Query 031931
Match_columns 150
No_of_seqs 278 out of 1550
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 07:20:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031931.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031931hhsearch_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 99.5 1.9E-13 4.2E-18 84.0 8.3 58 30-87 1-62 (62)
2 COG2608 CopZ Copper chaperone 99.4 4.7E-12 1E-16 80.3 9.1 66 26-91 1-70 (71)
3 KOG1603 Copper chaperone [Inor 99.3 1.7E-11 3.7E-16 78.1 8.7 68 25-92 3-71 (73)
4 KOG4656 Copper chaperone for s 98.9 8E-09 1.7E-13 77.1 8.0 67 26-92 6-72 (247)
5 PLN02957 copper, zinc superoxi 98.5 2E-06 4.3E-11 66.5 10.5 70 26-95 5-74 (238)
6 PRK10671 copA copper exporting 98.4 9.5E-07 2.1E-11 79.0 8.2 64 27-92 3-67 (834)
7 COG2217 ZntA Cation transport 98.2 6.6E-06 1.4E-10 72.3 7.8 63 27-90 2-69 (713)
8 TIGR00003 copper ion binding p 98.0 0.00011 2.4E-09 42.5 8.5 61 27-87 2-66 (68)
9 KOG0207 Cation transport ATPas 97.6 0.00021 4.5E-09 63.7 7.2 67 27-93 146-216 (951)
10 PRK10671 copA copper exporting 97.4 0.00074 1.6E-08 60.7 8.2 64 28-91 100-164 (834)
11 KOG0207 Cation transport ATPas 97.2 0.00097 2.1E-08 59.6 6.1 60 34-93 2-63 (951)
12 PRK11033 zntA zinc/cadmium/mer 97.0 0.0034 7.4E-08 55.9 8.4 66 26-91 52-119 (741)
13 TIGR02052 MerP mercuric transp 95.9 0.21 4.5E-06 31.2 10.4 63 28-90 24-90 (92)
14 COG1888 Uncharacterized protei 92.0 2.3 5.1E-05 28.0 8.0 67 26-92 5-80 (97)
15 PF01206 TusA: Sulfurtransfera 90.2 1.3 2.8E-05 27.1 5.4 54 30-92 2-58 (70)
16 PRK13748 putative mercuric red 89.2 3.4 7.4E-05 35.4 9.0 64 30-93 3-69 (561)
17 cd00371 HMA Heavy-metal-associ 88.4 2.1 4.7E-05 21.7 7.1 54 32-85 3-59 (63)
18 PF02680 DUF211: Uncharacteriz 88.1 5.9 0.00013 26.3 7.7 67 25-92 3-78 (95)
19 PRK11018 hypothetical protein; 84.1 7.2 0.00016 24.6 6.3 54 29-91 9-65 (78)
20 cd03421 SirA_like_N SirA_like_ 81.0 7.4 0.00016 23.5 5.4 52 31-92 2-56 (67)
21 cd03420 SirA_RHOD_Pry_redox Si 79.8 10 0.00023 23.2 5.8 53 31-92 2-57 (69)
22 PRK11198 LysM domain/BON super 75.6 11 0.00024 26.8 5.6 64 4-81 1-69 (147)
23 PRK10553 assembly protein for 74.6 17 0.00037 23.7 5.9 45 38-82 16-61 (87)
24 PF01883 DUF59: Domain of unkn 74.2 7.3 0.00016 23.8 4.0 33 27-59 34-72 (72)
25 cd00291 SirA_YedF_YeeD SirA, Y 72.2 18 0.0004 21.6 5.9 53 31-92 2-57 (69)
26 cd03423 SirA SirA (also known 72.2 20 0.00042 21.9 6.0 53 31-92 2-57 (69)
27 cd03422 YedF YedF is a bacteri 71.0 21 0.00046 21.8 5.8 53 31-92 2-57 (69)
28 PRK00299 sulfur transfer prote 67.0 30 0.00064 21.9 6.7 55 28-91 9-66 (81)
29 PRK14054 methionine sulfoxide 65.9 25 0.00055 25.9 5.8 28 38-65 10-37 (172)
30 PF03927 NapD: NapD protein; 61.2 39 0.00085 21.4 6.4 43 40-83 16-59 (79)
31 PRK11152 ilvM acetolactate syn 56.5 48 0.001 20.9 5.9 53 5-59 15-75 (76)
32 PF14437 MafB19-deam: MafB19-l 56.0 36 0.00079 24.4 5.0 41 26-67 99-141 (146)
33 COG0425 SirA Predicted redox p 53.5 55 0.0012 20.7 6.2 52 28-88 5-60 (78)
34 TIGR03527 selenium_YedF seleni 50.6 55 0.0012 24.5 5.5 50 34-92 5-56 (194)
35 PRK13014 methionine sulfoxide 46.3 65 0.0014 24.0 5.3 36 25-65 7-42 (186)
36 PF09580 Spore_YhcN_YlaJ: Spor 45.3 67 0.0015 23.1 5.2 32 38-69 74-105 (177)
37 PF13732 DUF4162: Domain of un 45.0 73 0.0016 19.6 5.6 43 48-92 26-70 (84)
38 PRK05528 methionine sulfoxide 43.7 33 0.00071 24.9 3.3 27 38-64 8-34 (156)
39 TIGR03406 FeS_long_SufT probab 43.1 37 0.00081 25.0 3.5 20 42-61 134-153 (174)
40 PF08777 RRM_3: RNA binding mo 39.9 1.1E+02 0.0024 20.3 6.3 55 30-84 3-60 (105)
41 PF08712 Nfu_N: Scaffold prote 36.3 1.2E+02 0.0026 19.5 5.6 40 42-83 37-78 (87)
42 COG2151 PaaD Predicted metal-s 35.7 72 0.0016 21.8 3.8 35 27-61 51-89 (111)
43 cd04888 ACT_PheB-BS C-terminal 35.0 1E+02 0.0022 18.3 5.2 34 26-59 40-74 (76)
44 KOG3411 40S ribosomal protein 34.8 37 0.00081 24.0 2.3 44 38-84 97-141 (143)
45 TIGR02945 SUF_assoc FeS assemb 34.0 62 0.0013 21.0 3.2 36 27-62 39-78 (99)
46 PRK00058 methionine sulfoxide 32.5 67 0.0015 24.5 3.6 27 38-64 52-78 (213)
47 PF13291 ACT_4: ACT domain; PD 30.9 1.3E+02 0.0028 18.3 6.0 35 24-58 45-79 (80)
48 PRK07334 threonine dehydratase 30.8 2.9E+02 0.0064 22.8 7.4 63 29-91 327-402 (403)
49 PF04972 BON: BON domain; Int 30.7 38 0.00081 19.8 1.6 29 43-72 3-34 (64)
50 PF08821 CGGC: CGGC domain; I 30.7 1.5E+02 0.0033 19.9 4.7 58 31-90 38-104 (107)
51 COG4004 Uncharacterized protei 29.6 97 0.0021 20.5 3.4 23 48-70 36-58 (96)
52 TIGR00489 aEF-1_beta translati 29.3 1.1E+02 0.0024 19.9 3.7 23 38-60 61-83 (88)
53 COG2092 EFB1 Translation elong 28.2 1.1E+02 0.0024 20.0 3.5 34 27-60 49-83 (88)
54 PRK13562 acetolactate synthase 27.2 1.8E+02 0.0039 18.8 6.5 59 4-62 13-80 (84)
55 COG2761 FrnE Predicted dithiol 26.9 1.6E+02 0.0034 22.7 4.8 38 26-63 3-45 (225)
56 TIGR00401 msrA methionine-S-su 26.9 52 0.0011 23.6 2.0 27 38-64 7-33 (149)
57 PF02672 CP12: CP12 domain; I 26.7 17 0.00036 22.8 -0.5 14 136-149 53-68 (71)
58 PRK11670 antiporter inner memb 26.4 3.2E+02 0.0069 22.4 6.8 58 41-98 67-149 (369)
59 cd02410 archeal_CPSF_KH The ar 25.9 2.5E+02 0.0055 20.1 6.3 58 38-95 52-116 (145)
60 PF01625 PMSR: Peptide methion 25.9 72 0.0016 23.0 2.6 27 38-64 7-33 (155)
61 PRK11023 outer membrane lipopr 25.5 1.6E+02 0.0035 21.7 4.5 44 36-79 46-92 (191)
62 PF13740 ACT_6: ACT domain; PD 25.4 1.7E+02 0.0036 17.8 5.9 55 28-82 2-63 (76)
63 PRK09577 multidrug efflux prot 25.3 2.2E+02 0.0048 26.8 6.3 45 41-85 158-210 (1032)
64 COG0225 MsrA Peptide methionin 24.6 1.1E+02 0.0025 22.6 3.5 35 25-64 5-39 (174)
65 TIGR02898 spore_YhcN_YlaJ spor 24.5 2.8E+02 0.0061 20.1 5.8 31 39-69 54-84 (158)
66 PRK08178 acetolactate synthase 23.4 2.3E+02 0.005 18.8 5.9 54 4-59 19-80 (96)
67 PF13192 Thioredoxin_3: Thiore 23.4 1.1E+02 0.0024 18.6 2.9 10 33-42 6-15 (76)
68 COG3062 NapD Uncharacterized p 23.0 2.4E+02 0.0051 18.7 5.2 45 38-83 17-62 (94)
69 PRK04435 hypothetical protein; 22.8 2.8E+02 0.0061 19.5 5.2 34 26-59 109-143 (147)
70 PRK11023 outer membrane lipopr 22.7 3.2E+02 0.0069 20.1 5.7 38 40-77 128-167 (191)
71 PRK10555 aminoglycoside/multid 22.6 2.5E+02 0.0054 26.5 6.1 43 41-83 159-209 (1037)
72 KOG4730 D-arabinono-1, 4-lacto 21.3 69 0.0015 27.5 2.0 52 34-90 87-138 (518)
73 PHA01634 hypothetical protein 21.2 33 0.00072 24.4 0.1 16 31-46 93-109 (156)
74 PF04459 DUF512: Protein of un 21.2 3.7E+02 0.008 20.3 7.4 50 44-93 115-169 (204)
75 PF01514 YscJ_FliF: Secretory 21.0 1.1E+02 0.0025 22.9 3.0 21 40-60 116-136 (206)
76 PRK00435 ef1B elongation facto 20.3 1.9E+02 0.0041 18.8 3.5 23 38-60 61-83 (88)
77 COG2177 FtsX Cell division pro 20.2 2.9E+02 0.0063 22.1 5.2 47 28-87 62-109 (297)
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=99.50 E-value=1.9e-13 Score=84.05 Aligned_cols=58 Identities=40% Similarity=0.607 Sum_probs=54.0
Q ss_pred EEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec---CCHHHHHHHHHhCCCc
Q 031931 30 ALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGF---VEPKKVLAAAKATKKK 87 (150)
Q Consensus 30 ~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~---~~~~~i~~~i~~~G~~ 87 (150)
+|+| ||+|++|+.+|+++|.+++||.++.+|+.+++++|.+. .++++|.++|+++||+
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy~ 62 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGYE 62 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTSE
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCcC
Confidence 5889 99999999999999999999999999999999999965 4569999999999985
No 2
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.39 E-value=4.7e-12 Score=80.33 Aligned_cols=66 Identities=36% Similarity=0.529 Sum_probs=58.7
Q ss_pred ceEEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEE--e-cCCHHHHHHHHHhCCCceEEc
Q 031931 26 MQTVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVT--G-FVEPKKVLAAAKATKKKVEIW 91 (150)
Q Consensus 26 ~~~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~--~-~~~~~~i~~~i~~~G~~~~~~ 91 (150)
|.+..|+| ||+|.+|+.+|+++|.+++||.++.+++..+++.|+ + .++.++|.++|.++||.+..+
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 35678999 999999999999999999999999999999777766 4 478999999999999987654
No 3
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.32 E-value=1.7e-11 Score=78.10 Aligned_cols=68 Identities=54% Similarity=0.911 Sum_probs=62.1
Q ss_pred CceEEEEEEcCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhCC-CceEEcc
Q 031931 25 QMQTVALKVRMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGFVEPKKVLAAAKATK-KKVEIWP 92 (150)
Q Consensus 25 ~~~~v~l~Vgm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G-~~~~~~~ 92 (150)
.+++.++++.|+|.+|..+|++.|..+.||.++.+|..+++++|.|.+++..|++.|++.| .+..+|.
