Query 025993
Match_columns 245
No_of_seqs 189 out of 1209
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 02:26:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025993.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025993hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0225 MsrA Peptide methionin 100.0 6.1E-71 1.3E-75 470.0 16.0 155 40-195 3-162 (174)
2 PRK13014 methionine sulfoxide 100.0 1.4E-68 3.1E-73 462.0 17.9 177 38-238 3-184 (186)
3 PRK14054 methionine sulfoxide 100.0 6.6E-67 1.4E-71 447.0 16.7 147 42-189 2-153 (172)
4 TIGR00401 msrA methionine-S-su 100.0 1.4E-65 3.1E-70 430.0 16.1 144 44-188 1-149 (149)
5 PRK05528 methionine sulfoxide 100.0 1.9E-64 4.1E-69 426.0 16.7 148 43-195 1-148 (156)
6 PRK00058 methionine sulfoxide 100.0 4.1E-64 8.9E-69 441.7 17.3 155 40-195 42-203 (213)
7 PF01625 PMSR: Peptide methion 100.0 6.4E-65 1.4E-69 428.4 10.1 150 44-194 1-154 (155)
8 KOG1635 Peptide methionine sul 100.0 3.8E-64 8.3E-69 427.2 13.9 151 37-189 18-172 (191)
9 PRK05550 bifunctional methioni 100.0 4.2E-60 9E-65 431.5 16.8 150 42-194 126-280 (283)
10 PRK14018 trifunctional thiored 100.0 2.2E-58 4.8E-63 449.4 16.9 157 39-197 194-353 (521)
11 PF00403 HMA: Heavy-metal-asso 93.5 0.09 1.9E-06 36.6 3.2 47 50-111 10-56 (62)
12 PF07172 GRP: Glycine rich pro 84.4 0.92 2E-05 35.7 2.7 20 1-21 1-20 (95)
13 COG2608 CopZ Copper chaperone 82.8 2.1 4.5E-05 31.3 3.9 47 49-110 13-59 (71)
14 PF08098 ATX_III: Anemonia sul 75.0 1.1 2.5E-05 27.4 0.3 9 48-56 11-19 (27)
15 PF02682 AHS1: Allophanate hyd 70.6 6.2 0.00013 34.7 4.1 68 54-140 28-97 (202)
16 COG2049 DUR1 Allophanate hydro 69.3 6 0.00013 35.8 3.8 40 54-110 26-67 (223)
17 PF03852 Vsr: DNA mismatch end 66.5 2.3 5.1E-05 32.3 0.5 21 35-55 48-68 (75)
18 smart00796 AHS1 Allophanate hy 49.5 26 0.00057 30.8 4.3 68 54-140 28-98 (201)
19 TIGR02712 urea_carbox urea car 48.6 56 0.0012 36.3 7.4 32 63-111 842-873 (1201)
20 COG2217 ZntA Cation transport 47.2 20 0.00044 37.5 3.7 46 50-111 14-60 (713)
21 PRK13379 protocatechuate 4,5-d 47.1 16 0.00034 30.2 2.3 44 201-245 18-61 (119)
22 TIGR02792 PCA_ligA protocatech 47.0 16 0.00034 30.1 2.2 44 201-245 11-54 (117)
23 cd07921 PCA_45_Doxase_A_like S 46.9 15 0.00033 29.6 2.2 43 202-245 7-49 (106)
24 cd07925 LigA_like_1 The A subu 46.4 17 0.00036 29.5 2.3 43 202-245 7-49 (106)
25 cd07924 PCA_45_Doxase_A The A 45.6 18 0.00038 30.0 2.3 44 201-245 14-57 (121)
26 COG3017 LolB Outer membrane li 45.0 24 0.00052 31.7 3.3 25 1-25 1-25 (206)
27 PF11491 DUF3213: Protein of u 44.7 19 0.00041 28.1 2.3 30 87-117 32-61 (88)
28 PRK13378 protocatechuate 4,5-d 44.1 19 0.00042 29.6 2.4 44 201-245 17-60 (117)
29 PRK13377 protocatechuate 4,5-d 43.8 19 0.00041 30.1 2.3 44 201-245 17-60 (129)
30 TIGR00003 copper ion binding p 42.9 76 0.0016 19.2 5.2 47 50-111 14-60 (68)
31 COG3727 Vsr DNA G:T-mismatch r 42.2 15 0.00032 31.2 1.4 23 34-56 48-70 (150)
32 KOG4309 Transcription mediator 35.3 37 0.00079 30.2 2.9 43 91-137 140-188 (217)
33 COG3458 Acetyl esterase (deace 34.6 52 0.0011 31.2 3.9 70 44-117 148-237 (321)
34 PHA03303 envelope glycoprotein 34.3 14 0.00029 31.8 0.1 18 46-63 140-157 (159)
35 PF03622 IBV_3B: IBV 3B protei 34.0 24 0.00052 25.9 1.3 18 42-59 36-53 (64)
36 cd07923 Gallate_dioxygenase_C 32.9 29 0.00062 27.5 1.7 38 207-245 4-41 (94)
37 PRK15266 subtilase cytotoxin s 32.2 49 0.0011 27.7 3.0 22 90-111 94-115 (135)
38 COG4594 FecB ABC-type Fe3+-cit 31.4 73 0.0016 30.0 4.2 165 1-182 1-212 (310)
39 KOG2003 TPR repeat-containing 29.6 17 0.00037 36.9 -0.1 16 47-62 397-412 (840)
40 PRK13367 protocatechuate 4,5-d 27.9 56 0.0012 32.3 3.1 67 177-245 285-354 (420)
41 PRK10802 peptidoglycan-associa 26.6 74 0.0016 27.2 3.3 25 1-25 1-25 (173)
42 TIGR00370 conserved hypothetic 26.3 82 0.0018 27.8 3.6 39 54-110 23-61 (202)
43 PRK14624 hypothetical protein; 25.8 41 0.00089 27.4 1.5 32 69-103 33-64 (115)
44 PF02083 Urotensin_II: Urotens 25.4 23 0.0005 18.1 -0.0 6 50-55 4-9 (12)
45 PF07746 LigA: Aromatic-ring-o 24.4 56 0.0012 25.3 1.9 33 211-244 1-33 (88)
46 PF14198 TnpV: Transposon-enco 22.3 43 0.00093 26.9 1.0 54 177-243 28-81 (111)
47 PF04990 RNA_pol_Rpb1_7: RNA p 21.4 43 0.00094 27.9 0.8 27 90-116 7-38 (135)
48 KOG0207 Cation transport ATPas 21.2 98 0.0021 33.6 3.5 54 45-113 73-129 (951)
49 PRK12700 flgH flagellar basal 21.2 98 0.0021 28.1 3.1 23 3-25 2-25 (230)
No 1
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.1e-71 Score=469.97 Aligned_cols=155 Identities=41% Similarity=0.660 Sum_probs=146.9
Q ss_pred CCCccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccC----CceeEEEEEEcCCCCCHHHHHHHHHhcC
Q 025993 40 GRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSH 115 (245)
Q Consensus 40 ~~~~~~a~fagGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~----gHaEaV~V~yDp~~isy~~LL~~Ff~~h 115 (245)
..++++|+||||||||+|+.|+++|||++|+|||+||+++||||++|| ||+|+|+|+|||++|||++||++||++|
T Consensus 3 ~~~~~~a~fagGCFWg~E~~f~~i~GV~~t~~GYagG~~~nptY~~Vcsg~TgHaE~V~V~yDp~~isy~~LL~~ff~ih 82 (174)
T COG0225 3 PAGMEKAYFAGGCFWGVEAYFEQIPGVLSTVSGYAGGHTPNPTYEEVCSGTTGHAEAVEVTYDPKVISYEELLEVFFEIH 82 (174)
T ss_pred cCCcEEEEEeccCccchHHHHhhCCCeEEEeeeEcCCCCCCCChhhccCCCCCceEEEEEEeCCccccHHHHHHHHheec
Confidence 357899999999999999999999999999999999999999999986 9999999999999999999999999999
Q ss_pred CCCcCCCCCCCCCCCceeeeccCCHHHHHHHHHHHHHHHh-hcCCCceEEEEeeCCCcccCchhhhhhhhhcCCcceecc
Q 025993 116 DCRQVFGQGPDVGNQYRSIIFTNGTEESRLAAHSKEREQM-KSKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLIHLM 194 (245)
Q Consensus 116 dPt~~~rQg~d~G~QYRSaIf~~~e~q~~~A~~~~~~~~~-~~~~~~i~TeI~p~~~Fy~AEeyHQ~Y~l~k~P~~~~~l 194 (245)
|||+.||||||+|+||||+|||+|++|+++|+++++++++ ..+.+||+|||+|+++||+||||||+| |+|||..|+.+
T Consensus 83 DPT~~nrQGnD~GtqYRs~Iy~~~~~q~~~a~~~~~~~q~~~~~~~~IvteI~p~~~Fy~AEeYHQ~Y-l~KNP~gY~~~ 161 (174)
T COG0225 83 DPTSLNRQGNDRGTQYRSAIYYTNEEQKAIAEASIEELQASGYFKKPIVTEIEPAKNFYPAEEYHQDY-LKKNPNGYCHI 161 (174)
T ss_pred CCCCCCccCCcccccceeEEEEcCHHHHHHHHHHHHHHHHhccCCCCeEEEeeccccCcccHHHHHHH-HHhCCCCceee
Confidence 9999999999999999999999999999999999988877 456679999999999999999999999 68999877776
Q ss_pred C
Q 025993 195 G 195 (245)
Q Consensus 195 ~ 195 (245)
+
T Consensus 162 ~ 162 (174)
T COG0225 162 G 162 (174)
T ss_pred c
Confidence 3
No 2
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=100.00 E-value=1.4e-68 Score=462.02 Aligned_cols=177 Identities=34% Similarity=0.580 Sum_probs=163.7
Q ss_pred CCCCCccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccC----CceeEEEEEEcCCCCCHHHHHHHHHh
Q 025993 38 ELGRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWT 113 (245)
Q Consensus 38 ~~~~~~~~a~fagGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~----gHaEaV~V~yDp~~isy~~LL~~Ff~ 113 (245)
..+.++++|+||||||||+|+.|++++||++|+|||+||.++||||++|| ||+|+|+|+|||++|||++||++||.
