)
T ss_pred HHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHH--HHHHHHHHHHHhccHHHHHHHHHHHhh----cCC-CCHHHH
Confidence 456677777788888877777765543221221 122 222334556678999999999987643 222 123334
Q ss_pred HHHHHHHHhccChHHHHHHHHHhcCccC
Q 028189 96 SLHFVELVCSRKCTEALEFAQTKLTPFG 123 (212)
Q Consensus 96 ~q~fIEli~~~~~~eAi~~ar~~l~~~~ 123 (212)
.+.=+.|...|..++|++.=++-+.+..
T Consensus 158 ~~~a~~l~~~g~~~~A~~~y~~~~~~~p 185 (694)
T PRK15179 158 LLEAKSWDEIGQSEQADACFERLSRQHP 185 (694)
T ss_pred HHHHHHHHHhcchHHHHHHHHHHHhcCC
Confidence 4455566677889999988887776553
No 89
>PRK00304 hypothetical protein; Provisional
Probab=21.93 E-value=88 Score=21.33 Aligned_cols=43 Identities=9% Similarity=0.196 Sum_probs=30.1
Q ss_pred CCHHHHHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCH
Q 028189 13 INDNDIHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNA 69 (212)
Q Consensus 13 ~~~~~l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i 69 (212)
.+.+.|+.||-+|+.|.|- + .|-+ .+.-....+++..+.+|+.
T Consensus 8 L~~eTL~nLIeefv~ReGT-D--------yg~E-----~sL~~kv~qv~~qL~~G~~ 50 (75)
T PRK00304 8 LEADTLTRLIEDFVTRDGT-D--------NGDE-----TPLETRVLRVRQALTKGQA 50 (75)
T ss_pred CCHHHHHHHHHHHHhccCc-c--------Cccc-----ccHHHHHHHHHHHHHcCCE
Confidence 6788999999999999996 2 2211 1112455788888888863
No 90
>PF01877 RNA_binding: RNA binding; InterPro: IPR002739 The proteins in this entry are functionally uncharacterised.; PDB: 2WNY_B 2NWU_A 2NRQ_A 2OGK_A 3D7A_B 3C9G_B 2PZZ_D.
Probab=21.10 E-value=1.8e+02 Score=21.33 Aligned_cols=44 Identities=16% Similarity=0.104 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHcCCH-HHHHHHHHHhcHHHhccCccchhhhhHHHHH
Q 028189 52 EDMEMRKRILHFALEGNA-LKAIELTEELAQDLLEKNKDLHFDLLSLHFV 100 (212)
Q Consensus 52 ~~~~~r~~I~~~I~~G~i-~~Ai~~~~~~~p~ll~~~~~l~F~L~~q~fI 100 (212)
........+.+.+...++ +.|...+.... . +..++|.|.+|...
T Consensus 56 ~~~~~l~~l~~~l~~~~i~d~~~~~l~~~~----~-~~~~~~rl~KQaA~ 100 (120)
T PF01877_consen 56 EALKSLKKLHELLRDQEILDTARSELEKRV----D-GNKLYFRLDKQAAY 100 (120)
T ss_dssp HHHHHHHHHHHHHHHTTHHHHHHHHHHHTB----E-TSEEEEEEEHHHHH
T ss_pred cHHHHHHHHHHHHhhhhhhhHHHHHHHhcc----c-CCEEEEEEchhHhh
Confidence 355667889999999999 88888887653 2 68999999999865
No 91
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=20.72 E-value=1.9e+02 Score=23.71 Aligned_cols=30 Identities=17% Similarity=0.115 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHhcH
Q 028189 52 EDMEMRKRILHFALEGNALKAIELTEELAQ 81 (212)
Q Consensus 52 ~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p 81 (212)
..+.....|.++|..||.+.|...+..|..
T Consensus 189 ~~~~~H~~I~~AI~~~D~~~A~~~~~~H~~ 218 (253)
T PRK10421 189 QLTEQHQAVMDAILAGDAEGARKAMMAHLS 218 (253)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 455677788888888888888888877753
No 92
>PRK00239 rpsT 30S ribosomal protein S20; Reviewed
Probab=20.40 E-value=1.8e+02 Score=20.34 Aligned_cols=29 Identities=14% Similarity=0.062 Sum_probs=22.9
Q ss_pred HHHHHHHHHcCCHHHHHHHHHHhcHHHhc
Q 028189 57 RKRILHFALEGNALKAIELTEELAQDLLE 85 (212)
Q Consensus 57 r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~ 85 (212)
.+.+..+|..|+.++|.+.+...++.+.+
T Consensus 32 iKk~~~ai~~~~~~~a~~~~~~a~s~iDk 60 (88)
T PRK00239 32 IKKVEAAIAAGDKEAAEEALKAAQSKIDK 60 (88)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence 35677888889999999999887766544
No 93
>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=20.38 E-value=3.5e+02 Score=19.77 Aligned_cols=26 Identities=42% Similarity=0.501 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHhc
Q 028189 55 EMRKRILHFALEGNALKAIELTEELA 80 (212)
Q Consensus 55 ~~r~~I~~~I~~G~i~~Ai~~~~~~~ 80 (212)
....++-++|.+||..+|+..+++.+
T Consensus 16 ~~i~~l~~ai~~~d~~~~l~~~~~l~ 41 (143)
T PF12169_consen 16 EQIFELLDAILEGDAAEALELLNELL 41 (143)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 45668889999999999999998754
No 94
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=20.37 E-value=3.5e+02 Score=19.63 Aligned_cols=13 Identities=15% Similarity=0.130 Sum_probs=5.7
Q ss_pred CHHHHHHHHHHHH
Q 028189 14 NDNDIHNIVLSYL 26 (212)
Q Consensus 14 ~~~~l~~lI~~yL 26 (212)
+...-+.+|.-|.