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 3566788889999999999999999999999999999999999999999999999999888 7777764
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.90 E-value=8e-09 Score=77.09 Aligned_cols=67 Identities=30% Similarity=0.492 Sum_probs=62.7
Q ss_pred ceEEEEEEcCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhCCCceEEcc
Q 031931 26 MQTVALKVRMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGFVEPKKVLAAAKATKKKVEIWP 92 (150)
Q Consensus 26 ~~~v~l~Vgm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~~ 92 (150)
.-+.+|.|.|+|++|+..|++.|..++||.++++|+.++.+.|.+...+.+|..+|+.+|.++.+..
T Consensus 6 ~~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G 72 (247)
T KOG4656|consen 6 TYEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRG 72 (247)
T ss_pred ceeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEec
Confidence 3457899999999999999999999999999999999999999999999999999999999988864
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.48 E-value=2e-06 Score=66.48 Aligned_cols=70 Identities=31% Similarity=0.445 Sum_probs=62.1
Q ss_pred ceEEEEEEcCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhCCCceEEccCCC
Q 031931 26 MQTVALKVRMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGFVEPKKVLAAAKATKKKVEIWPYVP 95 (150)
Q Consensus 26 ~~~v~l~Vgm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~~~~p 95 (150)
.+++.|.++|.|..|+.+|++.|.+++||..+.+++..++++|.......++...|++.||.++++....
T Consensus 5 ~~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~~ 74 (238)
T PLN02957 5 ELLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQGD 74 (238)
T ss_pred cEEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecCCC
Confidence 3556788899999999999999999999999999999999999877788899999999999998886533
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.41 E-value=9.5e-07 Score=79.00 Aligned_cols=64 Identities=20% Similarity=0.409 Sum_probs=57.0
Q ss_pred eEEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhCCCceEEcc
Q 031931 27 QTVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGFVEPKKVLAAAKATKKKVEIWP 92 (150)
Q Consensus 27 ~~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~~ 92 (150)
++++|+| ||+|.+|+.+|+++|.+++||.++.+++. +.+|++..+.+.+.+.+++.||.++...
T Consensus 3 ~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~~~ 67 (834)
T PRK10671 3 QTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASVSH 67 (834)
T ss_pred eEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHHhcCCcccccc
Confidence 5688999 99999999999999999999999999984 5566666788999999999999998754
No 7
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.17 E-value=6.6e-06 Score=72.32 Aligned_cols=63 Identities=25% Similarity=0.507 Sum_probs=56.4
Q ss_pred eEEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec---CC-HHHHHHHHHhCCCceEE
Q 031931 27 QTVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGF---VE-PKKVLAAAKATKKKVEI 90 (150)
Q Consensus 27 ~~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~---~~-~~~i~~~i~~~G~~~~~ 90 (150)
.+..|.| ||+|..|+++|| +|.+++||..+.+|+.++++.|..+ .+ .+++...+++.||.+..
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 4568999 999999999999 9999999999999999999998843 44 68999999999998765
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=97.99 E-value=0.00011 Score=42.52 Aligned_cols=61 Identities=21% Similarity=0.335 Sum_probs=50.5
Q ss_pred eEEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec---CCHHHHHHHHHhCCCc
Q 031931 27 QTVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGF---VEPKKVLAAAKATKKK 87 (150)
Q Consensus 27 ~~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~---~~~~~i~~~i~~~G~~ 87 (150)
.+..+.+ ++.|..|...+++.+....++....+++....+.+... .+...+...+...|+.
T Consensus 2 ~~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 66 (68)
T TIGR00003 2 QKFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGYE 66 (68)
T ss_pred cEEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCCC
Confidence 3457899 99999999999999999999999999999998888742 4666776777777764
No 9
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.60 E-value=0.00021 Score=63.73 Aligned_cols=67 Identities=28% Similarity=0.561 Sum_probs=61.3
Q ss_pred eEEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe---cCCHHHHHHHHHhCCCceEEccC
Q 031931 27 QTVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTG---FVEPKKVLAAAKATKKKVEIWPY 93 (150)
Q Consensus 27 ~~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~---~~~~~~i~~~i~~~G~~~~~~~~ 93 (150)
.++.|.| ||.|..|+.+|++.|.+++||.++++++..+++.|.. ...+.++.+.|..+|+.+...+.
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~~~~~ 216 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATDTAIVVYDPEITGPRDIIKAIEETGFEASVRPY 216 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCCceEEEecccccChHHHHHHHHhhcccceeeec
Confidence 6789999 9999999999999999999999999999999999874 37899999999999998777663
No 10
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.39 E-value=0.00074 Score=60.71 Aligned_cols=64 Identities=23% Similarity=0.441 Sum_probs=56.3
Q ss_pred EEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhCCCceEEc
Q 031931 28 TVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGFVEPKKVLAAAKATKKKVEIW 91 (150)
Q Consensus 28 ~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~ 91 (150)
++.+.+ ||+|..|...+++.+..++||..+.+++..+++.+.+..+.+++.+.+++.||.+.++
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~a~~~ 164 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVEKAGYGAEAI 164 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCCcccc
Confidence 567889 9999999999999999999999999999999888875567888888899999986544
No 11
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.15 E-value=0.00097 Score=59.60 Aligned_cols=60 Identities=18% Similarity=0.390 Sum_probs=55.6
Q ss_pred cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhCCCceEEccC
Q 031931 34 RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGF--VEPKKVLAAAKATKKKVEIWPY 93 (150)
Q Consensus 34 gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G~~~~~~~~ 93 (150)
||.|..|.+.|++++...+||.++.+++.++..+|..+ .+++.+.+.|+..|+++++...
T Consensus 2 gmtc~ac~~si~~~~~~~~g~~~i~vsl~~~~~~v~~~~~~~~~~i~~~ied~gf~~~~~~~ 63 (951)
T KOG0207|consen 2 GMTCSACSNSIEKAISRKPGVQKIEVSLAQKRANVSYDNIVSPESIKETIEDMGFEASLLSD 63 (951)
T ss_pred CccHHHHhhhHHHHHhcCCCceeEEEEeccccceEEEeeccCHHHHHHHhhcccceeeeccc
Confidence 79999999999999999999999999999999998743 7899999999999999998864
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=97.03 E-value=0.0034 Score=55.87 Aligned_cols=66 Identities=24% Similarity=0.300 Sum_probs=53.7
Q ss_pred ceEEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec-CCHHHHHHHHHhCCCceEEc
Q 031931 26 MQTVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGF-VEPKKVLAAAKATKKKVEIW 91 (150)
Q Consensus 26 ~~~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~-~~~~~i~~~i~~~G~~~~~~ 91 (150)
..+..+++ ||+|..|..++++.+.+++||..+.+++..+++.+... ...+++...+++.||.+...
T Consensus 52 ~~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy~a~~~ 119 (741)
T PRK11033 52 GTRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGFSLRDE 119 (741)
T ss_pred CceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHHhcccccccc
Confidence 44677899 99999999999999999999999999999999887632 12266777788889876543
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=95.92 E-value=0.21 Score=31.18 Aligned_cols=63 Identities=25% Similarity=0.352 Sum_probs=46.7
Q ss_pred EEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe---cCCHHHHHHHHHhCCCceEE
Q 031931 28 TVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTG---FVEPKKVLAAAKATKKKVEI 90 (150)
Q Consensus 28 ~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~---~~~~~~i~~~i~~~G~~~~~ 90 (150)
++.+.+ ++.|..|...++..+....++.....+.......+.. ..+...+...+...|+..++
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 90 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGYPSSL 90 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCCeEe
Confidence 456778 9999999999999999999988888887777755542 23555555666677776543
No 14
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=92.01 E-value=2.3 Score=28.00 Aligned_cols=67 Identities=13% Similarity=0.243 Sum_probs=45.4
Q ss_pred ceEEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEe-----c--CCCEEEEEec-CCHHHHHHHHHhCCCceEEcc
Q 031931 26 MQTVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVD-----L--KQQKVTVTGF-VEPKKVLAAAKATKKKVEIWP 92 (150)
Q Consensus 26 ~~~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd-----~--~~~~v~V~~~-~~~~~i~~~i~~~G~~~~~~~ 92 (150)
.+++.|.+ --+-.--.--+-+.|++++||..|++. . .+-+++|.|. .+-++|.+.|++.|..++.+.
T Consensus 5 iRRlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~IHSiD 80 (97)
T COG1888 5 IRRLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAIHSID 80 (97)
T ss_pred ceeeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCeeeehh
Confidence 45566666 334333334566778899998877753 2 3345566665 899999999999998776554
No 15
>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=90.16 E-value=1.3 Score=27.13 Aligned_cols=54 Identities=13% Similarity=0.049 Sum_probs=39.3
Q ss_pred EEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhCCCceEEcc
Q 031931 30 ALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGF--VEPKKVLAAAKATKKKVEIWP 92 (150)
Q Consensus 30 ~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G~~~~~~~ 92 (150)
++.+ |+.|+...-+++++|.+++.- +.+.|..+ ....+|...++..|+.+..+.
