Query 046545
Match_columns 93
No_of_seqs 106 out of 1264
Neff 8.7
Searched_HMMs 46136
Date Fri Mar 29 13:11:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046545.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046545hhsearch_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 99.4 1.4E-12 3.1E-17 70.0 8.1 57 7-63 1-62 (62)
2 COG2608 CopZ Copper chaperone 99.3 1.9E-11 4.2E-16 67.7 8.2 63 5-67 3-70 (71)
3 KOG1603 Copper chaperone [Inor 99.1 1.9E-09 4.1E-14 59.9 9.0 66 3-68 4-71 (73)
4 KOG4656 Copper chaperone for s 98.9 2E-08 4.3E-13 65.5 8.2 68 5-72 8-76 (247)
5 PLN02957 copper, zinc superoxi 98.4 4.1E-06 8.9E-11 56.1 9.9 66 4-69 6-72 (238)
6 PRK10671 copA copper exporting 98.4 1.9E-06 4.1E-11 66.2 8.0 63 4-68 3-67 (834)
7 COG2217 ZntA Cation transport 98.2 6.3E-06 1.4E-10 62.6 7.6 61 5-66 3-69 (713)
8 TIGR00003 copper ion binding p 97.9 0.0004 8.7E-09 35.0 8.3 59 5-63 3-66 (68)
9 KOG0207 Cation transport ATPas 97.7 0.00017 3.7E-09 55.8 7.5 66 4-69 146-216 (951)
10 PRK10671 copA copper exporting 97.4 0.00095 2.1E-08 51.7 8.2 63 5-67 100-164 (834)
11 KOG0207 Cation transport ATPas 97.4 0.00063 1.4E-08 52.8 6.8 65 5-69 70-139 (951)
12 PRK11033 zntA zinc/cadmium/mer 97.2 0.0025 5.4E-08 48.9 7.8 64 4-67 53-119 (741)
13 TIGR02052 MerP mercuric transp 91.0 1.5 3.3E-05 23.6 9.0 60 6-65 25-89 (92)
14 PF01206 TusA: Sulfurtransfera 89.6 2 4.3E-05 22.9 5.4 52 7-67 2-57 (70)
15 PRK13748 putative mercuric red 89.5 4.9 0.00011 29.9 8.7 62 7-68 3-68 (561)
16 COG1888 Uncharacterized protei 82.9 7.1 0.00015 22.6 7.7 64 3-66 5-78 (97)
17 PRK11018 hypothetical protein; 78.4 9.1 0.0002 21.1 6.1 52 6-66 9-64 (78)
18 KOG4730 D-arabinono-1, 4-lacto 75.0 7.1 0.00015 29.1 4.4 58 33-90 105-165 (518)
19 cd00371 HMA Heavy-metal-associ 74.3 6.2 0.00014 17.1 7.2 37 9-45 3-41 (63)
20 cd03420 SirA_RHOD_Pry_redox Si 73.9 12 0.00025 20.0 5.1 51 8-67 2-56 (69)
21 cd03422 YedF YedF is a bacteri 72.5 13 0.00028 19.9 5.1 51 8-67 2-56 (69)
22 COG0425 SirA Predicted redox p 72.4 14 0.0003 20.5 4.3 50 5-63 5-59 (78)
23 cd03421 SirA_like_N SirA_like_ 71.6 13 0.00028 19.5 4.8 50 8-67 2-55 (67)
24 PF02680 DUF211: Uncharacteriz 70.4 19 0.00041 21.0 5.4 63 4-66 5-76 (95)
25 cd03423 SirA SirA (also known 65.7 19 0.0004 19.2 5.5 51 8-67 2-56 (69)
26 cd00291 SirA_YedF_YeeD SirA, Y 59.9 23 0.00051 18.4 5.6 51 8-67 2-56 (69)
27 PRK00299 sulfur transfer prote 54.6 36 0.00077 18.8 6.1 53 5-66 9-65 (81)
28 PRK14054 methionine sulfoxide 51.6 63 0.0014 20.8 6.4 36 1-40 1-36 (172)
29 TIGR03527 selenium_YedF seleni 44.6 88 0.0019 20.4 5.4 47 11-66 5-54 (194)
30 KOG3411 40S ribosomal protein 42.9 31 0.00067 21.4 2.5 44 16-59 96-140 (143)
31 PF14437 MafB19-deam: MafB19-l 41.8 89 0.0019 19.7 4.7 36 5-41 101-139 (146)
32 PRK10556 hypothetical protein; 40.3 49 0.0011 19.5 3.0 21 48-68 3-23 (111)
33 PF01883 DUF59: Domain of unkn 37.8 64 0.0014 16.9 4.1 19 17-35 54-72 (72)
34 PF13732 DUF4162: Domain of un 31.6 89 0.0019 16.7 5.3 42 24-67 26-69 (84)
35 PRK10553 assembly protein for 31.3 1.1E+02 0.0023 17.4 5.9 43 16-58 18-61 (87)
36 TIGR03406 FeS_long_SufT probab 30.3 1.3E+02 0.0028 19.4 4.0 22 18-39 134-155 (174)
37 COG2761 FrnE Predicted dithiol 29.1 1.8E+02 0.0039 19.7 4.6 37 4-40 4-46 (225)
38 PF14599 zinc_ribbon_6: Zinc-r 29.0 23 0.00049 18.9 0.4 14 5-18 41-56 (61)
39 KOG4137 Uncharacterized conser 25.7 42 0.00091 19.6 1.1 20 69-89 54-73 (102)
40 COG1832 Predicted CoA-binding 24.4 1.9E+02 0.0041 18.1 5.0 37 49-85 31-67 (140)
41 COG3603 Uncharacterized conser 24.2 1.8E+02 0.0039 17.8 5.5 46 17-64 80-126 (128)
42 PF09580 Spore_YhcN_YlaJ: Spor 23.6 2E+02 0.0042 18.0 5.4 30 16-45 76-105 (177)
43 PRK06418 transcription elongat 23.4 82 0.0018 20.2 2.2 73 1-73 1-102 (166)
44 cd04888 ACT_PheB-BS C-terminal 23.4 1.2E+02 0.0027 15.6 2.8 20 16-35 55-74 (76)
45 TIGR00489 aEF-1_beta translati 22.6 1.2E+02 0.0025 17.3 2.5 21 16-36 63-83 (88)
46 COG2331 Uncharacterized protei 22.0 51 0.0011 18.5 0.9 14 13-26 35-49 (82)
47 PRK11200 grxA glutaredoxin 1; 21.4 1.5E+02 0.0033 15.9 3.5 25 12-37 9-38 (85)
48 PF01514 YscJ_FliF: Secretory 21.0 1.5E+02 0.0033 19.4 3.2 22 17-38 117-138 (206)
49 PF09400 DUF2002: Protein of u 20.4 80 0.0017 18.8 1.6 21 48-68 3-23 (111)
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=99.44 E-value=1.4e-12 Score=70.04 Aligned_cols=57 Identities=37% Similarity=0.511 Sum_probs=52.4
Q ss_pred EEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEec---CCHHHHHHHHHhcCCc
Q 046545 7 ELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTGY---AHRNKILKAIRRGGLK 63 (93)
Q Consensus 7 ~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~~---~~~~~i~~~i~~~G~~ 63 (93)
+|.+ ||+|. |..+|+++|..++||.++.+|+.++++.|... ..+++|.+.|+++||+
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 4789 99999 99999999999999999999999999999854 4579999999999984
No 2
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.33 E-value=1.9e-11 Score=67.71 Aligned_cols=63 Identities=29% Similarity=0.361 Sum_probs=55.7
Q ss_pred EEEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEE--e-cCCHHHHHHHHHhcCCceEEe
Q 046545 5 TVELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVT--G-YAHRNKILKAIRRGGLKADFW 67 (93)
