Query psy7515
Match_columns 106
No_of_seqs 185 out of 1499
Neff 8.2
Searched_HMMs 46136
Date Fri Aug 16 20:20:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7515.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7515hhsearch_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 2.3E-13 5.1E-18 77.2 7.8 58 39-98 1-62 (62)
2 COG2608 CopZ Copper chaperone 99.5 9.3E-13 2E-17 77.1 8.7 64 37-102 3-70 (71)
3 KOG4656|consensus 99.2 1.4E-10 3E-15 79.8 8.4 69 36-106 7-75 (247)
4 KOG1603|consensus 99.1 2.1E-09 4.6E-14 63.1 8.7 65 36-102 5-70 (73)
5 PRK10671 copA copper exporting 98.6 1.4E-07 3E-12 76.7 8.0 64 35-102 2-66 (834)
6 PLN02957 copper, zinc superoxi 98.6 1E-06 2.3E-11 62.3 10.3 68 36-105 6-73 (238)
7 COG2217 ZntA Cation transport 98.3 3.3E-06 7.2E-11 67.8 7.5 61 37-100 3-68 (713)
8 TIGR00003 copper ion binding p 98.0 0.00018 3.9E-09 38.2 8.8 60 38-99 4-67 (68)
9 KOG0207|consensus 97.7 0.00014 3.1E-09 59.4 7.2 64 36-101 146-213 (951)
10 KOG0207|consensus 97.7 0.00018 3.8E-09 58.9 7.1 66 37-104 70-139 (951)
11 PRK10671 copA copper exporting 97.5 0.00047 1E-08 56.4 8.0 63 37-101 100-163 (834)
12 PRK11033 zntA zinc/cadmium/mer 97.4 0.0014 3E-08 53.2 9.2 64 36-101 53-118 (741)
13 TIGR02052 MerP mercuric transp 92.6 1.1 2.4E-05 25.4 9.4 62 38-101 25-90 (92)
14 PF01206 TusA: Sulfurtransfera 92.1 0.6 1.3E-05 26.4 4.9 53 39-102 2-57 (70)
15 PRK13748 putative mercuric red 91.1 2.5 5.4E-05 33.1 8.8 63 39-103 3-68 (561)
16 COG1888 Uncharacterized protei 87.1 5 0.00011 24.5 7.0 64 36-101 6-78 (97)
17 PRK11018 hypothetical protein; 85.3 5.5 0.00012 23.2 6.1 53 38-101 9-64 (78)
18 PF02680 DUF211: Uncharacteriz 84.2 7.5 0.00016 23.9 7.8 63 36-101 5-76 (95)
19 cd03421 SirA_like_N SirA_like_ 82.3 6.3 0.00014 21.9 5.0 51 41-103 3-56 (67)
20 cd03420 SirA_RHOD_Pry_redox Si 80.7 8.1 0.00017 21.8 5.2 51 41-102 3-56 (69)
21 cd03422 YedF YedF is a bacteri 79.9 8.7 0.00019 21.7 5.2 48 44-102 7-56 (69)
22 PF14437 MafB19-deam: MafB19-l 78.6 7.9 0.00017 25.7 5.1 40 36-78 100-141 (146)
23 cd03423 SirA SirA (also known 77.0 11 0.00024 21.2 5.6 48 44-102 7-56 (69)
24 cd00291 SirA_YedF_YeeD SirA, Y 75.1 12 0.00025 20.7 5.2 47 44-101 7-55 (69)
25 PF01883 DUF59: Domain of unkn 74.0 8 0.00017 21.8 3.8 32 37-70 35-72 (72)
26 PRK00299 sulfur transfer prote 73.4 16 0.00034 21.4 6.3 54 38-102 10-66 (81)
27 cd00371 HMA Heavy-metal-associ 73.3 7.7 0.00017 17.7 7.7 54 42-97 4-60 (63)
28 COG0435 ECM4 Predicted glutath 66.3 22 0.00048 26.3 5.4 57 6-71 27-84 (324)
29 PRK14054 methionine sulfoxide 60.9 50 0.0011 22.4 6.1 28 47-76 10-37 (172)
30 COG0425 SirA Predicted redox p 60.7 32 0.00069 20.1 6.3 53 38-101 6-62 (78)
31 TIGR03527 selenium_YedF seleni 58.7 45 0.00097 23.0 5.7 48 44-102 6-55 (194)
32 PRK10553 assembly protein for 57.4 40 0.00086 20.2 6.0 45 47-93 16-61 (87)
33 TIGR03406 FeS_long_SufT probab 54.5 26 0.00057 23.8 3.9 33 38-72 115-153 (174)
34 PF11526 CFIA_Pcf11: Subunit o 53.2 6.5 0.00014 23.6 0.7 14 3-16 17-30 (84)
35 cd04908 ACT_Bt0572_1 N-termina 53.0 37 0.00079 18.5 7.5 59 40-100 4-65 (66)
36 PRK13014 methionine sulfoxide 51.1 74 0.0016 21.9 5.7 28 47-76 15-42 (186)
37 TIGR02945 SUF_assoc FeS assemb 48.0 45 0.00099 19.9 4.0 21 51-73 58-78 (99)
38 PF03698 UPF0180: Uncharacteri 44.3 44 0.00094 19.8 3.3 21 84-104 9-29 (80)
39 PF13732 DUF4162: Domain of un 43.8 61 0.0013 18.4 5.2 41 57-101 26-68 (84)
40 COG2151 PaaD Predicted metal-s 42.8 53 0.0012 20.7 3.7 21 50-72 69-89 (111)
41 PF15643 Tox-PL-2: Papain fold 40.8 33 0.00073 21.3 2.5 19 42-60 16-35 (100)
42 PRK07334 threonine dehydratase 40.7 1.6E+02 0.0035 22.3 7.2 65 37-102 326-402 (403)
43 KOG3411|consensus 36.7 41 0.0009 22.0 2.5 48 46-95 93-141 (143)
44 PRK05096 guanosine 5'-monophos 35.8 2E+02 0.0043 21.9 8.7 85 3-105 78-181 (346)
45 PF03927 NapD: NapD protein; 35.8 92 0.002 18.1 6.4 44 48-94 15-59 (79)
46 COG4738 Predicted transcriptio 35.6 8.9 0.00019 24.5 -0.6 21 1-21 62-83 (124)
47 PRK14018 trifunctional thiored 34.6 1.1E+02 0.0024 24.5 5.1 27 47-75 205-231 (521)
48 TIGR02571 ComEB ComE operon pr 34.6 1.4E+02 0.0029 19.7 6.0 51 38-103 88-139 (151)
49 PF08821 CGGC: CGGC domain; I 33.6 1.2E+02 0.0026 18.8 4.4 53 44-100 44-103 (107)
50 PRK00058 methionine sulfoxide 33.5 1.1E+02 0.0023 21.7 4.4 28 46-75 51-78 (213)
51 PF14424 Toxin-deaminase: The 33.4 1.1E+02 0.0024 19.7 4.2 28 37-66 98-126 (133)
52 COG5561 Predicted metal-bindin 31.1 1.2E+02 0.0026 18.6 3.7 58 42-101 31-95 (101)
53 cd04883 ACT_AcuB C-terminal AC 30.8 95 0.002 16.7 7.3 60 40-100 4-69 (72)
54 KOG4730|consensus 30.5 70 0.0015 25.4 3.3 50 44-100 88-137 (518)
55 PF09580 Spore_YhcN_YlaJ: Spor 30.3 1.6E+02 0.0035 19.3 5.4 33 46-80 73-105 (177)
56 COG3603 Uncharacterized conser 29.7 1.6E+02 0.0035 19.0 5.1 49 48-100 78-127 (128)
57 cd04909 ACT_PDH-BS C-terminal 29.3 1E+02 0.0022 16.6 5.8 60 39-99 3-69 (69)
58 PRK05528 methionine sulfoxide 29.1 59 0.0013 21.7 2.4 44 47-92 8-68 (156)
59 KOG2990|consensus 26.9 38 0.00082 25.1 1.3 20 37-56 44-65 (317)
60 PF10006 DUF2249: Uncharacteri 26.7 1.2E+02 0.0027 16.7 5.4 44 50-104 13-58 (69)
61 PRK11200 grxA glutaredoxin 1; 26.2 1.2E+02 0.0027 17.2 3.3 29 44-73 9-39 (85)
62 KOG3782|consensus 26.2 1.8E+02 0.0039 19.9 4.3 37 44-80 25-67 (189)
63 TIGR00268 conserved hypothetic 26.2 2.4E+02 0.0051 19.9 6.4 50 50-102 187-244 (252)
64 TIGR01617 arsC_related transcr 26.1 1.6E+02 0.0035 18.0 4.0 45 44-98 7-51 (117)
65 PF04805 Pox_E10: E10-like pro 25.9 35 0.00077 19.6 0.8 18 44-61 16-33 (70)
66 PRK09577 multidrug efflux prot 25.6 2.7E+02 0.0058 24.1 6.2 46 50-97 158-211 (1032)
67 PF14847 Ras_bdg_2: Ras-bindin 25.6 63 0.0014 20.1 2.0 23 39-61 12-35 (105)
68 PF04831 Popeye: Popeye protei 25.1 47 0.001 22.2 1.4 12 1-12 73-84 (153)
69 KOG2903|consensus 24.9 2E+02 0.0043 21.3 4.6 33 36-70 36-69 (319)
70 PRK14719 bifunctional RNAse/5- 24.9 2.2E+02 0.0047 21.6 5.1 53 38-100 46-99 (360)
71 PF09324 DUF1981: Domain of un 23.2 28 0.00061 20.6 0.0 12 1-12 1-12 (86)
72 PF07862 Nif11: Nitrogen fixat 23.0 86 0.0019 16.1 2.0 18 83-100 27-44 (49)
73 PRK14440 acylphosphatase; Prov 22.7 1.8E+02 0.0039 17.3 7.5 57 35-94 2-63 (90)
74 PF01625 PMSR: Peptide methion 22.7 1.1E+02 0.0023 20.4 2.7 27 47-75 7-33 (155)
75 PF08782 c-SKI_SMAD_bind: c-SK 22.6 36 0.00078 20.9 0.5 13 4-16 60-72 (96)
76 cd04888 ACT_PheB-BS C-terminal 22.6 1.4E+02 0.0031 16.1 4.7 31 38-70 43-74 (76)
77 TIGR00401 msrA methionine-S-su 22.3 84 0.0018 20.7 2.2 27 47-75 7-33 (149)
78 PRK03094 hypothetical protein; 21.9 1.1E+02 0.0024 18.2 2.4 20 84-103 9-28 (80)
79 COG0225 MsrA Peptide methionin 21.9 1.8E+02 0.0039 19.9 3.7 35 35-76 6-40 (174)
80 PF11491 DUF3213: Protein of u 21.8 1.7E+02 0.0038 17.6 3.2 49 50-100 13-64 (88)
81 PF11378 DUF3181: Protein of u 21.7 39 0.00085 20.4 0.5 14 3-16 13-26 (87)
82 PF11360 DUF3110: Protein of u 21.4 1.4E+02 0.0031 17.8 2.9 23 83-105 55-77 (86)
83 PF09920 DUF2150: Uncharacteri 21.0 56 0.0012 22.6 1.2 15 2-16 2-16 (190)
84 PHA01634 hypothetical protein 20.9 50 0.0011 21.8 0.9 16 40-55 93-109 (156)
85 COG2331 Uncharacterized protei 20.8 57 0.0012 19.3 1.0 17 44-60 34-50 (82)
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=99.49 E-value=2.3e-13 Score=77.18 Aligned_cols=58 Identities=36% Similarity=0.680 Sum_probs=53.7
Q ss_pred EEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEec---CCHHHHHHHHHhcCCc
Q psy7515 39 VFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKST---LDPDVLLEAIKKSGKT 98 (106)
Q Consensus 39 ~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~---~~~~~i~~~i~~~G~~ 98 (106)
+|.|+ |+|++|+.+|+++|.+++ ||.++.+|+.+++++|... .++++|.++|+++||+
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~--GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy~ 62 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLP--GVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGYE 62 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTST--TEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTSE
T ss_pred CEEECCcccHHHHHHHHHHHhcCC--CCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCcC
Confidence 58898 999999999999999999 9999999999999999844 5679999999999995
No 2
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.46 E-value=9.3e-13 Score=77.12 Aligned_cols=64 Identities=33% Similarity=0.577 Sum_probs=57.3
Q ss_pred EEEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--e-cCCHHHHHHHHHhcCCceEee
Q psy7515 37 VHVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--S-TLDPDVLLEAIKKSGKTCSYI 102 (106)
Q Consensus 37 ~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--~-~~~~~~i~~~i~~~G~~~~~~ 102 (106)
...|.++ |+|.+|+.+|+++|..++ ||..+.+++..+.+.|. + ..+.++|+++|.++||.+..+
