Query 033693
Match_columns 113
No_of_seqs 115 out of 1120
Neff 11.2
Searched_HMMs 46136
Date Fri Mar 29 05:12:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033693.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033693hhsearch_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 2.5E-13 5.4E-18 66.2 8.5 58 6-63 1-62 (62)
2 COG2608 CopZ Copper chaperone 99.4 4.7E-12 1E-16 63.1 9.0 63 3-65 2-68 (71)
3 PRK10671 copA copper exporting 99.1 1.7E-09 3.8E-14 75.9 10.2 64 1-66 1-65 (834)
4 KOG4656 Copper chaperone for s 98.9 2.5E-08 5.4E-13 58.3 7.9 64 4-67 8-71 (247)
5 KOG0207 Cation transport ATPas 98.8 2.8E-08 6.2E-13 68.9 7.9 82 10-91 2-86 (951)
6 KOG1603 Copper chaperone [Inor 98.7 2.6E-07 5.6E-12 46.3 7.8 58 4-61 6-63 (73)
7 COG2217 ZntA Cation transport 98.6 2.4E-07 5.2E-12 64.0 7.8 63 3-66 2-69 (713)
8 KOG0207 Cation transport ATPas 98.5 9.9E-07 2.2E-11 61.6 8.7 87 5-91 71-163 (951)
9 PLN02957 copper, zinc superoxi 98.5 8.4E-06 1.8E-10 49.8 10.4 66 4-69 7-72 (238)
10 TIGR00003 copper ion binding p 98.2 5.3E-05 1.2E-09 35.7 8.7 60 4-63 3-66 (68)
11 PRK11033 zntA zinc/cadmium/mer 97.6 0.00055 1.2E-08 48.4 8.2 63 4-66 54-118 (741)
12 PRK10671 copA copper exporting 97.6 0.00053 1.1E-08 49.1 8.1 62 4-65 100-162 (834)
13 PRK13748 putative mercuric red 93.7 1.5 3.3E-05 30.4 9.1 64 6-69 3-69 (561)
14 TIGR02052 MerP mercuric transp 90.6 1.3 2.7E-05 22.1 9.6 61 4-64 24-88 (92)
15 PF01206 TusA: Sulfurtransfera 86.8 2.5 5.3E-05 20.6 5.8 53 6-67 2-57 (70)
16 PRK11018 hypothetical protein; 81.1 5.5 0.00012 20.1 6.6 53 5-66 9-64 (78)
17 PRK00299 sulfur transfer prote 77.1 7.9 0.00017 19.6 6.8 54 4-66 9-65 (81)
18 cd03420 SirA_RHOD_Pry_redox Si 73.8 8.9 0.00019 18.7 5.6 52 7-67 2-56 (69)
19 PRK14054 methionine sulfoxide 73.7 11 0.00023 22.4 4.1 28 14-41 10-37 (172)
20 cd03421 SirA_like_N SirA_like_ 70.3 11 0.00023 18.1 5.4 50 7-66 2-54 (67)
21 PRK05528 methionine sulfoxide 70.3 6.6 0.00014 22.8 2.7 28 14-41 8-35 (156)
22 cd03422 YedF YedF is a bacteri 69.2 12 0.00026 18.2 5.6 51 8-67 3-56 (69)
23 PF01625 PMSR: Peptide methion 69.2 11 0.00024 21.9 3.5 27 14-40 7-33 (155)
24 cd00371 HMA Heavy-metal-associ 67.4 8.1 0.00018 15.7 7.3 37 8-44 3-40 (63)
25 cd03423 SirA SirA (also known 63.1 17 0.00036 17.7 6.1 51 8-67 3-56 (69)
26 TIGR00401 msrA methionine-S-su 62.3 12 0.00026 21.5 2.7 28 14-41 7-34 (149)
27 cd00291 SirA_YedF_YeeD SirA, Y 58.1 20 0.00044 17.1 5.6 51 7-66 2-55 (69)
28 PRK00058 methionine sulfoxide 57.2 14 0.0003 22.8 2.5 27 14-40 52-78 (213)
29 PF02680 DUF211: Uncharacteriz 54.4 32 0.0007 18.3 5.8 50 17-66 19-76 (95)
30 COG1888 Uncharacterized protei 54.3 32 0.00069 18.1 5.7 51 17-67 21-79 (97)
31 PRK13014 methionine sulfoxide 52.5 13 0.00029 22.3 1.9 28 14-41 15-42 (186)
32 COG0225 MsrA Peptide methionin 51.4 20 0.00044 21.3 2.5 28 14-41 13-40 (174)
33 COG4669 EscJ Type III secretor 47.9 33 0.00071 21.6 3.1 22 17-38 111-132 (246)
34 COG4837 Uncharacterized protei 47.8 13 0.00028 19.7 1.2 19 1-19 1-22 (106)
35 PF01514 YscJ_FliF: Secretory 46.1 43 0.00094 20.4 3.4 21 17-37 117-137 (206)
36 PF15114 UPF0640: Uncharacteri 45.9 2.9 6.3E-05 20.5 -1.3 21 91-112 24-44 (69)
37 COG0425 SirA Predicted redox p 45.5 42 0.0009 17.0 6.8 53 4-65 5-61 (78)
38 PF01883 DUF59: Domain of unkn 45.2 38 0.00082 16.4 2.7 19 17-35 54-72 (72)
39 PF10831 DUF2556: Protein of u 44.2 6 0.00013 17.9 -0.3 21 91-112 5-25 (53)
40 TIGR03527 selenium_YedF seleni 43.9 73 0.0016 19.3 6.0 49 10-67 5-55 (194)
41 TIGR02544 III_secr_YscJ type I 40.9 48 0.001 20.0 3.0 21 17-37 109-129 (193)
42 KOG1635 Peptide methionine sul 39.3 42 0.00091 20.1 2.5 28 14-41 31-58 (191)
43 PRK15348 type III secretion sy 39.1 54 0.0012 20.8 3.1 21 17-37 109-129 (249)
44 PRK05550 bifunctional methioni 37.8 41 0.00088 21.8 2.5 28 14-41 134-161 (283)
45 PF09580 Spore_YhcN_YlaJ: Spor 35.6 93 0.002 18.1 5.9 30 16-45 76-105 (177)
46 PF04805 Pox_E10: E10-like pro 33.7 35 0.00075 16.9 1.4 20 10-29 15-34 (70)
47 PRK15324 type III secretion sy 33.1 66 0.0014 20.5 2.8 21 17-37 110-130 (252)
48 PF14599 zinc_ribbon_6: Zinc-r 32.6 22 0.00047 17.2 0.6 15 4-18 41-56 (61)
49 PRK11589 gcvR glycine cleavage 30.4 1E+02 0.0022 18.7 3.2 29 1-29 5-34 (190)
50 PRK14018 trifunctional thiored 29.9 63 0.0014 22.9 2.6 28 14-41 205-232 (521)
51 PF13193 AMP-binding_C: AMP-bi 28.3 81 0.0017 15.1 2.8 18 19-36 1-18 (73)
52 PHA03005 sulfhydryl oxidase; P 26.2 56 0.0012 17.3 1.5 19 10-28 40-58 (96)
53 PF15643 Tox-PL-2: Papain fold 26.1 99 0.0021 16.7 2.4 27 10-37 18-44 (100)
54 PF09122 DUF1930: Domain of un 25.5 97 0.0021 15.1 3.7 39 6-44 22-61 (68)
55 COG2151 PaaD Predicted metal-s 23.9 1.4E+02 0.003 16.4 2.8 21 17-37 69-89 (111)
56 PF07123 PsbW: Photosystem II 20.7 42 0.00091 19.1 0.4 16 96-111 107-122 (138)
57 TIGR02945 SUF_assoc FeS assemb 20.0 1.5E+02 0.0033 15.4 2.8 20 19-38 59-78 (99)
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=99.53 E-value=2.5e-13 Score=66.20 Aligned_cols=58 Identities=34% Similarity=0.741 Sum_probs=52.9
Q ss_pred EEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE---ecCCHHHHHHHHHhcCCc
Q 033693 6 VLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK---GNVQPDAVLQTVSKTGKK 63 (113)
Q Consensus 6 ~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~---~~~~~~~i~~~i~~~g~~ 63 (113)
+|.+ ||+|++|++++++++.+++||.++.+|+.++++.+. ....++++.+.+++.||+
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 999999999999999999999999999999999998 235679999999999984
No 2
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.43 E-value=4.7e-12 Score=63.13 Aligned_cols=63 Identities=35% Similarity=0.677 Sum_probs=56.6
Q ss_pred eEEEEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--e-cCCHHHHHHHHHhcCCceE
Q 033693 3 QTVVLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--G-NVQPDAVLQTVSKTGKKTA 65 (113)
Q Consensus 3 ~~~~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~-~~~~~~i~~~i~~~g~~~~ 65 (113)
.+..+++ ||+|.+|+..++++|++++|+..+.+++..+...+. + ....+++.+++..+||...
