Query 019918
Match_columns 334
No_of_seqs 97 out of 107
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 05:34:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019918.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019918hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03098 LPA1 LOW PSII ACCUMUL 100.0 1.1E-82 2.3E-87 633.6 27.3 250 78-327 181-453 (453)
2 PF11998 DUF3493: Protein of u 100.0 8.1E-29 1.7E-33 195.6 8.4 74 78-158 2-75 (75)
3 PF13778 DUF4174: Domain of un 96.1 0.059 1.3E-06 45.6 9.8 104 187-315 2-108 (118)
4 PRK03147 thiol-disulfide oxido 93.8 2 4.3E-05 36.6 12.6 136 167-318 35-171 (173)
5 PF08534 Redoxin: Redoxin; In 93.7 0.85 1.8E-05 37.9 10.0 117 175-307 8-136 (146)
6 PRK09437 bcp thioredoxin-depen 93.0 1.7 3.7E-05 36.7 10.8 124 171-310 8-144 (154)
7 cd03018 PRX_AhpE_like Peroxire 91.5 2.8 6.1E-05 34.7 10.2 117 175-306 9-134 (149)
8 cd03017 PRX_BCP Peroxiredoxin 91.4 4.3 9.2E-05 33.2 11.1 124 176-315 6-139 (140)
9 cd02968 SCO SCO (an acronym fo 90.3 3.6 7.9E-05 33.7 9.7 119 177-301 6-139 (142)
10 PTZ00056 glutathione peroxidas 89.8 3.8 8.3E-05 37.3 10.4 143 172-316 18-175 (199)
11 cd02964 TryX_like_family Trypa 88.5 7.6 0.00017 32.1 10.5 110 180-303 4-117 (132)
12 PLN02412 probable glutathione 87.2 11 0.00024 33.0 11.2 139 174-315 10-160 (167)
13 PF06305 DUF1049: Protein of u 86.1 3.2 6.9E-05 31.1 6.3 45 96-171 20-64 (68)
14 cd02971 PRX_family Peroxiredox 85.6 9.7 0.00021 31.0 9.4 110 182-307 11-131 (140)
15 cd03015 PRX_Typ2cys Peroxiredo 83.6 11 0.00025 32.7 9.5 119 184-317 20-155 (173)
16 cd03012 TlpA_like_DipZ_like Tl 82.1 9.9 0.00021 31.1 8.1 112 182-304 12-124 (126)
17 PTZ00256 glutathione peroxidas 81.8 29 0.00062 30.8 11.5 142 170-315 17-177 (183)
18 TIGR02540 gpx7 putative glutat 80.5 35 0.00075 29.0 11.2 131 177-316 6-150 (153)
19 cd00340 GSH_Peroxidase Glutath 80.4 35 0.00077 29.0 11.4 130 181-313 10-150 (152)
20 PRK10606 btuE putative glutath 78.4 17 0.00036 33.2 9.0 59 175-234 7-66 (183)
21 cd03009 TryX_like_TryX_NRX Try 73.3 49 0.0011 27.0 10.2 107 182-302 7-116 (131)
22 cd03014 PRX_Atyp2cys Peroxired 72.1 35 0.00076 28.2 8.8 112 181-309 14-133 (143)
23 PRK15412 thiol:disulfide inter 71.1 43 0.00094 29.7 9.6 116 183-316 57-173 (185)
24 cd02970 PRX_like2 Peroxiredoxi 66.8 64 0.0014 26.3 9.2 54 182-235 11-67 (149)
25 PF10066 DUF2304: Uncharacteri 66.8 35 0.00076 28.6 7.7 73 97-174 32-105 (115)
26 PRK13728 conjugal transfer pro 65.5 45 0.00097 30.7 8.7 106 181-317 61-169 (181)
27 PF12666 PrgI: PrgI family pro 60.3 33 0.00072 27.3 6.1 68 88-167 12-79 (93)
28 PF00255 GSHPx: Glutathione pe 60.2 42 0.00091 28.4 7.0 57 176-233 4-61 (108)
29 PLN02399 phospholipid hydroper 59.9 1.4E+02 0.0031 28.4 11.3 141 171-316 77-231 (236)
30 COG0641 AslB Arylsulfatase reg 55.9 11 0.00024 38.2 3.3 78 229-319 58-152 (378)
31 PF02630 SCO1-SenC: SCO1/SenC; 55.3 68 0.0015 28.5 7.8 124 169-301 28-170 (174)
32 PF00578 AhpC-TSA: AhpC/TSA fa 53.9 84 0.0018 24.8 7.5 54 181-234 13-68 (124)
33 TIGR00739 yajC preprotein tran 51.5 20 0.00043 29.0 3.5 46 144-189 11-58 (84)
34 PF10399 UCR_Fe-S_N: Ubiquitin 51.4 33 0.00071 24.6 4.2 27 96-122 11-37 (41)
35 PRK05585 yajC preprotein trans 49.8 28 0.00061 29.4 4.3 46 145-190 27-74 (106)
36 cd02966 TlpA_like_family TlpA- 49.4 1.1E+02 0.0023 22.8 9.2 104 182-301 8-113 (116)
37 PRK10382 alkyl hydroperoxide r 48.5 1.3E+02 0.0029 27.3 8.8 120 183-317 21-154 (187)
38 PRK00522 tpx lipid hydroperoxi 45.8 2E+02 0.0043 25.1 9.2 109 181-306 32-151 (167)
39 PF10960 DUF2762: Protein of u 43.4 31 0.00068 27.4 3.4 35 139-173 9-44 (71)
40 TIGR03141 cytochro_ccmD heme e 43.1 46 0.001 23.9 4.0 33 138-170 11-43 (45)
41 PF04995 CcmD: Heme exporter p 42.1 50 0.0011 23.7 4.0 35 137-171 9-43 (46)
42 cd02967 mauD Methylamine utili 42.0 1.7E+02 0.0036 22.9 9.8 108 177-303 4-113 (114)
43 TIGR01626 ytfJ_HI0045 conserve 42.0 1.3E+02 0.0028 27.7 7.7 118 184-313 50-174 (184)
44 PRK15051 4-amino-4-deoxy-L-ara 41.9 94 0.002 25.9 6.3 64 92-162 30-93 (111)
45 PRK05886 yajC preprotein trans 41.2 49 0.0011 28.4 4.4 46 144-189 12-59 (109)
46 PF10003 DUF2244: Integral mem 41.0 63 0.0014 28.1 5.3 56 93-161 9-64 (140)
47 smart00392 PROF Profilin. Bind 40.1 44 0.00095 28.5 4.1 34 268-304 2-35 (129)
48 PRK06280 hypothetical protein; 40.0 66 0.0014 25.9 4.8 46 102-155 25-71 (77)
49 COG1225 Bcp Peroxiredoxin [Pos 39.9 1.6E+02 0.0035 26.7 7.8 107 181-301 18-135 (157)
50 PRK11476 DNA-binding transcrip 37.3 9.4 0.0002 32.8 -0.4 18 7-25 27-57 (113)
51 TIGR00385 dsbE periplasmic pro 31.6 3.5E+02 0.0075 23.5 11.4 31 286-316 138-168 (173)
52 PF04434 SWIM: SWIM zinc finge 31.5 20 0.00043 24.3 0.5 23 14-36 10-34 (40)
53 PF00406 ADK: Adenylate kinase 31.1 18 0.00038 30.6 0.2 11 10-20 1-11 (151)
54 cd03008 TryX_like_RdCVF Trypar 31.1 3.7E+02 0.008 23.7 10.4 106 184-302 16-129 (146)
55 cd02969 PRX_like1 Peroxiredoxi 31.0 3.4E+02 0.0074 23.2 11.1 117 177-302 8-126 (171)
56 PF13905 Thioredoxin_8: Thiore 30.3 2.4E+02 0.0053 21.3 10.8 81 205-298 14-95 (95)
57 PF01618 MotA_ExbB: MotA/TolQ/ 28.5 3.7E+02 0.008 22.9 9.4 36 88-124 50-85 (139)
58 PF02699 YajC: Preprotein tran 28.3 55 0.0012 26.2 2.6 45 141-193 7-51 (82)
59 PF12597 DUF3767: Protein of u 28.3 2.4E+02 0.0052 24.3 6.7 41 78-118 16-62 (118)
60 PRK15083 PTS system mannitol-s 28.3 1.8E+02 0.004 31.4 7.2 18 187-204 371-388 (639)
61 PF10011 DUF2254: Predicted me 27.6 1.9E+02 0.0041 29.0 6.8 67 94-161 83-152 (371)
62 COG0811 TolQ Biopolymer transp 27.5 2.2E+02 0.0048 26.5 6.8 65 104-168 126-199 (216)
63 KOG2733 Uncharacterized membra 24.4 85 0.0018 32.7 3.7 105 104-229 11-141 (423)
64 PTZ00253 tryparedoxin peroxida 24.1 1.5E+02 0.0034 26.5 5.0 52 182-234 25-79 (199)
65 PLN02919 haloacid dehalogenase 24.1 3.8E+02 0.0083 30.9 9.1 134 172-317 396-534 (1057)
66 PF04418 DUF543: Domain of unk 23.8 21 0.00046 28.7 -0.5 14 13-26 60-73 (75)
67 PF07535 zf-DBF: DBF zinc fing 23.5 43 0.00092 24.9 1.1 18 18-35 5-23 (49)
68 COG3752 Steroid 5-alpha reduct 23.4 6.9E+02 0.015 24.9 9.5 82 71-165 91-172 (272)
69 PRK06531 yajC preprotein trans 23.4 1.1E+02 0.0025 26.3 3.8 20 151-170 17-36 (113)
70 PF03210 Paramyx_P_V_C: Paramy 23.0 28 0.0006 31.3 0.0 56 168-223 33-91 (155)
71 PF14015 DUF4231: Protein of u 22.9 4E+02 0.0086 21.3 6.8 38 80-117 5-42 (112)
72 PF00235 Profilin: Profilin; 22.8 53 0.0012 27.0 1.7 35 268-305 1-35 (121)
73 PF04156 IncA: IncA protein; 22.5 4E+02 0.0087 23.5 7.3 15 138-152 43-57 (191)
74 cd03010 TlpA_like_DsbE TlpA-li 22.4 4.1E+02 0.0089 21.3 10.0 108 183-311 15-126 (127)
75 PF01313 Bac_export_3: Bacteri 22.3 2.7E+02 0.0059 22.4 5.5 21 104-124 22-42 (76)
76 PF13244 DUF4040: Domain of un 21.9 2.1E+02 0.0046 22.3 4.8 46 101-154 18-64 (70)
No 1
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=100.00 E-value=1.1e-82 Score=633.58 Aligned_cols=250 Identities=32% Similarity=0.600 Sum_probs=233.5
Q ss_pred ccchHHHHHHHHhCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCChHHhhhccchhHHHHHHHHHHHHHHh
Q 019918 78 EISSAARIRNEVLSPFRSVRMFFYLAFVASGSLGGLIAITQLIGALANPARAADVPEILKGLSIDVSAVSLFAFLYSREN 157 (334)
Q Consensus 78 ~~~~~~rLraEa~aPfR~lR~Ffy~af~aSa~iG~~i~~~rliaal~G~~~a~~l~e~l~nlaI~igava~f~~L~~~e~ 157 (334)
....++|||+|+++|||++|+|||+||+|||+||+||+++|++++++|++++|+|+++++|||||+|+|++|+|||+||+
T Consensus 181 ~~~~~~kL~~E~~aPfR~~R~f~y~a~~asa~ig~~i~~~rl~~a~aG~~~ap~l~~~~~nlaI~igav~~f~~L~~~e~ 260 (453)
T PLN03098 181 SFRRDLKLISEVQAPFRGVRKFFYVAFTAAAGISTFFTVPRLIRAIQGGDGAPDVLETAGNAAINIGGIVAFVSLFLWEN 260 (453)
T ss_pred chhhHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCccHhHhhcccchHHHHHHHHHHHHHHHh
Confidence 56789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHhhhhhcccceEEecCCceeehhhhcccceEEEEecCHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCC
Q 019918 158 KAKNAQLARLSREESLSNLKLRVDEKKIISVNNLRGIARLVICSGPASYIMESFKRSEPFTESLLERGVLVVSFTTDGNI 237 (334)
Q Consensus 158 k~~~~qlarisREe~L~rL~Vrl~~~r~v~L~qLRg~aRvVIvAG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~s 237 (334)
|++|+||+||+|||+|+||+|+++++|+|+|.|||+++|||||||++|+|+++|+.||+|+++|+++|||||||+|+++.
T Consensus 261 k~~e~q~~ri~Ree~L~rL~v~l~~~~~v~l~~LRg~~RvvIvAG~~e~v~~al~~ae~~r~~L~~r~VlvVPv~~~~~~ 340 (453)
T PLN03098 261 KKEEEQMSQITRDETLSRLPVRLSTNRIVELVQLRDITRPVILAGTKESVTLAMQKAERYRTELLKRGVLLIPVVWGENK 340 (453)
T ss_pred cccHHHHHHHHhhhhhccceEeccCCCEEeHHHhcCcceEEEEECCHHHHHHHHHHhHHHHHHHHHcCcEEEEEecCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998765
Q ss_pred CC----CCccchH-------------------HHHHHhhhhccceEEeecchhhHHHHHHHHHHHcCCCCCCCeEEEEee
Q 019918 238 PS----FEFEESE-------------------EMKEFTRKRKRLWQLTPVYVSEWSKWLDEQKRTAGISPESPVYLSLRL 294 (334)
Q Consensus 238 p~----~~f~~~e-------------------~~~~~~~~~~~~w~A~Pv~~~eW~~wi~eQ~e~Agv~~~~gVyI~Lrl 294 (334)
+. .+|+.++ .+.+.....+++|+|+|+++++|++||+||++++||++++||||+|+|
T Consensus 341 ~~~~~~~gfg~~s~~a~~~p~~~~~~~~~~~~~~~~~~~~~~kr~~a~pv~~~~W~~wi~~q~~~~gv~~~~~vyi~lr~ 420 (453)
T PLN03098 341 DPQPKKKGFGRSSKAAASLPSIGDDFEKRAQSAAAKSVLKGEKRFKAEVVSPAEWERWIRDQQESEGVTPGEDVYIILRL 420 (453)
T ss_pred ccccccccccccchhhhcCCCccchhhhhhHHHHHHHhhhcccceEEeecchHHHHHHHHHHHHhcCCCCCCceEEEEee
Confidence 42 2344211 122333456788999999999999999999999999999999999999
Q ss_pred CCeeecccCCCCcHHHHHhcCCCccchhhhccC
Q 019918 295 DGRVRGSGVGYPPWNAFVAQLPPVKGIWSGLLD 327 (334)
Q Consensus 295 DGRVr~SG~G~PpW~~lv~eLP~~~g~~~~~~d 327 (334)
|||||+||+|+|||++|++||||+|||||||.+
T Consensus 421 dGrVr~SG~G~P~W~~~v~eLP~~~~~~~~~~~ 453 (453)
T PLN03098 421 DGRVRRSGRGMPEWQEIVKELPPLDSLLSKLER 453 (453)
T ss_pred CCeEecCCCCCCCHHHHHHhCCcchhhhhhccC
Confidence 999999999999999999999999999999864
No 2
>PF11998 DUF3493: Protein of unknown function (DUF3493); InterPro: IPR021883 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 79 to 331 amino acids in length.
Probab=99.95 E-value=8.1e-29 Score=195.57 Aligned_cols=74 Identities=43% Similarity=0.702 Sum_probs=72.3
Q ss_pred ccchHHHHHHHHhCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCChHHhhhccchhHHHHHHHHHHHHHHh
Q 019918 78 EISSAARIRNEVLSPFRSVRMFFYLAFVASGSLGGLIAITQLIGALANPARAADVPEILKGLSIDVSAVSLFAFLYSREN 157 (334)
Q Consensus 78 ~~~~~~rLraEa~aPfR~lR~Ffy~af~aSa~iG~~i~~~rliaal~G~~~a~~l~e~l~nlaI~igava~f~~L~~~e~ 157 (334)
+|++++|||+|+++|||++|+|||+||+|||+||++|+++|+++ |++|+|+++||+||+|+|++|+|||+||+
T Consensus 2 ~~~~~~rLraE~~aPfR~lR~f~y~a~~aSa~iG~~i~~~rl~a-------~~~l~~~l~nlaI~igava~~~~L~~~d~ 74 (75)
T PF11998_consen 2 DPEQYARLRAEAQAPFRGLRRFFYGAFGASAGIGLFIFLFRLIA-------GPDLNEALPNLAIQIGAVALFAFLFRWDR 74 (75)
T ss_pred CHHHHHHHHHHHHCchHHHHHHHHHHHHHHHHHHHHHHHHHHHc-------CccHHHHhhhHhHHHHHHHHHHHHHHHhc
Confidence 67899999999999999999999999999999999999999999 79999999999999999999999999998
Q ss_pred h
Q 019918 158 K 158 (334)
Q Consensus 158 k 158 (334)
|
T Consensus 75 k 75 (75)
T PF11998_consen 75 K 75 (75)
T ss_pred C
Confidence 6
No 3
>PF13778 DUF4174: Domain of unknown function (DUF4174)
Probab=96.14 E-value=0.059 Score=45.57 Aligned_cols=104 Identities=17% Similarity=0.196 Sum_probs=68.0
Q ss_pred ehhhhcccceEEEEecC---HhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhhhccceEEee
Q 019918 187 SVNNLRGIARLVICSGP---ASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKRKRLWQLTP 263 (334)
Q Consensus 187 ~L~qLRg~aRvVIvAG~---~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~~~w~A~P 263 (334)
+|.+++...|++|+..| ......-+...+.-+..|.+|+|+|+.+.-++..... |...|
T Consensus 2 ~L~~~~w~~R~lvv~aps~~d~~~~~q~~~L~~~~~~l~eRdi~v~~i~~~~~~~~~------------------~~~~~ 63 (118)
T PF13778_consen 2 PLDQFRWKNRLLVVFAPSADDPRYQQQLEELQNNRCGLDERDIVVIVITGDGARSPG------------------KPLSP 63 (118)
T ss_pred ChhHhcCcCceEEEECCCCCCHHHHHHHHHHHhhhhccccCceEEEEEeCCcccccc------------------CcCCH
Confidence 58899999999998886 3334444455555678999999999998543322111 11111
Q ss_pred cchhhHHHHHHHHHHHcCCCCCCCeEEEEeeCCeeecccCCCCcHHHHHhcC
Q 019918 264 VYVSEWSKWLDEQKRTAGISPESPVYLSLRLDGRVRGSGVGYPPWNAFVAQL 315 (334)
Q Consensus 264 v~~~eW~~wi~eQ~e~Agv~~~~gVyI~LrlDGRVr~SG~G~PpW~~lv~eL 315 (334)
.-+.+-.+.=+++++.--.|.|.|||.|--+-....+|.+|.+.+
T Consensus 64 -------~~~~~lr~~l~~~~~~f~~vLiGKDG~vK~r~~~p~~~~~lf~~I 108 (118)
T PF13778_consen 64 -------EDIQALRKRLRIPPGGFTVVLIGKDGGVKLRWPEPIDPEELFDTI 108 (118)
T ss_pred -------HHHHHHHHHhCCCCCceEEEEEeCCCcEEEecCCCCCHHHHHHHH
Confidence 111122222355555567889999999999977777799887654
No 4
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=93.79 E-value=2 Score=36.58 Aligned_cols=136 Identities=16% Similarity=0.170 Sum_probs=80.5
Q ss_pred HhhhhhcccceEEecCCceeehhhhcccceEEE-EecCHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccch
Q 019918 167 LSREESLSNLKLRVDEKKIISVNNLRGIARLVI-CSGPASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEES 245 (334)
Q Consensus 167 isREe~L~rL~Vrl~~~r~v~L~qLRg~aRvVI-vAG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~ 245 (334)
+.-...+..+.+.--+++.+++.++.+..-++. .+-.-......+.....+.+++.++++-||-|.+|. ..
