Query 026144
Match_columns 243
No_of_seqs 177 out of 1082
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 04:17:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026144.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026144hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00403 HMA: Heavy-metal-asso 99.2 8.9E-11 1.9E-15 82.9 8.3 55 160-214 1-59 (62)
2 COG2608 CopZ Copper chaperone 99.1 5.1E-10 1.1E-14 82.7 8.5 64 157-220 2-70 (71)
3 KOG1603 Copper chaperone [Inor 99.1 7.7E-10 1.7E-14 81.9 8.3 67 155-221 3-71 (73)
4 KOG4656 Copper chaperone for s 98.6 8.7E-08 1.9E-12 84.8 7.6 71 155-225 5-76 (247)
5 PLN02957 copper, zinc superoxi 98.1 1.8E-05 4E-10 70.8 9.7 72 155-226 4-76 (238)
6 PRK10671 copA copper exporting 98.0 2.1E-05 4.5E-10 81.3 9.1 62 157-220 3-66 (834)
7 COG2217 ZntA Cation transport 97.6 0.00016 3.4E-09 74.3 7.4 62 157-219 2-69 (713)
8 TIGR00003 copper ion binding p 97.4 0.0023 5E-08 41.0 8.5 57 157-213 2-62 (68)
9 KOG0207 Cation transport ATPas 96.8 0.0017 3.8E-08 67.8 5.5 76 165-240 3-81 (951)
10 KOG0207 Cation transport ATPas 96.6 0.0052 1.1E-07 64.4 6.8 83 158-240 70-158 (951)
11 PRK10671 copA copper exporting 96.2 0.014 3E-07 60.6 7.8 65 157-221 99-165 (834)
12 PRK11033 zntA zinc/cadmium/mer 95.7 0.031 6.8E-07 57.6 7.7 66 155-220 51-119 (741)
13 TIGR02052 MerP mercuric transp 88.9 5.9 0.00013 27.7 8.9 56 158-213 24-83 (92)
14 PF01883 DUF59: Domain of unkn 71.5 6.5 0.00014 28.2 3.8 33 157-189 34-72 (72)
15 cd00371 HMA Heavy-metal-associ 71.5 15 0.00033 20.4 7.1 40 162-201 3-43 (63)
16 PRK13748 putative mercuric red 71.0 22 0.00048 34.9 8.5 61 160-220 3-67 (561)
17 PRK14054 methionine sulfoxide 66.3 11 0.00023 32.7 4.6 45 167-211 9-75 (172)
18 COG1888 Uncharacterized protei 61.6 46 0.00099 26.4 6.9 59 156-214 5-72 (97)
19 PF02680 DUF211: Uncharacteriz 57.5 55 0.0012 26.0 6.7 59 155-214 3-70 (95)
20 PRK05528 methionine sulfoxide 55.1 25 0.00055 30.0 4.9 45 167-211 7-68 (156)
21 PRK10553 assembly protein for 54.7 49 0.0011 25.5 6.0 44 169-212 17-61 (87)
22 PF14437 MafB19-deam: MafB19-l 53.5 32 0.0007 29.2 5.2 42 156-198 99-142 (146)
23 PF03927 NapD: NapD protein; 52.8 61 0.0013 24.3 6.1 43 170-213 16-59 (79)
24 PRK00058 methionine sulfoxide 50.8 27 0.00058 31.4 4.5 45 167-211 51-117 (213)
25 PRK13014 methionine sulfoxide 50.0 21 0.00046 31.3 3.7 45 167-211 14-80 (186)
26 PF04468 PSP1: PSP1 C-terminal 47.3 55 0.0012 24.9 5.3 52 168-220 29-84 (88)
27 TIGR02945 SUF_assoc FeS assemb 44.5 29 0.00063 26.4 3.4 21 172-192 58-78 (99)
28 TIGR03406 FeS_long_SufT probab 43.4 34 0.00073 29.6 3.9 35 158-192 114-154 (174)
29 PF01625 PMSR: Peptide methion 42.8 58 0.0013 27.6 5.2 27 168-194 7-33 (155)
30 cd04888 ACT_PheB-BS C-terminal 37.7 97 0.0021 21.5 5.0 34 156-189 40-74 (76)
31 PRK05550 bifunctional methioni 35.4 60 0.0013 30.4 4.5 29 167-195 133-161 (283)
32 PF09580 Spore_YhcN_YlaJ: Spor 33.8 1.2E+02 0.0025 25.3 5.7 48 166-213 72-124 (177)
33 PF04972 BON: BON domain; Int 28.7 55 0.0012 22.4 2.4 34 172-206 2-38 (64)
34 COG0225 MsrA Peptide methionin 25.5 1.2E+02 0.0026 26.5 4.4 29 167-195 12-40 (174)
35 PF13291 ACT_4: ACT domain; PD 25.3 1.9E+02 0.0041 20.6 4.9 35 154-188 45-79 (80)
36 COG3062 NapD Uncharacterized p 24.5 2.1E+02 0.0046 22.7 5.2 45 168-213 17-62 (94)
37 COG2151 PaaD Predicted metal-s 23.9 1.3E+02 0.0027 24.4 4.0 22 170-191 68-89 (111)
38 PF08002 DUF1697: Protein of u 23.8 2.8E+02 0.0061 22.7 6.2 41 172-213 22-62 (137)
39 PRK10555 aminoglycoside/multid 22.0 1.8E+02 0.004 31.5 5.9 44 170-213 158-209 (1037)
40 TIGR02159 PA_CoA_Oxy4 phenylac 21.9 1.2E+02 0.0026 25.4 3.6 33 158-191 26-64 (146)
41 PRK09577 multidrug efflux prot 20.7 2.1E+02 0.0045 31.1 6.0 44 171-214 158-209 (1032)
42 TIGR00489 aEF-1_beta translati 20.7 1.8E+02 0.0038 22.6 4.0 36 156-191 48-84 (88)
43 COG1440 CelA Phosphotransferas 20.5 35 0.00076 27.4 0.1 16 1-16 1-16 (102)
No 1
>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=99.20 E-value=8.9e-11 Score=82.91 Aligned_cols=55 Identities=35% Similarity=0.654 Sum_probs=51.2
Q ss_pred EEEEE-eechhHHHHHHHHHhccCCceeEEEecCCCEEEEEec---CCHHHHHHHHHhh
Q 026144 160 VLRVS-IHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD---VTPSGVLASVSSV 214 (243)
Q Consensus 160 ~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~---v~~~eI~~aIeK~ 214 (243)
+|.|. |+|.+|+.+|+++|.+++||.++.+|+.+++|+|.++ +++++|.++|++.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~ 59 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKA 59 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHT
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHh
Confidence 58998 9999999999999999999999999999999999987 4669999999985
No 2
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.10 E-value=5.1e-10 Score=82.68 Aligned_cols=64 Identities=23% Similarity=0.418 Sum_probs=56.3
Q ss_pred eeEEEEEE-eechhHHHHHHHHHhccCCceeEEEecCCCEEEEEec---CCHHHHHHHHHhh-cCeeec
Q 026144 157 KVVVLRVS-IHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD---VTPSGVLASVSSV-KKAQFW 220 (243)
Q Consensus 157 ~~v~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~---v~~~eI~~aIeK~-~~Ael~ 220 (243)
....|+|+ |+|.+|+.+|+++|.+++||.+|.||+..+.+.|.++ ++.++|..+|++. |.+..+