T Consensus 3 ~~~~~~~~a~~agGCFWg~E~~f~~l~GV~~t~vGYagG~~~nPtY~~Vcsg~tgH~E~V~V~yDp~~iSy~~LL~~Ff~ 82 (186)
T PRK13014 3 AAADGMETATFAGGCFWGVEGVFQHVPGVVSVVSGYSGGHVDNPTYEQVCTGTTGHAEAVQITYDPKQVSYENLLQIFFS 82 (186)
T ss_pred CCCCCccEEEEecCCceeeHHHHccCCCEEEEEeeecCCCCCCCChhhhcCCCCCceEEEEEEECCCcCCHHHHHHHHHH
Confidence 34567899999999999999999999999999999999999999999997 99999999999999999999999999
Q ss_pred cCCCCcCCCCCCCCCCCceeeeccCCHHHHHHHHHHHHHHHhh-cCCCceEEEEeeCCCcccCchhhhhhhhhcCCccee
Q 025993 114 SHDCRQVFGQGPDVGNQYRSIIFTNGTEESRLAAHSKEREQMK-SKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLIH 192 (245)
Q Consensus 114 ~hdPt~~~rQg~d~G~QYRSaIf~~~e~q~~~A~~~~~~~~~~-~~~~~i~TeI~p~~~Fy~AEeyHQ~Y~l~k~P~~~~ 192 (245)
+||||+.||||+|+|+||||+|||+|++|+++|+.++++++++ .+.++|+|+|+|+.+||+||+|||+|| +|||.
T Consensus 83 ~hDPt~~~~Qg~D~G~QYRS~If~~~~eQ~~~a~~~~~~~~~~~~~~~~i~Tei~p~~~Fy~AEeyHQ~Yl-~k~p~--- 158 (186)
T PRK13014 83 THDPTQLNRQGPDRGEQYRSAIFYHDEEQKKVAEAYIAQLDEAGIFKKPIVTPIKPYKNFYPAEDYHQDYL-KKNPT--- 158 (186)
T ss_pred hcCCCccCCCCCCCCCCceEEEEeCCHHHHHHHHHHHHHHHhccccCCCcEEEEecCCCeeeCHHHHHHHH-HhCCC---
Confidence 9999999999999999999999999999999999988877654 356799999999999999999999995 68998
Q ss_pred ccCCCChHHHHhhhHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcC
Q 025993 193 LMGNLPQEELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKG 238 (245)
Q Consensus 193 ~l~~~~~~~~~~S~~Aarlngy~~~~~~pk~~k~l~~~~~~~~~~~ 238 (245)
++||+..+.||+.+ +++.+.+.|+++
T Consensus 159 -------------------~~yc~~~~~~~~~~-~~~~~~~~~~~~ 184 (186)
T PRK13014 159 -------------------HPYIVYNDLPKGSG-LKAFFESHYGNQ 184 (186)
T ss_pred -------------------CCccEEEeChhhhh-HHHHHHHHhccC
Confidence 79999999999976 788787777653
No 3
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=100.00 E-value=6.6e-67 Score=447.05 Aligned_cols=147 Identities=40% Similarity=0.686 Sum_probs=140.2
Q ss_pred CccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccC----CceeEEEEEEcCCCCCHHHHHHHHHhcCCC
Q 025993 42 PLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSHDC 117 (245)
Q Consensus 42 ~~~~a~fagGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~----gHaEaV~V~yDp~~isy~~LL~~Ff~~hdP 117 (245)
++++|+||||||||+|+.|++++||++|+|||+||.++||||++|| ||+|+|+|+|||++|||++||++||++|||
T Consensus 2 ~~~~a~fagGCFWg~E~~f~~~~GV~~t~vGYagG~~~~PtY~~Vcsg~tgh~E~V~V~yDp~~isy~~Ll~~f~~~hDP 81 (172)
T PRK14054 2 MMETAVLAGGCFWGMEAPFDRVKGVISTRVGYTGGHVENPTYEQVCSGTTGHAEAVEITYDPAVISYRELLELFFQIHDP 81 (172)
T ss_pred CceEEEEEcCChhhhHHHHccCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCCcCCHHHHHHHHHHhCCC
Confidence 5789999999999999999999999999999999999999999985 899999999999999999999999999999
Q ss_pred CcCCCCCCCCCCCceeeeccCCHHHHHHHHHHHHHHHhhc-CCCceEEEEeeCCCcccCchhhhhhhhhcCCc
Q 025993 118 RQVFGQGPDVGNQYRSIIFTNGTEESRLAAHSKEREQMKS-KSSIVTTQIQQLVAFYPAEPEHQKFELKRNPF 189 (245)
Q Consensus 118 t~~~rQg~d~G~QYRSaIf~~~e~q~~~A~~~~~~~~~~~-~~~~i~TeI~p~~~Fy~AEeyHQ~Y~l~k~P~ 189 (245)
|+.||||+|+|+||||+|||+|++|+++|+.++++++.+. +.++|+|+|+|+.+||+||+|||+| ++|||.
