Query 022356
Match_columns 298
No_of_seqs 199 out of 1267
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 02:54:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022356.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022356hhsearch_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 99.3 2.8E-12 6.1E-17 92.9 7.1 56 217-272 1-61 (62)
2 KOG1603 Copper chaperone [Inor 99.3 6.4E-12 1.4E-16 95.9 8.2 67 212-278 3-71 (73)
3 COG2608 CopZ Copper chaperone 99.3 2E-11 4.3E-16 93.0 7.8 65 213-277 1-70 (71)
4 KOG4656 Copper chaperone for s 98.8 2.1E-08 4.5E-13 92.2 8.0 68 212-279 5-73 (247)
5 PRK10671 copA copper exporting 98.3 1.7E-06 3.7E-11 91.4 7.8 64 212-277 1-66 (834)
6 PLN02957 copper, zinc superoxi 98.2 7.3E-06 1.6E-10 75.4 10.3 71 212-282 4-75 (238)
7 TIGR00003 copper ion binding p 97.7 0.00038 8.3E-09 45.4 8.3 59 213-271 1-63 (68)
8 COG2217 ZntA Cation transport 97.7 7.6E-05 1.7E-09 78.8 7.4 62 214-276 2-69 (713)
9 PRK10671 copA copper exporting 96.8 0.0034 7.4E-08 66.8 7.6 64 214-277 99-164 (834)
10 KOG0207 Cation transport ATPas 96.8 0.0036 7.8E-08 67.8 7.5 64 214-277 146-214 (951)
11 PRK11033 zntA zinc/cadmium/mer 96.1 0.017 3.6E-07 61.3 7.7 63 213-275 52-117 (741)
12 KOG0207 Cation transport ATPas 96.0 0.015 3.3E-07 63.1 6.9 64 215-278 70-138 (951)
13 TIGR02052 MerP mercuric transp 93.7 0.83 1.8E-05 33.0 8.8 62 210-271 19-84 (92)
14 cd00371 HMA Heavy-metal-associ 81.3 8 0.00017 22.1 7.0 39 219-257 3-42 (63)
15 PRK13748 putative mercuric red 78.0 9.5 0.00021 38.5 8.0 60 217-276 3-66 (561)
16 PF01883 DUF59: Domain of unkn 72.5 5.7 0.00012 29.5 3.7 33 214-246 34-72 (72)
17 PRK14054 methionine sulfoxide 67.9 16 0.00035 32.9 6.2 54 213-271 3-78 (172)
18 COG1888 Uncharacterized protei 62.4 41 0.00088 28.1 7.0 58 214-271 6-72 (97)
19 PRK05528 methionine sulfoxide 56.7 32 0.00069 30.6 5.9 53 214-271 2-71 (156)
20 PF02680 DUF211: Uncharacteriz 54.8 20 0.00043 29.8 4.0 58 213-271 4-70 (95)
21 PRK13014 methionine sulfoxide 52.7 48 0.001 30.3 6.5 56 211-271 6-83 (186)
22 PRK00058 methionine sulfoxide 48.3 82 0.0018 29.5 7.4 55 212-271 44-120 (213)
23 PF13192 Thioredoxin_3: Thiore 48.0 48 0.001 24.8 5.0 13 216-229 3-15 (76)
24 PRK10553 assembly protein for 44.9 73 0.0016 25.7 5.8 45 226-270 17-62 (87)
25 PF04972 BON: BON domain; Int 40.8 24 0.00052 25.3 2.2 41 229-270 2-45 (64)
26 TIGR03406 FeS_long_SufT probab 40.6 35 0.00076 30.7 3.7 34 215-248 114-153 (174)
27 PF14437 MafB19-deam: MafB19-l 39.5 65 0.0014 28.6 5.1 42 213-255 99-142 (146)
28 TIGR02945 SUF_assoc FeS assemb 38.6 43 0.00093 26.4 3.5 21 229-249 58-78 (99)
29 PRK05550 bifunctional methioni 36.3 84 0.0018 30.6 5.7 55 211-270 125-201 (283)
30 PF04468 PSP1: PSP1 C-terminal 35.2 1.1E+02 0.0023 24.4 5.3 52 225-277 29-84 (88)
31 COG2151 PaaD Predicted metal-s 32.8 65 0.0014 27.2 3.9 33 216-248 51-89 (111)
32 PF13740 ACT_6: ACT domain; PD 32.4 1.8E+02 0.0039 21.8 6.0 58 214-271 1-65 (76)
33 PF03927 NapD: NapD protein; 31.2 1.6E+02 0.0035 23.0 5.6 45 226-271 15-60 (79)
34 COG0225 MsrA Peptide methionin 29.5 56 0.0012 29.8 3.2 37 211-252 4-40 (174)
35 PF01206 TusA: Sulfurtransfera 27.7 1.1E+02 0.0023 22.4 3.9 46 217-271 2-50 (70)
36 PF09580 Spore_YhcN_YlaJ: Spor 26.6 1.7E+02 0.0037 25.2 5.5 46 225-270 74-124 (177)
37 PF14492 EFG_II: Elongation Fa 25.9 1.8E+02 0.0039 22.1 5.0 51 225-276 15-71 (75)
38 COG5041 SKB2 Casein kinase II, 24.9 34 0.00073 32.4 0.9 31 136-167 141-176 (242)
39 PRK11023 outer membrane lipopr 24.5 1.4E+02 0.0031 26.7 4.9 48 224-271 47-97 (191)
40 cd04888 ACT_PheB-BS C-terminal 24.1 1.8E+02 0.0038 20.9 4.5 34 213-246 40-74 (76)
41 PRK10555 aminoglycoside/multid 23.1 1.5E+02 0.0032 33.3 5.6 45 227-271 158-210 (1037)
42 PRK09577 multidrug efflux prot 23.0 1.5E+02 0.0033 33.1 5.6 44 228-271 158-209 (1032)
43 PRK11198 LysM domain/BON super 22.5 1.8E+02 0.0038 25.1 4.9 45 226-270 26-71 (147)
44 PF01625 PMSR: Peptide methion 21.4 1.1E+02 0.0024 27.0 3.4 47 225-271 7-75 (155)
45 TIGR00915 2A0602 The (Largely 20.4 1.9E+02 0.004 32.5 5.6 44 227-270 158-209 (1044)
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=99.35 E-value=2.8e-12 Score=92.92 Aligned_cols=56 Identities=36% Similarity=0.635 Sum_probs=52.0
Q ss_pred EEEE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEec---CCHHHHHHHHHhh-c
Q 022356 217 VLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGD---VTPLSVLASISKV-K 272 (298)
Q Consensus 217 vLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~---vdp~eLlkaL~Kl-K 272 (298)
+|+| ||+|++|+.+|+++|.+++||.++.||+.+++|+|.++ +++++|.++|+++ |
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy 61 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGY 61 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTS
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCc
Confidence 6899 99999999999999999999999999999999999986 4569999999986 5
No 2
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.32 E-value=6.4e-12 Score=95.86 Aligned_cols=67 Identities=43% Similarity=0.849 Sum_probs=62.6
Q ss_pred CceEEEEEEeecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEecCCHHHHHHHHHhh--cCeeECC
Q 022356 212 SNQVVVLRVSLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSVLASISKV--KNAQFWP 278 (298)
Q Consensus 212 ~mqtVvLkVgM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~vdp~eLlkaL~Kl--K~Aelwp 278 (298)
.+++.+++|+|+|.+|+.+|++.|..++||.++.+|..+++|+|.|.+++..|++.|++. +.+++|.