T Consensus 35 ~~~g~~~p~~~~~~~~g~~~~l~~~~~k~~~l~f~a~~C~~C~~~~~~l~~~~~~~~~~~~~vi~i~~d~--------~~ 106 (173)
T PRK03147 35 VQVGKEAPNFVLTDLEGKKIELKDLKGKGVFLNFWGTWCKPCEKEMPYMNELYPKYKEKGVEIIAVNVDE--------TE 106 (173)
T ss_pred cCCCCCCCCcEeecCCCCEEeHHHcCCCEEEEEEECCcCHHHHHHHHHHHHHHHHhhcCCeEEEEEEcCC--------CH
Confidence 334444556666555688999999987653333 333334566666667777788888888888887752 11
Q ss_pred HHHHHHhhhhccceEEeecchhhHHHHHHHHHHHcCCCCCCCeEEEEeeCCeeecccCCCCcHHHHHhcCCCc
Q 019918 246 EEMKEFTRKRKRLWQLTPVYVSEWSKWLDEQKRTAGISPESPVYLSLRLDGRVRGSGVGYPPWNAFVAQLPPV 318 (334)
Q Consensus 246 e~~~~~~~~~~~~w~A~Pv~~~eW~~wi~eQ~e~Agv~~~~gVyI~LrlDGRVr~SG~G~PpW~~lv~eLP~~ 318 (334)
++..+........ .|+..+. -.+-.+.-|+. .-+-.+++..||+|...-.|..+.+++.+.|..+
T Consensus 107 ~~~~~~~~~~~~~---~~~~~d~----~~~~~~~~~v~-~~P~~~lid~~g~i~~~~~g~~~~~~l~~~l~~~ 171 (173)
T PRK03147 107 LAVKNFVNRYGLT---FPVAIDK----GRQVIDAYGVG-PLPTTFLIDKDGKVVKVITGEMTEEQLEEYLEKI 171 (173)
T ss_pred HHHHHHHHHhCCC---ceEEECC----cchHHHHcCCC-CcCeEEEECCCCcEEEEEeCCCCHHHHHHHHHHh
Confidence 2222222222222 2222111 00111223452 3577889999999999999988888877765443
No 5
>PF08534 Redoxin: Redoxin; InterPro: IPR013740 This redoxin domain is found in peroxiredoxin, thioredoxin and glutaredoxin proteins. Peroxiredoxins (Prxs) constitute a family of thiol peroxidases that reduce hydrogen peroxide, peroxinitrite, and hydroperoxides using a strictly conserved cysteine []. Chloroplast thioredoxin systems in plants regulate the enzymes involved in photosynthetic carbon assimilation []. It is thought that redoxins have a large role to play in anti-oxidant defence. Cadmium-sensitive proteins are also regulated via thioredoxin and glutaredoxin thiol redox systems [].; GO: 0016491 oxidoreductase activity; PDB: 2H30_A 1TP9_A 1Y25_A 1XVQ_A 2B1K_A 2G0F_A 2B1L_B 3K8N_A 1Z5Y_E 3OR5_A ....
Probab=93.68 E-value=0.85 Score=37.92 Aligned_cols=117 Identities=21% Similarity=0.286 Sum_probs=76.2
Q ss_pred cceEEe--cCCceeehhhhcccceEEEEecC--HhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHH
Q 019918 175 NLKLRV--DEKKIISVNNLRGIARLVICSGP--ASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKE 250 (334)
Q Consensus 175 rL~Vrl--~~~r~v~L~qLRg~aRvVIvAG~--~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~ 250 (334)
.+.+.. .+++.++|+++++..-+|..-++ =..+...+-..+.+.+...+.||-+|-|..+.... ..+
T Consensus 8 ~~~~~~~~~~g~~~~l~~~~gk~~vv~f~~~~~Cp~C~~~~p~l~~l~~~~~~~~v~~v~v~~~~~~~---------~~~ 78 (146)
T PF08534_consen 8 DFSLKDLDLDGKPVSLSDFKGKPVVVNFWASAWCPPCRKELPYLNELQEKYKDKGVDVVGVSSDDDPP---------VRE 78 (146)
T ss_dssp CCEEEEEETTSEEEEGGGGTTSEEEEEEESTTTSHHHHHHHHHHHHHHHHHHTTTCEEEEEEESSSHH---------HHH
T ss_pred CeEEEeecCCCCEecHHHhCCCeEEEEEEccCCCCcchhhhhhHHhhhhhhccCceEEEEecccCCHH---------HHH
Confidence 445544 67899999999999876665555 67777777777788888899999999998743211 333
Q ss_pred HhhhhccceEEeecchhhHHHHHHHHHHHcCCC--------CCCCeEEEEeeCCeeecccCCCCc
Q 019918 251 FTRKRKRLWQLTPVYVSEWSKWLDEQKRTAGIS--------PESPVYLSLRLDGRVRGSGVGYPP 307 (334)
Q Consensus 251 ~~~~~~~~w~A~Pv~~~eW~~wi~eQ~e~Agv~--------~~~gVyI~LrlDGRVr~SG~G~Pp 307 (334)
+..+....|.. ..|+=. =+.++ =++. ..-+-++.|.+||+|+.++.|..+
T Consensus 79 ~~~~~~~~~~~---~~D~~~-~~~~~---~~~~~~~~~~~~~~~P~~~lId~~G~V~~~~~g~~~ 136 (146)
T PF08534_consen 79 FLKKYGINFPV---LSDPDG-ALAKA---LGVTIMEDPGNGFGIPTTFLIDKDGKVVYRHVGPDP 136 (146)
T ss_dssp HHHHTTTTSEE---EEETTS-HHHHH---TTCEEECCTTTTSSSSEEEEEETTSBEEEEEESSBT
T ss_pred HHHhhCCCceE---EechHH-HHHHH---hCCccccccccCCeecEEEEEECCCEEEEEEeCCCC
Confidence 33333333333 111000 01111 1221 146789999999999999999987
No 6
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=92.96 E-value=1.7 Score=36.72 Aligned_cols=124 Identities=17% Similarity=0.187 Sum_probs=74.7
Q ss_pred hhcccceEEecCCceeehhhhcccceEEEEecC--HhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHH
Q 019918 171 ESLSNLKLRVDEKKIISVNNLRGIARLVICSGP--ASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEM 248 (334)
Q Consensus 171 e~L~rL~Vrl~~~r~v~L~qLRg~aRvVIvAG~--~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~ 248 (334)
+.+-.+.+.--+++.+++.++++..-+|..-.+ -..+...+...+...++|.+.|+.||.|..| ..++.
T Consensus 8 ~~~p~f~l~~~~G~~~~l~~~~gk~~ll~f~~~~~~p~C~~~~~~l~~~~~~~~~~~v~vi~Is~d---------~~~~~ 78 (154)
T PRK09437 8 DIAPKFSLPDQDGEQVSLTDFQGQRVLVYFYPKAMTPGCTVQACGLRDNMDELKKAGVVVLGISTD---------KPEKL 78 (154)
T ss_pred CcCCCcEeeCCCCCEEeHHHhCCCCEEEEEECCCCCCchHHHHHHHHHHHHHHHHCCCEEEEEcCC---------CHHHH
Confidence 334445544345789999999997655555432 3445556666677788899999999999764 12334
Q ss_pred HHHhhhhccceEEeecchhhHHHHHHHHHHHcCCCC-----------CCCeEEEEeeCCeeecccCCCCcHHH
Q 019918 249 KEFTRKRKRLWQLTPVYVSEWSKWLDEQKRTAGISP-----------ESPVYLSLRLDGRVRGSGVGYPPWNA 310 (334)
Q Consensus 249 ~~~~~~~~~~w~A~Pv~~~eW~~wi~eQ~e~Agv~~-----------~~gVyI~LrlDGRVr~SG~G~PpW~~ 310 (334)
.++.....-.|...- +.+ . =+.++ -|+.. ..+..++|..||+|+.+=.|.+|+..
T Consensus 79 ~~~~~~~~~~~~~l~-D~~--~-~~~~~---~gv~~~~~~~~~~~~~~~~~~~lid~~G~i~~~~~g~~~~~~ 144 (154)
T PRK09437 79 SRFAEKELLNFTLLS-DED--H-QVAEQ---FGVWGEKKFMGKTYDGIHRISFLIDADGKIEHVFDKFKTSNH 144 (154)
T ss_pred HHHHHHhCCCCeEEE-CCC--c-hHHHH---hCCCcccccccccccCcceEEEEECCCCEEEEEEcCCCcchh
Confidence 444444333444321 211 1 11111 12211 01345899999999999999888765
No 7
>cd03018 PRX_AhpE_like Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater similarity to 2-cys PRXs than 1-cys PRXs. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. The first step of catalysis is the nucleophilic attack by the peroxidatic cysteine on the peroxide leading to the formation of a cysteine sulfenic acid intermediate. The absence of a resolving cysteine suggests that functional AhpE is regenerated by an external reductant. The solution behavior and crystal structure of AhpE show that it forms dimers and octamers.
Probab=91.45 E-value=2.8 Score=34.73 Aligned_cols=117 Identities=12% Similarity=0.180 Sum_probs=70.6
Q ss_pred cceEEecCCceeehhhhccc-ceEEEEe-c-CHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHH
Q 019918 175 NLKLRVDEKKIISVNNLRGI-ARLVICS-G-PASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEF 251 (334)
Q Consensus 175 rL~Vrl~~~r~v~L~qLRg~-aRvVIvA-G-~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~ 251 (334)
.+.+.=.+++.++++++++. .-+++.. + --..+...+...+.+.+++.+.|+-||-|..|. .+...++
T Consensus 9 ~~~l~~~~g~~v~l~~~~g~k~~vl~f~~~~~c~~C~~~~~~l~~~~~~~~~~~v~vi~vs~d~---------~~~~~~~ 79 (149)
T cd03018 9 DFELPDQNGQEVRLSEFRGRKPVVLVFFPLAFTPVCTKELCALRDSLELFEAAGAEVLGISVDS---------PFSLRAW 79 (149)
T ss_pred CcEecCCCCCEEeHHHHcCCCeEEEEEeCCCCCccHHHHHHHHHHHHHHHHhCCCEEEEecCCC---------HHHHHHH
Confidence 34443345889999999994 3333342 2 235667777777778888888999988887631 2234444
Q ss_pred hhhhccceEEeecchhhH-HHHHHHHHHHcCCCC-----CCCeEEEEeeCCeeecccCCCC
Q 019918 252 TRKRKRLWQLTPVYVSEW-SKWLDEQKRTAGISP-----ESPVYLSLRLDGRVRGSGVGYP 306 (334)
Q Consensus 252 ~~~~~~~w~A~Pv~~~eW-~~wi~eQ~e~Agv~~-----~~gVyI~LrlDGRVr~SG~G~P 306 (334)
.......| |+..|.. ..=+-. .=|+.. -...++++..||+|+.+..|..
T Consensus 80 ~~~~~~~~---~~~~D~~~~~~~~~---~~g~~~~~~~~~~~~~~lid~~G~v~~~~~~~~ 134 (149)
T cd03018 80 AEENGLTF---PLLSDFWPHGEVAK---AYGVFDEDLGVAERAVFVIDRDGIIRYAWVSDD 134 (149)
T ss_pred HHhcCCCc---eEecCCCchhHHHH---HhCCccccCCCccceEEEECCCCEEEEEEecCC
Confidence 44333333 4444432 111111 113321 1346799999999999999987
No 8
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=91.42 E-value=4.3 Score=33.21 Aligned_cols=124 Identities=17% Similarity=0.184 Sum_probs=73.9
Q ss_pred ceEEecCCceeehhhhcccceEEEEe-cC-HhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhh
Q 019918 176 LKLRVDEKKIISVNNLRGIARLVICS-GP-ASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTR 253 (334)
Q Consensus 176 L~Vrl~~~r~v~L~qLRg~aRvVIvA-G~-~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~ 253 (334)
+.+.-.+++.+++.++++..=++..- +. -......+.......+.|.+.|+.||.|..|. .++..++..
T Consensus 6 f~l~~~~g~~~~l~~~~gk~~ll~f~~~~~cp~C~~~~~~l~~~~~~~~~~~~~vv~is~d~---------~~~~~~~~~ 76 (140)
T cd03017 6 FTLPDQDGETVSLSDLRGKPVVLYFYPKDDTPGCTKEACDFRDLYEEFKALGAVVIGVSPDS---------VESHAKFAE 76 (140)
T ss_pred ccccCCCCCEEeHHHhCCCcEEEEEeCCCCCCchHHHHHHHHHHHHHHHHCCCEEEEEcCCC---------HHHHHHHHH
Confidence 34433458999999999754333332 22 24566667777777888888999999998742 122333333
Q ss_pred hhccceEEeecchhhHHHHHHHHHHHcCCCCC--------CCeEEEEeeCCeeecccCCCCcHHHHHhcC
Q 019918 254 KRKRLWQLTPVYVSEWSKWLDEQKRTAGISPE--------SPVYLSLRLDGRVRGSGVGYPPWNAFVAQL 315 (334)
Q Consensus 254 ~~~~~w~A~Pv~~~eW~~wi~eQ~e~Agv~~~--------~gVyI~LrlDGRVr~SG~G~PpW~~lv~eL 315 (334)
...-.| |+..+.=.+ +-++ -|+... .+..++|..||+|+.+=.|..+++.+.+.|
T Consensus 77 ~~~~~~---~~l~D~~~~-~~~~---~gv~~~~~~~~~~~~p~~~lid~~G~v~~~~~g~~~~~~~~~~~ 139 (140)
T cd03017 77 KYGLPF---PLLSDPDGK-LAKA---YGVWGEKKKKYMGIERSTFLIDPDGKIVKVWRKVKPKGHAEEVL 139 (140)
T ss_pred HhCCCc---eEEECCccH-HHHH---hCCccccccccCCcceeEEEECCCCEEEEEEecCCccchHHHHh
Confidence 322233 232221011 1111 132211 267899999999999999999887776654
No 9
>cd02968 SCO SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c oxidase (COX). They contain a metal binding motif, typically CXXXC, which is located in a flexible loop. COX, the terminal enzyme in the respiratory chain, is imbedded in the inner mitochondrial membrane of all eukaryotes and in the plasma membrane of some prokaryotes. It is composed of two subunits, COX I and COX II. It has been proposed that Sco1 specifically delivers copper to the CuA site, a dinuclear copper center, of the COX II subunit. Mutations in human Sco1 and Sco2 cause fatal infantile hepatoencephalomyopathy and cardioencephalomyopathy, respectively. Both disorders are associated with severe COX deficiency in affected tissues. More recently, it has been argued that the redox sensitivity of the copper binding properti
Probab=90.26 E-value=3.6 Score=33.69 Aligned_cols=119 Identities=15% Similarity=0.110 Sum_probs=72.2
Q ss_pred eEEecCCceeehhhhcccceEEEEe-cCHhH-HHHHHhhchhhHHHHhhcC---cEEEEEeeCCCCCCCCccchHHHHHH
Q 019918 177 KLRVDEKKIISVNNLRGIARLVICS-GPASY-IMESFKRSEPFTESLLERG---VLVVSFTTDGNIPSFEFEESEEMKEF 251 (334)
Q Consensus 177 ~Vrl~~~r~v~L~qLRg~aRvVIvA-G~~e~-V~~al~~Ae~~r~~L~~rg---VLVVPV~~dg~sp~~~f~~~e~~~~~ 251 (334)
.+.-.+++.+++.++++..-+++.. ..=.. ....+...+.+.+++.+.+ |-||-|..|...+. .+..+++
T Consensus 6 ~l~~~~g~~~~l~~~~gk~~vl~f~~~~C~~~C~~~l~~l~~~~~~~~~~~~~~v~~v~vs~d~~~d~-----~~~~~~~ 80 (142)
T cd02968 6 TLTDQDGRPVTLSDLKGKPVLVYFGYTHCPDVCPTTLANLAQALKQLGADGGDDVQVVFISVDPERDT-----PEVLKAY 80 (142)
T ss_pred EEEcCCCCEEchHHhCCCEEEEEEEcCCCcccCHHHHHHHHHHHHHhhHhhcCceEEEEEEECCCCCC-----HHHHHHH
Confidence 3333567899999998876655543 33333 7778888888999998875 99999988642111 1233444
Q ss_pred hhhhccceEEeecchhhHHHHHHHHHHHcCCCC----------CCCeEEEEeeCCeeecc
Q 019918 252 TRKRKRLWQLTPVYVSEWSKWLDEQKRTAGISP----------ESPVYLSLRLDGRVRGS 301 (334)
Q Consensus 252 ~~~~~~~w~A~Pv~~~eW~~wi~eQ~e~Agv~~----------~~gVyI~LrlDGRVr~S 301 (334)
...-...|....-..++...-.+ +...-...+ ..+.+++|..+|+|+..
T Consensus 81 ~~~~~~~~~~l~~~~~~~~~~~~-~~g~~~~~~~~~~~~~~~~~~~~~~lid~~G~i~~~ 139 (142)
T cd02968 81 AKAFGPGWIGLTGTPEEIEALAK-AFGVYYEKVPEDDGDYLVDHSAAIYLVDPDGKLVRY 139 (142)
T ss_pred HHHhCCCcEEEECCHHHHHHHHH-HhcEEEEecCCCCCceeEeccceEEEECCCCCEEEe
Confidence 44434567766554444444322 221111111 13578999999999863
No 10
>PTZ00056 glutathione peroxidase; Provisional
Probab=89.83 E-value=3.8 Score=37.28 Aligned_cols=143 Identities=11% Similarity=0.172 Sum_probs=80.6
Q ss_pred hcccceEEecCCceeehhhhcccceEEE-EecCHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHH
Q 019918 172 SLSNLKLRVDEKKIISVNNLRGIARLVI-CSGPASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKE 250 (334)
Q Consensus 172 ~L~rL~Vrl~~~r~v~L~qLRg~aRvVI-vAG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~ 250 (334)
.+-.+.+.--+++.++|+++||..-+|. .|---..+..-+...+.+.+.+.+.|+.||-|..+.- .+.+++..++..+
T Consensus 18 ~~pdf~l~d~~G~~vsL~~~kGkvvlv~fwAswC~~C~~e~p~L~~l~~~~~~~g~~vvgv~~~~~-~~~e~d~~e~~~~ 96 (199)
T PTZ00056 18 SIYDYTVKTLEGTTVPMSSLKNKVLMITNSASKCGLTKKHVDQMNRLHSVFNPLGLEILAFPTSQF-LNQEFPNTKDIRK 96 (199)
T ss_pred CCCceEEECCCCCEEeHHHhCCCEEEEEEECCCCCChHHHHHHHHHHHHHHhcCceEEEEecchhc-cCCCCCCHHHHHH
Confidence 4555555545689999999998643222 2222233444455666777888889999998876321 1112233345566
Q ss_pred HhhhhccceEEe-ecch------hhHHHHHHHHHHH-cCCCCC------CCeEEEEeeCCeeecccCCCCcHHHHHhcCC
Q 019918 251 FTRKRKRLWQLT-PVYV------SEWSKWLDEQKRT-AGISPE------SPVYLSLRLDGRVRGSGVGYPPWNAFVAQLP 316 (334)
Q Consensus 251 ~~~~~~~~w~A~-Pv~~------~eW~~wi~eQ~e~-Agv~~~------~gVyI~LrlDGRVr~SG~G~PpW~~lv~eLP 316 (334)
+.....-.|-.. ++.+ ..|+ |+.++... -+..+. ....+.|.+||+|+.+=.|..++.++.+.+.
T Consensus 97 f~~~~~~~fpvl~d~~v~g~~~~~l~~-~l~~~~~~~~d~~~~~~~i~~~~~tflID~~G~iv~~~~g~~~~~~l~~~I~ 175 (199)
T PTZ00056 97 FNDKNKIKYNFFEPIEVNGENTHELFK-FLKANCDSMHDENGTLKAIGWNFGKFLVNKSGNVVAYFSPRTEPLELEKKIA 175 (199)
T ss_pred HHHHcCCCceeeeeeeccCCccCHHHH-HHHHhCcccccccccCCccCCCCEEEEECCCCcEEEEeCCCCCHHHHHHHHH
Confidence 655544444321 1111 2233 33333221 111111 1247899999999998888888887766554
No 11
>cd02964 TryX_like_family Tryparedoxin (TryX)-like family; composed of TryX and related proteins including nucleoredoxin (NRX), rod-derived cone viability factor (RdCVF) and the nematode homolog described as a 16-kD class of TRX. Most members of this family, except RdCVF, are protein disulfide oxidoreductases containing an active site CXXC motif, similar to TRX.
Probab=88.46 E-value=7.6 Score=32.13 Aligned_cols=110 Identities=21% Similarity=0.244 Sum_probs=66.3
Q ss_pred ecCCceeehhhhcccceEEEEec-CHhHHHHHHhhchhhHHHHhhc--CcEEEEEeeCCCCCCCCccchHHHHHHhhhhc
Q 019918 180 VDEKKIISVNNLRGIARLVICSG-PASYIMESFKRSEPFTESLLER--GVLVVSFTTDGNIPSFEFEESEEMKEFTRKRK 256 (334)
Q Consensus 180 l~~~r~v~L~qLRg~aRvVIvAG-~~e~V~~al~~Ae~~r~~L~~r--gVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~ 256 (334)
++++++++|.+|+|..=+|..-+ .=....+.+...+.+.+++.+. ++-|+.|..+.+ .++..++.....