T Consensus 82 t~~~~Qg~D~G~qYRS~If~~~~~q~~~a~~~~~~~~~~~~~~~~i~Tei~~~~~Fy~AEeyHQ~Y-l~k~p~ 153 (172)
T PRK14054 82 TTLNRQGNDRGTQYRSAIFYHDEEQKEIAEASIAELQASGLFDKPIVTEVEPAETFYEAEEYHQDY-LEKNPN 153 (172)
T ss_pred CccCCCCCCCCcCceeEEEeCCHHHHHHHHHHHHHHHHhcccCCCcEEEEecCCCceECHHHHHHH-HHhCCC
Confidence 9999999999999999999999999999999888877542 5678999999999999999999999 578997
No 4
>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=100.00 E-value=1.4e-65 Score=429.97 Aligned_cols=144 Identities=44% Similarity=0.722 Sum_probs=136.9
Q ss_pred cEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccC----CceeEEEEEEcCCCCCHHHHHHHHHhcCCCCc
Q 025993 44 KAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSHDCRQ 119 (245)
Q Consensus 44 ~~a~fagGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~----gHaEaV~V~yDp~~isy~~LL~~Ff~~hdPt~ 119 (245)
++|+||||||||+|+.|++++||++|+|||+||+++||||++|| ||+|+|+|+|||++|||++||++||++||||+
T Consensus 1 ~~~~~agGCFWg~E~~f~~~~GV~~t~~GYagG~~~~PtY~~Vc~g~tgh~E~V~V~yDp~~is~~~Ll~~f~~~hdPt~ 80 (149)
T TIGR00401 1 EIATFAGGCFWGVEKYFWLIPGVYSTAVGYTGGYTPNPTYEEVCSGDTGHAEAVQVTYDPKVISYEELLDVFWEIHDPTQ 80 (149)
T ss_pred CEEEEecCCchhhHHHHhcCCCEEEEEEeeCCCCCCCCChhhcccCCCCceEEEEEEECCCcCcHHHHHHHHHHhCCCCc
Confidence 47999999999999999999999999999999999999999994 89999999999999999999999999999999
Q ss_pred CCCCCCCCCCCceeeeccCCHHHHHHHHHHHHHHHhh-cCCCceEEEEeeCCCcccCchhhhhhhhhcCC
Q 025993 120 VFGQGPDVGNQYRSIIFTNGTEESRLAAHSKEREQMK-SKSSIVTTQIQQLVAFYPAEPEHQKFELKRNP 188 (245)
Q Consensus 120 ~~rQg~d~G~QYRSaIf~~~e~q~~~A~~~~~~~~~~-~~~~~i~TeI~p~~~Fy~AEeyHQ~Y~l~k~P 188 (245)
.||||+|+|+||||+|||+|++|+++|+.++++.+++ .+.++|+|+|+|+++||+||+|||||| +|||
T Consensus 81 ~~~Qg~d~G~qYRs~If~~~~~q~~~a~~~~~~~~~~~~~~~~i~tei~~~~~Fy~AE~yHQ~Yl-~k~p 149 (149)
T TIGR00401 81 GNRQGNDIGTQYRSGIYYHSDEQEKAARASKERLQAAANYGDPIVTEIEPAENFYYAEEYHQQYL-KKNP 149 (149)
T ss_pred CCCCCCCCCCCceEEEEeCCHHHHHHHHHHHHHHHHhcccCCCeEEEEecCCCeeecHHHHHHHH-hhCc
Confidence 9999999999999999999999999999998887764 346799999999999999999999995 6787
No 5
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=100.00 E-value=1.9e-64 Score=425.95 Aligned_cols=148 Identities=26% Similarity=0.413 Sum_probs=137.1
Q ss_pred ccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCCHHHHHHHHHhcCCCCcCCC
Q 025993 43 LKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVFWTSHDCRQVFG 122 (245)
Q Consensus 43 ~~~a~fagGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~gHaEaV~V~yDp~~isy~~LL~~Ff~~hdPt~~~r 122 (245)
+++|+||||||||+|+.|++++||++|+|||+||+++||++. .+||+|+|+|+|||++|||++||++||++||||+.||
T Consensus 1 ~~~a~fagGCFWg~E~~f~~l~GV~~t~vGYagG~~~~p~~~-~tgH~E~V~V~yDp~~isy~~LL~~f~~~hdPt~~~~ 79 (156)
T PRK05528 1 METVYFAGGCLWGVQAFFKTLPGVIHTEAGRANGRTSTLDGP-YDGYAECVKTHFDPRMVSITDLMGYLFEIIDPYSVNK 79 (156)
T ss_pred CCEEEEecCCchhhHHHHhcCCCEEEEEEEcCCCCCCCCCCC-CCCcEEEEEEEECCCcCCHHHHHHHHHHhCCcccccc
Confidence 478999999999999999999999999999999999999843 3799999999999999999999999999999999999
Q ss_pred CCCCCCCCceeeeccCCHHHHHHHHHHHHHHHhhcCCCceEEEEeeCCCcccCchhhhhhhhhcCCcceeccC
Q 025993 123 QGPDVGNQYRSIIFTNGTEESRLAAHSKEREQMKSKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLIHLMG 195 (245)
Q Consensus 123 Qg~d~G~QYRSaIf~~~e~q~~~A~~~~~~~~~~~~~~~i~TeI~p~~~Fy~AEeyHQ~Y~l~k~P~~~~~l~ 195 (245)
||+|+|+||||+|||+|++|+++|+++++.++. .++|+|+|+|+.+||+||+|||+| ++|||..+|++.
T Consensus 80 Qg~D~G~QYRS~If~~d~eQ~~~a~~~~~~~~~---~~~i~Tei~~~~~Fy~AE~yHQ~Y-l~k~p~~yc~~~ 148 (156)
T PRK05528 80 QGNDVGEKYRTGIYSEVDDHLIEARQFIERRED---ADKIAVEVLPLTNYVKSAEEHQDR-LEKFPEDYCHIP 148 (156)
T ss_pred cCCCCCCCceEEEEeCCHHHHHHHHHHHHHHhc---CCCeEEEEecCCCeeecHHHHHHH-HHhCCCCCcccC
Confidence 999999999999999999999999998876653 358999999999999999999999 578998666654
No 6
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=100.00 E-value=4.1e-64 Score=441.66 Aligned_cols=155 Identities=43% Similarity=0.675 Sum_probs=143.6
Q ss_pred CCCccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccC----CceeEEEEEEcCCCCCHHHHHHHHHhcC
Q 025993 40 GRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSH 115 (245)
Q Consensus 40 ~~~~~~a~fagGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~----gHaEaV~V~yDp~~isy~~LL~~Ff~~h 115 (245)
..++++|+||||||||+|+.|++++||++|+|||+||.++||||++|| ||+|+|+|+|||++|||++||++||++|
T Consensus 42 ~~~~~~a~fagGCFWg~E~~F~~l~GV~~t~vGYagG~~~~PtY~~VcsG~tgH~EaV~V~YDp~~ISy~~LL~~Ff~~h 121 (213)
T PRK00058 42 PEGMEQAIFGMGCFWGAERLFWQLPGVYSTAVGYAGGYTPNPTYREVCSGRTGHAEVVRVVYDPAVISYEQLLQVFWENH 121 (213)
T ss_pred CCCccEEEEEccCcchhHHHHhcCCCEEEEEeeecCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHHHHhc
Confidence 456899999999999999999999999999999999999999999994 8999999999999999999999999999
Q ss_pred CCCcCCCCCCCCCCCceeeeccCCHHHHHHHHHHHHHHHhhc---CCCceEEEEeeCCCcccCchhhhhhhhhcCCccee
Q 025993 116 DCRQVFGQGPDVGNQYRSIIFTNGTEESRLAAHSKEREQMKS---KSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLIH 192 (245)
Q Consensus 116 dPt~~~rQg~d~G~QYRSaIf~~~e~q~~~A~~~~~~~~~~~---~~~~i~TeI~p~~~Fy~AEeyHQ~Y~l~k~P~~~~ 192 (245)
|||+.||||+|+|+||||+|||+|++|+++|+.++++.+++. ..++|+|+|+|+.+||+||+|||||| +|||..||
T Consensus 122 DPt~~n~QG~D~G~QYRS~Ify~~~eQ~~~a~~~~~~~~~~~~~~~~~~i~TeI~~~~~Fy~AEeyHQ~Yl-~k~p~~yc 200 (213)
T PRK00058 122 DPTQGMRQGNDVGTQYRSAIYTLTPEQLAAAEASREAYQQALAAAGDGPITTEIAPAPPFYYAEDYHQQYL-AKNPNGYC 200 (213)
T ss_pred CCcccCCCCCCCCcCceEEEEeCCHHHHHHHHHHHHHHHHHhhhccCCCeEEEEecCCCcccCHHHHHHHH-HhCCCCcc
Confidence 999999999999999999999999999999999887776542 13489999999999999999999995 78998666
Q ss_pred ccC
Q 025993 193 LMG 195 (245)
Q Consensus 193 ~l~ 195 (245)
++.