T Consensus 2 ~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~~ 70 (71)
T COG2608 2 MKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVEEI 70 (71)
T ss_pred ceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCeeec
Confidence 46789999 9999999999999999999999999999987777654 7899999999985 776543
No 3
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.07 E-value=7.7e-10 Score=81.95 Aligned_cols=67 Identities=40% Similarity=0.804 Sum_probs=61.4
Q ss_pred CceeEEEEEEeechhHHHHHHHHHhccCCceeEEEecCCCEEEEEecCCHHHHHHHHHhh--cCeeecC
Q 026144 155 RDKVVVLRVSIHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGDVTPSGVLASVSSV--KKAQFWP 221 (243)
Q Consensus 155 ~~~~v~LkV~M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~v~~~eI~~aIeK~--~~Ael~~ 221 (243)
..+..+++|.|+|.+|+.+|++.|..++||.++.+|...++|+|.|.+++..|++.|++. +.+++|.
T Consensus 3 ~~~~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~~k~~~~~~ 71 (73)
T KOG1603|consen 3 PIKTVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTGGKRAELWK 71 (73)
T ss_pred CccEEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcCCCceEEec
Confidence 456788999999999999999999999999999999999999999999999999999984 6777774
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.64 E-value=8.7e-08 Score=84.83 Aligned_cols=71 Identities=18% Similarity=0.389 Sum_probs=64.7
Q ss_pred CceeEEEEEEeechhHHHHHHHHHhccCCceeEEEecCCCEEEEEecCCHHHHHHHHHhh-cCeeecCCCCC
Q 026144 155 RDKVVVLRVSIHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGDVTPSGVLASVSSV-KKAQFWPSSTS 225 (243)
Q Consensus 155 ~~~~v~LkV~M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~v~~~eI~~aIeK~-~~Ael~~~~~~ 225 (243)
...+.+|.|+|+|++|++.|+..|..++||++|+||+..+.|.|.+.+.+.+|...|+.. .+|.|.+.-.+
T Consensus 5 ~~~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~G~p 76 (247)
T KOG4656|consen 5 DTYEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGAGKP 76 (247)
T ss_pred CceeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecCCch
Confidence 456789999999999999999999999999999999999999999999999999999985 78888766543
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.11 E-value=1.8e-05 Score=70.76 Aligned_cols=72 Identities=21% Similarity=0.498 Sum_probs=63.2
Q ss_pred CceeEEEEEEeechhHHHHHHHHHhccCCceeEEEecCCCEEEEEecCCHHHHHHHHHhh-cCeeecCCCCCC
Q 026144 155 RDKVVVLRVSIHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGDVTPSGVLASVSSV-KKAQFWPSSTST 226 (243)
Q Consensus 155 ~~~~v~LkV~M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~v~~~eI~~aIeK~-~~Ael~~~~~~~ 226 (243)
+++++.|.|.|+|..|+.+|++.|.+++||..+.+++..++++|.+......|...|++. |.++++....+.
T Consensus 4 ~~~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~~~~ 76 (238)
T PLN02957 4 PELLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQGDPE 76 (238)
T ss_pred CcEEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecCCCcc
Confidence 456778888899999999999999999999999999999999999888888999999985 888888665443
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.01 E-value=2.1e-05 Score=81.28 Aligned_cols=62 Identities=13% Similarity=0.382 Sum_probs=54.7
Q ss_pred eeEEEEEE-eechhHHHHHHHHHhccCCceeEEEecCCCEEEEEecCCHHHHHHHHHhh-cCeeec
Q 026144 157 KVVVLRVS-IHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGDVTPSGVLASVSSV-KKAQFW 220 (243)
Q Consensus 157 ~~v~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~v~~~eI~~aIeK~-~~Ael~ 220 (243)
++++|.|+ |+|.+|+.+|+++|.+++||..+.||+. +.+|++..+.+.+.++|++. |.+++.
T Consensus 3 ~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~~ 66 (834)
T PRK10671 3 QTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASVS 66 (834)
T ss_pred eEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHHhcCCccccc
Confidence 57899999 9999999999999999999999999994 55666778999999999985 877764
No 7
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.59 E-value=0.00016 Score=74.26 Aligned_cols=62 Identities=26% Similarity=0.588 Sum_probs=54.2
Q ss_pred eeEEEEEE-eechhHHHHHHHHHhccCCceeEEEecCCCEEEEEec---CC-HHHHHHHHHhh-cCeee
Q 026144 157 KVVVLRVS-IHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD---VT-PSGVLASVSSV-KKAQF 219 (243)
Q Consensus 157 ~~v~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~---v~-~~eI~~aIeK~-~~Ael 219 (243)
.+..|.|+ |+|..|+.+|| +|++++||+.+.||+.++++.|.++ .+ .+++...+++. |.+..
T Consensus 2 ~~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~~~gy~~~~ 69 (713)
T COG2217 2 RETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVEKAGYSARL 69 (713)
T ss_pred ceeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHHhcCccccc
Confidence 45789999 99999999999 9999999999999999999999875 34 68899999985 76543
No 8
>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=97.37 E-value=0.0023 Score=41.00 Aligned_cols=57 Identities=21% Similarity=0.440 Sum_probs=47.5
Q ss_pred eeEEEEEE-eechhHHHHHHHHHhccCCceeEEEecCCCEEEEEec---CCHHHHHHHHHh
Q 026144 157 KVVVLRVS-IHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD---VTPSGVLASVSS 213 (243)
Q Consensus 157 ~~v~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~---v~~~eI~~aIeK 213 (243)
+...+.|. |+|..|+..+++.+..++|+..+.+++..+.+.|.++ .....+...+..