T Consensus 3 ~~~l~v~~MtC~~C~~~V~~al~~v~--gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~~~ 70 (71)
T COG2608 3 KTTLKVEGMTCGHCVKTVEKALEEVD--GVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVEEI 70 (71)
T ss_pred eEEEEECCcCcHHHHHHHHHHHhcCC--CeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCeeec
Confidence 4789999 999999999999999999 99999999999777666 4 479999999999999987653
No 3
>KOG4656|consensus
Probab=99.19 E-value=1.4e-10 Score=79.83 Aligned_cols=69 Identities=28% Similarity=0.565 Sum_probs=64.5
Q ss_pred eEEEEEEeeechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEecCCHHHHHHHHHhcCCceEeecCCC
Q psy7515 36 KVHVFKAEMTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKSGKTCSYIGEGS 106 (106)
Q Consensus 36 ~~~~l~v~m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~~~~~ 106 (106)
-+.+|.|+|+|.+|++.|++.|..++ ||.++++|+..+.+.|.+...+.+|.++|+.+|.++.+.+.++
T Consensus 7 ~~~efaV~M~cescvnavk~~L~~V~--Gi~~vevdle~q~v~v~ts~p~s~i~~~le~tGr~Avl~G~G~ 75 (247)
T KOG4656|consen 7 YEAEFAVQMTCESCVNAVKACLKGVP--GINSVEVDLEQQIVSVETSVPPSEIQNTLENTGRDAVLRGAGK 75 (247)
T ss_pred eeEEEEEechhHHHHHHHHHHhccCC--CcceEEEEhhhcEEEEEccCChHHHHHHHHhhChheEEecCCc
Confidence 35789999999999999999999999 9999999999999999998999999999999999999987763
No 4
>KOG1603|consensus
Probab=99.07 E-value=2.1e-09 Score=63.09 Aligned_cols=65 Identities=42% Similarity=0.756 Sum_probs=58.5
Q ss_pred eEEEEEEeeechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEecCCHHHHHHHHHhcC-CceEee
Q psy7515 36 KVHVFKAEMTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKSG-KTCSYI 102 (106)
Q Consensus 36 ~~~~l~v~m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~~~~~~i~~~i~~~G-~~~~~~ 102 (106)
....+.+.|+|.+|..+|++.|..+. ||.++.+|...++++|.+..++..+++.|.+.| .....+
T Consensus 5 ~~~v~kv~~~C~gc~~kV~~~l~~~~--GV~~v~id~~~~kvtV~g~~~p~~vl~~l~k~~~k~~~~~ 70 (73)
T KOG1603|consen 5 KTVVLKVNMHCEGCARKVKRVLQKLK--GVESVDIDIKKQKVTVKGNVDPVKLLKKLKKTGGKRAELW 70 (73)
T ss_pred cEEEEEECcccccHHHHHHHHhhccC--CeEEEEecCCCCEEEEEEecCHHHHHHHHHhcCCCceEEe
Confidence 45778888999999999999999999 999999999999999998899999999999887 555544
No 5
>PRK10671 copA copper exporting ATPase; Provisional
Probab=98.63 E-value=1.4e-07 Score=76.74 Aligned_cols=64 Identities=22% Similarity=0.433 Sum_probs=56.4
Q ss_pred ceEEEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEecCCHHHHHHHHHhcCCceEee
Q psy7515 35 AKVHVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKSGKTCSYI 102 (106)
Q Consensus 35 ~~~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~ 102 (106)
+.+.++.|+ |+|++|+.+|+++|.+++ ||..+.+++. +..+....+.+.+.+++++.||++...
T Consensus 2 ~~~~~l~V~gmtC~~C~~~i~~al~~~~--gv~~v~v~~~--~~~v~~~~~~~~i~~~i~~~Gy~~~~~ 66 (834)
T PRK10671 2 SQTIDLTLDGLSCGHCVKRVKESLEQRP--DVEQADVSIT--EAHVTGTASAEALIETIKQAGYDASVS 66 (834)
T ss_pred CeEEEEEECCcccHHHHHHHHHHHhcCC--CcceEEEeee--EEEEEecCCHHHHHHHHHhcCCccccc
Confidence 356889999 999999999999999999 9999999984 556666678899999999999998764
No 6
>PLN02957 copper, zinc superoxide dismutase
Probab=98.58 E-value=1e-06 Score=62.33 Aligned_cols=68 Identities=29% Similarity=0.642 Sum_probs=60.0
Q ss_pred eEEEEEEeeechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEecCCHHHHHHHHHhcCCceEeecCC
Q psy7515 36 KVHVFKAEMTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKSGKTCSYIGEG 105 (106)
Q Consensus 36 ~~~~l~v~m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~~~~ 105 (106)
+++.|.+.|+|..|+.+|++.|.+++ ||..+.+++..+++.|........+...+++.||.+.+++.+
T Consensus 6 ~~~~~~VgMsC~~Ca~~Iek~L~~~~--GV~~v~vn~~~~~v~V~~~~~~~~I~~aIe~~Gy~a~~~~~~ 73 (238)
T PLN02957 6 LLTEFMVDMKCEGCVAAVKNKLETLE--GVKAVEVDLSNQVVRVLGSSPVKAMTAALEQTGRKARLIGQG 73 (238)
T ss_pred EEEEEEECccCHHHHHHHHHHHhcCC--CeEEEEEEcCCCEEEEEecCCHHHHHHHHHHcCCcEEEecCC
Confidence 45667778999999999999999999 999999999999998886678889999999999998876653
No 7
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=98.28 E-value=3.3e-06 Score=67.85 Aligned_cols=61 Identities=30% Similarity=0.565 Sum_probs=54.4
Q ss_pred EEEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEe---cCC-HHHHHHHHHhcCCceE
Q psy7515 37 VHVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKS---TLD-PDVLLEAIKKSGKTCS 100 (106)
Q Consensus 37 ~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~---~~~-~~~i~~~i~~~G~~~~ 100 (106)
+..|.++ |+|..|+.+|+ +|++++ ||..+.+|+.++++.|.. ... .+.+...++..||.+.
T Consensus 3 ~~~l~v~Gm~Ca~C~~~ie-~l~~~~--gV~~~~vn~~t~~~~v~~~~~~~~~~~~~~~~v~~~gy~~~ 68 (713)
T COG2217 3 ETSLSVEGMTCAACASRIE-ALNKLP--GVEEARVNLATERATVVYDPEEVDLPADIVAAVEKAGYSAR 68 (713)
T ss_pred eeEEeecCcCcHHHHHHHH-HHhcCC--CeeEEEeecccceEEEEecccccccHHHHHHHHHhcCcccc
Confidence 4679999 99999999999 999999 999999999999998873 234 7899999999999764
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=98.00 E-value=0.00018 Score=38.20 Aligned_cols=60 Identities=27% Similarity=0.452 Sum_probs=50.1
Q ss_pred EEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEe---cCCHHHHHHHHHhcCCce
Q psy7515 38 HVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKS---TLDPDVLLEAIKKSGKTC 99 (106)
Q Consensus 38 ~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~---~~~~~~i~~~i~~~G~~~ 99 (106)
..+.+. ++|..|...++..+.... ++....+++....+.+.. ......+...+...||.+
T Consensus 4 ~~~~v~~~~~~~c~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 67 (68)
T TIGR00003 4 FTVQVMSMTCQHCVDKIEKFVGELE--GVSKVQVKLEKASVKVEFDAPQATEICIAEAILDAGYEV 67 (68)
T ss_pred EEEEECCeEcHHHHHHHHHHHhcCC--CEEEEEEEcCCCEEEEEeCCCCCCHHHHHHHHHHcCCCc
Confidence 568999 999999999999999999 999999999999887763 246777777778888864
No 9
>KOG0207|consensus
Probab=97.71 E-value=0.00014 Score=59.44 Aligned_cols=64 Identities=33% Similarity=0.520 Sum_probs=58.3
Q ss_pred eEEEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE---ecCCHHHHHHHHHhcCCceEe
Q psy7515 36 KVHVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK---STLDPDVLLEAIKKSGKTCSY 101 (106)
Q Consensus 36 ~~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~---~~~~~~~i~~~i~~~G~~~~~ 101 (106)
.+..|.|. |.|.+|..+|++.+.+++ ||.++++++.++++.|. ....+..+.+.|+..||.+..
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l~--gV~~~sv~~~t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~~ 213 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERLR--GVKSFSVSLATDTAIVVYDPEITGPRDIIKAIEETGFEASV 213 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhcc--CeeEEEEeccCCceEEEecccccChHHHHHHHHhhccccee
Confidence 45889999 999999999999999999 99999999999999987 347999999999999998654
No 10
>KOG0207|consensus
Probab=97.67 E-value=0.00018 Score=58.95 Aligned_cols=66 Identities=29% Similarity=0.496 Sum_probs=59.4
Q ss_pred EEEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE---ecCCHHHHHHHHHhcCCceEeecC
Q psy7515 37 VHVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK---STLDPDVLLEAIKKSGKTCSYIGE 104 (106)
Q Consensus 37 ~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~---~~~~~~~i~~~i~~~G~~~~~~~~ 104 (106)
+..+.+. |+|.+|+..|++.|+..+ |+.++.+.+...+..+. ...+++.+.+.+++.||.+..++.
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 KCYLSVNGMTCASCVATIERNLRKIE--GVESAVVALSASKAEVIYDPAVTSPDSIAESIEDLGFSAELIES 139 (951)
T ss_pred eeEEEecCceeHHHHHHHHHHhhccC--CcceEEEEeeccceeEEECCcccCchhHHHHHHhcCccceehhc
Confidence 5779999 999999999999999999 99999999999999887 347899999999999999887554
No 11
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.54 E-value=0.00047 Score=56.43 Aligned_cols=63 Identities=24% Similarity=0.451 Sum_probs=55.2
Q ss_pred EEEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEecCCHHHHHHHHHhcCCceEe
Q psy7515 37 VHVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKSGKTCSY 101 (106)
Q Consensus 37 ~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~ 101 (106)
+..+.+. |+|..|...+++.+..++ |+..+.+++..+++.+....+++.+.+.++..||.+.+
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~--GV~~a~vnl~t~~~~V~~~~s~~~I~~~I~~~Gy~a~~ 163 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVP--GVTQARVNLAERTALVMGSASPQDLVQAVEKAGYGAEA 163 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCC--CceeeeeecCCCeEEEEccCCHHHHHHHHHhcCCCccc
Confidence 4678899 999999999999999999 99999999999988776556778888889999998654
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=97.41 E-value=0.0014 Score=53.25 Aligned_cols=64 Identities=17% Similarity=0.319 Sum_probs=52.7
Q ss_pred eEEEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEec-CCHHHHHHHHHhcCCceEe
Q psy7515 36 KVHVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKST-LDPDVLLEAIKKSGKTCSY 101 (106)
Q Consensus 36 ~~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~-~~~~~i~~~i~~~G~~~~~ 101 (106)
.+..+.+. |+|.+|...+++.+...+ ||..+.+++..+++.+... ...+.+...++..||.+..