Q Consensus 5 ~~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~--~-~~~~~~i~~~i~~~G~~~~~~ 67 (93)
...+++ ||+|. |+..|+++|..++|+.++++++..+.+.+. + ..+.+++.+.+..+||.+..+
T Consensus 3 ~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~~ 70 (71)
T COG2608 3 KTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVEEI 70 (71)
T ss_pred eEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCeeec
Confidence 578999 99999 999999999999999999999999766665 3 468999999999999987643
No 3
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.11 E-value=1.9e-09 Score=59.94 Aligned_cols=66 Identities=36% Similarity=0.676 Sum_probs=58.7
Q ss_pred ceEEEEEeeCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHhcC-CceEEec
Q 046545 3 LETVELKVEMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTGYAHRNKILKAIRRGG-LKADFWS 68 (93)
Q Consensus 3 ~~~~~~~igm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~~~~~~~i~~~i~~~G-~~~~~~~ 68 (93)
++...+.+.|+|. |..+|++.++.++||.++.+|...+++++.+..++..+++.+.+.+ .+..+|.
T Consensus 4 ~~~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~~k~~~~~~ 71 (73)
T KOG1603|consen 4 IKTVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTGGKRAELWK 71 (73)
T ss_pred ccEEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcCCCceEEec
Confidence 3456677799999 9999999999999999999999999999998899999999999887 6666664
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.87 E-value=2e-08 Score=65.50 Aligned_cols=68 Identities=26% Similarity=0.343 Sum_probs=62.1
Q ss_pred EEEEEeeCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHhcCCceEEecCCcc
Q 046545 5 TVELKVEMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTGYAHRNKILKAIRRGGLKADFWSAQNE 72 (93)
Q Consensus 5 ~~~~~igm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~~~~~~~i~~~i~~~G~~~~~~~~~~~ 72 (93)
..+|.|.|+|+ |+..|+..|..++||.++.+|+..+.+.|.+...++.+.+.|+.+|.++.+...-.+
T Consensus 8 ~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~G~p 76 (247)
T KOG4656|consen 8 EAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGAGKP 76 (247)
T ss_pred eEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecCCch
Confidence 45788899999 999999999999999999999999999999888999999999999999998865433
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.45 E-value=4.1e-06 Score=56.05 Aligned_cols=66 Identities=27% Similarity=0.314 Sum_probs=58.0
Q ss_pred eEEEEEeeCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHhcCCceEEecC
Q 046545 4 ETVELKVEMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTGYAHRNKILKAIRRGGLKADFWSA 69 (93)
Q Consensus 4 ~~~~~~igm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~~~~~~~i~~~i~~~G~~~~~~~~ 69 (93)
+++.+.++|.|. |..++++.|++++|+..+.+++..+++.+........+...+++.||.+++++-
T Consensus 6 ~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~ 72 (238)
T PLN02957 6 LLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQ 72 (238)
T ss_pred EEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecC
Confidence 456677799999 999999999999999999999999998888666788899999999999887753
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.38 E-value=1.9e-06 Score=66.21 Aligned_cols=63 Identities=22% Similarity=0.387 Sum_probs=54.4
Q ss_pred eEEEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHhcCCceEEec
Q 046545 4 ETVELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTGYAHRNKILKAIRRGGLKADFWS 68 (93)
Q Consensus 4 ~~~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~~~~~~~i~~~i~~~G~~~~~~~ 68 (93)
.+.++.+ ||+|. |..+|++++.+++|+..+.+++. +..+....+.+.+.+.+++.||++....
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 3578999 99999 99999999999999999999984 4455555688999999999999988653
No 7
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.23 E-value=6.3e-06 Score=62.56 Aligned_cols=61 Identities=25% Similarity=0.403 Sum_probs=54.0
Q ss_pred EEEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEec---CC-HHHHHHHHHhcCCceEE
Q 046545 5 TVELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTGY---AH-RNKILKAIRRGGLKADF 66 (93)
Q Consensus 5 ~~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~~---~~-~~~i~~~i~~~G~~~~~ 66 (93)
+..+.+ ||+|. |..+|+ +|++++||....+|+.++++.+..+ .+ .+.+...++..||.+..
T Consensus 3 ~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~~~gy~~~~ 69 (713)
T COG2217 3 ETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATERATVVYDPEEVDLPADIVAAVEKAGYSARL 69 (713)
T ss_pred eeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccceEEEEecccccccHHHHHHHHHhcCccccc
Confidence 567999 99999 999999 9999999999999999999998732 34 68899999999997654
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=97.87 E-value=0.0004 Score=34.97 Aligned_cols=59 Identities=25% Similarity=0.305 Sum_probs=47.2
Q ss_pred EEEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEe---cCCHHHHHHHHHhcCCc
Q 046545 5 TVELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTG---YAHRNKILKAIRRGGLK 63 (93)
Q Consensus 5 ~~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~---~~~~~~i~~~i~~~G~~ 63 (93)
+..+.+ |+.|. |...++..++..+++....++.....+.+.. ......+...+...|+.