T Consensus 2 ~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~ 68 (71)
T COG2608 2 MKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVE 68 (71)
T ss_pred ceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCee
Confidence 3568999 999999999999999999999999999999777776 3 5789999999999999864
No 3
>PRK10671 copA copper exporting ATPase; Provisional
Probab=99.09 E-value=1.7e-09 Score=75.85 Aligned_cols=64 Identities=33% Similarity=0.596 Sum_probs=56.0
Q ss_pred CceEEEEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEEecCCHHHHHHHHHhcCCceEE
Q 033693 1 MSQTVVLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVKGNVQPDAVLQTVSKTGKKTAF 66 (113)
Q Consensus 1 ~~~~~~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~~~~~~~~i~~~i~~~g~~~~~ 66 (113)
|+++..+++ ||+|.+|+.++++++++++|+..+.+++. +..+....+.+.+.+.+++.||....
T Consensus 1 ~~~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~ 65 (834)
T PRK10671 1 MSQTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASV 65 (834)
T ss_pred CCeEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee--EEEEEecCCHHHHHHHHHhcCCcccc
Confidence 778899999 99999999999999999999999999984 34444446788999999999998765
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.88 E-value=2.5e-08 Score=58.32 Aligned_cols=64 Identities=33% Similarity=0.633 Sum_probs=58.2
Q ss_pred EEEEEeCCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEEecCCHHHHHHHHHhcCCceEEe
Q 033693 4 TVVLKVGMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVKGNVQPDAVLQTVSKTGKKTAFW 67 (113)
Q Consensus 4 ~~~~~ig~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~~~~~~~~i~~~i~~~g~~~~~~ 67 (113)
+.+|.++|+|.+|++.+++.|+..+|+.++++++..+.+.++.+..++++...++.+|-++...
T Consensus 8 ~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~ 71 (247)
T KOG4656|consen 8 EAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLR 71 (247)
T ss_pred eEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEe
Confidence 4678889999999999999999999999999999999999998888999999999999876543
No 5
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.83 E-value=2.8e-08 Score=68.93 Aligned_cols=82 Identities=18% Similarity=0.572 Sum_probs=72.1
Q ss_pred CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--ecCCHHHHHHHHHhcCCceEEecCCCCCceeEEEEec-ccch
Q 033693 10 GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKTGKKTAFWERGKTSTSRIRFEAH-RSCS 86 (113)
Q Consensus 10 g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~~~~~~~~~~~~~~~~~-~~c~ 86 (113)
||+|..|++.++..+.+.+|+....+++..+...+. ...+++.+.+.+++.|+.+...........+..+.++ |+|.
T Consensus 2 gmtc~ac~~si~~~~~~~~g~~~i~vsl~~~~~~v~~~~~~~~~~i~~~ied~gf~~~~~~~~~~~~~~~~l~v~GmtC~ 81 (951)
T KOG0207|consen 2 GMTCSACSNSIEKAISRKPGVQKIEVSLAQKRANVSYDNIVSPESIKETIEDMGFEASLLSDSEITASKCYLSVNGMTCA 81 (951)
T ss_pred CccHHHHhhhHHHHHhcCCCceeEEEEeccccceEEEeeccCHHHHHHHhhcccceeeecccCccccceeEEEecCceeH
Confidence 899999999999999999999999999999998887 5678999999999999999887766665556677776 9999
Q ss_pred hhhcc
Q 033693 87 CCLRY 91 (113)
Q Consensus 87 ~c~~~ 91 (113)
+|.+.
T Consensus 82 scv~~ 86 (951)
T KOG0207|consen 82 SCVAT 86 (951)
T ss_pred HHHHH
Confidence 99765
No 6
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=98.73 E-value=2.6e-07 Score=46.30 Aligned_cols=58 Identities=66% Similarity=1.007 Sum_probs=52.6
Q ss_pred EEEEEeCCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEEecCCHHHHHHHHHhcC
Q 033693 4 TVVLKVGMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVKGNVQPDAVLQTVSKTG 61 (113)
Q Consensus 4 ~~~~~ig~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~~~~~~~~i~~~i~~~g 61 (113)
...+++.|+|.+|..++.+.++.+.||.+..++...+.+++.+..++..+.+.+.+.+
T Consensus 6 ~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~ 63 (73)
T KOG1603|consen 6 TVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTG 63 (73)
T ss_pred EEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCCEEEEEEecCHHHHHHHHHhcC
Confidence 4556669999999999999999999999999999999999986689999999999866
No 7
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.63 E-value=2.4e-07 Score=64.01 Aligned_cols=63 Identities=30% Similarity=0.624 Sum_probs=55.5
Q ss_pred eEEEEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE-e--cCC-HHHHHHHHHhcCCceEE
Q 033693 3 QTVVLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK-G--NVQ-PDAVLQTVSKTGKKTAF 66 (113)
Q Consensus 3 ~~~~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~-~--~~~-~~~i~~~i~~~g~~~~~ 66 (113)
++..+.+ ||+|+.|++++| .+++++||....+|+.+++..+. . ..+ .+++...+++.||....
