Query 024847
Match_columns 261
No_of_seqs 365 out of 2147
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 07:51:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024847.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024847hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0207 Cation transport ATPas 99.4 5E-12 1.1E-16 123.1 14.6 140 30-194 70-216 (951)
2 PRK10671 copA copper exporting 99.4 1.5E-11 3.3E-16 123.5 17.6 159 29-192 3-164 (834)
3 KOG0207 Cation transport ATPas 99.4 5.2E-12 1.1E-16 122.9 12.9 133 36-194 2-139 (951)
4 PF00403 HMA: Heavy-metal-asso 99.2 5.9E-11 1.3E-15 80.8 8.3 59 32-91 1-62 (62)
5 PF00403 HMA: Heavy-metal-asso 99.2 1.3E-10 2.8E-15 79.1 7.9 58 130-188 1-62 (62)
6 COG2608 CopZ Copper chaperone 99.2 2.9E-10 6.3E-15 79.7 8.8 66 28-94 1-69 (71)
7 COG2608 CopZ Copper chaperone 99.0 5E-09 1.1E-13 73.4 8.6 64 127-191 2-69 (71)
8 KOG1603 Copper chaperone [Inor 98.9 7.5E-09 1.6E-13 72.9 8.4 66 126-192 4-70 (73)
9 KOG1603 Copper chaperone [Inor 98.7 6.3E-08 1.4E-12 68.2 8.1 66 27-94 3-69 (73)
10 KOG4656 Copper chaperone for s 98.4 1.1E-06 2.3E-11 72.5 8.3 68 27-96 5-72 (247)
11 KOG4656 Copper chaperone for s 98.3 4.2E-06 9E-11 69.1 7.8 68 127-195 7-74 (247)
12 PLN02957 copper, zinc superoxi 97.8 0.00013 2.8E-09 63.0 9.6 70 127-197 6-75 (238)
13 PLN02957 copper, zinc superoxi 97.8 0.00018 3.9E-09 62.1 9.8 67 29-97 6-72 (238)
14 COG2217 ZntA Cation transport 97.8 6.3E-05 1.4E-09 74.2 7.7 64 29-94 2-69 (713)
15 PRK10671 copA copper exporting 97.7 0.00013 2.9E-09 73.8 7.9 64 127-193 3-67 (834)
16 COG2217 ZntA Cation transport 97.6 0.00019 4.2E-09 70.8 7.4 62 128-191 3-69 (713)
17 TIGR00003 copper ion binding p 97.5 0.0011 2.3E-08 42.8 8.6 63 29-92 2-67 (68)
18 TIGR00003 copper ion binding p 97.3 0.0028 6E-08 40.8 8.3 60 128-188 3-66 (68)
19 PRK11033 zntA zinc/cadmium/mer 96.1 0.02 4.4E-07 57.4 8.3 67 26-93 50-117 (741)
20 PRK11033 zntA zinc/cadmium/mer 95.4 0.048 1E-06 54.7 7.4 64 126-191 52-118 (741)
21 TIGR02052 MerP mercuric transp 90.5 3.4 7.4E-05 28.5 8.7 62 128-190 24-89 (92)
22 TIGR02052 MerP mercuric transp 89.6 5 0.00011 27.6 9.0 62 30-92 24-88 (92)
23 COG1888 Uncharacterized protei 79.5 16 0.00035 26.5 7.3 64 126-190 5-77 (97)
24 PRK13748 putative mercuric red 76.6 13 0.00028 35.9 8.3 64 130-194 3-69 (561)
25 PRK13748 putative mercuric red 74.8 16 0.00035 35.2 8.5 64 32-96 3-68 (561)
26 PF02680 DUF211: Uncharacteriz 71.4 38 0.00082 24.9 7.6 62 126-189 4-74 (95)
27 cd00371 HMA Heavy-metal-associ 66.1 21 0.00045 19.9 7.5 53 133-186 4-59 (63)
28 COG1888 Uncharacterized protei 59.5 66 0.0014 23.4 7.5 67 27-94 4-78 (97)
29 PRK14054 methionine sulfoxide 55.3 40 0.00086 27.6 5.9 28 40-67 10-37 (172)
30 COG2177 FtsX Cell division pro 52.8 1.2E+02 0.0025 27.2 8.9 91 30-160 62-152 (297)
31 PF01206 TusA: Sulfurtransfera 50.5 41 0.00089 22.5 4.6 51 130-190 2-55 (70)
32 PF02680 DUF211: Uncharacteriz 48.0 55 0.0012 24.0 4.9 65 27-93 3-75 (95)
33 PF01883 DUF59: Domain of unkn 46.6 39 0.00085 22.8 4.0 32 128-159 35-72 (72)
34 PRK05528 methionine sulfoxide 44.9 82 0.0018 25.3 6.1 46 40-85 8-69 (156)
35 PRK13014 methionine sulfoxide 44.0 57 0.0012 27.1 5.2 36 27-67 7-42 (186)
36 PF02162 XYPPX: XYPPX repeat ( 43.0 21 0.00045 16.9 1.4 8 240-247 7-14 (15)
37 PF01206 TusA: Sulfurtransfera 38.8 1.2E+02 0.0025 20.2 6.0 52 32-93 2-55 (70)
38 PRK00058 methionine sulfoxide 34.0 1.3E+02 0.0029 25.5 6.0 27 40-66 52-78 (213)
39 PRK10553 assembly protein for 33.2 1.6E+02 0.0034 21.2 5.4 44 139-182 17-61 (87)
40 COG0841 AcrB Cation/multidrug 33.0 6.2E+02 0.013 26.8 12.7 123 42-182 62-207 (1009)
41 PRK11018 hypothetical protein; 31.6 1.8E+02 0.0039 20.2 5.6 53 128-190 8-63 (78)
42 cd03421 SirA_like_N SirA_like_ 29.0 1.6E+02 0.0035 19.4 4.7 50 131-191 2-54 (67)
43 PF08777 RRM_3: RNA binding mo 28.2 2.4E+02 0.0052 20.8 5.9 54 129-182 2-58 (105)
44 TIGR02945 SUF_assoc FeS assemb 27.7 1.5E+02 0.0032 21.3 4.7 40 142-186 58-97 (99)
45 PF01625 PMSR: Peptide methion 26.0 1.8E+02 0.0039 23.3 5.2 27 40-66 7-33 (155)
46 PF13291 ACT_4: ACT domain; PD 25.9 1.9E+02 0.0041 19.6 4.8 32 127-158 48-79 (80)
47 cd04888 ACT_PheB-BS C-terminal 24.0 2.2E+02 0.0048 18.7 8.0 33 127-159 41-74 (76)
48 PF14437 MafB19-deam: MafB19-l 23.7 2.3E+02 0.005 22.6 5.3 39 127-166 100-140 (146)
49 PF09122 DUF1930: Domain of un 23.7 1.7E+02 0.0037 19.7 3.8 46 27-72 17-63 (68)
50 PRK14054 methionine sulfoxide 22.9 1.6E+02 0.0035 24.1 4.5 28 138-165 10-37 (172)
51 TIGR03406 FeS_long_SufT probab 22.5 1.2E+02 0.0027 24.8 3.7 34 30-63 114-153 (174)
52 KOG2044 5'-3' exonuclease HKE1 22.1 34 0.00073 34.6 0.4 19 229-247 534-557 (931)
53 TIGR03406 FeS_long_SufT probab 21.2 1.5E+02 0.0032 24.3 3.9 34 128-161 114-153 (174)
54 PF03927 NapD: NapD protein; 20.6 3.1E+02 0.0066 19.1 6.2 42 140-182 16-58 (79)
55 PRK10553 assembly protein for 20.4 3.4E+02 0.0073 19.5 5.7 45 41-85 17-61 (87)
No 1
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=99.40 E-value=5e-12 Score=123.07 Aligned_cols=140 Identities=25% Similarity=0.459 Sum_probs=122.4
Q ss_pred eEEEEE-eccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEec--cCCHHHHHHHHHhhcCCceeeecCCCCCCCCCC
Q 024847 30 EIVLKV-DMHCEACARKVARALKGFEGVDDITADSKASKVVVKGK--TADPIKVCERLQKKSGRKVELISPLPKPPPPDA 106 (261)
Q Consensus 30 ~~~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~--~~d~~~i~~~i~~~~G~~~~~~s~~~~~~~~~~ 106 (261)
+..|.+ ||+|.+|++.|++.|+...|+.++.+.+....+.+.++ ..++..+.+.++ ++||.+.++......