T Consensus 201 ~~~ 203 (213)
T PRK00058 201 GLG 203 (213)
T ss_pred ccC
Confidence 654
No 7
>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=100.00 E-value=6.4e-65 Score=428.39 Aligned_cols=150 Identities=46% Similarity=0.729 Sum_probs=135.8
Q ss_pred cEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCcccc----CCceeEEEEEEcCCCCCHHHHHHHHHhcCCCCc
Q 025993 44 KAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNL----GDHAESVQVEYDPRVINFRQLLEVFWTSHDCRQ 119 (245)
Q Consensus 44 ~~a~fagGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v----~gHaEaV~V~yDp~~isy~~LL~~Ff~~hdPt~ 119 (245)
|+||||||||||+|+.|++++||++|+|||+||+.+||||++| +||+|+|+|+|||++|||++||++||++||||+
T Consensus 1 e~a~fa~GCFW~~e~~f~~~~GV~~t~vGYagG~~~~PtY~~v~~g~tgh~E~V~V~yD~~~is~~~Ll~~f~~~~dPt~ 80 (155)
T PF01625_consen 1 EKAYFAGGCFWGVEAAFRRLPGVISTRVGYAGGTTPNPTYRQVCSGRTGHAEAVRVTYDPSVISYEELLDVFFRIHDPTQ 80 (155)
T ss_dssp EEEEEEESSHHHHHHHHHTSTTEEEEEEEEESSSSSS--HHHHHTTTTT-EEEEEEEEETTTS-HHHHHHHHHHHS-TTS
T ss_pred CEEEEecCCCeEhHHHHhhCCCEEEEEecccCCCCCCCcceeeecCCCCCeEEEEEEECCCcccHHHHHHHHHHhcCCcc
Confidence 5799999999999999999999999999999999999999999 699999999999999999999999999999999
Q ss_pred CCCCCCCCCCCceeeeccCCHHHHHHHHHHHHHHHhhcCCCceEEEEeeCCCcccCchhhhhhhhhcCCcceecc
Q 025993 120 VFGQGPDVGNQYRSIIFTNGTEESRLAAHSKEREQMKSKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLIHLM 194 (245)
Q Consensus 120 ~~rQg~d~G~QYRSaIf~~~e~q~~~A~~~~~~~~~~~~~~~i~TeI~p~~~Fy~AEeyHQ~Y~l~k~P~~~~~l 194 (245)
.||||+|+|+||||+|||+|++|+++|+.++++++.+.+.++|+|+|+|+++||+||+|||+|+ .|||..||++
T Consensus 81 ~~~Qg~d~G~qYrs~If~~~~~q~~~a~~~~~~~~~~~~~~~i~tei~p~~~Fy~AE~yHQ~Yl-~k~p~~yc~~ 154 (155)
T PF01625_consen 81 VNGQGNDRGTQYRSAIFYHDEEQKKIAEASIAELQAKRFGRPIVTEIEPLKNFYPAEEYHQKYL-EKNPNGYCHY 154 (155)
T ss_dssp TSEETTEESGGG-EEEEESSHHHHHHHHHHHHHHHHHTTSSSBS-EEEECEEEEEHHGGGTTHH-HHSTTSTTSS
T ss_pred cccccCcccccceeEEecCCHHHHHHHHHHHHHHHHhcCCCCeEEEEecCCcEEECHHHHHHHH-HhCCcccEec
Confidence 9999999999999999999999999999999888876567799999999999999999999995 6899866654
No 8
>KOG1635 consensus Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.8e-64 Score=427.16 Aligned_cols=151 Identities=46% Similarity=0.752 Sum_probs=143.9
Q ss_pred cCCCCCccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccCC----ceeEEEEEEcCCCCCHHHHHHHHH
Q 025993 37 DELGRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGD----HAESVQVEYDPRVINFRQLLEVFW 112 (245)
Q Consensus 37 ~~~~~~~~~a~fagGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~g----HaEaV~V~yDp~~isy~~LL~~Ff 112 (245)
|.|..+++.|+||+|||||+|..|+++|||++|+|||+||.++||||++||+ |+|+|+|+|||++|||++||++||
T Consensus 18 d~~~~g~q~a~fg~GCFWg~E~a~~~l~gV~~T~vGYagG~~~nPtYk~vc~~tT~HaEvvrV~ydpk~~sy~~Lld~Fw 97 (191)
T KOG1635|consen 18 DVPAPGLQFATFGAGCFWGVELAYQRLPGVVRTEVGYAGGITDNPTYKDVCSGTTNHAEVVRVQYDPKVISYEELLDFFW 97 (191)
T ss_pred CCCCCccceeeeeccchhhHHHHHhhcCCeEEEeecccCCccCCcchhhhccCCCCcceEEEEEeCcccccHHHHHHHHH
Confidence 5567789999999999999999999999999999999999999999999985 999999999999999999999999
Q ss_pred hcCCCCcCCCCCCCCCCCceeeeccCCHHHHHHHHHHHHHHHhhcCCCceEEEEeeCCCcccCchhhhhhhhhcCCc
Q 025993 113 TSHDCRQVFGQGPDVGNQYRSIIFTNGTEESRLAAHSKEREQMKSKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPF 189 (245)
Q Consensus 113 ~~hdPt~~~rQg~d~G~QYRSaIf~~~e~q~~~A~~~~~~~~~~~~~~~i~TeI~p~~~Fy~AEeyHQ~Y~l~k~P~ 189 (245)
.+||||+.||||+|+|+||||+||+++++|.++|+.++++.|.+ +.++|+|+|+|+.+||.||||||+|+ .|||.
T Consensus 98 ~~HdPtt~n~QG~D~GtQYRS~I~~~s~eq~k~A~~s~e~~Q~k-~~~kI~T~I~p~~kFY~AE~yHQqYl-~K~~~ 172 (191)
T KOG1635|consen 98 SRHDPTTLNRQGNDVGTQYRSGIYTYSPEQEKLARESKEREQKK-WNGKIVTEILPAKKFYRAEEYHQQYL-SKNPR 172 (191)
T ss_pred HcCCchhhhccCCcccceeeeeeeeCCHHHHHHHHHHHHHHHhc-cCCcceEEEeeccchhhchHHHHHHH-hhCCC
Confidence 99999999999999999999999999999999999999999887 56789999999999999999999995 56774
No 9
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=100.00 E-value=4.2e-60 Score=431.47 Aligned_cols=150 Identities=37% Similarity=0.629 Sum_probs=140.7
Q ss_pred CccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccC----CceeEEEEEEcCCCCCHHHHHHHHHhcCCC
Q 025993 42 PLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSHDC 117 (245)
Q Consensus 42 ~~~~a~fagGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~----gHaEaV~V~yDp~~isy~~LL~~Ff~~hdP 117 (245)
.+++|+||||||||+|+.|++++||++|+|||+||.++||||++|| ||+|+|+|+|||++|||++||++||++|||
T Consensus 126 ~~~~~~fagGCFWg~E~~F~~~~GV~~t~vGYagG~~~nPtY~~VcsG~tgH~EaV~V~yDp~~isy~~LL~~F~~~hDP 205 (283)
T PRK05550 126 DTEEAIFAGGCFWGVEYYFKKLPGVLSVESGYTGGDTKNPTYEQVCSGTTGHAEAVRVEFDPAKISYETLLKVFFEIHDP 205 (283)
T ss_pred cceEEEEecCCchhhhhhHhhCcCEEEEEEeeCCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHHHhhcCC
Confidence 4899999999999999999999999999999999999999999984 899999999999999999999999999999
Q ss_pred CcCCCCCCCCCCCceeeeccCCHHHHHHHHHHHHHHHhhcCCCceEEEEeeCCCcccCchhhhhhhhhcCCcc-eecc
Q 025993 118 RQVFGQGPDVGNQYRSIIFTNGTEESRLAAHSKEREQMKSKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFL-IHLM 194 (245)
Q Consensus 118 t~~~rQg~d~G~QYRSaIf~~~e~q~~~A~~~~~~~~~~~~~~~i~TeI~p~~~Fy~AEeyHQ~Y~l~k~P~~-~~~l 194 (245)
|+.||||+|+|+||||+|||+|++|+++|+.+++++++.. .+|+|+|+|+++||+||+|||+|| .|||.. +|++
T Consensus 206 t~~~~Qg~D~G~QYRS~If~~d~eq~~~A~~~~~~~~~~~--~~i~TeI~~l~~Fy~AEeyHQ~Yl-~k~p~~~yc~~ 280 (283)
T PRK05550 206 TQLNRQGPDIGTQYRSAIFYHDDEQKQIAEKLIAELTKKG--YPVVTEVEAAGPFYPAEDYHQDYY-EKHGKQPYCHI 280 (283)
T ss_pred CccCCCCCCCCcCceEEEEeCCHHHHHHHHHHHHHHHhcC--CceEEEEeeCCCeeECHHHHHHHH-HhCCCCCeeee
Confidence 9999999999999999999999999999999988777643 289999999999999999999995 689984 5544
No 10
>PRK14018 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional
Probab=100.00 E-value=2.2e-58 Score=449.43 Aligned_cols=157 Identities=30% Similarity=0.470 Sum_probs=148.1
Q ss_pred CCCCccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCcccc---CCceeEEEEEEcCCCCCHHHHHHHHHhcC
Q 025993 39 LGRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNL---GDHAESVQVEYDPRVINFRQLLEVFWTSH 115 (245)
Q Consensus 39 ~~~~~~~a~fagGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v---~gHaEaV~V~yDp~~isy~~LL~~Ff~~h 115 (245)
+..++++||||||||||+|+.|++++||++|+|||+||+++||||++| +||+|+|+|+|||++|||++||++||++|
T Consensus 194 ~~~~~~~~~~agGCFWg~e~~f~~~~GV~~t~~GYagG~~~~PtY~~Vc~gtgH~E~V~V~yDp~~is~~~Ll~~f~~~~ 273 (521)
T PRK14018 194 KIMNTRTIYLAGGCFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDVYRHSGHAETVKVTYDADKLSLDTILQYYFRVV 273 (521)
T ss_pred CCCCccEEEEecCCchhhHHHHccCCCEEEEEEeeCCCCCCCCChhhccCCCCcEEEEEEEECCCcCcHHHHHHHHHHhC
Confidence 456789999999999999999999999999999999999999999999 59999999999999999999999999999
Q ss_pred CCCcCCCCCCCCCCCceeeeccCCHHHHHHHHHHHHHHHhhcCCCceEEEEeeCCCcccCchhhhhhhhhcCCcceeccC
Q 025993 116 DCRQVFGQGPDVGNQYRSIIFTNGTEESRLAAHSKEREQMKSKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLIHLMG 195 (245)
Q Consensus 116 dPt~~~rQg~d~G~QYRSaIf~~~e~q~~~A~~~~~~~~~~~~~~~i~TeI~p~~~Fy~AEeyHQ~Y~l~k~P~~~~~l~ 195 (245)
|||+.||||+|+|+||||+|||+|++|+++|+.+++..+++ +.++|+|+|+|+.+||+||+|||+|| +|||..||++.