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 4578999 999999999999 99999999999999999999887 2 234 78899999999998754
No 8
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.54 E-value=9.9e-07 Score=61.62 Aligned_cols=87 Identities=26% Similarity=0.548 Sum_probs=71.9
Q ss_pred EEEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE---ecCCHHHHHHHHHhcCCceEEecCCCCC-ceeEEE
Q 033693 5 VVLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK---GNVQPDAVLQTVSKTGKKTAFWERGKTS-TSRIRF 79 (113)
Q Consensus 5 ~~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~---~~~~~~~i~~~i~~~g~~~~~~~~~~~~-~~~~~~ 79 (113)
-.+.+ ||+|.+|++.+++.+++.+|+.+..+.+......+. ....++.+.+.+++.|+.....+..... .+...+
T Consensus 71 ~~l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~~~~~v~~dp~v~s~~~~~e~ie~~gf~a~~i~~~~~~~~~~i~L 150 (951)
T KOG0207|consen 71 CYLSVNGMTCASCVATIERNLRKIEGVESAVVALSASKAEVIYDPAVTSPDSIAESIEDLGFSAELIESVNGNSNQKIYL 150 (951)
T ss_pred eEEEecCceeHHHHHHHHHHhhccCCcceEEEEeeccceeEEECCcccCchhHHHHHHhcCccceehhcccCCCCCcEEE
Confidence 45789 999999999999999999999999999988888776 3478889999999999998876544322 256677
Q ss_pred Eec-ccchhhhcc
Q 033693 80 EAH-RSCSCCLRY 91 (113)
Q Consensus 80 ~~~-~~c~~c~~~ 91 (113)
.+. |+|.+|...
T Consensus 151 ~v~g~~c~s~~~~ 163 (951)
T KOG0207|consen 151 DVLGMTCASCVSK 163 (951)
T ss_pred Eeecccccchhhh
Confidence 776 999999755
No 9
>PLN02957 copper, zinc superoxide dismutase
Probab=98.46 E-value=8.4e-06 Score=49.81 Aligned_cols=66 Identities=35% Similarity=0.603 Sum_probs=56.3
Q ss_pred EEEEEeCCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEEecCCHHHHHHHHHhcCCceEEecC
Q 033693 4 TVVLKVGMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVKGNVQPDAVLQTVSKTGKKTAFWER 69 (113)
Q Consensus 4 ~~~~~ig~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~~~~~~~~i~~~i~~~g~~~~~~~~ 69 (113)
+..+.++|.|.+|+..+++.+++.+|+....+++..+++.+.......++.+.+.+.||...+...
T Consensus 7 ~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~ 72 (238)
T PLN02957 7 LTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQ 72 (238)
T ss_pred EEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecC
Confidence 355666999999999999999999999999999999988887545788888999999998766543
No 10
>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=98.24 E-value=5.3e-05 Score=35.74 Aligned_cols=60 Identities=20% Similarity=0.527 Sum_probs=47.6
Q ss_pred EEEEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEEe---cCCHHHHHHHHHhcCCc
Q 033693 4 TVVLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVKG---NVQPDAVLQTVSKTGKK 63 (113)
Q Consensus 4 ~~~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~~---~~~~~~i~~~i~~~g~~ 63 (113)
+..+.+ |+.|..|...+++.++..+++....+++......+.. ......+...+...|+.
T Consensus 3 ~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 66 (68)
T TIGR00003 3 KFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGYE 66 (68)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCCC
Confidence 457899 9999999999999999999999999999888877652 23556665666666664
No 11
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=97.64 E-value=0.00055 Score=48.38 Aligned_cols=63 Identities=25% Similarity=0.387 Sum_probs=50.7
Q ss_pred EEEEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE-ecCCHHHHHHHHHhcCCceEE
Q 033693 4 TVVLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK-GNVQPDAVLQTVSKTGKKTAF 66 (113)
Q Consensus 4 ~~~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~-~~~~~~~i~~~i~~~g~~~~~ 66 (113)
+..+.+ ||+|++|++.+++.+.+.+|+..+.+++.+.+..+. .....+++.+.+.+.||....
T Consensus 54 r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy~a~~ 118 (741)
T PRK11033 54 RYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGFSLRD 118 (741)
T ss_pred eEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCCeEEEEecccchHHHHHHHHhccccccc
Confidence 567889 999999999999999999999999999998887765 222235666777888887543
No 12
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.63 E-value=0.00053 Score=49.06 Aligned_cols=62 Identities=32% Similarity=0.580 Sum_probs=52.6
Q ss_pred EEEEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEEecCCHHHHHHHHHhcCCceE
Q 033693 4 TVVLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVKGNVQPDAVLQTVSKTGKKTA 65 (113)
Q Consensus 4 ~~~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~~~~~~~~i~~~i~~~g~~~~ 65 (113)
+..+.+ ||+|.+|++.+++.+.+.+|+....+++.+.+..+....+++++.+.+.+.||...
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~a~ 162 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAERTALVMGSASPQDLVQAVEKAGYGAE 162 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCCcc
Confidence 356889 99999999999999999999999999999888776644567777788888898754
No 13
>PRK13748 putative mercuric reductase; Provisional
Probab=93.71 E-value=1.5 Score=30.42 Aligned_cols=64 Identities=28% Similarity=0.556 Sum_probs=46.9
Q ss_pred EEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--ecCCHHHHHHHHHhcCCceEEecC
Q 033693 6 VLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKTGKKTAFWER 69 (113)
Q Consensus 6 ~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~~~~ 69 (113)
.+.+ ++.|.+|...++..+...+++.....++......+. .......+...+...++...+...
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 999999999999999999998888888877775554 223455555666777776554433
No 14
>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=90.62 E-value=1.3 Score=22.13 Aligned_cols=61 Identities=30% Similarity=0.521 Sum_probs=42.5
Q ss_pred EEEEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE-e--cCCHHHHHHHHHhcCCce
Q 033693 4 TVVLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK-G--NVQPDAVLQTVSKTGKKT 64 (113)
Q Consensus 4 ~~~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~-~--~~~~~~i~~~i~~~g~~~ 64 (113)
...+.+ ++.|..|...++..+...+++.....+.......+. . ......+.......|+..
T Consensus 24 ~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 88 (92)
T TIGR02052 24 TVTLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGYPS 88 (92)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCCe
Confidence 345678 999999999999999999998878777777664443 1 234444445555566653
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=86.78 E-value=2.5 Score=20.57 Aligned_cols=53 Identities=15% Similarity=0.187 Sum_probs=38.1
Q ss_pred EEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--ecCCHHHHHHHHHhcCCceEEe
Q 033693 6 VLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKTGKKTAFW 67 (113)
Q Consensus 6 ~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~~ 67 (113)
++.. |..|+.+...+.+++.+++.- +.+.+. .+....++.......|+.....