T Consensus 70 ~~~l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~~~~~v~~dp~v~s~~~~~e~ie-~~gf~a~~i~~~~~~----- 143 (951)
T KOG0207|consen 70 KCYLSVNGMTCASCVATIERNLRKIEGVESAVVALSASKAEVIYDPAVTSPDSIAESIE-DLGFSAELIESVNGN----- 143 (951)
T ss_pred eeEEEecCceeHHHHHHHHHHhhccCCcceEEEEeeccceeEEECCcccCchhHHHHHH-hcCccceehhcccCC-----
Confidence 678899 99999999999999999999999999999999999986 358889999999 799998876533211
Q ss_pred CchhhhhhhhccccCCCCcceEEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEE---eeCCHHHHHHHHH
Q 024847 107 DDQEKKEQQKVEKKEEPPAAITVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVK---GVVDPVKLVNDVN 182 (261)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~~~~~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~---g~~d~~~l~~~l~ 182 (261)
...++.|.| ||.|++|..+|++.+.+++||.++++++.++++.|. ....+.++.+.|.
T Consensus 144 ------------------~~~~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie 205 (951)
T KOG0207|consen 144 ------------------SNQKIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIE 205 (951)
T ss_pred ------------------CCCcEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHH
Confidence 115789999 999999999999999999999999999999999988 4578999999998
Q ss_pred HcCCCceeeccc
Q 024847 183 KKTRKQASIVKD 194 (261)
Q Consensus 183 kk~G~~a~i~~~ 194 (261)
.+|+.+.....
T Consensus 206 -~~~~~~~~~~~ 216 (951)
T KOG0207|consen 206 -ETGFEASVRPY 216 (951)
T ss_pred -hhcccceeeec
Confidence 99998766553
No 2
>PRK10671 copA copper exporting ATPase; Provisional
Probab=99.38 E-value=1.5e-11 Score=123.54 Aligned_cols=159 Identities=21% Similarity=0.351 Sum_probs=114.7
Q ss_pred ceEEEEE-eccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEeccCCHHHHHHHHHhhcCCceeeecCCCCCCCCCCC
Q 024847 29 PEIVLKV-DMHCEACARKVARALKGFEGVDDITADSKASKVVVKGKTADPIKVCERLQKKSGRKVELISPLPKPPPPDAD 107 (261)
Q Consensus 29 ~~~~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~~~d~~~i~~~i~~~~G~~~~~~s~~~~~~~~~~~ 107 (261)
++++|.| ||+|++|+.+|+++|.+++||.++.+++. +..+.. ..+...+...++ ++||.+.+.++..........
T Consensus 3 ~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~-~~~~~~i~~~i~-~~Gy~~~~~~~~~~~~~~~~~ 78 (834)
T PRK10671 3 QTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTG-TASAEALIETIK-QAGYDASVSHPKAKPLTESSI 78 (834)
T ss_pred eEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEe-cCCHHHHHHHHH-hcCCccccccccccccccccc
Confidence 5689999 99999999999999999999999999994 555555 468889999999 699999875422111000000
Q ss_pred c-hhhhhhhhccccCCCCcceEEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEEeeCCHHHHHHHHHHcC
Q 024847 108 D-QEKKEQQKVEKKEEPPAAITVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVKGVVDPVKLVNDVNKKT 185 (261)
Q Consensus 108 ~-~~~~~~~~~~~~~~~~~~~~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~g~~d~~~l~~~l~kk~ 185 (261)
. +...................+.+.+ ||+|..|...+++.+..++||.++.+++..+++.+.+..++..+...++ .+
T Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~-~~ 157 (834)
T PRK10671 79 PSEALTAASEELPAATADDDDSQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVE-KA 157 (834)
T ss_pred CchhhhhhhhhccccccCcCceEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHH-hc
Confidence 0 0000000000000001123577889 9999999999999999999999999999998888875567888888887 89
Q ss_pred CCceeec
Q 024847 186 RKQASIV 192 (261)
Q Consensus 186 G~~a~i~ 192 (261)
||.+.+.
T Consensus 158 Gy~a~~~ 164 (834)
T PRK10671 158 GYGAEAI 164 (834)
T ss_pred CCCcccc
Confidence 9976543
No 3
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=99.37 E-value=5.2e-12 Score=122.92 Aligned_cols=133 Identities=23% Similarity=0.428 Sum_probs=117.9
Q ss_pred eccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEec-cCCHHHHHHHHHhhcCCceeeecCCCCCCCCCCCchhhhhh
Q 024847 36 DMHCEACARKVARALKGFEGVDDITADSKASKVVVKGK-TADPIKVCERLQKKSGRKVELISPLPKPPPPDADDQEKKEQ 114 (261)
Q Consensus 36 gm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~-~~d~~~i~~~i~~~~G~~~~~~s~~~~~~~~~~~~~~~~~~ 114 (261)
||+|..|++.|+.+++..+|+.++.+++.++.+.|.++ .++++.+.+.|+ +.||.+.+++....
T Consensus 2 gmtc~ac~~si~~~~~~~~g~~~i~vsl~~~~~~v~~~~~~~~~~i~~~ie-d~gf~~~~~~~~~~-------------- 66 (951)
T KOG0207|consen 2 GMTCSACSNSIEKAISRKPGVQKIEVSLAQKRANVSYDNIVSPESIKETIE-DMGFEASLLSDSEI-------------- 66 (951)
T ss_pred CccHHHHhhhHHHHHhcCCCceeEEEEeccccceEEEeeccCHHHHHHHhh-cccceeeecccCcc--------------
Confidence 89999999999999999999999999999999999996 468999999999 79999987754321
Q ss_pred hhccccCCCCcceEEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEE---eeCCHHHHHHHHHHcCCCcee
Q 024847 115 QKVEKKEEPPAAITVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVK---GVVDPVKLVNDVNKKTRKQAS 190 (261)
Q Consensus 115 ~~~~~~~~~~~~~~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~---g~~d~~~l~~~l~kk~G~~a~ 190 (261)
...+..|.+ ||+|.+|.+.+++.|+++.||.++.+.+.....++. ....+..+...++ ++||.+.
T Consensus 67 ----------~~~~~~l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~~~~~v~~dp~v~s~~~~~e~ie-~~gf~a~ 135 (951)
T KOG0207|consen 67 ----------TASKCYLSVNGMTCASCVATIERNLRKIEGVESAVVALSASKAEVIYDPAVTSPDSIAESIE-DLGFSAE 135 (951)
T ss_pred ----------ccceeEEEecCceeHHHHHHHHHHhhccCCcceEEEEeeccceeEEECCcccCchhHHHHHH-hcCccce
Confidence 123678999 999999999999999999999999999999999988 3578889999998 9999888
Q ss_pred eccc
Q 024847 191 IVKD 194 (261)
Q Consensus 191 i~~~ 194 (261)
++..
T Consensus 136 ~i~~ 139 (951)
T KOG0207|consen 136 LIES 139 (951)
T ss_pred ehhc
Confidence 7655
No 4
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=99.23 E-value=5.9e-11 Score=80.79 Aligned_cols=59 Identities=34% Similarity=0.579 Sum_probs=53.8
Q ss_pred EEEE-eccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEec--cCCHHHHHHHHHhhcCCc
Q 024847 32 VLKV-DMHCEACARKVARALKGFEGVDDITADSKASKVVVKGK--TADPIKVCERLQKKSGRK 91 (261)
Q Consensus 32 ~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~--~~d~~~i~~~i~~~~G~~ 91 (261)
+|.| ||+|++|+++|+++|.+++||.++.+|+.+++++|.++ ..++..|.++|+ ++||+
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~-~~Gy~ 62 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIE-KAGYE 62 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHH-HTTSE
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHH-HhCcC
Confidence 5889 99999999999999999999999999999999999995 246789999999 69984
No 5
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=99.18 E-value=1.3e-10 Score=79.07 Aligned_cols=58 Identities=28% Similarity=0.497 Sum_probs=53.2
Q ss_pred EEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEEee---CCHHHHHHHHHHcCCCc
Q 024847 130 VLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVKGV---VDPVKLVNDVNKKTRKQ 188 (261)
Q Consensus 130 ~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~g~---~d~~~l~~~l~kk~G~~ 188 (261)
+|.| ||+|.+|+.+|+++|.+++||.++.+|+.+++++|.+. +++..|...|+ ++||+
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~-~~Gy~ 62 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIE-KAGYE 62 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHH-HTTSE
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHH-HhCcC
Confidence 5889 99999999999999999999999999999999999954 45699999998 89984
No 6
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.15 E-value=2.9e-10 Score=79.70 Aligned_cols=66 Identities=29% Similarity=0.468 Sum_probs=59.4
Q ss_pred CceEEEEE-eccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEecc--CCHHHHHHHHHhhcCCceee
Q 024847 28 TPEIVLKV-DMHCEACARKVARALKGFEGVDDITADSKASKVVVKGKT--ADPIKVCERLQKKSGRKVEL 94 (261)
Q Consensus 28 ~~~~~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~~--~d~~~i~~~i~~~~G~~~~~ 94 (261)
+....|.| ||+|.+|+.+|+++|..++||.++.+++..+.+.|.++. ++...|+++|. .+||.+..