T Consensus 40 ~~~~~~~li~ly~ 52 (140)
T smart00299 40 NPALQTKLIELYA 52 (140)
T ss_pred chhHHHHHHHHHH
Confidence 3344444444443
No 95
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=20.35 E-value=5.8e+02 Score=22.25 Aligned_cols=113 Identities=11% Similarity=0.041 Sum_probs=64.2
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcHHHhccCccchhhhhHH
Q 028189 18 IHNIVLSYLVHNCYKETVDSFISCTGMKQPANCLEDMEMRKRILHFALEGNALKAIELTEELAQDLLEKNKDLHFDLLSL 97 (212)
Q Consensus 18 l~~lI~~yL~~~Gy~eta~~f~~es~~~~~~~~~~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p~ll~~~~~l~F~L~~q 97 (212)
+..--..++...-|.++...|.+...+. | .+......| -.-++..|+++.|+..+.+.. .+-..+....|.+
T Consensus 5 l~~~a~~a~~~~~~~~Ai~~~~~Al~~~-P-~~~~a~~~~--a~~~~~~g~~~eAl~~~~~Al-~l~P~~~~a~~~l--- 76 (356)
T PLN03088 5 LEDKAKEAFVDDDFALAVDLYTQAIDLD-P-NNAELYADR--AQANIKLGNFTEAVADANKAI-ELDPSLAKAYLRK--- 76 (356)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHhC-C-CCHHHHHHH--HHHHHHcCCHHHHHHHHHHHH-HhCcCCHHHHHHH---
Confidence 3344445556666666666666655543 2 223333333 234566799999999887642 2222222333322
Q ss_pred HHHHHHhccChHHHHHHHHHhcCccCCchhHHHHHHHHHhHh
Q 028189 98 HFVELVCSRKCTEALEFAQTKLTPFGKVQKYVEKLEDFMALL 139 (212)
Q Consensus 98 ~fIEli~~~~~~eAi~~ar~~l~~~~~~~~~~~~l~~~~~ll 139 (212)
-+=+...|+..+|+.+.++-+.-...++.....+..+-.-+
T Consensus 77 -g~~~~~lg~~~eA~~~~~~al~l~P~~~~~~~~l~~~~~kl 117 (356)
T PLN03088 77 -GTACMKLEEYQTAKAALEKGASLAPGDSRFTKLIKECDEKI 117 (356)
T ss_pred -HHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence 23334568999999999876654434566666666655555
No 96
>PRK03837 transcriptional regulator NanR; Provisional
Probab=20.22 E-value=2e+02 Score=23.23 Aligned_cols=30 Identities=7% Similarity=-0.067 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHhcH
Q 028189 52 EDMEMRKRILHFALEGNALKAIELTEELAQ 81 (212)
Q Consensus 52 ~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~p 81 (212)
..+.....|.++|..||.+.|.+.+..|.-
T Consensus 198 ~~~~~H~~i~~Ai~~~d~~~a~~~~~~H~~ 227 (241)
T PRK03837 198 VTLQEHIAIVDAIRAHDPDEADRALQSHLN 227 (241)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 345566677777777777777777776653
No 97
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=20.16 E-value=1.7e+02 Score=23.45 Aligned_cols=29 Identities=14% Similarity=0.062 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHhc
Q 028189 52 EDMEMRKRILHFALEGNALKAIELTEELA 80 (212)
Q Consensus 52 ~~~~~r~~I~~~I~~G~i~~Ai~~~~~~~ 80 (212)
........|.++|..||.+.|.+.+..|.
T Consensus 180 ~~~~~H~~I~~Ai~~~D~~~A~~~~~~hl 208 (221)
T PRK11414 180 EHIENYRLLLAALKAKDKEGCRHCLAEIM 208 (221)
T ss_pred hhHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 34566678888888888888887777664
Done!