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~G---------~~l~v~~d~~~~~~di~~~~~~~g~~~~~~~ 58 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPPG---------EVLEVLVDDPAAVEDIPRWCEENGYEVVEVE 58 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGTT----------EEEEEESSTTHHHHHHHHHHHHTEEEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCCC---------CEEEEEECCccHHHHHHHHHHHCCCEEEEEE
Confidence 5778 999999999999999998442 34444432 456788999999999865553
No 16
>PRK13748 putative mercuric reductase; Provisional
Probab=89.18 E-value=3.4 Score=35.40 Aligned_cols=64 Identities=27% Similarity=0.400 Sum_probs=49.9
Q ss_pred EEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe--cCCHHHHHHHHHhCCCceEEccC
Q 031931 30 ALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTG--FVEPKKVLAAAKATKKKVEIWPY 93 (150)
Q Consensus 30 ~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~--~~~~~~i~~~i~~~G~~~~~~~~ 93 (150)
.+.+ ++.|..|..+++..+...+++....+++......+.. ..+...+...+...|+..+....
T Consensus 3 ~i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~~~~ 69 (561)
T PRK13748 3 TLKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATLADA 69 (561)
T ss_pred EEEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeeccCc
Confidence 4668 9999999999999999999998888888888766653 23556666667778887665554
No 17
>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=88.42 E-value=2.1 Score=21.71 Aligned_cols=54 Identities=37% Similarity=0.605 Sum_probs=36.0
Q ss_pred EE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhCC
Q 031931 32 KV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGF--VEPKKVLAAAKATK 85 (150)
Q Consensus 32 ~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G 85 (150)
.+ ++.|..|...++..+....++.....++......+... .+...+...+...+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 (63)
T cd00371 3 SVEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVEYDPEVSPEELLEAIEDAG 59 (63)
T ss_pred eECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEEECCCCCHHHHHHHHHHcC
Confidence 45 78899999999998888888777777766666555432 24444433444443
No 18
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=88.11 E-value=5.9 Score=26.35 Aligned_cols=67 Identities=13% Similarity=0.258 Sum_probs=44.6
Q ss_pred CceEEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEe-----cCCCEE--EEEec-CCHHHHHHHHHhCCCceEEcc
Q 031931 25 QMQTVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVD-----LKQQKV--TVTGF-VEPKKVLAAAKATKKKVEIWP 92 (150)
Q Consensus 25 ~~~~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd-----~~~~~v--~V~~~-~~~~~i~~~i~~~G~~~~~~~ 92 (150)
+.+++.|.| --+-+.- -.+-+.|.+++||..+++. .....+ +|+|. ++.++|.++|++.|-.++-+.
T Consensus 3 ~irRlVLDVlKP~~p~i-~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~Gg~IHSID 78 (95)
T PF02680_consen 3 GIRRLVLDVLKPHEPSI-VELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGGVIHSID 78 (95)
T ss_dssp SEEEEEEEEEEESSS-H-HHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-EEEEEE
T ss_pred ceeEEEEEeecCCCCCH-HHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCCeEEeee
Confidence 345677777 4444443 4567789999999888764 334444 44565 899999999999997766543
No 19
>PRK11018 hypothetical protein; Provisional
Probab=84.08 E-value=7.2 Score=24.63 Aligned_cols=54 Identities=15% Similarity=0.022 Sum_probs=40.4
Q ss_pred EEEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe--cCCHHHHHHHHHhCCCceEEc
Q 031931 29 VALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTG--FVEPKKVLAAAKATKKKVEIW 91 (150)
Q Consensus 29 v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~--~~~~~~i~~~i~~~G~~~~~~ 91 (150)
.++.+ |+.|+.-.-+.+++|.+++. .+.+.|.. ......|...+++.|+.+...
T Consensus 9 ~~lD~rG~~CP~Pvl~~kk~l~~l~~---------G~~L~V~~d~~~a~~di~~~~~~~G~~v~~~ 65 (78)
T PRK11018 9 YRLDMVGEPCPYPAVATLEALPQLKK---------GEILEVVSDCPQSINNIPLDARNHGYTVLDI 65 (78)
T ss_pred eeEECCCCcCCHHHHHHHHHHHhCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEEE
Confidence 57888 99999999999999998853 23333332 245677888889999987543
No 20
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=80.95 E-value=7.4 Score=23.49 Aligned_cols=52 Identities=17% Similarity=0.172 Sum_probs=36.6
Q ss_pred EEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe--cCCHHHHHHHHHhCCCceEEcc
Q 031931 31 LKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTG--FVEPKKVLAAAKATKKKVEIWP 92 (150)
Q Consensus 31 l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~--~~~~~~i~~~i~~~G~~~~~~~ 92 (150)
+.+ |+.|+.-.-+++++| ++.. .+.+.|.. ......|...+++.|+.+....
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~~---------g~~l~v~~d~~~s~~~i~~~~~~~G~~~~~~~ 56 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELEA---------GGEIEVLVDNEVAKENVSRFAESRGYEVSVEE 56 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcCC---------CCEEEEEEcChhHHHHHHHHHHHcCCEEEEEe
Confidence 456 999999999999999 5533 22334332 2445788888899999885443
No 21
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=79.79 E-value=10 Score=23.15 Aligned_cols=53 Identities=15% Similarity=0.192 Sum_probs=39.1
Q ss_pred EEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe--cCCHHHHHHHHHhCCCceEEcc
Q 031931 31 LKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTG--FVEPKKVLAAAKATKKKVEIWP 92 (150)
Q Consensus 31 l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~--~~~~~~i~~~i~~~G~~~~~~~ 92 (150)
+.+ |+.|+.=.-+.+++|.+++. .+.+.|.. ......|....+..|+......
T Consensus 2 lD~rG~~CP~Pvl~~kkal~~l~~---------G~~l~V~~d~~~a~~di~~~~~~~G~~~~~~~ 57 (69)
T cd03420 2 VDACGLQCPGPILKLKKEIDKLQD---------GEQLEVKASDPGFARDAQAWCKSTGNTLISLE 57 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHHHcCCEEEEEE
Confidence 556 99999999999999998853 23344432 2456788888899999877544
No 22
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=75.60 E-value=11 Score=26.84 Aligned_cols=64 Identities=22% Similarity=0.376 Sum_probs=38.2
Q ss_pred cchHHHHHh----hhhcccccccccCceEEEEEEcCcChhHHHHHHHHHhCC-CCceEEEEecCCCEEEEEecCCHHHHH
Q 031931 4 EGTIEYISD----LLSSVKKKKKKKQMQTVALKVRMDCDGCARKMKGVLSSV-KGAKSVDVDLKQQKVTVTGFVEPKKVL 78 (150)
Q Consensus 4 ~~~~~~~~~----~~~~~~~~~~~~~~~~v~l~Vgm~C~~C~~kI~k~L~~~-~GV~~v~vd~~~~~v~V~~~~~~~~i~ 78 (150)
||+|+|+.+ ||.....+. .-..=...|.++|.+. -+...+++...++.|++.|.+......
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~i~~~i~~~~~~~~~i~V~v~~G~v~l~G~v~s~~~~ 66 (147)
T PRK11198 1 MGLFSFVKEAGEKLFDAVTAQA--------------DNEDAADALKEHISKQGLGDADVNVQVEDGKATVSGDAASQEAK 66 (147)
T ss_pred CcHHHHHHHHHHHhcCCCCccc--------------chHHHHHHHHHHHHhcCCCcCCceEEEeCCEEEEEEEeCCHHHH
Confidence 789999966 444321110 0134456777777653 234456666679999999886544444
Q ss_pred HHH
Q 031931 79 AAA 81 (150)
Q Consensus 79 ~~i 81 (150)
.++
T Consensus 67 ~~~ 69 (147)
T PRK11198 67 EKI 69 (147)
T ss_pred HHH
Confidence 444
No 23
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=74.59 E-value=17 Score=23.68 Aligned_cols=45 Identities=11% Similarity=0.133 Sum_probs=31.6
Q ss_pred hhHHHHHHHHHhCCCCceEEEEecCCCEEEEEe-cCCHHHHHHHHH
Q 031931 38 DGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTG-FVEPKKVLAAAK 82 (150)
Q Consensus 38 ~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~-~~~~~~i~~~i~ 82 (150)
+.=...+.+.|..++|+.-...|...+|+.|+- ..+...+.+.|.
T Consensus 16 Pe~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~ 61 (87)
T PRK10553 16 SERISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIE 61 (87)
T ss_pred hHHHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHH
Confidence 334678999999999998777777788888772 244555555443
No 24
>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=74.21 E-value=7.3 Score=23.83 Aligned_cols=33 Identities=24% Similarity=0.525 Sum_probs=21.0
Q ss_pred eEEEEEEcCcChhH------HHHHHHHHhCCCCceEEEE
Q 031931 27 QTVALKVRMDCDGC------ARKMKGVLSSVKGAKSVDV 59 (150)
Q Consensus 27 ~~v~l~Vgm~C~~C------~~kI~k~L~~~~GV~~v~v 59 (150)
.++.+.+.+..++| ...|+++|..++||.++++
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 34555554444444 4778899999999998875
No 25
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=72.24 E-value=18 Score=21.59 Aligned_cols=53 Identities=23% Similarity=0.108 Sum_probs=38.4
Q ss_pred EEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhCCCceEEcc
Q 031931 31 LKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGF--VEPKKVLAAAKATKKKVEIWP 92 (150)
Q Consensus 31 l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G~~~~~~~ 92 (150)
+.+ |+.|+.=.-++.++|.+++. .+.+.|..+ .....|...++..|+.+....
T Consensus 2 lD~rg~~CP~Pl~~~~~~l~~l~~---------g~~l~v~~d~~~~~~~i~~~~~~~g~~~~~~~ 57 (69)
T cd00291 2 LDLRGLPCPLPVLKTKKALEKLKS---------GEVLEVLLDDPGAVEDIPAWAKETGHEVLEVE 57 (69)
T ss_pred ccccCCcCCHHHHHHHHHHhcCCC---------CCEEEEEecCCcHHHHHHHHHHHcCCEEEEEE
Confidence 456 89999999999999998653 233444332 457788888999999876544
No 26
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=72.17 E-value=20 Score=21.88 Aligned_cols=53 Identities=8% Similarity=0.048 Sum_probs=38.8
Q ss_pred EEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEE--ecCCHHHHHHHHHhCCCceEEcc
Q 031931 31 LKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVT--GFVEPKKVLAAAKATKKKVEIWP 92 (150)
Q Consensus 31 l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~~~ 92 (150)
+.+ |..|+.=.-+++++|.+++- .+.+.|. .......|...+++.|+.+....
T Consensus 2 lD~~G~~CP~P~i~~k~~l~~l~~---------G~~l~V~~dd~~s~~di~~~~~~~g~~~~~~~ 57 (69)
T cd03423 2 LDTRGLRCPEPVMMLHKKVRKMKP---------GDTLLVLATDPSTTRDIPKFCTFLGHELLAQE 57 (69)
T ss_pred ccccCCcCCHHHHHHHHHHHcCCC---------CCEEEEEeCCCchHHHHHHHHHHcCCEEEEEE
Confidence 456 89999999999999998852 2233333 23566788999999999887544
No 27
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=70.97 E-value=21 Score=21.78 Aligned_cols=53 Identities=19% Similarity=0.070 Sum_probs=38.4
Q ss_pred EEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEE--ecCCHHHHHHHHHhCCCceEEcc
Q 031931 31 LKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVT--GFVEPKKVLAAAKATKKKVEIWP 92 (150)
Q Consensus 31 l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~~~ 92 (150)
+.+ |+.|+.=.-+.+++|++++.- +.+.|. .......|...++..|+.+....