T Consensus 53 ~r~~l~V~Gm~C~sCa~~Ie~aL~~~~--GV~~v~Vn~at~k~~V~~d~~~~~~I~~aI~~~Gy~a~~ 118 (741)
T PRK11033 53 TRYSWKVSGMDCPSCARKVENAVRQLA--GVNQVQVLFATEKLVVDADNDIRAQVESAVQKAGFSLRD 118 (741)
T ss_pred ceEEEEECCCCcHHHHHHHHHHHhcCC--CeeeEEEEcCCCeEEEEecccchHHHHHHHHhccccccc
Confidence 45778899 999999999999999999 9999999999998877622 1226777888889998654
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=92.59 E-value=1.1 Score=25.39 Aligned_cols=62 Identities=23% Similarity=0.387 Sum_probs=46.0
Q ss_pred EEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEe---cCCHHHHHHHHHhcCCceEe
Q psy7515 38 HVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKS---TLDPDVLLEAIKKSGKTCSY 101 (106)
Q Consensus 38 ~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~---~~~~~~i~~~i~~~G~~~~~ 101 (106)
..+.+. +.|..|...++..+.... ++....++.......+.. ......+...+...||.+++
T Consensus 25 ~~~~~~~~~c~~c~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 90 (92)
T TIGR02052 25 VTLEVPGMTCVACPITVETALQKVD--GVSKAEVTFKTKLAVVTFDDEKTNVKALTEATTDAGYPSSL 90 (92)
T ss_pred EEEEECCeEcHHHHHHHHHHHhcCC--CEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCCeEe
Confidence 456788 999999999999999888 888788887777655541 23555565666778887544
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=92.12 E-value=0.6 Score=26.36 Aligned_cols=53 Identities=9% Similarity=0.178 Sum_probs=38.5
Q ss_pred EEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--ecCCHHHHHHHHHhcCCceEee
Q psy7515 39 VFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--STLDPDVLLEAIKKSGKTCSYI 102 (106)
Q Consensus 39 ~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~~ 102 (106)
++.+. +.|+.....+.++|.+++ ....+.|. .......|...++..||.+..+
T Consensus 2 ~lD~rg~~CP~Pll~~~~~l~~l~-----------~G~~l~v~~d~~~~~~di~~~~~~~g~~~~~~ 57 (70)
T PF01206_consen 2 TLDLRGLSCPMPLLKAKKALKELP-----------PGEVLEVLVDDPAAVEDIPRWCEENGYEVVEV 57 (70)
T ss_dssp EEECSS-STTHHHHHHHHHHHTSG-----------TT-EEEEEESSTTHHHHHHHHHHHHTEEEEEE
T ss_pred EEeCCCCCCCHHHHHHHHHHHhcC-----------CCCEEEEEECCccHHHHHHHHHHHCCCEEEEE
Confidence 35566 889999999999999987 23344444 3356788999999999985544
No 15
>PRK13748 putative mercuric reductase; Provisional
Probab=91.07 E-value=2.5 Score=33.10 Aligned_cols=63 Identities=27% Similarity=0.543 Sum_probs=47.3
Q ss_pred EEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEe--cCCHHHHHHHHHhcCCceEeec
Q psy7515 39 VFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKS--TLDPDVLLEAIKKSGKTCSYIG 103 (106)
Q Consensus 39 ~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~--~~~~~~i~~~i~~~G~~~~~~~ 103 (106)
.+.+. ++|..|...++..+...+ ++....+++......+.. ......+...+...|+.....+
T Consensus 3 ~i~i~g~~C~~c~~~ie~~l~~~~--gv~~a~~~~~~~~~~v~~~~~~~~~~i~~~i~~~g~~~~~~~ 68 (561)
T PRK13748 3 TLKITGMTCDSCAAHVKDALEKVP--GVQSADVSYPKGSAQLAIEVGTSPDALTAAVAGLGYRATLAD 68 (561)
T ss_pred EEEECCeecHHHHHHHHHHHhcCC--CeeEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcCCeeeccC
Confidence 35678 999999999999999998 988888888888766552 2355566666777787655443
No 16
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=87.15 E-value=5 Score=24.53 Aligned_cols=64 Identities=19% Similarity=0.272 Sum_probs=42.2
Q ss_pred eEEEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEc-----CCCe--EEEEe-cCCHHHHHHHHHhcCCceEe
Q psy7515 36 KVHVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSL-----PDQT--VKVKS-TLDPDVLLEAIKKSGKTCSY 101 (106)
Q Consensus 36 ~~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~-----~~~~--v~V~~-~~~~~~i~~~i~~~G~~~~~ 101 (106)
+++.+.+. .+-..-.--+-+.|.+++ ||..|++.+ .+.. ++|.+ .++.++|.+.|++.|..++.
T Consensus 6 RRlVLDvlKP~~~p~ive~A~~lskl~--gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg~IHS 78 (97)
T COG1888 6 RRLVLDVLKPHRGPTIVELALELSKLE--GVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGGAIHS 78 (97)
T ss_pred eeeeeeecCCcCCCcHHHHHHHHhhcC--CcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCCeeee
Confidence 44556665 443444556667788888 988776433 3333 33443 48999999999999986654
No 17
>PRK11018 hypothetical protein; Provisional
Probab=85.26 E-value=5.5 Score=23.21 Aligned_cols=53 Identities=13% Similarity=0.080 Sum_probs=40.6
Q ss_pred EEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--ecCCHHHHHHHHHhcCCceEe
Q psy7515 38 HVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--STLDPDVLLEAIKKSGKTCSY 101 (106)
Q Consensus 38 ~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~ 101 (106)
+++.+. ..|+.-..+.+++|.+++ ..+.+.|. .......|...++..||.+..
T Consensus 9 ~~lD~rG~~CP~Pvl~~kk~l~~l~-----------~G~~L~V~~d~~~a~~di~~~~~~~G~~v~~ 64 (78)
T PRK11018 9 YRLDMVGEPCPYPAVATLEALPQLK-----------KGEILEVVSDCPQSINNIPLDARNHGYTVLD 64 (78)
T ss_pred eeEECCCCcCCHHHHHHHHHHHhCC-----------CCCEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 567777 999999999999999997 23344444 335677888889999998764
No 18
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=84.17 E-value=7.5 Score=23.88 Aligned_cols=63 Identities=19% Similarity=0.309 Sum_probs=41.8
Q ss_pred eEEEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEc-----CCCeEEE--Eec-CCHHHHHHHHHhcCCceEe
Q psy7515 36 KVHVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSL-----PDQTVKV--KST-LDPDVLLEAIKKSGKTCSY 101 (106)
Q Consensus 36 ~~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~-----~~~~v~V--~~~-~~~~~i~~~i~~~G~~~~~ 101 (106)
+++.|.|- .+-+. .--+-+.|..++ ||..+++.. .+..+.| .+. ++.++|.++|++.|-.++.
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 RRLVLDVLKPHEPS-IVELAKALSELE--GVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGGVIHS 76 (95)
T ss_dssp EEEEEEEEEESSS--HHHHHHHHHTST--TEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-EEEE
T ss_pred eEEEEEeecCCCCC-HHHHHHHHHhCC--CcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCCeEEe
Confidence 45667776 54333 556778899999 998877543 3344433 344 8999999999999987654
No 19
>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=82.28 E-value=6.3 Score=21.92 Aligned_cols=51 Identities=12% Similarity=0.181 Sum_probs=35.3
Q ss_pred EEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--ecCCHHHHHHHHHhcCCceEeec
Q psy7515 41 KAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--STLDPDVLLEAIKKSGKTCSYIG 103 (106)
Q Consensus 41 ~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~~~ 103 (106)
.+. +.|+.-...+.++| ++. . .+.+.|. .......|..-+++.||.+...+
T Consensus 3 D~rG~~CP~P~l~~k~al-~~~--~---------g~~l~v~~d~~~s~~~i~~~~~~~G~~~~~~~ 56 (67)
T cd03421 3 DARGLACPQPVIKTKKAL-ELE--A---------GGEIEVLVDNEVAKENVSRFAESRGYEVSVEE 56 (67)
T ss_pred ccCCCCCCHHHHHHHHHH-hcC--C---------CCEEEEEEcChhHHHHHHHHHHHcCCEEEEEe
Confidence 344 78999999999999 665 1 2233333 33456788889999999885443
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=80.72 E-value=8.1 Score=21.81 Aligned_cols=51 Identities=18% Similarity=0.227 Sum_probs=37.8
Q ss_pred EEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--ecCCHHHHHHHHHhcCCceEee
Q psy7515 41 KAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--STLDPDVLLEAIKKSGKTCSYI 102 (106)
Q Consensus 41 ~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~~ 102 (106)
.+. +.|+.-.....++|.+++ ..+.+.|. .......|..-.+..||.+...
T Consensus 3 D~rG~~CP~Pvl~~kkal~~l~-----------~G~~l~V~~d~~~a~~di~~~~~~~G~~~~~~ 56 (69)
T cd03420 3 DACGLQCPGPILKLKKEIDKLQ-----------DGEQLEVKASDPGFARDAQAWCKSTGNTLISL 56 (69)
T ss_pred ccCCCcCCHHHHHHHHHHHcCC-----------CCCEEEEEECCccHHHHHHHHHHHcCCEEEEE
Confidence 344 789999999999999986 23344444 3356788888999999987643
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=79.91 E-value=8.7 Score=21.70 Aligned_cols=48 Identities=17% Similarity=0.170 Sum_probs=36.4
Q ss_pred eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--ecCCHHHHHHHHHhcCCceEee
Q psy7515 44 MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--STLDPDVLLEAIKKSGKTCSYI 102 (106)
Q Consensus 44 m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~~ 102 (106)
..|+.-.-+.+++|++++ ..+.+.|. .......|...++..||.+...
T Consensus 7 ~~CP~Pvi~~kkal~~l~-----------~G~~l~V~~d~~~s~~ni~~~~~~~g~~v~~~ 56 (69)
T cd03422 7 EPCPYPAIATLEALPSLK-----------PGEILEVISDCPQSINNIPIDARNHGYKVLAI 56 (69)
T ss_pred CcCCHHHHHHHHHHHcCC-----------CCCEEEEEecCchHHHHHHHHHHHcCCEEEEE
Confidence 679999999999999987 23344444 3457788888999999988643
No 22
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=78.58 E-value=7.9 Score=25.66 Aligned_cols=40 Identities=18% Similarity=0.423 Sum_probs=32.2
Q ss_pred eEEEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcC-CCeEE
Q psy7515 36 KVHVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLP-DQTVK 78 (106)
Q Consensus 36 ~~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~-~~~v~ 78 (106)
...++.|+ -.|..|..-|....+++ |+.++.|... ++++.
T Consensus 100 ~~~tm~Vdr~vC~~C~~~i~~~a~~l---Gl~~L~I~~~~sG~~~ 141 (146)
T PF14437_consen 100 RSMTMYVDRDVCGYCGGDIPSMAEKL---GLKSLTIHEPDSGKVY 141 (146)
T ss_pred CeEEEEECcccchHHHHHHHHHHHHc---CCCeEEEEecCCCcEE
Confidence 45788999 99999999999988887 7888887766 55443
No 23
>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=77.00 E-value=11 Score=21.22 Aligned_cols=48 Identities=15% Similarity=0.149 Sum_probs=36.3
Q ss_pred eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--ecCCHHHHHHHHHhcCCceEee
Q psy7515 44 MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--STLDPDVLLEAIKKSGKTCSYI 102 (106)
Q Consensus 44 m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~~ 102 (106)
..|+.-.-..+++|.+++ ..+.+.|. .....+.|...++..||.+...
T Consensus 7 ~~CP~P~i~~k~~l~~l~-----------~G~~l~V~~dd~~s~~di~~~~~~~g~~~~~~ 56 (69)
T cd03423 7 LRCPEPVMMLHKKVRKMK-----------PGDTLLVLATDPSTTRDIPKFCTFLGHELLAQ 56 (69)
T ss_pred CcCCHHHHHHHHHHHcCC-----------CCCEEEEEeCCCchHHHHHHHHHHcCCEEEEE
Confidence 679999999999999886 23344444 3457788999999999987643
No 24
>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=75.13 E-value=12 Score=20.66 Aligned_cols=47 Identities=13% Similarity=0.174 Sum_probs=34.9
Q ss_pred eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--ecCCHHHHHHHHHhcCCceEe
Q psy7515 44 MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--STLDPDVLLEAIKKSGKTCSY 101 (106)
Q Consensus 44 m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~ 101 (106)
+.|+.-...+.++|.+++ ....+.|. .......|...++..||.+..
T Consensus 7 ~~CP~Pl~~~~~~l~~l~-----------~g~~l~v~~d~~~~~~~i~~~~~~~g~~~~~ 55 (69)
T cd00291 7 LPCPLPVLKTKKALEKLK-----------SGEVLEVLLDDPGAVEDIPAWAKETGHEVLE 55 (69)
T ss_pred CcCCHHHHHHHHHHhcCC-----------CCCEEEEEecCCcHHHHHHHHHHHcCCEEEE
Confidence 679988999999999886 23344444 234678899999999998654
No 25
>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=73.97 E-value=8 Score=21.75 Aligned_cols=32 Identities=25% Similarity=0.408 Sum_probs=20.9
Q ss_pred EEEEEEeeechhH------HHHHHHHHhcCCCCCceEEEE
Q psy7515 37 VHVFKAEMTCDGC------SSAITRILDRMKDKGVESVEC 70 (106)
Q Consensus 37 ~~~l~v~m~C~~C------~~~I~~~L~~~~~~Gv~~v~v 70 (106)
++.+.+.+..++| ...|+.+|..++ |+.++.|
T Consensus 35 ~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~--gv~~V~V 72 (72)
T PF01883_consen 35 KVSVSLELPTPACPAAEPLREEIREALKALP--GVKSVKV 72 (72)
T ss_dssp EEEEEE--SSTTHTTHHHHHHHHHHHHHTST--T-SEEEE
T ss_pred EEEEEEEECCCCchHHHHHHHHHHHHHHhCC--CCceEeC
Confidence 4556665555555 467888999999 9988765
No 26
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=73.35 E-value=16 Score=21.37 Aligned_cols=54 Identities=11% Similarity=0.151 Sum_probs=40.3
Q ss_pred EEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--ecCCHHHHHHHHHhcCCceEee
Q psy7515 38 HVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--STLDPDVLLEAIKKSGKTCSYI 102 (106)
Q Consensus 38 ~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~~ 102 (106)
+++... +.|+.-...++++|++++ ..+.+.|. .....+.|....+..|+++...