T Consensus 4 ~~~~~~v~l~~~~Gk~vll~F~atwC~~C~~~~p~l~~l~~~~~~~~~~v~vi~Vs~d~~--------~~~~~~~~~~~~ 75 (132)
T cd02964 4 LDGEGVVPVSALEGKTVGLYFSASWCPPCRAFTPKLVEFYEKLKEEGKNFEIVFVSRDRS--------EESFNEYFSEMP 75 (132)
T ss_pred ccCCccccHHHhCCCEEEEEEECCCCchHHHHHHHHHHHHHHHhhcCCCeEEEEEecCCC--------HHHHHHHHhcCC
Confidence 35568999999999664444433 3445666666666666677664 788888877531 122233333322
Q ss_pred cceEEeecchhhHHHHHHHHHH-HcCCCCCCCeEEEEeeCCeeecccC
Q 019918 257 RLWQLTPVYVSEWSKWLDEQKR-TAGISPESPVYLSLRLDGRVRGSGV 303 (334)
Q Consensus 257 ~~w~A~Pv~~~eW~~wi~eQ~e-~Agv~~~~gVyI~LrlDGRVr~SG~ 303 (334)
.|...|+. ++ ....+.. .-++. .-|.++++..+|+|+....
T Consensus 76 -~~~~~~~~-d~---~~~~~~~~~~~v~-~iPt~~lid~~G~iv~~~~ 117 (132)
T cd02964 76 -PWLAVPFE-DE---ELRELLEKQFKVE-GIPTLVVLKPDGDVVTTNA 117 (132)
T ss_pred -CeEeeccC-cH---HHHHHHHHHcCCC-CCCEEEEECCCCCEEchhH
Confidence 67777754 22 1122222 23552 3589999999999997654
No 12
>PLN02412 probable glutathione peroxidase
Probab=87.19 E-value=11 Score=33.05 Aligned_cols=139 Identities=13% Similarity=0.146 Sum_probs=78.0
Q ss_pred ccceEEecCCceeehhhhcccceEEEE-ecCHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHH-H
Q 019918 174 SNLKLRVDEKKIISVNNLRGIARLVIC-SGPASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKE-F 251 (334)
Q Consensus 174 ~rL~Vrl~~~r~v~L~qLRg~aRvVIv-AG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~-~ 251 (334)
-.+.+.-.+++.++|.++++..-||.. |-.-..+..-+..-+.+.+++.+.|+.||-|..+.-.. .+.+..++..+ +
T Consensus 10 pdf~l~d~~G~~v~l~~~~gk~vlv~f~a~~C~~c~~e~~~l~~l~~~~~~~g~~vvgv~~~~~~~-~~~~~~~~~~~~~ 88 (167)
T PLN02412 10 YDFTVKDIGGNDVSLNQYKGKVLLIVNVASKCGLTDSNYKELNVLYEKYKEQGFEILAFPCNQFLG-QEPGSNEEIQQTV 88 (167)
T ss_pred CceEEECCCCCEEeHHHhCCCEEEEEEeCCCCCChHHHHHHHHHHHHHHhhCCcEEEEeccccccc-CCCCCHHHHHHHH
Confidence 334444346789999999985433332 44444455456667788899999999999998743110 11111122222 2
Q ss_pred hhhhccceEEe----ec---chhhHHHHHHHHHH-Hc--CCCCCCCeEEEEeeCCeeecccCCCCcHHHHHhcC
Q 019918 252 TRKRKRLWQLT----PV---YVSEWSKWLDEQKR-TA--GISPESPVYLSLRLDGRVRGSGVGYPPWNAFVAQL 315 (334)
Q Consensus 252 ~~~~~~~w~A~----Pv---~~~eW~~wi~eQ~e-~A--gv~~~~gVyI~LrlDGRVr~SG~G~PpW~~lv~eL 315 (334)
..+..-.|-.. +- ....|. |+..+.. .- ++. ..+.-++|..||+|..+=.|..++.++.+.+
T Consensus 89 ~~~~~~~fpvl~~~d~~g~~~~~~~~-~~~~~~~~~~~~~v~-~~p~tflId~~G~vv~~~~g~~~~~~l~~~i 160 (167)
T PLN02412 89 CTRFKAEFPIFDKVDVNGKNTAPLYK-YLKAEKGGLFGDAIK-WNFTKFLVSKEGKVVQRYAPTTSPLKIEKDI 160 (167)
T ss_pred HHccCCCCceEeEEeeCCCCCCHHHH-HHHhhCCCCCCCCcC-CCCeeEEECCCCcEEEEECCCCCHHHHHHHH
Confidence 22222222221 11 122343 3333221 10 121 1356789999999999999999988776554
No 13
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=86.07 E-value=3.2 Score=31.06 Aligned_cols=45 Identities=20% Similarity=0.394 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCChHHhhhccchhHHHHHHHHHHHHHHhhhHHHHHHHHhhhh
Q 019918 96 VRMFFYLAFVASGSLGGLIAITQLIGALANPARAADVPEILKGLSIDVSAVSLFAFLYSRENKAKNAQLARLSREE 171 (334)
Q Consensus 96 lR~Ffy~af~aSa~iG~~i~~~rliaal~G~~~a~~l~e~l~nlaI~igava~f~~L~~~e~k~~~~qlarisREe 171 (334)
+=..+.++|+.++.+|.+++++..+. .+++.++.+++++++.+|-
T Consensus 20 l~l~il~~f~~G~llg~l~~~~~~~~-------------------------------~r~~~~~~~k~l~~le~e~ 64 (68)
T PF06305_consen 20 LGLLILIAFLLGALLGWLLSLPSRLR-------------------------------LRRRIRRLRKELKKLEKEL 64 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-------------------------------HHHHHHHHHHHHHHHHHHH
Confidence 33567778888888888888887777 6788888888888877663
No 14
>cd02971 PRX_family Peroxiredoxin (PRX) family; composed of the different classes of PRXs including many proteins originally known as bacterioferritin comigratory proteins (BCP), based on their electrophoretic mobility before their function was identified. PRXs are thiol-specific antioxidant (TSA) proteins also known as TRX peroxidases and alkyl hydroperoxide reductase C22 (AhpC) proteins. They confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either TRX, glutathione, trypanothione and AhpF. They are distinct from other peroxidases in that they have no cofactors such as metals or prosthetic groups. The first step of catalysis, common to all PRXs, is the nucleophilic attack by the catalytic cysteine (also known as the peroxidatic cysteine) on the peroxide leading to cleavage of the oxygen-oxygen bond and the formation of a
Probab=85.58 E-value=9.7 Score=31.00 Aligned_cols=110 Identities=14% Similarity=0.186 Sum_probs=66.2
Q ss_pred CCceeehhhhcccceEEEEe-c-CHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhhh-ccc
Q 019918 182 EKKIISVNNLRGIARLVICS-G-PASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKR-KRL 258 (334)
Q Consensus 182 ~~r~v~L~qLRg~aRvVIvA-G-~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~-~~~ 258 (334)
+++.+++.++++..-+|+.- + .-..+...+...+.+.+.|.+.++-+|-|..+. .+...++...- ...
T Consensus 11 ~g~~~~l~~~~gk~~ll~f~~~~~c~~C~~~~~~l~~~~~~~~~~~~~~i~is~d~---------~~~~~~~~~~~~~~~ 81 (140)
T cd02971 11 DGGEVSLSDFKGKWVVLFFYPKDFTPVCTTELCAFRDLAEEFAKGGAEVLGVSVDS---------PFSHKAWAEKEGGLN 81 (140)
T ss_pred CCcEEehHHhCCCeEEEEEeCCCCCCcCHHHHHHHHHHHHHHHHCCCEEEEEeCCC---------HHHHHHHHhcccCCC
Confidence 47899999997654444432 2 334555556666677777778888888887641 12333333332 334
Q ss_pred eEEeecchhhHHHHHHHHHHHcCCCC--------CCCeEEEEeeCCeeecccCCCCc
Q 019918 259 WQLTPVYVSEWSKWLDEQKRTAGISP--------ESPVYLSLRLDGRVRGSGVGYPP 307 (334)
Q Consensus 259 w~A~Pv~~~eW~~wi~eQ~e~Agv~~--------~~gVyI~LrlDGRVr~SG~G~Pp 307 (334)
| |+-.|......+ .-|+.. ..+..++|..+|+|+....|..|
T Consensus 82 ~---~~l~D~~~~~~~----~~g~~~~~~~~~~~~~p~~~lid~~g~i~~~~~~~~~ 131 (140)
T cd02971 82 F---PLLSDPDGEFAK----AYGVLIEKSAGGGLAARATFIIDPDGKIRYVEVEPLP 131 (140)
T ss_pred c---eEEECCChHHHH----HcCCccccccccCceeEEEEEECCCCcEEEEEecCCC
Confidence 4 333444442221 123321 12367899999999999999887
No 15
>cd03015 PRX_Typ2cys Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides. The functional unit of typical 2-cys PRX is a homodimer. A unique intermolecular redox-active disulfide center is utilized for its activity. Upon reaction with peroxides, its peroxidatic cysteine is oxidized into a sulfenic acid intermediate which is resolved by bonding with the resolving cysteine from the other subunit of the homodimer. This intermolecular disulfide bond is then reduced by thioredoxin, tryparedoxin or AhpF. Typical 2-cys PRXs, like 1-cys PRXs, form decamers which are stabilized by reduction of the active site cysteine. Typical 2-cys PRX interacts through beta strands at one edge of the monomer (B-type interface) to form the functional homodimer, and uses an A-type interface (similar to the dimeric
Probab=83.63 E-value=11 Score=32.70 Aligned_cols=119 Identities=13% Similarity=0.055 Sum_probs=68.8
Q ss_pred ceeehhhhcccceEEEEe--cC-HhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhhhc----
Q 019918 184 KIISVNNLRGIARLVICS--GP-ASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKRK---- 256 (334)
Q Consensus 184 r~v~L~qLRg~aRvVIvA--G~-~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~---- 256 (334)
+.++|.+++|.. +||.. ++ -......+...+.+.+++.+.||-||-|..|. .+...++....+
T Consensus 20 ~~~~l~~~~Gk~-vvl~F~~~~~c~~C~~~l~~l~~~~~~~~~~~v~vv~Is~d~---------~~~~~~~~~~~~~~~~ 89 (173)
T cd03015 20 KEISLSDYKGKW-VVLFFYPLDFTFVCPTEIIAFSDRYEEFKKLNAEVLGVSTDS---------HFSHLAWRNTPRKEGG 89 (173)
T ss_pred eEEehHHhCCCE-EEEEEECCCCCCcCHHHHHHHHHHHHHHHHCCCEEEEEecCC---------HHHHHHHHHhhhhhCC
Confidence 789999999843 34433 22 34566678888889999999999999987742 111111111100
Q ss_pred -cceEEeecchhhHHHHHHHHHHHcCCCC-----CCCeEEEEeeCCeeecccCCCC----cHHHHHhcCCC
Q 019918 257 -RLWQLTPVYVSEWSKWLDEQKRTAGISP-----ESPVYLSLRLDGRVRGSGVGYP----PWNAFVAQLPP 317 (334)
Q Consensus 257 -~~w~A~Pv~~~eW~~wi~eQ~e~Agv~~-----~~gVyI~LrlDGRVr~SG~G~P----pW~~lv~eLP~ 317 (334)
..+ -+|+-.|.= .+..+.-|+.. ..+-+++|..||+|+..-++.. +..++++.|..
T Consensus 90 ~~~~-~f~~l~D~~----~~~~~~~gv~~~~~~~~~p~~~lID~~G~I~~~~~~~~~~~~~~~~il~~l~~ 155 (173)
T cd03015 90 LGKI-NFPLLADPK----KKISRDYGVLDEEEGVALRGTFIIDPEGIIRHITVNDLPVGRSVDETLRVLDA 155 (173)
T ss_pred ccCc-ceeEEECCc----hhHHHHhCCccccCCceeeEEEEECCCCeEEEEEecCCCCCCCHHHHHHHHHH
Confidence 011 123332220 11112224421 2357999999999999986643 45666666543
No 16
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=82.10 E-value=9.9 Score=31.13 Aligned_cols=112 Identities=17% Similarity=0.143 Sum_probs=64.8
Q ss_pred CCceeehhhhcccceEEEE-ecCHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhhhccceE
Q 019918 182 EKKIISVNNLRGIARLVIC-SGPASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKRKRLWQ 260 (334)
Q Consensus 182 ~~r~v~L~qLRg~aRvVIv-AG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~~~w~ 260 (334)
+++.++|.++++..-++.. +-.-..+.+.+...+.+.+++.+.++-||.|..+.... + +..++..++.....-.
T Consensus 12 ~~~~v~l~~~~gk~vvl~F~a~~C~~C~~~~p~l~~l~~~~~~~~~~vi~i~~~~~~~--~-~~~~~~~~~~~~~~~~-- 86 (126)
T cd03012 12 TDKPLSLAQLRGKVVLLDFWTYCCINCLHTLPYLTDLEQKYKDDGLVVIGVHSPEFAF--E-RDLANVKSAVLRYGIT-- 86 (126)
T ss_pred CCCccCHHHhCCCEEEEEEECCCCccHHHHHHHHHHHHHHcCcCCeEEEEeccCcccc--c-cCHHHHHHHHHHcCCC--
Confidence 4688999999886544443 33335566777788888899999999999886521110 0 1122333333332222
Q ss_pred EeecchhhHHHHHHHHHHHcCCCCCCCeEEEEeeCCeeecccCC
Q 019918 261 LTPVYVSEWSKWLDEQKRTAGISPESPVYLSLRLDGRVRGSGVG 304 (334)
Q Consensus 261 A~Pv~~~eW~~wi~eQ~e~Agv~~~~gVyI~LrlDGRVr~SG~G 304 (334)
.|+..|. ..=+. +.-++. .-+-++++.+||+|+.+=.|
T Consensus 87 -~p~~~D~-~~~~~---~~~~v~-~~P~~~vid~~G~v~~~~~G 124 (126)
T cd03012 87 -YPVANDN-DYATW---RAYGNQ-YWPALYLIDPTGNVRHVHFG 124 (126)
T ss_pred -CCEEECC-chHHH---HHhCCC-cCCeEEEECCCCcEEEEEec
Confidence 3433221 00111 112342 34788999999999987665
No 17
>PTZ00256 glutathione peroxidase; Provisional
Probab=81.83 E-value=29 Score=30.81 Aligned_cols=142 Identities=12% Similarity=0.204 Sum_probs=81.8
Q ss_pred hhhcccceEEecCCceeehhhhcccceEEEE--ecCHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHH
Q 019918 170 EESLSNLKLRVDEKKIISVNNLRGIARLVIC--SGPASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEE 247 (334)
Q Consensus 170 Ee~L~rL~Vrl~~~r~v~L~qLRg~aRvVIv--AG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~ 247 (334)
++.+-.+.+.-.+++.++|+++||..=++++ |--=..+.+-+..-+.+.+.+.++|+-||-|..+.-. +.+....++
T Consensus 17 ~~~~p~f~l~d~~G~~vsLs~~~Gk~vvlv~n~atwCp~C~~e~p~l~~l~~~~~~~gv~vv~vs~~~~~-~~~~~~~~~ 95 (183)
T PTZ00256 17 TKSFFEFEAIDIDGQLVQLSKFKGKKAIIVVNVACKCGLTSDHYTQLVELYKQYKSQGLEILAFPCNQFM-EQEPWDEPE 95 (183)
T ss_pred CCcccceEeEcCCCCEEeHHHhCCCcEEEEEEECCCCCchHHHHHHHHHHHHHHhhCCcEEEEEeccccc-ccCCCCHHH
Confidence 4566666666556899999999986433333 2212344555556667778888899999988764210 111111123
Q ss_pred HHHHhhh-hccceEEeecch---------hhHHHHHHHHHHHcCCC----CCCC---eEEEEeeCCeeecccCCCCcHHH
Q 019918 248 MKEFTRK-RKRLWQLTPVYV---------SEWSKWLDEQKRTAGIS----PESP---VYLSLRLDGRVRGSGVGYPPWNA 310 (334)
Q Consensus 248 ~~~~~~~-~~~~w~A~Pv~~---------~eW~~wi~eQ~e~Agv~----~~~g---VyI~LrlDGRVr~SG~G~PpW~~ 310 (334)
..++..+ -.-.| |+.. ..=-+|+.++....+.. ..-+ -.++|.+||+|+.+=.|..++..
T Consensus 96 ~~~f~~~~~~~~f---pv~~d~d~~g~~~~~~~~~l~~~~~~~~~~~~~~~~iP~~~~tflID~~G~Iv~~~~g~~~~~~ 172 (183)
T PTZ00256 96 IKEYVQKKFNVDF---PLFQKIEVNGENTHEIYKYLRRNSELFQNNTNEARQIPWNFAKFLIDGQGKVVKYFSPKVNPNE 172 (183)
T ss_pred HHHHHHHhcCCCC---CCceEEecCCCCCCHHHHHHHhhCCCCcCccccCcccCcceEEEEECCCCCEEEEECCCCCHHH
Confidence 3333321 12222 3221 12235677765432211 1113 35899999999999999999988
Q ss_pred HHhcC
Q 019918 311 FVAQL 315 (334)
Q Consensus 311 lv~eL 315 (334)
+.+++
T Consensus 173 l~~~I 177 (183)
T PTZ00256 173 MIQDI 177 (183)
T ss_pred HHHHH
Confidence 76654
No 18
>TIGR02540 gpx7 putative glutathione peroxidase Gpx7. This model represents one of several families of known and probable glutathione peroxidases. This family is restricted to animals and designated GPX7.
Probab=80.53 E-value=35 Score=29.00 Aligned_cols=131 Identities=13% Similarity=0.244 Sum_probs=75.6
Q ss_pred eEEecCCceeehhhhcccceEEE--EecCHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhh
Q 019918 177 KLRVDEKKIISVNNLRGIARLVI--CSGPASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRK 254 (334)
Q Consensus 177 ~Vrl~~~r~v~L~qLRg~aRvVI--vAG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~ 254 (334)
.+.-.+|++++|++++|.. +|| .|-.=..+...+...+.+.+++...|+.||-|...- -...+.+..+...++..+
T Consensus 6 ~l~~~~G~~~~l~~~~Gk~-vvv~~~as~C~~c~~~~~~l~~l~~~~~~~~~~v~~i~~~~-~~~~~~d~~~~~~~f~~~ 83 (153)
T TIGR02540 6 EVKDARGRTVSLEKYRGKV-SLVVNVASECGFTDQNYRALQELHRELGPSHFNVLAFPCNQ-FGESEPDSSKEIESFARR 83 (153)
T ss_pred eeECCCCCEecHHHhCCCE-EEEEEeCCCCCchhhhHHHHHHHHHHHhhCCeEEEEEeccc-cccCCCCCHHHHHHHHHH
Confidence 3333457899999999965 333 333334455666677788888888999998887411 000112223444555433
Q ss_pred -hccceEEeecchh----------hHHHHHHHHHHHcCCCCC-CCeEEEEeeCCeeecccCCCCcHHHHHhcCC
Q 019918 255 -RKRLWQLTPVYVS----------EWSKWLDEQKRTAGISPE-SPVYLSLRLDGRVRGSGVGYPPWNAFVAQLP 316 (334)
Q Consensus 255 -~~~~w~A~Pv~~~----------eW~~wi~eQ~e~Agv~~~-~gVyI~LrlDGRVr~SG~G~PpW~~lv~eLP 316 (334)
-.-. .|+..+ .. .|..+. ..+. |. .=-.++|.+||+|+..=.|..++..|..++.
T Consensus 84 ~~~~~---fp~~~d~~~~~~~~~~~~-~~~~~~--~~~~-p~~~~~tflID~~G~v~~~~~g~~~~~~l~~~i~ 150 (153)
T TIGR02540 84 NYGVT---FPMFSKIKILGSEAEPAF-RFLVDS--SKKE-PRWNFWKYLVNPEGQVVKFWRPEEPVEEIRPEIT 150 (153)
T ss_pred hcCCC---CCccceEecCCCCCCcHH-HHHHhc--CCCC-CCCccEEEEEcCCCcEEEEECCCCCHHHHHHHHH
Confidence 1222 333211 12 233221 1111 21 0027889999999999999999998877654
No 19
>cd00340 GSH_Peroxidase Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per subunit, which is involved in catalysis. Different isoenzymes are known in mammals,which are involved in protection against reactive oxygen species, redox regulation of many metabolic processes, peroxinitrite scavenging, and modulation of inflammatory processes.
Probab=80.39 E-value=35 Score=28.99 Aligned_cols=130 Identities=15% Similarity=0.128 Sum_probs=72.5
Q ss_pred cCCceeehhhhcccceEEEE-ecCHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhh-hccc
Q 019918 181 DEKKIISVNNLRGIARLVIC-SGPASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRK-RKRL 258 (334)
Q Consensus 181 ~~~r~v~L~qLRg~aRvVIv-AG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~-~~~~ 258 (334)
-+++.++|.+++|..-++.. |-.-. +...+..-+.+.+++.+.|+.||.|..+.. ...+.+..++..++..+ ..-.