T Consensus 3 ~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 66 (68)
T TIGR00003 3 KFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGYE 66 (68)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCCC
Confidence 356899 99999 9999999999999999999999988877763 23566666666777764
No 9
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.74 E-value=0.00017 Score=55.80 Aligned_cols=66 Identities=23% Similarity=0.359 Sum_probs=58.6
Q ss_pred eEEEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEe---cCCHHHHHHHHHhcCCceEEecC
Q 046545 4 ETVELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTG---YAHRNKILKAIRRGGLKADFWSA 69 (93)
Q Consensus 4 ~~~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~---~~~~~~i~~~i~~~G~~~~~~~~ 69 (93)
.+..|.+ ||.|. |..++++.+..++||.+..++..++++.+.. ...+.++.+.+...|+.+...+.
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 3578999 99999 9999999999999999999999999999873 36899999999999998776653
No 10
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.45 E-value=0.00095 Score=51.66 Aligned_cols=63 Identities=19% Similarity=0.359 Sum_probs=53.5
Q ss_pred EEEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEecCCHHHHHHHHHhcCCceEEe
Q 046545 5 TVELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTGYAHRNKILKAIRRGGLKADFW 67 (93)
Q Consensus 5 ~~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~~~~~~~i~~~i~~~G~~~~~~ 67 (93)
+..+.+ ||+|. |...+++.+...+|+..+.+++.+++..+....+.+.+...+.+.||.+.+.
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 356889 99999 9999999999999999999999998877765456778888889999976544
No 11
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=97.42 E-value=0.00063 Score=52.79 Aligned_cols=65 Identities=22% Similarity=0.272 Sum_probs=56.9
Q ss_pred EEEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEe---cCCHHHHHHHHHhcCCceEEecC
Q 046545 5 TVELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTG---YAHRNKILKAIRRGGLKADFWSA 69 (93)
Q Consensus 5 ~~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~---~~~~~~i~~~i~~~G~~~~~~~~ 69 (93)
+..+++ ||.|. |...+++.++..+|+.++.+.+...+..+.. ...++.+.+.+++.|+.+.....
T Consensus 70 ~~~l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~~~~~v~~dp~v~s~~~~~e~ie~~gf~a~~i~~ 139 (951)
T KOG0207|consen 70 KCYLSVNGMTCASCVATIERNLRKIEGVESAVVALSASKAEVIYDPAVTSPDSIAESIEDLGFSAELIES 139 (951)
T ss_pred eeEEEecCceeHHHHHHHHHHhhccCCcceEEEEeeccceeEEECCcccCchhHHHHHHhcCccceehhc
Confidence 346889 99999 9999999999999999999999998888773 35789999999999999887654
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=97.18 E-value=0.0025 Score=48.93 Aligned_cols=64 Identities=20% Similarity=0.282 Sum_probs=51.0
Q ss_pred eEEEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEec-CCHHHHHHHHHhcCCceEEe
Q 046545 4 ETVELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTGY-AHRNKILKAIRRGGLKADFW 67 (93)
Q Consensus 4 ~~~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~~-~~~~~i~~~i~~~G~~~~~~ 67 (93)
.+..+.+ ||+|. |..++++.+...+|+..+.+++.++++.+... ...+.+...+...||.+...
T Consensus 53 ~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy~a~~~ 119 (741)
T PRK11033 53 TRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGFSLRDE 119 (741)
T ss_pred ceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHHhcccccccc
Confidence 3567889 99999 99999999999999999999999988777632 12256677788889876543
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=90.95 E-value=1.5 Score=23.56 Aligned_cols=60 Identities=25% Similarity=0.324 Sum_probs=42.4
Q ss_pred EEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEe---cCCHHHHHHHHHhcCCceE
Q 046545 6 VELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTG---YAHRNKILKAIRRGGLKAD 65 (93)
Q Consensus 6 ~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~---~~~~~~i~~~i~~~G~~~~ 65 (93)
..+.+ ++.|. |...++..+...+++.....+.......+.. ......+...+...|+..+
T Consensus 25 ~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ 89 (92)
T TIGR02052 25 VTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGYPSS 89 (92)
T ss_pred EEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCCeE
Confidence 45778 99999 9999999998888888777777777655542 1344455455566676643
No 14
>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=89.60 E-value=2 Score=22.88 Aligned_cols=52 Identities=15% Similarity=0.052 Sum_probs=36.6
Q ss_pred EEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEe--cCCHHHHHHHHHhcCCceEEe
Q 046545 7 ELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTG--YAHRNKILKAIRRGGLKADFW 67 (93)
Q Consensus 7 ~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~--~~~~~~i~~~i~~~G~~~~~~ 67 (93)
++.+ |+.|+ ...++.++|..++. ++.+.+.. ......+...++..|+....+
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~---------G~~l~v~~d~~~~~~di~~~~~~~g~~~~~~ 57 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPP---------GEVLEVLVDDPAAVEDIPRWCEENGYEVVEV 57 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGT---------T-EEEEEESSTTHHHHHHHHHHHHTEEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCC---------CCEEEEEECCccHHHHHHHHHHHCCCEEEEE
Confidence 5778 99999 99999999998743 23344432 234677888999999975544
No 15
>PRK13748 putative mercuric reductase; Provisional
Probab=89.45 E-value=4.9 Score=29.85 Aligned_cols=62 Identities=16% Similarity=0.216 Sum_probs=46.5
Q ss_pred EEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEe--cCCHHHHHHHHHhcCCceEEec
Q 046545 7 ELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTG--YAHRNKILKAIRRGGLKADFWS 68 (93)
Q Consensus 7 ~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~--~~~~~~i~~~i~~~G~~~~~~~ 68 (93)
.+.+ ++.|. |..+++..+...+++.....+.......+.. ......+...+...|+...+..
T Consensus 3 ~i~i~g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~~~ 68 (561)
T PRK13748 3 TLKITGMTCDSCAAHVKDALEKVPGVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATLAD 68 (561)
T ss_pred EEEECCeecHHHHHHHHHHHhcCCCeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeeccC
Confidence 4668 99999 9999999999999988888888887765552 2345556666777887765554
No 16
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=82.89 E-value=7.1 Score=22.63 Aligned_cols=64 Identities=23% Similarity=0.263 Sum_probs=40.6
Q ss_pred ceEEEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecC-----CC--EEEEEe-cCCHHHHHHHHHhcCCceEE
Q 046545 3 LETVELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDAN-----SQ--KVVVTG-YAHRNKILKAIRRGGLKADF 66 (93)
Q Consensus 3 ~~~~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~-----~~--~v~v~~-~~~~~~i~~~i~~~G~~~~~ 66 (93)
.++..+.+ -.+-. -.-.+.+.|++++||..+++... +. ++++.+ .++.+++...|++.|...+.