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~~G---------~~l~v~~d~~~~~~di~~~~~~~g~~~~~~ 57 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELPPG---------EVLEVLVDDPAAVEDIPRWCEENGYEVVEV 57 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSGTT----------EEEEEESSTTHHHHHHHHHHHHTEEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcCCC---------CEEEEEECCccHHHHHHHHHHHCCCEEEEE
Confidence 5677 999999999999999987332 333333 4456788888999999975443
No 16
>PRK11018 hypothetical protein; Provisional
Probab=81.06 E-value=5.5 Score=20.07 Aligned_cols=53 Identities=13% Similarity=0.058 Sum_probs=39.3
Q ss_pred EEEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 033693 5 VVLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKTGKKTAF 66 (113)
Q Consensus 5 ~~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~ 66 (113)
..+.. |..|+-..-+..+++++++.. +.+.+. .......+.......|+....
T Consensus 9 ~~lD~rG~~CP~Pvl~~kk~l~~l~~G---------~~L~V~~d~~~a~~di~~~~~~~G~~v~~ 64 (78)
T PRK11018 9 YRLDMVGEPCPYPAVATLEALPQLKKG---------EILEVVSDCPQSINNIPLDARNHGYTVLD 64 (78)
T ss_pred eeEECCCCcCCHHHHHHHHHHHhCCCC---------CEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 56778 999999999999999987432 223332 345667788888999998754
No 17
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=77.10 E-value=7.9 Score=19.65 Aligned_cols=54 Identities=11% Similarity=0.142 Sum_probs=39.4
Q ss_pred EEEEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 033693 4 TVVLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKTGKKTAF 66 (113)
Q Consensus 4 ~~~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~ 66 (113)
..++.. |..|+...-...+++++++.. +.+.+. .+.....+..-.+..|+....
T Consensus 9 ~~~lD~~Gl~CP~Pll~~kk~l~~l~~G---------~~l~V~~dd~~~~~di~~~~~~~G~~~~~ 65 (81)
T PRK00299 9 DHTLDALGLRCPEPVMMVRKTVRNMQPG---------ETLLIIADDPATTRDIPSFCRFMDHELLA 65 (81)
T ss_pred CeEEecCCCCCCHHHHHHHHHHHcCCCC---------CEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 356788 999999999999999987422 233332 345677778888899998754
No 18
>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=73.79 E-value=8.9 Score=18.69 Aligned_cols=52 Identities=17% Similarity=0.281 Sum_probs=37.9
Q ss_pred EEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--ecCCHHHHHHHHHhcCCceEEe
Q 033693 7 LKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKTGKKTAFW 67 (113)
Q Consensus 7 ~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~~ 67 (113)
+.. |..|+-...+..+++.+++. ++.+.+. .......+..-.+..|+.....
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 356 99999999999999988742 2233333 3456778888899999987643
No 19
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=73.70 E-value=11 Score=22.36 Aligned_cols=28 Identities=14% Similarity=0.354 Sum_probs=24.6
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEecCCE
Q 033693 14 EGCVGAVKRVLGKMDGVETFDIDLKEQK 41 (113)
Q Consensus 14 ~~c~~~i~~~~~~~~gv~~~~~~~~~~~ 41 (113)
.+|=|.+|..+.+++||..+.+.++++.
T Consensus 10 gGCFWg~E~~f~~~~GV~~t~vGYagG~ 37 (172)
T PRK14054 10 GGCFWGMEAPFDRVKGVISTRVGYTGGH 37 (172)
T ss_pred cCChhhhHHHHccCCCEEEEEeeecCCC
Confidence 4689999999999999999999887664
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=70.32 E-value=11 Score=18.14 Aligned_cols=50 Identities=18% Similarity=0.363 Sum_probs=34.5
Q ss_pred EEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 033693 7 LKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKTGKKTAF 66 (113)
Q Consensus 7 ~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~ 66 (113)
+.. |+.|+.......+++ ++.. ++.+.+. .......+....+..|+....
T Consensus 2 lD~rG~~CP~P~l~~k~al-~~~~---------g~~l~v~~d~~~s~~~i~~~~~~~G~~~~~ 54 (67)
T cd03421 2 IDARGLACPQPVIKTKKAL-ELEA---------GGEIEVLVDNEVAKENVSRFAESRGYEVSV 54 (67)
T ss_pred cccCCCCCCHHHHHHHHHH-hcCC---------CCEEEEEEcChhHHHHHHHHHHHcCCEEEE
Confidence 346 899999999999999 5422 2223322 334567788888999998743
No 21
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=70.28 E-value=6.6 Score=22.84 Aligned_cols=28 Identities=18% Similarity=0.357 Sum_probs=24.1
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEecCCE
Q 033693 14 EGCVGAVKRVLGKMDGVETFDIDLKEQK 41 (113)
Q Consensus 14 ~~c~~~i~~~~~~~~gv~~~~~~~~~~~ 41 (113)
.+|=|.+|..+.+++||.++.+.++++.
T Consensus 8 gGCFWg~E~~f~~l~GV~~t~vGYagG~ 35 (156)
T PRK05528 8 GGCLWGVQAFFKTLPGVIHTEAGRANGR 35 (156)
T ss_pred cCCchhhHHHHhcCCCEEEEEEEcCCCC
Confidence 4688999999999999999999876644
No 22
>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=69.18 E-value=12 Score=18.25 Aligned_cols=51 Identities=14% Similarity=0.054 Sum_probs=37.3
Q ss_pred Ee-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--ecCCHHHHHHHHHhcCCceEEe
Q 033693 8 KV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKTGKKTAFW 67 (113)
Q Consensus 8 ~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~~ 67 (113)
.. |..|+-...+..+++++++.. +.+.+. .......+....+..|+.....
T Consensus 3 D~rG~~CP~Pvi~~kkal~~l~~G---------~~l~V~~d~~~s~~ni~~~~~~~g~~v~~~ 56 (69)
T cd03422 3 DLRGEPCPYPAIATLEALPSLKPG---------EILEVISDCPQSINNIPIDARNHGYKVLAI 56 (69)
T ss_pred ccCCCcCCHHHHHHHHHHHcCCCC---------CEEEEEecCchHHHHHHHHHHHcCCEEEEE
Confidence 45 899999999999999987422 223332 4466777888899999987543
No 23
>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=69.17 E-value=11 Score=21.86 Aligned_cols=27 Identities=19% Similarity=0.385 Sum_probs=24.1
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEecCC
Q 033693 14 EGCVGAVKRVLGKMDGVETFDIDLKEQ 40 (113)
Q Consensus 14 ~~c~~~i~~~~~~~~gv~~~~~~~~~~ 40 (113)
.+|=|.++..+.+++||.+..+.++++
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 358999999999999999999998766
No 24
>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=67.45 E-value=8.1 Score=15.65 Aligned_cols=37 Identities=46% Similarity=0.932 Sum_probs=27.6
Q ss_pred Ee-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEE
Q 033693 8 KV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTV 44 (113)
Q Consensus 8 ~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v 44 (113)
.+ ++.|..|...++..+...+++.....++......+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 (63)
T cd00371 3 SVEGMTCAGCVSKIEKALEKLPGVESVEVDLETGKATV 40 (63)
T ss_pred eECCeEcHHHHHHHHHHHhcCCCEeEEEEEccCCEEEE
Confidence 46 88899999999988888888776666665554333
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=63.10 E-value=17 Score=17.69 Aligned_cols=51 Identities=14% Similarity=0.160 Sum_probs=37.1
Q ss_pred Ee-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--ecCCHHHHHHHHHhcCCceEEe
Q 033693 8 KV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKTGKKTAFW 67 (113)
Q Consensus 8 ~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~~ 67 (113)
.. |..|+...-+..+++++++- ++.+.+. .......+..-.+..|+.....