T Consensus 10 ~~G~~v~l~~~~Gk~vvl~fwatwC~-C~~e~p~l~~l~~~~~~~~~~vv~v~~~~~-~~~~~~~~~~~~~f~~~~~~~~ 87 (152)
T cd00340 10 IDGEPVSLSKYKGKVLLIVNVASKCG-FTPQYEGLEALYEKYKDRGLVVLGFPCNQF-GGQEPGSNEEIKEFCETNYGVT 87 (152)
T ss_pred CCCCEEeHHHhCCCEEEEEEEcCCCC-chHHHHHHHHHHHHhcCCCEEEEEeccCcc-ccCCCCCHHHHHHHHHHhcCCC
Confidence 35789999999985433332 22223 666667777788888889999999976431 01112223455565544 2323
Q ss_pred eEEe--e-c-c---hhhHHHHHHHHHH-Hc-CCCCCCCeEEEEeeCCeeecccCCCCcHHHHHh
Q 019918 259 WQLT--P-V-Y---VSEWSKWLDEQKR-TA-GISPESPVYLSLRLDGRVRGSGVGYPPWNAFVA 313 (334)
Q Consensus 259 w~A~--P-v-~---~~eW~~wi~eQ~e-~A-gv~~~~gVyI~LrlDGRVr~SG~G~PpW~~lv~ 313 (334)
|-.. + . . ...|.-++ ...- .. ....-..-.+.+..||+|+.+=.|..++..+.+
T Consensus 88 fp~~~d~d~~~~~~~~~~~~~~-~~~p~~~~~~~~~~~ttflId~~G~i~~~~~G~~~~~~l~~ 150 (152)
T cd00340 88 FPMFAKIDVNGENAHPLYKYLK-EEAPGLLGKDIKWNFTKFLVDRDGEVVKRFAPTTDPEELEK 150 (152)
T ss_pred ceeeeeEeccCCCCChHHHHHH-hcCCCCCCCccccccEEEEECCCCcEEEEECCCCCHHHHHh
Confidence 3221 0 0 0 11222211 1110 00 000001258999999999999999888887654
No 20
>PRK10606 btuE putative glutathione peroxidase; Provisional
Probab=78.40 E-value=17 Score=33.17 Aligned_cols=59 Identities=10% Similarity=0.311 Sum_probs=39.5
Q ss_pred cceEEecCCceeehhhhcccceEEE-EecCHhHHHHHHhhchhhHHHHhhcCcEEEEEeeC
Q 019918 175 NLKLRVDEKKIISVNNLRGIARLVI-CSGPASYIMESFKRSEPFTESLLERGVLVVSFTTD 234 (334)
Q Consensus 175 rL~Vrl~~~r~v~L~qLRg~aRvVI-vAG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~d 234 (334)
.+.+.--+++.++|+++||..=+|+ .|-.-... ..+...+.+.+++.+.|+.|+-|..+
T Consensus 7 ~f~~~~~~G~~v~Ls~~~GKvvLVvf~AS~C~~~-~q~~~L~~L~~~y~~~gl~Vlg~p~n 66 (183)
T PRK10606 7 TTVVTTIDGEVTTLEKYAGNVLLIVNVASKCGLT-PQYEQLENIQKAWADQGFVVLGFPCN 66 (183)
T ss_pred CcEeECCCCCEEeHHHhCCCEEEEEEEeCCCCCc-HHHHHHHHHHHHHhhCCeEEEEeecc
Confidence 3445444578999999999643333 33222233 34667778888888999999888873
No 21
>cd03009 TryX_like_TryX_NRX Tryparedoxin (TryX)-like family, TryX and nucleoredoxin (NRX) subfamily; TryX and NRX are thioredoxin (TRX)-like protein disulfide oxidoreductases that alter the redox state of target proteins via the reversible oxidation of an active center CXXC motif. TryX is involved in the regulation of oxidative stress in parasitic trypanosomatids by reducing TryX peroxidase, which in turn catalyzes the reduction of hydrogen peroxide and organic hydroperoxides. TryX derives reducing equivalents from reduced trypanothione, a polyamine peptide conjugate unique to trypanosomatids, which is regenerated by the NADPH-dependent flavoprotein trypanothione reductase. Vertebrate NRX is a 400-amino acid nuclear protein with one redox active TRX domain containing a CPPC active site motif followed by one redox inactive TRX-like domain. Mouse NRX transcripts are expressed in all adult tissues but is restricted to the nervous system and limb buds in embryos. Plant NRX, longer than the
Probab=73.28 E-value=49 Score=26.97 Aligned_cols=107 Identities=22% Similarity=0.259 Sum_probs=59.9
Q ss_pred CCceeehhhhcccceEEEEecC-HhHHHHHHhhchhhHHHHhhc--CcEEEEEeeCCCCCCCCccchHHHHHHhhhhccc
Q 019918 182 EKKIISVNNLRGIARLVICSGP-ASYIMESFKRSEPFTESLLER--GVLVVSFTTDGNIPSFEFEESEEMKEFTRKRKRL 258 (334)
Q Consensus 182 ~~r~v~L~qLRg~aRvVIvAG~-~e~V~~al~~Ae~~r~~L~~r--gVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~~~ 258 (334)
+|+.+++.++++..-+|..-.+ =....+.+...+.+.+++.+. ++-||.|..|.+ .++..+... +..
T Consensus 7 ~G~~v~l~~~~gk~vll~Fwa~wC~~C~~~~p~l~~~~~~~~~~~~~~~vv~is~d~~--------~~~~~~~~~--~~~ 76 (131)
T cd03009 7 DGGKVPVSSLEGKTVGLYFSASWCPPCRAFTPKLVEFYEKLKESGKNFEIVFISWDRD--------EESFNDYFS--KMP 76 (131)
T ss_pred CCCCccHHHhCCcEEEEEEECCCChHHHHHhHHHHHHHHHHHhcCCCEEEEEEECCCC--------HHHHHHHHH--cCC
Confidence 5799999999997544444333 223333333444455566654 677777777542 122222222 245
Q ss_pred eEEeecchhhHHHHHHHHHHHcCCCCCCCeEEEEeeCCeeeccc
Q 019918 259 WQLTPVYVSEWSKWLDEQKRTAGISPESPVYLSLRLDGRVRGSG 302 (334)
Q Consensus 259 w~A~Pv~~~eW~~wi~eQ~e~Agv~~~~gVyI~LrlDGRVr~SG 302 (334)
|...|...++-..-+. +.-++ ..-+.++++..||+|..+.
T Consensus 77 ~~~~~~~~~~~~~~~~---~~~~v-~~~P~~~lid~~G~i~~~~ 116 (131)
T cd03009 77 WLAVPFSDRERRSRLN---RTFKI-EGIPTLIILDADGEVVTTD 116 (131)
T ss_pred eeEcccCCHHHHHHHH---HHcCC-CCCCEEEEECCCCCEEccc
Confidence 7666654322222222 22355 2358899999999998764
No 22
>cd03014 PRX_Atyp2cys Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a bacterial periplasmic peroxidase which differs from other PRXs in that it shows substrate specificity toward alkyl hydroperoxides over hydrogen peroxide. As with all other PRXs, the peroxidatic cysteine (N-terminal) of Tpx is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Tpx is able to resolve this intermediate by forming an intramolecular disulfide bond with a conserved C-terminal cysteine (the resolving cysteine), which can then be reduced by thioredoxin. This differs from the typical 2-cys PRX which resolves the oxidized cysteine by forming an intermolecular disulfide bond with the resolving cysteine from the other subunit of the homodimer. Atypical 2-cys PRX homodimers have a loop-based
Probab=72.12 E-value=35 Score=28.19 Aligned_cols=112 Identities=10% Similarity=0.062 Sum_probs=60.8
Q ss_pred cCCceeehhhhcccceEEE-EecC-HhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhhhccc
Q 019918 181 DEKKIISVNNLRGIARLVI-CSGP-ASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKRKRL 258 (334)
Q Consensus 181 ~~~r~v~L~qLRg~aRvVI-vAG~-~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~~~ 258 (334)
.+++.++|.++++..-|+. .++. -..+...+..-+.+.+++ .|+.||-|..|. .+...++..+-.
T Consensus 14 ~~g~~~~l~~~~gk~vvl~f~~~~~c~~C~~e~~~l~~~~~~~--~~~~vi~Is~d~---------~~~~~~~~~~~~-- 80 (143)
T cd03014 14 SDLSEVSLADFAGKVKVISVFPSIDTPVCATQTKRFNKEAAKL--DNTVVLTISADL---------PFAQKRWCGAEG-- 80 (143)
T ss_pred CCCcEEeHHHhCCCeEEEEEEcCCCCCcCHHHHHHHHHHHHhc--CCCEEEEEECCC---------HHHHHHHHHhcC--
Confidence 4478999999998643333 3433 255666676666666665 389888887642 111222221111
Q ss_pred eEEeecchhh-HHHHHHHHHHHcCCCC-----CCCeEEEEeeCCeeecccCCCCcHH
Q 019918 259 WQLTPVYVSE-WSKWLDEQKRTAGISP-----ESPVYLSLRLDGRVRGSGVGYPPWN 309 (334)
Q Consensus 259 w~A~Pv~~~e-W~~wi~eQ~e~Agv~~-----~~gVyI~LrlDGRVr~SG~G~PpW~ 309 (334)
..-.|+-.+. ..+. .+.-|+.. ..+.+++|..||+|+..-.|..+|.
T Consensus 81 ~~~~~~l~D~~~~~~----~~~~gv~~~~~~~~~~~~~iid~~G~I~~~~~~~~~~~ 133 (143)
T cd03014 81 VDNVTTLSDFRDHSF----GKAYGVLIKDLGLLARAVFVIDENGKVIYVELVPEITD 133 (143)
T ss_pred CCCceEeecCcccHH----HHHhCCeeccCCccceEEEEEcCCCeEEEEEECCCccc
Confidence 0011221111 0111 11113211 1357889999999999998876654
No 23
>PRK15412 thiol:disulfide interchange protein DsbE; Provisional
Probab=71.13 E-value=43 Score=29.66 Aligned_cols=116 Identities=12% Similarity=0.179 Sum_probs=61.0
Q ss_pred Cceeehhhh-cccceEEEEecCHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhhhccceEE
Q 019918 183 KKIISVNNL-RGIARLVICSGPASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKRKRLWQL 261 (334)
Q Consensus 183 ~r~v~L~qL-Rg~aRvVIvAG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~~~w~A 261 (334)
++.+++.++ ++..-+|..-. ..+.-. +.-.|.-++|.+.|+-|+-|..+. ..++..++.....-.|-.
T Consensus 57 g~~~~~~~~~~gk~vvv~Fwa--twC~~C-~~e~p~l~~l~~~~~~vi~v~~~~--------~~~~~~~~~~~~~~~~~~ 125 (185)
T PRK15412 57 GQFYQADVLTQGKPVLLNVWA--TWCPTC-RAEHQYLNQLSAQGIRVVGMNYKD--------DRQKAISWLKELGNPYAL 125 (185)
T ss_pred CccccHHHhcCCCEEEEEEEC--CCCHHH-HHHHHHHHHHHHcCCEEEEEECCC--------CHHHHHHHHHHcCCCCce
Confidence 466777776 45443333332 222222 222233355667799888887642 112333333332222221
Q ss_pred eecchhhHHHHHHHHHHHcCCCCCCCeEEEEeeCCeeecccCCCCcHHHHHhcCC
Q 019918 262 TPVYVSEWSKWLDEQKRTAGISPESPVYLSLRLDGRVRGSGVGYPPWNAFVAQLP 316 (334)
Q Consensus 262 ~Pv~~~eW~~wi~eQ~e~Agv~~~~gVyI~LrlDGRVr~SG~G~PpW~~lv~eLP 316 (334)
...+.+. . + .+.-|+. .-+..+++..||+|+..-.|..++..+-+.+.
T Consensus 126 ~~~D~~~--~-~---~~~~gv~-~~P~t~vid~~G~i~~~~~G~~~~~~l~~~i~ 173 (185)
T PRK15412 126 SLFDGDG--M-L---GLDLGVY-GAPETFLIDGNGIIRYRHAGDLNPRVWESEIK 173 (185)
T ss_pred EEEcCCc--c-H---HHhcCCC-cCCeEEEECCCceEEEEEecCCCHHHHHHHHH
Confidence 1111110 0 0 0112453 36889999999999999999999887755543
No 24
>cd02970 PRX_like2 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these proteins do not contain the other two residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. TRXs alter the redox state of target proteins by catalyzing the reduction of their disulfide bonds via the CXXC motif using reducing equivalents derived from either NADPH or ferredoxins.
Probab=66.83 E-value=64 Score=26.29 Aligned_cols=54 Identities=15% Similarity=0.202 Sum_probs=39.2
Q ss_pred CCceeehhhhcccceEEE-E--ecCHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCC
Q 019918 182 EKKIISVNNLRGIARLVI-C--SGPASYIMESFKRSEPFTESLLERGVLVVSFTTDG 235 (334)
Q Consensus 182 ~~r~v~L~qLRg~aRvVI-v--AG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg 235 (334)
+++.+++.++++...+|| . +-.=..+.+-+...+.+.+++.+.||-||-|..+.
T Consensus 11 ~g~~~~l~~~~~~~~~vl~f~~~~~Cp~C~~~~~~l~~~~~~~~~~~v~vv~V~~~~ 67 (149)
T cd02970 11 GGETVTLSALLGEGPVVVVFYRGFGCPFCREYLRALSKLLPELDALGVELVAVGPES 67 (149)
T ss_pred CCCEEchHHHhcCCCEEEEEECCCCChhHHHHHHHHHHHHHHHHhcCeEEEEEeCCC
Confidence 478899999876444333 3 22345666777778888899999999999998753
No 25
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=66.81 E-value=35 Score=28.63 Aligned_cols=73 Identities=14% Similarity=0.172 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHhhcCCCCCCChHHhhhccchhHHHHHHHHHHHHHHhhhHHHHHHHHhhhhhcc
Q 019918 97 RMFFYLAFVASGSL-GGLIAITQLIGALANPARAADVPEILKGLSIDVSAVSLFAFLYSRENKAKNAQLARLSREESLS 174 (334)
Q Consensus 97 R~Ffy~af~aSa~i-G~~i~~~rliaal~G~~~a~~l~e~l~nlaI~igava~f~~L~~~e~k~~~~qlarisREe~L~ 174 (334)
..++|..++....+ +.+=-+...+|.+-|-..++++- +.+-+.++.+..+-.....++.++++.+++||-+|.
T Consensus 32 ~~l~Wl~~~i~~l~~~ifP~~~~~vA~~lGi~~~~n~l-----f~~~i~~ll~~~~~l~~~is~le~~i~~L~qeiAl~ 105 (115)
T PF10066_consen 32 YSLLWLVFSIILLILSIFPNILDWVAKLLGIGRPPNLL-----FYLGILFLLVIIFSLYVRISRLEEKIKRLAQEIALL 105 (115)
T ss_pred HHHHHHHHHHHHHHHHhhhhHHHHHHHHHCCCchhHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566666555433 33334455556666766655443 222233333334444567777889999999998876
No 26
>PRK13728 conjugal transfer protein TrbB; Provisional
Probab=65.51 E-value=45 Score=30.73 Aligned_cols=106 Identities=12% Similarity=0.146 Sum_probs=66.8
Q ss_pred cCCceeehhhhcccceEEEE-ecCHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhhhccce
Q 019918 181 DEKKIISVNNLRGIARLVIC-SGPASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKRKRLW 259 (334)
Q Consensus 181 ~~~r~v~L~qLRg~aRvVIv-AG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~~~w 259 (334)
.+|+.+++++++ +|.. +..=.++.+-+-.-+.+.++ .++-|++|.+|+.. ..
T Consensus 61 ~dG~~v~lsd~~----lV~FwaswCp~C~~e~P~L~~l~~~---~g~~Vi~Vs~D~~~-~~------------------- 113 (181)
T PRK13728 61 SNGRQVNLADWK----VVLFMQGHCPYCHQFDPVLKQLAQQ---YGFSVFPYTLDGQG-DT------------------- 113 (181)
T ss_pred CCCCEeehhHce----EEEEECCCCHhHHHHHHHHHHHHHH---cCCEEEEEEeCCCC-CC-------------------
Confidence 478999999998 5554 44345555555444444444 38999999987532 11
Q ss_pred EEeecchhhHHHHHHHHHHHcCC-CCCCCeEEEEeeCCeee-cccCCCCcHHHHHhcCCC
Q 019918 260 QLTPVYVSEWSKWLDEQKRTAGI-SPESPVYLSLRLDGRVR-GSGVGYPPWNAFVAQLPP 317 (334)
Q Consensus 260 ~A~Pv~~~eW~~wi~eQ~e~Agv-~~~~gVyI~LrlDGRVr-~SG~G~PpW~~lv~eLP~ 317 (334)
..|+..+.=..++.+ .-|+ ...-+-.+.+.+||+|. ...+|...++++.+.+-.
T Consensus 114 -~fPv~~dd~~~~~~~---~~g~~~~~iPttfLId~~G~i~~~~~~G~~~~~~L~~~I~~ 169 (181)
T PRK13728 114 -AFPEALPAPPDVMQT---FFPNIPVATPTTFLVNVNTLEALPLLQGATDAAGFMARMDT 169 (181)
T ss_pred -CCceEecCchhHHHH---HhCCCCCCCCeEEEEeCCCcEEEEEEECCCCHHHHHHHHHH
Confidence 234432100122322 2243 34568899999999996 689999999988665443
No 27
>PF12666 PrgI: PrgI family protein; InterPro: IPR024414 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 116 and 146 amino acids in length. PrgI is found encoded on plasmids of Enterococcus faecalis, its function is not known.
Probab=60.33 E-value=33 Score=27.30 Aligned_cols=68 Identities=16% Similarity=0.246 Sum_probs=41.3
Q ss_pred HHhCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCChHHhhhccchhHHHHHHHHHHHHHHhhhHHHHHHHH
Q 019918 88 EVLSPFRSVRMFFYLAFVASGSLGGLIAITQLIGALANPARAADVPEILKGLSIDVSAVSLFAFLYSRENKAKNAQLARL 167 (334)
Q Consensus 88 Ea~aPfR~lR~Ffy~af~aSa~iG~~i~~~rliaal~G~~~a~~l~e~l~nlaI~igava~f~~L~~~e~k~~~~qlari 167 (334)
.+--.+ +.|++++.+.++..++|.+..+...+. .+..-=+.+=+.+...+..+++.|.-.-|+-+...
T Consensus 12 ki~~Gl-T~RQl~~l~~~~~~~~~~~~~~~~~l~-----------~~~~~~~~i~~~~p~~~~g~~k~~gl~~e~~l~~~ 79 (93)
T PF12666_consen 12 KIFFGL-TLRQLICLAIGALVGVGVYLLLWFFLG-----------PDIASWIMIPIALPFAFLGFFKKDGLPLEKYLKYA 79 (93)
T ss_pred hhccCC-CHHHHHHHHHHHHHHHHHHHHHHHhcc-----------HHHHHHHHHHHHHHHHHhHhhhhcCCCHHHHHHHH
Confidence 345577 999999999999999887777644442 22222333434444455555555554445555443
No 28
>PF00255 GSHPx: Glutathione peroxidase; InterPro: IPR000889 Glutathione peroxidase (GSHPx) (1.11.1.9 from EC) is an enzyme that catalyses the reduction of hydroxyperoxides by glutathione [, ]. Its main function is to protect against the damaging effect of endogenously formed hydroxyperoxides. In higher vertebrates, several forms of GSHPx are known, including a ubiquitous cytosolic form (GSHPx-1), a gastrointestinal cytosolic form (GSHPx-GI), a plasma secreted form (GSHPx-P), and an epididymal secretory form (GSHPx-EP). In addition to these characterised forms, the sequence of a protein of unknown function [] has been shown to be evolutionary related to those of GSHPx's. In filarial nematode parasites, the major soluble cuticular protein (gp29) is a secreted GSHPx, which may provide a mechanism of resistance to the immune reaction of the mammalian host by neutralising the products of the oxidative burst of leukocytes []. The Escherichia coli protein btuE, a periplasmic protein involved in vitamin B12 transport, is evolutionarily related to GSHPxs, although the significance of this relationship is unclear. The structure of bovine seleno-glutathione peroxidase has been determined []. The protein belongs to the alpha-beta class, with a 3 layer(aba) sandwich architecture. The catalyic site of GSHPx contains a conserved residue which is either a cysteine or, in many eukaryotic GSHPx, a selenocysteine []. ; GO: 0004602 glutathione peroxidase activity, 0006979 response to oxidative stress, 0055114 oxidation-reduction process; PDB: 3E0U_A 2VUP_A 2RM5_A 2RM6_A 3DWV_B 2P31_B 2R37_B 1GP1_B 2F8A_B 3KIJ_C ....
Probab=60.21 E-value=42 Score=28.38 Aligned_cols=57 Identities=16% Similarity=0.378 Sum_probs=44.4
Q ss_pred ceEEecCCceeehhhhcccceEEE-EecCHhHHHHHHhhchhhHHHHhhcCcEEEEEee
Q 019918 176 LKLRVDEKKIISVNNLRGIARLVI-CSGPASYIMESFKRSEPFTESLLERGVLVVSFTT 233 (334)
Q Consensus 176 L~Vrl~~~r~v~L~qLRg~aRvVI-vAG~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~ 233 (334)
+.+.--+|+.++|+++||..=+|+ +|-.-.+-. -....+.+.+.+..+|..|+.++.