T Consensus 274 dPt~~~~Qg~d~G~qYrs~I~~~~~eq~~~a~~~~~~~~~~-~~~~i~tei~~~~~Fy~AE~yHQ~Yl-~k~p~~yc~~~ 351 (521)
T PRK14018 274 DPTSLNKQGNDTGTQYRSGVYYTDPADKAVIAAALKREQQK-YQLPLVVENEPLKNFYDAEEYHQDYL-IKNPNGYCHID 351 (521)
T ss_pred CCccccccCCCCCCCceEEEEeCCHHHHHHHHHHHHHHHHH-cCCCeEEEEecCCCeeecHHHHHHHH-HhCCCceeEee
Confidence 99999999999999999999999999999999988877764 56789999999999999999999995 68999999887
Q ss_pred CC
Q 025993 196 NL 197 (245)
Q Consensus 196 ~~ 197 (245)
.-
T Consensus 352 ~~ 353 (521)
T PRK14018 352 LR 353 (521)
T ss_pred cc
Confidence 43
No 11
>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=93.50 E-value=0.09 Score=36.64 Aligned_cols=47 Identities=26% Similarity=0.392 Sum_probs=40.1
Q ss_pred CCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCCHHHHHHHH
Q 025993 50 LGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVF 111 (245)
Q Consensus 50 gGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~gHaEaV~V~yDp~~isy~~LL~~F 111 (245)
.+|-+-++..+.+++||.++.+=+..+ .|.|.||++.++.++|.+..
T Consensus 10 ~~C~~~v~~~l~~~~GV~~v~vd~~~~---------------~v~v~~~~~~~~~~~i~~~i 56 (62)
T PF00403_consen 10 EGCAKKVEKALSKLPGVKSVKVDLETK---------------TVTVTYDPDKTSIEKIIEAI 56 (62)
T ss_dssp HHHHHHHHHHHHTSTTEEEEEEETTTT---------------EEEEEESTTTSCHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCCCcEEEEECCCC---------------EEEEEEecCCCCHHHHHHHH
Confidence 578888999999999999999987744 57899999999999988753
No 12
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=84.40 E-value=0.92 Score=35.71 Aligned_cols=20 Identities=35% Similarity=0.477 Sum_probs=14.0
Q ss_pred CcchhhHHHHHHHHHHHHhhh
Q 025993 1 MVLSKRYLFFSVLHLLLLTDT 21 (245)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~ 21 (245)
|- ||.+|||.++++.+++.+
T Consensus 1 Ma-SK~~llL~l~LA~lLlis 20 (95)
T PF07172_consen 1 MA-SKAFLLLGLLLAALLLIS 20 (95)
T ss_pred Cc-hhHHHHHHHHHHHHHHHH
Confidence 55 999999998874443333
No 13
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=82.81 E-value=2.1 Score=31.33 Aligned_cols=47 Identities=17% Similarity=0.314 Sum_probs=41.2
Q ss_pred cCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCCHHHHHHH
Q 025993 49 ALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEV 110 (245)
Q Consensus 49 agGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~gHaEaV~V~yDp~~isy~~LL~~ 110 (245)
.++|.=-++..+..++||.++.+-...|. +.|+||+..++-++|.+.
T Consensus 13 C~~C~~~V~~al~~v~gv~~v~v~l~~~~---------------~~V~~d~~~~~~~~i~~a 59 (71)
T COG2608 13 CGHCVKTVEKALEEVDGVASVDVDLEKGT---------------ATVTFDSNKVDIEAIIEA 59 (71)
T ss_pred cHHHHHHHHHHHhcCCCeeEEEEEcccCe---------------EEEEEcCCcCCHHHHHHH
Confidence 46777778888999999999999988764 789999999999999987
No 14
>PF08098 ATX_III: Anemonia sulcata toxin III family; InterPro: IPR012509 This entry occurs within the Anemonia sulcata toxin III (ATX III) neurotoxin family. ATX III is a neurotoxin that is produced by sea anemone; it adopts a compact structure containing four reverse turns and two other chain reversals, but no regular alpha-helix or beta-sheet. A hydrophobic patch found on the surface of the peptide may constitute part of the sodium channel binding surface [].; GO: 0019871 sodium channel inhibitor activity, 0009405 pathogenesis, 0042151 nematocyst; PDB: 1ANS_A.
Probab=74.97 E-value=1.1 Score=27.36 Aligned_cols=9 Identities=22% Similarity=0.652 Sum_probs=5.4
Q ss_pred EcCCcccch
Q 025993 48 FALGSFWRS 56 (245)
Q Consensus 48 fagGCFWg~ 56 (245)
+-||||||-
T Consensus 11 ~~~gC~WGQ 19 (27)
T PF08098_consen 11 YTGGCPWGQ 19 (27)
T ss_dssp TTTT-SSS-
T ss_pred eecCCcccc
Confidence 357899983
No 15
>PF02682 AHS1: Allophanate hydrolase subunit 1; InterPro: IPR003833 Allophanate hydrolase catalyses the second reaction in an ATP-dependent, two-step degradation of urea to ammonia and C02. This follows the action of the biotin-containing urea carboxylase. Saccharomyces cerevisiae can use urea as a sole nitrogen source via this degradation pathway []. In yeast, the fusion of allophanate hydrolase to urea carboxylase is called urea amidolyase. In bacteria, the second step in the urea degradation pathway is also the ATP-dependent allophanate hydrolase. The gene encoding this enzyme is found adjacent to the urea carboxylase gene []. Allophanate hydrolase has strict substrate specificity, as analogues of allophanate are not hydrolysed by it []. This domain represents subunit 1 of allophanate hydrolase (AHS1), which is found in urea carboxylase.; PDB: 3VA7_A 3MML_H 3OEP_A 3OPF_C 3ORE_A 2ZP2_A 2KWA_A 2PHC_B.
Probab=70.57 E-value=6.2 Score=34.73 Aligned_cols=68 Identities=18% Similarity=0.182 Sum_probs=43.4
Q ss_pred cchhhhhcc--CCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCCHHHHHHHHHhcCCCCcCCCCCCCCCCCc
Q 025993 54 WRSEAVFGC--LNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVFWTSHDCRQVFGQGPDVGNQY 131 (245)
Q Consensus 54 Wg~Ea~F~~--l~GV~~t~vGYaGG~~~~PtY~~v~gHaEaV~V~yDp~~isy~~LL~~Ff~~hdPt~~~rQg~d~G~QY 131 (245)
|...+.+.+ ++||+++..+|. +|-|.|||..+++.+|.+..-....-... .-...++..