T Consensus 2 lD~rG~~CP~Pvi~~kkal~~l~~G---------~~l~V~~d~~~s~~ni~~~~~~~g~~v~~~~ 57 (69)
T cd03422 2 LDLRGEPCPYPAIATLEALPSLKPG---------EILEVISDCPQSINNIPIDARNHGYKVLAIE 57 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCCC---------CEEEEEecCchHHHHHHHHHHHcCCEEEEEE
Confidence 345 889999999999999988532 233333 23566788888899999886543
No 28
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=66.99 E-value=30 Score=21.93 Aligned_cols=55 Identities=4% Similarity=0.105 Sum_probs=40.2
Q ss_pred EEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEE--ecCCHHHHHHHHHhCCCceEEc
Q 031931 28 TVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVT--GFVEPKKVLAAAKATKKKVEIW 91 (150)
Q Consensus 28 ~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~~ 91 (150)
..++.+ |+.|+.=.-+++++|.+++. .+.+.|. .......|....+..|+++...
T Consensus 9 ~~~lD~~Gl~CP~Pll~~kk~l~~l~~---------G~~l~V~~dd~~~~~di~~~~~~~G~~~~~~ 66 (81)
T PRK00299 9 DHTLDALGLRCPEPVMMVRKTVRNMQP---------GETLLIIADDPATTRDIPSFCRFMDHELLAQ 66 (81)
T ss_pred CeEEecCCCCCCHHHHHHHHHHHcCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEEE
Confidence 356888 99999999999999998853 2233333 2245677888889999887644
No 29
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=65.89 E-value=25 Score=25.87 Aligned_cols=28 Identities=29% Similarity=0.418 Sum_probs=23.8
Q ss_pred hhHHHHHHHHHhCCCCceEEEEecCCCE
Q 031931 38 DGCARKMKGVLSSVKGAKSVDVDLKQQK 65 (150)
Q Consensus 38 ~~C~~kI~k~L~~~~GV~~v~vd~~~~~ 65 (150)
.+|-+-++..+.+++||.++.+-..++.
T Consensus 10 gGCFWg~E~~f~~~~GV~~t~vGYagG~ 37 (172)
T PRK14054 10 GGCFWGMEAPFDRVKGVISTRVGYTGGH 37 (172)
T ss_pred cCChhhhHHHHccCCCEEEEEeeecCCC
Confidence 6788899999999999999998766654
No 30
>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=61.24 E-value=39 Score=21.37 Aligned_cols=43 Identities=19% Similarity=0.215 Sum_probs=29.9
Q ss_pred HHHHHHHHHhCCCCceEEEEecCCCEEEEE-ecCCHHHHHHHHHh
Q 031931 40 CARKMKGVLSSVKGAKSVDVDLKQQKVTVT-GFVEPKKVLAAAKA 83 (150)
Q Consensus 40 C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~-~~~~~~~i~~~i~~ 83 (150)
=...+.++|.+++|+.-...+.. +|+.|+ ...+..++.+.+..
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 45688999999999976666655 888776 33455666655543
No 31
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=56.54 E-value=48 Score=20.92 Aligned_cols=53 Identities=11% Similarity=0.157 Sum_probs=38.5
Q ss_pred chHHHHHhhhhccc----ccc----cccCceEEEEEEcCcChhHHHHHHHHHhCCCCceEEEE
Q 031931 5 GTIEYISDLLSSVK----KKK----KKKQMQTVALKVRMDCDGCARKMKGVLSSVKGAKSVDV 59 (150)
Q Consensus 5 ~~~~~~~~~~~~~~----~~~----~~~~~~~v~l~Vgm~C~~C~~kI~k~L~~~~GV~~v~v 59 (150)
|+|.-++++|.... +.. ......++++.++ -+.....|.+.|.++..|..+++
T Consensus 15 GVL~Ri~~lf~rRGfnI~sl~v~~t~~~~~sriti~v~--~~~~i~ql~kQL~KL~dV~~V~~ 75 (76)
T PRK11152 15 EVLERVLRVVRHRGFQVCSMNMTQNTDAQNINIELTVA--SERPIDLLSSQLNKLVDVAHVEI 75 (76)
T ss_pred cHHHHHHHHHhcCCeeeeeEEeeecCCCCEEEEEEEEC--CCchHHHHHHHHhcCcCeEEEEE
Confidence 78888888887432 222 2334556667774 58889999999999999988876
No 32
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=55.95 E-value=36 Score=24.42 Aligned_cols=41 Identities=22% Similarity=0.368 Sum_probs=31.0
Q ss_pred ceEEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEecC-CCEEE
Q 031931 26 MQTVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLK-QQKVT 67 (150)
Q Consensus 26 ~~~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~-~~~v~ 67 (150)
-..+++.| .--|..|..-|.....++ |+.++.|... ++++.
T Consensus 99 g~~~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~~~ 141 (146)
T PF14437_consen 99 GRSMTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGKVY 141 (146)
T ss_pred CCeEEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCcEE
Confidence 35678888 888999998888877766 8888888765 55443
No 33
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=53.49 E-value=55 Score=20.67 Aligned_cols=52 Identities=19% Similarity=0.242 Sum_probs=36.6
Q ss_pred EEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhCC-Cce
Q 031931 28 TVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGF--VEPKKVLAAAKATK-KKV 88 (150)
Q Consensus 28 ~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~G-~~~ 88 (150)
..+|.+ |+.|+.=.-.++++|.+++- .+.+.|..+ ....+|...+++.| +..
T Consensus 5 ~~~LD~rG~~CP~Pv~~~kk~l~~m~~---------Ge~LeV~~ddp~~~~dIp~~~~~~~~~~l 60 (78)
T COG0425 5 DKVLDLRGLRCPGPVVETKKALAKLKP---------GEILEVIADDPAAKEDIPAWAKKEGGHEL 60 (78)
T ss_pred ceEEeccCCcCCccHHHHHHHHHcCCC---------CCEEEEEecCcchHHHHHHHHHHcCCcEE
Confidence 457899 99999999999999998854 334444422 44567777777555 443
No 34
>TIGR03527 selenium_YedF selenium metabolism protein YedF. Members of this protein family are about 200 amino acids in size, and include the uncharacterized YedF protein of Escherichia coli. This family shares an N-terminal domain, modeled by pfam01206, with the sulfurtransferase TusA (also called SirA). The C-terminal domain includes a typical redox-active disulfide motif, CGXC. This protein family found only among those genomes that also carry the selenium donor protein SelD, and its connection to selenium metabolism is indicated by the method of partial phylogenetic profiling vs. SelD. Its gene typically is found next to selD. Members of this family are found even when selenocysteine and selenouridine biosynthesis pathways are, except for SelD, completely absent, as in Enterococcus faecalis. Its role in selenium metabolism is unclear, but may include either detoxification or a role in labile selenoprotein biosynthesis.
Probab=50.61 E-value=55 Score=24.46 Aligned_cols=50 Identities=18% Similarity=0.124 Sum_probs=36.8
Q ss_pred cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEE--ecCCHHHHHHHHHhCCCceEEcc
Q 031931 34 RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVT--GFVEPKKVLAAAKATKKKVEIWP 92 (150)
Q Consensus 34 gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~~~ 92 (150)
|+.|+.-.-+.+++|.+++. .+.++|. .....+.|.+.++..|+++....
T Consensus 5 Gl~CP~Pvi~tKkal~~l~~---------g~~L~VlvD~~~a~~nV~~~~~~~G~~v~~~e 56 (194)
T TIGR03527 5 GLACPQPVILTKKALDELGE---------EGVLTVIVDNEAAKENVSKFATSLGYEVEVEE 56 (194)
T ss_pred CCCCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHHHcCCEEEEEE
Confidence 88999999999999998853 1233333 33556788888899999887543
No 35
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=46.34 E-value=65 Score=24.05 Aligned_cols=36 Identities=28% Similarity=0.428 Sum_probs=27.0
Q ss_pred CceEEEEEEcCcChhHHHHHHHHHhCCCCceEEEEecCCCE
Q 031931 25 QMQTVALKVRMDCDGCARKMKGVLSSVKGAKSVDVDLKQQK 65 (150)
Q Consensus 25 ~~~~v~l~Vgm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~ 65 (150)
.++++.|- .+|-+-++..+.+++||.++++-..++.
T Consensus 7 ~~~~a~~a-----gGCFWg~E~~f~~l~GV~~t~vGYagG~ 42 (186)
T PRK13014 7 GMETATFA-----GGCFWGVEGVFQHVPGVVSVVSGYSGGH 42 (186)
T ss_pred CccEEEEe-----cCCceeeHHHHccCCCEEEEEeeecCCC
Confidence 34555543 6788888889999999999998766553
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=45.34 E-value=67 Score=23.10 Aligned_cols=32 Identities=16% Similarity=0.254 Sum_probs=27.6
Q ss_pred hhHHHHHHHHHhCCCCceEEEEecCCCEEEEE
Q 031931 38 DGCARKMKGVLSSVKGAKSVDVDLKQQKVTVT 69 (150)
Q Consensus 38 ~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~ 69 (150)
..=+.+|.+.+.+++||.++.+-.....+.|.
T Consensus 74 ~~~a~~i~~~v~~~~~V~~A~vvv~~~~a~Va 105 (177)
T PF09580_consen 74 QQLADRIANRVKKVPGVEDATVVVTDDNAYVA 105 (177)
T ss_pred HHHHHHHHHHHhcCCCceEEEEEEECCEEEEE
Confidence 45678999999999999999998888888775
No 37
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=45.00 E-value=73 Score=19.63 Aligned_cols=43 Identities=16% Similarity=0.251 Sum_probs=31.0
Q ss_pred HhCCCCceEEEEecCCCEEEE--EecCCHHHHHHHHHhCCCceEEcc
Q 031931 48 LSSVKGAKSVDVDLKQQKVTV--TGFVEPKKVLAAAKATKKKVEIWP 92 (150)
Q Consensus 48 L~~~~GV~~v~vd~~~~~v~V--~~~~~~~~i~~~i~~~G~~~~~~~ 92 (150)
|..++||..+..+ ..+.+.+ ....+..+|+..|...|. +.-+.