T Consensus 2 ~~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 62 (68)
T TIGR00003 2 QKFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILD 62 (68)
T ss_pred cEEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHH
Confidence 34678999 9999999999999999999999999999999988863 456666665544
No 9
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=96.81 E-value=0.0017 Score=67.83 Aligned_cols=76 Identities=24% Similarity=0.425 Sum_probs=68.1
Q ss_pred eechhHHHHHHHHHhccCCceeEEEecCCCEEEEEec--CCHHHHHHHHHhh-cCeeecCCCCCCCCCCCCCCcccccc
Q 026144 165 IHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD--VTPSGVLASVSSV-KKAQFWPSSTSTSSSLSSPLVDMTSY 240 (243)
Q Consensus 165 M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~--v~~~eI~~aIeK~-~~Ael~~~~~~~~~~~~~~~~~m~~~ 240 (243)
|+|..|.+.|++++.+.+||.++.|++..+..+|.++ ++++.|.+.|+.. |.+++..+.+...+--.+.+-||+|.
T Consensus 3 mtc~ac~~si~~~~~~~~g~~~i~vsl~~~~~~v~~~~~~~~~~i~~~ied~gf~~~~~~~~~~~~~~~~l~v~GmtC~ 81 (951)
T KOG0207|consen 3 MTCSACSNSIEKAISRKPGVQKIEVSLAQKRANVSYDNIVSPESIKETIEDMGFEASLLSDSEITASKCYLSVNGMTCA 81 (951)
T ss_pred ccHHHHhhhHHHHHhcCCCceeEEEEeccccceEEEeeccCHHHHHHHhhcccceeeecccCccccceeEEEecCceeH
Confidence 8999999999999999999999999999999999876 7899999999984 99999988877777666677788875
No 10
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=96.55 E-value=0.0052 Score=64.39 Aligned_cols=83 Identities=24% Similarity=0.440 Sum_probs=68.7
Q ss_pred eEEEEEE-eechhHHHHHHHHHhccCCceeEEEecCCCEEEEEec---CCHHHHHHHHHhh-cCeeecCCCCCCC-CCCC
Q 026144 158 VVVLRVS-IHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD---VTPSGVLASVSSV-KKAQFWPSSTSTS-SSLS 231 (243)
Q Consensus 158 ~v~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~---v~~~eI~~aIeK~-~~Ael~~~~~~~~-~~~~ 231 (243)
+-.|.|+ |+|..|.+.|++.|++++||+++.|.+...+..|.++ +.++.+.+.+++. |.+++.......+ ...-
T Consensus 70 ~~~l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~~~~~v~~dp~v~s~~~~~e~ie~~gf~a~~i~~~~~~~~~~i~ 149 (951)
T KOG0207|consen 70 KCYLSVNGMTCASCVATIERNLRKIEGVESAVVALSASKAEVIYDPAVTSPDSIAESIEDLGFSAELIESVNGNSNQKIY 149 (951)
T ss_pred eeEEEecCceeHHHHHHHHHHhhccCCcceEEEEeeccceeEEECCcccCchhHHHHHHhcCccceehhcccCCCCCcEE
Confidence 6789999 9999999999999999999999999999999999876 7889999999985 8888776554333 3455
Q ss_pred CCCcccccc
Q 026144 232 SPLVDMTSY 240 (243)
Q Consensus 232 ~~~~~m~~~ 240 (243)
+-+-||.|.
T Consensus 150 L~v~g~~c~ 158 (951)
T KOG0207|consen 150 LDVLGMTCA 158 (951)
T ss_pred EEeeccccc
Confidence 555566664
No 11
>PRK10671 copA copper exporting ATPase; Provisional
Probab=96.22 E-value=0.014 Score=60.64 Aligned_cols=65 Identities=20% Similarity=0.444 Sum_probs=55.4
Q ss_pred eeEEEEEE-eechhHHHHHHHHHhccCCceeEEEecCCCEEEEEecCCHHHHHHHHHhh-cCeeecC
Q 026144 157 KVVVLRVS-IHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGDVTPSGVLASVSSV-KKAQFWP 221 (243)
Q Consensus 157 ~~v~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~v~~~eI~~aIeK~-~~Ael~~ 221 (243)
..+.|.|. |+|..|+..|++.|.+++||..+.+++..+++.+.+..+..++...+++. |.+.++.
T Consensus 99 ~~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~a~~~~ 165 (834)
T PRK10671 99 DSQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVEKAGYGAEAIE 165 (834)
T ss_pred ceEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCCccccc
Confidence 35778899 99999999999999999999999999999998887667788888888874 6665543
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=95.73 E-value=0.031 Score=57.62 Aligned_cols=66 Identities=20% Similarity=0.303 Sum_probs=52.0
Q ss_pred CceeEEEEEE-eechhHHHHHHHHHhccCCceeEEEecCCCEEEEEecC-CHHHHHHHHHhh-cCeeec
Q 026144 155 RDKVVVLRVS-IHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGDV-TPSGVLASVSSV-KKAQFW 220 (243)
Q Consensus 155 ~~~~v~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~v-~~~eI~~aIeK~-~~Ael~ 220 (243)
....+.+.|+ |+|.+|+.++++.+.+++||..+.+++.++++.+.++. ...++...+++. |.+..+
T Consensus 51 ~~~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy~a~~~ 119 (741)
T PRK11033 51 SGTRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGFSLRDE 119 (741)
T ss_pred CCceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHHhcccccccc
Confidence 3446778899 99999999999999999999999999999998887642 125666666663 655443
No 13
>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=88.90 E-value=5.9 Score=27.75 Aligned_cols=56 Identities=21% Similarity=0.404 Sum_probs=42.0
Q ss_pred eEEEEEE-eechhHHHHHHHHHhccCCceeEEEecCCCEEEEEec---CCHHHHHHHHHh
Q 026144 158 VVVLRVS-IHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD---VTPSGVLASVSS 213 (243)
Q Consensus 158 ~v~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~---v~~~eI~~aIeK 213 (243)
.+.+.+. +.|..|...++..+...+|+..+.+++....+.+... .....+...++.