T Consensus 28 ~al~~~l~~~~~~gi~e~vp~~~-----------------sllV~fdp~~~~~~~l~~~l~~~~~~~~~--~~~~~~r~~ 88 (202)
T PF02682_consen 28 LALARALRAAPLPGIVEVVPAYR-----------------SLLVHFDPLRIDRAALRAALEELLASPQP--SEKPPSRLI 88 (202)
T ss_dssp HHHHHHHHHHT-TTEEEEEEESS-----------------EEEEEESTTTSHHHHHHHHHHHHHCCCCS--SCCCCEEEE
T ss_pred HHHHHHHhcCCCCCeEEeecccc-----------------EEEEEEcCCcCCHHHHHHHHHHhhhhccc--cccCCCceE
Confidence 445555666 899999998885 57899999999999988876544322110 001122345
Q ss_pred eeeeccCCH
Q 025993 132 RSIIFTNGT 140 (245)
Q Consensus 132 RSaIf~~~e 140 (245)
+==|.|.++
T Consensus 89 ~iPV~Y~~~ 97 (202)
T PF02682_consen 89 EIPVCYDGE 97 (202)
T ss_dssp EEEEEESTT
T ss_pred EEEEEECCC
Confidence 556677654
No 16
>COG2049 DUR1 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]
Probab=69.33 E-value=6 Score=35.82 Aligned_cols=40 Identities=38% Similarity=0.628 Sum_probs=30.3
Q ss_pred cchhhhhcc--CCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCCHHHHHHH
Q 025993 54 WRSEAVFGC--LNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEV 110 (245)
Q Consensus 54 Wg~Ea~F~~--l~GV~~t~vGYaGG~~~~PtY~~v~gHaEaV~V~yDp~~isy~~LL~~ 110 (245)
|++.....+ ++||++++.||. .+.|.|||.+++..+|++.
T Consensus 26 ~al~~~l~~~~~~gvve~vP~~~-----------------sllv~~d~~~~~~~~l~~~ 67 (223)
T COG2049 26 WALARALEAAPLPGVVEIVPGYR-----------------SLLVIYDPPRLDPQELLER 67 (223)
T ss_pred HHHHHHHHhcCCCCeEEecccce-----------------eEEEEecccccCHHHHHHH
Confidence 333343444 469999999987 4789999999998888765
No 17
>PF03852 Vsr: DNA mismatch endonuclease Vsr; InterPro: IPR004603 This entry represents VSR (very short patch repair) endonucleases, which occur in a variety of bacteria. VSR recognises a TG mismatched base pair, generated after spontaneous deamination of methylated cytosines, and cleaves the phosphate backbone on the 5' side of the thymine []. GT mismatches can lead to C-to-T transition mutations if not repaired. VSR repairs the mismatches in favour of the G-containing strand. In Escherichia coli, this endonuclease nicks double-stranded DNA within the sequence CT(AT)GN or NT(AT)GG next to the thymidine residue, which is mismatched to 2'-deoxyguanosine []. The incision is mismatch-dependent and strand specific. The structure of VSR is similar to the core structure of restriction endonucleases, which have a 3-layer alpha/beta/alpha topology []. ; GO: 0004519 endonuclease activity, 0006298 mismatch repair; PDB: 1ODG_A 1VSR_A 1CW0_A.
Probab=66.52 E-value=2.3 Score=32.30 Aligned_cols=21 Identities=33% Similarity=0.534 Sum_probs=14.1
Q ss_pred CccCCCCCccEEEEcCCcccc
Q 025993 35 INDELGRPLKAAVFALGSFWR 55 (245)
Q Consensus 35 ~~~~~~~~~~~a~fagGCFWg 55 (245)
.+|.--...+.|+|--||||.
T Consensus 48 ~PDiv~~~~k~aIFVdGCFWH 68 (75)
T PF03852_consen 48 KPDIVFPKYKIAIFVDGCFWH 68 (75)
T ss_dssp --SEEEGGGTEEEEEE-TTTT
T ss_pred CCCEEECCCCEEEEEecceeC
Confidence 334433467899999999997
No 18
>smart00796 AHS1 Allophanate hydrolase subunit 1. This domain represents subunit 1 of allophanate hydrolase (AHS1).
Probab=49.51 E-value=26 Score=30.77 Aligned_cols=68 Identities=24% Similarity=0.191 Sum_probs=41.1
Q ss_pred cchhhhhc--cCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCCHHHHHHHHHhc-CCCCcCCCCCCCCCCC
Q 025993 54 WRSEAVFG--CLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVFWTS-HDCRQVFGQGPDVGNQ 130 (245)
Q Consensus 54 Wg~Ea~F~--~l~GV~~t~vGYaGG~~~~PtY~~v~gHaEaV~V~yDp~~isy~~LL~~Ff~~-hdPt~~~rQg~d~G~Q 130 (245)
|.....+. .++||++++.+|. +|-|.|||.+++..+|++..=.. .++... .....++.
T Consensus 28 ~~l~~~l~~~~~~gi~e~vp~~~-----------------sllv~fdp~~~~~~~l~~~l~~~~~~~~~~--~~~~~~r~ 88 (201)
T smart00796 28 LALARALRAAPLPGVVELVPGYR-----------------SLLVHFDPLVIDPAALLARLRALEALPLAE--ALEVPGRI 88 (201)
T ss_pred HHHHHHHHhcCCCCeEEccccce-----------------EEEEEEcCCCCCHHHHHHHHHHHHhccccc--ccCCCCcE
Confidence 34444443 3689999987764 57899999999999887754111 121111 11223456
Q ss_pred ceeeeccCCH
Q 025993 131 YRSIIFTNGT 140 (245)
Q Consensus 131 YRSaIf~~~e 140 (245)
++==|.|.++
T Consensus 89 ~~IPV~Y~~~ 98 (201)
T smart00796 89 IEIPVCYGGE 98 (201)
T ss_pred EEEeeEeCCC
Confidence 6666677754
No 19
>TIGR02712 urea_carbox urea carboxylase. Members of this family are ATP-dependent urea carboxylase, including characterized members from Oleomonas sagaranensis (alpha class Proteobacterium) and yeasts such as Saccharomyces cerevisiae. The allophanate hydrolase domain of the yeast enzyme is not included in this model and is represented by an adjacent gene in Oleomonas sagaranensis. The fusion of urea carboxylase and allophanate hydrolase is designated urea amidolyase. The enzyme from Oleomonas sagaranensis was shown to be highly active on acetamide and formamide as well as urea.
Probab=48.64 E-value=56 Score=36.25 Aligned_cols=32 Identities=50% Similarity=0.828 Sum_probs=27.5
Q ss_pred CCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCCHHHHHHHH
Q 025993 63 LNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVF 111 (245)
Q Consensus 63 l~GV~~t~vGYaGG~~~~PtY~~v~gHaEaV~V~yDp~~isy~~LL~~F 111 (245)
++||+++..||. ++.|.|||.+++..+|++..
T Consensus 842 ~~gi~e~vP~~~-----------------Sl~v~~dp~~~~~~~l~~~l 873 (1201)
T TIGR02712 842 LPGIIDLTPGIR-----------------SLQIHYDPRVISQSELLEVL 873 (1201)
T ss_pred CCCeEEeccccE-----------------EEEEEECCCCCCHHHHHHHH
Confidence 689999988774 68899999999999988755
No 20
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=47.17 E-value=20 Score=37.50 Aligned_cols=46 Identities=26% Similarity=0.356 Sum_probs=39.3
Q ss_pred CCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCC-HHHHHHHH
Q 025993 50 LGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVIN-FRQLLEVF 111 (245)
Q Consensus 50 gGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~gHaEaV~V~yDp~~is-y~~LL~~F 111 (245)
..|-|-+| .+.+++||.+.++-++ +|.+.|.||+..++ .+++...-
T Consensus 14 a~C~~~ie-~l~~~~gV~~~~vn~~---------------t~~~~v~~~~~~~~~~~~~~~~v 60 (713)
T COG2217 14 AACASRIE-ALNKLPGVEEARVNLA---------------TERATVVYDPEEVDLPADIVAAV 60 (713)
T ss_pred HHHHHHHH-HHhcCCCeeEEEeecc---------------cceEEEEecccccccHHHHHHHH
Confidence 46889999 9999999999999887 68899999998887 67776664
No 21
>PRK13379 protocatechuate 4,5-dioxygenase subunit alpha; Provisional
Probab=47.12 E-value=16 Score=30.16 Aligned_cols=44 Identities=16% Similarity=0.219 Sum_probs=35.6
Q ss_pred HHHhhhHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 025993 201 ELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 245 (245)
Q Consensus 201 ~~~~S~~Aarlngy~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 245 (245)
+..+|.-+=+||.||...+.|...+.|+.--..++ ..|+|+++|
T Consensus 18 d~~~srkgy~LN~fc~sl~~~~~RerF~aDe~ay~-~~~~Lt~eq 61 (119)
T PRK13379 18 DLRTSNRALRLNRFFWHMIRAPWRDRFLQDAEALM-QEAGLTEQE 61 (119)
T ss_pred CHHHHHHHHHHHHHHHHHccHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 45667777799999999999988888888666676 889998753
No 22
>TIGR02792 PCA_ligA protocatechuate 4,5-dioxygenase, alpha subunit. Protocatechuate (PCA) 4,5-dioxygenase is the first enzyme in the PCA 4,5-cleavage pathway that is an alternative to PCA 3,4-cleavage and PCA 2,3 cleavage pathways. PCA is an intermediate in the breakdown of lignin (hence the gene symbol ligA) and other compounds. Members of this family are the alpha chain of PCA 4,5-dioxygenase, or the equivalent domain of a fusion protein.