T Consensus 3 D~~G~~CP~P~i~~k~~l~~l~~---------G~~l~V~~dd~~s~~di~~~~~~~g~~~~~~ 56 (69)
T cd03423 3 DTRGLRCPEPVMMLHKKVRKMKP---------GDTLLVLATDPSTTRDIPKFCTFLGHELLAQ 56 (69)
T ss_pred cccCCcCCHHHHHHHHHHHcCCC---------CCEEEEEeCCCchHHHHHHHHHHcCCEEEEE
Confidence 45 89999999999999988732 2233332 3456778888899999987643
No 26
>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=62.28 E-value=12 Score=21.55 Aligned_cols=28 Identities=18% Similarity=0.281 Sum_probs=23.9
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEecCCE
Q 033693 14 EGCVGAVKRVLGKMDGVETFDIDLKEQK 41 (113)
Q Consensus 14 ~~c~~~i~~~~~~~~gv~~~~~~~~~~~ 41 (113)
.+|=|.++..+.+++||.+..+.++++.
T Consensus 7 gGCFWg~E~~f~~~~GV~~t~~GYagG~ 34 (149)
T TIGR00401 7 GGCFWGVEKYFWLIPGVYSTAVGYTGGY 34 (149)
T ss_pred cCCchhhHHHHhcCCCEEEEEEeeCCCC
Confidence 4688999999999999999999876554
No 27
>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=58.12 E-value=20 Score=17.07 Aligned_cols=51 Identities=20% Similarity=0.228 Sum_probs=36.5
Q ss_pred EEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--ecCCHHHHHHHHHhcCCceEE
Q 033693 7 LKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKTGKKTAF 66 (113)
Q Consensus 7 ~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~ 66 (113)
+.. |+.|+.....+.+++.+++.- +.+.+. .......+...++..|+....
T Consensus 2 lD~rg~~CP~Pl~~~~~~l~~l~~g---------~~l~v~~d~~~~~~~i~~~~~~~g~~~~~ 55 (69)
T cd00291 2 LDLRGLPCPLPVLKTKKALEKLKSG---------EVLEVLLDDPGAVEDIPAWAKETGHEVLE 55 (69)
T ss_pred ccccCCcCCHHHHHHHHHHhcCCCC---------CEEEEEecCCcHHHHHHHHHHHcCCEEEE
Confidence 345 899999999999999886432 233332 334578888889999998654
No 28
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=57.16 E-value=14 Score=22.75 Aligned_cols=27 Identities=19% Similarity=0.364 Sum_probs=24.0
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEecCC
Q 033693 14 EGCVGAVKRVLGKMDGVETFDIDLKEQ 40 (113)
Q Consensus 14 ~~c~~~i~~~~~~~~gv~~~~~~~~~~ 40 (113)
.+|=|.+|..+.+++||.+..+.++++
T Consensus 52 gGCFWg~E~~F~~l~GV~~t~vGYagG 78 (213)
T PRK00058 52 MGCFWGAERLFWQLPGVYSTAVGYAGG 78 (213)
T ss_pred ccCcchhHHHHhcCCCEEEEEeeecCC
Confidence 568999999999999999999998754
No 29
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=54.44 E-value=32 Score=18.27 Aligned_cols=50 Identities=12% Similarity=0.380 Sum_probs=35.2
Q ss_pred HHHHHHHHhCCCCeeEEEEEe-----cCCEEEEE---ecCCHHHHHHHHHhcCCceEE
Q 033693 17 VGAVKRVLGKMDGVETFDIDL-----KEQKVTVK---GNVQPDAVLQTVSKTGKKTAF 66 (113)
Q Consensus 17 ~~~i~~~~~~~~gv~~~~~~~-----~~~~~~v~---~~~~~~~i~~~i~~~g~~~~~ 66 (113)
.-.+...+.+++|+..+++.. .+..+.+. ...+.+++.+.+.+.|-..+.
T Consensus 19 i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~Gg~IHS 76 (95)
T PF02680_consen 19 IVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGGVIHS 76 (95)
T ss_dssp HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-EEEE
T ss_pred HHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCCeEEe
Confidence 445677899999998888753 34444443 458899999999999987654
No 30
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=54.29 E-value=32 Score=18.14 Aligned_cols=51 Identities=18% Similarity=0.341 Sum_probs=35.7
Q ss_pred HHHHHHHHhCCCCeeEEEEEe-----cCCEEEE--E-ecCCHHHHHHHHHhcCCceEEe
Q 033693 17 VGAVKRVLGKMDGVETFDIDL-----KEQKVTV--K-GNVQPDAVLQTVSKTGKKTAFW 67 (113)
Q Consensus 17 ~~~i~~~~~~~~gv~~~~~~~-----~~~~~~v--~-~~~~~~~i~~~i~~~g~~~~~~ 67 (113)
.-.+.+.+++++|+..+++.. .+..+.+ + ...+-+++.+.+.+.|...+..
T Consensus 21 ive~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~IHSi 79 (97)
T COG1888 21 IVELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAIHSI 79 (97)
T ss_pred HHHHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCeeeeh
Confidence 344566788888888777643 3444443 3 4688999999999999876543
No 31
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=52.51 E-value=13 Score=22.31 Aligned_cols=28 Identities=21% Similarity=0.328 Sum_probs=24.2
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEecCCE
Q 033693 14 EGCVGAVKRVLGKMDGVETFDIDLKEQK 41 (113)
Q Consensus 14 ~~c~~~i~~~~~~~~gv~~~~~~~~~~~ 41 (113)
.+|=|.+|..+.+++||.++.+.++++.
T Consensus 15 gGCFWg~E~~f~~l~GV~~t~vGYagG~ 42 (186)
T PRK13014 15 GGCFWGVEGVFQHVPGVVSVVSGYSGGH 42 (186)
T ss_pred cCCceeeHHHHccCCCEEEEEeeecCCC
Confidence 4588889999999999999999887664
No 32
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=51.37 E-value=20 Score=21.29 Aligned_cols=28 Identities=18% Similarity=0.259 Sum_probs=24.2
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEecCCE
Q 033693 14 EGCVGAVKRVLGKMDGVETFDIDLKEQK 41 (113)
Q Consensus 14 ~~c~~~i~~~~~~~~gv~~~~~~~~~~~ 41 (113)
.+|=|-+++.+.+++||.++.+.++++.