T Consensus 5 iRRlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~IHS 78 (97)
T COG1888 5 IRRLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAIHS 78 (97)
T ss_pred ceeeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCeeee
Confidence 34555555 33323 44456667888888877665433 33 334444 57999999999999976543
No 17
>PRK11018 hypothetical protein; Provisional
Probab=78.43 E-value=9.1 Score=21.09 Aligned_cols=52 Identities=15% Similarity=0.021 Sum_probs=37.3
Q ss_pred EEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 046545 6 VELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVT--GYAHRNKILKAIRRGGLKADF 66 (93)
Q Consensus 6 ~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~--~~~~~~~i~~~i~~~G~~~~~ 66 (93)
+++.. |+.|+ ...+.+++|.+++. ++.+.|. .......+...++..|+....
T Consensus 9 ~~lD~rG~~CP~Pvl~~kk~l~~l~~---------G~~L~V~~d~~~a~~di~~~~~~~G~~v~~ 64 (78)
T PRK11018 9 YRLDMVGEPCPYPAVATLEALPQLKK---------GEILEVVSDCPQSINNIPLDARNHGYTVLD 64 (78)
T ss_pred eeEECCCCcCCHHHHHHHHHHHhCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 57888 99999 99999999988742 2223332 223456778888899998643
No 18
>KOG4730 consensus D-arabinono-1, 4-lactone oxidase [Defense mechanisms]
Probab=74.97 E-value=7.1 Score=29.11 Aligned_cols=58 Identities=14% Similarity=0.245 Sum_probs=42.8
Q ss_pred EEEecCCCEEEEEecCCHHHHHHHHHhcCCceEEecC--CccccccccccCcCCccC-CCC
Q 046545 33 VEVDANSQKVVVTGYAHRNKILKAIRRGGLKADFWSA--QNELLSAYASASYGNLRF-NNF 90 (93)
Q Consensus 33 ~~~~~~~~~v~v~~~~~~~~i~~~i~~~G~~~~~~~~--~~~~~~~~~~~~~~~~~~-~~~ 90 (93)
+.+|+...+++|.+-+...++++.+.+.|+.....++ .-......+.+||++.-+ |.+
T Consensus 105 v~~dpe~~tvTV~aGirlrQLie~~~~~GlsL~~~~si~e~sVgGii~TGaHGSS~~vH~~ 165 (518)
T KOG4730|consen 105 VEFDPELKTVTVQAGIRLRQLIEELAKLGLSLPNAPSISEQSVGGIISTGAHGSSLWVHDY 165 (518)
T ss_pred eeeCchhceEEeccCcCHHHHHHHHHhcCccccCCCceecceeeeEEecccCCCccccCcc
Confidence 4457777888888778999999999999997655544 334446888888888755 543
No 19
>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=74.34 E-value=6.2 Score=17.14 Aligned_cols=37 Identities=38% Similarity=0.510 Sum_probs=27.1
Q ss_pred Ee-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEE
Q 046545 9 KV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVT 45 (93)
Q Consensus 9 ~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~ 45 (93)
.+ ++.|. |...++..+....++.....+.......+.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 41 (63)
T cd00371 3 SVEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATVE 41 (63)
T ss_pred eECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEEE
Confidence 46 78899 999999888888887766666665554443
No 20
>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=73.93 E-value=12 Score=20.03 Aligned_cols=51 Identities=12% Similarity=0.053 Sum_probs=35.6
Q ss_pred EEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHhcCCceEEe
Q 046545 8 LKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVT--GYAHRNKILKAIRRGGLKADFW 67 (93)
Q Consensus 8 ~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~--~~~~~~~i~~~i~~~G~~~~~~ 67 (93)
+.. |+.|+ ...+.+++|.+++. ++.+.|. .......+....+..|+.....
T Consensus 2 lD~rG~~CP~Pvl~~kkal~~l~~---------G~~l~V~~d~~~a~~di~~~~~~~G~~~~~~ 56 (69)
T cd03420 2 VDACGLQCPGPILKLKKEIDKLQD---------GEQLEVKASDPGFARDAQAWCKSTGNTLISL 56 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHHHcCCEEEEE
Confidence 456 99999 99999999988742 2233333 2234577888889999986543
No 21
>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=72.53 E-value=13 Score=19.90 Aligned_cols=51 Identities=18% Similarity=0.031 Sum_probs=35.6
Q ss_pred EEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHhcCCceEEe
Q 046545 8 LKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVT--GYAHRNKILKAIRRGGLKADFW 67 (93)
Q Consensus 8 ~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~--~~~~~~~i~~~i~~~G~~~~~~ 67 (93)
+.. |..|+ ..-+.+++|++++. ++.+.|. .......+....+..|+.....
T Consensus 2 lD~rG~~CP~Pvi~~kkal~~l~~---------G~~l~V~~d~~~s~~ni~~~~~~~g~~v~~~ 56 (69)
T cd03422 2 LDLRGEPCPYPAIATLEALPSLKP---------GEILEVISDCPQSINNIPIDARNHGYKVLAI 56 (69)
T ss_pred cccCCCcCCHHHHHHHHHHHcCCC---------CCEEEEEecCchHHHHHHHHHHHcCCEEEEE
Confidence 345 89999 99999999998742 2223332 2345677888888999987543
No 22
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=72.40 E-value=14 Score=20.53 Aligned_cols=50 Identities=18% Similarity=0.172 Sum_probs=33.1
Q ss_pred EEEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEe--cCCHHHHHHHHHhcC-Cc
Q 046545 5 TVELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTG--YAHRNKILKAIRRGG-LK 63 (93)
Q Consensus 5 ~~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~--~~~~~~i~~~i~~~G-~~ 63 (93)
..++.+ |+.|+ ....++++|.+++- ++.+.|.. ......|....+..| +.
T Consensus 5 ~~~LD~rG~~CP~Pv~~~kk~l~~m~~---------Ge~LeV~~ddp~~~~dIp~~~~~~~~~~ 59 (78)
T COG0425 5 DKVLDLRGLRCPGPVVETKKALAKLKP---------GEILEVIADDPAAKEDIPAWAKKEGGHE 59 (78)
T ss_pred ceEEeccCCcCCccHHHHHHHHHcCCC---------CCEEEEEecCcchHHHHHHHHHHcCCcE
Confidence 467899 99999 99999999998842 33333332 223456666666455 44
No 23
>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=71.57 E-value=13 Score=19.54 Aligned_cols=50 Identities=10% Similarity=0.155 Sum_probs=33.3
Q ss_pred EEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHhcCCceEEe
Q 046545 8 LKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVT--GYAHRNKILKAIRRGGLKADFW 67 (93)
Q Consensus 8 ~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~--~~~~~~~i~~~i~~~G~~~~~~ 67 (93)
+.. |+.|+ ...+.++++ .+.. ++.+.|. .......+...+++.|+.....