T Consensus 4 f~~~~~~G~~v~l~~y~Gkv~LIVNvAs~Cg~t~-qy~~L~~L~~ky~~~gl~ILaFPc 61 (108)
T PF00255_consen 4 FSAKDIDGKPVSLSKYKGKVLLIVNVASKCGYTK-QYKQLNELYEKYKDKGLEILAFPC 61 (108)
T ss_dssp SEEEBTTSSEEEGGGGTTSEEEEEEEESSSTTHH-HHHHHHHHHHHHGGGTEEEEEEEB
T ss_pred eeeeCCCCCEECHHHcCCCEEEEEecccccCCcc-ccHHHHHHHHHHhcCCeEEEeeeh
Confidence 345545689999999999876666 554444444 777889999999999999999998
No 29
>PLN02399 phospholipid hydroperoxide glutathione peroxidase
Probab=59.91 E-value=1.4e+02 Score=28.37 Aligned_cols=141 Identities=13% Similarity=0.175 Sum_probs=76.4
Q ss_pred hhcccceEEecCCceeehhhhcccceEEEEecC-HhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHH
Q 019918 171 ESLSNLKLRVDEKKIISVNNLRGIARLVICSGP-ASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMK 249 (334)
Q Consensus 171 e~L~rL~Vrl~~~r~v~L~qLRg~aRvVIvAG~-~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~ 249 (334)
+.+-.+.+.--+|+.++|.+++|..-||..-.+ =..+..-+..-+.+.+++.+.|+-||-|..+.-. +.+.+..++..
T Consensus 77 ~~aPdF~l~d~~G~~vsLsd~kGK~vvl~FwAswCp~c~~e~p~L~~L~~~~~~~Gv~VIgV~~d~~~-~~e~~s~~ei~ 155 (236)
T PLN02399 77 KSVHDFTVKDIDGKDVALSKFKGKVLLIVNVASKCGLTSSNYSELSHLYEKYKTQGFEILAFPCNQFG-GQEPGSNPEIK 155 (236)
T ss_pred CCCCceEEECCCCCEEeHHHhCCCeEEEEEEcCCCcchHHHHHHHHHHHHHHhcCCcEEEEEeccccc-ccCCCCHHHHH
Confidence 344455555456899999999995433332222 2223333445667777888889999988874211 11222233444
Q ss_pred HHhh-hhccceEEe-ecchh------hHHHHHHHHHHHcC-CC----CCCCeEEEEeeCCeeecccCCCCcHHHHHhcCC
Q 019918 250 EFTR-KRKRLWQLT-PVYVS------EWSKWLDEQKRTAG-IS----PESPVYLSLRLDGRVRGSGVGYPPWNAFVAQLP 316 (334)
Q Consensus 250 ~~~~-~~~~~w~A~-Pv~~~------eW~~wi~eQ~e~Ag-v~----~~~gVyI~LrlDGRVr~SG~G~PpW~~lv~eLP 316 (334)
++.. +-+-.|-.. ..+.+ .+ .|+.. ..+ +. ...+..++|.+||+|..+=.|..++.+|.+.+.
T Consensus 156 ~f~~~~~g~~fPvl~~~D~~G~~~~~~y-~~l~~---~~~~~~g~~i~~~PttfLIDk~GkVv~~~~G~~~~~~le~~I~ 231 (236)
T PLN02399 156 QFACTRFKAEFPIFDKVDVNGPSTAPVY-QFLKS---NAGGFLGDLIKWNFEKFLVDKNGKVVERYPPTTSPFQIEKDIQ 231 (236)
T ss_pred HHHHHhcCCCCccccccCCCcchhhHHH-HHHHH---hcCCccCCccccCceEEEECCCCcEEEEECCCCCHHHHHHHHH
Confidence 5442 222222110 11111 12 12211 122 11 113468899999999999999988887766543
No 30
>COG0641 AslB Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]
Probab=55.95 E-value=11 Score=38.18 Aligned_cols=78 Identities=22% Similarity=0.344 Sum_probs=51.3
Q ss_pred EEEeeCCCCCCCCccc-hHHHH--HHhhhhccceEEeecc------hhhHHHHHHHHHHHcCCCCCCCeEEEEeeCC---
Q 019918 229 VSFTTDGNIPSFEFEE-SEEMK--EFTRKRKRLWQLTPVY------VSEWSKWLDEQKRTAGISPESPVYLSLRLDG--- 296 (334)
Q Consensus 229 VPV~~dg~sp~~~f~~-~e~~~--~~~~~~~~~w~A~Pv~------~~eW~~wi~eQ~e~Agv~~~~gVyI~LrlDG--- 296 (334)
|-|.|.|..|..-+.. -+.+. +..-+. .++...-.. +++|.+++.+ .++.|++.+||
T Consensus 58 v~~~w~GGEPlL~~~~f~~~~~~l~~k~~~-~~~i~~siqTNg~LL~~e~~e~l~~----------~~~~IgISiDGp~e 126 (378)
T COG0641 58 VTFTWQGGEPLLAGLDFYRKAVALQQKYAN-GKTISNALQTNGTLLNDEWAEFLAE----------HDFLIGISIDGPEE 126 (378)
T ss_pred eEEEEECCccccchHHHHHHHHHHHHHHhc-CCeeEEEEEEcccccCHHHHHHHHh----------cCceEEEeccCchH
Confidence 8899988888765332 11111 111112 344443332 6889999887 67799999999
Q ss_pred -----eeecccCCCCcHHHHHhcCCCcc
Q 019918 297 -----RVRGSGVGYPPWNAFVAQLPPVK 319 (334)
Q Consensus 297 -----RVr~SG~G~PpW~~lv~eLP~~~ 319 (334)
|+.++|.|+ |++++.-|.-++
T Consensus 127 ihD~~R~~~~GkgT--fd~i~~~i~~L~ 152 (378)
T COG0641 127 IHDKYRVTKSGKGT--FDRVMKGLELLQ 152 (378)
T ss_pred hccccccCCCCCcc--HHHHHHHHHHHH
Confidence 788888777 999988765544
No 31
>PF02630 SCO1-SenC: SCO1/SenC; InterPro: IPR003782 This family is involved in biogenesis of respiratory and photosynthetic systems. In yeast the SCO1 protein is specifically required for a post-translational step in the accumulation of subunits 1 and 2 of cytochrome c oxidase (COXI and COX-II) []. It is a mitochondrion-associated cytochrome c oxidase assembly factor. The purple nonsulphur photosynthetic eubacterium Rhodobacter capsulatus is a versatile organism that can obtain cellular energy by several means, including the capture of light energy for photosynthesis as well as the use of light-independent respiration, in which molecular oxygen serves as a terminal electron acceptor. The SenC protein is required for optimal cytochrome c oxidase activity in aerobically grown R. capsulatus cells and is involved in the induction of structural polypeptides of the light-harvesting and reaction centre complexes [].; PDB: 2K6V_A 3ME8_A 3ME7_A 2GT6_A 2GQL_A 2GQK_A 2GGT_B 1WP0_C 2HRN_A 2GQM_A ....
Probab=55.32 E-value=68 Score=28.46 Aligned_cols=124 Identities=18% Similarity=0.246 Sum_probs=68.0
Q ss_pred hhhhcccceEEecCCceeehhhhcccceEEE--EecCHhHHHHHHhhchhhHHHHhhc--CcEEEEEeeCCCCCCCCccc
Q 019918 169 REESLSNLKLRVDEKKIISVNNLRGIARLVI--CSGPASYIMESFKRSEPFTESLLER--GVLVVSFTTDGNIPSFEFEE 244 (334)
Q Consensus 169 REe~L~rL~Vrl~~~r~v~L~qLRg~aRvVI--vAG~~e~V~~al~~Ae~~r~~L~~r--gVLVVPV~~dg~sp~~~f~~ 244 (334)
.........+.=.+|+++++.+|+|...+|- -+.-...+-..+..-....+.|.+. +|-+|-|.+|-+. +.
T Consensus 28 ~~~~~~~f~L~d~~G~~~~~~~~~Gk~~lv~F~yT~CpdvCp~~l~~l~~~~~~l~~~~~~v~~v~ISvDP~~-----DT 102 (174)
T PF02630_consen 28 NPRIVPDFTLTDQDGKTVTLDDLKGKWVLVFFGYTRCPDVCPTTLANLSQLQKQLGEEGKDVQFVFISVDPER-----DT 102 (174)
T ss_dssp TSCSSST-EEEETTSSEEEGGGGTTSEEEEEEE-TTSSSHHHHHHHHHHHHHHHHHHTTTTEEEEEEESSTTT-----C-
T ss_pred CCccCCCcEEEcCCCCEecHHHhCCCeEEEEEEEcCCCccCHHHHHHHHHHHHHhhhccCceEEEEEEeCCCC-----CC
Confidence 4444455555446799999999999765443 3344556666777666666777764 5667777665321 11
Q ss_pred hHHHHHHhhhhccceEEeecchhhHHHHHHHHHHHcCC-----C---C-------CCCeEEEEeeCCeeecc
Q 019918 245 SEEMKEFTRKRKRLWQLTPVYVSEWSKWLDEQKRTAGI-----S---P-------ESPVYLSLRLDGRVRGS 301 (334)
Q Consensus 245 ~e~~~~~~~~~~~~w~A~Pv~~~eW~~wi~eQ~e~Agv-----~---~-------~~gVyI~LrlDGRVr~S 301 (334)
.+..++.+..-...|..+--..+ -+++-.+.-++ . + -+..+..|..||||++.
T Consensus 103 p~~L~~Y~~~~~~~~~~ltg~~~----~i~~l~~~~~v~~~~~~~~~~~~~~~i~Hs~~~~Lidp~G~i~~~ 170 (174)
T PF02630_consen 103 PEVLKKYAKKFGPDFIGLTGSRE----EIEELAKQFGVYYEKVPEDKPEGDYQIDHSAFIYLIDPDGRIRAI 170 (174)
T ss_dssp HHHHHHHHHCHTTTCEEEEEEHH----HHHHHHHHCTHCEEEEESSSTTSCEEEEESSEEEEE-TTSEEEEE
T ss_pred HHHHHHHHHhcCCCcceeEeCHH----HHHHHHHHHHhhhcccccccCCCCceEecccEEEEEcCCCcEEEE
Confidence 23445555444445555432221 23332222111 0 1 13467789999999863
No 32
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=53.94 E-value=84 Score=24.79 Aligned_cols=54 Identities=17% Similarity=0.355 Sum_probs=43.4
Q ss_pred cCCceeehhhhcccceEEEEecC--HhHHHHHHhhchhhHHHHhhcCcEEEEEeeC
Q 019918 181 DEKKIISVNNLRGIARLVICSGP--ASYIMESFKRSEPFTESLLERGVLVVSFTTD 234 (334)
Q Consensus 181 ~~~r~v~L~qLRg~aRvVIvAG~--~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~d 234 (334)
.+++.++|.+|++..-++....+ -.+....+...+.+.+++.+.|+-||-|.++
T Consensus 13 ~~g~~~~l~~l~gk~~vl~f~~~~~c~~c~~~l~~l~~~~~~~~~~~~~vi~is~d 68 (124)
T PF00578_consen 13 SDGKTVSLSDLKGKPVVLFFWPTAWCPFCQAELPELNELYKKYKDKGVQVIGISTD 68 (124)
T ss_dssp TTSEEEEGGGGTTSEEEEEEESTTTSHHHHHHHHHHHHHHHHHHTTTEEEEEEESS
T ss_pred CCCCEEEHHHHCCCcEEEEEeCccCccccccchhHHHHHhhhhccceEEeeecccc
Confidence 34789999999885554444444 6888888888888889999999999999985
No 33
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=51.50 E-value=20 Score=29.04 Aligned_cols=46 Identities=13% Similarity=0.209 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHhhhhhcccceEEecC--Cceeehh
Q 019918 144 SAVSLFAFLYSRENKAKNAQLARLSREESLSNLKLRVDE--KKIISVN 189 (334)
Q Consensus 144 gava~f~~L~~~e~k~~~~qlarisREe~L~rL~Vrl~~--~r~v~L~ 189 (334)
..+++|-|+..+.+++++|+.+.+-.+-.-|.=.+.-++ |+++++.
T Consensus 11 v~~~i~yf~~~rpqkK~~k~~~~m~~~L~~Gd~VvT~gGi~G~V~~i~ 58 (84)
T TIGR00739 11 LIFLIFYFLIIRPQRKRRKAHKKLIESLKKGDKVLTIGGIIGTVTKIA 58 (84)
T ss_pred HHHHHHHHheechHHHHHHHHHHHHHhCCCCCEEEECCCeEEEEEEEe
Confidence 345566666667777777776655555444444444443 4555554
No 34
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=51.44 E-value=33 Score=24.64 Aligned_cols=27 Identities=26% Similarity=0.363 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 019918 96 VRMFFYLAFVASGSLGGLIAITQLIGA 122 (334)
Q Consensus 96 lR~Ffy~af~aSa~iG~~i~~~rliaa 122 (334)
=|.|++.+.++-|++|+..++.=++..
T Consensus 11 RRdFL~~at~~~gavG~~~~a~Pfv~s 37 (41)
T PF10399_consen 11 RRDFLTIATSAVGAVGAAAAAWPFVSS 37 (41)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 489999999999999998887777764
No 35
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=49.80 E-value=28 Score=29.43 Aligned_cols=46 Identities=13% Similarity=0.217 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHhhhhhcccceEEecC--Cceeehhh
Q 019918 145 AVSLFAFLYSRENKAKNAQLARLSREESLSNLKLRVDE--KKIISVNN 190 (334)
Q Consensus 145 ava~f~~L~~~e~k~~~~qlarisREe~L~rL~Vrl~~--~r~v~L~q 190 (334)
.+++|-|+..+.+|+++++.+++-.+-.-|-=.+..++ ++++.+.+
T Consensus 27 i~~i~yf~~~RpqkK~~k~~~~~~~~Lk~Gd~VvT~gGi~G~Vv~i~~ 74 (106)
T PRK05585 27 FFAIFYFLIIRPQQKRQKEHKKMLSSLAKGDEVVTNGGIIGKVTKVSE 74 (106)
T ss_pred HHHHHHHHhccHHHHHHHHHHHHHHhcCCCCEEEECCCeEEEEEEEeC
Confidence 34445455556777777666554444443333334343 45555543
No 36
>cd02966 TlpA_like_family TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a CXXC motif located in the periplasm. The TRX domains of this family contain an insert, approximately 25 residues in length, which correspond to an extra alpha helix and a beta strand when compared with TRX. TlpA catalyzes an essential reaction in the biogenesis of cytochrome aa3, while ResA and DsbE are essential proteins in cytochrome c maturation. Also included in this family are proteins containing a TlpA-like TRX domain with domain architectures similar to E. coli DipZ protein, and the N-terminal TRX domain of PilB protein from Neisseria which acts as a disulfide reductase that can recylce methionine sulfoxide reductases.
Probab=49.43 E-value=1.1e+02 Score=22.81 Aligned_cols=104 Identities=22% Similarity=0.338 Sum_probs=58.8
Q ss_pred CCceeehhhhcccceEEEEec-CHhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhhhccceE
Q 019918 182 EKKIISVNNLRGIARLVICSG-PASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKRKRLWQ 260 (334)
Q Consensus 182 ~~r~v~L~qLRg~aRvVIvAG-~~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~~~w~ 260 (334)
+++.+++.++++..=++...+ .=......+.....+.+.+.+.++.++.|.++.+ ..++.++....-...|.
T Consensus 8 ~g~~~~~~~~~~k~~ll~f~~~~C~~C~~~~~~l~~~~~~~~~~~~~~~~v~~d~~-------~~~~~~~~~~~~~~~~~ 80 (116)
T cd02966 8 DGKPVSLSDLKGKVVLVNFWASWCPPCRAEMPELEALAKEYKDDGVEVVGVNVDDD-------DPAAVKAFLKKYGITFP 80 (116)
T ss_pred CCCEeehHHcCCCEEEEEeecccChhHHHHhHHHHHHHHHhCCCCeEEEEEECCCC-------CHHHHHHHHHHcCCCcc
Confidence 468899999986543333332 2345666666777777777778999999988643 12223333222222222
Q ss_pred EeecchhhHHHHHHHHH-HHcCCCCCCCeEEEEeeCCeeecc
Q 019918 261 LTPVYVSEWSKWLDEQK-RTAGISPESPVYLSLRLDGRVRGS 301 (334)
Q Consensus 261 A~Pv~~~eW~~wi~eQ~-e~Agv~~~~gVyI~LrlDGRVr~S 301 (334)
+..+. ..+. +.-++. .-+-++++..+|+|...
T Consensus 81 ---~~~~~-----~~~~~~~~~~~-~~P~~~l~d~~g~v~~~ 113 (116)
T cd02966 81 ---VLLDP-----DGELAKAYGVR-GLPTTFLIDRDGRIRAR 113 (116)
T ss_pred ---eEEcC-----cchHHHhcCcC-ccceEEEECCCCcEEEE
Confidence 22111 1111 122442 35677888999998764
No 37
>PRK10382 alkyl hydroperoxide reductase subunit C; Provisional
Probab=48.49 E-value=1.3e+02 Score=27.25 Aligned_cols=120 Identities=13% Similarity=0.046 Sum_probs=67.7
Q ss_pred CceeehhhhcccceEEEEecCHh---HHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhhhccc-
Q 019918 183 KKIISVNNLRGIARLVICSGPAS---YIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKRKRL- 258 (334)
Q Consensus 183 ~r~v~L~qLRg~aRvVIvAG~~e---~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~~~- 258 (334)
-..++|++++|.. +|+.-=|+. -+..-+..-+...++|.++|+.|+.|..|. .+...++....+..
T Consensus 21 ~~~v~L~d~~Gk~-vvL~F~P~~~~p~C~~el~~l~~~~~~f~~~g~~vigIS~D~---------~~~~~a~~~~~~~~~ 90 (187)
T PRK10382 21 FIEVTEKDTEGRW-SVFFFYPADFTFVCPTELGDVADHYEELQKLGVDVYSVSTDT---------HFTHKAWHSSSETIA 90 (187)
T ss_pred ceEEEHHHhCCCe-EEEEEECCCCCCcCHHHHHHHHHHHHHHHhCCCEEEEEeCCC---------HHHHHHHHHhhcccc
Confidence 4778999999973 444323222 345556666677888999999999998743 11222222111110
Q ss_pred eEEeecchhhHHHHHHHHHHHcCCC-----CCCCeEEEEeeCCeeeccc-----CCCCcHHHHHhcCCC
Q 019918 259 WQLTPVYVSEWSKWLDEQKRTAGIS-----PESPVYLSLRLDGRVRGSG-----VGYPPWNAFVAQLPP 317 (334)
Q Consensus 259 w~A~Pv~~~eW~~wi~eQ~e~Agv~-----~~~gVyI~LrlDGRVr~SG-----~G~PpW~~lv~eLP~ 317 (334)
=.-.|+-.|.-.+..+. -|+- ......++|..||+|+..= .| ++.++++..|-.
T Consensus 91 ~l~fpllsD~~~~ia~~----ygv~~~~~g~~~r~tfIID~~G~I~~~~~~~~~~~-~~~~eil~~l~a 154 (187)
T PRK10382 91 KIKYAMIGDPTGALTRN----FDNMREDEGLADRATFVVDPQGIIQAIEVTAEGIG-RDASDLLRKIKA 154 (187)
T ss_pred CCceeEEEcCchHHHHH----cCCCcccCCceeeEEEEECCCCEEEEEEEeCCCCC-CCHHHHHHHHHh
Confidence 01235544432222211 1331 1236788899999998873 33 578888776633
No 38
>PRK00522 tpx lipid hydroperoxide peroxidase; Provisional
Probab=45.81 E-value=2e+02 Score=25.07 Aligned_cols=109 Identities=11% Similarity=0.062 Sum_probs=57.8
Q ss_pred cCCceeehhhhcccceEEEEecCH--hHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhhhccc
Q 019918 181 DEKKIISVNNLRGIARLVICSGPA--SYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKRKRL 258 (334)
Q Consensus 181 ~~~r~v~L~qLRg~aRvVIvAG~~--e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~~~ 258 (334)
.+++.++|++++|..-++...-+. ..+..-+..-+.+.+++ .|+-||.|..|. .+...++.....-.