T Consensus 1 ~~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~-~aGy~~~~ 69 (71)
T COG2608 1 MMKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIE-DAGYKVEE 69 (71)
T ss_pred CceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHH-HcCCCeee
Confidence 35688999 999999999999999999999999999999999998863 68899999999 69998753
No 7
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=98.96 E-value=5e-09 Score=73.41 Aligned_cols=64 Identities=22% Similarity=0.472 Sum_probs=57.4
Q ss_pred eEEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEE--e-eCCHHHHHHHHHHcCCCceee
Q 024847 127 ITVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVK--G-VVDPVKLVNDVNKKTRKQASI 191 (261)
Q Consensus 127 ~~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~--g-~~d~~~l~~~l~kk~G~~a~i 191 (261)
.+..|+| ||+|.+|+..+.++|..++||.++.+++..+.+.|. + .++.+.|..+|. .+||.+..
T Consensus 2 ~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~-~aGy~~~~ 69 (71)
T COG2608 2 MKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIE-DAGYKVEE 69 (71)
T ss_pred ceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHH-HcCCCeee
Confidence 3578999 999999999999999999999999999999777776 4 589999999998 99998754
No 8
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=98.92 E-value=7.5e-09 Score=72.93 Aligned_cols=66 Identities=45% Similarity=0.780 Sum_probs=59.5
Q ss_pred ceEEEEEEeecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEEeeCCHHHHHHHHHHcCC-Cceeec
Q 024847 126 AITVVLNVRMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVKGVVDPVKLVNDVNKKTR-KQASIV 192 (261)
Q Consensus 126 ~~~~~l~Vgm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~g~~d~~~l~~~l~kk~G-~~a~i~ 192 (261)
....++++.|||.+|..++.+.|+.+.||.++.+|...++++|.|.+++..|+..|+ +.| ..+.++
T Consensus 4 ~~~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~-k~~~k~~~~~ 70 (73)
T KOG1603|consen 4 IKTVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLK-KTGGKRAELW 70 (73)
T ss_pred ccEEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHH-hcCCCceEEe
Confidence 456788889999999999999999999999999999999999999999999999998 566 665554
No 9
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=98.74 E-value=6.3e-08 Score=68.20 Aligned_cols=66 Identities=48% Similarity=0.884 Sum_probs=58.3
Q ss_pred CCceEEEEEeccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEeccCCHHHHHHHHHhhcC-Cceee
Q 024847 27 ETPEIVLKVDMHCEACARKVARALKGFEGVDDITADSKASKVVVKGKTADPIKVCERLQKKSG-RKVEL 94 (261)
Q Consensus 27 ~~~~~~l~vgm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~~~d~~~i~~~i~~~~G-~~~~~ 94 (261)
.++..++.++|||.+|...|.+.|+.+.||.++.++...++++|.+ .+++..++..+.+ .| ....+
T Consensus 3 ~~~~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g-~~~p~~vl~~l~k-~~~k~~~~ 69 (73)
T KOG1603|consen 3 PIKTVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKG-NVDPVKLLKKLKK-TGGKRAEL 69 (73)
T ss_pred CccEEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEE-ecCHHHHHHHHHh-cCCCceEE
Confidence 3567788889999999999999999999999999999999999999 5899999999994 55 55443
No 10
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.43 E-value=1.1e-06 Score=72.55 Aligned_cols=68 Identities=29% Similarity=0.537 Sum_probs=61.8
Q ss_pred CCceEEEEEeccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEeccCCHHHHHHHHHhhcCCceeeec
Q 024847 27 ETPEIVLKVDMHCEACARKVARALKGFEGVDDITADSKASKVVVKGKTADPIKVCERLQKKSGRKVELIS 96 (261)
Q Consensus 27 ~~~~~~l~vgm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~~~d~~~i~~~i~~~~G~~~~~~s 96 (261)
...++.|.|.|+|.+|++.|+..|..++||.++.+++..+.+.|.. ...+..|.+.|+ .+|.++.+..
T Consensus 5 ~~~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~t-s~p~s~i~~~le-~tGr~Avl~G 72 (247)
T KOG4656|consen 5 DTYEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVET-SVPPSEIQNTLE-NTGRDAVLRG 72 (247)
T ss_pred CceeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEc-cCChHHHHHHHH-hhChheEEec
Confidence 4667889999999999999999999999999999999999999998 678889999999 7999887654
No 11
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.25 E-value=4.2e-06 Score=69.07 Aligned_cols=68 Identities=24% Similarity=0.470 Sum_probs=62.4
Q ss_pred eEEEEEEeecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEEeeCCHHHHHHHHHHcCCCceeecccc
Q 024847 127 ITVVLNVRMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVKGVVDPVKLVNDVNKKTRKQASIVKDE 195 (261)
Q Consensus 127 ~~~~l~Vgm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~g~~d~~~l~~~l~kk~G~~a~i~~~~ 195 (261)
-.+.|-|.|+|.+|+..+...|..++||.++.+++..+.+.|.+...+..|.+.|+ .+|..|.+...+
T Consensus 7 ~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le-~tGr~Avl~G~G 74 (247)
T KOG4656|consen 7 YEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLE-NTGRDAVLRGAG 74 (247)
T ss_pred eeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHH-hhChheEEecCC
Confidence 45788889999999999999999999999999999999999999899999999998 999998876554
No 12
>PLN02957 copper, zinc superoxide dismutase
Probab=97.83 E-value=0.00013 Score=63.03 Aligned_cols=70 Identities=21% Similarity=0.471 Sum_probs=61.7
Q ss_pred eEEEEEEeecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEEeeCCHHHHHHHHHHcCCCceeecccchh
Q 024847 127 ITVVLNVRMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVKGVVDPVKLVNDVNKKTRKQASIVKDEEK 197 (261)
Q Consensus 127 ~~~~l~Vgm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~g~~d~~~l~~~l~kk~G~~a~i~~~~~~ 197 (261)
+++.|.++|+|..|+..+++.|..++||.++.+++..++++|........+...|+ ++||.+.++.....
T Consensus 6 ~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe-~~Gy~a~~~~~~~~ 75 (238)
T PLN02957 6 LLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALE-QTGRKARLIGQGDP 75 (238)
T ss_pred EEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHH-HcCCcEEEecCCCc
Confidence 56778889999999999999999999999999999999999986678888999998 99999887776443
No 13
>PLN02957 copper, zinc superoxide dismutase
Probab=97.79 E-value=0.00018 Score=62.13 Aligned_cols=67 Identities=31% Similarity=0.490 Sum_probs=58.8
Q ss_pred ceEEEEEeccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEeccCCHHHHHHHHHhhcCCceeeecC
Q 024847 29 PEIVLKVDMHCEACARKVARALKGFEGVDDITADSKASKVVVKGKTADPIKVCERLQKKSGRKVELISP 97 (261)
Q Consensus 29 ~~~~l~vgm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~~~d~~~i~~~i~~~~G~~~~~~s~ 97 (261)
+.+.|.++|+|.+|+..|++.|..++||..+.+++..+++.|.+ ..+...++..++ .+||.+.+++.
T Consensus 6 ~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~-~~~~~~I~~aIe-~~Gy~a~~~~~ 72 (238)
T PLN02957 6 LLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLG-SSPVKAMTAALE-QTGRKARLIGQ 72 (238)
T ss_pred EEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEe-cCCHHHHHHHHH-HcCCcEEEecC
Confidence 45667779999999999999999999999999999999999987 567788889998 69999887654
No 14
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.78 E-value=6.3e-05 Score=74.18 Aligned_cols=64 Identities=28% Similarity=0.530 Sum_probs=56.0
Q ss_pred ceEEEEE-eccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEecc--CC-HHHHHHHHHhhcCCceee
Q 024847 29 PEIVLKV-DMHCEACARKVARALKGFEGVDDITADSKASKVVVKGKT--AD-PIKVCERLQKKSGRKVEL 94 (261)
Q Consensus 29 ~~~~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~~--~d-~~~i~~~i~~~~G~~~~~ 94 (261)
.+..|.| ||+|++|+++|+ +|++++||..+.+|+.++++.+.++. .+ ...+...++ ..||.+..
T Consensus 2 ~~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~-~~gy~~~~ 69 (713)
T COG2217 2 RETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVE-KAGYSARL 69 (713)
T ss_pred ceeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHH-hcCccccc
Confidence 4578999 999999999999 99999999999999999999999852 34 678888898 69998753
No 15
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.65 E-value=0.00013 Score=73.84 Aligned_cols=64 Identities=17% Similarity=0.396 Sum_probs=56.7
Q ss_pred eEEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEEeeCCHHHHHHHHHHcCCCceeecc
Q 024847 127 ITVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVKGVVDPVKLVNDVNKKTRKQASIVK 193 (261)
Q Consensus 127 ~~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~g~~d~~~l~~~l~kk~G~~a~i~~ 193 (261)
++++|.| ||+|.+|+.+|+++|.+++||.++.+++ .+.+|.+..+...+...++ ++||.+.+..