T Consensus 10 ~~lD~~Gl~CP~Pll~~kk~l~~l~-----------~G~~l~V~~dd~~~~~di~~~~~~~G~~~~~~ 66 (81)
T PRK00299 10 HTLDALGLRCPEPVMMVRKTVRNMQ-----------PGETLLIIADDPATTRDIPSFCRFMDHELLAQ 66 (81)
T ss_pred eEEecCCCCCCHHHHHHHHHHHcCC-----------CCCEEEEEeCCccHHHHHHHHHHHcCCEEEEE
Confidence 567777 999999999999999986 23344444 3356777888888999987643
No 27
>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=73.29 E-value=7.7 Score=17.70 Aligned_cols=54 Identities=44% Similarity=0.758 Sum_probs=35.0
Q ss_pred Ee-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEec--CCHHHHHHHHHhcCC
Q psy7515 42 AE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKST--LDPDVLLEAIKKSGK 97 (106)
Q Consensus 42 v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~--~~~~~i~~~i~~~G~ 97 (106)
+. +.|..|...++..+.... ++.....++......+... .....+...+...|+
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 (63)
T cd00371 4 VEGMTCAGCVSKIEKALEKLP--GVESVEVDLETGKATVEYDPEVSPEELLEAIEDAGY 60 (63)
T ss_pred ECCeEcHHHHHHHHHHHhcCC--CEeEEEEEccCCEEEEEECCCCCHHHHHHHHHHcCC
Confidence 45 789999999998888888 8776666666655444421 244444444444444
No 28
>COG0435 ECM4 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]
Probab=66.26 E-value=22 Score=26.34 Aligned_cols=57 Identities=23% Similarity=0.278 Sum_probs=37.2
Q ss_pred hhhhhhhhhcCCCCCCCCCCCCCCCCCCcceEEEEEEeeechh-HHHHHHHHHhcCCCCCceEEEEE
Q psy7515 6 SKQWDNYLKARPGASKSPEGTGLDNEPTMAKVHVFKAEMTCDG-CSSAITRILDRMKDKGVESVECS 71 (106)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~m~C~~-C~~~I~~~L~~~~~~Gv~~v~v~ 71 (106)
..+|++|+.+...++ ..+...+. .++.|-|.+.|+= =...|-++|++++ ++.++.|-
T Consensus 27 ~s~fR~~i~~d~~~g----~~~f~~e~---GRYhLYvslaCPWAHRTLI~R~LkgLE--~~Isvsvv 84 (324)
T COG0435 27 SSQFRNWITADGPPG----TGGFKAEK---GRYHLYVSLACPWAHRTLIFRALKGLE--PVISVSVV 84 (324)
T ss_pred cchhhceeecCCCCC----cCCcCCCC---CeEEEEEEecCchHHHHHHHHHHhccc--ccceEEEe
Confidence 456788877654332 11222222 4588888888985 4667799999998 88777653
No 29
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=60.85 E-value=50 Score=22.41 Aligned_cols=28 Identities=29% Similarity=0.444 Sum_probs=24.9
Q ss_pred hhHHHHHHHHHhcCCCCCceEEEEEcCCCe
Q psy7515 47 DGCSSAITRILDRMKDKGVESVECSLPDQT 76 (106)
Q Consensus 47 ~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~ 76 (106)
.+|-.-++..+..++ ||.++.+-.+.+.
T Consensus 10 gGCFWg~E~~f~~~~--GV~~t~vGYagG~ 37 (172)
T PRK14054 10 GGCFWGMEAPFDRVK--GVISTRVGYTGGH 37 (172)
T ss_pred cCChhhhHHHHccCC--CEEEEEeeecCCC
Confidence 789999999999999 9999998887764
No 30
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=60.67 E-value=32 Score=20.10 Aligned_cols=53 Identities=19% Similarity=0.312 Sum_probs=38.3
Q ss_pred EEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--ecCCHHHHHHHHHhcC-CceEe
Q psy7515 38 HVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--STLDPDVLLEAIKKSG-KTCSY 101 (106)
Q Consensus 38 ~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--~~~~~~~i~~~i~~~G-~~~~~ 101 (106)
.+|.+. +.|+.-...+.++|.+++ ....+.|. .......|..-.+..| +....
T Consensus 6 ~~LD~rG~~CP~Pv~~~kk~l~~m~-----------~Ge~LeV~~ddp~~~~dIp~~~~~~~~~~ll~ 62 (78)
T COG0425 6 KVLDLRGLRCPGPVVETKKALAKLK-----------PGEILEVIADDPAAKEDIPAWAKKEGGHELLE 62 (78)
T ss_pred eEEeccCCcCCccHHHHHHHHHcCC-----------CCCEEEEEecCcchHHHHHHHHHHcCCcEEEE
Confidence 578888 999999999999999997 34455555 2345677777777455 65443
No 31
>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=58.68 E-value=45 Score=22.95 Aligned_cols=48 Identities=10% Similarity=0.129 Sum_probs=35.0
Q ss_pred eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--ecCCHHHHHHHHHhcCCceEee
Q psy7515 44 MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--STLDPDVLLEAIKKSGKTCSYI 102 (106)
Q Consensus 44 m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--~~~~~~~i~~~i~~~G~~~~~~ 102 (106)
+.|+.-....+++|.+++ . .+.++|. .....+.|.+.++..||.+...
T Consensus 6 l~CP~Pvi~tKkal~~l~--~---------g~~L~VlvD~~~a~~nV~~~~~~~G~~v~~~ 55 (194)
T TIGR03527 6 LACPQPVILTKKALDELG--E---------EGVLTVIVDNEAAKENVSKFATSLGYEVEVE 55 (194)
T ss_pred CCCCHHHHHHHHHHHcCC--C---------CCEEEEEECCccHHHHHHHHHHHcCCEEEEE
Confidence 579999999999999886 1 2233333 3456778888888999987653
No 32
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=57.44 E-value=40 Score=20.24 Aligned_cols=45 Identities=24% Similarity=0.329 Sum_probs=31.8
Q ss_pred hhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE-ecCCHHHHHHHHH
Q psy7515 47 DGCSSAITRILDRMKDKGVESVECSLPDQTVKVK-STLDPDVLLEAIK 93 (106)
Q Consensus 47 ~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~-~~~~~~~i~~~i~ 93 (106)
+.=...+.+.|.+++ |+.-...+...+++.|+ ...+.+.+.+.+.
T Consensus 16 Pe~~~~V~~~l~~ip--g~Evh~~d~~~GKiVVtiE~~~~~~~~~~i~ 61 (87)
T PRK10553 16 SERISDISTQLNAFP--GCEVAVSDAPSGQLIVVVEAEDSETLLQTIE 61 (87)
T ss_pred hHHHHHHHHHHHcCC--CcEEEeecCCCCeEEEEEEeCChHHHHHHHH
Confidence 444788999999999 99877777777888776 3345555555444
No 33
>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=54.53 E-value=26 Score=23.75 Aligned_cols=33 Identities=21% Similarity=0.372 Sum_probs=22.8
Q ss_pred EEEEEeeechhHH------HHHHHHHhcCCCCCceEEEEEc
Q psy7515 38 HVFKAEMTCDGCS------SAITRILDRMKDKGVESVECSL 72 (106)
Q Consensus 38 ~~l~v~m~C~~C~------~~I~~~L~~~~~~Gv~~v~v~~ 72 (106)
+.+.+.+..++|. ..|+.+|..++ ||..+.|++
T Consensus 115 V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~--gV~~V~V~l 153 (174)
T TIGR03406 115 VDIEMTLTAPGCGMGPVLVEDVEDKVLAVP--NVDEVEVEL 153 (174)
T ss_pred EEEEEEeCCCCCcHHHHHHHHHHHHHHhCC--CceeEEEEE
Confidence 4455545555553 45888999999 998887764
No 34
>PF11526 CFIA_Pcf11: Subunit of cleavage factor IA Pcf11; InterPro: IPR021605 Pcf11 is a subunit of an essential polyadenylation factor in Saccharomyces cerevisiae, CFIA. Pcf11 binds to Clp1, another subunit of CFIA whose interaction is responsible for maintaining a tight coupling between the Clp1 nucleotide binding subunit and the other components of the polyadenylation machinery. ; PDB: 2NPI_C.
Probab=53.18 E-value=6.5 Score=23.57 Aligned_cols=14 Identities=29% Similarity=0.800 Sum_probs=7.7
Q ss_pred ccchhhhhhhhhcC
Q psy7515 3 YLDSKQWDNYLKAR 16 (106)
Q Consensus 3 ~~~~~~~~~~~~~~ 16 (106)
|||..+|..|....
T Consensus 17 YLdd~eWIkFkdd~ 30 (84)
T PF11526_consen 17 YLDDSEWIKFKDDE 30 (84)
T ss_dssp ---HHHHHH--TTT
T ss_pred eeChHHhhcccccc
Confidence 89999999997655
No 35
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=53.04 E-value=37 Score=18.49 Aligned_cols=59 Identities=20% Similarity=0.205 Sum_probs=36.7
Q ss_pred EEEe-eechhHHHHHHHHHhcCCCCC-ceEEEEEcCCCeEEEE-ecCCHHHHHHHHHhcCCceE
Q psy7515 40 FKAE-MTCDGCSSAITRILDRMKDKG-VESVECSLPDQTVKVK-STLDPDVLLEAIKKSGKTCS 100 (106)
Q Consensus 40 l~v~-m~C~~C~~~I~~~L~~~~~~G-v~~v~v~~~~~~v~V~-~~~~~~~i~~~i~~~G~~~~ 100 (106)
+.|. -+-++--..|-..|.+.. . +.++-+....++..+. ...+++.+.+.|++.||.+.
T Consensus 4 i~v~v~d~pG~La~v~~~l~~~~--inI~~i~~~~~~~~~~~rl~~~~~~~~~~~L~~~G~~v~ 65 (66)
T cd04908 4 LSVFLENKPGRLAAVTEILSEAG--INIRALSIADTSEFGILRLIVSDPDKAKEALKEAGFAVK 65 (66)
T ss_pred EEEEEcCCCChHHHHHHHHHHCC--CCEEEEEEEecCCCCEEEEEECCHHHHHHHHHHCCCEEE
Confidence 4555 455667777777776653 2 3444443333334433 23567899999999999865
No 36
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=51.06 E-value=74 Score=21.89 Aligned_cols=28 Identities=21% Similarity=0.402 Sum_probs=24.4
Q ss_pred hhHHHHHHHHHhcCCCCCceEEEEEcCCCe
Q psy7515 47 DGCSSAITRILDRMKDKGVESVECSLPDQT 76 (106)
Q Consensus 47 ~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~ 76 (106)
.+|-.-++..+.+++ ||.++.+-...+.
T Consensus 15 gGCFWg~E~~f~~l~--GV~~t~vGYagG~ 42 (186)
T PRK13014 15 GGCFWGVEGVFQHVP--GVVSVVSGYSGGH 42 (186)
T ss_pred cCCceeeHHHHccCC--CEEEEEeeecCCC
Confidence 788888999999999 9999998877664
No 37
>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=48.00 E-value=45 Score=19.86 Aligned_cols=21 Identities=24% Similarity=0.349 Sum_probs=16.3
Q ss_pred HHHHHHHhcCCCCCceEEEEEcC
Q psy7515 51 SAITRILDRMKDKGVESVECSLP 73 (106)
Q Consensus 51 ~~I~~~L~~~~~~Gv~~v~v~~~ 73 (106)
..++.+|..++ |+..+.+++.