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTD 83 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHh
Confidence 3456678 9999999999999999999988889988888766532 344444444444
No 14
>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=71.52 E-value=6.5 Score=28.16 Aligned_cols=33 Identities=18% Similarity=0.449 Sum_probs=22.4
Q ss_pred eeEEEEEEeechhHH------HHHHHHHhccCCceeEEE
Q 026144 157 KVVVLRVSIHCKGCE------GKVRKHISKMEGVTSFSI 189 (243)
Q Consensus 157 ~~v~LkV~M~C~~Ca------~kIekaL~kl~GV~sV~V 189 (243)
..+.|.+.+...+|. ..|+++|..++||.+|+|
T Consensus 34 ~~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 34 GKVSVSLELPTPACPAAEPLREEIREALKALPGVKSVKV 72 (72)
T ss_dssp CEEEEEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred CEEEEEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence 446666666665554 678889999999999876
No 15
>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=71.47 E-value=15 Score=20.41 Aligned_cols=40 Identities=40% Similarity=0.694 Sum_probs=31.8
Q ss_pred EEE-eechhHHHHHHHHHhccCCceeEEEecCCCEEEEEec
Q 026144 162 RVS-IHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD 201 (243)
Q Consensus 162 kV~-M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~ 201 (243)
.+. +.|..|...++..+....|+....+++....+.+.+.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 43 (63)
T cd00371 3 SVEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEYD 43 (63)
T ss_pred eECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEEC
Confidence 355 8899999999999999999877777877777666543
No 16
>PRK13748 putative mercuric reductase; Provisional
Probab=70.99 E-value=22 Score=34.88 Aligned_cols=61 Identities=20% Similarity=0.478 Sum_probs=45.8
Q ss_pred EEEEE-eechhHHHHHHHHHhccCCceeEEEecCCCEEEEEec--CCHHHHHHHHHhh-cCeeec
Q 026144 160 VLRVS-IHCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD--VTPSGVLASVSSV-KKAQFW 220 (243)
Q Consensus 160 ~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~--v~~~eI~~aIeK~-~~Ael~ 220 (243)
.+.+. |+|.+|..+++..+..++|+....+++..+.+.+.+. .....+...++.. +.++.+
T Consensus 3 ~i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~~ 67 (561)
T PRK13748 3 TLKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATLA 67 (561)
T ss_pred EEEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeecc
Confidence 46678 9999999999999999999999999999998777643 3455555555543 444443
No 17
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=66.26 E-value=11 Score=32.67 Aligned_cols=45 Identities=22% Similarity=0.305 Sum_probs=35.2
Q ss_pred chhHHHHHHHHHhccCCceeEEEecCCCE-------------------EEEEec---CCHHHHHHHH
Q 026144 167 CKGCEGKVRKHISKMEGVTSFSIDLTTKK-------------------VTIIGD---VTPSGVLASV 211 (243)
Q Consensus 167 C~~Ca~kIekaL~kl~GV~sV~VD~~t~k-------------------VtV~g~---v~~~eI~~aI 211 (243)
-++|-.-+|..+.+++||.++.+-+.++. |.|+++ ++.++|+...
T Consensus 9 agGCFWg~E~~f~~~~GV~~t~vGYagG~~~~PtY~~Vcsg~tgh~E~V~V~yDp~~isy~~Ll~~f 75 (172)
T PRK14054 9 AGGCFWGMEAPFDRVKGVISTRVGYTGGHVENPTYEQVCSGTTGHAEAVEITYDPAVISYRELLELF 75 (172)
T ss_pred EcCChhhhHHHHccCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCCcCCHHHHHHHH
Confidence 45777788899999999999999988775 667765 6677776643
No 18
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=61.63 E-value=46 Score=26.41 Aligned_cols=59 Identities=25% Similarity=0.308 Sum_probs=37.8
Q ss_pred ceeEEEEEE-eechhHHHHHHHHHhccCCceeEEE-----ecC--CCEEEEEec-CCHHHHHHHHHhh
Q 026144 156 DKVVVLRVS-IHCKGCEGKVRKHISKMEGVTSFSI-----DLT--TKKVTIIGD-VTPSGVLASVSSV 214 (243)
Q Consensus 156 ~~~v~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~V-----D~~--t~kVtV~g~-v~~~eI~~aIeK~ 214 (243)
...++|.|- -+-+--.--+-..|.+++||+-|.+ |.. +=+++|+|. ++.++|.+.|++.
T Consensus 5 iRRlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~ 72 (97)
T COG1888 5 IRRLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEEL 72 (97)
T ss_pred ceeeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHc
Confidence 344555555 3322223345566888888877654 333 446677775 9999999999984
No 19
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=57.46 E-value=55 Score=25.99 Aligned_cols=59 Identities=29% Similarity=0.402 Sum_probs=39.4
Q ss_pred CceeEEEEEE-eechhHHHHHHHHHhccCCceeEEE-----ecCCC--EEEEEec-CCHHHHHHHHHhh
Q 026144 155 RDKVVVLRVS-IHCKGCEGKVRKHISKMEGVTSFSI-----DLTTK--KVTIIGD-VTPSGVLASVSSV 214 (243)
Q Consensus 155 ~~~~v~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~V-----D~~t~--kVtV~g~-v~~~eI~~aIeK~ 214 (243)
+...++|-|- .+-+. .-.+-.+|.+++||..|.+ |..+. +++|+|+ ++.++|.++|++.
T Consensus 3 ~irRlVLDVlKP~~p~-i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~ 70 (95)
T PF02680_consen 3 GIRRLVLDVLKPHEPS-IVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEEL 70 (95)
T ss_dssp SEEEEEEEEEEESSS--HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHT
T ss_pred ceeEEEEEeecCCCCC-HHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHc
Confidence 3455667666 54333 3356778999999888765 44444 4456676 9999999999984
No 20
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=55.05 E-value=25 Score=29.97 Aligned_cols=45 Identities=18% Similarity=0.251 Sum_probs=33.1
Q ss_pred chhHHHHHHHHHhccCCceeEEEecCCCE--------------EEEEec---CCHHHHHHHH
Q 026144 167 CKGCEGKVRKHISKMEGVTSFSIDLTTKK--------------VTIIGD---VTPSGVLASV 211 (243)
Q Consensus 167 C~~Ca~kIekaL~kl~GV~sV~VD~~t~k--------------VtV~g~---v~~~eI~~aI 211 (243)
-++|-.-+|..+.+++||.++.+-+.++. |.|+++ ++.++|++..