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~~---------g~~l~v~~d~~~s~~~i~~~~~~~G~~~~~~ 55 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELEA---------GGEIEVLVDNEVAKENVSRFAESRGYEVSVE 55 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcCC---------CCEEEEEEcChhHHHHHHHHHHHcCCEEEEE
Confidence 456 89999 999999999 5532 2223332 2234567888888999987433
No 24
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=70.40 E-value=19 Score=20.99 Aligned_cols=63 Identities=24% Similarity=0.278 Sum_probs=39.7
Q ss_pred eEEEEEe-eCcchhHHHHHHHHhCCCCeeEEEEec-----CCCEEEEE--e-cCCHHHHHHHHHhcCCceEE
Q 046545 4 ETVELKV-EMVGIHEKRLRKCLSKLRGIEKVEVDA-----NSQKVVVT--G-YAHRNKILKAIRRGGLKADF 66 (93)
Q Consensus 4 ~~~~~~i-gm~C~C~~~i~~~l~~~~Gv~~~~~~~-----~~~~v~v~--~-~~~~~~i~~~i~~~G~~~~~ 66 (93)
++..+.+ -.+-+-.-.+-+.|..++|+..+++.. .+..+.++ + .++.+.+.+.|++.|-..+-
T Consensus 5 rRlVLDVlKP~~p~i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~Gg~IHS 76 (95)
T PF02680_consen 5 RRLVLDVLKPHEPSIVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGGVIHS 76 (95)
T ss_dssp EEEEEEEEEESSS-HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-EEEE
T ss_pred eEEEEEeecCCCCCHHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCCeEEe
Confidence 4455555 333224456677789999988877653 34444443 5 47999999999999976543
No 25
>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=65.74 E-value=19 Score=19.17 Aligned_cols=51 Identities=16% Similarity=0.018 Sum_probs=35.5
Q ss_pred EEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHhcCCceEEe
Q 046545 8 LKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVT--GYAHRNKILKAIRRGGLKADFW 67 (93)
Q Consensus 8 ~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~--~~~~~~~i~~~i~~~G~~~~~~ 67 (93)
+.. |..|+ ..-+.+++|.+++- ++.+.|. .......+....+..|+.....
T Consensus 2 lD~~G~~CP~P~i~~k~~l~~l~~---------G~~l~V~~dd~~s~~di~~~~~~~g~~~~~~ 56 (69)
T cd03423 2 LDTRGLRCPEPVMMLHKKVRKMKP---------GDTLLVLATDPSTTRDIPKFCTFLGHELLAQ 56 (69)
T ss_pred ccccCCcCCHHHHHHHHHHHcCCC---------CCEEEEEeCCCchHHHHHHHHHHcCCEEEEE
Confidence 346 89999 99999999988742 2223332 2335677888899999986544
No 26
>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=59.94 E-value=23 Score=18.37 Aligned_cols=51 Identities=16% Similarity=0.051 Sum_probs=35.5
Q ss_pred EEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEEe--cCCHHHHHHHHHhcCCceEEe
Q 046545 8 LKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVTG--YAHRNKILKAIRRGGLKADFW 67 (93)
Q Consensus 8 ~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~--~~~~~~i~~~i~~~G~~~~~~ 67 (93)
+.. |+.|+ ...++.++|..++. ++.+.+.. ......+...++..|+.....
T Consensus 2 lD~rg~~CP~Pl~~~~~~l~~l~~---------g~~l~v~~d~~~~~~~i~~~~~~~g~~~~~~ 56 (69)
T cd00291 2 LDLRGLPCPLPVLKTKKALEKLKS---------GEVLEVLLDDPGAVEDIPAWAKETGHEVLEV 56 (69)
T ss_pred ccccCCcCCHHHHHHHHHHhcCCC---------CCEEEEEecCCcHHHHHHHHHHHcCCEEEEE
Confidence 456 89999 99999999988643 23333332 234677888899999986543
No 27
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=54.61 E-value=36 Score=18.81 Aligned_cols=53 Identities=11% Similarity=0.018 Sum_probs=36.8
Q ss_pred EEEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 046545 5 TVELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVT--GYAHRNKILKAIRRGGLKADF 66 (93)
Q Consensus 5 ~~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~--~~~~~~~i~~~i~~~G~~~~~ 66 (93)
.+++.. |+.|+ ...+.+++|.+++. ++.+.|. .....+.+....+..|++...
T Consensus 9 ~~~lD~~Gl~CP~Pll~~kk~l~~l~~---------G~~l~V~~dd~~~~~di~~~~~~~G~~~~~ 65 (81)
T PRK00299 9 DHTLDALGLRCPEPVMMVRKTVRNMQP---------GETLLIIADDPATTRDIPSFCRFMDHELLA 65 (81)
T ss_pred CeEEecCCCCCCHHHHHHHHHHHcCCC---------CCEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 356888 99999 99999999988742 2223332 223456677778889987653
No 28
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=51.62 E-value=63 Score=20.79 Aligned_cols=36 Identities=17% Similarity=0.141 Sum_probs=22.9
Q ss_pred CCceEEEEEeeCcchhHHHHHHHHhCCCCeeEEEEecCCC
Q 046545 1 MELETVELKVEMVGIHEKRLRKCLSKLRGIEKVEVDANSQ 40 (93)
Q Consensus 1 m~~~~~~~~igm~C~C~~~i~~~l~~~~Gv~~~~~~~~~~ 40 (93)
|.++++.| ++- |=+-++..+..++||.++.+-..++
T Consensus 1 ~~~~~a~f--agG--CFWg~E~~f~~~~GV~~t~vGYagG 36 (172)
T PRK14054 1 MMMETAVL--AGG--CFWGMEAPFDRVKGVISTRVGYTGG 36 (172)
T ss_pred CCceEEEE--EcC--ChhhhHHHHccCCCEEEEEeeecCC
Confidence 55554433 333 4455566677889999888766544
No 29
>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=44.62 E-value=88 Score=20.42 Aligned_cols=47 Identities=15% Similarity=0.116 Sum_probs=32.6
Q ss_pred eCcch-hHHHHHHHHhCCCCeeEEEEecCCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 046545 11 EMVGI-HEKRLRKCLSKLRGIEKVEVDANSQKVVVT--GYAHRNKILKAIRRGGLKADF 66 (93)
Q Consensus 11 gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~--~~~~~~~i~~~i~~~G~~~~~ 66 (93)
|+.|+ ...+.++++.+++. .+.+.|. .....+.+...++..||.+..