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 567889999999999999999999999999999999999999999999999999999986 6777774
No 3
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.26 E-value=2e-11 Score=92.98 Aligned_cols=65 Identities=23% Similarity=0.387 Sum_probs=57.5
Q ss_pred ceEEEEEE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEE--e-cCCHHHHHHHHHhh-cCeeEC
Q 022356 213 NQVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVV--G-DVTPLSVLASISKV-KNAQFW 277 (298)
Q Consensus 213 mqtVvLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~--G-~vdp~eLlkaL~Kl-K~Aelw 277 (298)
|++.+|+| ||+|++|+.+|+++|.+++||..|+||++.+.+.|. + .++.++|.++|+++ |.+..+
T Consensus 1 ~~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~~ 70 (71)
T COG2608 1 MMKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVEEI 70 (71)
T ss_pred CceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCeeec
Confidence 56789999 999999999999999999999999999999777766 4 47999999999997 877553
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.77 E-value=2.1e-08 Score=92.21 Aligned_cols=68 Identities=21% Similarity=0.421 Sum_probs=62.7
Q ss_pred CceEEEEEEeecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEecCCHHHHHHHHHhh-cCeeECCC
Q 022356 212 SNQVVVLRVSLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSVLASISKV-KNAQFWPA 279 (298)
Q Consensus 212 ~mqtVvLkVgM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~vdp~eLlkaL~Kl-K~Aelwp~ 279 (298)
..-+++|.|.|+|++|+..|+.+|..++||++|+||++++.|.|.+.+.+.+|.+.|+.. ++|.|...
T Consensus 5 ~~~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~ 73 (247)
T KOG4656|consen 5 DTYEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGA 73 (247)
T ss_pred CceeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecC
Confidence 345789999999999999999999999999999999999999999999999999999998 88877543
No 5
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.28 E-value=1.7e-06 Score=91.38 Aligned_cols=64 Identities=19% Similarity=0.389 Sum_probs=57.1
Q ss_pred CceEEEEEE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEecCCHHHHHHHHHhh-cCeeEC
Q 022356 212 SNQVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSVLASISKV-KNAQFW 277 (298)
Q Consensus 212 ~mqtVvLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~vdp~eLlkaL~Kl-K~Aelw 277 (298)
++++++|+| ||+|++|+.+|+++|.+++||..|.||+. +++|++..+++.+.++|++. |.+++.
T Consensus 1 ~~~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~~ 66 (834)
T PRK10671 1 MSQTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASVS 66 (834)
T ss_pred CCeEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHHhcCCccccc
Confidence 357899999 99999999999999999999999999994 56677778999999999997 888764
No 6
>PLN02957 copper, zinc superoxide dismutase
Probab=98.25 E-value=7.3e-06 Score=75.36 Aligned_cols=71 Identities=20% Similarity=0.474 Sum_probs=63.6
Q ss_pred CceEEEEEEeecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEecCCHHHHHHHHHhh-cCeeECCCCcc
Q 022356 212 SNQVVVLRVSLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSVLASISKV-KNAQFWPAAAA 282 (298)
Q Consensus 212 ~mqtVvLkVgM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~vdp~eLlkaL~Kl-K~Aelwp~~~~ 282 (298)
..+++.|.|+|+|+.|+.+|+++|.+++||..+.+|+..++++|.+......+.++|++. |.++++.....
T Consensus 4 ~~~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~~~ 75 (238)
T PLN02957 4 PELLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQGDP 75 (238)
T ss_pred CcEEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecCCCc
Confidence 456788999999999999999999999999999999999999999888889999999998 88988865433
No 7
>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=97.72 E-value=0.00038 Score=45.39 Aligned_cols=59 Identities=25% Similarity=0.475 Sum_probs=48.9
Q ss_pred ceEEEEEE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEec---CCHHHHHHHHHhh
Q 022356 213 NQVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGD---VTPLSVLASISKV 271 (298)
Q Consensus 213 mqtVvLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~---vdp~eLlkaL~Kl 271 (298)
|++..|.| +|+|..|+..|++.+..++||..+.+++..+.+.|... .+...+...+...
T Consensus 1 ~~~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 (68)
T TIGR00003 1 KQKFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDA 63 (68)
T ss_pred CcEEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHc
Confidence 35667999 99999999999999999999999999999999988742 4666666666543
No 8
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.71 E-value=7.6e-05 Score=78.82 Aligned_cols=62 Identities=27% Similarity=0.592 Sum_probs=54.6
Q ss_pred eEEEEEE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEec---CC-HHHHHHHHHhh-cCeeE
Q 022356 214 QVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGD---VT-PLSVLASISKV-KNAQF 276 (298)
Q Consensus 214 qtVvLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~---vd-p~eLlkaL~Kl-K~Ael 276 (298)
.++.|.| ||+|..|+.+|| +|.+++||+.+.||+.++++.|..+ .+ .+++..+++.. |.+..