T Consensus 7 agGCFWg~E~~f~~l~GV~~t~vGYagG~~~~p~~~~tgH~E~V~V~yDp~~isy~~LL~~f 68 (156)
T PRK05528 7 AGGCLWGVQAFFKTLPGVIHTEAGRANGRTSTLDGPYDGYAECVKTHFDPRMVSITDLMGYL 68 (156)
T ss_pred ecCCchhhHHHHhcCCCEEEEEEEcCCCCCCCCCCCCCCcEEEEEEEECCCcCCHHHHHHHH
Confidence 35677778899999999999999887643 455555 5667766543
No 21
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=54.66 E-value=49 Score=25.54 Aligned_cols=44 Identities=7% Similarity=0.188 Sum_probs=31.3
Q ss_pred hHHHHHHHHHhccCCceeEEEecCCCEEEEEec-CCHHHHHHHHH
Q 026144 169 GCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD-VTPSGVLASVS 212 (243)
Q Consensus 169 ~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~-v~~~eI~~aIe 212 (243)
.=...|.+.|..++|++-...|...||+.|+-+ .+...+.+.+.
T Consensus 17 e~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~ 61 (87)
T PRK10553 17 ERISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIE 61 (87)
T ss_pred HHHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHH
Confidence 336789999999999987778888888877643 34444444443
No 22
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=53.49 E-value=32 Score=29.22 Aligned_cols=42 Identities=24% Similarity=0.425 Sum_probs=34.6
Q ss_pred ceeEEEEEE-eechhHHHHHHHHHhccCCceeEEEecC-CCEEEE
Q 026144 156 DKVVVLRVS-IHCKGCEGKVRKHISKMEGVTSFSIDLT-TKKVTI 198 (243)
Q Consensus 156 ~~~v~LkV~-M~C~~Ca~kIekaL~kl~GV~sV~VD~~-t~kVtV 198 (243)
-..+++.|+ --|..|..-|.....++ |+.++.|... ++++.+
T Consensus 99 g~~~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~~~~ 142 (146)
T PF14437_consen 99 GRSMTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGKVYY 142 (146)
T ss_pred CCeEEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCcEEE
Confidence 556888999 99999999998887776 8999998877 776554
No 23
>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=52.77 E-value=61 Score=24.25 Aligned_cols=43 Identities=12% Similarity=0.207 Sum_probs=30.5
Q ss_pred HHHHHHHHHhccCCceeEEEecCCCEEEEEec-CCHHHHHHHHHh
Q 026144 170 CEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD-VTPSGVLASVSS 213 (243)
Q Consensus 170 Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~-v~~~eI~~aIeK 213 (243)
=...|.++|.+++|++-...+-. +|+.|+-+ .+..++.+.+..
T Consensus 16 ~~~~v~~~l~~~~gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~~ 59 (79)
T PF03927_consen 16 RLEEVAEALAAIPGVEVHAVDED-GKIVVTIEAESSEEEVDLIDA 59 (79)
T ss_dssp CHHHHHHHHCCSTTEEEEEEETT-TEEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCcEEEeeCCC-CeEEEEEEeCChHHHHHHHHH
Confidence 45678999999999987777777 77776643 555555555554
No 24
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=50.80 E-value=27 Score=31.39 Aligned_cols=45 Identities=18% Similarity=0.244 Sum_probs=33.7
Q ss_pred chhHHHHHHHHHhccCCceeEEEecCCCE-------------------EEEEec---CCHHHHHHHH
Q 026144 167 CKGCEGKVRKHISKMEGVTSFSIDLTTKK-------------------VTIIGD---VTPSGVLASV 211 (243)
Q Consensus 167 C~~Ca~kIekaL~kl~GV~sV~VD~~t~k-------------------VtV~g~---v~~~eI~~aI 211 (243)
-++|-.-+|..+.+++||.++.|-+.++. |.|+++ ++.++|+...
T Consensus 51 agGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~VcsG~tgH~EaV~V~YDp~~ISy~~LL~~F 117 (213)
T PRK00058 51 GMGCFWGAERLFWQLPGVYSTAVGYAGGYTPNPTYREVCSGRTGHAEVVRVVYDPAVISYEQLLQVF 117 (213)
T ss_pred EccCcchhHHHHhcCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHH
Confidence 46677778888999999999999888552 556665 6667776544
No 25
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=50.00 E-value=21 Score=31.32 Aligned_cols=45 Identities=24% Similarity=0.264 Sum_probs=33.6
Q ss_pred chhHHHHHHHHHhccCCceeEEEecCCCE-------------------EEEEec---CCHHHHHHHH
Q 026144 167 CKGCEGKVRKHISKMEGVTSFSIDLTTKK-------------------VTIIGD---VTPSGVLASV 211 (243)
Q Consensus 167 C~~Ca~kIekaL~kl~GV~sV~VD~~t~k-------------------VtV~g~---v~~~eI~~aI 211 (243)
-++|-.-+|..+.+++||.++.+-+.++. |.|+++ ++.++|++..
T Consensus 14 agGCFWg~E~~f~~l~GV~~t~vGYagG~~~nPtY~~Vcsg~tgH~E~V~V~yDp~~iSy~~LL~~F 80 (186)
T PRK13014 14 AGGCFWGVEGVFQHVPGVVSVVSGYSGGHVDNPTYEQVCTGTTGHAEAVQITYDPKQVSYENLLQIF 80 (186)
T ss_pred ecCCceeeHHHHccCCCEEEEEeeecCCCCCCCChhhhcCCCCCceEEEEEEECCCcCCHHHHHHHH
Confidence 35666667888889999999999888775 566665 6667776643
No 26
>PF04468 PSP1: PSP1 C-terminal conserved region; InterPro: IPR007557 The yeast polymerase suppressor 1 (PSP1) protein partially suppresses mutations in DNA polymerases alpha and delta []. The C-terminal half of PSP1 contains a domain, which is also found in several hypothetical proteins from both eukaryotic and prokaryotic sources: Crithidia fasciculata RBP45 and RBP33, subunits of the cycling sequence binding protein (CSBP) II. RBP45 and RBP33 proteins bind specifically to the cycling sequences present in several mRNAs that accumulate periodically during the cell cycle. RBP45 and RBP33 are phosphoproteins, which are phosphorylated differentially during progression through the cell cycle. Hypothetical proteins with high sequence similarity have been identified in other kinetoplastid organisms []. Bacillus subtilis yaaT protein, which plays a significant role in phosphorelay during initiation of sporulation. It is possible that the yaaT protein is also related to DNA replication. The sequence of the yaaT protein is widely conserved in prokaryotes (bacteria and archaea), but the functions of the protein are unknown []. The actual biological significance of the PSP1 C-terminal domain has not yet been clearly established.