T Consensus 58 ~~i~~al~~l~--gv~~v~v~i~ 78 (99)
T TIGR02945 58 GEVENAVRAVP--GVGSVTVELV 78 (99)
T ss_pred HHHHHHHHhCC--CCceEEEEEE
Confidence 45778888888 9988888754
No 38
>PF03698 UPF0180: Uncharacterised protein family (UPF0180); InterPro: IPR005370 The members of this family are small uncharacterised proteins.
Probab=44.30 E-value=44 Score=19.83 Aligned_cols=21 Identities=14% Similarity=0.194 Sum_probs=17.1
Q ss_pred CHHHHHHHHHhcCCceEeecC
Q psy7515 84 DPDVLLEAIKKSGKTCSYIGE 104 (106)
Q Consensus 84 ~~~~i~~~i~~~G~~~~~~~~ 104 (106)
++..|.+.|++.||.+..++.
T Consensus 9 ~Ls~v~~~L~~~GyeVv~l~~ 29 (80)
T PF03698_consen 9 GLSNVKEALREKGYEVVDLEN 29 (80)
T ss_pred CchHHHHHHHHCCCEEEecCC
Confidence 567899999999999877654
No 39
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=43.78 E-value=61 Score=18.37 Aligned_cols=41 Identities=27% Similarity=0.404 Sum_probs=29.2
Q ss_pred HhcCCCCCceEEEEEcCCCeEEE--EecCCHHHHHHHHHhcCCceEe
Q psy7515 57 LDRMKDKGVESVECSLPDQTVKV--KSTLDPDVLLEAIKKSGKTCSY 101 (106)
Q Consensus 57 L~~~~~~Gv~~v~v~~~~~~v~V--~~~~~~~~i~~~i~~~G~~~~~ 101 (106)
|..++ ||..+...- .+.+.+ .......+|...+...|+ +.-
T Consensus 26 l~~~~--~v~~v~~~~-~~~~~i~l~~~~~~~~ll~~l~~~g~-I~~ 68 (84)
T PF13732_consen 26 LEELP--GVESVEQDG-DGKLRIKLEDEETANELLQELIEKGI-IRS 68 (84)
T ss_pred HhhCC--CeEEEEEeC-CcEEEEEECCcccHHHHHHHHHhCCC-eeE
Confidence 77778 998887643 443444 455677899999999998 654
No 40
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=42.84 E-value=53 Score=20.68 Aligned_cols=21 Identities=33% Similarity=0.593 Sum_probs=17.8
Q ss_pred HHHHHHHHhcCCCCCceEEEEEc
Q psy7515 50 SSAITRILDRMKDKGVESVECSL 72 (106)
Q Consensus 50 ~~~I~~~L~~~~~~Gv~~v~v~~ 72 (106)
...++.++..++ ||..++|++
T Consensus 69 ~~~v~~al~~~~--~v~~v~V~l 89 (111)
T COG2151 69 ADQVEAALEEIP--GVEDVEVEL 89 (111)
T ss_pred HHHHHHHHHhcC--CcceEEEEE
Confidence 678899999999 998887764
No 41
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=40.78 E-value=33 Score=21.25 Aligned_cols=19 Identities=26% Similarity=0.635 Sum_probs=16.7
Q ss_pred Ee-eechhHHHHHHHHHhcC
Q psy7515 42 AE-MTCDGCSSAITRILDRM 60 (106)
Q Consensus 42 v~-m~C~~C~~~I~~~L~~~ 60 (106)
.+ ..|..|+..+.+.|.+.
T Consensus 16 f~~~qC~~cA~Al~~~L~~~ 35 (100)
T PF15643_consen 16 FKIFQCVECASALKQFLKQA 35 (100)
T ss_pred cCceehHHHHHHHHHHHHHC
Confidence 35 78999999999999876
No 42
>PRK07334 threonine dehydratase; Provisional
Probab=40.75 E-value=1.6e+02 Score=22.33 Aligned_cols=65 Identities=8% Similarity=0.189 Sum_probs=42.4
Q ss_pred EEEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcC-----CCeEEEE------ecCCHHHHHHHHHhcCCceEee
Q psy7515 37 VHVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLP-----DQTVKVK------STLDPDVLLEAIKKSGKTCSYI 102 (106)
Q Consensus 37 ~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~-----~~~v~V~------~~~~~~~i~~~i~~~G~~~~~~ 102 (106)
.+.+.|. .+-.+=...|.+.|.... -.|.+++.... .+.+.+. .......+++.|++.||.+.+.
T Consensus 326 ~v~l~I~~~dr~GlL~dI~~~is~~~-~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~~~L~~vi~~Lr~~g~~~~~~ 402 (403)
T PRK07334 326 LARLRVDIRDRPGALARVTALIGEAG-ANIIEVSHQRLFTDLPAKGAELELVIETRDAAHLQEVIAALRAAGFEARLV 402 (403)
T ss_pred EEEEEEEeCCCCCHHHHHHHHHhhCC-CceEEEEEEecccCCCCCeEEEEEEEEeCCHHHHHHHHHHHHHcCCeeEeC
Confidence 3677787 667777888888887663 02555555432 3443333 2235568899999999998765
No 43
>KOG3411|consensus
Probab=36.69 E-value=41 Score=22.00 Aligned_cols=48 Identities=17% Similarity=0.262 Sum_probs=27.1
Q ss_pred chhHHHHHHHHHhcCCCCCceEEEEEcCCCeE-EEEecCCHHHHHHHHHhc
Q psy7515 46 CDGCSSAITRILDRMKDKGVESVECSLPDQTV-KVKSTLDPDVLLEAIKKS 95 (106)
Q Consensus 46 C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v-~V~~~~~~~~i~~~i~~~ 95 (106)
|.+-....+++|.+++ .+.-++-+...++. +-.+..+.++|...|...
T Consensus 93 ~~as~~i~rkvlQ~Le--~~~~ve~hp~gGR~lt~~GqrdldrIa~~i~~~ 141 (143)
T KOG3411|consen 93 CDASGGIARKVLQALE--KMGIVEKHPKGGRRLTEQGQRDLDRIAGQIREE 141 (143)
T ss_pred hccccHHHHHHHHHHH--hCCceeeCCCCcceeCcccchhHHHHHHHHHhc
Confidence 5443333444444444 44466666666543 333667888888877643
No 44
>PRK05096 guanosine 5'-monophosphate oxidoreductase; Provisional
Probab=35.82 E-value=2e+02 Score=21.92 Aligned_cols=85 Identities=12% Similarity=0.176 Sum_probs=49.4
Q ss_pred ccchhhhhhhhhcCCCCCCCCCCCCCCCCCCcceEEEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeE----
Q psy7515 3 YLDSKQWDNYLKARPGASKSPEGTGLDNEPTMAKVHVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTV---- 77 (106)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v---- 77 (106)
|++.++|.+|+..-..... -.+.|. =.-+.+..++...+.... |+.-+.+|.+.+.-
T Consensus 78 ~~~~e~~~~fv~~~~~~~~----------------~~~~vavG~~~~d~er~~~L~~~~~--g~D~iviD~AhGhs~~~i 139 (346)
T PRK05096 78 HYSVEEWAAFVNNSSADVL----------------KHVMVSTGTSDADFEKTKQILALSP--ALNFICIDVANGYSEHFV 139 (346)
T ss_pred CCCHHHHHHHHHhcccccc----------------ceEEEEecCCHHHHHHHHHHHhcCC--CCCEEEEECCCCcHHHHH
Confidence 4699999999876532111 112333 223466778887777667 88888888776621
Q ss_pred -------------EE-EecCCHHHHHHHHHhcCCceEeecCC
Q psy7515 78 -------------KV-KSTLDPDVLLEAIKKSGKTCSYIGEG 105 (106)
Q Consensus 78 -------------~V-~~~~~~~~i~~~i~~~G~~~~~~~~~ 105 (106)
.| -+.+...+....|-.+|.++..++.+
T Consensus 140 ~~ik~ik~~~P~~~vIaGNV~T~e~a~~Li~aGAD~vKVGIG 181 (346)
T PRK05096 140 QFVAKAREAWPDKTICAGNVVTGEMVEELILSGADIVKVGIG 181 (346)
T ss_pred HHHHHHHHhCCCCcEEEecccCHHHHHHHHHcCCCEEEEccc
Confidence 11 13333333455566788877654443
No 45
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=35.81 E-value=92 Score=18.10 Aligned_cols=44 Identities=14% Similarity=0.148 Sum_probs=31.2
Q ss_pred hHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE-ecCCHHHHHHHHHh
Q psy7515 48 GCSSAITRILDRMKDKGVESVECSLPDQTVKVK-STLDPDVLLEAIKK 94 (106)
Q Consensus 48 ~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~-~~~~~~~i~~~i~~ 94 (106)
.=...+..+|.+++ |+.-...+.. +++.|. ...+...+.+.+..
T Consensus 15 ~~~~~v~~~l~~~~--gvEVh~~~~~-GKiVVtiE~~~~~~~~~~~~~ 59 (79)
T PF03927_consen 15 ERLEEVAEALAAIP--GVEVHAVDED-GKIVVTIEAESSEEEVDLIDA 59 (79)
T ss_dssp CCHHHHHHHHCCST--TEEEEEEETT-TEEEEEEEESSHHHHHHHHHH
T ss_pred hhHHHHHHHHHcCC--CcEEEeeCCC-CeEEEEEEeCChHHHHHHHHH
Confidence 44678899999999 9976667665 777665 44566666666654
No 46
>COG4738 Predicted transcriptional regulator [Transcription]
Probab=35.60 E-value=8.9 Score=24.48 Aligned_cols=21 Identities=24% Similarity=0.591 Sum_probs=13.5
Q ss_pred Ccccchhhhhhhhh-cCCCCCC
Q psy7515 1 MHYLDSKQWDNYLK-ARPGASK 21 (106)
Q Consensus 1 ~~~~~~~~~~~~~~-~~~~~~~ 21 (106)
|+||..++|.+-+. ..+|.++
T Consensus 62 Mr~Lre~gWV~~R~eKKkGKGR 83 (124)
T COG4738 62 MRYLRENGWVDEREEKKKGKGR 83 (124)
T ss_pred HHHHHHccccchHHhcccCCCC
Confidence 78999999955433 3344444
No 47
>PRK14018 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional
Probab=34.57 E-value=1.1e+02 Score=24.49 Aligned_cols=27 Identities=19% Similarity=0.413 Sum_probs=24.1
Q ss_pred hhHHHHHHHHHhcCCCCCceEEEEEcCCC
Q psy7515 47 DGCSSAITRILDRMKDKGVESVECSLPDQ 75 (106)
Q Consensus 47 ~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~ 75 (106)
.+|-.-++..+.+++ ||.++.+-.+.+
T Consensus 205 gGCFWg~e~~f~~~~--GV~~t~~GYagG 231 (521)
T PRK14018 205 GGCFWGLEAYFQRID--GVVDAVSGYANG 231 (521)
T ss_pred cCCchhhHHHHccCC--CEEEEEEeeCCC
Confidence 889999999999999 999999877766
No 48
>TIGR02571 ComEB ComE operon protein 2. This protein is found in the ComE operon for "late competence" as characterized in B. subtilis. Proteins in this family contain homology to a cytidine/deoxycytidine deaminase domain family (pfam00383), and may carry out this activity.
Probab=34.56 E-value=1.4e+02 Score=19.70 Aligned_cols=51 Identities=12% Similarity=0.268 Sum_probs=34.5
Q ss_pred EEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEecCCHHHHHHHHHhcCCceEeec
Q psy7515 38 HVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKSGKTCSYIG 103 (106)
Q Consensus 38 ~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~~~~~~i~~~i~~~G~~~~~~~ 103 (106)
.++-+. .-|..|+..|..+ ||..|-+.. .......-.+.++++|..+..++
T Consensus 88 ~tlYvT~ePC~~Ca~ai~~a-------gI~~Vvy~~--------~~~~~~~~~~~l~~~gi~v~~~~ 139 (151)
T TIGR02571 88 AEIYVTHFPCLQCTKSIIQA-------GIKKIYYAQ--------DYHNHPYAIELFEQAGVELKKVP 139 (151)
T ss_pred cEEEEeCCCcHHHHHHHHHh-------CCCEEEEcc--------CCCCcHHHHHHHHHCCCEEEEeC
Confidence 456677 7899999999876 887664421 11222345678899998877654
No 49
>PF08821 CGGC: CGGC domain; InterPro: IPR014925 Proteins in this entry are a quite highly conserved sequence of CGGC in its central region. The region has many conserved cysteines and histidines suggestive of a zinc binding function.