T Consensus 3 ~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~--~~~~v~~~~~~~~i~~~i~-~~Gy~~~~~~ 67 (834)
T PRK10671 3 QTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSI--TEAHVTGTASAEALIETIK-QAGYDASVSH 67 (834)
T ss_pred eEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEee--eEEEEEecCCHHHHHHHHH-hcCCcccccc
Confidence 4689999 9999999999999999999999999998 4566666678899999998 9999988754
No 16
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.57 E-value=0.00019 Score=70.81 Aligned_cols=62 Identities=35% Similarity=0.553 Sum_probs=55.3
Q ss_pred EEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEE---eeCC-HHHHHHHHHHcCCCceee
Q 024847 128 TVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVK---GVVD-PVKLVNDVNKKTRKQASI 191 (261)
Q Consensus 128 ~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~---g~~d-~~~l~~~l~kk~G~~a~i 191 (261)
+..|.| ||+|.+|+++|+ .|.+++||..+.+|+.++++.|. ...+ ...+...++ ..||.+..
T Consensus 3 ~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~-~~gy~~~~ 69 (713)
T COG2217 3 ETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVE-KAGYSARL 69 (713)
T ss_pred eeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHH-hcCccccc
Confidence 568999 999999999999 99999999999999999999988 2345 688999998 99998765
No 17
>TIGR00003 copper ion binding protein. This model describes an apparently copper-specific subfamily of the metal-binding domain HMA (Pfam family pfam00403). Closely related sequences outside this model include mercury resistance proteins and repeated domains of eukaryotic eukaryotic copper transport proteins. Members of this family are strictly prokaryotic. The model identifies both small proteins consisting of just this domain and N-terminal regions of cation (probably copper) transporting ATPases.
Probab=97.53 E-value=0.0011 Score=42.79 Aligned_cols=63 Identities=24% Similarity=0.462 Sum_probs=50.3
Q ss_pred ceEEEEE-eccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEec--cCCHHHHHHHHHhhcCCce
Q 024847 29 PEIVLKV-DMHCEACARKVARALKGFEGVDDITADSKASKVVVKGK--TADPIKVCERLQKKSGRKV 92 (261)
Q Consensus 29 ~~~~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~--~~d~~~i~~~i~~~~G~~~ 92 (261)
.+..+.| |++|..|+..++..+....++..+.+++....+.+.++ ..+...+...+. ..||.+
T Consensus 2 ~~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~ 67 (68)
T TIGR00003 2 QKFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAIL-DAGYEV 67 (68)
T ss_pred cEEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHH-HcCCCc
Confidence 3467899 99999999999999999999999999999999988873 235555666665 467643
No 18
>TIGR00003 copper ion binding protein. This model describes an apparently copper-specific subfamily of the metal-binding domain HMA (Pfam family pfam00403). Closely related sequences outside this model include mercury resistance proteins and repeated domains of eukaryotic eukaryotic copper transport proteins. Members of this family are strictly prokaryotic. The model identifies both small proteins consisting of just this domain and N-terminal regions of cation (probably copper) transporting ATPases.
Probab=97.28 E-value=0.0028 Score=40.78 Aligned_cols=60 Identities=18% Similarity=0.384 Sum_probs=49.5
Q ss_pred EEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEE---eeCCHHHHHHHHHHcCCCc
Q 024847 128 TVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVK---GVVDPVKLVNDVNKKTRKQ 188 (261)
Q Consensus 128 ~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~---g~~d~~~l~~~l~kk~G~~ 188 (261)
+..+.+ +++|..|...+...+....++....+++....+.+. +..+...+...+. ..||.
T Consensus 3 ~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~ 66 (68)
T TIGR00003 3 KFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAIL-DAGYE 66 (68)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHH-HcCCC
Confidence 456889 999999999999999999999999999999888877 2346666766676 77774
No 19
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=96.14 E-value=0.02 Score=57.38 Aligned_cols=67 Identities=28% Similarity=0.429 Sum_probs=53.8
Q ss_pred CCCceEEEEE-eccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEeccCCHHHHHHHHHhhcCCcee
Q 024847 26 EETPEIVLKV-DMHCEACARKVARALKGFEGVDDITADSKASKVVVKGKTADPIKVCERLQKKSGRKVE 93 (261)
Q Consensus 26 ~~~~~~~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~~~d~~~i~~~i~~~~G~~~~ 93 (261)
.....+.|.+ ||+|.+|+..++..+..++||.++.+++.++++.+.++......+...+. .+||.+.
T Consensus 50 ~~~~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~-~~Gy~a~ 117 (741)
T PRK11033 50 VSGTRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQ-KAGFSLR 117 (741)
T ss_pred CCCceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHH-hcccccc
Confidence 3455678889 99999999999999999999999999999999888763212255666677 5888764
No 20
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=95.36 E-value=0.048 Score=54.72 Aligned_cols=64 Identities=20% Similarity=0.379 Sum_probs=52.3
Q ss_pred ceEEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEE--eeCCHHHHHHHHHHcCCCceee
Q 024847 126 AITVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVK--GVVDPVKLVNDVNKKTRKQASI 191 (261)
Q Consensus 126 ~~~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~--g~~d~~~l~~~l~kk~G~~a~i 191 (261)
..++.+.+ ||+|.+|...+++.+..++||.++.+++.+.++.+. ...+ ..+...++ .+||.+..
T Consensus 52 ~~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~-~~I~~aI~-~~Gy~a~~ 118 (741)
T PRK11033 52 GTRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIR-AQVESAVQ-KAGFSLRD 118 (741)
T ss_pred CceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccch-HHHHHHHH-hccccccc
Confidence 34678889 999999999999999999999999999999888776 2222 56667777 88987643
No 21
>TIGR02052 MerP mercuric transport protein periplasmic component. This model represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding. MerP is related to a larger family of metal binding proteins (pfam00403).
Probab=90.53 E-value=3.4 Score=28.52 Aligned_cols=62 Identities=24% Similarity=0.388 Sum_probs=45.7
Q ss_pred EEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEE---eeCCHHHHHHHHHHcCCCcee
Q 024847 128 TVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVK---GVVDPVKLVNDVNKKTRKQAS 190 (261)
Q Consensus 128 ~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~---g~~d~~~l~~~l~kk~G~~a~ 190 (261)
.+.+.+ ++.|..|...+...+...+|+....+++......+. +..+...+...+. ..|+.++
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~~ 89 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATT-DAGYPSS 89 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHH-hcCCCeE
Confidence 456778 999999999999999999998888888777765554 1235555555665 6777644
No 22
>TIGR02052 MerP mercuric transport protein periplasmic component. This model represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding. MerP is related to a larger family of metal binding proteins (pfam00403).
Probab=89.59 E-value=5 Score=27.64 Aligned_cols=62 Identities=26% Similarity=0.366 Sum_probs=44.3
Q ss_pred eEEEEE-eccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEec--cCCHHHHHHHHHhhcCCce
Q 024847 30 EIVLKV-DMHCEACARKVARALKGFEGVDDITADSKASKVVVKGK--TADPIKVCERLQKKSGRKV 92 (261)
Q Consensus 30 ~~~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~--~~d~~~i~~~i~~~~G~~~ 92 (261)
.+.+.+ ++.|..|...+...+....++....+++......+..+ ..+...+...+. ..|+.+
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~ 88 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATT-DAGYPS 88 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHH-hcCCCe
Confidence 456778 99999999999999999999888888888887666542 124444444444 456654
No 23
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=79.48 E-value=16 Score=26.50 Aligned_cols=64 Identities=19% Similarity=0.280 Sum_probs=42.2
Q ss_pred ceEEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEc-----cCCeE--EEEe-eCCHHHHHHHHHHcCCCcee
Q 024847 126 AITVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNL-----ASGQV--IVKG-VVDPVKLVNDVNKKTRKQAS 190 (261)
Q Consensus 126 ~~~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~-----~~~~v--~V~g-~~d~~~l~~~l~kk~G~~a~ 190 (261)
.+.++|.+ --+-.--.-.+-..|+++.||..|++.+ .+..+ +|.| .+|.+.|...|. .+|....
T Consensus 5 iRRlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE-~~Gg~IH 77 (97)
T COG1888 5 IRRLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIE-ELGGAIH 77 (97)
T ss_pred ceeeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHH-HcCCeee
Confidence 46677777 4343333444556788889988777654 33333 4445 689999999998 8986543
No 24
>PRK13748 putative mercuric reductase; Provisional
Probab=76.56 E-value=13 Score=35.90 Aligned_cols=64 Identities=20% Similarity=0.423 Sum_probs=48.6
Q ss_pred EEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEEe--eCCHHHHHHHHHHcCCCceeeccc
Q 024847 130 VLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVKG--VVDPVKLVNDVNKKTRKQASIVKD 194 (261)
Q Consensus 130 ~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~g--~~d~~~l~~~l~kk~G~~a~i~~~ 194 (261)
.+.+ +|+|..|..++...+..++++....+++....+.+.. ..+...+...+. ..|+.+.....