T Consensus 13 gGCFWg~E~~f~~i~GV~~t~~GYagG~ 40 (174)
T COG0225 13 GGCFWGVEAYFEQIPGVLSTVSGYAGGH 40 (174)
T ss_pred ccCccchHHHHhhCCCeEEEeeeEcCCC
Confidence 3588889999999999999999877665
No 33
>COG4669 EscJ Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]
Probab=47.88 E-value=33 Score=21.60 Aligned_cols=22 Identities=27% Similarity=0.465 Sum_probs=18.3
Q ss_pred HHHHHHHHhCCCCeeEEEEEec
Q 033693 17 VGAVKRVLGKMDGVETFDIDLK 38 (113)
Q Consensus 17 ~~~i~~~~~~~~gv~~~~~~~~ 38 (113)
+..+++.+++++||.++++...
T Consensus 111 eQ~le~tLs~mDGVi~ArV~I~ 132 (246)
T COG4669 111 EQQLEQTLSKMDGVISARVHIS 132 (246)
T ss_pred HHHHHHHHHhcCceEEEEEEEE
Confidence 4678899999999999988643
No 34
>COG4837 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.79 E-value=13 Score=19.70 Aligned_cols=19 Identities=42% Similarity=0.767 Sum_probs=13.5
Q ss_pred CceEEEEEe-CCc--ChhhHHH
Q 033693 1 MSQTVVLKV-GMS--CEGCVGA 19 (113)
Q Consensus 1 ~~~~~~~~i-g~~--c~~c~~~ 19 (113)
|.+...+.+ |-. |++|++.
T Consensus 1 M~~~~~l~VyGae~iCASCV~a 22 (106)
T COG4837 1 MVNEAKLVVYGAEVICASCVNA 22 (106)
T ss_pred CCceeEEEEecchhhhHHhcCC
Confidence 566667777 654 9999864
No 35
>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=46.12 E-value=43 Score=20.39 Aligned_cols=21 Identities=33% Similarity=0.662 Sum_probs=17.8
Q ss_pred HHHHHHHHhCCCCeeEEEEEe
Q 033693 17 VGAVKRVLGKMDGVETFDIDL 37 (113)
Q Consensus 17 ~~~i~~~~~~~~gv~~~~~~~ 37 (113)
...+++.++.++||..+++++
T Consensus 117 e~eL~~tI~~i~gV~~A~V~l 137 (206)
T PF01514_consen 117 EGELERTIESIDGVESARVHL 137 (206)
T ss_dssp HHHHHHHHTTSTTEEEEEEEE
T ss_pred HHHHHHHHHcCCCeeEEEEEE
Confidence 356888899999999999984
No 36
>PF15114 UPF0640: Uncharacterised protein family UPF0640
Probab=45.91 E-value=2.9 Score=20.51 Aligned_cols=21 Identities=24% Similarity=0.556 Sum_probs=12.3
Q ss_pred ccccceeehhhHHHhhhhhhcc
Q 033693 91 YQWPVHFVGVGLFLMSYSLVNL 112 (113)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~~~~ 112 (113)
++++..++++|. .+-|+|++|
T Consensus 24 YRFLP~FF~lGa-alE~~MIn~ 44 (69)
T PF15114_consen 24 YRFLPLFFVLGA-ALEWSMINW 44 (69)
T ss_pred hhhhHHHHHhhh-hheEEEEEE
Confidence 445555555655 466677665
No 37
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=45.52 E-value=42 Score=16.97 Aligned_cols=53 Identities=23% Similarity=0.361 Sum_probs=35.9
Q ss_pred EEEEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--ecCCHHHHHHHHHhcC-CceE
Q 033693 4 TVVLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKTG-KKTA 65 (113)
Q Consensus 4 ~~~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g-~~~~ 65 (113)
..++.+ |..|+.......+++++++ .++.+.|. .+....++.......| +...
T Consensus 5 ~~~LD~rG~~CP~Pv~~~kk~l~~m~---------~Ge~LeV~~ddp~~~~dIp~~~~~~~~~~ll 61 (78)
T COG0425 5 DKVLDLRGLRCPGPVVETKKALAKLK---------PGEILEVIADDPAAKEDIPAWAKKEGGHELL 61 (78)
T ss_pred ceEEeccCCcCCccHHHHHHHHHcCC---------CCCEEEEEecCcchHHHHHHHHHHcCCcEEE
Confidence 357888 9999999999999999873 33344443 3345566666677445 5543
No 38
>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=45.16 E-value=38 Score=16.40 Aligned_cols=19 Identities=16% Similarity=0.431 Sum_probs=13.5
Q ss_pred HHHHHHHHhCCCCeeEEEE
Q 033693 17 VGAVKRVLGKMDGVETFDI 35 (113)
Q Consensus 17 ~~~i~~~~~~~~gv~~~~~ 35 (113)
...+++++..++|+.++++
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 3557778999999887764
No 39
>PF10831 DUF2556: Protein of unknown function (DUF2556); InterPro: IPR022540 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=44.19 E-value=6 Score=17.91 Aligned_cols=21 Identities=29% Similarity=0.517 Sum_probs=10.6
Q ss_pred ccccceeehhhHHHhhhhhhcc
Q 033693 91 YQWPVHFVGVGLFLMSYSLVNL 112 (113)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~~~~ 112 (113)
+.|.+. ++..+|+|---+++|
T Consensus 5 y~wlvv-fav~~flfd~limQw 25 (53)
T PF10831_consen 5 YWWLVV-FAVFVFLFDTLIMQW 25 (53)
T ss_pred ehhHHH-HHHHHHHHHHHHHHH
Confidence 334333 455555555555555
No 40
>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=43.92 E-value=73 Score=19.30 Aligned_cols=49 Identities=18% Similarity=0.240 Sum_probs=35.6
Q ss_pred CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEEE--ecCCHHHHHHHHHhcCCceEEe
Q 033693 10 GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTVK--GNVQPDAVLQTVSKTGKKTAFW 67 (113)
Q Consensus 10 g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~--~~~~~~~i~~~i~~~g~~~~~~ 67 (113)
|..|+.......+++++++.- +.+.+. .+...+.+.+.....||.....
T Consensus 5 Gl~CP~Pvi~tKkal~~l~~g---------~~L~VlvD~~~a~~nV~~~~~~~G~~v~~~ 55 (194)
T TIGR03527 5 GLACPQPVILTKKALDELGEE---------GVLTVIVDNEAAKENVSKFATSLGYEVEVE 55 (194)
T ss_pred CCCCCHHHHHHHHHHHcCCCC---------CEEEEEECCccHHHHHHHHHHHcCCEEEEE
Confidence 889999999999999987421 222222 3456777888889999987643
No 41
>TIGR02544 III_secr_YscJ type III secretion apparatus lipoprotein, YscJ/HrcJ family. All members of this protein family are predicted lipoproteins with a conserved Cys near the N-terminus for cleavage and modification, and are part of known or predicted type III secretion systems. Members are found in both plant and animal pathogens, including the obligately intracellular chlamydial species and (non-pathogenic) root nodule bacteria. The most closely related proteins outside this family are examples of the flagellar M-ring protein FliF.