Probab=47.04 E-value=16 Score=30.12 Aligned_cols=44 Identities=11% Similarity=0.300 Sum_probs=35.3
Q ss_pred HHHhhhHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 025993 201 ELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 245 (245)
Q Consensus 201 ~~~~S~~Aarlngy~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 245 (245)
+..+|.-+=+||.||.....|...+.|++--..++ +.|+|+++|
T Consensus 11 d~~~srkgy~LN~fc~sl~~~~nRerF~ade~Ay~-d~~~Lt~eq 54 (117)
T TIGR02792 11 DAQQARKGYNLNQFCMSLMKAENRERFKADESAYL-DEWNLTPAQ 54 (117)
T ss_pred CHHHHHHHHHHHHHHHHhcCHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 35566677789999999999999888888666676 889998753
No 23
>cd07921 PCA_45_Doxase_A_like Subunit A of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and similar enzymes. This subfamily includes the A subunit of protocatechuate (PCA) 4,5-dioxygenase (LigAB) and two subfamilies of unknown function. The A subunit is the smaller, non-catalytic subunit of LigAB. PCA 4,5-dioxygenase catalyzes the oxidization and subsequent ring-opening of PCA (or 3,4-dihydroxybenzoic acid), which is an intermediate in the breakdown of lignin and other compounds. PCA 4,5-dioxygenase is one of the aromatic ring opening dioxygenases which play key roles in the degradation of aromatic compounds. As members of the Class III extradiol dioxygenase family, the enzymes use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like class III enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit.
Probab=46.95 E-value=15 Score=29.63 Aligned_cols=43 Identities=14% Similarity=0.169 Sum_probs=33.3
Q ss_pred HHhhhHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 025993 202 LEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 245 (245)
Q Consensus 202 ~~~S~~Aarlngy~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 245 (245)
..+|.-+=+||.+|...+.|.+.+.|.+-=+.++ +.|+|+++|
T Consensus 7 ~~~s~kgy~LN~f~~sL~~a~~Re~F~aD~eAy~-~~~gLTeEe 49 (106)
T cd07921 7 AERSRKGYALNKMCMSLNKAENREAFKADEEAYC-DKFGLTEEQ 49 (106)
T ss_pred HHHHHHhhhHHHHHHHHCCHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 3455566689999999999988888877666666 889998764
No 24
>cd07925 LigA_like_1 The A subunit of Uncharacterized proteins with similarity to Protocatechuate 4,5-dioxygenase (LigAB). The proteins of unknown function in this subfamily are similar to the A subunit of the Protocatechuate (PCA) 4,5-dioxygenase (LigAB). LigAB belongs to the class III extradiol dioxygenase family, composed of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Dioxygenases play key roles in the degradation of aromatic compounds. PCA 4,5-dioxygenase catalyzes the oxidization and subsequent ring-opening of PCA (or 3,4-dihydroxybenzoic acid), which is an intermediate in the breakdown of lignin and other compounds.
Probab=46.37 E-value=17 Score=29.46 Aligned_cols=43 Identities=9% Similarity=0.029 Sum_probs=33.7
Q ss_pred HHhhhHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 025993 202 LEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 245 (245)
Q Consensus 202 ~~~S~~Aarlngy~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 245 (245)
..+|.-+=+||.+|.....|...+.|.+--..++ +.|+|+++|
T Consensus 7 ~~~srkgy~LN~fc~sl~~~~nRe~F~aD~~Ay~-~~~~Lteeq 49 (106)
T cd07925 7 GEMARKGYALNKMCFSFNDAANREAFLADEEAYC-EKFGLTPEQ 49 (106)
T ss_pred HHHHHHhhHHHHHHHHHCCHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 3456666789999999999988888887666666 888988754
No 25
>cd07924 PCA_45_Doxase_A The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit. The A subunit is the non-catalytic subunit of Protocatechuate (PCA) 4,5-dioxygenase (LigAB), which is composed of A and B subunits that form a tetramer. PCA 4,5-dioxygenase catalyzes the oxidization and subsequent ring-opening of PCA (or 3,4-dihydroxybenzoic acid), which is an intermediate in the breakdown of lignin and other compounds. PCA 4,5-dioxygenase is one of the aromatic ring opening dioxygenases which play key roles in the degradation of aromatic compounds. As a member of the Class III extradiol dioxygenase family, LigAB uses a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon.
Probab=45.56 E-value=18 Score=29.97 Aligned_cols=44 Identities=16% Similarity=0.434 Sum_probs=35.5
Q ss_pred HHHhhhHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 025993 201 ELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 245 (245)
Q Consensus 201 ~~~~S~~Aarlngy~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 245 (245)
+..+|.-+=+||.||.....|...+.|.+--..++ +.|+|+++|
T Consensus 14 d~~~srkgy~LN~fc~sl~~~~nRerF~ade~Ay~-~~~~Lteeq 57 (121)
T cd07924 14 DAERARKGYHLNQFCMSLMKAENRERFKADERAYL-DKWPMTEEQ 57 (121)
T ss_pred CHHHHHHHHHHHHHHHHhCCHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 45566777789999999999998888888666676 889998754
No 26
>COG3017 LolB Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]
Probab=44.97 E-value=24 Score=31.65 Aligned_cols=25 Identities=28% Similarity=0.301 Sum_probs=20.2
Q ss_pred CcchhhHHHHHHHHHHHHhhhhhcc
Q 025993 1 MVLSKRYLFFSVLHLLLLTDTALCI 25 (245)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~ 25 (245)
|+++|+..++.++++++++.+|+..
T Consensus 1 ~~~~~~~~~~l~~~As~LL~aC~~~ 25 (206)
T COG3017 1 MPMMKRLLFLLLALASLLLTACTLT 25 (206)
T ss_pred CchHHHHHHHHHHHHHHHHHhccCc
Confidence 8889998888888877778888653
No 27
>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=44.65 E-value=19 Score=28.12 Aligned_cols=30 Identities=20% Similarity=0.216 Sum_probs=15.1
Q ss_pred CCceeEEEEEEcCCCCCHHHHHHHHHhcCCC
Q 025993 87 GDHAESVQVEYDPRVINFRQLLEVFWTSHDC 117 (245)
Q Consensus 87 ~gHaEaV~V~yDp~~isy~~LL~~Ff~~hdP 117 (245)
.|++-.-.|.|||++++-++||+.+ .-..|
T Consensus 32 NgYar~g~VifDe~kl~~e~lL~~l-e~~kp 61 (88)
T PF11491_consen 32 NGYARNGFVIFDESKLSKEELLEML-EEFKP 61 (88)
T ss_dssp -TTSS--EEE--B-S-SHHHH---H-HHTTT
T ss_pred cccccceEEEECcccCCHHHHHHHH-HhcCh
Confidence 4667777899999999999999765 33444
No 28
>PRK13378 protocatechuate 4,5-dioxygenase subunit alpha; Provisional
Probab=44.14 E-value=19 Score=29.58 Aligned_cols=44 Identities=9% Similarity=0.058 Sum_probs=35.1
Q ss_pred HHHhhhHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 025993 201 ELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 245 (245)
Q Consensus 201 ~~~~S~~Aarlngy~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 245 (245)
+..+|.-+=+||.+|.....|...+.|.+--..++ ..|+|+++|
T Consensus 17 d~~~srkgY~LN~fc~sl~~~~nRe~F~ade~Ay~-~~~~Lteeq 60 (117)
T PRK13378 17 DGEQARKGYALNKMCFSFNDAANRAAFLADEAAYC-RKYGLNEEQ 60 (117)
T ss_pred CHHHHHHHHHHHHHHHHhCCHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 45666777789999999999988888887666666 889988753
No 29
>PRK13377 protocatechuate 4,5-dioxygenase subunit alpha; Provisional
Probab=43.83 E-value=19 Score=30.12 Aligned_cols=44 Identities=16% Similarity=0.406 Sum_probs=35.7
Q ss_pred HHHhhhHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 025993 201 ELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 245 (245)
Q Consensus 201 ~~~~S~~Aarlngy~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 245 (245)
+..+|.-+=+||.||.....|...+.|.+--..++ +.|+|+++|
T Consensus 17 d~~~srkgY~LN~fc~sL~~~~nRerF~ade~Ay~-de~~Lteeq 60 (129)
T PRK13377 17 DADMSRKGYHLNQFCMSLMKAENRERFKADERAYL-DEWPMTEEQ 60 (129)
T ss_pred CHHHHHHHHHHHHHHHHhCCHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 45667777799999999999999888888666676 889998753
No 30
>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=42.95 E-value=76 Score=19.21 Aligned_cols=47 Identities=26% Similarity=0.266 Sum_probs=36.7
Q ss_pred CCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCCHHHHHHHH
Q 025993 50 LGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVF 111 (245)
Q Consensus 50 gGCFWg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~gHaEaV~V~yDp~~isy~~LL~~F 111 (245)
..|-|-++..+...+||..+.+...++ .+.|.||+...+-..+....