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 4678999 999999999999 9999999999999999999999854 45 78899999987 76643
No 9
>PRK10671 copA copper exporting ATPase; Provisional
Probab=96.78 E-value=0.0034 Score=66.79 Aligned_cols=64 Identities=20% Similarity=0.460 Sum_probs=55.6
Q ss_pred eEEEEEE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEecCCHHHHHHHHHhh-cCeeEC
Q 022356 214 QVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDVTPLSVLASISKV-KNAQFW 277 (298)
Q Consensus 214 qtVvLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~vdp~eLlkaL~Kl-K~Aelw 277 (298)
..+.|.| ||+|.+|+..|++.|..++||..+.+++..+++.|.+..++..+.+.++.. |.+.++
T Consensus 99 ~~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~a~~~ 164 (834)
T PRK10671 99 DSQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVEKAGYGAEAI 164 (834)
T ss_pred ceEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCCcccc
Confidence 3577889 999999999999999999999999999999999988767888888888876 766544
No 10
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=96.75 E-value=0.0036 Score=67.79 Aligned_cols=64 Identities=30% Similarity=0.550 Sum_probs=57.5
Q ss_pred eEEEEEE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEec---CCHHHHHHHHHhh-cCeeEC
Q 022356 214 QVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGD---VTPLSVLASISKV-KNAQFW 277 (298)
Q Consensus 214 qtVvLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~---vdp~eLlkaL~Kl-K~Aelw 277 (298)
++++|.| ||.|.+|+.+|++.|.+++||+++.++..++++.|..+ +.+-.+++.|+.. +.+.+.
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~~~ 214 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIEETGFEASVR 214 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHHhhcccceee
Confidence 7899999 99999999999999999999999999999999999864 6889999999886 555443
No 11
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=96.10 E-value=0.017 Score=61.25 Aligned_cols=63 Identities=22% Similarity=0.399 Sum_probs=50.4
Q ss_pred ceEEEEEE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEecC-CHHHHHHHHHhh-cCee
Q 022356 213 NQVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGDV-TPLSVLASISKV-KNAQ 275 (298)
Q Consensus 213 mqtVvLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~v-dp~eLlkaL~Kl-K~Ae 275 (298)
.+.+.|.| +|+|.+|+.+|+++|..++||..+.+++..+++.|..+. ..+.+.+.++.. |.+.
T Consensus 52 ~~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy~a~ 117 (741)
T PRK11033 52 GTRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGFSLR 117 (741)
T ss_pred CceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHHhcccccc
Confidence 45677889 999999999999999999999999999999998887432 125566666665 6554
No 12
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=95.98 E-value=0.015 Score=63.11 Aligned_cols=64 Identities=27% Similarity=0.483 Sum_probs=57.6
Q ss_pred EEEEEE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEec---CCHHHHHHHHHhh-cCeeECC
Q 022356 215 VVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGD---VTPLSVLASISKV-KNAQFWP 278 (298)
Q Consensus 215 tVvLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~---vdp~eLlkaL~Kl-K~Aelwp 278 (298)
+..|.| ||+|..|...|++.|+.++||+++.|-+...+.+|..+ ..++.+.+.+++. +.+++.-
T Consensus 70 ~~~l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~~~~~v~~dp~v~s~~~~~e~ie~~gf~a~~i~ 138 (951)
T KOG0207|consen 70 KCYLSVNGMTCASCVATIERNLRKIEGVESAVVALSASKAEVIYDPAVTSPDSIAESIEDLGFSAELIE 138 (951)
T ss_pred eeEEEecCceeHHHHHHHHHHhhccCCcceEEEEeeccceeEEECCcccCchhHHHHHHhcCccceehh
Confidence 778999 99999999999999999999999999999999999854 7889999999987 7777653
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=93.69 E-value=0.83 Score=33.04 Aligned_cols=62 Identities=23% Similarity=0.349 Sum_probs=45.8
Q ss_pred CCCceEEEEEE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEe---cCCHHHHHHHHHhh
Q 022356 210 PPSNQVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVG---DVTPLSVLASISKV 271 (298)
Q Consensus 210 ~~~mqtVvLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G---~vdp~eLlkaL~Kl 271 (298)
++...++.+.+ +|.|..|...++..+...+||..+.+++....+.+.. ..+...+...+...
T Consensus 19 ~~~~~~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (92)
T TIGR02052 19 WAATQTVTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDA 84 (92)
T ss_pred hhcceEEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhc
Confidence 34444566778 9999999999999999999998888998888866652 23555554444443
No 14
>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=81.25 E-value=8 Score=22.10 Aligned_cols=39 Identities=36% Similarity=0.667 Sum_probs=31.9
Q ss_pred EE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEe
Q 022356 219 RV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVG 257 (298)
Q Consensus 219 kV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G 257 (298)
.+ +|.|..|...++..+....|+....+++....+.+..
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 42 (63)
T cd00371 3 SVEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEY 42 (63)
T ss_pred eECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEE
Confidence 35 8899999999999998899988777887777766654
No 15
>PRK13748 putative mercuric reductase; Provisional
Probab=78.04 E-value=9.5 Score=38.46 Aligned_cols=60 Identities=18% Similarity=0.482 Sum_probs=45.7
Q ss_pred EEEE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEe--cCCHHHHHHHHHhh-cCeeE
Q 022356 217 VLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVG--DVTPLSVLASISKV-KNAQF 276 (298)
Q Consensus 217 vLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G--~vdp~eLlkaL~Kl-K~Ael 276 (298)
.+.+ +|+|..|..+++..+..++|+....+++..+.+.+.. ..+...+...+... +.++.
T Consensus 3 ~i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~ 66 (561)
T PRK13748 3 TLKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATL 66 (561)
T ss_pred EEEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeec
Confidence 4667 9999999999999999999999999999999877763 24555565555544 44433
No 16
>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=72.55 E-value=5.7 Score=29.53 Aligned_cols=33 Identities=24% Similarity=0.478 Sum_probs=22.6
Q ss_pred eEEEEEEeecchhhH------HHHHHHhhccCCcceeEE
Q 022356 214 QVVVLRVSLHCKGCE------GKVRKHLSRMKGVSSFNI 246 (298)
Q Consensus 214 qtVvLkVgM~C~gCa------~KIeKAL~kIeGVesV~V 246 (298)
.++.|.+.+...+|. ..|+++|..++||.+|.|
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 456666655555554 788999999999999876
No 17
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=67.94 E-value=16 Score=32.88 Aligned_cols=54 Identities=22% Similarity=0.356 Sum_probs=42.3
Q ss_pred ceEEEEEEeecchhhHHHHHHHhhccCCcceeEEecCCCE-------------------EEEEec---CCHHHHHHHHHh
Q 022356 213 NQVVVLRVSLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKK-------------------VTVVGD---VTPLSVLASISK 270 (298)
Q Consensus 213 mqtVvLkVgM~C~gCa~KIeKAL~kIeGVesV~VDl~skk-------------------VtV~G~---vdp~eLlkaL~K 270 (298)
+++++|. +||=+-++..+.+++||.++.+-+..+. |.|+.+ ++-++|++..-.