Probab=40.93 E-value=48 Score=20.03 Aligned_cols=21 Identities=19% Similarity=0.407 Sum_probs=17.4
Q ss_pred HHHHHHHHhCCCCeeEEEEEe
Q 033693 17 VGAVKRVLGKMDGVETFDIDL 37 (113)
Q Consensus 17 ~~~i~~~~~~~~gv~~~~~~~ 37 (113)
...+++.+++++||.++++++
T Consensus 109 e~EL~rtI~~i~~V~~ArVhl 129 (193)
T TIGR02544 109 EQRLEQTLSQIDGVISARVHV 129 (193)
T ss_pred HHHHHHHHHhcCCeeeeEEEE
Confidence 346788899999999999875
No 42
>KOG1635 consensus Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=39.35 E-value=42 Score=20.09 Aligned_cols=28 Identities=18% Similarity=0.338 Sum_probs=24.6
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEecCCE
Q 033693 14 EGCVGAVKRVLGKMDGVETFDIDLKEQK 41 (113)
Q Consensus 14 ~~c~~~i~~~~~~~~gv~~~~~~~~~~~ 41 (113)
.+|=+.+|.+..+++||...++.++.+.
T Consensus 31 ~GCFWg~E~a~~~l~gV~~T~vGYagG~ 58 (191)
T KOG1635|consen 31 AGCFWGVELAYQRLPGVVRTEVGYAGGI 58 (191)
T ss_pred ccchhhHHHHHhhcCCeEEEeecccCCc
Confidence 5689999999999999999999887664
No 43
>PRK15348 type III secretion system lipoprotein SsaJ; Provisional
Probab=39.14 E-value=54 Score=20.80 Aligned_cols=21 Identities=19% Similarity=0.417 Sum_probs=18.2
Q ss_pred HHHHHHHHhCCCCeeEEEEEe
Q 033693 17 VGAVKRVLGKMDGVETFDIDL 37 (113)
Q Consensus 17 ~~~i~~~~~~~~gv~~~~~~~ 37 (113)
...+++.+++++||.++++++
T Consensus 109 egELarTI~~idgV~~ArVhL 129 (249)
T PRK15348 109 EQRIEGMLSQMEGVINAKVTI 129 (249)
T ss_pred HHHHHHHHHhCCCeeEeEEEE
Confidence 466888999999999999974
No 44
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=37.79 E-value=41 Score=21.78 Aligned_cols=28 Identities=21% Similarity=0.363 Sum_probs=24.3
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEecCCE
Q 033693 14 EGCVGAVKRVLGKMDGVETFDIDLKEQK 41 (113)
Q Consensus 14 ~~c~~~i~~~~~~~~gv~~~~~~~~~~~ 41 (113)
.+|=+.+|..+.+++||.++.+.++++.
T Consensus 134 gGCFWg~E~~F~~~~GV~~t~vGYagG~ 161 (283)
T PRK05550 134 GGCFWGVEYYFKKLPGVLSVESGYTGGD 161 (283)
T ss_pred cCCchhhhhhHhhCcCEEEEEEeeCCCC
Confidence 4689999999999999999999876654
No 45
>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=35.62 E-value=93 Score=18.15 Aligned_cols=30 Identities=17% Similarity=0.256 Sum_probs=25.9
Q ss_pred hHHHHHHHHhCCCCeeEEEEEecCCEEEEE
Q 033693 16 CVGAVKRVLGKMDGVETFDIDLKEQKVTVK 45 (113)
Q Consensus 16 c~~~i~~~~~~~~gv~~~~~~~~~~~~~v~ 45 (113)
-+..+.+.+.+++||..+.+-.....+.|.
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 466788899999999999999888888765
No 46
>PF04805 Pox_E10: E10-like protein conserved region; InterPro: IPR006890 This entry represents a family of probable FAD-linked sulphydryl oxidases found in poxviruses.; GO: 0016972 thiol oxidase activity, 0055114 oxidation-reduction process
Probab=33.73 E-value=35 Score=16.86 Aligned_cols=20 Identities=20% Similarity=0.348 Sum_probs=15.8
Q ss_pred CCcChhhHHHHHHHHhCCCC
Q 033693 10 GMSCEGCVGAVKRVLGKMDG 29 (113)
Q Consensus 10 g~~c~~c~~~i~~~~~~~~g 29 (113)
-+-|+.|..+..+++++..=
T Consensus 15 tLPC~~Cr~HA~~ai~kNNi 34 (70)
T PF04805_consen 15 TLPCPECRIHAKEAIQKNNI 34 (70)
T ss_pred cCCCHHHHHHHHHHHHhcCc
Confidence 46699999999999877533
No 47
>PRK15324 type III secretion system lipoprotein PrgK; Provisional
Probab=33.15 E-value=66 Score=20.46 Aligned_cols=21 Identities=19% Similarity=0.358 Sum_probs=17.6
Q ss_pred HHHHHHHHhCCCCeeEEEEEe
Q 033693 17 VGAVKRVLGKMDGVETFDIDL 37 (113)
Q Consensus 17 ~~~i~~~~~~~~gv~~~~~~~ 37 (113)
...+++.+++++||..+++++
T Consensus 110 e~ELarTI~~IdgV~~ARVHl 130 (252)
T PRK15324 110 EQRLEQSLQTMEGVLSARVHI 130 (252)
T ss_pred HHHHHHHHHhcCCcceEEEEE
Confidence 456788899999999999975
No 48
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=32.63 E-value=22 Score=17.20 Aligned_cols=15 Identities=27% Similarity=0.634 Sum_probs=5.8
Q ss_pred EEEEEe-CCcChhhHH
Q 033693 4 TVVLKV-GMSCEGCVG 18 (113)
Q Consensus 4 ~~~~~i-g~~c~~c~~ 18 (113)
.+.|.+ |+.|.+|..
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 456888 999999854
No 49
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=30.40 E-value=1e+02 Score=18.67 Aligned_cols=29 Identities=17% Similarity=0.292 Sum_probs=25.2
Q ss_pred CceEEEEEe-CCcChhhHHHHHHHHhCCCC
Q 033693 1 MSQTVVLKV-GMSCEGCVGAVKRVLGKMDG 29 (113)
Q Consensus 1 ~~~~~~~~i-g~~c~~c~~~i~~~~~~~~g 29 (113)
|++...+.+ |.+.++-+..+.+.+.+..+
T Consensus 5 m~~~lviTviG~DrpGIVa~vs~~l~~~g~ 34 (190)
T PRK11589 5 SQHYLVITALGADRPGIVNTITRHVSSCGC 34 (190)
T ss_pred cccEEEEEEEcCCCChHHHHHHHHHHHcCC
Confidence 667788999 99999999999999988655
No 50
>PRK14018 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional
Probab=29.92 E-value=63 Score=22.95 Aligned_cols=28 Identities=18% Similarity=0.330 Sum_probs=24.4
Q ss_pred hhhHHHHHHHHhCCCCeeEEEEEecCCE
Q 033693 14 EGCVGAVKRVLGKMDGVETFDIDLKEQK 41 (113)
Q Consensus 14 ~~c~~~i~~~~~~~~gv~~~~~~~~~~~ 41 (113)
.+|=|.+|..+.+++||.++.+.++++.