T Consensus 26 l~~~~~v~~v~~~-~~~~~~i~l~~~~~~~~ll~~l~~~g~-I~~f~ 70 (84)
T PF13732_consen 26 LEELPGVESVEQD-GDGKLRIKLEDEETANELLQELIEKGI-IRSFE 70 (84)
T ss_pred HhhCCCeEEEEEe-CCcEEEEEECCcccHHHHHHHHHhCCC-eeEEE
Confidence 7788999988764 3443444 445678899999999998 65443
No 38
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=43.67 E-value=33 Score=24.88 Aligned_cols=27 Identities=11% Similarity=0.337 Sum_probs=22.8
Q ss_pred hhHHHHHHHHHhCCCCceEEEEecCCC
Q 031931 38 DGCARKMKGVLSSVKGAKSVDVDLKQQ 64 (150)
Q Consensus 38 ~~C~~kI~k~L~~~~GV~~v~vd~~~~ 64 (150)
.+|-+-++..+.+++||.++.+-...+
T Consensus 8 gGCFWg~E~~f~~l~GV~~t~vGYagG 34 (156)
T PRK05528 8 GGCLWGVQAFFKTLPGVIHTEAGRANG 34 (156)
T ss_pred cCCchhhHHHHhcCCCEEEEEEEcCCC
Confidence 678888999999999999999876553
No 39
>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=43.09 E-value=37 Score=25.00 Aligned_cols=20 Identities=20% Similarity=0.386 Sum_probs=16.4
Q ss_pred HHHHHHHhCCCCceEEEEec
Q 031931 42 RKMKGVLSSVKGAKSVDVDL 61 (150)
Q Consensus 42 ~kI~k~L~~~~GV~~v~vd~ 61 (150)
..|+.+|.+++||.++++++
T Consensus 134 ~dV~~aL~~l~gV~~V~V~l 153 (174)
T TIGR03406 134 EDVEDKVLAVPNVDEVEVEL 153 (174)
T ss_pred HHHHHHHHhCCCceeEEEEE
Confidence 45888999999999888764
No 40
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=39.85 E-value=1.1e+02 Score=20.32 Aligned_cols=55 Identities=18% Similarity=0.098 Sum_probs=33.6
Q ss_pred EEEE-cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec--CCHHHHHHHHHhC
Q 031931 30 ALKV-RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGF--VEPKKVLAAAKAT 84 (150)
Q Consensus 30 ~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~--~~~~~i~~~i~~~ 84 (150)
.+++ |++-+-+...|+..++....|.-|.+........|.-. ..+..+++.+...
T Consensus 3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHHHT
T ss_pred EEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHHhc
Confidence 4667 77766678999999999999998888887888888743 3577788877655
No 41
>PF08712 Nfu_N: Scaffold protein Nfu/NifU N terminal; InterPro: IPR014824 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This domain is found at the N terminus of NifU (from NIF system) and NifU related proteins, and in the human Nfu protein. Both of these proteins are thought to be involved in the assembly of iron-sulphur clusters, functioning as scaffolds [, ]. ; GO: 0005506 iron ion binding; PDB: 2FFM_A 1PQX_A 2K1H_A.
Probab=36.35 E-value=1.2e+02 Score=19.52 Aligned_cols=40 Identities=20% Similarity=0.210 Sum_probs=28.3
Q ss_pred HHHHHHHhCCCCceEEEEecCCCEEEEE--ecCCHHHHHHHHHh
Q 031931 42 RKMKGVLSSVKGAKSVDVDLKQQKVTVT--GFVEPKKVLAAAKA 83 (150)
Q Consensus 42 ~kI~k~L~~~~GV~~v~vd~~~~~v~V~--~~~~~~~i~~~i~~ 83 (150)
.-+-+.|-.++||.+|-+. .+=++|+ ...+.+.|...|..
T Consensus 37 spLA~~Lf~i~gV~~Vf~~--~dfItVtK~~~~~W~~l~~~I~~ 78 (87)
T PF08712_consen 37 SPLAQALFAIPGVKSVFIG--DDFITVTKNPDADWEDLKPEIRE 78 (87)
T ss_dssp -HHHHHHHTSTTEEEEEEE--TTEEEEEE-TTS-HHHHHHHHHH
T ss_pred CHHHHHhcCCCCEeEEEEE--CCEEEEeeCCCCCHHHHHHHHHH
Confidence 4555566699999988764 6778887 45788888887753
No 42
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=35.66 E-value=72 Score=21.77 Aligned_cols=35 Identities=23% Similarity=0.454 Sum_probs=24.0
Q ss_pred eEEEEEE-cCcChh---HHHHHHHHHhCCCCceEEEEec
Q 031931 27 QTVALKV-RMDCDG---CARKMKGVLSSVKGAKSVDVDL 61 (150)
Q Consensus 27 ~~v~l~V-gm~C~~---C~~kI~k~L~~~~GV~~v~vd~ 61 (150)
..+.+.. .+.|+. =...++.+|..++||.++++++
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 3444444 455543 2677899999999999888753
No 43
>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=34.99 E-value=1e+02 Score=18.31 Aligned_cols=34 Identities=12% Similarity=0.232 Sum_probs=24.7
Q ss_pred ceEEEEEEcCcChh-HHHHHHHHHhCCCCceEEEE
Q 031931 26 MQTVALKVRMDCDG-CARKMKGVLSSVKGAKSVDV 59 (150)
Q Consensus 26 ~~~v~l~Vgm~C~~-C~~kI~k~L~~~~GV~~v~v 59 (150)
...+.|.+...-.. --..+-+.|++++||.++.+
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 34455666444444 77889999999999998875
No 44
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=34.79 E-value=37 Score=24.00 Aligned_cols=44 Identities=20% Similarity=0.274 Sum_probs=27.9
Q ss_pred hhHHHHHHHHHhCCCCceEEEEecCCC-EEEEEecCCHHHHHHHHHhC
Q 031931 38 DGCARKMKGVLSSVKGAKSVDVDLKQQ-KVTVTGFVEPKKVLAAAKAT 84 (150)
Q Consensus 38 ~~C~~kI~k~L~~~~GV~~v~vd~~~~-~v~V~~~~~~~~i~~~i~~~ 84 (150)
++|.+++-++|+++ .-|+.+...+ +++-.|.-+.++|...|+..
T Consensus 97 ~~i~rkvlQ~Le~~---~~ve~hp~gGR~lt~~GqrdldrIa~~i~~~ 141 (143)
T KOG3411|consen 97 GGIARKVLQALEKM---GIVEKHPKGGRRLTEQGQRDLDRIAGQIREE 141 (143)
T ss_pred cHHHHHHHHHHHhC---CceeeCCCCcceeCcccchhHHHHHHHHHhc
Confidence 56666666666655 4455555554 44445778888998888643
No 45
>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=33.99 E-value=62 Score=20.96 Aligned_cols=36 Identities=19% Similarity=0.392 Sum_probs=23.4
Q ss_pred eEEEEEE-cCcChhH---HHHHHHHHhCCCCceEEEEecC
Q 031931 27 QTVALKV-RMDCDGC---ARKMKGVLSSVKGAKSVDVDLK 62 (150)
Q Consensus 27 ~~v~l~V-gm~C~~C---~~kI~k~L~~~~GV~~v~vd~~ 62 (150)
-.+.+.+ .-.|... ...++.+|..++|+.++++++.
T Consensus 39 v~i~l~l~~p~~~~~~~l~~~i~~al~~l~gv~~v~v~i~ 78 (99)
T TIGR02945 39 VDIQMTLTAPNCPVAGSMPGEVENAVRAVPGVGSVTVELV 78 (99)
T ss_pred EEEEEEECCCCCChHHHHHHHHHHHHHhCCCCceEEEEEE
Confidence 3345555 3444433 3457888999999998888753
No 46
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=32.53 E-value=67 Score=24.54 Aligned_cols=27 Identities=19% Similarity=0.238 Sum_probs=23.1
Q ss_pred hhHHHHHHHHHhCCCCceEEEEecCCC
Q 031931 38 DGCARKMKGVLSSVKGAKSVDVDLKQQ 64 (150)
Q Consensus 38 ~~C~~kI~k~L~~~~GV~~v~vd~~~~ 64 (150)
.+|-+-++..+.+++||.++.+-...+
T Consensus 52 gGCFWg~E~~F~~l~GV~~t~vGYagG 78 (213)
T PRK00058 52 MGCFWGAERLFWQLPGVYSTAVGYAGG 78 (213)
T ss_pred ccCcchhHHHHhcCCCEEEEEeeecCC
Confidence 678888999999999999999877643
No 47
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=30.91 E-value=1.3e+02 Score=18.31 Aligned_cols=35 Identities=17% Similarity=0.198 Sum_probs=26.0
Q ss_pred cCceEEEEEEcCcChhHHHHHHHHHhCCCCceEEE
Q 031931 24 KQMQTVALKVRMDCDGCARKMKGVLSSVKGAKSVD 58 (150)
Q Consensus 24 ~~~~~v~l~Vgm~C~~C~~kI~k~L~~~~GV~~v~ 58 (150)
.+...+.|.+...-..--..|-+.|++++||.+|.
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 44556666666666667778888899999998774
No 48
>PRK07334 threonine dehydratase; Provisional
Probab=30.77 E-value=2.9e+02 Score=22.77 Aligned_cols=63 Identities=14% Similarity=0.136 Sum_probs=41.9
Q ss_pred EEEEE-cCcChhHHHHHHHHHhCCC-CceEEEEecC-----CCEEEEE--ec----CCHHHHHHHHHhCCCceEEc
Q 031931 29 VALKV-RMDCDGCARKMKGVLSSVK-GAKSVDVDLK-----QQKVTVT--GF----VEPKKVLAAAKATKKKVEIW 91 (150)
Q Consensus 29 v~l~V-gm~C~~C~~kI~k~L~~~~-GV~~v~vd~~-----~~~v~V~--~~----~~~~~i~~~i~~~G~~~~~~ 91 (150)
+.|.| ..+-.+=-..|-+.|++.. .|.+++.... .+...+. -. ...+.|++.|++.||.++++
T Consensus 327 v~l~I~~~dr~GlL~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~~~L~~vi~~Lr~~g~~~~~~ 402 (403)
T PRK07334 327 ARLRVDIRDRPGALARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETRDAAHLQEVIAALRAAGFEARLV 402 (403)
T ss_pred EEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeCCHHHHHHHHHHHHHcCCeeEeC
Confidence 57777 6777777888888887663 3555555422 3444333 11 23458899999999998875
No 49
>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=30.74 E-value=38 Score=19.84 Aligned_cols=29 Identities=24% Similarity=0.408 Sum_probs=13.2
Q ss_pred HHHHHHhCC---CCceEEEEecCCCEEEEEecC
Q 031931 43 KMKGVLSSV---KGAKSVDVDLKQQKVTVTGFV 72 (150)
Q Consensus 43 kI~k~L~~~---~GV~~v~vd~~~~~v~V~~~~ 72 (150)
+|+.+|... ++. .+.+...++.+++.|.+
T Consensus 3 ~v~~~L~~~~~~~~~-~i~v~v~~g~v~L~G~v 34 (64)
T PF04972_consen 3 KVRAALRADPWLPDS-NISVSVENGVVTLSGEV 34 (64)
T ss_dssp ----------CTT-T-TEEEEEECTEEEEEEEE
T ss_pred ccccccccccccCCC-eEEEEEECCEEEEEeeC
Confidence 455566553 333 56667778888888764
No 50
>PF08821 CGGC: CGGC domain; InterPro: IPR014925 Proteins in this entry are a quite highly conserved sequence of CGGC in its central region. The region has many conserved cysteines and histidines suggestive of a zinc binding function.