T Consensus 32 ~~g~~v~l~~~~Gk~vvl~f~~s~~cp~C~~e~~~l~~~~~~~--~~~~vv~vs~D~---------~~~~~~f~~~~~~~ 100 (167)
T PRK00522 32 NDLSDVSLADFAGKRKVLNIFPSIDTGVCATSVRKFNQEAAEL--DNTVVLCISADL---------PFAQKRFCGAEGLE 100 (167)
T ss_pred CCCcEEehHHhCCCEEEEEEEcCCCCCccHHHHHHHHHHHHHc--CCcEEEEEeCCC---------HHHHHHHHHhCCCC
Confidence 357889999999874443333332 34555555555555666 388888887642 11222232221111
Q ss_pred eEEeecchh-hHHHHHHHHHHHcCCCCC--------CCeEEEEeeCCeeecccCCCC
Q 019918 259 WQLTPVYVS-EWSKWLDEQKRTAGISPE--------SPVYLSLRLDGRVRGSGVGYP 306 (334)
Q Consensus 259 w~A~Pv~~~-eW~~wi~eQ~e~Agv~~~--------~gVyI~LrlDGRVr~SG~G~P 306 (334)
-.|+..| .-.+-.+ .-|+... ...+++|..||+|+.+-++.+
T Consensus 101 --~~~~lsD~~~~~~~~----~~gv~~~~~~~~g~~~r~tfvId~~G~I~~~~~~~~ 151 (167)
T PRK00522 101 --NVITLSDFRDHSFGK----AYGVAIAEGPLKGLLARAVFVLDENNKVVYSELVPE 151 (167)
T ss_pred --CceEeecCCccHHHH----HhCCeecccccCCceeeEEEEECCCCeEEEEEECCC
Confidence 0122212 1111111 1133211 237899999999999987665
No 39
>PF10960 DUF2762: Protein of unknown function (DUF2762); InterPro: IPR024405 BhlA is a SP-beta prophage-derived protein found in Bacillus subtilis [, ] and other Bacilli. A related protein, UviB, has also been described in Clostridia, where it is believed to be involved in bacteriocin secretion or immunity [, ].
Probab=43.39 E-value=31 Score=27.43 Aligned_cols=35 Identities=20% Similarity=0.104 Sum_probs=19.3
Q ss_pred cchhHHHHHHHHHHHHHHhhhHHHHHH-HHhhhhhc
Q 019918 139 LSIDVSAVSLFAFLYSRENKAKNAQLA-RLSREESL 173 (334)
Q Consensus 139 laI~igava~f~~L~~~e~k~~~~qla-risREe~L 173 (334)
+.-|....++|+||+..-.|..++.-. ...||+.+
T Consensus 9 ~~sQG~fA~LFv~Ll~yvlK~~~~re~~~~~RE~ky 44 (71)
T PF10960_consen 9 ALSQGIFAVLFVWLLFYVLKENKKREEKQEEREEKY 44 (71)
T ss_pred HHHcCcHHHHHHHHHHHHHHHhHHhHHHHHHHHHHH
Confidence 334445667889988865554432211 12677664
No 40
>TIGR03141 cytochro_ccmD heme exporter protein CcmD. The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.
Probab=43.07 E-value=46 Score=23.85 Aligned_cols=33 Identities=12% Similarity=0.113 Sum_probs=24.1
Q ss_pred ccchhHHHHHHHHHHHHHHhhhHHHHHHHHhhh
Q 019918 138 GLSIDVSAVSLFAFLYSRENKAKNAQLARLSRE 170 (334)
Q Consensus 138 nlaI~igava~f~~L~~~e~k~~~~qlarisRE 170 (334)
..|+.+.+++..++...++.++..+++++..+.
T Consensus 11 sYg~t~l~l~~li~~~~~~~r~~~~~l~~~~~r 43 (45)
T TIGR03141 11 AYGITALVLAGLILWSLLDRRRLLRELRRLEAR 43 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 456666777777777888888888888776543
No 41
>PF04995 CcmD: Heme exporter protein D (CcmD); InterPro: IPR007078 The CcmD protein is part of a C-type cytochrome biogenesis operon []. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation []. This protein is found fused to CcmE in P52224 from SWISSPROT. These proteins contain a predicted transmembrane helix.; GO: 0006810 transport, 0016021 integral to membrane
Probab=42.15 E-value=50 Score=23.70 Aligned_cols=35 Identities=14% Similarity=0.193 Sum_probs=26.1
Q ss_pred hccchhHHHHHHHHHHHHHHhhhHHHHHHHHhhhh
Q 019918 137 KGLSIDVSAVSLFAFLYSRENKAKNAQLARLSREE 171 (334)
Q Consensus 137 ~nlaI~igava~f~~L~~~e~k~~~~qlarisREe 171 (334)
...|+-+.+++.+.+...++.++-.+++++..+.|
T Consensus 9 ~sYg~t~~~l~~l~~~~~~~~r~~~~~l~~~~~r~ 43 (46)
T PF04995_consen 9 SSYGVTALVLAGLIVWSLRRRRRLRKELKRLEARE 43 (46)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 34567777778888888888888888888766444
No 42
>cd02967 mauD Methylamine utilization (mau) D family; mauD protein is the translation product of the mauD gene found in methylotrophic bacteria, which are able to use methylamine as a sole carbon source and a nitrogen source. mauD is an essential accessory protein for the biosynthesis of methylamine dehydrogenase (MADH), the enzyme that catalyzes the oxidation of methylamine and other primary amines. MADH possesses an alpha2beta2 subunit structure; the alpha subunit is also referred to as the large subunit. Each beta (small) subunit contains a tryptophan tryptophylquinone (TTQ) prosthetic group. Accessory proteins are essential for the proper transport of MADH to the periplasm, TTQ synthesis and the formation of several structural disulfide bonds. Bacterial mutants containing an insertion on the mauD gene were unable to grow on methylamine as a sole carbon source, were found to lack the MADH small subunit and had decreased amounts of the MADH large subunit.
Probab=42.04 E-value=1.7e+02 Score=22.91 Aligned_cols=108 Identities=18% Similarity=0.242 Sum_probs=55.2
Q ss_pred eEEecCCceeehhhhc-ccceEEEEecC-HhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhh
Q 019918 177 KLRVDEKKIISVNNLR-GIARLVICSGP-ASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRK 254 (334)
Q Consensus 177 ~Vrl~~~r~v~L~qLR-g~aRvVIvAG~-~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~ 254 (334)
.+...+|+.++|.+++ +..=+|...++ =..+...+..-+.+.+.. +.++-|+ .+.+. ..++.+++...
T Consensus 4 ~l~~~~G~~~~l~~~~~gk~vvl~F~~~wC~~C~~~~p~l~~~~~~~-~~~~~vi-~v~~~--------~~~~~~~~~~~ 73 (114)
T cd02967 4 DLTTIDGAPVRIGGISPGRPTLLFFLSPTCPVCKKLLPVIRSIARAE-ADWLDVV-LASDG--------EKAEHQRFLKK 73 (114)
T ss_pred eeecCCCCEEEcccccCCCeEEEEEECCCCcchHhHhHHHHHHHHHh-cCCcEEE-EEeCC--------CHHHHHHHHHH
Confidence 3444568899999998 54434444332 344444444444444443 3356666 33432 11222222222
Q ss_pred hccceEEeecchhhHHHHHHHHHHHcCCCCCCCeEEEEeeCCeeecccC
Q 019918 255 RKRLWQLTPVYVSEWSKWLDEQKRTAGISPESPVYLSLRLDGRVRGSGV 303 (334)
Q Consensus 255 ~~~~w~A~Pv~~~eW~~wi~eQ~e~Agv~~~~gVyI~LrlDGRVr~SG~ 303 (334)
..+...|+..+ .+..+.-++ ..-+-.++|..||+|+.+|.
T Consensus 74 --~~~~~~p~~~~------~~~~~~~~~-~~~P~~~vid~~G~v~~~~~ 113 (114)
T cd02967 74 --HGLEAFPYVLS------AELGMAYQV-SKLPYAVLLDEAGVIAAKGL 113 (114)
T ss_pred --hCCCCCcEEec------HHHHhhcCC-CCcCeEEEECCCCeEEeccc
Confidence 22222454321 111122355 23688999999999999874
No 43
>TIGR01626 ytfJ_HI0045 conserved hypothetical protein YtfJ-family, TIGR01626. This model represents sequences from gamma proteobacteria that are related to the E. coli protein, YtfJ.
Probab=42.01 E-value=1.3e+02 Score=27.72 Aligned_cols=118 Identities=15% Similarity=0.141 Sum_probs=68.1
Q ss_pred ceeehhhhcccceEEE-EecCHhHHHHHHhhchhhHHHHhhcCcEE------EEEeeCCCCCCCCccchHHHHHHhhhhc
Q 019918 184 KIISVNNLRGIARLVI-CSGPASYIMESFKRSEPFTESLLERGVLV------VSFTTDGNIPSFEFEESEEMKEFTRKRK 256 (334)
Q Consensus 184 r~v~L~qLRg~aRvVI-vAG~~e~V~~al~~Ae~~r~~L~~rgVLV------VPV~~dg~sp~~~f~~~e~~~~~~~~~~ 256 (334)
+..+..+|+|..|+|- .||--. +.+.-.|+-++|.++|+-+ +=|-+|.... +...-.+++....+
T Consensus 50 ~~~~~~~l~GKV~lvn~~Aswc~----~c~~e~P~l~~l~~~~~~~~~y~~t~~IN~dd~~~----~~~~fVk~fie~~~ 121 (184)
T TIGR01626 50 QPWGSAELAGKVRVVHHIAGRTS----AKEXNASLIDAIKAAKFPPVKYQTTTIINADDAIV----GTGMFVKSSAKKGK 121 (184)
T ss_pred eeccHHHcCCCEEEEEEEecCCC----hhhccchHHHHHHHcCCCcccccceEEEECccchh----hHHHHHHHHHHHhc
Confidence 7899999999999887 555433 4556778899999999666 4444432110 00111122222222
Q ss_pred cceEEeecchhhHHHHHHHHHHHcCCCCCCCeEEEEeeCCeeecccCCCCcHHHHHh
Q 019918 257 RLWQLTPVYVSEWSKWLDEQKRTAGISPESPVYLSLRLDGRVRGSGVGYPPWNAFVA 313 (334)
Q Consensus 257 ~~w~A~Pv~~~eW~~wi~eQ~e~Agv~~~~gVyI~LrlDGRVr~SG~G~PpW~~lv~ 313 (334)
..+--.|+..|+ +.=+ .+.-|+.+--.-++++.++|+|+..=.|..++.++-+
T Consensus 122 ~~~P~~~vllD~-~g~v---~~~~gv~~~P~T~fVIDk~GkVv~~~~G~l~~ee~e~ 174 (184)
T TIGR01626 122 KENPWSQVVLDD-KGAV---KNAWQLNSEDSAIIVLDKTGKVKFVKEGALSDSDIQT 174 (184)
T ss_pred ccCCcceEEECC-cchH---HHhcCCCCCCceEEEECCCCcEEEEEeCCCCHHHHHH
Confidence 222112344332 1111 1122553322345899999999999999988877644
No 44
>PRK15051 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional
Probab=41.94 E-value=94 Score=25.88 Aligned_cols=64 Identities=14% Similarity=0.055 Sum_probs=47.4
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCChHHhhhccchhHHHHHHHHHHHHHHhhhHHH
Q 019918 92 PFRSVRMFFYLAFVASGSLGGLIAITQLIGALANPARAADVPEILKGLSIDVSAVSLFAFLYSRENKAKNA 162 (334)
Q Consensus 92 PfR~lR~Ffy~af~aSa~iG~~i~~~rliaal~G~~~a~~l~e~l~nlaI~igava~f~~L~~~e~k~~~~ 162 (334)
|+...+.+++.+++.......++....... .-|+..+.+-..+....++++++++..|+-.-.+
T Consensus 30 ~~~~~~~l~~~~~~~~~~~l~~~~~~~al~-------~iplg~Ay~~~~l~~v~~~~~~~l~f~E~ls~~~ 93 (111)
T PRK15051 30 GKRRKHIVLWLGLALACLGLAMVLWLLVLQ-------NVPVGIAYPMLSLNFVWVTLAAVKLWHEPVSPRH 93 (111)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHHh-------hCChHHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence 555556667776665555556677777776 4788999999998888999999999888755443
No 45
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=41.20 E-value=49 Score=28.40 Aligned_cols=46 Identities=11% Similarity=0.128 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHhhhhhcccceEEecC--Cceeehh
Q 019918 144 SAVSLFAFLYSRENKAKNAQLARLSREESLSNLKLRVDE--KKIISVN 189 (334)
Q Consensus 144 gava~f~~L~~~e~k~~~~qlarisREe~L~rL~Vrl~~--~r~v~L~ 189 (334)
..+++|-||..+-+++++|+.+++-.+-.-|-=.+..++ |+++.+.
T Consensus 12 ~i~~i~yF~~iRPQkKr~K~~~~m~~~Lk~GD~VvT~gGi~G~V~~I~ 59 (109)
T PRK05886 12 LIMGGFMYFASRRQRKAMQATIDLHESLQPGDRVHTTSGLQATIVGIT 59 (109)
T ss_pred HHHHHHHHHHccHHHHHHHHHHHHHHhcCCCCEEEECCCeEEEEEEEe
Confidence 344555666666666666665544333332322233333 4555544
No 46
>PF10003 DUF2244: Integral membrane protein (DUF2244); InterPro: IPR019253 This entry consists of various bacterial putative membrane proteins with no known function.
Probab=41.04 E-value=63 Score=28.06 Aligned_cols=56 Identities=13% Similarity=-0.023 Sum_probs=35.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCChHHhhhccchhHHHHHHHHHHHHHHhhhHH
Q 019918 93 FRSVRMFFYLAFVASGSLGGLIAITQLIGALANPARAADVPEILKGLSIDVSAVSLFAFLYSRENKAKN 161 (334)
Q Consensus 93 fR~lR~Ffy~af~aSa~iG~~i~~~rliaal~G~~~a~~l~e~l~nlaI~igava~f~~L~~~e~k~~~ 161 (334)
.|++..|+-+-.+.+..+++.+...-. .=.++.++++++++......++++.+..|
T Consensus 9 ~~g~~~~~~~~~~~~~~~a~~f~~~Ga-------------W~Vl~F~glev~~l~~a~~~~~r~~~~~E 64 (140)
T PF10003_consen 9 PRGFLIFIAILAAVSLIIAIAFLLMGA-------------WPVLPFAGLEVLALWYAFRRNYRHARDYE 64 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhch-------------HHHHHHHHHHHHHHHHHHHHHHhhCcCcE
Confidence 455555555445555555544443322 33588999999999888888887665543
No 47
>smart00392 PROF Profilin. Binds actin monomers, membrane polyphosphoinositides and poly-L-proline.
Probab=40.11 E-value=44 Score=28.45 Aligned_cols=34 Identities=21% Similarity=0.305 Sum_probs=25.7
Q ss_pred hHHHHHHHHHHHcCCCCCCCeEEEEeeCCeeecccCC
Q 019918 268 EWSKWLDEQKRTAGISPESPVYLSLRLDGRVRGSGVG 304 (334)
Q Consensus 268 eW~~wi~eQ~e~Agv~~~~gVyI~LrlDGRVr~SG~G 304 (334)
.|+.||++++-..| --.--.++.+||.||.+-.|
T Consensus 2 sWq~yvd~~l~~~g---~~~~AaI~g~dGsvWA~s~g 35 (129)
T smart00392 2 SWQAYVDNLLVGSG---CVDAAAIGGKDGSVWAASAG 35 (129)
T ss_pred ChHHHHHHHhhccC---CCcEEEEEeCCCCeeeccCC
Confidence 49999999874433 23445667789999999888
No 48
>PRK06280 hypothetical protein; Provisional
Probab=39.98 E-value=66 Score=25.91 Aligned_cols=46 Identities=24% Similarity=0.208 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCCCCChHHhhhccchhHHHH-HHHHHHHHH
Q 019918 102 LAFVASGSLGGLIAITQLIGALANPARAADVPEILKGLSIDVSAV-SLFAFLYSR 155 (334)
Q Consensus 102 ~af~aSa~iG~~i~~~rliaal~G~~~a~~l~e~l~nlaI~igav-a~f~~L~~~ 155 (334)
.+....+..|+.+++.=++-+ |||+. +..+++..+.+ ++|.+-+++
T Consensus 25 ~avi~~g~~gl~~al~f~~l~------APDvA--lTq~~Ve~~~~t~lfl~~l~~ 71 (77)
T PRK06280 25 KCAILTGFGGLGLAYLYQLLL------APDVA--LTEAILGGAILPAFFAFTVRR 71 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHhC------CcHHH--HHHHHHHHHHHHHHHHHHHHH
Confidence 455667777777776555542 79988 99999999988 777766655
No 49
>COG1225 Bcp Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=39.92 E-value=1.6e+02 Score=26.65 Aligned_cols=107 Identities=18% Similarity=0.267 Sum_probs=61.9
Q ss_pred cCCceeehhhhcccceEEEEecCHhHHHHHHhhc---hhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhhhcc
Q 019918 181 DEKKIISVNNLRGIARLVICSGPASYIMESFKRS---EPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKRKR 257 (334)
Q Consensus 181 ~~~r~v~L~qLRg~aRvVIvAG~~e~V~~al~~A---e~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~~ 257 (334)
.+++.++|+++||. .||+..=|++.-----..| +....+|.+.|+.|+=|..|.. +.-+++..+-.-
T Consensus 18 ~~g~~v~Lsd~~Gk-~VVLyFYPk~~TpgCT~Ea~~Frd~~~ef~~~~a~V~GIS~Ds~---------~~~~~F~~k~~L 87 (157)
T COG1225 18 QDGETVSLSDLRGK-PVVLYFYPKDFTPGCTTEACDFRDLLEEFEKLGAVVLGISPDSP---------KSHKKFAEKHGL 87 (157)
T ss_pred CCCCEEehHHhcCC-cEEEEECCCCCCCcchHHHHHHHHHHHHHHhCCCEEEEEeCCCH---------HHHHHHHHHhCC
Confidence 45788999999999 6666555554432222223 3334567888999999888531 122233333222
Q ss_pred ceEEeecchhhHHHHHHHHHHH----c----CCCCCCCeEEEEeeCCeeecc
Q 019918 258 LWQLTPVYVSEWSKWLDEQKRT----A----GISPESPVYLSLRLDGRVRGS 301 (334)
Q Consensus 258 ~w~A~Pv~~~eW~~wi~eQ~e~----A----gv~~~~gVyI~LrlDGRVr~S 301 (334)
. .|+-.|+|.+ +.++--. . ....-+-..++|..||+|+..
T Consensus 88 ~---f~LLSD~~~~-v~~~ygv~~~k~~~gk~~~~~~R~TfvId~dG~I~~~ 135 (157)
T COG1225 88 T---FPLLSDEDGE-VAEAYGVWGEKKMYGKEYMGIERSTFVIDPDGKIRYV 135 (157)
T ss_pred C---ceeeECCcHH-HHHHhCcccccccCccccccccceEEEECCCCeEEEE
Confidence 2 5555566666 2222110 0 011234578899999999875
No 50
>PRK11476 DNA-binding transcriptional activator CaiF; Provisional
Probab=37.31 E-value=9.4 Score=32.77 Aligned_cols=18 Identities=61% Similarity=1.200 Sum_probs=14.4
Q ss_pred eeeeecccC-------------CCCccccccc
Q 019918 7 FSYILGPVG-------------SGRGYCNCQY 25 (334)
Q Consensus 7 ~~~~~~~~~-------------~~~~~~~~~~ 25 (334)
.||||..|+ .||| |.||-
T Consensus 27 vSYILS~V~EI~CetK~iPNqLeGRG-CQCQR 57 (113)
T PRK11476 27 LSYILSEVTEISCEVKMIPNQLEGRG-CQCQR 57 (113)
T ss_pred HHHHHhccceeEeecccCcchhccCC-cceee
Confidence 589998887 5887 99984
No 51
>TIGR00385 dsbE periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily. Involved in the biogenesis of c-type cytochromes as well as in disulfide bond formation in some periplasmic proteins.
Probab=31.64 E-value=3.5e+02 Score=23.53 Aligned_cols=31 Identities=10% Similarity=0.046 Sum_probs=26.2
Q ss_pred CCeEEEEeeCCeeecccCCCCcHHHHHhcCC
Q 019918 286 SPVYLSLRLDGRVRGSGVGYPPWNAFVAQLP 316 (334)
Q Consensus 286 ~gVyI~LrlDGRVr~SG~G~PpW~~lv~eLP 316 (334)
-+..+.+..||+|+.+-.|..++.++.+.+-
T Consensus 138 ~P~~~~id~~G~i~~~~~G~~~~~~l~~~l~ 168 (173)
T TIGR00385 138 APETFLVDGNGVILYRHAGPLNNEVWTEGFL 168 (173)
T ss_pred CCeEEEEcCCceEEEEEeccCCHHHHHHHHH
Confidence 4789999999999999999888888766543
No 52
>PF04434 SWIM: SWIM zinc finger; InterPro: IPR007527 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the SWIM (SWI2/SNF2 and MuDR) zinc-binding domain, which is found in a variety of prokaryotic and eukaryotic proteins, such as mitogen-activated protein kinase kinase kinase 1 (or MEKK1). It is also found in the related protein MEX (MEKK1-related protein X), a testis-expressed protein that acts as an E3 ubiquitin ligase through the action of E2 ubiquitin-conjugating enzymes in the proteasome degradation pathway; the SWIM domain is critical for MEX ubiquitination []. SWIM domains are also found in the homologous recombination protein Sws1 [], as well as in several hypothetical proteins. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=31.48 E-value=20 Score=24.28 Aligned_cols=23 Identities=26% Similarity=0.704 Sum_probs=18.0
Q ss_pred cCCCCccccccch--hhHHhHHHHh
Q 019918 14 VGSGRGYCNCQYH--ASRFCRQILN 36 (334)
Q Consensus 14 ~~~~~~~~~~~~~--~~~~~~~~~~ 36 (334)
+.....+|+|++. ..-.|+|++.