T Consensus 205 gGCFWg~e~~f~~~~GV~~t~~GYagG~ 232 (521)
T PRK14018 205 GGCFWGLEAYFQRIDGVVDAVSGYANGN 232 (521)
T ss_pred cCCchhhHHHHccCCCEEEEEEeeCCCC
Confidence 4689999999999999999999887664
No 51
>PF13193 AMP-binding_C: AMP-binding enzyme C-terminal domain; PDB: 3L8C_B 2VSQ_A 3R44_A 3RG2_B 3A9U_A 3A9V_A 3NI2_A 1V26_B 1ULT_B 1V25_B ....
Probab=28.29 E-value=81 Score=15.14 Aligned_cols=18 Identities=22% Similarity=0.325 Sum_probs=14.8
Q ss_pred HHHHHHhCCCCeeEEEEE
Q 033693 19 AVKRVLGKMDGVETFDID 36 (113)
Q Consensus 19 ~i~~~~~~~~gv~~~~~~ 36 (113)
.+|..+.+.+||.++.+-
T Consensus 1 EIE~~l~~~~~V~~~~V~ 18 (73)
T PF13193_consen 1 EIESVLRQHPGVAEAAVV 18 (73)
T ss_dssp HHHHHHHTSTTEEEEEEE
T ss_pred CHHHHHhcCCCccEEEEE
Confidence 478899999999887774
No 52
>PHA03005 sulfhydryl oxidase; Provisional
Probab=26.21 E-value=56 Score=17.30 Aligned_cols=19 Identities=21% Similarity=0.532 Sum_probs=15.3
Q ss_pred CCcChhhHHHHHHHHhCCC
Q 033693 10 GMSCEGCVGAVKRVLGKMD 28 (113)
Q Consensus 10 g~~c~~c~~~i~~~~~~~~ 28 (113)
-+-|+.|.....+++++..
T Consensus 40 tLPC~~Cr~HA~~ai~knn 58 (96)
T PHA03005 40 TLPCPACRRHAKEAIEKNN 58 (96)
T ss_pred cCCCHHHHHHHHHHHhhcC
Confidence 4669999999999988743
No 53
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=26.08 E-value=99 Score=16.66 Aligned_cols=27 Identities=30% Similarity=0.489 Sum_probs=18.9
Q ss_pred CCcChhhHHHHHHHHhCCCCeeEEEEEe
Q 033693 10 GMSCEGCVGAVKRVLGKMDGVETFDIDL 37 (113)
Q Consensus 10 g~~c~~c~~~i~~~~~~~~gv~~~~~~~ 37 (113)
-..|..|+..+.+.|.+. |+...-+.+
T Consensus 18 ~~qC~~cA~Al~~~L~~~-gI~Gk~i~l 44 (100)
T PF15643_consen 18 IFQCVECASALKQFLKQA-GIPGKIIRL 44 (100)
T ss_pred ceehHHHHHHHHHHHHHC-CCCceEEEE
Confidence 457999999999998763 554444433
No 54
>PF09122 DUF1930: Domain of unknown function (DUF1930); InterPro: IPR015206 This entry represents a domain found in 3-mercaptopyruvate sulphurtransferase which has no known function. This domain adopts a structure consisting of a four-stranded antiparallel beta-sheet and an alpha-helix, arranged in a beta(2)-alpha-beta(2) fashion, and bearing a remarkable structural similarity to the FK506-binding protein class of peptidylprolyl cis/trans-isomerase []. ; PDB: 1OKG_A.
Probab=25.54 E-value=97 Score=15.14 Aligned_cols=39 Identities=28% Similarity=0.235 Sum_probs=24.8
Q ss_pred EEEe-CCcChhhHHHHHHHHhCCCCeeEEEEEecCCEEEE
Q 033693 6 VLKV-GMSCEGCVGAVKRVLGKMDGVETFDIDLKEQKVTV 44 (113)
Q Consensus 6 ~~~i-g~~c~~c~~~i~~~~~~~~gv~~~~~~~~~~~~~v 44 (113)
.+.+ |--|.+.-..+..++..+.-...+.+.+.++++.+
T Consensus 22 tl~vDg~~v~~PD~El~sA~~HlH~GEkA~V~FkS~Rv~~ 61 (68)
T PF09122_consen 22 TLIVDGEIVENPDAELKSALVHLHIGEKAQVFFKSQRVAV 61 (68)
T ss_dssp -EEETTEEESS--HHHHHHHTT-BTT-EEEEEETTS-EEE
T ss_pred EEEEcCeEcCCCCHHHHHHHHHhhcCceeEEEEecCcEEE
Confidence 4667 77788877888888877777777788887777653
No 55
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=23.92 E-value=1.4e+02 Score=16.42 Aligned_cols=21 Identities=29% Similarity=0.580 Sum_probs=17.2
Q ss_pred HHHHHHHHhCCCCeeEEEEEe
Q 033693 17 VGAVKRVLGKMDGVETFDIDL 37 (113)
Q Consensus 17 ~~~i~~~~~~~~gv~~~~~~~ 37 (113)
...+++++.+.+|+.++++++
T Consensus 69 ~~~v~~al~~~~~v~~v~V~l 89 (111)
T COG2151 69 ADQVEAALEEIPGVEDVEVEL 89 (111)
T ss_pred HHHHHHHHHhcCCcceEEEEE
Confidence 556888999999998888764
No 56
>PF07123 PsbW: Photosystem II reaction centre W protein (PsbW); InterPro: IPR009806 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbW found in PSII, where it is a subunit of the oxygen-evolving complex. PsbW appears to have several roles, including guiding PSII biogenesis and assembly, stabilising dimeric PSII [], and facilitating PSII repair after photo-inhibition []. There appears to be two classes of PsbW, class 1 being found predominantly in algae and cyanobacteria, and class 2 being found predominantly in plants. This entry represents class 2 PsbW.; GO: 0015979 photosynthesis, 0009507 chloroplast, 0009523 photosystem II
Probab=20.67 E-value=42 Score=19.14 Aligned_cols=16 Identities=25% Similarity=0.434 Sum_probs=11.4
Q ss_pred eeehhhHHHhhhhhhc
Q 033693 96 HFVGVGLFLMSYSLVN 111 (113)
Q Consensus 96 ~~~~~~~~~~~~~~~~ 111 (113)
.+|.+|+|..+|++++
T Consensus 107 gwIL~gVf~lIWslY~ 122 (138)
T PF07123_consen 107 GWILLGVFGLIWSLYF 122 (138)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4467888888888754
No 57
>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=20.03 E-value=1.5e+02 Score=15.36 Aligned_cols=20 Identities=20% Similarity=0.421 Sum_probs=15.3
Q ss_pred HHHHHHhCCCCeeEEEEEec
Q 033693 19 AVKRVLGKMDGVETFDIDLK 38 (113)
Q Consensus 19 ~i~~~~~~~~gv~~~~~~~~ 38 (113)
.++.++..++|+.++++++.
T Consensus 59 ~i~~al~~l~gv~~v~v~i~ 78 (99)
T TIGR02945 59 EVENAVRAVPGVGSVTVELV 78 (99)
T ss_pred HHHHHHHhCCCCceEEEEEE
Confidence 46777888899988887754
Done!