Probab=30.67 E-value=1.5e+02 Score=19.90 Aligned_cols=58 Identities=17% Similarity=0.303 Sum_probs=29.7
Q ss_pred EEE-cC-cChhHH-HHHHHHHhC--CCCceEEEEecCCCEEEEE--ec-CCHHHHHHHHHhC-CCceEE
Q 031931 31 LKV-RM-DCDGCA-RKMKGVLSS--VKGAKSVDVDLKQQKVTVT--GF-VEPKKVLAAAKAT-KKKVEI 90 (150)
Q Consensus 31 l~V-gm-~C~~C~-~kI~k~L~~--~~GV~~v~vd~~~~~v~V~--~~-~~~~~i~~~i~~~-G~~~~~ 90 (150)
+.+ +| +|.+|- .++...+.. ..|++.+-+. +-...-. +. -..+++.+.|++. |+.+..
T Consensus 38 ~elvgf~~CgGCpg~~~~~~~~~l~~~~~d~IHls--sC~~~~~~~~~CP~~~~~~~~I~~~~gi~VV~ 104 (107)
T PF08821_consen 38 VELVGFFTCGGCPGRKLVRRIKKLKKNGADVIHLS--SCMVKGNPHGPCPHIDEIKKIIEEKFGIEVVE 104 (107)
T ss_pred eEEEEEeeCCCCChhHHHHHHHHHHHCCCCEEEEc--CCEecCCCCCCCCCHHHHHHHHHHHhCCCEee
Confidence 666 77 899873 233322222 3455533332 2111100 11 3578899999766 876543
No 51
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=29.56 E-value=97 Score=20.50 Aligned_cols=23 Identities=17% Similarity=0.381 Sum_probs=19.9
Q ss_pred HhCCCCceEEEEecCCCEEEEEe
Q 031931 48 LSSVKGAKSVDVDLKQQKVTVTG 70 (150)
Q Consensus 48 L~~~~GV~~v~vd~~~~~v~V~~ 70 (150)
+...+|++.+++...+.++.|++
T Consensus 36 vas~pgis~ieik~E~kkL~v~t 58 (96)
T COG4004 36 VASSPGISRIEIKPENKKLLVNT 58 (96)
T ss_pred EEecCCceEEEEecccceEEEec
Confidence 44678999999999999999985
No 52
>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=29.30 E-value=1.1e+02 Score=19.90 Aligned_cols=23 Identities=30% Similarity=0.539 Sum_probs=19.5
Q ss_pred hhHHHHHHHHHhCCCCceEEEEe
Q 031931 38 DGCARKMKGVLSSVKGAKSVDVD 60 (150)
Q Consensus 38 ~~C~~kI~k~L~~~~GV~~v~vd 60 (150)
.+-...++.++++++||+++++-
T Consensus 61 ~g~td~lee~i~~ve~V~svev~ 83 (88)
T TIGR00489 61 EGGTEAAEESLSGIEGVESVEVT 83 (88)
T ss_pred CcChHHHHHHHhcCCCccEEEEE
Confidence 35568999999999999998874
No 53
>COG2092 EFB1 Translation elongation factor EF-1beta [Translation, ribosomal structure and biogenesis]
Probab=28.19 E-value=1.1e+02 Score=20.03 Aligned_cols=34 Identities=29% Similarity=0.477 Sum_probs=24.8
Q ss_pred eEEEEEE-cCcChhHHHHHHHHHhCCCCceEEEEe
Q 031931 27 QTVALKV-RMDCDGCARKMKGVLSSVKGAKSVDVD 60 (150)
Q Consensus 27 ~~v~l~V-gm~C~~C~~kI~k~L~~~~GV~~v~vd 60 (150)
+.+.+.+ --+-.+-...++++|+.+.||.++++-
T Consensus 49 kal~l~vvv~D~Eg~td~~ee~l~~vegV~sveve 83 (88)
T COG2092 49 KALKLYVVVEDKEGGTDALEEALEEVEGVESVEVE 83 (88)
T ss_pred eeEEEEEEEcccccCcHHHHHHHhhccCcceEEEE
Confidence 4445555 334456678999999999999988763
No 54
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=27.24 E-value=1.8e+02 Score=18.82 Aligned_cols=59 Identities=14% Similarity=0.199 Sum_probs=38.4
Q ss_pred cchHHHHHhhhhccc----cc----ccccCceEEEEEEcCcChhHHHHHHHHHhCCCCceEEE-EecC
Q 031931 4 EGTIEYISDLLSSVK----KK----KKKKQMQTVALKVRMDCDGCARKMKGVLSSVKGAKSVD-VDLK 62 (150)
Q Consensus 4 ~~~~~~~~~~~~~~~----~~----~~~~~~~~v~l~Vgm~C~~C~~kI~k~L~~~~GV~~v~-vd~~ 62 (150)
-|+|.-++++|+-.. +. ...+...++++-+....+.-...|.+.|.++-.|..+. +|+.
T Consensus 13 ~GVL~Rit~lFsRRg~NI~SLtvg~Te~~~iSRmtivv~~~d~~~ieqI~kQL~KlidVikV~~~~~~ 80 (84)
T PRK13562 13 VSTLNRITSAFVRLQYNIDTLHVTHSEQPGISNMEIQVDIQDDTSLHILIKKLKQQINVLTVECYDLV 80 (84)
T ss_pred CCHHHHHHHHHhccCcCeeeEEecccCCCCceEEEEEEeCCCHHHHHHHHHHHhCCccEEEEEEeecc
Confidence 378889999987432 11 13334556666653356667778888899988887665 4443
No 55
>COG2761 FrnE Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=26.92 E-value=1.6e+02 Score=22.74 Aligned_cols=38 Identities=16% Similarity=0.392 Sum_probs=27.9
Q ss_pred ceEEEEEE--cCcChhH---HHHHHHHHhCCCCceEEEEecCC
Q 031931 26 MQTVALKV--RMDCDGC---ARKMKGVLSSVKGAKSVDVDLKQ 63 (150)
Q Consensus 26 ~~~v~l~V--gm~C~~C---~~kI~k~L~~~~GV~~v~vd~~~ 63 (150)
+.++++.| +.-|+-| .+++++++...++-..+++....
T Consensus 3 ~~~i~I~v~sD~vCPwC~ig~~rL~ka~~~~~~~~~v~i~w~p 45 (225)
T COG2761 3 PMKIEIDVFSDVVCPWCYIGKRRLEKALAEYPQEVRVEIRWRP 45 (225)
T ss_pred CceEEEEEEeCCcCchhhcCHHHHHHHHHhcCcceeEEEEecc
Confidence 44566666 8999999 68899999988865566665433
No 56
>TIGR00401 msrA methionine-S-sulfoxide reductase. This model describes peptide methionine sulfoxide reductase (MsrA), a repair enzyme for proteins that have been inactivated by oxidation. The enzyme from E. coli is coextensive with this model and has enzymatic activity. However, in all completed genomes in which this module is present, a second protein module, described in TIGR00357, is also found, and in several cases as part of the same polypeptide chain: N-terminal to this module in Helicobacter pylori and Haemophilus influenzae (as in PilB of Neisseria gonorrhoeae) but C-terminal to it in Treponema pallidum. PilB, containing both domains, has been shown to be important for the expression of adhesins in certain pathogens.
Probab=26.88 E-value=52 Score=23.62 Aligned_cols=27 Identities=19% Similarity=0.261 Sum_probs=22.4
Q ss_pred hhHHHHHHHHHhCCCCceEEEEecCCC
Q 031931 38 DGCARKMKGVLSSVKGAKSVDVDLKQQ 64 (150)
Q Consensus 38 ~~C~~kI~k~L~~~~GV~~v~vd~~~~ 64 (150)
.+|-+-++..+.+++||.++.+-...+
T Consensus 7 gGCFWg~E~~f~~~~GV~~t~~GYagG 33 (149)
T TIGR00401 7 GGCFWGVEKYFWLIPGVYSTAVGYTGG 33 (149)
T ss_pred cCCchhhHHHHhcCCCEEEEEEeeCCC
Confidence 578888899999999999999865554
No 57
>PF02672 CP12: CP12 domain; InterPro: IPR003823 This entry represents an uncharacterised domain in proteins of unknown function. This domain is found associated with CBS domains in some proteins IPR000644 from INTERPRO.; PDB: 3B1K_I 3B1J_D 3RVD_N 3QV1_I 2LJ9_A.