T Consensus 3 ~~~a~fa-----gGCFWg~E~~f~~~~GV~~t~vGYagG~~~~PtY~~Vcsg~tgh~E~V~V~yDp~~isy~~Ll~~f~~ 77 (172)
T PRK14054 3 METAVLA-----GGCFWGMEAPFDRVKGVISTRVGYTGGHVENPTYEQVCSGTTGHAEAVEITYDPAVISYRELLELFFQ 77 (172)
T ss_pred ceEEEEE-----cCChhhhHHHHccCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCCcCCHHHHHHHHHH
Confidence 4566664 7899999999999999999999998775 666653 677888876655
Q ss_pred h
Q 022356 271 V 271 (298)
Q Consensus 271 l 271 (298)
.
T Consensus 78 ~ 78 (172)
T PRK14054 78 I 78 (172)
T ss_pred h
Confidence 4
No 18
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=62.38 E-value=41 Score=28.05 Aligned_cols=58 Identities=26% Similarity=0.332 Sum_probs=38.4
Q ss_pred eEEEEEE-eecchhhHHHHHHHhhccCCcceeEE-----ecCC--CEEEEEec-CCHHHHHHHHHhh
Q 022356 214 QVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNI-----DFAA--KKVTVVGD-VTPLSVLASISKV 271 (298)
Q Consensus 214 qtVvLkV-gM~C~gCa~KIeKAL~kIeGVesV~V-----Dl~s--kkVtV~G~-vdp~eLlkaL~Kl 271 (298)
..++|.| .-+-+--.-.+-+.|.+++||+-|.+ |.++ =+++|+|. .+.++|.+.|++.
T Consensus 6 RRlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~ 72 (97)
T COG1888 6 RRLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEEL 72 (97)
T ss_pred eeeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHc
Confidence 4456666 22223334456677888898887654 3333 45667774 9999999999986
No 19
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=56.67 E-value=32 Score=30.56 Aligned_cols=53 Identities=19% Similarity=0.250 Sum_probs=39.4
Q ss_pred eEEEEEEeecchhhHHHHHHHhhccCCcceeEEecCCCE--------------EEEEec---CCHHHHHHHHHhh
Q 022356 214 QVVVLRVSLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKK--------------VTVVGD---VTPLSVLASISKV 271 (298)
Q Consensus 214 qtVvLkVgM~C~gCa~KIeKAL~kIeGVesV~VDl~skk--------------VtV~G~---vdp~eLlkaL~Kl 271 (298)
++++|. +||=+-++..+.+++||.++.|-+..+. |.|+.+ ++-++|++..-..
T Consensus 2 ~~a~fa-----gGCFWg~E~~f~~l~GV~~t~vGYagG~~~~p~~~~tgH~E~V~V~yDp~~isy~~LL~~f~~~ 71 (156)
T PRK05528 2 ETVYFA-----GGCLWGVQAFFKTLPGVIHTEAGRANGRTSTLDGPYDGYAECVKTHFDPRMVSITDLMGYLFEI 71 (156)
T ss_pred CEEEEe-----cCCchhhHHHHhcCCCEEEEEEEcCCCCCCCCCCCCCCcEEEEEEEECCCcCCHHHHHHHHHHh
Confidence 455554 7899999999999999999999886644 444443 6778887766553
No 20
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=54.82 E-value=20 Score=29.78 Aligned_cols=58 Identities=29% Similarity=0.423 Sum_probs=39.0
Q ss_pred ceEEEEEE-eecchhhHHHHHHHhhccCCcceeEE-----ecCCC--EEEEEec-CCHHHHHHHHHhh
Q 022356 213 NQVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNI-----DFAAK--KVTVVGD-VTPLSVLASISKV 271 (298)
Q Consensus 213 mqtVvLkV-gM~C~gCa~KIeKAL~kIeGVesV~V-----Dl~sk--kVtV~G~-vdp~eLlkaL~Kl 271 (298)
...++|.| --| +--.-.+-++|.+++||..|.+ |..+. +++|+|. ++.++|.++|++.
T Consensus 4 irRlVLDVlKP~-~p~i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~ 70 (95)
T PF02680_consen 4 IRRLVLDVLKPH-EPSIVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEEL 70 (95)
T ss_dssp EEEEEEEEEEES-SS-HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHT
T ss_pred eeEEEEEeecCC-CCCHHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHc
Confidence 34567777 233 3344577889999999987764 33443 3556685 9999999999986
No 21
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=52.74 E-value=48 Score=30.31 Aligned_cols=56 Identities=18% Similarity=0.216 Sum_probs=43.1
Q ss_pred CCceEEEEEEeecchhhHHHHHHHhhccCCcceeEEecCCCE-------------------EEEEec---CCHHHHHHHH
Q 022356 211 PSNQVVVLRVSLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKK-------------------VTVVGD---VTPLSVLASI 268 (298)
Q Consensus 211 ~~mqtVvLkVgM~C~gCa~KIeKAL~kIeGVesV~VDl~skk-------------------VtV~G~---vdp~eLlkaL 268 (298)
..+++++|- +||-+-++....+++||.++.|-+..+. |.|+.+ ++-++|++..
T Consensus 6 ~~~~~a~~a-----gGCFWg~E~~f~~l~GV~~t~vGYagG~~~nPtY~~Vcsg~tgH~E~V~V~yDp~~iSy~~LL~~F 80 (186)
T PRK13014 6 DGMETATFA-----GGCFWGVEGVFQHVPGVVSVVSGYSGGHVDNPTYEQVCTGTTGHAEAVQITYDPKQVSYENLLQIF 80 (186)
T ss_pred CCccEEEEe-----cCCceeeHHHHccCCCEEEEEeeecCCCCCCCChhhhcCCCCCceEEEEEEECCCcCCHHHHHHHH
Confidence 446677775 7888899999999999999999988775 555543 6778888776
Q ss_pred Hhh
Q 022356 269 SKV 271 (298)
Q Consensus 269 ~Kl 271 (298)
-..