Probab=47.34 E-value=55 Score=24.91 Aligned_cols=52 Identities=15% Similarity=0.130 Sum_probs=38.4
Q ss_pred hhHHHHHHHHHhccCCceeEEEecCCCEEEEEec----CCHHHHHHHHHhhcCeeec
Q 026144 168 KGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD----VTPSGVLASVSSVKKAQFW 220 (243)
Q Consensus 168 ~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~----v~~~eI~~aIeK~~~Ael~ 220 (243)
.-|...+.+.-..|. +.+++..+..+++++.+. ++.-+|+..+.+.|++.+|
T Consensus 29 ~~c~~~~~~~~L~m~-lvd~e~~~D~~k~~fyy~a~~rvDFR~Lvr~L~~~f~~RIe 84 (88)
T PF04468_consen 29 KFCRELVKELGLPMK-LVDVEYQFDGSKLTFYYTAESRVDFRELVRDLAREFKTRIE 84 (88)
T ss_pred HHHHHHHHHcCCCeE-EEEEEEEcCCCEEEEEEEeCCcCcHHHHHHHHHHHhCceEE
Confidence 456666666533333 556788889999998753 8899999999988777776
No 27
>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=44.53 E-value=29 Score=26.36 Aligned_cols=21 Identities=29% Similarity=0.599 Sum_probs=17.5
Q ss_pred HHHHHHHhccCCceeEEEecC
Q 026144 172 GKVRKHISKMEGVTSFSIDLT 192 (243)
Q Consensus 172 ~kIekaL~kl~GV~sV~VD~~ 192 (243)
..++.+|.+++|++++.|++.
T Consensus 58 ~~i~~al~~l~gv~~v~v~i~ 78 (99)
T TIGR02945 58 GEVENAVRAVPGVGSVTVELV 78 (99)
T ss_pred HHHHHHHHhCCCCceEEEEEE
Confidence 457888999999999998875
No 28
>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=43.42 E-value=34 Score=29.63 Aligned_cols=35 Identities=17% Similarity=0.429 Sum_probs=24.4
Q ss_pred eEEEEEEeechhHH------HHHHHHHhccCCceeEEEecC
Q 026144 158 VVVLRVSIHCKGCE------GKVRKHISKMEGVTSFSIDLT 192 (243)
Q Consensus 158 ~v~LkV~M~C~~Ca------~kIekaL~kl~GV~sV~VD~~ 192 (243)
.+.+.+.+...+|. ..|+.+|..++||.+|.|++.
T Consensus 114 ~V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~l~ 154 (174)
T TIGR03406 114 RVDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVELV 154 (174)
T ss_pred EEEEEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEEEE
Confidence 35555555555554 458899999999999888653
No 29
>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=42.77 E-value=58 Score=27.60 Aligned_cols=27 Identities=22% Similarity=0.337 Sum_probs=23.1
Q ss_pred hhHHHHHHHHHhccCCceeEEEecCCC
Q 026144 168 KGCEGKVRKHISKMEGVTSFSIDLTTK 194 (243)
Q Consensus 168 ~~Ca~kIekaL~kl~GV~sV~VD~~t~ 194 (243)
.+|-..+|..+.+++||.++.+-+.++
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 467777899999999999999988765
No 30
>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=37.71 E-value=97 Score=21.49 Aligned_cols=34 Identities=9% Similarity=0.228 Sum_probs=25.5
Q ss_pred ceeEEEEEEeechh-HHHHHHHHHhccCCceeEEE
Q 026144 156 DKVVVLRVSIHCKG-CEGKVRKHISKMEGVTSFSI 189 (243)
Q Consensus 156 ~~~v~LkV~M~C~~-Ca~kIekaL~kl~GV~sV~V 189 (243)
...+.|.|+..-.. --..|-+.|++++||.+|.+
T Consensus 40 ~~~i~~~v~v~~~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 40 RANVTISIDTSTMNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred eEEEEEEEEcCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 45566666644444 77889999999999998875
No 31
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=35.39 E-value=60 Score=30.37 Aligned_cols=29 Identities=28% Similarity=0.288 Sum_probs=24.2
Q ss_pred chhHHHHHHHHHhccCCceeEEEecCCCE
Q 026144 167 CKGCEGKVRKHISKMEGVTSFSIDLTTKK 195 (243)
Q Consensus 167 C~~Ca~kIekaL~kl~GV~sV~VD~~t~k 195 (243)
-.+|-.-+|..+.+++||.++.+-+.++.
T Consensus 133 agGCFWg~E~~F~~~~GV~~t~vGYagG~ 161 (283)
T PRK05550 133 AGGCFWGVEYYFKKLPGVLSVESGYTGGD 161 (283)
T ss_pred ecCCchhhhhhHhhCcCEEEEEEeeCCCC
Confidence 56777788888999999999999887664
No 32
>PF09580 Spore_YhcN_YlaJ: Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); InterPro: IPR019076 This entry contains YhcN and YlaJ, which are predicted lipoproteins that have been detected as spore proteins but not vegetative proteins in Bacillus subtilis. Both appear to be expressed under control of the RNA polymerase sigma-G factor. The YlaJ-like members of this family have a low-complexity, strongly acidic, 40-residue C-terminal domain.