Probab=33.59 E-value=1.2e+02 Score=18.81 Aligned_cols=53 Identities=25% Similarity=0.490 Sum_probs=28.8
Q ss_pred eechhH-HHHHHHHHhcCCCCCceEEEEEcCCCeEEEEe----c-CCHHHHHHHHHhc-CCceE
Q psy7515 44 MTCDGC-SSAITRILDRMKDKGVESVECSLPDQTVKVKS----T-LDPDVLLEAIKKS-GKTCS 100 (106)
Q Consensus 44 m~C~~C-~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~----~-~~~~~i~~~i~~~-G~~~~ 100 (106)
++|.+| ...+...+..+...|+.-+-+. += .... . ...+.+.+.|++. |+++.
T Consensus 44 ~~CgGCpg~~~~~~~~~l~~~~~d~IHls--sC--~~~~~~~~~CP~~~~~~~~I~~~~gi~VV 103 (107)
T PF08821_consen 44 FTCGGCPGRKLVRRIKKLKKNGADVIHLS--SC--MVKGNPHGPCPHIDEIKKIIEEKFGIEVV 103 (107)
T ss_pred eeCCCCChhHHHHHHHHHHHCCCCEEEEc--CC--EecCCCCCCCCCHHHHHHHHHHHhCCCEe
Confidence 689988 3334333333321266533322 11 1221 1 4578999999977 88654
No 50
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=33.50 E-value=1.1e+02 Score=21.66 Aligned_cols=28 Identities=21% Similarity=0.286 Sum_probs=24.4
Q ss_pred chhHHHHHHHHHhcCCCCCceEEEEEcCCC
Q psy7515 46 CDGCSSAITRILDRMKDKGVESVECSLPDQ 75 (106)
Q Consensus 46 C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~ 75 (106)
-.+|-.-++..+.+++ ||.++.+-...+
T Consensus 51 agGCFWg~E~~F~~l~--GV~~t~vGYagG 78 (213)
T PRK00058 51 GMGCFWGAERLFWQLP--GVYSTAVGYAGG 78 (213)
T ss_pred EccCcchhHHHHhcCC--CEEEEEeeecCC
Confidence 3789999999999999 999999888744
No 51
>PF14424 Toxin-deaminase: The BURPS668_1122 family of deaminases
Probab=33.37 E-value=1.1e+02 Score=19.68 Aligned_cols=28 Identities=18% Similarity=0.418 Sum_probs=22.6
Q ss_pred EEEEEEe-eechhHHHHHHHHHhcCCCCCce
Q psy7515 37 VHVFKAE-MTCDGCSSAITRILDRMKDKGVE 66 (106)
Q Consensus 37 ~~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~ 66 (106)
++.+-.+ -.|.+|...|++-....+ .+.
T Consensus 98 ~i~l~te~~pC~SC~~vi~qF~~~~p--ni~ 126 (133)
T PF14424_consen 98 TIDLFTELPPCESCSNVIEQFKKDFP--NIK 126 (133)
T ss_pred eEEEEecCCcChhHHHHHHHHHHHCC--CcE
Confidence 4667777 789999999999888887 653
No 52
>COG5561 Predicted metal-binding protein [Function unknown]
Probab=31.07 E-value=1.2e+02 Score=18.60 Aligned_cols=58 Identities=19% Similarity=0.400 Sum_probs=30.9
Q ss_pred Ee-eechhHHH-HHHHHHhcCCCCCceEE-EEEcCCCeEEEE---ecCCHHHH-HHHHHhcCCceEe
Q psy7515 42 AE-MTCDGCSS-AITRILDRMKDKGVESV-ECSLPDQTVKVK---STLDPDVL-LEAIKKSGKTCSY 101 (106)
Q Consensus 42 v~-m~C~~C~~-~I~~~L~~~~~~Gv~~v-~v~~~~~~v~V~---~~~~~~~i-~~~i~~~G~~~~~ 101 (106)
|. .+|.+|.. .+-+.+..+. +-... .+.+++=...-. ...+.++| ...+++.|.++.+
T Consensus 31 iaf~tCGgCpGrlvpn~~k~lk--~~egaeaihfasCml~~~PkCpy~~~eei~Kk~ie~~~i~Vv~ 95 (101)
T COG5561 31 IAFITCGGCPGRLVPNQIKQLK--GKEGAEAIHFASCMLAFKPKCPYASAEEIAKKEIEKMGIKVVM 95 (101)
T ss_pred EEEEEcCCCCcchhHHHHHHHh--hccccceeeeeeeeeccCCCCCccCHHHHHHHHHHHhCCcEEe
Confidence 45 78999944 3455555554 32211 122222222221 23677888 6678888877643
No 53
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=30.79 E-value=95 Score=16.74 Aligned_cols=60 Identities=15% Similarity=0.258 Sum_probs=34.6
Q ss_pred EEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcC--CCe--EEEE-ecCCHHHHHHHHHhcCCceE
Q psy7515 40 FKAE-MTCDGCSSAITRILDRMKDKGVESVECSLP--DQT--VKVK-STLDPDVLLEAIKKSGKTCS 100 (106)
Q Consensus 40 l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~--~~~--v~V~-~~~~~~~i~~~i~~~G~~~~ 100 (106)
+.+. -..++...++...|....- .+.++..... .+. +.+. ...+.+.+.+.|++.||.+.
T Consensus 4 ~~v~~~d~pG~l~~i~~~l~~~~i-nI~~i~~~~~~~~~~~~v~i~v~~~~~~~~~~~L~~~G~~v~ 69 (72)
T cd04883 4 IEVRVPDRPGQLADIAAIFKDRGV-NIVSVLVYPSKEEDNKILVFRVQTMNPRPIIEDLRRAGYEVL 69 (72)
T ss_pred EEEEECCCCCHHHHHHHHHHHcCC-CEEEEEEeccCCCCeEEEEEEEecCCHHHHHHHHHHCCCeee
Confidence 4444 3445666777777766530 2444443332 122 2333 22567799999999999764
No 54
>KOG4730|consensus
Probab=30.54 E-value=70 Score=25.40 Aligned_cols=50 Identities=24% Similarity=0.343 Sum_probs=34.4
Q ss_pred eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEecCCHHHHHHHHHhcCCceE
Q psy7515 44 MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKSGKTCS 100 (106)
Q Consensus 44 m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~~~~~~i~~~i~~~G~~~~ 100 (106)
|.|..- .--.+..++ -|. .+|....+++|++-+...++++.+.+.||...
T Consensus 88 l~ctdg---~lisl~~ln--kVv--~~dpe~~tvTV~aGirlrQLie~~~~~GlsL~ 137 (518)
T KOG4730|consen 88 LVCTDG---LLISLDKLN--KVV--EFDPELKTVTVQAGIRLRQLIEELAKLGLSLP 137 (518)
T ss_pred ceeccc---cEEEhhhhc--cce--eeCchhceEEeccCcCHHHHHHHHHhcCcccc
Confidence 666654 111233344 443 45777788889888999999999999999743
No 55
>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=30.35 E-value=1.6e+02 Score=19.32 Aligned_cols=33 Identities=18% Similarity=0.282 Sum_probs=27.6
Q ss_pred chhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE
Q psy7515 46 CDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK 80 (106)
Q Consensus 46 C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~ 80 (106)
-..=+..|.+.+.+++ ||..+.+-.....+.|-
T Consensus 73 ~~~~a~~i~~~v~~~~--~V~~A~vvv~~~~a~Va 105 (177)
T PF09580_consen 73 RQQLADRIANRVKKVP--GVEDATVVVTDDNAYVA 105 (177)
T ss_pred HHHHHHHHHHHHhcCC--CceEEEEEEECCEEEEE
Confidence 3456889999999999 99999988888888764
No 56
>COG3603 Uncharacterized conserved protein [Function unknown]
Probab=29.66 E-value=1.6e+02 Score=19.02 Aligned_cols=49 Identities=16% Similarity=0.291 Sum_probs=29.7
Q ss_pred hHHHHHHHHHhcCCCCCceEEEEEc-CCCeEEEEecCCHHHHHHHHHhcCCceE
Q psy7515 48 GCSSAITRILDRMKDKGVESVECSL-PDQTVKVKSTLDPDVLLEAIKKSGKTCS 100 (106)
Q Consensus 48 ~C~~~I~~~L~~~~~~Gv~~v~v~~-~~~~v~V~~~~~~~~i~~~i~~~G~~~~ 100 (106)
+-...|-+.|... ||.-..++. .+.-+.|.. .+.+.-+++|+++||++.
T Consensus 78 GilasV~~pLsd~---gigIFavStydtDhiLVr~-~dLekAv~~L~eaGhev~ 127 (128)
T COG3603 78 GILASVSQPLSDN---GIGIFAVSTYDTDHILVRE-EDLEKAVKALEEAGHEVL 127 (128)
T ss_pred hhhhhhhhhHhhC---CccEEEEEeccCceEEEeh-hhHHHHHHHHHHcCCccc
Confidence 3344555554432 666555553 344444543 477888999999999753
No 57
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.33 E-value=1e+02 Score=16.59 Aligned_cols=60 Identities=15% Similarity=0.168 Sum_probs=33.8
Q ss_pred EEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcC----CCeEEEEe--cCCHHHHHHHHHhcCCce
Q psy7515 39 VFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLP----DQTVKVKS--TLDPDVLLEAIKKSGKTC 99 (106)
Q Consensus 39 ~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~----~~~v~V~~--~~~~~~i~~~i~~~G~~~ 99 (106)
.+.+. -.-++....+.+.|....- .+..+..... ...+.+.- ..+.+.+.+.|++.||.+
T Consensus 3 ~~~v~~~d~~G~L~~l~~~l~~~~i-~i~~~~~~~~~~~~~~~~~i~v~~~~~~~~~~~~L~~~G~~v 69 (69)
T cd04909 3 DLYVDVPDEPGVIAEVTQILGDAGI-SIKNIEILEIREGIGGILRISFKTQEDRERAKEILKEAGYEV 69 (69)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCC-CceeeEeEEeecCCcEEEEEEECCHHHHHHHHHHHHHcCCcC
Confidence 34454 3445667777777776640 2444433332 22233322 135688999999999963
No 58
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=29.08 E-value=59 Score=21.69 Aligned_cols=44 Identities=18% Similarity=0.318 Sum_probs=32.9
Q ss_pred hhHHHHHHHHHhcCCCCCceEEEEEcCCCe--------------EEEE---ecCCHHHHHHHH
Q psy7515 47 DGCSSAITRILDRMKDKGVESVECSLPDQT--------------VKVK---STLDPDVLLEAI 92 (106)
Q Consensus 47 ~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~--------------v~V~---~~~~~~~i~~~i 92 (106)
.+|-.-++..+.+++ ||.++.+-...+. |.|. ..++.++|++..
T Consensus 8 gGCFWg~E~~f~~l~--GV~~t~vGYagG~~~~p~~~~tgH~E~V~V~yDp~~isy~~LL~~f 68 (156)
T PRK05528 8 GGCLWGVQAFFKTLP--GVIHTEAGRANGRTSTLDGPYDGYAECVKTHFDPRMVSITDLMGYL 68 (156)
T ss_pred cCCchhhHHHHhcCC--CEEEEEEEcCCCCCCCCCCCCCCcEEEEEEEECCCcCCHHHHHHHH
Confidence 789999999999999 9999988776643 2333 236777777755
No 59
>KOG2990|consensus
Probab=26.91 E-value=38 Score=25.06 Aligned_cols=20 Identities=35% Similarity=0.607 Sum_probs=15.1
Q ss_pred EEEEEEe--eechhHHHHHHHH
Q psy7515 37 VHVFKAE--MTCDGCSSAITRI 56 (106)
Q Consensus 37 ~~~l~v~--m~C~~C~~~I~~~ 56 (106)
.+.|..+ ++|.+|.+.|-..
T Consensus 44 vIRFEMPynIWC~gC~nhIgmG 65 (317)
T KOG2990|consen 44 VIRFEMPYNIWCDGCKNHIGMG 65 (317)
T ss_pred EEEEecccchhhccHHHhhhcc
Confidence 3556665 8999999999663
No 60
>PF10006 DUF2249: Uncharacterized conserved protein (DUF2249); InterPro: IPR018720 This domain is found in a number of hypothetical bacterial and archaeal proteins with no known function. It is also found in proteins described as cupin 2 and hemerythrin. It represents a conserved region that shows distant similarity to the SirA protein (see IPR001455 from INTERPRO).