T Consensus 81 f~~ 83 (186)
T PRK13014 81 FST 83 (186)
T ss_pred HHh
Confidence 553
No 22
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=48.34 E-value=82 Score=29.49 Aligned_cols=55 Identities=20% Similarity=0.248 Sum_probs=42.7
Q ss_pred CceEEEEEEeecchhhHHHHHHHhhccCCcceeEEecCCCE-------------------EEEEec---CCHHHHHHHHH
Q 022356 212 SNQVVVLRVSLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKK-------------------VTVVGD---VTPLSVLASIS 269 (298)
Q Consensus 212 ~mqtVvLkVgM~C~gCa~KIeKAL~kIeGVesV~VDl~skk-------------------VtV~G~---vdp~eLlkaL~ 269 (298)
.+.+++|- +||-+-++..+.+++||.++.|-+..+. |.|+.+ ++-++|++..-
T Consensus 44 ~~~~a~fa-----gGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~VcsG~tgH~EaV~V~YDp~~ISy~~LL~~Ff 118 (213)
T PRK00058 44 GMEQAIFG-----MGCFWGAERLFWQLPGVYSTAVGYAGGYTPNPTYREVCSGRTGHAEVVRVVYDPAVISYEQLLQVFW 118 (213)
T ss_pred CccEEEEE-----ccCcchhHHHHhcCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHHH
Confidence 46777775 7899999999999999999999988552 455543 67788888776
Q ss_pred hh
Q 022356 270 KV 271 (298)
Q Consensus 270 Kl 271 (298)
..
T Consensus 119 ~~ 120 (213)
T PRK00058 119 EN 120 (213)
T ss_pred Hh
Confidence 54
No 23
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=48.00 E-value=48 Score=24.81 Aligned_cols=13 Identities=23% Similarity=0.485 Sum_probs=9.3
Q ss_pred EEEEEeecchhhHH
Q 022356 216 VVLRVSLHCKGCEG 229 (298)
Q Consensus 216 VvLkVgM~C~gCa~ 229 (298)
+.+ ++-.|..|..
T Consensus 3 I~v-~~~~C~~C~~ 15 (76)
T PF13192_consen 3 IKV-FSPGCPYCPE 15 (76)
T ss_dssp EEE-ECSSCTTHHH
T ss_pred EEE-eCCCCCCcHH
Confidence 444 5777999993
No 24
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=44.89 E-value=73 Score=25.70 Aligned_cols=45 Identities=16% Similarity=0.161 Sum_probs=32.1
Q ss_pred hhHHHHHHHhhccCCcceeEEecCCCEEEEEe-cCCHHHHHHHHHh
Q 022356 226 GCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVG-DVTPLSVLASISK 270 (298)
Q Consensus 226 gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G-~vdp~eLlkaL~K 270 (298)
.=...|.++|..++|++=...|.+.|++.|+- ..+...+.+.|..
T Consensus 17 e~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~~ 62 (87)
T PRK10553 17 ERISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIES 62 (87)
T ss_pred HHHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHHH
Confidence 44678999999999997776778888888763 2344555555544
No 25
>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=40.84 E-value=24 Score=25.25 Aligned_cols=41 Identities=20% Similarity=0.283 Sum_probs=21.6
Q ss_pred HHHHHHhhc---cCCcceeEEecCCCEEEEEecCCHHHHHHHHHh
Q 022356 229 GKVRKHLSR---MKGVSSFNIDFAAKKVTVVGDVTPLSVLASISK 270 (298)
Q Consensus 229 ~KIeKAL~k---IeGVesV~VDl~skkVtV~G~vdp~eLlkaL~K 270 (298)
.+|+.+|.. +++- ++.|....+.|++.|.++-.+..+++..
T Consensus 2 ~~v~~~L~~~~~~~~~-~i~v~v~~g~v~L~G~v~s~~~~~~a~~ 45 (64)
T PF04972_consen 2 TKVRAALRADPWLPDS-NISVSVENGVVTLSGEVPSQEQRDAAER 45 (64)
T ss_dssp -----------CTT-T-TEEEEEECTEEEEEEEESSCHHHHHHHH
T ss_pred cccccccccccccCCC-eEEEEEECCEEEEEeeCcHHHHHHhHHh
Confidence 467777776 4444 6788889999999998754444444443
No 26
>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=40.61 E-value=35 Score=30.68 Aligned_cols=34 Identities=18% Similarity=0.429 Sum_probs=24.2
Q ss_pred EEEEEEeecchhhH------HHHHHHhhccCCcceeEEec
Q 022356 215 VVVLRVSLHCKGCE------GKVRKHLSRMKGVSSFNIDF 248 (298)
Q Consensus 215 tVvLkVgM~C~gCa------~KIeKAL~kIeGVesV~VDl 248 (298)
++.+.+.+...+|. ..|+.+|..++||.+|.|++
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 45555555544443 45899999999999998865
No 27
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=39.49 E-value=65 Score=28.62 Aligned_cols=42 Identities=21% Similarity=0.382 Sum_probs=34.0
Q ss_pred ceEEEEEE-eecchhhHHHHHHHhhccCCcceeEEecC-CCEEEE
Q 022356 213 NQVVVLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFA-AKKVTV 255 (298)
Q Consensus 213 mqtVvLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~-skkVtV 255 (298)
-..+++.| --.|..|..-|.....++ |+.++.|-.. ++++.+
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 35678888 678999999998888776 8999999887 776654
No 28
>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=38.57 E-value=43 Score=26.37 Aligned_cols=21 Identities=24% Similarity=0.551 Sum_probs=17.5
Q ss_pred HHHHHHhhccCCcceeEEecC
Q 022356 229 GKVRKHLSRMKGVSSFNIDFA 249 (298)
Q Consensus 229 ~KIeKAL~kIeGVesV~VDl~ 249 (298)
..|+.+|..++||++|.|++.