Probab=26.72 E-value=17 Score=22.78 Aligned_cols=14 Identities=43% Similarity=1.070 Sum_probs=11.0
Q ss_pred CcccccCCCCC--ccc
Q 031931 136 TNMFSDENPNA--CSI 149 (150)
Q Consensus 136 ~~~fsdenp~a--CsI 149 (150)
...|.|+||.| |-|
T Consensus 53 lE~yC~~nPea~Ecrv 68 (71)
T PF02672_consen 53 LELYCDENPEADECRV 68 (71)
T ss_dssp HHHHHHHSTTSTTTTT
T ss_pred HHHHHHHCCCcHHhhh
Confidence 35899999988 765
No 58
>PRK11670 antiporter inner membrane protein; Provisional
Probab=26.41 E-value=3.2e+02 Score=22.43 Aligned_cols=58 Identities=24% Similarity=0.258 Sum_probs=38.1
Q ss_pred HHHHHHHHhCCCCceEEEEecCC------------------CEEEEE---e---c-CCHHHHHHHHHhCCCceEEccCCC
Q 031931 41 ARKMKGVLSSVKGAKSVDVDLKQ------------------QKVTVT---G---F-VEPKKVLAAAKATKKKVEIWPYVP 95 (150)
Q Consensus 41 ~~kI~k~L~~~~GV~~v~vd~~~------------------~~v~V~---~---~-~~~~~i~~~i~~~G~~~~~~~~~p 95 (150)
...++++|+.++|+.++++.+.. ..+.|. | . .....|...+.+.|+++-++.-.+
T Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vIaV~S~KGGVGKTT~avNLA~aLA~~G~rVlLID~D~ 146 (369)
T PRK11670 67 KEQCSAELLRITGAKAIDWKLSHNIATLKRVNNQPGVNGVKNIIAVSSGKGGVGKSSTAVNLALALAAEGAKVGILDADI 146 (369)
T ss_pred HHHHHHHHHhcCCCceEEEEEeeehhhhccccccccCCCCCEEEEEeCCCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCC
Confidence 45688999999999877754332 122333 1 1 224456777888999999987666
Q ss_pred CCc
Q 031931 96 YNI 98 (150)
Q Consensus 96 ~~~ 98 (150)
+.+
T Consensus 147 qgp 149 (369)
T PRK11670 147 YGP 149 (369)
T ss_pred CCC
Confidence 554
No 59
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH). The archeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup enzymes within the metallo-beta-lactamase fold. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH domains are known to bind single-stranded RNA or DNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=25.93 E-value=2.5e+02 Score=20.11 Aligned_cols=58 Identities=10% Similarity=0.134 Sum_probs=40.1
Q ss_pred hhHHHHHHHHHhCCCCceEEEEecCCCEEEEEec-----C-CHHHHHHHH-HhCCCceEEccCCC
Q 031931 38 DGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGF-----V-EPKKVLAAA-KATKKKVEIWPYVP 95 (150)
Q Consensus 38 ~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~-----~-~~~~i~~~i-~~~G~~~~~~~~~p 95 (150)
..-...|++.+-.-.|+.++.+|...+.|.|... . -....+..| .++|....++...|
T Consensus 52 e~A~~~I~~ivP~ea~i~di~Fd~~tGEV~IeaeKPG~ViGk~g~~~reI~~~tgW~p~vvRtpP 116 (145)
T cd02410 52 EEAIKIILEIVPEEAGITDIYFDDDTGEVIIEAEKPGLVIGKGGSTLREITRETGWAPKVVRTPP 116 (145)
T ss_pred HHHHHHHHHhCCCccCceeeEecCCCcEEEEEEcCCeEEEecCchhHHHHHHHhCCeeEEEecCC
Confidence 4455667777766689999999999999998732 1 223343444 78998888776544
No 60
>PF01625 PMSR: Peptide methionine sulfoxide reductase; InterPro: IPR002569 Peptide methionine sulphoxide reductase (Msr) reverses the inactivation of many proteins due to the oxidation of critical methionine residues by reducing methionine sulphoxide, Met(O), to methionine []. It is present in most living organisms, and the cognate structural gene belongs to the so-called minimum gene set [, ]. The domains: MsrA and MsrB, reduce different epimeric forms of methionine sulphoxide. This group represent MsrA, the crystal structure of which has been determined in a number of organisms. In Mycobacterium tuberculosis, the MsrA structure has been determined to 1.5 Angstrom resolution []. In contrast to the three catalytic cysteine residues found in previously characterised MsrA structures, M. tuberculosis MsrA represents a class containing only two functional cysteine residues. The overall structure shows no resemblance to the structures of MsrB (IPR002579 from INTERPRO) from other organisms; though the active sites show approximate mirror symmetry. In each case, conserved amino acid motifs mediate the stereo-specific recognition and reduction of the substrate. In a number of pathogenic bacteria including Neisseria gonorrhoeae, the MsrA and MsrB domains are fused; the MsrA being N-terminal to MsrB. This arrangement is reversed in Treponema pallidum. In N. gonorrhoeae and Neisseria meningitidis a thioredoxin domain is fused to the N terminus. This may function to reduce the active sites of the downstream MsrA and MsrB domains. ; GO: 0016671 oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor, 0019538 protein metabolic process, 0055114 oxidation-reduction process; PDB: 2GT3_A 1FF3_B 2IEM_A 3E0M_D 2J89_A 3PIN_B 3PIM_B 3PIL_B 2L90_A 3BQF_A ....
Probab=25.86 E-value=72 Score=22.98 Aligned_cols=27 Identities=19% Similarity=0.335 Sum_probs=22.8
Q ss_pred hhHHHHHHHHHhCCCCceEEEEecCCC
Q 031931 38 DGCARKMKGVLSSVKGAKSVDVDLKQQ 64 (150)
Q Consensus 38 ~~C~~kI~k~L~~~~GV~~v~vd~~~~ 64 (150)
.+|-+.++..+.+++||.++.+-...+
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 578888999999999999999876554
No 61
>PRK11023 outer membrane lipoprotein; Provisional
Probab=25.45 E-value=1.6e+02 Score=21.75 Aligned_cols=44 Identities=23% Similarity=0.206 Sum_probs=32.4
Q ss_pred cChhHHHHHHHHHhCCCCce---EEEEecCCCEEEEEecCCHHHHHH
Q 031931 36 DCDGCARKMKGVLSSVKGAK---SVDVDLKQQKVTVTGFVEPKKVLA 79 (150)
Q Consensus 36 ~C~~C~~kI~k~L~~~~GV~---~v~vd~~~~~v~V~~~~~~~~i~~ 79 (150)
+...=..+|+.+|...+.+. .+++...++.|+++|.++.++...
T Consensus 46 dD~~i~~~V~~aL~~~~~l~~~~~I~V~v~~G~V~L~G~V~~~~~k~ 92 (191)
T PRK11023 46 DDGTLELRVNNALSKDEQIKKEARINVTAYQGKVLLTGQSPNAELSE 92 (191)
T ss_pred hhHHHHHHHHHHHhhCcccCcCceEEEEEECCEEEEEEEeCCHHHHH
Confidence 44566789999998877663 577888899999999865544333
No 62
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=25.39 E-value=1.7e+02 Score=17.84 Aligned_cols=55 Identities=15% Similarity=0.113 Sum_probs=34.8
Q ss_pred EEEEEE-cCcChhHHHHHHHHHhCCCC-ceEEEEecCCCEEEEE----ec-CCHHHHHHHHH
Q 031931 28 TVALKV-RMDCDGCARKMKGVLSSVKG-AKSVDVDLKQQKVTVT----GF-VEPKKVLAAAK 82 (150)
Q Consensus 28 ~v~l~V-gm~C~~C~~kI~k~L~~~~G-V~~v~vd~~~~~v~V~----~~-~~~~~i~~~i~ 82 (150)
.+.+.+ |.+.++-...|.+.|....+ +.+++.....+..+.. .. .+.+++.+.|.
T Consensus 2 ~~vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~~~~~~~l~~~L~ 63 (76)
T PF13740_consen 2 QLVITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIPEDSLERLESALE 63 (76)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEESHHHHHHHHHHHH
T ss_pred EEEEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeCcccHHHHHHHHH
Confidence 467888 99999999999999999865 5566665555555432 22 23445555553
No 63
>PRK09577 multidrug efflux protein; Reviewed
Probab=25.34 E-value=2.2e+02 Score=26.81 Aligned_cols=45 Identities=13% Similarity=0.098 Sum_probs=33.8
Q ss_pred HHHHHHHHhCCCCceEEEEecCCCEEEEE--------ecCCHHHHHHHHHhCC
Q 031931 41 ARKMKGVLSSVKGAKSVDVDLKQQKVTVT--------GFVEPKKVLAAAKATK 85 (150)
Q Consensus 41 ~~kI~k~L~~~~GV~~v~vd~~~~~v~V~--------~~~~~~~i~~~i~~~G 85 (150)
...++..|++++||.+++++-....+.|. ..++..+|.++|+...
T Consensus 158 ~~~l~~~L~~v~GV~~V~~~G~e~~v~V~vD~~kl~~~Gls~~~V~~~l~~~n 210 (1032)
T PRK09577 158 SANVLQALRRVEGVGKVQFWGAEYAMRIWPDPVKLAALGLTASDIASAVRAHN 210 (1032)
T ss_pred HHHHHHHHhcCCCcEEEEecCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHhC
Confidence 46789999999999999997655555553 1267788888887654
No 64
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=24.55 E-value=1.1e+02 Score=22.56 Aligned_cols=35 Identities=14% Similarity=0.245 Sum_probs=26.2
Q ss_pred CceEEEEEEcCcChhHHHHHHHHHhCCCCceEEEEecCCC
Q 031931 25 QMQTVALKVRMDCDGCARKMKGVLSSVKGAKSVDVDLKQQ 64 (150)
Q Consensus 25 ~~~~v~l~Vgm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~ 64 (150)
.|+++.|. .+|-+-+++...+++||.++.+-...+
T Consensus 5 ~~~~a~fa-----gGCFWg~E~~f~~i~GV~~t~~GYagG 39 (174)
T COG0225 5 GMEKAYFA-----GGCFWGVEAYFEQIPGVLSTVSGYAGG 39 (174)
T ss_pred CcEEEEEe-----ccCccchHHHHhhCCCeEEEeeeEcCC
Confidence 34555554 678888899999999999998765544
No 65
>TIGR02898 spore_YhcN_YlaJ sporulation lipoprotein, YhcN/YlaJ family. YhcN and YlaJ 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 that is not included in the seed alignment for this model. A portion of the low-complexity region between the lipoprotein signal sequence and the main conserved region of the protein family was also excised from the seed alignment.
Probab=24.46 E-value=2.8e+02 Score=20.08 Aligned_cols=31 Identities=23% Similarity=0.245 Sum_probs=26.7
Q ss_pred hHHHHHHHHHhCCCCceEEEEecCCCEEEEE
Q 031931 39 GCARKMKGVLSSVKGAKSVDVDLKQQKVTVT 69 (150)
Q Consensus 39 ~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~ 69 (150)
.=+.+|.+.+.+++||.++.+-.....+.|-
T Consensus 54 ~~A~~Ia~~v~~v~~V~dA~vvVtg~~A~Vg 84 (158)
T TIGR02898 54 DVADEIASEAAKVKGVKDATVVITGNYAYVG 84 (158)
T ss_pred HHHHHHHHHHhcCCCCceEEEEEECCEEEEE
Confidence 5688999999999999999988878877765
No 66
>PRK08178 acetolactate synthase 1 regulatory subunit; Reviewed
Probab=23.41 E-value=2.3e+02 Score=18.79 Aligned_cols=54 Identities=15% Similarity=0.175 Sum_probs=36.1
Q ss_pred cchHHHHHhhhhccc----cc----ccccCceEEEEEEcCcChhHHHHHHHHHhCCCCceEEEE
Q 031931 4 EGTIEYISDLLSSVK----KK----KKKKQMQTVALKVRMDCDGCARKMKGVLSSVKGAKSVDV 59 (150)
Q Consensus 4 ~~~~~~~~~~~~~~~----~~----~~~~~~~~v~l~Vgm~C~~C~~kI~k~L~~~~GV~~v~v 59 (150)
-|+|..++++|+... +. .......++++-+. . +.-...|.+.|.++..|..+..
T Consensus 19 pGVL~RIaglFsRRgyNIeSLtvg~te~~~iSRmtivv~-~-~~~i~Qi~kQL~KLidVikV~~ 80 (96)
T PRK08178 19 PGVMSHVCGLFARRAFNVEGILCLPIQDGDKSRIWLLVN-D-DQRLEQMISQIEKLEDVLKVRR 80 (96)
T ss_pred cCHHHHHHHHHhcCCcCeeeEEEeecCCCCceEEEEEEc-C-chHHHHHHHHHhCCcCEEEEEE
Confidence 488999999997542 22 13344566666553 2 4677788888888888876654
No 67
>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=23.38 E-value=1.1e+02 Score=18.61 Aligned_cols=10 Identities=20% Similarity=0.554 Sum_probs=7.9
Q ss_pred EcCcChhHHH
Q 031931 33 VRMDCDGCAR 42 (150)
Q Consensus 33 Vgm~C~~C~~ 42 (150)
++..|+.|..