T Consensus 10 ~~~~~~~CsC~~~~~~~~~CkHi~a 34 (40)
T PF04434_consen 10 VSIEQASCSCPYFQFRGGPCKHIVA 34 (40)
T ss_pred ccccccEeeCCCccccCCcchhHHH
Confidence 4567889999976 4678899875
No 53
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=31.11 E-value=18 Score=30.57 Aligned_cols=11 Identities=73% Similarity=1.307 Sum_probs=9.6
Q ss_pred eecccCCCCcc
Q 019918 10 ILGPVGSGRGY 20 (334)
Q Consensus 10 ~~~~~~~~~~~ 20 (334)
|+||+|||++.
T Consensus 1 i~G~PgsGK~t 11 (151)
T PF00406_consen 1 ILGPPGSGKGT 11 (151)
T ss_dssp EEESTTSSHHH
T ss_pred CcCCCCCChHH
Confidence 68999999975
No 54
>cd03008 TryX_like_RdCVF Tryparedoxin (TryX)-like family, Rod-derived cone viability factor (RdCVF) subfamily; RdCVF is a thioredoxin (TRX)-like protein specifically expressed in photoreceptors. RdCVF was isolated and identified as a factor that supports cone survival in retinal cultures. Cone photoreceptor loss is responsible for the visual handicap resulting from the inherited disease, retinitis pigmentosa. RdCVF shows 33% similarity to TRX but does not exhibit any detectable thiol oxidoreductase activity.
Probab=31.07 E-value=3.7e+02 Score=23.68 Aligned_cols=106 Identities=17% Similarity=0.234 Sum_probs=61.1
Q ss_pred ceeehhhhcccceEEEE-ecCHhHHHHHHhhchhhHHHHhh-------cCcEEEEEeeCCCCCCCCccchHHHHHHhhhh
Q 019918 184 KIISVNNLRGIARLVIC-SGPASYIMESFKRSEPFTESLLE-------RGVLVVSFTTDGNIPSFEFEESEEMKEFTRKR 255 (334)
Q Consensus 184 r~v~L~qLRg~aRvVIv-AG~~e~V~~al~~Ae~~r~~L~~-------rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~ 255 (334)
..++|++|++..-+|-. |.-=....+-+-..+.+.+++.+ .++-||-|..|. ..+...++..+.
T Consensus 16 ~~~~ls~~kgk~vlL~FwAsWCppCr~e~P~L~~ly~~~~~~~~~~~~~~~~vV~Vs~D~--------~~~~~~~f~~~~ 87 (146)
T cd03008 16 EREIVARLENRVLLLFFGAVVSPQCQLFAPKLKDFFVRLTDEFYVDRSAQLALVYVSMDQ--------SEQQQESFLKDM 87 (146)
T ss_pred ccccHHHhCCCEEEEEEECCCChhHHHHHHHHHHHHHHHHhhcccccCCCEEEEEEECCC--------CHHHHHHHHHHC
Confidence 34688999885333332 22223455555555555555554 368888887652 122344555554
Q ss_pred ccceEEeecchhhHHHHHHHHHHHcCCCCCCCeEEEEeeCCeeeccc
Q 019918 256 KRLWQLTPVYVSEWSKWLDEQKRTAGISPESPVYLSLRLDGRVRGSG 302 (334)
Q Consensus 256 ~~~w~A~Pv~~~eW~~wi~eQ~e~Agv~~~~gVyI~LrlDGRVr~SG 302 (334)
...|..-|+. ++...=+ .+.-++ .+=|..+.|..||+|..++
T Consensus 88 ~~~~~~~p~~-~~~~~~l---~~~y~v-~~iPt~vlId~~G~Vv~~~ 129 (146)
T cd03008 88 PKKWLFLPFE-DEFRREL---EAQFSV-EELPTVVVLKPDGDVLAAN 129 (146)
T ss_pred CCCceeeccc-chHHHHH---HHHcCC-CCCCEEEEECCCCcEEeeC
Confidence 4468887766 3333211 122345 3468999999999999774
No 55
>cd02969 PRX_like1 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic cysteine found in PRXs, which aligns to the second cysteine in the CXXC motif of TRX. In addition, these proteins do not contain the other two conserved residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF.
Probab=30.96 E-value=3.4e+02 Score=23.23 Aligned_cols=117 Identities=18% Similarity=0.264 Sum_probs=63.4
Q ss_pred eEEecCCceeehhhh-cccceEEEEecCHh-HHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhh
Q 019918 177 KLRVDEKKIISVNNL-RGIARLVICSGPAS-YIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRK 254 (334)
Q Consensus 177 ~Vrl~~~r~v~L~qL-Rg~aRvVIvAG~~e-~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~ 254 (334)
.+.-.+++.+++.++ .+..-++...++-= ...+.+.....+.+++.+.++-+|-|..|.... ...+..++..+...+
T Consensus 8 ~l~~~~g~~v~l~~~~~~k~~ll~f~~t~Cp~c~~~~~~l~~l~~~~~~~~v~~v~is~d~~~~-~~~d~~~~~~~~~~~ 86 (171)
T cd02969 8 SLPDTDGKTYSLADFADGKALVVMFICNHCPYVKAIEDRLNRLAKEYGAKGVAVVAINSNDIEA-YPEDSPENMKAKAKE 86 (171)
T ss_pred cccCCCCCEEeHHHHhCCCEEEEEEECCCCccHHHHHHHHHHHHHHHhhCCeEEEEEecCcccc-ccccCHHHHHHHHHH
Confidence 333345789999999 76665555554432 223334555667778888899999998753210 011122233333333
Q ss_pred hccceEEeecchhhHHHHHHHHHHHcCCCCCCCeEEEEeeCCeeeccc
Q 019918 255 RKRLWQLTPVYVSEWSKWLDEQKRTAGISPESPVYLSLRLDGRVRGSG 302 (334)
Q Consensus 255 ~~~~w~A~Pv~~~eW~~wi~eQ~e~Agv~~~~gVyI~LrlDGRVr~SG 302 (334)
..-.|... .+.+. .-.+.-++. ..+..++|..||+|+-++
T Consensus 87 ~~~~~~~l-~D~~~------~~~~~~~v~-~~P~~~lid~~G~v~~~~ 126 (171)
T cd02969 87 HGYPFPYL-LDETQ------EVAKAYGAA-CTPDFFLFDPDGKLVYRG 126 (171)
T ss_pred CCCCceEE-ECCch------HHHHHcCCC-cCCcEEEECCCCeEEEee
Confidence 22223211 11111 111222442 347789999999999775
No 56
>PF13905 Thioredoxin_8: Thioredoxin-like; PDB: 1FG4_A 1I5G_A 1OC8_B 1O6J_A 1OC9_B 1O81_A 3FKF_A 1O85_A 1O7U_A 1O8W_A ....
Probab=30.33 E-value=2.4e+02 Score=21.32 Aligned_cols=81 Identities=21% Similarity=0.295 Sum_probs=50.5
Q ss_pred hHHHHHHhhchhhHHHHh-hcCcEEEEEeeCCCCCCCCccchHHHHHHhhhhccceEEeecchhhHHHHHHHHHHHcCCC
Q 019918 205 SYIMESFKRSEPFTESLL-ERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKRKRLWQLTPVYVSEWSKWLDEQKRTAGIS 283 (334)
Q Consensus 205 e~V~~al~~Ae~~r~~L~-~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~~~w~A~Pv~~~eW~~wi~eQ~e~Agv~ 283 (334)
....+.+.....+.+.+. +.+|-||-|.+|. ..++..+........|...|+..+. ..-+ .+.-+++
T Consensus 14 ~~c~~~~~~l~~l~~~~~~~~~v~~v~Vs~d~--------~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l---~~~~~i~ 81 (95)
T PF13905_consen 14 PPCKKELPKLKELYKKYKKKDDVEFVFVSLDE--------DEEEWKKFLKKNNFPWYNVPFDDDN-NSEL---LKKYGIN 81 (95)
T ss_dssp HHHHHHHHHHHHHHHHHTTTTTEEEEEEE-SS--------SHHHHHHHHHTCTTSSEEEETTTHH-HHHH---HHHTT-T
T ss_pred HHHHHHHHHHHHHHHHhCCCCCEEEEEEEeCC--------CHHHHHHHHHhcCCCceEEeeCcch-HHHH---HHHCCCC
Confidence 345556666666677777 7888899888852 2233444444444679988887433 3322 3333553
Q ss_pred CCCCeEEEEeeCCee
Q 019918 284 PESPVYLSLRLDGRV 298 (334)
Q Consensus 284 ~~~gVyI~LrlDGRV 298 (334)
. -|-+++|..||+|
T Consensus 82 ~-iP~~~lld~~G~I 95 (95)
T PF13905_consen 82 G-IPTLVLLDPDGKI 95 (95)
T ss_dssp S-SSEEEEEETTSBE
T ss_pred c-CCEEEEECCCCCC
Confidence 2 6899999999997
No 57
>PF01618 MotA_ExbB: MotA/TolQ/ExbB proton channel family MotA family only; InterPro: IPR002898 This family groups together integral membrane proteins that appear to be involved in translocation of proteins across a membrane. These proteins are probably proton channels. MotA is an essential component of the flagellar motor that uses a proton gradient to generate rotational motion in the flagellar []. ExbB is part of the TonB-dependent transduction complex. The TonB complex uses the proton gradient across the inner bacterial membrane to transport large molecules across the outer bacterial membrane.; GO: 0008565 protein transporter activity, 0006810 transport, 0016020 membrane
Probab=28.53 E-value=3.7e+02 Score=22.87 Aligned_cols=36 Identities=25% Similarity=0.303 Sum_probs=15.8
Q ss_pred HHhCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 019918 88 EVLSPFRSVRMFFYLAFVASGSLGGLIAITQLIGALA 124 (334)
Q Consensus 88 Ea~aPfR~lR~Ffy~af~aSa~iG~~i~~~rliaal~ 124 (334)
+.+.....++...-.+ -.=|.+|.++-+...+.+++
T Consensus 50 ~~~~~~~~l~~i~~~a-P~lGLlGTv~Gmi~~f~~l~ 85 (139)
T PF01618_consen 50 RLERNLSILRTIASIA-PLLGLLGTVIGMIEAFQALA 85 (139)
T ss_pred HHHcchHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHh
Confidence 3334444444443333 22344555555555555553
No 58
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=28.31 E-value=55 Score=26.17 Aligned_cols=45 Identities=24% Similarity=0.420 Sum_probs=17.5
Q ss_pred hhHHHHHHHHHHHHHHhhhHHHHHHHHhhhhhcccceEEecCCceeehhhhcc
Q 019918 141 IDVSAVSLFAFLYSRENKAKNAQLARLSREESLSNLKLRVDEKKIISVNNLRG 193 (334)
Q Consensus 141 I~igava~f~~L~~~e~k~~~~qlarisREe~L~rL~Vrl~~~r~v~L~qLRg 193 (334)
+=+..+++|-|+..+.+++++|+ +.+-+++|++ ++++++-+-+-|
T Consensus 7 ~lv~~~~i~yf~~~rpqkk~~k~-----~~~m~~~Lk~---Gd~VvT~gGi~G 51 (82)
T PF02699_consen 7 PLVIIFVIFYFLMIRPQKKQQKE-----HQEMLASLKP---GDEVVTIGGIYG 51 (82)
T ss_dssp HHHHHHHHHHHHTHHHHHHHHHH-----HTTGGG-------------------
T ss_pred HHHHHHHHHhhheecHHHHHHHH-----HHHHHHcCCC---CCEEEECCcEEE
Confidence 33455666677777777766664 3445566654 234444444433
No 59
>PF12597 DUF3767: Protein of unknown function (DUF3767); InterPro: IPR022533 This group of proteins includes mitochodrial cytochrome c oxidase proteins [], and some transmembrane domain-containing proteins of unknown function known as FAM36A. Proteins in this family are typically between 112 and 199 amino acids in length.
Probab=28.29 E-value=2.4e+02 Score=24.30 Aligned_cols=41 Identities=20% Similarity=0.257 Sum_probs=25.8
Q ss_pred ccchHHHHHHHHhCchhh------HHHHHHHHHHHHHHHHHHHHHHH
Q 019918 78 EISSAARIRNEVLSPFRS------VRMFFYLAFVASGSLGGLIAITQ 118 (334)
Q Consensus 78 ~~~~~~rLraEa~aPfR~------lR~Ffy~af~aSa~iG~~i~~~r 118 (334)
.++..+.+++=-...|+. +|--|..++++++++|++.++..
T Consensus 16 ~~t~~~A~ksi~~~df~~~~~iPCfR~slL~Gi~~G~~vG~~~fl~~ 62 (118)
T PF12597_consen 16 RPTLSDAVKSIKLSDFRNVHKIPCFRDSLLYGIAGGFGVGGLRFLFT 62 (118)
T ss_pred CCcHHHHHHhcCHHHHhHHhcCCcHHHHHHHHHHHHHHHHhhhhccc
Confidence 444444444333334433 46778888999999998877654
No 60
>PRK15083 PTS system mannitol-specific transporter subunit IICBA; Provisional
Probab=28.27 E-value=1.8e+02 Score=31.38 Aligned_cols=18 Identities=11% Similarity=0.429 Sum_probs=12.0
Q ss_pred ehhhhcccceEEEEecCH
Q 019918 187 SVNNLRGIARLVICSGPA 204 (334)
Q Consensus 187 ~L~qLRg~aRvVIvAG~~ 204 (334)
...++....|++|++|+.
T Consensus 371 ~~~~~~~~kkilvVC~sG 388 (639)
T PRK15083 371 VTNDLSHVRKIIVACDAG 388 (639)
T ss_pred cccchhccCEEEEECCCC
Confidence 344566677888888653
No 61
>PF10011 DUF2254: Predicted membrane protein (DUF2254); InterPro: IPR018723 Members of this family of proteins comprises various hypothetical and putative membrane proteins. Their exact function, has not, as yet, been defined.
Probab=27.58 E-value=1.9e+02 Score=29.02 Aligned_cols=67 Identities=16% Similarity=0.246 Sum_probs=41.0
Q ss_pred hhHHHHHHHH---HHHHHHHHHHHHHHHHHHhhcCCCCCCChHHhhhccchhHHHHHHHHHHHHHHhhhHH
Q 019918 94 RSVRMFFYLA---FVASGSLGGLIAITQLIGALANPARAADVPEILKGLSIDVSAVSLFAFLYSRENKAKN 161 (334)
Q Consensus 94 R~lR~Ffy~a---f~aSa~iG~~i~~~rliaal~G~~~a~~l~e~l~nlaI~igava~f~~L~~~e~k~~~ 161 (334)
|-+|.|+-=- ...+.+||.|++..=.+-++.+..+.. .......+++=++.+.++.|+++...-.+-
T Consensus 83 R~l~~f~~d~~~q~vLg~Figtfvy~l~~l~~i~~~~~~~-~p~~~~~~a~~l~i~~v~~li~fI~~i~~~ 152 (371)
T PF10011_consen 83 RLLRNFMRDRVTQVVLGTFIGTFVYSLLVLIAIRSGDYGS-VPRLSVFIALALAILSVVLLIYFIHHIARS 152 (371)
T ss_pred HHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHcccccccc-CcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455554322 567788999998888888887765532 222224555555566666666666555443
No 62
>COG0811 TolQ Biopolymer transport proteins [Intracellular trafficking and secretion]
Probab=27.53 E-value=2.2e+02 Score=26.49 Aligned_cols=65 Identities=18% Similarity=0.128 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCC---C--C----CCChHHhhhccchhHHHHHHHHHHHHHHhhhHHHHHHHHh
Q 019918 104 FVASGSLGGLIAITQLIGALANP---A--R----AADVPEILKGLSIDVSAVSLFAFLYSRENKAKNAQLARLS 168 (334)
Q Consensus 104 f~aSa~iG~~i~~~rliaal~G~---~--~----a~~l~e~l~nlaI~igava~f~~L~~~e~k~~~~qlaris 168 (334)
-..|=+||+|-++.-++.+..+- . + ++.+.|+|..-|+-+.+..-..+.|..=+++-++++.++.
T Consensus 126 ~s~aP~lGL~GTV~GIm~aF~~i~~~~~~~~a~vA~GIseAL~aTA~GL~vAIPAvi~yn~l~r~~~~~~~~~e 199 (216)
T COG0811 126 GSIAPFLGLLGTVWGIMPAFIGIGAGGGADLAVVAPGISEALIATAIGLFVAIPAVVAYNVLRRKVEELLAKLE 199 (216)
T ss_pred HHhhhHHHHHHHHHHHHHHHHHHhccCCCCHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445666666665555444331 1 1 2666677766666655544444444444444455555544
No 63
>KOG2733 consensus Uncharacterized membrane protein [Function unknown]
Probab=24.44 E-value=85 Score=32.68 Aligned_cols=105 Identities=24% Similarity=0.445 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCCChHHhhhccchhHHHHHHHHHHHHHHhhhHHHHHHHHhhhh--hcccceEEe-
Q 019918 104 FVASGSLGGLIAITQLIGALANPARAADVPEILKGLSIDVSAVSLFAFLYSRENKAKNAQLARLSREE--SLSNLKLRV- 180 (334)
Q Consensus 104 f~aSa~iG~~i~~~rliaal~G~~~a~~l~e~l~nlaI~igava~f~~L~~~e~k~~~~qlarisREe--~L~rL~Vrl- 180 (334)
|+||++.|.+|.-. ++. .+.+.|+.+-+++ |+.++=++-++.+.+-- .|+.-.+-+
T Consensus 11 yGASGfTG~yivee-~v~-----------~~~~~~~slavAG---------Rn~~KL~~vL~~~~~k~~~~ls~~~i~i~ 69 (423)
T KOG2733|consen 11 YGASGFTGKYIVEE-AVS-----------SQVFEGLSLAVAG---------RNEKKLQEVLEKVGEKTGTDLSSSVILIA 69 (423)
T ss_pred EccccccceeeHHH-Hhh-----------hhcccCceEEEec---------CCHHHHHHHHHHHhhccCCCcccceEEEe
Confidence 67899999887643 222 1245666666665 22232233333333211 255555444
Q ss_pred cCCceeehhhhcccceEEE-EecCH----hHHHHHHhh------------------chhhHHHHhhcCcEEE
Q 019918 181 DEKKIISVNNLRGIARLVI-CSGPA----SYIMESFKR------------------SEPFTESLLERGVLVV 229 (334)
Q Consensus 181 ~~~r~v~L~qLRg~aRvVI-vAG~~----e~V~~al~~------------------Ae~~r~~L~~rgVLVV 229 (334)
+..-..+|.+|=..+|||| ++||= |.|-+|..+ -.+|-+.-.+.||+||
T Consensus 70 D~~n~~Sl~emak~~~vivN~vGPyR~hGE~VVkacienG~~~vDISGEP~f~E~mq~kYhd~A~ekGVYIV 141 (423)
T KOG2733|consen 70 DSANEASLDEMAKQARVIVNCVGPYRFHGEPVVKACIENGTHHVDISGEPQFMERMQLKYHDLAKEKGVYIV 141 (423)
T ss_pred cCCCHHHHHHHHhhhEEEEeccccceecCcHHHHHHHHcCCceeccCCCHHHHHHHHHHHHHHHHhcCeEEE
Confidence 5567889999999999999 66662 222222221 2356777788999997
No 64
>PTZ00253 tryparedoxin peroxidase; Provisional
Probab=24.12 E-value=1.5e+02 Score=26.53 Aligned_cols=52 Identities=17% Similarity=0.125 Sum_probs=38.4
Q ss_pred CCceeehhhhcccceEEEEecC---HhHHHHHHhhchhhHHHHhhcCcEEEEEeeC
Q 019918 182 EKKIISVNNLRGIARLVICSGP---ASYIMESFKRSEPFTESLLERGVLVVSFTTD 234 (334)
Q Consensus 182 ~~r~v~L~qLRg~aRvVIvAG~---~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~d 234 (334)
+++.++|.+++|. .+++.-.+ -..+...+.....+.++|.++|+-||-|..|
T Consensus 25 ~~~~v~l~d~~Gk-~~lL~F~p~~~~~~C~~e~~~l~~~~~~f~~~g~~vv~IS~d 79 (199)
T PTZ00253 25 SFKKISLSSYKGK-WVVLFFYPLDFTFVCPTEIIQFSDSVKRFNELNCEVLACSMD 79 (199)
T ss_pred CCcEEeHHHHCCC-EEEEEEEcCCCCCcCHHHHHHHHHHHHHHHHcCCEEEEEeCC
Confidence 4588999999986 34445554 2344555566777889999999999999885
No 65
>PLN02919 haloacid dehalogenase-like hydrolase family protein
Probab=24.09 E-value=3.8e+02 Score=30.88 Aligned_cols=134 Identities=11% Similarity=0.147 Sum_probs=69.9
Q ss_pred hcccceEEe--cCCceeeh-hhhcccceEEEEecC-HhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHH
Q 019918 172 SLSNLKLRV--DEKKIISV-NNLRGIARLVICSGP-ASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEE 247 (334)
Q Consensus 172 ~L~rL~Vrl--~~~r~v~L-~qLRg~aRvVIvAG~-~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~ 247 (334)
.+-.+...+ .+++.+++ .+|++..-+|-.-.+ =..+...+-..+.+.+++.+.++.||-|....-+.. ...++
T Consensus 396 ~~p~f~~~~~~~~g~~~~l~~~lkGK~vll~FWAsWC~pC~~e~P~L~~l~~~y~~~~~~vvgV~~~~~D~~---~~~~~ 472 (1057)
T PLN02919 396 KVPEFPPKLDWLNTAPLQFRRDLKGKVVILDFWTYCCINCMHVLPDLEFLEKKYKDQPFTVVGVHSAKFDNE---KDLEA 472 (1057)
T ss_pred cCCCCcccccccCCccccchhhcCCCEEEEEEECCcChhHHhHhHHHHHHHHHcCCCCeEEEEEeccccccc---ccHHH
Confidence 344444443 34678887 588875433333222 122333333445555567778888888864310000 01122
Q ss_pred HHHHhhhhccceEEeecchh-hHHHHHHHHHHHcCCCCCCCeEEEEeeCCeeecccCCCCcHHHHHhcCCC
Q 019918 248 MKEFTRKRKRLWQLTPVYVS-EWSKWLDEQKRTAGISPESPVYLSLRLDGRVRGSGVGYPPWNAFVAQLPP 317 (334)
Q Consensus 248 ~~~~~~~~~~~w~A~Pv~~~-eW~~wi~eQ~e~Agv~~~~gVyI~LrlDGRVr~SG~G~PpW~~lv~eLP~ 317 (334)
.+++..+..-. +|+..+ ..+-| +.-++ ..-|-++++.+||+|..+=.|.-++.++.+.+..