Probab=26.70 E-value=1.2e+02 Score=16.73 Aligned_cols=44 Identities=23% Similarity=0.422 Sum_probs=31.2
Q ss_pred HHHHHHHHhcCCCCCceEEEEEcCCCeEEEEecCCHHHHHHHHHhc-CC-ceEeecC
Q psy7515 50 SSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKS-GK-TCSYIGE 104 (106)
Q Consensus 50 ~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~~~~~~i~~~i~~~-G~-~~~~~~~ 104 (106)
-..|-.++..++ ..+.+.+.....|.-+...+... || .....+.
T Consensus 13 ~~~il~~~~~L~-----------~Ge~l~lv~d~~P~pL~~~l~~~~g~~~~~~~~~ 58 (69)
T PF10006_consen 13 HERILEALDELP-----------PGETLELVNDHDPRPLYPQLEERRGFFSWEYEEQ 58 (69)
T ss_pred HHHHHHHHHcCC-----------CCCEEEEEeCCCCHHHHHHHHHhCCCceEEEEEc
Confidence 455666677665 45566777778899999999988 98 6655443
No 61
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=26.24 E-value=1.2e+02 Score=17.16 Aligned_cols=29 Identities=7% Similarity=0.283 Sum_probs=16.6
Q ss_pred eechhHHHHHHHHHhcCCC--CCceEEEEEcC
Q psy7515 44 MTCDGCSSAITRILDRMKD--KGVESVECSLP 73 (106)
Q Consensus 44 m~C~~C~~~I~~~L~~~~~--~Gv~~v~v~~~ 73 (106)
-.|+.|. ++.+.|..+.. .|+.-..+|..
T Consensus 9 ~~C~~C~-~a~~~L~~l~~~~~~i~~~~idi~ 39 (85)
T PRK11200 9 PGCPYCV-RAKELAEKLSEERDDFDYRYVDIH 39 (85)
T ss_pred CCChhHH-HHHHHHHhhcccccCCcEEEEECC
Confidence 5799998 45556666420 05555445443
No 62
>KOG3782|consensus
Probab=26.23 E-value=1.8e+02 Score=19.89 Aligned_cols=37 Identities=19% Similarity=0.431 Sum_probs=23.3
Q ss_pred eechhHHHHHH---HHHhcCCCC---CceEEEEEcCCCeEEEE
Q psy7515 44 MTCDGCSSAIT---RILDRMKDK---GVESVECSLPDQTVKVK 80 (106)
Q Consensus 44 m~C~~C~~~I~---~~L~~~~~~---Gv~~v~v~~~~~~v~V~ 80 (106)
++|..|...|. .++.+.+-+ .|.++++|+......+.
T Consensus 25 ~~CgaC~alVtelE~~IA~vDPkK~i~vgsFR~~p~G~q~~~k 67 (189)
T KOG3782|consen 25 VKCGACKALVTELEEAIAKVDPKKMIDVGSFRLDPQGNQISKK 67 (189)
T ss_pred cccchHHHHHHHHHHHHHhcCchheeeecceEECCCCCeeeee
Confidence 57999976664 444444310 26788888877765444
No 63
>TIGR00268 conserved hypothetical protein TIGR00268. The N-terminal region of the model shows similarity to Argininosuccinate synthase proteins using PSI-blast and using the recognize protein identification server.
Probab=26.21 E-value=2.4e+02 Score=19.86 Aligned_cols=50 Identities=16% Similarity=0.181 Sum_probs=35.5
Q ss_pred HHHHHHHHhcCCCCCceEEEEEcCCCeEEEEe---c-----CCHHHHHHHHHhcCCceEee
Q psy7515 50 SSAITRILDRMKDKGVESVECSLPDQTVKVKS---T-----LDPDVLLEAIKKSGKTCSYI 102 (106)
Q Consensus 50 ~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~---~-----~~~~~i~~~i~~~G~~~~~~ 102 (106)
+...+..|..+ |...++|-.....+.|+- . ...+.|...+++.||....+
T Consensus 187 v~~~E~~l~~~---g~~~~rvr~~~~~a~ie~~~~~~~~~~~~~~~i~~~~~~~gf~~v~l 244 (252)
T TIGR00268 187 VDEAEEVLRNA---GVGQVRVRNYDNLAVIEVPEDELSKLLNEAEEVRDKFKDIGFRKVLI 244 (252)
T ss_pred HHHHHHHHHHc---CCCeEEEEecCCeEEEEECHHHHHHHHhhHHHHHHHHHHcCCCeEEE
Confidence 55667778775 787888887777777761 1 12477889999999985543
No 64
>TIGR01617 arsC_related transcriptional regulator, Spx/MgsR family. This model represents a portion of the proteins within the larger set covered by Pfam model pfam03960. That larger family includes a glutaredoxin-dependent arsenate reductase (TIGR00014). Characterized members of this family include Spx and MgsR from Bacillus subtili. Spx is a global regulator for response to thiol-specific oxidative stress. It interacts with RNA polymerase. MgsR (modulator of the general stress response, also called YqgZ) provides a second level of regulation for more than a third of the proteins in the B. subtilis general stress regulon controlled by Sigma-B.
Probab=26.09 E-value=1.6e+02 Score=18.00 Aligned_cols=45 Identities=20% Similarity=0.302 Sum_probs=27.1
Q ss_pred eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEecCCHHHHHHHHHhcCCc
Q psy7515 44 MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKSGKT 98 (106)
Q Consensus 44 m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~~~~~~i~~~i~~~G~~ 98 (106)
-.|+.|.... +.|... |+.-..+|... ...+.+++.+.+...|..
T Consensus 7 ~~C~~c~ka~-~~L~~~---~i~~~~idi~~------~~~~~~el~~l~~~~~~~ 51 (117)
T TIGR01617 7 PNCTTCKKAR-RWLEAN---GIEYQFIDIGE------DGPTREELLDILSLLEDG 51 (117)
T ss_pred CCCHHHHHHH-HHHHHc---CCceEEEecCC------ChhhHHHHHHHHHHcCCC
Confidence 5799998654 445543 66544454432 234567777777777743
No 65
>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=25.90 E-value=35 Score=19.64 Aligned_cols=18 Identities=11% Similarity=0.473 Sum_probs=15.6
Q ss_pred eechhHHHHHHHHHhcCC
Q psy7515 44 MTCDGCSSAITRILDRMK 61 (106)
Q Consensus 44 m~C~~C~~~I~~~L~~~~ 61 (106)
+-|+.|..+..+++.+-.
T Consensus 16 LPC~~Cr~HA~~ai~kNN 33 (70)
T PF04805_consen 16 LPCPECRIHAKEAIQKNN 33 (70)
T ss_pred CCCHHHHHHHHHHHHhcC
Confidence 779999999999888765
No 66
>PRK09577 multidrug efflux protein; Reviewed
Probab=25.65 E-value=2.7e+02 Score=24.14 Aligned_cols=46 Identities=17% Similarity=0.266 Sum_probs=34.5
Q ss_pred HHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--------ecCCHHHHHHHHHhcCC
Q psy7515 50 SSAITRILDRMKDKGVESVECSLPDQTVKVK--------STLDPDVLLEAIKKSGK 97 (106)
Q Consensus 50 ~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--------~~~~~~~i~~~i~~~G~ 97 (106)
...++..|..++ ||.++.++-....+.|. ..+++.+|.++|+..+.
T Consensus 158 ~~~l~~~L~~v~--GV~~V~~~G~e~~v~V~vD~~kl~~~Gls~~~V~~~l~~~n~ 211 (1032)
T PRK09577 158 SANVLQALRRVE--GVGKVQFWGAEYAMRIWPDPVKLAALGLTASDIASAVRAHNA 211 (1032)
T ss_pred HHHHHHHHhcCC--CcEEEEecCCceEEEEEeCHHHHHHcCCCHHHHHHHHHHhCC
Confidence 467889999999 99999987654445553 22688889999986543
No 67
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=25.64 E-value=63 Score=20.09 Aligned_cols=23 Identities=13% Similarity=0.234 Sum_probs=17.0
Q ss_pred EEEEe-eechhHHHHHHHHHhcCC
Q psy7515 39 VFKAE-MTCDGCSSAITRILDRMK 61 (106)
Q Consensus 39 ~l~v~-m~C~~C~~~I~~~L~~~~ 61 (106)
.-.|+ +.|..+...++++|+++.
T Consensus 12 tk~VNV~~c~~a~eI~~rvLKKfg 35 (105)
T PF14847_consen 12 TKTVNVSGCFNAQEIKRRVLKKFG 35 (105)
T ss_dssp EEEEE--S--HHHHHHHHHHHHHT
T ss_pred EEEEEECCCCCHHHHHHHHHHHcC
Confidence 34677 899999999999999994
No 68
>PF04831 Popeye: Popeye protein conserved region; InterPro: IPR006916 The Popeye (POP) family of proteins, is restricted to vertebrates and is preferentially expressed in developing and adult striated muscle. It is represented by a conserved region which includes three potential transmembrane domains []. The strong conservation of POP genes during evolution and their preferential expression in heart and skeletal muscle suggest that these novel proteins may have an important function in these tissues in vertebrates.; GO: 0016020 membrane
Probab=25.13 E-value=47 Score=22.20 Aligned_cols=12 Identities=33% Similarity=0.996 Sum_probs=9.7
Q ss_pred Ccccchhhhhhh
Q psy7515 1 MHYLDSKQWDNY 12 (106)
Q Consensus 1 ~~~~~~~~~~~~ 12 (106)
++|||+-+|..-
T Consensus 73 ~qFlDSPEW~s~ 84 (153)
T PF04831_consen 73 YQFLDSPEWESL 84 (153)
T ss_pred cccccChhhhcc
Confidence 479999999765
No 69
>KOG2903|consensus
Probab=24.94 E-value=2e+02 Score=21.33 Aligned_cols=33 Identities=15% Similarity=0.220 Sum_probs=24.5
Q ss_pred eEEEEEEeeech-hHHHHHHHHHhcCCCCCceEEEE
Q psy7515 36 KVHVFKAEMTCD-GCSSAITRILDRMKDKGVESVEC 70 (106)
Q Consensus 36 ~~~~l~v~m~C~-~C~~~I~~~L~~~~~~Gv~~v~v 70 (106)
.++.+-|.+.|+ .+...|-++|+.++ .+..+.+
T Consensus 36 gryhLYvslaCPWAhRtLi~r~LKGL~--~~i~~s~ 69 (319)
T KOG2903|consen 36 GRYHLYVSLACPWAHRTLIVRALKGLE--PAIGVSV 69 (319)
T ss_pred ceEEEEEeccCcHHHHHHHHHHHcCcc--ccceeEE
Confidence 357888888887 57788899999887 6554443
No 70
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=24.89 E-value=2.2e+02 Score=21.58 Aligned_cols=53 Identities=6% Similarity=0.037 Sum_probs=32.2
Q ss_pred EEEEEe-eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEEecCCHHHHHHHHHhcCCceE
Q psy7515 38 HVFKAE-MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVKSTLDPDVLLEAIKKSGKTCS 100 (106)
Q Consensus 38 ~~l~v~-m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~~~~~~~~i~~~i~~~G~~~~ 100 (106)
-.+.+. -.|.+|+..|-++ |+..|-+-..-.. .+......+.+.|+.+|..+.
T Consensus 46 ~~i~~s~~p~~~cad~ii~~-------gi~rVVi~~D~d~---~G~~~~~~~~~~L~~aGi~V~ 99 (360)
T PRK14719 46 NFITVSNTPVFQIADDLIAE-------NISEVILLTDFDR---AGRVYAKNIMEEFQSRGIKVN 99 (360)
T ss_pred cEEEEeCCchHHHHHHHHHc-------CCCEEEEEECCCC---CCCccchHHHHHHHHCCCEEE
Confidence 346677 7899999988775 6655544331111 222223456778888887763
No 71
>PF09324 DUF1981: Domain of unknown function (DUF1981); InterPro: IPR015403 This domain is functionally uncharacterised and found in various plant and yeast protein transport proteins. It is noramlly associated with and C-termianl to the SEC7 domain. The SEC7 domain was named after the first protein found to contain such a region []. It has been shown to be linked with guanine nucleotide exchange function [, ].