T Consensus 3 ~i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~-~~g~~~~~~~~ 69 (561)
T PRK13748 3 TLKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVA-GLGYRATLADA 69 (561)
T ss_pred EEEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHH-HcCCeeeccCc
Confidence 3567 9999999999999999999999888888888766652 235556666666 77877655544
No 25
>PRK13748 putative mercuric reductase; Provisional
Probab=74.82 E-value=16 Score=35.21 Aligned_cols=64 Identities=22% Similarity=0.374 Sum_probs=47.8
Q ss_pred EEEE-eccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEec-cCCHHHHHHHHHhhcCCceeeec
Q 024847 32 VLKV-DMHCEACARKVARALKGFEGVDDITADSKASKVVVKGK-TADPIKVCERLQKKSGRKVELIS 96 (261)
Q Consensus 32 ~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~-~~d~~~i~~~i~~~~G~~~~~~s 96 (261)
.+.+ +|+|.+|...++..+...+++....+++..+...+.+. ..+...+...+. ..|+...+.+
T Consensus 3 ~i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~-~~g~~~~~~~ 68 (561)
T PRK13748 3 TLKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVA-GLGYRATLAD 68 (561)
T ss_pred EEEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHH-HcCCeeeccC
Confidence 4668 99999999999999999999888889998888777652 124445555555 5777765443
No 26
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=71.40 E-value=38 Score=24.87 Aligned_cols=62 Identities=18% Similarity=0.296 Sum_probs=41.4
Q ss_pred ceEEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEc-----cCCeEEEE--e-eCCHHHHHHHHHHcCCCce
Q 024847 126 AITVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNL-----ASGQVIVK--G-VVDPVKLVNDVNKKTRKQA 189 (261)
Q Consensus 126 ~~~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~-----~~~~v~V~--g-~~d~~~l~~~l~kk~G~~a 189 (261)
.++++|.| -.|-++ .-.+-..|..++||..+++.. .+..+.|+ | .+|.+.|...|. ++|-..
T Consensus 4 irRlVLDVlKP~~p~-i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie-~~Gg~I 74 (95)
T PF02680_consen 4 IRRLVLDVLKPHEPS-IVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIE-ELGGVI 74 (95)
T ss_dssp EEEEEEEEEEESSS--HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHH-HTT-EE
T ss_pred eeEEEEEeecCCCCC-HHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHH-HcCCeE
Confidence 56788888 445443 344567789999998887654 33344444 6 489999999998 888543
No 27
>cd00371 HMA Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain contains two cysteine residues that are important in binding and transfer of metal ions, such as copper, cadmium, cobalt and zinc. In the case of copper, stoichiometry of binding is one Cu+ ion per binding domain. Repeats of the HMA domain in copper chaperone has been associated with Menkes/Wilson disease due to binding of multiple copper ions.
Probab=66.11 E-value=21 Score=19.86 Aligned_cols=53 Identities=32% Similarity=0.622 Sum_probs=35.4
Q ss_pred E-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEEee--CCHHHHHHHHHHcCC
Q 024847 133 V-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVKGV--VDPVKLVNDVNKKTR 186 (261)
Q Consensus 133 V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~g~--~d~~~l~~~l~kk~G 186 (261)
+ ++.|..|...+...+....|+.....++......+... .+...+...+. ..+
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 59 (63)
T cd00371 4 VEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEYDPEVSPEELLEAIE-DAG 59 (63)
T ss_pred ECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEECCCCCHHHHHHHHH-HcC
Confidence 5 78899999999988888888877777776665555421 24444444444 444
No 28
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=59.45 E-value=66 Score=23.42 Aligned_cols=67 Identities=21% Similarity=0.315 Sum_probs=42.9
Q ss_pred CCceEEEEE-eccChhhHHHHHHHhhCCCCccEEEEe-----cC--CCEEEEEeccCCHHHHHHHHHhhcCCceee
Q 024847 27 ETPEIVLKV-DMHCEACARKVARALKGFEGVDDITAD-----SK--ASKVVVKGKTADPIKVCERLQKKSGRKVEL 94 (261)
Q Consensus 27 ~~~~~~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~-----~~--~~~~~V~~~~~d~~~i~~~i~~~~G~~~~~ 94 (261)
+.+.++|-+ --+-..-.--+...|++++||..+++. .. +=+++|.+.++|...|...|+ ..|..+..
T Consensus 4 ~iRRlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE-~~Gg~IHS 78 (97)
T COG1888 4 GIRRLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIE-ELGGAIHS 78 (97)
T ss_pred cceeeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHH-HcCCeeee
Confidence 455666666 222223334566778889998877643 33 344555666789999999999 58866543
No 29
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=55.31 E-value=40 Score=27.62 Aligned_cols=28 Identities=11% Similarity=0.194 Sum_probs=24.2
Q ss_pred hhhHHHHHHHhhCCCCccEEEEecCCCE
Q 024847 40 EACARKVARALKGFEGVDDITADSKASK 67 (261)
Q Consensus 40 ~~Ca~~I~~~l~~~~GV~~v~v~~~~~~ 67 (261)
++|-+.++..+.+++||.++.+-+..+.
T Consensus 10 gGCFWg~E~~f~~~~GV~~t~vGYagG~ 37 (172)
T PRK14054 10 GGCFWGMEAPFDRVKGVISTRVGYTGGH 37 (172)
T ss_pred cCChhhhHHHHccCCCEEEEEeeecCCC
Confidence 6788888999999999999998877765
No 30
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=52.75 E-value=1.2e+02 Score=27.19 Aligned_cols=91 Identities=21% Similarity=0.297 Sum_probs=57.7
Q ss_pred eEEEEEeccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEeccCCHHHHHHHHHhhcCCceeeecCCCCCCCCCCCch
Q 024847 30 EIVLKVDMHCEACARKVARALKGFEGVDDITADSKASKVVVKGKTADPIKVCERLQKKSGRKVELISPLPKPPPPDADDQ 109 (261)
Q Consensus 30 ~~~l~vgm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~~~d~~~i~~~i~~~~G~~~~~~s~~~~~~~~~~~~~ 109 (261)
.+.|.++.+ ..|...++..+.+++||.++++ .+.++..+.+++..|+. .... ..
T Consensus 62 ~vyL~~~~~-~~~~~~v~~~i~~~~gV~~v~~-------------~sre~~l~~L~~~lg~~-~~~~-l~---------- 115 (297)
T COG2177 62 TVYLQIDAD-QDDAALVREKIEGIPGVKSVRF-------------ISREEALKELQPWLGFG-ALLM-LD---------- 115 (297)
T ss_pred EEEEecCCC-hHHHHHHHHHHhcCCCcceEEE-------------eCHHHHHHHHHHHcCch-hhhc-CC----------
Confidence 344444444 8899999999999999987653 25555566666567764 2111 00
Q ss_pred hhhhhhhccccCCCCcceEEEEEEeecChhHHHHHHHHHHhcCCeeEEEEE
Q 024847 110 EKKEQQKVEKKEEPPAAITVVLNVRMHCEACAQGLRKRIRKIQGVECVETN 160 (261)
Q Consensus 110 ~~~~~~~~~~~~~~~~~~~~~l~Vgm~C~~C~~ki~~~l~~~~GV~~v~v~ 160 (261)
..|-...+++++ .-+.-...+.+.|+.++||.+|..+
T Consensus 116 ------------~nPLP~~~vV~~--~~p~~~~~i~~~l~~l~gV~~V~~~ 152 (297)
T COG2177 116 ------------ENPLPDVFVVTP--DDPPQVKAIAAALRDLPGVAEVDDD 152 (297)
T ss_pred ------------CCCCCceEEEEe--CCCccHHHHHHHHHcCccceehhcc
Confidence 001223445555 2255677888899999999988754
No 31
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=50.51 E-value=41 Score=22.53 Aligned_cols=51 Identities=8% Similarity=0.073 Sum_probs=35.4
Q ss_pred EEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEE--eeCCHHHHHHHHHHcCCCcee
Q 024847 130 VLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVK--GVVDPVKLVNDVNKKTRKQAS 190 (261)
Q Consensus 130 ~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~--g~~d~~~l~~~l~kk~G~~a~ 190 (261)
.|.+ |+.|+.....+.++|..++.= +.+.|. ......+|...++ ..||...
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~G---------~~l~v~~d~~~~~~di~~~~~-~~g~~~~ 55 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPPG---------EVLEVLVDDPAAVEDIPRWCE-ENGYEVV 55 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGTT----------EEEEEESSTTHHHHHHHHHH-HHTEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCCC---------CEEEEEECCccHHHHHHHHHH-HCCCEEE
Confidence 5677 999999999999999987422 344444 2344577888887 8898643
No 32
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=47.96 E-value=55 Score=24.04 Aligned_cols=65 Identities=23% Similarity=0.380 Sum_probs=41.8
Q ss_pred CCceEEEEE-eccChhhHHHHHHHhhCCCCccEEEEe-----cCCCEE--EEEeccCCHHHHHHHHHhhcCCcee
Q 024847 27 ETPEIVLKV-DMHCEACARKVARALKGFEGVDDITAD-----SKASKV--VVKGKTADPIKVCERLQKKSGRKVE 93 (261)
Q Consensus 27 ~~~~~~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~-----~~~~~~--~V~~~~~d~~~i~~~i~~~~G~~~~ 93 (261)
+.+.++|-| --|-. -.-.+...|..++||..+.+. ..+..+ +|.++++|...+.++|+ ..|-.+.