T Consensus 473 ~~~~~~~~~i~---~pvv~D~~~~~~-----~~~~V-~~iPt~ilid~~G~iv~~~~G~~~~~~l~~~l~~ 534 (1057)
T PLN02919 473 IRNAVLRYNIS---HPVVNDGDMYLW-----RELGV-SSWPTFAVVSPNGKLIAQLSGEGHRKDLDDLVEA 534 (1057)
T ss_pred HHHHHHHhCCC---ccEEECCchHHH-----HhcCC-CccceEEEECCCCeEEEEEecccCHHHHHHHHHH
Confidence 33333332222 233322 11111 11244 2358999999999999998888777766555443
No 66
>PF04418 DUF543: Domain of unknown function (DUF543); InterPro: IPR007512 This family of short eukaryotic proteins has no known function. Most of the members of this family are only 80 amino acid residues long. However the Arabidopsis homologue is over 300 residues long. These proteins contain a conserved N-terminal cysteine and a conserved motif GXGXGXG in the carboxy terminal half that may be functionally important.
Probab=23.81 E-value=21 Score=28.67 Aligned_cols=14 Identities=36% Similarity=0.722 Sum_probs=11.9
Q ss_pred ccCCCCccccccch
Q 019918 13 PVGSGRGYCNCQYH 26 (334)
Q Consensus 13 ~~~~~~~~~~~~~~ 26 (334)
-.|.|.+|.||||.
T Consensus 60 G~G~G~aY~~c~~~ 73 (75)
T PF04418_consen 60 GFGIGMAYSECQRD 73 (75)
T ss_pred ccccchhHHHHHHh
Confidence 36899999999974
No 67
>PF07535 zf-DBF: DBF zinc finger; InterPro: IPR006572 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. In eukaryotes, initiation of DNA replication requires the assembly of pre-replication complexes (pre-RCs) on chromatin during the G1 phase. In the S phase, pre-RCs are activated by two protein kinases, Cdk2 and Cdc7, which results in the loading of replication factors and the unwinding of replication origins by the MCM helicase complex []. Cdc7 is a serine/threonine kinase that is conserved from yeast to human. It is regulated by its association with a regulatory subunit, the Dbf4 protein. This complex is often referred to as DDK (Dbf4-dependent kinase) []. DBF4 contains an N-terminal BRCT domain and a C-terminal conserved region that could potentially coordinate one zinc atom, the DBF4-type zinc finger. This entry represents the zinc finger, which is important for the interaction with Cdc7 [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding
Probab=23.54 E-value=43 Score=24.94 Aligned_cols=18 Identities=33% Similarity=0.783 Sum_probs=13.2
Q ss_pred Cccc-cccchhhHHhHHHH
Q 019918 18 RGYC-NCQYHASRFCRQIL 35 (334)
Q Consensus 18 ~~~~-~~~~~~~~~~~~~~ 35 (334)
.||| ||+..-..|..|+.
T Consensus 5 ~GYCE~C~~ky~~l~~Hi~ 23 (49)
T PF07535_consen 5 PGYCENCRVKYDDLEEHIQ 23 (49)
T ss_pred CccCccccchhhhHHHHhC
Confidence 5899 57777777777764
No 68
>COG3752 Steroid 5-alpha reductase family enzyme [General function prediction only]
Probab=23.42 E-value=6.9e+02 Score=24.87 Aligned_cols=82 Identities=20% Similarity=0.206 Sum_probs=49.2
Q ss_pred ccCCCCcccchHHHHHHHHhCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCChHHhhhccchhHHHHHHHH
Q 019918 71 ATDRSDPEISSAARIRNEVLSPFRSVRMFFYLAFVASGSLGGLIAITQLIGALANPARAADVPEILKGLSIDVSAVSLFA 150 (334)
Q Consensus 71 aank~~~~~~~~~rLraEa~aPfR~lR~Ffy~af~aSa~iG~~i~~~rliaal~G~~~a~~l~e~l~nlaI~igava~f~ 150 (334)
..|+| |.-.+.+||++--+-.+-+-.||+ -|+.=|.+-.+++++=-++++.|. .... .+|+.+++++.
T Consensus 91 ~~~~g--eD~RY~~l~~~wg~t~~~~~~l~~-vf~lQ~ll~~ilalpi~~a~~~~~-~~~~--------~~d~~g~~iwi 158 (272)
T COG3752 91 TRGKG--EDPRYVNLRQRWGKTIYPLKALFI-VFGLQALLLFILALPIYLAALNGP-REFG--------WWDVIGLAIWI 158 (272)
T ss_pred hcCCC--CChHHHHHHHHhccchhHHHHHHH-HHHHHHHHHHHHHHHHHHHhcCCC-CCCc--------HHHHHHHHHHH
Confidence 34666 566999999976555444444444 355666777788888777765542 2222 34556666666
Q ss_pred HHHHHHhhhHHHHHH
Q 019918 151 FLYSRENKAKNAQLA 165 (334)
Q Consensus 151 ~L~~~e~k~~~~qla 165 (334)
+-+-.|-=. |.|+.
T Consensus 159 vg~~fE~lg-D~QL~ 172 (272)
T COG3752 159 VGIVFEALG-DAQLW 172 (272)
T ss_pred HHHHHHHhh-HHHHH
Confidence 666666543 33443
No 69
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=23.38 E-value=1.1e+02 Score=26.28 Aligned_cols=20 Identities=15% Similarity=0.270 Sum_probs=10.8
Q ss_pred HHHHHHhhhHHHHHHHHhhh
Q 019918 151 FLYSRENKAKNAQLARLSRE 170 (334)
Q Consensus 151 ~L~~~e~k~~~~qlarisRE 170 (334)
||..+-+++++|+.+.+-..
T Consensus 17 yf~iRPQkKr~Ke~~em~~s 36 (113)
T PRK06531 17 FFMQRQQKKQAQERQNQLNA 36 (113)
T ss_pred HheechHHHHHHHHHHHHHh
Confidence 34455666666665544433
No 70
>PF03210 Paramyx_P_V_C: Paramyxovirus P/V phosphoprotein C-terminal; InterPro: IPR004897 Paramyxoviral P genes are able to generate more than one product, using alternative reading frames and RNA editing. The P gene encodes the structural phosphoprotein P. In addition, it encodes several non-structural proteins present in the infected cell but not in the virus particle. This family includes phosphoprotein P and the non-structural phosphoprotein V from different paramyxoviruses. Phosphoprotein P is a modular protein organised into two moieties that are both functionally and structurally distinct: a well-conserved C-terminal moiety that contains all the regions required for transcription, and a poorly conserved, intrinsically unstructured N-terminal moiety that provides several additional functions required for replication. The N-terminal moiety is responsible for binding to newly synthesized free N(0) (nucleoprotein that has not yet bound RNA), in order to prevent the binding of N(0) to cellular RNA. The C-terminal moiety consists of an oligomerisation domain, an N-RNA (nucleoprotein-RNA)-binding domain and an L polymerase-binding domain [, ]. Phosphoprotein P is essential for the activity of the RNA polymerase complex which it forms with another subunit, L IPR001016 from INTERPRO. Although all the catalytic activities of the polymerase are associated with the L subunit, its function requires specific interactions with phosphoprotein P []. The P and V phosphoproteins are amino co-terminal, but diverge at their C-termini. This difference is generated by an RNA-editing mechanism in which one or two non-templated G residues are inserted into P-gene-derived mRNA. In Measles virus and Sendai virus, one G residue is inserted and the edited transcript encodes the V protein. In Mumps virus, Simian virus 5 and Newcastle disease virus, two G residues are inserted, and the edited transcript codes for the P protein []. Being phosphoproteins, both P and V are rich in serine and threonine residues over their whole lengths. In addition, the V proteins are rich in cysteine residues at the C-termini [].; PDB: 1T6O_A 2K9D_A 1OKS_A 3BBZ_B.
Probab=22.98 E-value=28 Score=31.25 Aligned_cols=56 Identities=18% Similarity=0.234 Sum_probs=0.0
Q ss_pred hhhhhcccceEEe-cCCceeehhhhcccc--eEEEEecCHhHHHHHHhhchhhHHHHhh
Q 019918 168 SREESLSNLKLRV-DEKKIISVNNLRGIA--RLVICSGPASYIMESFKRSEPFTESLLE 223 (334)
Q Consensus 168 sREe~L~rL~Vrl-~~~r~v~L~qLRg~a--RvVIvAG~~e~V~~al~~Ae~~r~~L~~ 223 (334)
+=|..|+.+++=- |.++..|+.++|... ++||++|+.....+..+..+.+.++|.+
T Consensus 33 tiEG~l~si~ImdPG~~~~~s~~~~k~~~~~~pVI~~g~g~~~~~v~~~~~I~~d~Lar 91 (155)
T PF03210_consen 33 TIEGQLTSIMIMDPGNGSVSSLNEMKKNPKLKPVIVRGPGRGLKEVTQDGTIDLDELAR 91 (155)
T ss_dssp -----------------------------------------------------------
T ss_pred HHHHHHheeeEecCCCCCCCCHHHHHhCCCcCcEEecCCCCcccccCcCCeecccccCC
Confidence 4566777777544 567889999999975 7999999999888877766666666554
No 71
>PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=22.93 E-value=4e+02 Score=21.30 Aligned_cols=38 Identities=11% Similarity=0.116 Sum_probs=26.7
Q ss_pred chHHHHHHHHhCchhhHHHHHHHHHHHHHHHHHHHHHH
Q 019918 80 SSAARIRNEVLSPFRSVRMFFYLAFVASGSLGGLIAIT 117 (334)
Q Consensus 80 ~~~~rLraEa~aPfR~lR~Ffy~af~aSa~iG~~i~~~ 117 (334)
+.+.+.....|.=|+.+|+.-.+....+|.++.+..+.
T Consensus 5 ~~y~~~a~~~q~~~~~~~~~~i~~~~~~a~i~~l~~~~ 42 (112)
T PF14015_consen 5 DWYDKKARRAQRRYRRLRIASIILSVLGAVIPVLASLS 42 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44566667777778888888887777777777654443
No 72
>PF00235 Profilin: Profilin; InterPro: IPR002097 Profilin is a small eukaryotic protein that binds to monomeric actin (G-actin) in a 1:1 ratio thus preventing the polymerisation of actin into filaments (F-actin). It can also in certain circumstance promote actin polymerisation. Profilin also binds to polyphosphoinositides such as PIP2. Overall sequence similarity among profilin from organisms which belong to different phyla (ranging from fungi to mammals) is low, but the N-terminal region is relatively well conserved. That region is thought to be involved in the binding to actin. A protein structurally similar to profilin is present in the genome of Variola virus and Vaccinia virus (gene A42R). Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Ara t 8, Bet v 2, Cyn d 12, Hel a 2, Mer a 1 and Phl p 11.; GO: 0003779 actin binding, 0007010 cytoskeleton organization, 0015629 actin cytoskeleton; PDB: 1ACF_A 3NEC_C 2V8F_B 2V8C_A 2VK3_A 2JKF_A 2JKG_A 1F2K_B 2ACG_A 1YPR_B ....
Probab=22.76 E-value=53 Score=26.99 Aligned_cols=35 Identities=29% Similarity=0.466 Sum_probs=25.0
Q ss_pred hHHHHHHHHHHHcCCCCCCCeEEEEeeCCeeecccCCC
Q 019918 268 EWSKWLDEQKRTAGISPESPVYLSLRLDGRVRGSGVGY 305 (334)
Q Consensus 268 eW~~wi~eQ~e~Agv~~~~gVyI~LrlDGRVr~SG~G~ 305 (334)
.|+.||++++-..+- -.-..++..||.|+.+.-|.
T Consensus 1 sW~~~i~~~L~~~~~---~~~aaI~~~dG~vwA~s~~f 35 (121)
T PF00235_consen 1 SWQDYIDEQLIGTGN---ITKAAIIGSDGSVWASSPGF 35 (121)
T ss_dssp THHHHHHTHHHTTSS---ESEEEEEETTSSEEEEETTG
T ss_pred ChhHHHHHHhcccCc---EeEEEEEcCCCCEEEecCCC
Confidence 599999987754432 12344555999999998884
No 73
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=22.47 E-value=4e+02 Score=23.53 Aligned_cols=15 Identities=20% Similarity=-0.062 Sum_probs=5.9
Q ss_pred ccchhHHHHHHHHHH
Q 019918 138 GLSIDVSAVSLFAFL 152 (334)
Q Consensus 138 nlaI~igava~f~~L 152 (334)
-..|-+|++.+-+.+
T Consensus 43 ~~~lAlg~vL~~~g~ 57 (191)
T PF04156_consen 43 IALLALGVVLLSLGL 57 (191)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333444444333333
No 74
>cd03010 TlpA_like_DsbE TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c maturation (Ccm) factor with a redox active CXXC motif. Assembly of cytochrome c requires the ligation of heme to reduced thiols of the apocytochrome. In bacteria, this assembly occurs in the periplasm. The reductase activity of DsbE in the oxidizing environment of the periplasm is crucial in the maturation of cytochrome c.
Probab=22.44 E-value=4.1e+02 Score=21.28 Aligned_cols=108 Identities=15% Similarity=0.152 Sum_probs=57.4
Q ss_pred CceeehhhhcccceEEEEecC-HhHHHHHHhhchhhHHHHhhcCcEEEEEeeCCCCCCCCccchHHHHHHhhhhccceEE
Q 019918 183 KKIISVNNLRGIARLVICSGP-ASYIMESFKRSEPFTESLLERGVLVVSFTTDGNIPSFEFEESEEMKEFTRKRKRLWQL 261 (334)
Q Consensus 183 ~r~v~L~qLRg~aRvVIvAG~-~e~V~~al~~Ae~~r~~L~~rgVLVVPV~~dg~sp~~~f~~~e~~~~~~~~~~~~w~A 261 (334)
++.+++.++++..-+|...++ -..+...+...+.+.+.. ++-||-|..+. ..++..++....+-.|-
T Consensus 15 ~~~~~~~~~~gk~vvv~F~a~~C~~C~~~~~~l~~l~~~~---~~~vv~v~~~~--------~~~~~~~~~~~~~~~~~- 82 (127)
T cd03010 15 DKTLTSADLKGKPYLLNVWASWCAPCREEHPVLMALARQG---RVPIYGINYKD--------NPENALAWLARHGNPYA- 82 (127)
T ss_pred CccccHHHcCCCEEEEEEEcCcCHHHHHHHHHHHHHHHhc---CcEEEEEECCC--------CHHHHHHHHHhcCCCCc-
Confidence 378999999986554444432 223333333333333332 47777776532 12233333333222232
Q ss_pred eecchhhHHHHHHHHHHH---cCCCCCCCeEEEEeeCCeeecccCCCCcHHHH
Q 019918 262 TPVYVSEWSKWLDEQKRT---AGISPESPVYLSLRLDGRVRGSGVGYPPWNAF 311 (334)
Q Consensus 262 ~Pv~~~eW~~wi~eQ~e~---Agv~~~~gVyI~LrlDGRVr~SG~G~PpW~~l 311 (334)
|+..+ ++.+. -++. .-+-+++|.+||+|+.+=.|.-++..|
T Consensus 83 -~~~~D-------~~~~~~~~~~v~-~~P~~~~ld~~G~v~~~~~G~~~~~~~ 126 (127)
T cd03010 83 -AVGFD-------PDGRVGIDLGVY-GVPETFLIDGDGIIRYKHVGPLTPEVW 126 (127)
T ss_pred -eEEEC-------CcchHHHhcCCC-CCCeEEEECCCceEEEEEeccCChHhc
Confidence 22111 11111 2332 247789999999999998888777654
No 75
>PF01313 Bac_export_3: Bacterial export proteins, family 3; InterPro: IPR002191 The fliL operon of Escherichia coli contains seven genes (including fliO, fliP, fliQ and fliR) involved in the biosynthesis and functioning of the flagellar organelle []. The fliO, fliP, fliQ and fliR genes encode highly hydrophobic polypeptides. The fliQ gene product, a small integral membrane protein that contains two putative transmembrane (TM) regions, is required for the assembly of the rivet at the earliest stage of flagellar biosynthesis. Proteins sharing an evolutionary relationship with FliQ have been found in a range of bacteria: these include Yop translocation protein S from Yersinia pestis []; surface antigen-presentation protein SpaQ from Salmonella typhimurium and Shigella flexneri []; and probable translocation protein Y4YM from Rhizobium sp. (strain NGR234) []. All of these members export proteins, that do not possess signal peptides, through the membrane. Although the proteins that these exporters move may be different, the exporters are thought to function in similar ways [].; GO: 0009306 protein secretion, 0016020 membrane
Probab=22.34 E-value=2.7e+02 Score=22.41 Aligned_cols=21 Identities=19% Similarity=0.229 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhc
Q 019918 104 FVASGSLGGLIAITQLIGALA 124 (334)
Q Consensus 104 f~aSa~iG~~i~~~rliaal~ 124 (334)
+.++..+|+.|+++|.+..++
T Consensus 22 L~~alvvGlvIsi~QA~TqIq 42 (76)
T PF01313_consen 22 LLVALVVGLVISIFQAATQIQ 42 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 567778999999999998544
No 76
>PF13244 DUF4040: Domain of unknown function (DUF4040)
Probab=21.91 E-value=2.1e+02 Score=22.30 Aligned_cols=46 Identities=28% Similarity=0.362 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCCCCChHHhhhccchhHHHH-HHHHHHHH
Q 019918 101 YLAFVASGSLGGLIAITQLIGALANPARAADVPEILKGLSIDVSAV-SLFAFLYS 154 (334)
Q Consensus 101 y~af~aSa~iG~~i~~~rliaal~G~~~a~~l~e~l~nlaI~igav-a~f~~L~~ 154 (334)
..+....+.+|..+++.=+.-. |||+. +..++|..|.. ++|.+.++
T Consensus 18 l~avi~~~~~g~~~al~f~~l~------APDVA--lTe~~Vg~gl~~~l~~~al~ 64 (70)
T PF13244_consen 18 LAAVIALGVFGFLIALLFVLLG------APDVA--LTEAAVGTGLTTVLFLLALR 64 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHhC------CcHHH--HHHHHHHHhHHHHHHHHHHH
Confidence 3455666677777776666653 79888 88888888543 34444333
Done!