T Consensus 5 Gl~CP~Pvi~tKkal~~l~~---------g~~L~VlvD~~~a~~nV~~~~~~~G~~v~~ 54 (194)
T TIGR03527 5 GLACPQPVILTKKALDELGE---------EGVLTVIVDNEAAKENVSKFATSLGYEVEV 54 (194)
T ss_pred CCCCCHHHHHHHHHHHcCCC---------CCEEEEEECCccHHHHHHHHHHHcCCEEEE
Confidence 88999 99999999998752 1222222 233456777888889987653
No 30
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=42.86 E-value=31 Score=21.42 Aligned_cols=44 Identities=23% Similarity=0.257 Sum_probs=28.3
Q ss_pred hHHHHHHHHhCCCCeeEEEEecCCCEEE-EEecCCHHHHHHHHHh
Q 046545 16 HEKRLRKCLSKLRGIEKVEVDANSQKVV-VTGYAHRNKILKAIRR 59 (93)
Q Consensus 16 C~~~i~~~l~~~~Gv~~~~~~~~~~~v~-v~~~~~~~~i~~~i~~ 59 (93)
-....+++|++++.+.-+.-++..++.. -.+.-++++|+..|..
T Consensus 96 s~~i~rkvlQ~Le~~~~ve~hp~gGR~lt~~GqrdldrIa~~i~~ 140 (143)
T KOG3411|consen 96 SGGIARKVLQALEKMGIVEKHPKGGRRLTEQGQRDLDRIAGQIRE 140 (143)
T ss_pred ccHHHHHHHHHHHhCCceeeCCCCcceeCcccchhHHHHHHHHHh
Confidence 3444555566666677777777775544 3366678888877654
No 31
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=41.75 E-value=89 Score=19.67 Aligned_cols=36 Identities=19% Similarity=0.230 Sum_probs=24.8
Q ss_pred EEEEEe-eCcch-hHHHHHHHHhCCCCeeEEEEecC-CCE
Q 046545 5 TVELKV-EMVGI-HEKRLRKCLSKLRGIEKVEVDAN-SQK 41 (93)
Q Consensus 5 ~~~~~i-gm~C~-C~~~i~~~l~~~~Gv~~~~~~~~-~~~ 41 (93)
..++.| --.|. |..-|.....++ |+.++.+... +++
T Consensus 101 ~~tm~Vdr~vC~~C~~~i~~~a~~l-Gl~~L~I~~~~sG~ 139 (146)
T PF14437_consen 101 SMTMYVDRDVCGYCGGDIPSMAEKL-GLKSLTIHEPDSGK 139 (146)
T ss_pred eEEEEECcccchHHHHHHHHHHHHc-CCCeEEEEecCCCc
Confidence 456667 67799 998887766554 7777777655 443
No 32
>PRK10556 hypothetical protein; Provisional
Probab=40.34 E-value=49 Score=19.50 Aligned_cols=21 Identities=10% Similarity=0.406 Sum_probs=16.7
Q ss_pred CCHHHHHHHHHhcCCceEEec
Q 046545 48 AHRNKILKAIRRGGLKADFWS 68 (93)
Q Consensus 48 ~~~~~i~~~i~~~G~~~~~~~ 68 (93)
+.|+++...++++||....+.
T Consensus 3 LRPDEVArVLe~aGF~~D~vt 23 (111)
T PRK10556 3 LRPDEVARVLEKAGFTVDVVT 23 (111)
T ss_pred cChHHHHHHHHhcCceEEEee
Confidence 357889999999999766554
No 33
>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function. The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.
Probab=37.84 E-value=64 Score=16.94 Aligned_cols=19 Identities=32% Similarity=0.650 Sum_probs=13.8
Q ss_pred HHHHHHHHhCCCCeeEEEE
Q 046545 17 EKRLRKCLSKLRGIEKVEV 35 (93)
Q Consensus 17 ~~~i~~~l~~~~Gv~~~~~ 35 (93)
...++.+|..++|+.++.+
T Consensus 54 ~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 54 REEIREALKALPGVKSVKV 72 (72)
T ss_dssp HHHHHHHHHTSTT-SEEEE
T ss_pred HHHHHHHHHhCCCCceEeC
Confidence 4667888888999887764
No 34
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=31.65 E-value=89 Score=16.73 Aligned_cols=42 Identities=26% Similarity=0.451 Sum_probs=29.0
Q ss_pred HhCCCCeeEEEEecCCCEEEE--EecCCHHHHHHHHHhcCCceEEe
Q 046545 24 LSKLRGIEKVEVDANSQKVVV--TGYAHRNKILKAIRRGGLKADFW 67 (93)
Q Consensus 24 l~~~~Gv~~~~~~~~~~~v~v--~~~~~~~~i~~~i~~~G~~~~~~ 67 (93)
|..++||..+...- .+.+.+ .......+++..+...|. ..-.
T Consensus 26 l~~~~~v~~v~~~~-~~~~~i~l~~~~~~~~ll~~l~~~g~-I~~f 69 (84)
T PF13732_consen 26 LEELPGVESVEQDG-DGKLRIKLEDEETANELLQELIEKGI-IRSF 69 (84)
T ss_pred HhhCCCeEEEEEeC-CcEEEEEECCcccHHHHHHHHHhCCC-eeEE
Confidence 67779999887643 333444 444577889999998888 5544
No 35
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=31.33 E-value=1.1e+02 Score=17.44 Aligned_cols=43 Identities=21% Similarity=0.268 Sum_probs=30.2
Q ss_pred hHHHHHHHHhCCCCeeEEEEecCCCEEEEEe-cCCHHHHHHHHH
Q 046545 16 HEKRLRKCLSKLRGIEKVEVDANSQKVVVTG-YAHRNKILKAIR 58 (93)
Q Consensus 16 C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~~-~~~~~~i~~~i~ 58 (93)
-...+.+.|..++|+.-...+...+++.|.- ..+...+.+.+.
T Consensus 18 ~~~~V~~~l~~ipg~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~ 61 (87)
T PRK10553 18 RISDISTQLNAFPGCEVAVSDAPSGQLIVVVEAEDSETLLQTIE 61 (87)
T ss_pred HHHHHHHHHHcCCCcEEEeecCCCCeEEEEEEeCChHHHHHHHH
Confidence 4678889999999998877777777877763 234555544443
No 36
>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=30.26 E-value=1.3e+02 Score=19.38 Aligned_cols=22 Identities=14% Similarity=0.234 Sum_probs=16.5
Q ss_pred HHHHHHHhCCCCeeEEEEecCC
Q 046545 18 KRLRKCLSKLRGIEKVEVDANS 39 (93)
Q Consensus 18 ~~i~~~l~~~~Gv~~~~~~~~~ 39 (93)
..++.+|..++|+.++.+++..