T Consensus 58 ~~i~~al~~l~gv~~v~v~i~ 78 (99)
T TIGR02945 58 GEVENAVRAVPGVGSVTVELV 78 (99)
T ss_pred HHHHHHHHhCCCCceEEEEEE
Confidence 457888989999999998764
No 29
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=36.25 E-value=84 Score=30.58 Aligned_cols=55 Identities=18% Similarity=0.244 Sum_probs=41.4
Q ss_pred CCceEEEEEEeecchhhHHHHHHHhhccCCcceeEEecCCCE-------------------EEEEec---CCHHHHHHHH
Q 022356 211 PSNQVVVLRVSLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKK-------------------VTVVGD---VTPLSVLASI 268 (298)
Q Consensus 211 ~~mqtVvLkVgM~C~gCa~KIeKAL~kIeGVesV~VDl~skk-------------------VtV~G~---vdp~eLlkaL 268 (298)
..+++++|- +||=+-++..+.+++||.++.|-+..+. |.|+.+ ++.++|++..
T Consensus 125 ~~~~~~~fa-----gGCFWg~E~~F~~~~GV~~t~vGYagG~~~nPtY~~VcsG~tgH~EaV~V~yDp~~isy~~LL~~F 199 (283)
T PRK05550 125 YDTEEAIFA-----GGCFWGVEYYFKKLPGVLSVESGYTGGDTKNPTYEQVCSGTTGHAEAVRVEFDPAKISYETLLKVF 199 (283)
T ss_pred ccceEEEEe-----cCCchhhhhhHhhCcCEEEEEEeeCCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHH
Confidence 446677774 7899999999999999999999887664 445543 6677777766
Q ss_pred Hh
Q 022356 269 SK 270 (298)
Q Consensus 269 ~K 270 (298)
-.
T Consensus 200 ~~ 201 (283)
T PRK05550 200 FE 201 (283)
T ss_pred Hh
Confidence 44
No 30
>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=35.23 E-value=1.1e+02 Score=24.36 Aligned_cols=52 Identities=17% Similarity=0.201 Sum_probs=39.3
Q ss_pred hhhHHHHHHHhhccCCcceeEEecCCCEEEEE----ecCCHHHHHHHHHhhcCeeEC
Q 022356 225 KGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVV----GDVTPLSVLASISKVKNAQFW 277 (298)
Q Consensus 225 ~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~----G~vdp~eLlkaL~KlK~Aelw 277 (298)
.-|...|+..-..|. +.+|+..+..++++|- +.+|.-.|++.|.+.+++.||
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 456666666655554 5588888899999996 348999999999998666665
No 31
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=32.75 E-value=65 Score=27.21 Aligned_cols=33 Identities=24% Similarity=0.615 Sum_probs=24.1
Q ss_pred EEEEEeecchhh------HHHHHHHhhccCCcceeEEec
Q 022356 216 VVLRVSLHCKGC------EGKVRKHLSRMKGVSSFNIDF 248 (298)
Q Consensus 216 VvLkVgM~C~gC------a~KIeKAL~kIeGVesV~VDl 248 (298)
+.+.+.++-.+| ...|+.+|..++||++|+|++
T Consensus 51 v~v~mtlT~~gCP~~~~i~~~v~~al~~~~~v~~v~V~l 89 (111)
T COG2151 51 VKVKMTLTSPGCPLAEVIADQVEAALEEIPGVEDVEVEL 89 (111)
T ss_pred EEEEEecCCCCCCccHHHHHHHHHHHHhcCCcceEEEEE
Confidence 344444444555 678999999999999998864
No 32
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=32.42 E-value=1.8e+02 Score=21.78 Aligned_cols=58 Identities=10% Similarity=0.088 Sum_probs=40.5
Q ss_pred eEEEEEE-eecchhhHHHHHHHhhccCC-cceeEEecCCCEEEEE----ec-CCHHHHHHHHHhh
Q 022356 214 QVVVLRV-SLHCKGCEGKVRKHLSRMKG-VSSFNIDFAAKKVTVV----GD-VTPLSVLASISKV 271 (298)
Q Consensus 214 qtVvLkV-gM~C~gCa~KIeKAL~kIeG-VesV~VDl~skkVtV~----G~-vdp~eLlkaL~Kl 271 (298)
+.+++.| |.+..|-...|.++|.+..+ |.++....-.+..+.. +. .+.++|.++|.++
T Consensus 1 ~~~vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~~~~~~~l~~~L~~l 65 (76)
T PF13740_consen 1 EQLVITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIPEDSLERLESALEEL 65 (76)
T ss_dssp EEEEEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEESHHHHHHHHHHHHHH
T ss_pred CEEEEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeCcccHHHHHHHHHHH
Confidence 3577888 99999999999999998875 7777777777776543 32 2456677777664
No 33
>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=31.17 E-value=1.6e+02 Score=22.95 Aligned_cols=45 Identities=18% Similarity=0.169 Sum_probs=31.0
Q ss_pred hhHHHHHHHhhccCCcceeEEecCCCEEEEEe-cCCHHHHHHHHHhh
Q 022356 226 GCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVG-DVTPLSVLASISKV 271 (298)
Q Consensus 226 gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G-~vdp~eLlkaL~Kl 271 (298)
.=...|.++|..++||+=...+-. |++.|+- ..+...+.+.+..+
T Consensus 15 ~~~~~v~~~l~~~~gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~~i 60 (79)
T PF03927_consen 15 ERLEEVAEALAAIPGVEVHAVDED-GKIVVTIEAESSEEEVDLIDAI 60 (79)
T ss_dssp CCHHHHHHHHCCSTTEEEEEEETT-TEEEEEEEESSHHHHHHHHHHH
T ss_pred hhHHHHHHHHHcCCCcEEEeeCCC-CeEEEEEEeCChHHHHHHHHHH
Confidence 345689999999999965556666 7777763 34556666666654
No 34
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=29.48 E-value=56 Score=29.81 Aligned_cols=37 Identities=19% Similarity=0.229 Sum_probs=31.3
Q ss_pred CCceEEEEEEeecchhhHHHHHHHhhccCCcceeEEecCCCE
Q 022356 211 PSNQVVVLRVSLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKK 252 (298)
Q Consensus 211 ~~mqtVvLkVgM~C~gCa~KIeKAL~kIeGVesV~VDl~skk 252 (298)
..|+++.|. +||=+-+++...+++||.++.+-+..|.