T Consensus 3 ~irRlVLDVlKP~~p-~i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie-~~Gg~IH 75 (95)
T PF02680_consen 3 GIRRLVLDVLKPHEP-SIVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIE-ELGGVIH 75 (95)
T ss_dssp SEEEEEEEEEEESSS--HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHH-HTT-EEE
T ss_pred ceeEEEEEeecCCCC-CHHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHH-HcCCeEE
Confidence 345667776 33333 344677889999999887653 334433 44565789999999999 5886554
No 33
>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function. The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.
Probab=46.57 E-value=39 Score=22.82 Aligned_cols=32 Identities=22% Similarity=0.563 Sum_probs=20.3
Q ss_pred EEEEEEeecChhH------HHHHHHHHHhcCCeeEEEE
Q 024847 128 TVVLNVRMHCEAC------AQGLRKRIRKIQGVECVET 159 (261)
Q Consensus 128 ~~~l~Vgm~C~~C------~~ki~~~l~~~~GV~~v~v 159 (261)
++.|.+.+..++| ...++.+|..++||.++.|
T Consensus 35 ~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 35 KVSVSLELPTPACPAAEPLREEIREALKALPGVKSVKV 72 (72)
T ss_dssp EEEEEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred EEEEEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence 4555554444444 4677888999999998875
No 34
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=44.87 E-value=82 Score=25.33 Aligned_cols=46 Identities=17% Similarity=0.135 Sum_probs=32.6
Q ss_pred hhhHHHHHHHhhCCCCccEEEEecCCCE--------------EEEEec--cCCHHHHHHHHH
Q 024847 40 EACARKVARALKGFEGVDDITADSKASK--------------VVVKGK--TADPIKVCERLQ 85 (261)
Q Consensus 40 ~~Ca~~I~~~l~~~~GV~~v~v~~~~~~--------------~~V~~~--~~d~~~i~~~i~ 85 (261)
++|-+.++..+.+++||.++.+-+..+. +.|.+| .++...|++..-
T Consensus 8 gGCFWg~E~~f~~l~GV~~t~vGYagG~~~~p~~~~tgH~E~V~V~yDp~~isy~~LL~~f~ 69 (156)
T PRK05528 8 GGCLWGVQAFFKTLPGVIHTEAGRANGRTSTLDGPYDGYAECVKTHFDPRMVSITDLMGYLF 69 (156)
T ss_pred cCCchhhHHHHhcCCCEEEEEEEcCCCCCCCCCCCCCCcEEEEEEEECCCcCCHHHHHHHHH
Confidence 6788888999999999999998766543 444553 245666665554
No 35
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=44.04 E-value=57 Score=27.06 Aligned_cols=36 Identities=11% Similarity=0.195 Sum_probs=27.5
Q ss_pred CCceEEEEEeccChhhHHHHHHHhhCCCCccEEEEecCCCE
Q 024847 27 ETPEIVLKVDMHCEACARKVARALKGFEGVDDITADSKASK 67 (261)
Q Consensus 27 ~~~~~~l~vgm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~ 67 (261)
.+.++.|. ++|-+.++..+.+++||.++.+-+..+.
T Consensus 7 ~~~~a~~a-----gGCFWg~E~~f~~l~GV~~t~vGYagG~ 42 (186)
T PRK13014 7 GMETATFA-----GGCFWGVEGVFQHVPGVVSVVSGYSGGH 42 (186)
T ss_pred CccEEEEe-----cCCceeeHHHHccCCCEEEEEeeecCCC
Confidence 35555554 6788888888999999999998777664
No 36
>PF02162 XYPPX: XYPPX repeat (two copies); InterPro: IPR006031 This repeat is found in a wide variety of proteins and generally consists of the motif XYPPX where X can be any amino acid. The family includes annexin VII ANX7_DICDI, the carboxy tail of certain rhodopsins OPSD_LOLSU. This family also includes plaque matrix proteins, however this motif is embedded in a ten residue repeat in FP1_MYTED. The molecular function of this repeat is unknown. It is also not clear is all the members of this family share a common evolutionary ancestor due to its short length and biased amino acid composition.
Probab=42.99 E-value=21 Score=16.89 Aligned_cols=8 Identities=38% Similarity=0.887 Sum_probs=3.2
Q ss_pred CCCCCCCC
Q 024847 240 YSEFAYAP 247 (261)
Q Consensus 240 y~~y~y~p 247 (261)
|++-.|||
T Consensus 7 ~pPQ~~Pp 14 (15)
T PF02162_consen 7 YPPQGYPP 14 (15)
T ss_pred CCCCCCCC
Confidence 33334444
No 37
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=38.79 E-value=1.2e+02 Score=20.21 Aligned_cols=52 Identities=19% Similarity=0.178 Sum_probs=35.0
Q ss_pred EEEE-eccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEecc-CCHHHHHHHHHhhcCCcee
Q 024847 32 VLKV-DMHCEACARKVARALKGFEGVDDITADSKASKVVVKGKT-ADPIKVCERLQKKSGRKVE 93 (261)
Q Consensus 32 ~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~~-~d~~~i~~~i~~~~G~~~~ 93 (261)
+|-+ |+.|+...-.+.++|..++.- +.+.|..++ .....|...+. ..|+.+.
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~G---------~~l~v~~d~~~~~~di~~~~~-~~g~~~~ 55 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPPG---------EVLEVLVDDPAAVEDIPRWCE-ENGYEVV 55 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGTT----------EEEEEESSTTHHHHHHHHHH-HHTEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCCC---------CEEEEEECCccHHHHHHHHHH-HCCCEEE
Confidence 4667 999999999999999997533 345555532 23445666666 6898754
No 38
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=34.00 E-value=1.3e+02 Score=25.46 Aligned_cols=27 Identities=15% Similarity=0.176 Sum_probs=23.0
Q ss_pred hhhHHHHHHHhhCCCCccEEEEecCCC
Q 024847 40 EACARKVARALKGFEGVDDITADSKAS 66 (261)
Q Consensus 40 ~~Ca~~I~~~l~~~~GV~~v~v~~~~~ 66 (261)
++|-+.++..+.+++||.++.+-+..+
T Consensus 52 gGCFWg~E~~F~~l~GV~~t~vGYagG 78 (213)
T PRK00058 52 MGCFWGAERLFWQLPGVYSTAVGYAGG 78 (213)
T ss_pred ccCcchhHHHHhcCCCEEEEEeeecCC
Confidence 678888888999999999999887744
No 39
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=33.23 E-value=1.6e+02 Score=21.25 Aligned_cols=44 Identities=20% Similarity=0.353 Sum_probs=31.1
Q ss_pred hHHHHHHHHHHhcCCeeEEEEEccCCeEEEE-eeCCHHHHHHHHH
Q 024847 139 ACAQGLRKRIRKIQGVECVETNLASGQVIVK-GVVDPVKLVNDVN 182 (261)
Q Consensus 139 ~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~-g~~d~~~l~~~l~ 182 (261)
.-...+.+.|..++|+.-...+...+++.|+ ...+...+.+.|.
T Consensus 17 e~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~ 61 (87)
T PRK10553 17 ERISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIE 61 (87)
T ss_pred HHHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHH
Confidence 3467788899999999877776667888887 3345555555443
No 40
>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]
Probab=32.96 E-value=6.2e+02 Score=26.85 Aligned_cols=123 Identities=17% Similarity=0.283 Sum_probs=66.7
Q ss_pred hHHHHHHHhhCCCCccEEEEecCCCEEEEE--ec-cCCHH----HHHHHHHhhcCCceeeecCCCCCCCCCCCchhhhhh
Q 024847 42 CARKVARALKGFEGVDDITADSKASKVVVK--GK-TADPI----KVCERLQKKSGRKVELISPLPKPPPPDADDQEKKEQ 114 (261)
Q Consensus 42 Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~--~~-~~d~~----~i~~~i~~~~G~~~~~~s~~~~~~~~~~~~~~~~~~ 114 (261)
-...|++.|+.++|+..+.-....+..+|+ ++ ..|++ ++.++|.. .... .|....