T Consensus 6 ~~~~C~~C~~ 15 (76)
T PF13192_consen 6 FSPGCPYCPE 15 (76)
T ss_dssp ECSSCTTHHH
T ss_pred eCCCCCCcHH
Confidence 4778999974
No 68
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=23.02 E-value=2.4e+02 Score=18.72 Aligned_cols=45 Identities=16% Similarity=0.206 Sum_probs=30.5
Q ss_pred hhHHHHHHHHHhCCCCceEEEEecCCCEEEEE-ecCCHHHHHHHHHh
Q 031931 38 DGCARKMKGVLSSVKGAKSVDVDLKQQKVTVT-GFVEPKKVLAAAKA 83 (150)
Q Consensus 38 ~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~-~~~~~~~i~~~i~~ 83 (150)
+.-...|..+|..++|+.--.-+.. +|+.|. ...+...+.+.+..
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 3455788999999999976666655 666654 33456666666643
No 69
>PRK04435 hypothetical protein; Provisional
Probab=22.83 E-value=2.8e+02 Score=19.54 Aligned_cols=34 Identities=15% Similarity=0.341 Sum_probs=24.2
Q ss_pred ceEEEEEEcC-cChhHHHHHHHHHhCCCCceEEEE
Q 031931 26 MQTVALKVRM-DCDGCARKMKGVLSSVKGAKSVDV 59 (150)
Q Consensus 26 ~~~v~l~Vgm-~C~~C~~kI~k~L~~~~GV~~v~v 59 (150)
...+.|.+.. +-......+-..|++++||.++++
T Consensus 109 ~a~vs~tVevs~~~~~L~~Li~~L~~i~gV~~V~i 143 (147)
T PRK04435 109 RANVTISIDTSSMEGDIDELLEKLRNLDGVEKVEL 143 (147)
T ss_pred EEEEEEEEEeCChHHHHHHHHHHHHcCCCcEEEEE
Confidence 3445666633 334478888999999999998876
No 70
>PRK11023 outer membrane lipoprotein; Provisional
Probab=22.70 E-value=3.2e+02 Score=20.13 Aligned_cols=38 Identities=21% Similarity=0.341 Sum_probs=25.2
Q ss_pred HHHHHHHHHhCCCCce--EEEEecCCCEEEEEecCCHHHH
Q 031931 40 CARKMKGVLSSVKGAK--SVDVDLKQQKVTVTGFVEPKKV 77 (150)
Q Consensus 40 C~~kI~k~L~~~~GV~--~v~vd~~~~~v~V~~~~~~~~i 77 (150)
=..+|+.+|...+.+. ++++...++.|++.|.++.++.
T Consensus 128 It~kik~~L~~~~~v~~~~I~V~t~~G~V~L~G~v~~~e~ 167 (191)
T PRK11023 128 ITTKVRSQLLTSDSVKSSNVKVTTENGEVFLLGLVTQREA 167 (191)
T ss_pred HHHHHHHHHhcCCCCCcceEEEEEECcEEEEEEEeCHHHH
Confidence 5667788887776665 3444556788888877665443
No 71
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=22.61 E-value=2.5e+02 Score=26.50 Aligned_cols=43 Identities=23% Similarity=0.217 Sum_probs=32.4
Q ss_pred HHHHHHHHhCCCCceEEEEecCCCEEEEE--------ecCCHHHHHHHHHh
Q 031931 41 ARKMKGVLSSVKGAKSVDVDLKQQKVTVT--------GFVEPKKVLAAAKA 83 (150)
Q Consensus 41 ~~kI~k~L~~~~GV~~v~vd~~~~~v~V~--------~~~~~~~i~~~i~~ 83 (150)
+..++..|++++||.++++.-....+.|. ..++..+|..+|+.
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~~~ei~V~vD~~kl~~~gls~~~v~~al~~ 209 (1037)
T PRK10555 159 ASNIQDPLSRVNGVGDIDAYGSQYSMRIWLDPAKLNSFQMTTKDVTDAIES 209 (1037)
T ss_pred HHHHHHHhhcCCCeEEEEEcCCceEEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 46688999999999999987554445554 12677888888864
No 72
>KOG4730 consensus D-arabinono-1, 4-lactone oxidase [Defense mechanisms]
Probab=21.32 E-value=69 Score=27.51 Aligned_cols=52 Identities=13% Similarity=0.195 Sum_probs=36.6
Q ss_pred cCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHHHhCCCceEE
Q 031931 34 RMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGFVEPKKVLAAAKATKKKVEI 90 (150)
Q Consensus 34 gm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~ 90 (150)
+|.|..- .--.+..++-| +++|.+..++||..-+...+|++.+.+.|+....
T Consensus 87 ~l~ctdg---~lisl~~lnkV--v~~dpe~~tvTV~aGirlrQLie~~~~~GlsL~~ 138 (518)
T KOG4730|consen 87 KLVCTDG---LLISLDKLNKV--VEFDPELKTVTVQAGIRLRQLIEELAKLGLSLPN 138 (518)
T ss_pred cceeccc---cEEEhhhhccc--eeeCchhceEEeccCcCHHHHHHHHHhcCccccC
Confidence 6677655 22233444455 4457778888888778999999999999987543
No 73
>PHA01634 hypothetical protein
Probab=21.20 E-value=33 Score=24.44 Aligned_cols=16 Identities=38% Similarity=1.012 Sum_probs=12.7
Q ss_pred EEE-cCcChhHHHHHHH
Q 031931 31 LKV-RMDCDGCARKMKG 46 (150)
Q Consensus 31 l~V-gm~C~~C~~kI~k 46 (150)
+.| -|+|++|+.++.-
T Consensus 93 ~Di~~iDCeGCE~~l~v 109 (156)
T PHA01634 93 VDIFVMDCEGCEEKLNV 109 (156)
T ss_pred cceEEEEccchHHhcCH
Confidence 556 7899999998853
No 74
>PF04459 DUF512: Protein of unknown function (DUF512); InterPro: IPR007549 This is a domain of uncharacterised prokaryotic proteins. It is often found C-terminal to the radical SAM domain (IPR007197 from INTERPRO).
Probab=21.19 E-value=3.7e+02 Score=20.27 Aligned_cols=50 Identities=16% Similarity=0.302 Sum_probs=31.7
Q ss_pred HHHHHhCCCCce----EEEEecCCCEEEEEecCCHHHHHHHHHhCCC-ceEEccC
Q 031931 44 MKGVLSSVKGAK----SVDVDLKQQKVTVTGFVEPKKVLAAAKATKK-KVEIWPY 93 (150)
Q Consensus 44 I~k~L~~~~GV~----~v~vd~~~~~v~V~~~~~~~~i~~~i~~~G~-~~~~~~~ 93 (150)
+-+.|++.+|.. .+.=++-.+.++|+|-+...+|++.|+.... +.-++|.
T Consensus 115 ~~~~l~~~~~~~v~V~~V~N~fFG~~ItVaGLLTg~Dii~~L~~~~~~d~lllP~ 169 (204)
T PF04459_consen 115 LVEKLNRIPGLEVEVVPVKNRFFGGTITVAGLLTGQDIIEQLKGKELGDLLLLPD 169 (204)
T ss_pred HHHHHhccCCCeEEEEEeecCCCCCCeEEeeCccHHHHHHHhCcCCCCCEEEECH
Confidence 333344445532 3333567789999999999999999965322 4555554
No 75
>PF01514 YscJ_FliF: Secretory protein of YscJ/FliF family; InterPro: IPR006182 This domain is found in proteins that are related to the YscJ lipoprotein, where it covers most of the sequence, and the flagellar M-ring protein FliF, where it covers the N-terminal region. The members of the YscJ family are thought to be involved in secretion of several proteins. The FliF protein ring is thought to be part of the export apparatus for flagellar proteins, based on the similarity to YscJ proteins [].; PDB: 1YJ7_A 2Y9J_d.
Probab=21.02 E-value=1.1e+02 Score=22.88 Aligned_cols=21 Identities=19% Similarity=0.385 Sum_probs=18.0
Q ss_pred HHHHHHHHHhCCCCceEEEEe
Q 031931 40 CARKMKGVLSSVKGAKSVDVD 60 (150)
Q Consensus 40 C~~kI~k~L~~~~GV~~v~vd 60 (150)
=...+++.|+.++||.+++|.
T Consensus 116 le~eL~~tI~~i~gV~~A~V~ 136 (206)
T PF01514_consen 116 LEGELERTIESIDGVESARVH 136 (206)
T ss_dssp HHHHHHHHHTTSTTEEEEEEE
T ss_pred HHHHHHHHHHcCCCeeEEEEE
Confidence 356789999999999998886
No 76
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=20.27 E-value=1.9e+02 Score=18.80 Aligned_cols=23 Identities=26% Similarity=0.591 Sum_probs=19.8
Q ss_pred hhHHHHHHHHHhCCCCceEEEEe
Q 031931 38 DGCARKMKGVLSSVKGAKSVDVD 60 (150)
Q Consensus 38 ~~C~~kI~k~L~~~~GV~~v~vd 60 (150)
.+-...++.++++++||+++++-
T Consensus 61 ~~~td~lee~i~~~e~Vqsvei~ 83 (88)
T PRK00435 61 EGGTEPVEEAFANVEGVESVEVE 83 (88)
T ss_pred CcCcHHHHHHHhccCCCcEEEEE
Confidence 46778999999999999998874
No 77
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=20.18 E-value=2.9e+02 Score=22.15 Aligned_cols=47 Identities=21% Similarity=0.186 Sum_probs=33.8
Q ss_pred EEEEEEcCcChhHHHHHHHHHhCCCCceEEEEecCCCEEEEEecCCHHHHHHHH-HhCCCc
Q 031931 28 TVALKVRMDCDGCARKMKGVLSSVKGAKSVDVDLKQQKVTVTGFVEPKKVLAAA-KATKKK 87 (150)
Q Consensus 28 ~v~l~Vgm~C~~C~~kI~k~L~~~~GV~~v~vd~~~~~v~V~~~~~~~~i~~~i-~~~G~~ 87 (150)
.+.++.+.+ ..|...+++.+.+.+||.++++- +.++-.+.+ +..|..
T Consensus 62 ~vyL~~~~~-~~~~~~v~~~i~~~~gV~~v~~~------------sre~~l~~L~~~lg~~ 109 (297)
T COG2177 62 TVYLQIDAD-QDDAALVREKIEGIPGVKSVRFI------------SREEALKELQPWLGFG 109 (297)
T ss_pred EEEEecCCC-hHHHHHHHHHHhcCCCcceEEEe------------CHHHHHHHHHHHcCch
Confidence 344444555 88999999999999999988874 455555555 566654
Done!