T Consensus 134 ~dV~~aL~~l~gV~~V~V~l~~ 155 (174)
T TIGR03406 134 EDVEDKVLAVPNVDEVEVELVF 155 (174)
T ss_pred HHHHHHHHhCCCceeEEEEEEe
Confidence 4578888888999888876443
No 37
>COG2761 FrnE Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=29.07 E-value=1.8e+02 Score=19.68 Aligned_cols=37 Identities=24% Similarity=0.333 Sum_probs=24.6
Q ss_pred eEEEEEe--eCcch-h---HHHHHHHHhCCCCeeEEEEecCCC
Q 046545 4 ETVELKV--EMVGI-H---EKRLRKCLSKLRGIEKVEVDANSQ 40 (93)
Q Consensus 4 ~~~~~~i--gm~C~-C---~~~i~~~l~~~~Gv~~~~~~~~~~ 40 (93)
.++++.+ .+.|+ | ...+++++...++-..+.+....-
T Consensus 4 ~~i~I~v~sD~vCPwC~ig~~rL~ka~~~~~~~~~v~i~w~pf 46 (225)
T COG2761 4 MKIEIDVFSDVVCPWCYIGKRRLEKALAEYPQEVRVEIRWRPF 46 (225)
T ss_pred ceEEEEEEeCCcCchhhcCHHHHHHHHHhcCcceeEEEEeccc
Confidence 3455555 78899 9 677888888877555666654443
No 38
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=29.01 E-value=23 Score=18.87 Aligned_cols=14 Identities=7% Similarity=-0.095 Sum_probs=5.1
Q ss_pred EEEEEe-eCcch-hHH
Q 046545 5 TVELKV-EMVGI-HEK 18 (93)
Q Consensus 5 ~~~~~i-gm~C~-C~~ 18 (93)
.+.|++ |+.|. |..
T Consensus 41 ~v~fH~lg~KC~~C~S 56 (61)
T PF14599_consen 41 EVPFHFLGHKCSHCGS 56 (61)
T ss_dssp EEE--TT----TTTS-
T ss_pred ceeeeHhhhcCCCCCC
Confidence 467888 99999 864
No 39
>KOG4137 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.75 E-value=42 Score=19.64 Aligned_cols=20 Identities=25% Similarity=0.449 Sum_probs=14.1
Q ss_pred CCccccccccccCcCCccCCC
Q 046545 69 AQNELLSAYASASYGNLRFNN 89 (93)
Q Consensus 69 ~~~~~~~~~~~~~~~~~~~~~ 89 (93)
+-++...||++. .+.|||+|
T Consensus 54 DvTGLpapYtdP-~t~Lry~n 73 (102)
T KOG4137|consen 54 DVTGLPAPYTDP-NTGLRYHN 73 (102)
T ss_pred cccCCcccccCC-Cccceecc
Confidence 344555788877 77888876
No 40
>COG1832 Predicted CoA-binding protein [General function prediction only]
Probab=24.37 E-value=1.9e+02 Score=18.11 Aligned_cols=37 Identities=11% Similarity=0.084 Sum_probs=24.2
Q ss_pred CHHHHHHHHHhcCCceEEecCCccccccccccCcCCc
Q 046545 49 HRNKILKAIRRGGLKADFWSAQNELLSAYASASYGNL 85 (93)
Q Consensus 49 ~~~~i~~~i~~~G~~~~~~~~~~~~~~~~~~~~~~~~ 85 (93)
+.-.+.+-+.+.||++.++.+..........-+|.+|
T Consensus 31 ~sy~V~kyL~~~GY~ViPVNP~~~~~eiLG~k~y~sL 67 (140)
T COG1832 31 PSYRVAKYLQQKGYRVIPVNPKLAGEEILGEKVYPSL 67 (140)
T ss_pred cHHHHHHHHHHCCCEEEeeCcccchHHhcCchhhhcH
Confidence 3456778899999999998853333334444456666
No 41
>COG3603 Uncharacterized conserved protein [Function unknown]
Probab=24.22 E-value=1.8e+02 Score=17.82 Aligned_cols=46 Identities=22% Similarity=0.312 Sum_probs=28.3
Q ss_pred HHHHHHHHhCCCCeeEEEEecCC-CEEEEEecCCHHHHHHHHHhcCCce
Q 046545 17 EKRLRKCLSKLRGIEKVEVDANS-QKVVVTGYAHRNKILKAIRRGGLKA 64 (93)
Q Consensus 17 ~~~i~~~l~~~~Gv~~~~~~~~~-~~v~v~~~~~~~~i~~~i~~~G~~~ 64 (93)
..+|.+.|+. +||.-..++..+ .-+.|.. .++++..+.++++|+.+
T Consensus 80 lasV~~pLsd-~gigIFavStydtDhiLVr~-~dLekAv~~L~eaGhev 126 (128)
T COG3603 80 LASVSQPLSD-NGIGIFAVSTYDTDHILVRE-EDLEKAVKALEEAGHEV 126 (128)
T ss_pred hhhhhhhHhh-CCccEEEEEeccCceEEEeh-hhHHHHHHHHHHcCCcc
Confidence 3455555543 466555555444 4344444 47888899999999864
No 42
>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=23.57 E-value=2e+02 Score=17.97 Aligned_cols=30 Identities=20% Similarity=0.337 Sum_probs=25.7
Q ss_pred hHHHHHHHHhCCCCeeEEEEecCCCEEEEE
Q 046545 16 HEKRLRKCLSKLRGIEKVEVDANSQKVVVT 45 (93)
Q Consensus 16 C~~~i~~~l~~~~Gv~~~~~~~~~~~v~v~ 45 (93)
-+..|.+.+.+++||..+.+-.....+.|.
T Consensus 76 ~a~~i~~~v~~~~~V~~A~vvv~~~~a~Va 105 (177)
T PF09580_consen 76 LADRIANRVKKVPGVEDATVVVTDDNAYVA 105 (177)
T ss_pred HHHHHHHHHhcCCCceEEEEEEECCEEEEE
Confidence 467888889999999999998888888775
No 43
>PRK06418 transcription elongation factor NusA-like protein; Validated
Probab=23.41 E-value=82 Score=20.22 Aligned_cols=73 Identities=23% Similarity=0.281 Sum_probs=37.9
Q ss_pred CCceEEEEEe--eCcch-hHHHHHH------------HHhCC------CCeeEEEEecCCCEEEEE---ec---C-CHHH
Q 046545 1 MELETVELKV--EMVGI-HEKRLRK------------CLSKL------RGIEKVEVDANSQKVVVT---GY---A-HRNK 52 (93)
Q Consensus 1 m~~~~~~~~i--gm~C~-C~~~i~~------------~l~~~------~Gv~~~~~~~~~~~v~v~---~~---~-~~~~ 52 (93)
|..+--.+-+ |+-|+ |..+++. .|-.+ .++...+.-..+.++.+- ++ + ..-.