T Consensus 62 Vt~piE~~l~~i~gi~~i~S~S~~G~s~itv~F~~~~d~d~A~~~V~~kv~~-~~~~------LP~~~~----------- 123 (1009)
T COG0841 62 VTQPIEQQLNGLDGLDYMSSTSSSGSSSITVTFELGTDPDTAAVQVQNKIQQ-AESR------LPSGVQ----------- 123 (1009)
T ss_pred HhHHHHHHHhcCCCccEEEEEEcCCcEEEEEEEeCCCChHHHHHHHHHHHHH-HHhc------CCCccC-----------
Confidence 557799999999999988765555655554 43 23444 45555552 2211 111000
Q ss_pred hhccccCCCCcceEEEEEE-e--ecC----hhHHHHHHHHHHhcCCeeEEEEEcc-CCeEEEE--------eeCCHHHHH
Q 024847 115 QKVEKKEEPPAAITVVLNV-R--MHC----EACAQGLRKRIRKIQGVECVETNLA-SGQVIVK--------GVVDPVKLV 178 (261)
Q Consensus 115 ~~~~~~~~~~~~~~~~l~V-g--m~C----~~C~~ki~~~l~~~~GV~~v~v~~~-~~~v~V~--------g~~d~~~l~ 178 (261)
.+.-........--+.+.+ + +.- ..-...+...|.+++||.++.+... ...+.|. =..++.++.
T Consensus 124 ~p~v~~~~~~~~~i~~~al~s~~~~~~~l~~~~~~~l~~~L~~v~GV~~V~~~G~~~~~~rI~ldp~kLa~~gLt~~dV~ 203 (1009)
T COG0841 124 QPGVTVEKSSSNPLLILALTSTTDSSSDLTDYAASNVRDELSRVPGVGSVQLFGAQEYAMRIWLDPAKLAAYGLTPSDVQ 203 (1009)
T ss_pred CCceEeccCCCceEEEEEEEcCCCChHHHHHHHHHHHHHHHhcCCCceEEEEcCCCceeEEEEeCHHHHHHcCCCHHHHH
Confidence 0000000011112233444 2 221 1245668889999999999998765 3344454 125677788
Q ss_pred HHHH
Q 024847 179 NDVN 182 (261)
Q Consensus 179 ~~l~ 182 (261)
..|+
T Consensus 204 ~ai~ 207 (1009)
T COG0841 204 SAIR 207 (1009)
T ss_pred HHHH
Confidence 8886
No 41
>PRK11018 hypothetical protein; Provisional
Probab=31.56 E-value=1.8e+02 Score=20.16 Aligned_cols=53 Identities=9% Similarity=-0.023 Sum_probs=38.2
Q ss_pred EEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEE--eeCCHHHHHHHHHHcCCCcee
Q 024847 128 TVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVK--GVVDPVKLVNDVNKKTRKQAS 190 (261)
Q Consensus 128 ~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~--g~~d~~~l~~~l~kk~G~~a~ 190 (261)
..+|.+ |+.|+.=.-+..++|.+++.- +.+.|. ......+|...++ ..||.+.
T Consensus 8 ~~~lD~rG~~CP~Pvl~~kk~l~~l~~G---------~~L~V~~d~~~a~~di~~~~~-~~G~~v~ 63 (78)
T PRK11018 8 DYRLDMVGEPCPYPAVATLEALPQLKKG---------EILEVVSDCPQSINNIPLDAR-NHGYTVL 63 (78)
T ss_pred CeeEECCCCcCCHHHHHHHHHHHhCCCC---------CEEEEEeCCccHHHHHHHHHH-HcCCEEE
Confidence 467888 999999999999999887422 233333 3345567888887 8998754
No 42
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=28.97 E-value=1.6e+02 Score=19.41 Aligned_cols=50 Identities=12% Similarity=0.240 Sum_probs=33.1
Q ss_pred EEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEE--eeCCHHHHHHHHHHcCCCceee
Q 024847 131 LNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVK--GVVDPVKLVNDVNKKTRKQASI 191 (261)
Q Consensus 131 l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~--g~~d~~~l~~~l~kk~G~~a~i 191 (261)
|.+ |+.|+.=...+.++| .+.. .+.+.|. ......+|...++ ..||....
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~~---------g~~l~v~~d~~~s~~~i~~~~~-~~G~~~~~ 54 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELEA---------GGEIEVLVDNEVAKENVSRFAE-SRGYEVSV 54 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcCC---------CCEEEEEEcChhHHHHHHHHHH-HcCCEEEE
Confidence 446 888988888888888 5432 2233333 2344568888887 89997643
No 43
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=28.18 E-value=2.4e+02 Score=20.85 Aligned_cols=54 Identities=9% Similarity=0.157 Sum_probs=32.2
Q ss_pred EEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEccCCeEEEE--eeCCHHHHHHHHH
Q 024847 129 VVLNV-RMHCEACAQGLRKRIRKIQGVECVETNLASGQVIVK--GVVDPVKLVNDVN 182 (261)
Q Consensus 129 ~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~--g~~d~~~l~~~l~ 182 (261)
++|++ |++-+.+...|...+..+..|.-|.+........|. ..-.+..++..+.
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~ 58 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLK 58 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHH
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHH
Confidence 35777 787777899999999998889888888778888888 3345667777776
No 44
>TIGR02945 SUF_assoc FeS assembly SUF system protein. Members of this family belong to the broader Pfam family pfam01883, or Domain of Unknown Function DUF59. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here all are found in genomes that carry the FeS assembly SUF system. For 70 % of these species, the member of this protein family is found as part of the SUF locus, usually immediately downstream of the sufS gene.
Probab=27.75 E-value=1.5e+02 Score=21.35 Aligned_cols=40 Identities=15% Similarity=0.222 Sum_probs=25.0
Q ss_pred HHHHHHHHhcCCeeEEEEEccCCeEEEEeeCCHHHHHHHHHHcCC
Q 024847 142 QGLRKRIRKIQGVECVETNLASGQVIVKGVVDPVKLVNDVNKKTR 186 (261)
Q Consensus 142 ~ki~~~l~~~~GV~~v~v~~~~~~v~V~g~~d~~~l~~~l~kk~G 186 (261)
..+..+|..++|+.++.+++.. . ..-.++.+.+.-|.++|
T Consensus 58 ~~i~~al~~l~gv~~v~v~i~~---~--~~~~~~~~~~~~~~~~~ 97 (99)
T TIGR02945 58 GEVENAVRAVPGVGSVTVELVW---D--PPWTPERMSEEARLELG 97 (99)
T ss_pred HHHHHHHHhCCCCceEEEEEEe---e--CCCChHHCCHHHHHHcC
Confidence 4567788888999999887632 1 22444555555544444
No 45
>PF01625 PMSR: Peptide methionine sulfoxide reductase; InterPro: IPR002569 Peptide methionine sulphoxide reductase (Msr) reverses the inactivation of many proteins due to the oxidation of critical methionine residues by reducing methionine sulphoxide, Met(O), to methionine []. It is present in most living organisms, and the cognate structural gene belongs to the so-called minimum gene set [, ]. The domains: MsrA and MsrB, reduce different epimeric forms of methionine sulphoxide. This group represent MsrA, the crystal structure of which has been determined in a number of organisms. In Mycobacterium tuberculosis, the MsrA structure has been determined to 1.5 Angstrom resolution []. In contrast to the three catalytic cysteine residues found in previously characterised MsrA structures, M. tuberculosis MsrA represents a class containing only two functional cysteine residues. The overall structure shows no resemblance to the structures of MsrB (IPR002579 from INTERPRO) from other organisms; though the active sites show approximate mirror symmetry. In each case, conserved amino acid motifs mediate the stereo-specific recognition and reduction of the substrate. In a number of pathogenic bacteria including Neisseria gonorrhoeae, the MsrA and MsrB domains are fused; the MsrA being N-terminal to MsrB. This arrangement is reversed in Treponema pallidum. In N. gonorrhoeae and Neisseria meningitidis a thioredoxin domain is fused to the N terminus. This may function to reduce the active sites of the downstream MsrA and MsrB domains. ; GO: 0016671 oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor, 0019538 protein metabolic process, 0055114 oxidation-reduction process; PDB: 2GT3_A 1FF3_B 2IEM_A 3E0M_D 2J89_A 3PIN_B 3PIM_B 3PIL_B 2L90_A 3BQF_A ....
Probab=25.96 E-value=1.8e+02 Score=23.30 Aligned_cols=27 Identities=19% Similarity=0.265 Sum_probs=23.0
Q ss_pred hhhHHHHHHHhhCCCCccEEEEecCCC
Q 024847 40 EACARKVARALKGFEGVDDITADSKAS 66 (261)
Q Consensus 40 ~~Ca~~I~~~l~~~~GV~~v~v~~~~~ 66 (261)
++|-+.++..+.+++||.++.+-+..+
T Consensus 7 ~GCFW~~e~~f~~~~GV~~t~vGYagG 33 (155)
T PF01625_consen 7 GGCFWGVEAAFRRLPGVISTRVGYAGG 33 (155)
T ss_dssp ESSHHHHHHHHHTSTTEEEEEEEEESS
T ss_pred cCCCeEhHHHHhhCCCEEEEEecccCC
Confidence 578888889999999999999877655
No 46
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=25.87 E-value=1.9e+02 Score=19.61 Aligned_cols=32 Identities=25% Similarity=0.385 Sum_probs=26.0
Q ss_pred eEEEEEEeecChhHHHHHHHHHHhcCCeeEEE
Q 024847 127 ITVVLNVRMHCEACAQGLRKRIRKIQGVECVE 158 (261)
Q Consensus 127 ~~~~l~Vgm~C~~C~~ki~~~l~~~~GV~~v~ 158 (261)
..+.|.+......-...+...|++++||.+|.