Probab=33.81 E-value=1.2e+02 Score=25.32 Aligned_cols=48 Identities=13% Similarity=0.230 Sum_probs=35.2
Q ss_pred echhHHHHHHHHHhccCCceeEEEecCCCEEEEEec-----CCHHHHHHHHHh
Q 026144 166 HCKGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD-----VTPSGVLASVSS 213 (243)
Q Consensus 166 ~C~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~-----v~~~eI~~aIeK 213 (243)
.=..=+..|.+.+.+++||+++.|=.....+.|-.. ....+|...|++
T Consensus 72 ~~~~~a~~i~~~v~~~~~V~~A~vvv~~~~a~Vav~~~~~~~~~~~i~~~V~~ 124 (177)
T PF09580_consen 72 DRQQLADRIANRVKKVPGVEDATVVVTDDNAYVAVDLDFNRFNTKKIKKKVEK 124 (177)
T ss_pred hHHHHHHHHHHHHhcCCCceEEEEEEECCEEEEEEEecccccchhHHHHHHHH
Confidence 345668899999999999999999888888887533 233444444443
No 33
>PF04972 BON: BON domain; InterPro: IPR007055 The BON domain is typically ~60 residues long and has an alpha/beta predicted fold. There is a conserved glycine residue and several hydrophobic regions. This pattern of conservation is more suggestive of a binding or structural function rather than a catalytic function. Most proteobacteria seem to possess one or two BON-containing proteins, typically of the OsmY-type proteins; outside of this group the distribution is more disparate. The OsmY protein is an Escherichia coli 20 kDa outer membrane or periplasmic protein that is expressed in response to a variety of stress conditions, in particular, helping to provide protection against osmotic shock. One hypothesis is that OsmY prevents shrinkage of the cytoplasmic compartment by contacting the phospholipid interfaces surrounding the periplasmic space. The domain architecture of two BON domains alone suggests that these domains contact the surfaces of phospholipids, with each domain contacting a membrane [].; PDB: 2L26_A 2KGS_A 2KSM_A.
Probab=28.74 E-value=55 Score=22.44 Aligned_cols=34 Identities=24% Similarity=0.386 Sum_probs=17.8
Q ss_pred HHHHHHHhc---cCCceeEEEecCCCEEEEEecCCHHH
Q 026144 172 GKVRKHISK---MEGVTSFSIDLTTKKVTIIGDVTPSG 206 (243)
Q Consensus 172 ~kIekaL~k---l~GV~sV~VD~~t~kVtV~g~v~~~e 206 (243)
.+|+.+|.. +++- .+.|....+.|++.|.++-.+
T Consensus 2 ~~v~~~L~~~~~~~~~-~i~v~v~~g~v~L~G~v~s~~ 38 (64)
T PF04972_consen 2 TKVRAALRADPWLPDS-NISVSVENGVVTLSGEVPSQE 38 (64)
T ss_dssp -----------CTT-T-TEEEEEECTEEEEEEEESSCH
T ss_pred cccccccccccccCCC-eEEEEEECCEEEEEeeCcHHH
Confidence 356677766 4444 678888999999999864433
No 34
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=25.52 E-value=1.2e+02 Score=26.53 Aligned_cols=29 Identities=21% Similarity=0.225 Sum_probs=22.8
Q ss_pred chhHHHHHHHHHhccCCceeEEEecCCCE
Q 026144 167 CKGCEGKVRKHISKMEGVTSFSIDLTTKK 195 (243)
Q Consensus 167 C~~Ca~kIekaL~kl~GV~sV~VD~~t~k 195 (243)
-++|=.-+|+.+.+++||.++.+-+++|.
T Consensus 12 agGCFWg~E~~f~~i~GV~~t~~GYagG~ 40 (174)
T COG0225 12 AGGCFWGVEAYFEQIPGVLSTVSGYAGGH 40 (174)
T ss_pred eccCccchHHHHhhCCCeEEEeeeEcCCC
Confidence 34566667888889999999999887664
No 35
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=25.32 E-value=1.9e+02 Score=20.59 Aligned_cols=35 Identities=14% Similarity=0.240 Sum_probs=25.6
Q ss_pred CCceeEEEEEEeechhHHHHHHHHHhccCCceeEE
Q 026144 154 SRDKVVVLRVSIHCKGCEGKVRKHISKMEGVTSFS 188 (243)
Q Consensus 154 ~~~~~v~LkV~M~C~~Ca~kIekaL~kl~GV~sV~ 188 (243)
.....+.|.|+..-..=-..|-..|++++||.+|.
T Consensus 45 ~~~~~~~l~v~V~d~~~L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 45 DGTARITLTVEVKDLEHLNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp TTEEEEEEEEEESSHHHHHHHHHHHCTSTTEEEEE
T ss_pred CCEEEEEEEEEECCHHHHHHHHHHHHCCCCeeEEE
Confidence 34566777777555556667778899999998764
No 36
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=24.46 E-value=2.1e+02 Score=22.69 Aligned_cols=45 Identities=13% Similarity=0.237 Sum_probs=32.2
Q ss_pred hhHHHHHHHHHhccCCceeEEEecCCCEEEEEec-CCHHHHHHHHHh
Q 026144 168 KGCEGKVRKHISKMEGVTSFSIDLTTKKVTIIGD-VTPSGVLASVSS 213 (243)
Q Consensus 168 ~~Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g~-v~~~eI~~aIeK 213 (243)
+.=...|..+|..++|++-..-|.. ||++|.-+ .+...|.+.++.