Probab=23.22 E-value=28 Score=20.58 Aligned_cols=12 Identities=25% Similarity=0.789 Sum_probs=8.8
Q ss_pred Ccccchhhhhhh
Q psy7515 1 MHYLDSKQWDNY 12 (106)
Q Consensus 1 ~~~~~~~~~~~~ 12 (106)
|+||+.+++-+|
T Consensus 1 ~kfl~~~El~~~ 12 (86)
T PF09324_consen 1 MKFLEKEELSNF 12 (86)
T ss_pred CCcccccccccc
Confidence 778888877555
No 72
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=22.97 E-value=86 Score=16.15 Aligned_cols=18 Identities=11% Similarity=0.386 Sum_probs=15.4
Q ss_pred CCHHHHHHHHHhcCCceE
Q psy7515 83 LDPDVLLEAIKKSGKTCS 100 (106)
Q Consensus 83 ~~~~~i~~~i~~~G~~~~ 100 (106)
.++++++...+..||...
T Consensus 27 ~~~~e~~~lA~~~Gy~ft 44 (49)
T PF07862_consen 27 QNPEEVVALAREAGYDFT 44 (49)
T ss_pred CCHHHHHHHHHHcCCCCC
Confidence 478899999999999865
No 73
>PRK14440 acylphosphatase; Provisional
Probab=22.74 E-value=1.8e+02 Score=17.27 Aligned_cols=57 Identities=25% Similarity=0.233 Sum_probs=39.3
Q ss_pred ceEEEEEEe--eechhHHHHHHHHHhcCCCCCceEEEEEcCCCeEEEE--ec-CCHHHHHHHHHh
Q psy7515 35 AKVHVFKAE--MTCDGCSSAITRILDRMKDKGVESVECSLPDQTVKVK--ST-LDPDVLLEAIKK 94 (106)
Q Consensus 35 ~~~~~l~v~--m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~--~~-~~~~~i~~~i~~ 94 (106)
|.++.+.|. ...-+....+.+...++ |+....-|...++|.+. +. ...+++++.|++
T Consensus 2 m~~~~~~v~G~VQGVGFR~~v~~~A~~~---gl~G~V~N~~dG~Vei~~~G~~~~v~~f~~~l~~ 63 (90)
T PRK14440 2 LKRMYARVYGLVQGVGFRKFVQIHAIRL---GIKGYAKNLPDGSVEVVAEGYEEALSKLLERIKQ 63 (90)
T ss_pred cEEEEEEEEEeEeccCchHHHHHHHHHc---CCEEEEEECCCCCEEEEEEcCHHHHHHHHHHHhh
Confidence 445666665 66666777776666665 78888889999988776 32 346677777764
No 74
>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=22.67 E-value=1.1e+02 Score=20.38 Aligned_cols=27 Identities=22% Similarity=0.402 Sum_probs=24.0
Q ss_pred hhHHHHHHHHHhcCCCCCceEEEEEcCCC
Q psy7515 47 DGCSSAITRILDRMKDKGVESVECSLPDQ 75 (106)
Q Consensus 47 ~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~ 75 (106)
.+|-.-++..+.+++ ||.++.+-.+.+
T Consensus 7 ~GCFW~~e~~f~~~~--GV~~t~vGYagG 33 (155)
T PF01625_consen 7 GGCFWGVEAAFRRLP--GVISTRVGYAGG 33 (155)
T ss_dssp ESSHHHHHHHHHTST--TEEEEEEEEESS
T ss_pred cCCCeEhHHHHhhCC--CEEEEEecccCC
Confidence 689999999999999 999999887665
No 75
>PF08782 c-SKI_SMAD_bind: c-SKI Smad4 binding domain; InterPro: IPR014890 c-SKI is an oncoprotein that inhibits TGF-beta signalling through interaction with Smad proteins []. This protein binds to Smad4 [].; GO: 0005634 nucleus; PDB: 1MR1_C.
Probab=22.62 E-value=36 Score=20.95 Aligned_cols=13 Identities=38% Similarity=0.882 Sum_probs=7.9
Q ss_pred cchhhhhhhhhcC
Q psy7515 4 LDSKQWDNYLKAR 16 (106)
Q Consensus 4 ~~~~~~~~~~~~~ 16 (106)
.|..+|++||.-.
T Consensus 60 fds~nWr~yL~l~ 72 (96)
T PF08782_consen 60 FDSANWRRYLHLS 72 (96)
T ss_dssp --GGGHHHC-EE-
T ss_pred cCHhHhhHHheec
Confidence 3899999998655
No 76
>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=22.62 E-value=1.4e+02 Score=16.12 Aligned_cols=31 Identities=19% Similarity=0.215 Sum_probs=21.9
Q ss_pred EEEEEeeechh-HHHHHHHHHhcCCCCCceEEEE
Q psy7515 38 HVFKAEMTCDG-CSSAITRILDRMKDKGVESVEC 70 (106)
Q Consensus 38 ~~l~v~m~C~~-C~~~I~~~L~~~~~~Gv~~v~v 70 (106)
+.|.++..-.. -...+-+.|++++ ||.++.+
T Consensus 43 i~~~v~v~~~~~~l~~l~~~L~~i~--~V~~v~~ 74 (76)
T cd04888 43 VTISIDTSTMNGDIDELLEELREID--GVEKVEL 74 (76)
T ss_pred EEEEEEcCchHHHHHHHHHHHhcCC--CeEEEEE
Confidence 45555533333 6778888899999 9988764
No 77
>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=22.27 E-value=84 Score=20.74 Aligned_cols=27 Identities=19% Similarity=0.288 Sum_probs=23.1
Q ss_pred hhHHHHHHHHHhcCCCCCceEEEEEcCCC
Q psy7515 47 DGCSSAITRILDRMKDKGVESVECSLPDQ 75 (106)
Q Consensus 47 ~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~ 75 (106)
.+|-.-++..+..++ ||.++.+-...+
T Consensus 7 gGCFWg~E~~f~~~~--GV~~t~~GYagG 33 (149)
T TIGR00401 7 GGCFWGVEKYFWLIP--GVYSTAVGYTGG 33 (149)
T ss_pred cCCchhhHHHHhcCC--CEEEEEEeeCCC
Confidence 689999999999999 999988876654
No 78
>PRK03094 hypothetical protein; Provisional
Probab=21.93 E-value=1.1e+02 Score=18.17 Aligned_cols=20 Identities=15% Similarity=0.180 Sum_probs=16.5
Q ss_pred CHHHHHHHHHhcCCceEeec
Q psy7515 84 DPDVLLEAIKKSGKTCSYIG 103 (106)
Q Consensus 84 ~~~~i~~~i~~~G~~~~~~~ 103 (106)
++..|.+.|++.||.+..+.
T Consensus 9 ~Ls~i~~~L~~~GYeVv~l~ 28 (80)
T PRK03094 9 SLTDVQQALKQKGYEVVQLR 28 (80)
T ss_pred CcHHHHHHHHHCCCEEEecC
Confidence 56779999999999987553
No 79
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=21.90 E-value=1.8e+02 Score=19.87 Aligned_cols=35 Identities=17% Similarity=0.316 Sum_probs=27.3
Q ss_pred ceEEEEEEeeechhHHHHHHHHHhcCCCCCceEEEEEcCCCe
Q psy7515 35 AKVHVFKAEMTCDGCSSAITRILDRMKDKGVESVECSLPDQT 76 (106)
Q Consensus 35 ~~~~~l~v~m~C~~C~~~I~~~L~~~~~~Gv~~v~v~~~~~~ 76 (106)
++++.|. .+|-.=+++.+.+++ ||.++.+-.+.+.
T Consensus 6 ~~~a~fa-----gGCFWg~E~~f~~i~--GV~~t~~GYagG~ 40 (174)
T COG0225 6 MEKAYFA-----GGCFWGVEAYFEQIP--GVLSTVSGYAGGH 40 (174)
T ss_pred cEEEEEe-----ccCccchHHHHhhCC--CeEEEeeeEcCCC
Confidence 4445554 788888999999999 9999888776653
No 80
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=21.75 E-value=1.7e+02 Score=17.57 Aligned_cols=49 Identities=18% Similarity=0.038 Sum_probs=25.9
Q ss_pred HHHHHHHHhcCCCCCceEEEEEcCCCeEEEE---ecCCHHHHHHHHHhcCCceE
Q psy7515 50 SSAITRILDRMKDKGVESVECSLPDQTVKVK---STLDPDVLLEAIKKSGKTCS 100 (106)
Q Consensus 50 ~~~I~~~L~~~~~~Gv~~v~v~~~~~~v~V~---~~~~~~~i~~~i~~~G~~~~ 100 (106)
+..++=.|.+.+ +|-.+-+|.-.+...|. ...+.++|.+.+++.++.+.
T Consensus 13 A~~~QYeLsk~~--~vyRvFiNgYar~g~VifDe~kl~~e~lL~~le~~kpEVi 64 (88)
T PF11491_consen 13 AMVKQYELSKNE--AVYRVFINGYARNGFVIFDESKLSKEELLEMLEEFKPEVI 64 (88)
T ss_dssp THHHHHTTTTTT--TB------TTSS--EEE--B-S-SHHHH---HHHTTT-SS
T ss_pred HHHHHHHhhccc--ceeeeeecccccceEEEECcccCCHHHHHHHHHhcChhhe
Confidence 445556677777 99999999888777665 44789999999998887643
No 81
>PF11378 DUF3181: Protein of unknown function (DUF3181); InterPro: IPR021518 This family of proteins has no known function.
Probab=21.70 E-value=39 Score=20.41 Aligned_cols=14 Identities=36% Similarity=0.876 Sum_probs=12.4
Q ss_pred ccchhhhhhhhhcC
Q psy7515 3 YLDSKQWDNYLKAR 16 (106)
Q Consensus 3 ~~~~~~~~~~~~~~ 16 (106)
|+|..+|+=||.+-
T Consensus 13 YidVa~WhLYL~DA 26 (87)
T PF11378_consen 13 YIDVAKWHLYLGDA 26 (87)
T ss_pred eehhhhhhhhhccc
Confidence 78999999998776
No 82
>PF11360 DUF3110: Protein of unknown function (DUF3110); InterPro: IPR021503 This family of proteins has no known function.
Probab=21.37 E-value=1.4e+02 Score=17.80 Aligned_cols=23 Identities=22% Similarity=0.450 Sum_probs=19.7
Q ss_pred CCHHHHHHHHHhcCCceEeecCC
Q psy7515 83 LDPDVLLEAIKKSGKTCSYIGEG 105 (106)
Q Consensus 83 ~~~~~i~~~i~~~G~~~~~~~~~ 105 (106)
++.++|....++.||.+.++.++
T Consensus 55 id~~~i~~fC~~~gy~~~iv~~g 77 (86)
T PF11360_consen 55 IDPEEIEEFCRSAGYEYEIVPPG 77 (86)
T ss_pred ECHHHHHHHHHHCCceEEEECCC
Confidence 57888999999999999888765
No 83
>PF09920 DUF2150: Uncharacterized protein conserved in archaea (DUF2150); InterPro: IPR014518 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=21.03 E-value=56 Score=22.64 Aligned_cols=15 Identities=13% Similarity=0.716 Sum_probs=11.9
Q ss_pred cccchhhhhhhhhcC
Q psy7515 2 HYLDSKQWDNYLKAR 16 (106)
Q Consensus 2 ~~~~~~~~~~~~~~~ 16 (106)
-|-.-++|+||+..-
T Consensus 2 eFYtqeRW~NWi~~l 16 (190)
T PF09920_consen 2 EFYTQERWQNWINRL 16 (190)
T ss_pred ccccHHHHHHHHHHH
Confidence 466789999998765
No 84
>PHA01634 hypothetical protein
Probab=20.90 E-value=50 Score=21.82 Aligned_cols=16 Identities=25% Similarity=0.704 Sum_probs=13.0
Q ss_pred EEEe-eechhHHHHHHH
Q psy7515 40 FKAE-MTCDGCSSAITR 55 (106)
Q Consensus 40 l~v~-m~C~~C~~~I~~ 55 (106)
+.|- |.|.+|..++.-
T Consensus 93 ~Di~~iDCeGCE~~l~v 109 (156)
T PHA01634 93 VDIFVMDCEGCEEKLNV 109 (156)
T ss_pred cceEEEEccchHHhcCH
Confidence 6777 999999988743
No 85
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.80 E-value=57 Score=19.31 Aligned_cols=17 Identities=24% Similarity=0.849 Sum_probs=14.4
Q ss_pred eechhHHHHHHHHHhcC
Q psy7515 44 MTCDGCSSAITRILDRM 60 (106)
Q Consensus 44 m~C~~C~~~I~~~L~~~ 60 (106)
-.|+.|..++++.|...
T Consensus 34 t~ce~c~a~~kk~l~~v 50 (82)
T COG2331 34 TTCEECGARLKKLLNAV 50 (82)
T ss_pred ccChhhChHHHHhhccc
Confidence 46999999999998766
Done!