T Consensus 48 ~~~~l~v~V~d~~~L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 48 ARITLTVEVKDLEHLNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp EEEEEEEEESSHHHHHHHHHHHCTSTTEEEEE
T ss_pred EEEEEEEEECCHHHHHHHHHHHHCCCCeeEEE
Confidence 45666667777888889999999999998874
No 47
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.01 E-value=2.2e+02 Score=18.74 Aligned_cols=33 Identities=27% Similarity=0.361 Sum_probs=24.9
Q ss_pred eEEEEEEeecChh-HHHHHHHHHHhcCCeeEEEE
Q 024847 127 ITVVLNVRMHCEA-CAQGLRKRIRKIQGVECVET 159 (261)
Q Consensus 127 ~~~~l~Vgm~C~~-C~~ki~~~l~~~~GV~~v~v 159 (261)
..+.|.+...... -...+.+.|++++||.+|.+
T Consensus 41 ~~i~~~v~v~~~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 41 ANVTISIDTSTMNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred EEEEEEEEcCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 3455666545554 78899999999999998875
No 48
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=23.74 E-value=2.3e+02 Score=22.56 Aligned_cols=39 Identities=23% Similarity=0.462 Sum_probs=29.4
Q ss_pred eEEEEEE-eecChhHHHHHHHHHHhcCCeeEEEEEcc-CCeE
Q 024847 127 ITVVLNV-RMHCEACAQGLRKRIRKIQGVECVETNLA-SGQV 166 (261)
Q Consensus 127 ~~~~l~V-gm~C~~C~~ki~~~l~~~~GV~~v~v~~~-~~~v 166 (261)
..+++.| --.|..|..-|.....++ |+.+++|... ++++
T Consensus 100 ~~~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~~ 140 (146)
T PF14437_consen 100 RSMTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGKV 140 (146)
T ss_pred CeEEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCcE
Confidence 4678888 788999998877776654 8888888765 4433
No 49
>PF09122 DUF1930: Domain of unknown function (DUF1930); InterPro: IPR015206 This entry represents a domain found in 3-mercaptopyruvate sulphurtransferase which has no known function. This domain adopts a structure consisting of a four-stranded antiparallel beta-sheet and an alpha-helix, arranged in a beta(2)-alpha-beta(2) fashion, and bearing a remarkable structural similarity to the FK506-binding protein class of peptidylprolyl cis/trans-isomerase []. ; PDB: 1OKG_A.
Probab=23.69 E-value=1.7e+02 Score=19.75 Aligned_cols=46 Identities=17% Similarity=0.040 Sum_probs=32.6
Q ss_pred CCceEEEEE-eccChhhHHHHHHHhhCCCCccEEEEecCCCEEEEEe
Q 024847 27 ETPEIVLKV-DMHCEACARKVARALKGFEGVDDITADSKASKVVVKG 72 (261)
Q Consensus 27 ~~~~~~l~v-gm~C~~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~ 72 (261)
.....+|.| |--|.+--..+..++-.+.--+.+.|.|.++++.+.-
T Consensus 17 ~~~~~tl~vDg~~v~~PD~El~sA~~HlH~GEkA~V~FkS~Rv~~iE 63 (68)
T PF09122_consen 17 TLDNATLIVDGEIVENPDAELKSALVHLHIGEKAQVFFKSQRVAVIE 63 (68)
T ss_dssp -TTT--EEETTEEESS--HHHHHHHTT-BTT-EEEEEETTS-EEEEE
T ss_pred cccceEEEEcCeEcCCCCHHHHHHHHHhhcCceeEEEEecCcEEEEE
Confidence 456788999 9999998889999999988778899999999987663
No 50
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=22.93 E-value=1.6e+02 Score=24.05 Aligned_cols=28 Identities=18% Similarity=0.474 Sum_probs=22.4
Q ss_pred hhHHHHHHHHHHhcCCeeEEEEEccCCe
Q 024847 138 EACAQGLRKRIRKIQGVECVETNLASGQ 165 (261)
Q Consensus 138 ~~C~~ki~~~l~~~~GV~~v~v~~~~~~ 165 (261)
.+|-+.++..+.+++||.++.+-...+.
T Consensus 10 gGCFWg~E~~f~~~~GV~~t~vGYagG~ 37 (172)
T PRK14054 10 GGCFWGMEAPFDRVKGVISTRVGYTGGH 37 (172)
T ss_pred cCChhhhHHHHccCCCEEEEEeeecCCC
Confidence 3567778888899999999999876554
No 51
>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.
Probab=22.54 E-value=1.2e+02 Score=24.79 Aligned_cols=34 Identities=12% Similarity=0.389 Sum_probs=23.4
Q ss_pred eEEEEEeccChhhH------HHHHHHhhCCCCccEEEEec
Q 024847 30 EIVLKVDMHCEACA------RKVARALKGFEGVDDITADS 63 (261)
Q Consensus 30 ~~~l~vgm~C~~Ca------~~I~~~l~~~~GV~~v~v~~ 63 (261)
.+.+.+.++..+|. ..|+.+|..++||.++.+++
T Consensus 114 ~V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~l 153 (174)
T TIGR03406 114 RVDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVEL 153 (174)
T ss_pred EEEEEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEEE
Confidence 35555555555554 45888899999998888765
No 52
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=22.10 E-value=34 Score=34.60 Aligned_cols=19 Identities=26% Similarity=0.457 Sum_probs=14.1
Q ss_pred ccccccccC-----CCCCCCCCCC
Q 024847 229 INRSEYWAT-----KNYSEFAYAP 247 (261)
Q Consensus 229 ~~~~~~~~~-----p~y~~y~y~p 247 (261)
+|.+-|||+ -+|.||+|+|
T Consensus 534 cWVl~YYyqGc~SW~WyYPYHYAP 557 (931)
T KOG2044|consen 534 CWVLRYYYQGCASWNWYYPYHYAP 557 (931)
T ss_pred hhhhhhhhccccccccccccccch
Confidence 466667887 4478999987
No 53
>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.
Probab=21.21 E-value=1.5e+02 Score=24.34 Aligned_cols=34 Identities=18% Similarity=0.456 Sum_probs=22.9
Q ss_pred EEEEEEeecChhHH------HHHHHHHHhcCCeeEEEEEc
Q 024847 128 TVVLNVRMHCEACA------QGLRKRIRKIQGVECVETNL 161 (261)
Q Consensus 128 ~~~l~Vgm~C~~C~------~ki~~~l~~~~GV~~v~v~~ 161 (261)
++.+.+.+....|. ..++.+|..++||.++.+++
T Consensus 114 ~V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~l 153 (174)
T TIGR03406 114 RVDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVEL 153 (174)
T ss_pred EEEEEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEEE
Confidence 34455544444443 45788899999999888875
No 54
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=20.62 E-value=3.1e+02 Score=19.13 Aligned_cols=42 Identities=17% Similarity=0.280 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhcCCeeEEEEEccCCeEEEE-eeCCHHHHHHHHH
Q 024847 140 CAQGLRKRIRKIQGVECVETNLASGQVIVK-GVVDPVKLVNDVN 182 (261)
Q Consensus 140 C~~ki~~~l~~~~GV~~v~v~~~~~~v~V~-g~~d~~~l~~~l~ 182 (261)
-...+.+.|..++|+.-...+-. +++.|+ ...+...+.+.+.
T Consensus 16 ~~~~v~~~l~~~~gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~ 58 (79)
T PF03927_consen 16 RLEEVAEALAAIPGVEVHAVDED-GKIVVTIEAESSEEEVDLID 58 (79)
T ss_dssp CHHHHHHHHCCSTTEEEEEEETT-TEEEEEEEESSHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCcEEEeeCCC-CeEEEEEEeCChHHHHHHHH
Confidence 34577888999999976666654 788777 4456666666665
No 55
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=20.35 E-value=3.4e+02 Score=19.49 Aligned_cols=45 Identities=13% Similarity=0.310 Sum_probs=32.1
Q ss_pred hhHHHHHHHhhCCCCccEEEEecCCCEEEEEeccCCHHHHHHHHH
Q 024847 41 ACARKVARALKGFEGVDDITADSKASKVVVKGKTADPIKVCERLQ 85 (261)
Q Consensus 41 ~Ca~~I~~~l~~~~GV~~v~v~~~~~~~~V~~~~~d~~~i~~~i~ 85 (261)
.=...+...|..++|+.-...+...+++.|+....+...+++.+.
T Consensus 17 e~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~ 61 (87)
T PRK10553 17 ERISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIE 61 (87)
T ss_pred HHHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHH
Confidence 346788899999999976666667789888864445555555554
Done!