T Consensus 4 ~~~~~a~fa-----gGCFWg~E~~f~~i~GV~~t~~GYagG~ 40 (174)
T COG0225 4 AGMEKAYFA-----GGCFWGVEAYFEQIPGVLSTVSGYAGGH 40 (174)
T ss_pred CCcEEEEEe-----ccCccchHHHHhhCCCeEEEeeeEcCCC
Confidence 456777775 7899999999999999999999887664
No 35
>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=27.73 E-value=1.1e+02 Score=22.43 Aligned_cols=46 Identities=17% Similarity=0.121 Sum_probs=32.3
Q ss_pred EEEE-eecchhhHHHHHHHhhccCCcceeEEecCCCEEEEEec--CCHHHHHHHHHhh
Q 022356 217 VLRV-SLHCKGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGD--VTPLSVLASISKV 271 (298)
Q Consensus 217 vLkV-gM~C~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~--vdp~eLlkaL~Kl 271 (298)
+|.+ |+.|+...-++.++|.+++.= ..+.|..+ .....|...+++.
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~G---------~~l~v~~d~~~~~~di~~~~~~~ 50 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPPG---------EVLEVLVDDPAAVEDIPRWCEEN 50 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGTT----------EEEEEESSTTHHHHHHHHHHHH
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCCC---------CEEEEEECCccHHHHHHHHHHHC
Confidence 5677 999999999999999997522 33444433 4557788888775
No 36
>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=26.58 E-value=1.7e+02 Score=25.21 Aligned_cols=46 Identities=11% Similarity=0.227 Sum_probs=34.4
Q ss_pred hhhHHHHHHHhhccCCcceeEEecCCCEEEEEec-----CCHHHHHHHHHh
Q 022356 225 KGCEGKVRKHLSRMKGVSSFNIDFAAKKVTVVGD-----VTPLSVLASISK 270 (298)
Q Consensus 225 ~gCa~KIeKAL~kIeGVesV~VDl~skkVtV~G~-----vdp~eLlkaL~K 270 (298)
..=+..|.+.+.+++||+++.|=.....+.|--. ...++|.+.|++
T Consensus 74 ~~~a~~i~~~v~~~~~V~~A~vvv~~~~a~Vav~~~~~~~~~~~i~~~V~~ 124 (177)
T PF09580_consen 74 QQLADRIANRVKKVPGVEDATVVVTDDNAYVAVDLDFNRFNTKKIKKKVEK 124 (177)
T ss_pred HHHHHHHHHHHhcCCCceEEEEEEECCEEEEEEEecccccchhHHHHHHHH
Confidence 5678899999999999999999888888887532 334455555544
No 37
>PF14492 EFG_II: Elongation Factor G, domain II; PDB: 1WDT_A 2DY1_A 2XEX_A 1ELO_A 2XSY_Y 2WRK_Y 1DAR_A 2WRI_Y 2XUY_Y 3J0E_H ....
Probab=25.86 E-value=1.8e+02 Score=22.09 Aligned_cols=51 Identities=14% Similarity=0.214 Sum_probs=38.1
Q ss_pred hhhHHHHHHHhhcc----CCcceeEEecCCCEEEEE--ecCCHHHHHHHHHhhcCeeE
Q 022356 225 KGCEGKVRKHLSRM----KGVSSFNIDFAAKKVTVV--GDVTPLSVLASISKVKNAQF 276 (298)
Q Consensus 225 ~gCa~KIeKAL~kI----eGVesV~VDl~skkVtV~--G~vdp~eLlkaL~KlK~Ael 276 (298)
.+=..++..+|.++ +++ .+..|-.++++.|. |.+..+.+++.|++.|++++
T Consensus 15 ~~d~~kl~~aL~~l~~eDP~l-~~~~d~et~e~~l~g~Gelhlev~~~~L~~~~~v~v 71 (75)
T PF14492_consen 15 KEDEPKLSEALQKLSEEDPSL-RVERDEETGELILSGMGELHLEVLLERLKRRFGVEV 71 (75)
T ss_dssp HHHHHHHHHHHHHHHHH-TTS-EEEEETTTSEEEEEESSHHHHHHHHHHHHHTTCEBE
T ss_pred HhHHHHHHHHHHHHHhcCCeE-EEEEcchhceEEEEECCHHHHHHHHHHHHHHHCCee
Confidence 34455666777655 344 88899999999998 56888999999998776654
No 38
>COG5041 SKB2 Casein kinase II, beta subunit [Signal transduction mechanisms / Cell division and chromosome partitioning / Transcription]
Probab=24.92 E-value=34 Score=32.45 Aligned_cols=31 Identities=35% Similarity=0.404 Sum_probs=25.0
Q ss_pred ccccccccC---CC--CccCCCCCcccccCCCccccc
Q 022356 136 DIKKKSCAQ---LG--DFITPPGSSRYLLSDAGFIDG 167 (298)
Q Consensus 136 ~~~rks~a~---~~--d~~tppgSsRyLL~d~~~i~g 167 (298)
||..+++++ |. ||++ |.||||++-|.+|+--
T Consensus 141 Di~g~~~vkLyCpsC~dlY~-p~Ssr~~~iDGa~fGt 176 (242)
T COG5041 141 DIPGKSSVKLYCPSCEDLYL-PKSSRHQSIDGAFFGT 176 (242)
T ss_pred cCCCCceeEEecCchhhhcC-cccccccccccchhcc
Confidence 488888887 44 9999 7899999999877643
No 39
>PRK11023 outer membrane lipoprotein; Provisional
Probab=24.52 E-value=1.4e+02 Score=26.68 Aligned_cols=48 Identities=17% Similarity=0.176 Sum_probs=35.6
Q ss_pred chhhHHHHHHHhhccCCcc---eeEEecCCCEEEEEecCCHHHHHHHHHhh
Q 022356 224 CKGCEGKVRKHLSRMKGVS---SFNIDFAAKKVTVVGDVTPLSVLASISKV 271 (298)
Q Consensus 224 C~gCa~KIeKAL~kIeGVe---sV~VDl~skkVtV~G~vdp~eLlkaL~Kl 271 (298)
-..=+.+|+.+|..-+++. .+.|....+.|++.|.++.++......++
T Consensus 47 D~~i~~~V~~aL~~~~~l~~~~~I~V~v~~G~V~L~G~V~~~~~k~~A~~i 97 (191)
T PRK11023 47 DGTLELRVNNALSKDEQIKKEARINVTAYQGKVLLTGQSPNAELSERAKQI 97 (191)
T ss_pred hHHHHHHHHHHHhhCcccCcCceEEEEEECCEEEEEEEeCCHHHHHHHHHH
Confidence 3455678888988766663 58888899999999998776665555553
No 40
>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=24.07 E-value=1.8e+02 Score=20.86 Aligned_cols=34 Identities=12% Similarity=0.221 Sum_probs=24.0
Q ss_pred ceEEEEEEeecchh-hHHHHHHHhhccCCcceeEE
Q 022356 213 NQVVVLRVSLHCKG-CEGKVRKHLSRMKGVSSFNI 246 (298)
Q Consensus 213 mqtVvLkVgM~C~g-Ca~KIeKAL~kIeGVesV~V 246 (298)
...+.|.|...=.. --..|-+.|++++||.+|.+
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 34455555433343 77899999999999999875
No 41
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=23.09 E-value=1.5e+02 Score=33.25 Aligned_cols=45 Identities=18% Similarity=0.214 Sum_probs=36.5
Q ss_pred hHHHHHHHhhccCCcceeEEecCCCEEEEE--------ecCCHHHHHHHHHhh
Q 022356 227 CEGKVRKHLSRMKGVSSFNIDFAAKKVTVV--------GDVTPLSVLASISKV 271 (298)
Q Consensus 227 Ca~KIeKAL~kIeGVesV~VDl~skkVtV~--------G~vdp~eLlkaL~Kl 271 (298)
=+..|+..|+.++||.+|++.-...++.|. ..++..+|.++|+..