T Consensus 1 mk~p~~~~c~kt~ilC~~c~~~~~~G~v~~~dv~i~~~l~~l~~~~~l~~~~~~k~~~~ddrvIfvV~~gdg~aIGk~G~ 80 (166)
T PRK06418 1 MKIPICEVCVKTGLLCPRCQSLLDSGEVTELDVEVSKVLLKLEEDKELKDVEYKKAYEVDDLVILLVTSGPRIPIGKGGK 80 (166)
T ss_pred CCCceeeEEeccCccChhHHhHhhcCceEEeehHHHHHHHHhhccccccCceEEEEEEeCCEEEEEEeCCCcccccccch
Confidence 3444444555 89999 9887653 33333 344444444445555532 22 1 1123
Q ss_pred HHHHHH-hcCCceEEecCCccc
Q 046545 53 ILKAIR-RGGLKADFWSAQNEL 73 (93)
Q Consensus 53 i~~~i~-~~G~~~~~~~~~~~~ 73 (93)
.++.++ ..|.+++.+.+..++
T Consensus 81 ~ik~l~~~lgk~VevVE~s~d~ 102 (166)
T PRK06418 81 IAKALSRKLGKKVRVVEKTNDI 102 (166)
T ss_pred HHHHHHHHhCCcEEEEEcCCCH
Confidence 444444 568888877654443
No 44
>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=23.37 E-value=1.2e+02 Score=15.57 Aligned_cols=20 Identities=35% Similarity=0.524 Sum_probs=15.2
Q ss_pred hHHHHHHHHhCCCCeeEEEE
Q 046545 16 HEKRLRKCLSKLRGIEKVEV 35 (93)
Q Consensus 16 C~~~i~~~l~~~~Gv~~~~~ 35 (93)
....+-+.|++++||.++.+
T Consensus 55 ~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 55 DIDELLEELREIDGVEKVEL 74 (76)
T ss_pred HHHHHHHHHhcCCCeEEEEE
Confidence 34567777889999998764
No 45
>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=22.64 E-value=1.2e+02 Score=17.34 Aligned_cols=21 Identities=33% Similarity=0.504 Sum_probs=17.9
Q ss_pred hHHHHHHHHhCCCCeeEEEEe
Q 046545 16 HEKRLRKCLSKLRGIEKVEVD 36 (93)
Q Consensus 16 C~~~i~~~l~~~~Gv~~~~~~ 36 (93)
-...++..+++++||.++.+-
T Consensus 63 ~td~lee~i~~ve~V~svev~ 83 (88)
T TIGR00489 63 GTEAAEESLSGIEGVESVEVT 83 (88)
T ss_pred ChHHHHHHHhcCCCccEEEEE
Confidence 467899999999999988774
No 46
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.04 E-value=51 Score=18.51 Aligned_cols=14 Identities=29% Similarity=0.249 Sum_probs=11.9
Q ss_pred cch-hHHHHHHHHhC
Q 046545 13 VGI-HEKRLRKCLSK 26 (93)
Q Consensus 13 ~C~-C~~~i~~~l~~ 26 (93)
.|+ |..++++.|+.
T Consensus 35 ~ce~c~a~~kk~l~~ 49 (82)
T COG2331 35 TCEECGARLKKLLNA 49 (82)
T ss_pred cChhhChHHHHhhcc
Confidence 599 99999998865
No 47
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=21.40 E-value=1.5e+02 Score=15.89 Aligned_cols=25 Identities=20% Similarity=0.037 Sum_probs=14.5
Q ss_pred Ccch-hHHHHHHHHhCC----CCeeEEEEec
Q 046545 12 MVGI-HEKRLRKCLSKL----RGIEKVEVDA 37 (93)
Q Consensus 12 m~C~-C~~~i~~~l~~~----~Gv~~~~~~~ 37 (93)
-.|+ |. ++.+.|..+ .|+.-..+|.
T Consensus 9 ~~C~~C~-~a~~~L~~l~~~~~~i~~~~idi 38 (85)
T PRK11200 9 PGCPYCV-RAKELAEKLSEERDDFDYRYVDI 38 (85)
T ss_pred CCChhHH-HHHHHHHhhcccccCCcEEEEEC
Confidence 3699 97 555556654 4555444443
No 48
>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=21.04 E-value=1.5e+02 Score=19.37 Aligned_cols=22 Identities=23% Similarity=0.447 Sum_probs=17.9
Q ss_pred HHHHHHHHhCCCCeeEEEEecC
Q 046545 17 EKRLRKCLSKLRGIEKVEVDAN 38 (93)
Q Consensus 17 ~~~i~~~l~~~~Gv~~~~~~~~ 38 (93)
...+++.|+.++||.++.+++.
T Consensus 117 e~eL~~tI~~i~gV~~A~V~l~ 138 (206)
T PF01514_consen 117 EGELERTIESIDGVESARVHLV 138 (206)
T ss_dssp HHHHHHHHTTSTTEEEEEEEEE
T ss_pred HHHHHHHHHcCCCeeEEEEEEe
Confidence 4567888999999999888743
No 49
>PF09400 DUF2002: Protein of unknown function (DUF2002); InterPro: IPR018994 This entry represents a group of putative cytoplasmic proteins. The structure of these proteins form an antiparallel beta sheet and contain some alpha helical regions. ; PDB: 2G7J_A.
Probab=20.44 E-value=80 Score=18.80 Aligned_cols=21 Identities=10% Similarity=0.491 Sum_probs=15.2
Q ss_pred CCHHHHHHHHHhcCCceEEec
Q 046545 48 AHRNKILKAIRRGGLKADFWS 68 (93)
Q Consensus 48 ~~~~~i~~~i~~~G~~~~~~~ 68 (93)
+.|+++...|+++|+.-..+.
T Consensus 3 lrpdeva~vle~~gf~~d~v~ 23 (111)
T PF09400_consen 3 LRPDEVARVLEKAGFERDYVT 23 (111)
T ss_dssp --HHHHHHHHHHTT-EEEEEE
T ss_pred cChHHHHHHHHhcCceEEEee
Confidence 357899999999999876665
Done!