T Consensus 17 pe~l~av~~~L~~ip~~EV~~~d~~-GKlVVVie~~~~~~l~~tie~ 62 (94)
T COG3062 17 PERLSAVKTALLAIPGCEVYGEDAE-GKLVVVIEAEDSETLLETIES 62 (94)
T ss_pred HHHHHHHHHHHhcCCCcEeeccCCC-ceEEEEEEcCchHHHHHHHHH
Confidence 3456789999999999987766766 77766544 455666666664
No 37
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=23.88 E-value=1.3e+02 Score=24.39 Aligned_cols=22 Identities=18% Similarity=0.453 Sum_probs=18.7
Q ss_pred HHHHHHHHHhccCCceeEEEec
Q 026144 170 CEGKVRKHISKMEGVTSFSIDL 191 (243)
Q Consensus 170 Ca~kIekaL~kl~GV~sV~VD~ 191 (243)
=...|+.+|..++||.+++|++
T Consensus 68 i~~~v~~al~~~~~v~~v~V~l 89 (111)
T COG2151 68 IADQVEAALEEIPGVEDVEVEL 89 (111)
T ss_pred HHHHHHHHHHhcCCcceEEEEE
Confidence 3678999999999999988765
No 38
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=23.79 E-value=2.8e+02 Score=22.66 Aligned_cols=41 Identities=17% Similarity=0.365 Sum_probs=30.6
Q ss_pred HHHHHHHhccCCceeEEEecCCCEEEEEecCCHHHHHHHHHh
Q 026144 172 GKVRKHISKMEGVTSFSIDLTTKKVTIIGDVTPSGVLASVSS 213 (243)
Q Consensus 172 ~kIekaL~kl~GV~sV~VD~~t~kVtV~g~v~~~eI~~aIeK 213 (243)
..++..|.++ |-.+|+.-+.+|-|.++.+.++.+|...|++
T Consensus 22 aeLr~~l~~~-Gf~~V~Tyi~SGNvvf~~~~~~~~l~~~ie~ 62 (137)
T PF08002_consen 22 AELREALEDL-GFTNVRTYIQSGNVVFESDRDPAELAAKIEK 62 (137)
T ss_dssp HHHHHHHHHC-T-EEEEEETTTTEEEEEESS-HHHHHHHHHH
T ss_pred HHHHHHHHHc-CCCCceEEEeeCCEEEecCCChHHHHHHHHH
Confidence 3456666666 8889999999999999977888888777765
No 39
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=21.95 E-value=1.8e+02 Score=31.51 Aligned_cols=44 Identities=16% Similarity=0.234 Sum_probs=35.1
Q ss_pred HHHHHHHHHhccCCceeEEEecCCCEEEEEe--------cCCHHHHHHHHHh
Q 026144 170 CEGKVRKHISKMEGVTSFSIDLTTKKVTIIG--------DVTPSGVLASVSS 213 (243)
Q Consensus 170 Ca~kIekaL~kl~GV~sV~VD~~t~kVtV~g--------~v~~~eI~~aIeK 213 (243)
=+..++..|++++||.+|.+.-...++.|+- .++..+|..+|+.
T Consensus 158 ~~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~~v~~al~~ 209 (1037)
T PRK10555 158 VASNIQDPLSRVNGVGDIDAYGSQYSMRIWLDPAKLNSFQMTTKDVTDAIES 209 (1037)
T ss_pred HHHHHHHHhhcCCCeEEEEEcCCceEEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 3467899999999999999886655666653 3788999999986
No 40
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=21.92 E-value=1.2e+02 Score=25.45 Aligned_cols=33 Identities=21% Similarity=0.498 Sum_probs=21.9
Q ss_pred eEEEEEEeechhHHH------HHHHHHhccCCceeEEEec
Q 026144 158 VVVLRVSIHCKGCEG------KVRKHISKMEGVTSFSIDL 191 (243)
Q Consensus 158 ~v~LkV~M~C~~Ca~------kIekaL~kl~GV~sV~VD~ 191 (243)
.+.+.|.++-.+|.. .|+++|.++ |+.+|.|++
T Consensus 26 ~V~VtIt~Ty~gcpa~e~L~~~I~~aL~~~-Gv~~V~V~i 64 (146)
T TIGR02159 26 GVVVKFTPTYSGCPALEVIRQDIRDAVRAL-GVEVVEVST 64 (146)
T ss_pred EEEEEEEeCCCCCchHHHHHHHHHHHHHhc-CCCeEEEeE
Confidence 355566666555543 488888886 888877753
No 41
>PRK09577 multidrug efflux protein; Reviewed
Probab=20.66 E-value=2.1e+02 Score=31.10 Aligned_cols=44 Identities=18% Similarity=0.193 Sum_probs=35.1
Q ss_pred HHHHHHHHhccCCceeEEEecCCCEEEEE--------ecCCHHHHHHHHHhh
Q 026144 171 EGKVRKHISKMEGVTSFSIDLTTKKVTII--------GDVTPSGVLASVSSV 214 (243)
Q Consensus 171 a~kIekaL~kl~GV~sV~VD~~t~kVtV~--------g~v~~~eI~~aIeK~ 214 (243)
+..|+..|.+++||.+|.++-...++.|. +.++..+|.++|+..
T Consensus 158 ~~~l~~~L~~v~GV~~V~~~G~e~~v~V~vD~~kl~~~Gls~~~V~~~l~~~ 209 (1032)
T PRK09577 158 SANVLQALRRVEGVGKVQFWGAEYAMRIWPDPVKLAALGLTASDIASAVRAH 209 (1032)
T ss_pred HHHHHHHHhcCCCcEEEEecCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHh
Confidence 46799999999999999998766666664 337888999999863
No 42
>TIGR00489 aEF-1_beta translation elongation factor aEF-1 beta. This model describes the archaeal translation elongation factor aEF-1 beta. The member from Sulfolobus solfataricus was demonstrated experimentally. It is a dimer that catalyzes the exchange of GDP for GTP on aEF-1 alpha.
Probab=20.66 E-value=1.8e+02 Score=22.57 Aligned_cols=36 Identities=19% Similarity=0.267 Sum_probs=24.9
Q ss_pred ceeEEEEEEe-echhHHHHHHHHHhccCCceeEEEec
Q 026144 156 DKVVVLRVSI-HCKGCEGKVRKHISKMEGVTSFSIDL 191 (243)
Q Consensus 156 ~~~v~LkV~M-~C~~Ca~kIekaL~kl~GV~sV~VD~ 191 (243)
...+.+.+-| .-.+-...|+.+|++++||+++.|-.
T Consensus 48 LkaL~~~~vv~D~~g~td~lee~i~~ve~V~svev~~ 84 (88)
T TIGR00489 48 LVAINVMVVMGDAEGGTEAAEESLSGIEGVESVEVTD 84 (88)
T ss_pred ceeeEEEEEEecCCcChHHHHHHHhcCCCccEEEEEE
Confidence 3344444333 23356799999999999999998743
No 43
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=20.47 E-value=35 Score=27.38 Aligned_cols=16 Identities=44% Similarity=0.746 Sum_probs=13.5
Q ss_pred CCcccceecCccccee
Q 026144 1 MKRMDLLCASPASTAI 16 (243)
Q Consensus 1 mk~~~~~c~s~astai 16 (243)
||.|=|||+.-.||.+
T Consensus 1 Mk~IlLvC~aGmSTSl 16 (102)
T COG1440 1 MKKILLVCAAGMSTSL 16 (102)
T ss_pred CceEEEEecCCCcHHH
Confidence 7888888888888876
Done!