T Consensus 158 ~~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~~v~~al~~~ 210 (1037)
T PRK10555 158 VASNIQDPLSRVNGVGDIDAYGSQYSMRIWLDPAKLNSFQMTTKDVTDAIESQ 210 (1037)
T ss_pred HHHHHHHHhhcCCCeEEEEEcCCceEEEEEECHHHHHHcCCCHHHHHHHHHHh
Confidence 457799999999999999998766667775 247889999999864
No 42
>PRK09577 multidrug efflux protein; Reviewed
Probab=22.99 E-value=1.5e+02 Score=33.13 Aligned_cols=44 Identities=16% Similarity=0.166 Sum_probs=36.3
Q ss_pred HHHHHHHhhccCCcceeEEecCCCEEEEE--------ecCCHHHHHHHHHhh
Q 022356 228 EGKVRKHLSRMKGVSSFNIDFAAKKVTVV--------GDVTPLSVLASISKV 271 (298)
Q Consensus 228 a~KIeKAL~kIeGVesV~VDl~skkVtV~--------G~vdp~eLlkaL~Kl 271 (298)
+..|+..|++++||.+|+++-...++.|. ..++..+|.++|+..
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 46899999999999999998876677774 247889999999864
No 43
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=22.51 E-value=1.8e+02 Score=25.05 Aligned_cols=45 Identities=22% Similarity=0.347 Sum_probs=30.7
Q ss_pred hhHHHHHHHhhccC-CcceeEEecCCCEEEEEecCCHHHHHHHHHh
Q 022356 226 GCEGKVRKHLSRMK-GVSSFNIDFAAKKVTVVGDVTPLSVLASISK 270 (298)
Q Consensus 226 gCa~KIeKAL~kIe-GVesV~VDl~skkVtV~G~vdp~eLlkaL~K 270 (298)
.=...|.++|.+.. ++..+.|...++.|++.|.+.-....+++..
T Consensus 26 ~~~~~i~~~i~~~~~~~~~i~V~v~~G~v~l~G~v~s~~~~~~~~~ 71 (147)
T PRK11198 26 DAADALKEHISKQGLGDADVNVQVEDGKATVSGDAASQEAKEKILL 71 (147)
T ss_pred HHHHHHHHHHHhcCCCcCCceEEEeCCEEEEEEEeCCHHHHHHHHH
Confidence 34566777776532 4556777788999999998766555555554
No 44
>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=21.45 E-value=1.1e+02 Score=26.97 Aligned_cols=47 Identities=23% Similarity=0.318 Sum_probs=35.2
Q ss_pred hhhHHHHHHHhhccCCcceeEEecCCC-------------------EEEEEe---cCCHHHHHHHHHhh
Q 022356 225 KGCEGKVRKHLSRMKGVSSFNIDFAAK-------------------KVTVVG---DVTPLSVLASISKV 271 (298)
Q Consensus 225 ~gCa~KIeKAL~kIeGVesV~VDl~sk-------------------kVtV~G---~vdp~eLlkaL~Kl 271 (298)
+||=+.++..+.+++||.++.|-+..+ -|.|+. .++-++|++..-..
T Consensus 7 ~GCFW~~e~~f~~~~GV~~t~vGYagG~~~~PtY~~v~~g~tgh~E~V~V~yD~~~is~~~Ll~~f~~~ 75 (155)
T PF01625_consen 7 GGCFWGVEAAFRRLPGVISTRVGYAGGTTPNPTYRQVCSGRTGHAEAVRVTYDPSVISYEELLDVFFRI 75 (155)
T ss_dssp ESSHHHHHHHHHTSTTEEEEEEEEESSSSSS--HHHHHTTTTT-EEEEEEEEETTTS-HHHHHHHHHHH
T ss_pred cCCCeEhHHHHhhCCCEEEEEecccCCCCCCCcceeeecCCCCCeEEEEEEECCCcccHHHHHHHHHHh
Confidence 688999999999999999999988665 234443 36778887776553
No 45
>TIGR00915 2A0602 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=20.44 E-value=1.9e+02 Score=32.54 Aligned_cols=44 Identities=18% Similarity=0.291 Sum_probs=36.5
Q ss_pred hHHHHHHHhhccCCcceeEEecCCCEEEEE--------ecCCHHHHHHHHHh
Q 022356 227 CEGKVRKHLSRMKGVSSFNIDFAAKKVTVV--------GDVTPLSVLASISK 270 (298)
Q Consensus 227 Ca~KIeKAL~kIeGVesV~VDl~skkVtV~--------G~vdp~eLlkaL~K 270 (298)
=+..|+..|++++||.+|++.-...++.|. ..+++.+|.++|+.
T Consensus 158 ~~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~dV~~~i~~ 209 (1044)
T TIGR00915 158 IASNMVDPISRLEGVGDVQLFGSQYAMRIWLDPAKLNSYQLTPADVISAIQA 209 (1044)
T ss_pred HHHHHHHHHhCCCCceEEEecCCceEEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 346799999999999999998876667776 24889999999986
Done!