T Consensus 14 ~~c~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~ 60 (68)
T TIGR00003 14 QHCVDKIEKFVGELEGVSKVQVKLEKA---------------SVKVEFDAPQATEICIAEAI 60 (68)
T ss_pred HHHHHHHHHHHhcCCCEEEEEEEcCCC---------------EEEEEeCCCCCCHHHHHHHH
Confidence 478899999999999999888877665 36688888877777776543
No 31
>COG3727 Vsr DNA G:T-mismatch repair endonuclease [DNA replication, recombination, and repair]
Probab=42.17 E-value=15 Score=31.23 Aligned_cols=23 Identities=22% Similarity=0.520 Sum_probs=17.2
Q ss_pred cCccCCCCCccEEEEcCCcccch
Q 025993 34 SINDELGRPLKAAVFALGSFWRS 56 (245)
Q Consensus 34 ~~~~~~~~~~~~a~fagGCFWg~ 56 (245)
..+|.--...+.++|--||||.-
T Consensus 48 GkPDiVl~~y~~viFvHGCFWh~ 70 (150)
T COG3727 48 GKPDIVLPKYRCVIFVHGCFWHG 70 (150)
T ss_pred CCCCEeecCceEEEEEeeeeccC
Confidence 34455445688999999999983
No 32
>KOG4309 consensus Transcription mediator-related factor [Transcription]
Probab=35.35 E-value=37 Score=30.16 Aligned_cols=43 Identities=30% Similarity=0.471 Sum_probs=29.9
Q ss_pred eEEEEEEcCCCCC------HHHHHHHHHhcCCCCcCCCCCCCCCCCceeeecc
Q 025993 91 ESVQVEYDPRVIN------FRQLLEVFWTSHDCRQVFGQGPDVGNQYRSIIFT 137 (245)
Q Consensus 91 EaV~V~yDp~~is------y~~LL~~Ff~~hdPt~~~rQg~d~G~QYRSaIf~ 137 (245)
=+|+|+|||.+|- ..+.|.-||-.|-|+.. .-.|-|=...||-
T Consensus 140 i~vEIEY~pcvI~~~Cw~M~~Eflqsflg~~~p~aP----~~fg~t~h~~~y~ 188 (217)
T KOG4309|consen 140 ISVEIEYGPCVIASDCWSMLLEFLQSFLGSHTPGAP----AVFGNTRHDAVYG 188 (217)
T ss_pred EEEEEeeCCEEEhHHHHHHHHHHHHHHhcccCCCch----HhhcCccCccccC
Confidence 5789999999984 25777889999998743 2334444455553
No 33
>COG3458 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=34.57 E-value=52 Score=31.25 Aligned_cols=70 Identities=20% Similarity=0.449 Sum_probs=52.6
Q ss_pred cEEEEcCCcc---cchhhhhccCCCeEEeeeeecCCCCC----------C-------CCccccCCceeEEEEEEcCCCCC
Q 025993 44 KAAVFALGSF---WRSEAVFGCLNGVVRTTVGYAGGSKT----------N-------PEFRNLGDHAESVQVEYDPRVIN 103 (245)
Q Consensus 44 ~~a~fagGCF---Wg~Ea~F~~l~GV~~t~vGYaGG~~~----------~-------PtY~~v~gHaEaV~V~yDp~~is 103 (245)
+.-|+=.||| |-.=....+++=|-..++|++||+-. + |.|--.|+.--+|++ +..=+
T Consensus 148 kd~yyyr~v~~D~~~ave~~~sl~~vde~Ri~v~G~SqGGglalaaaal~~rik~~~~~~Pfl~df~r~i~~---~~~~~ 224 (321)
T COG3458 148 KDTYYYRGVFLDAVRAVEILASLDEVDEERIGVTGGSQGGGLALAAAALDPRIKAVVADYPFLSDFPRAIEL---ATEGP 224 (321)
T ss_pred CCceEEeeehHHHHHHHHHHhccCccchhheEEeccccCchhhhhhhhcChhhhcccccccccccchhheee---cccCc
Confidence 3456678998 55555677889999999999998632 2 334445677788888 77779
Q ss_pred HHHHHHHHHhcCCC
Q 025993 104 FRQLLEVFWTSHDC 117 (245)
Q Consensus 104 y~~LL~~Ff~~hdP 117 (245)
|.+|- .||+.|||
T Consensus 225 ydei~-~y~k~h~~ 237 (321)
T COG3458 225 YDEIQ-TYFKRHDP 237 (321)
T ss_pred HHHHH-HHHHhcCc
Confidence 99976 78999998
No 34
>PHA03303 envelope glycoprotein L; Provisional
Probab=34.34 E-value=14 Score=31.81 Aligned_cols=18 Identities=17% Similarity=0.445 Sum_probs=14.8
Q ss_pred EEEcCCcccchhhhhccC
Q 025993 46 AVFALGSFWRSEAVFGCL 63 (245)
Q Consensus 46 a~fagGCFWg~Ea~F~~l 63 (245)
..-..||+||.+.+|+++
T Consensus 140 ~pp~~GCV~g~~~~~~~~ 157 (159)
T PHA03303 140 DIPDIGCVFGADNLFQRL 157 (159)
T ss_pred CCCCCCccccHHHHHHHh
Confidence 334789999999999875
No 35
>PF03622 IBV_3B: IBV 3B protein ; InterPro: IPR005295 These proteins are the product of ORF 3B from Infectious bronchitis virus). Currently, the function of this protein remains unknown [].
Probab=34.02 E-value=24 Score=25.90 Aligned_cols=18 Identities=33% Similarity=0.811 Sum_probs=15.5
Q ss_pred CccEEEEcCCcccchhhh
Q 025993 42 PLKAAVFALGSFWRSEAV 59 (245)
Q Consensus 42 ~~~~a~fagGCFWg~Ea~ 59 (245)
..+..|.-||+||-+|..
T Consensus 36 PFE~cyyrgGsfwEieSa 53 (64)
T PF03622_consen 36 PFEVCYYRGGSFWEIESA 53 (64)
T ss_pred CeeEEEEecCcEEEeecc
Confidence 478899999999998873
No 36
>cd07923 Gallate_dioxygenase_C The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of the PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. This model represents the C-terminal domain, which is similar to the A subunit of PCA 4,5-dioxygenase (or LigAB). The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. Since enzymes in this subfamily have fused A and B subunits, the dimer interface may resemble the tetramer interface of classical LigAB enzymes. This enzyme belongs to the class III extradiol dioxygenase family, composed of enzymes whi
Probab=32.88 E-value=29 Score=27.49 Aligned_cols=38 Identities=13% Similarity=0.215 Sum_probs=29.6
Q ss_pred HHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 025993 207 LAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 245 (245)
Q Consensus 207 ~Aarlngy~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 245 (245)
-+=+||.+|...+.|.+.+.|.+-=+.++ ..|+|+++|
T Consensus 4 kgy~LN~f~~sL~~a~~RerF~~D~ea~~-~e~gLt~Ee 41 (94)
T cd07923 4 RAYRINRFLHRLIEPAHRERFLEDPEALF-DEAGLTEEE 41 (94)
T ss_pred hhHHHHHHHHHHCCHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 44578999999999888888877666666 788888754
No 37
>PRK15266 subtilase cytotoxin subunit B; Provisional
Probab=32.24 E-value=49 Score=27.75 Aligned_cols=22 Identities=14% Similarity=0.431 Sum_probs=17.8
Q ss_pred eeEEEEEEcCCCCCHHHHHHHH
Q 025993 90 AESVQVEYDPRVINFRQLLEVF 111 (245)
Q Consensus 90 aEaV~V~yDp~~isy~~LL~~F 111 (245)
-+.|||.|+|++-++......|
T Consensus 94 G~~VRiYy~~nVWt~p~F~~af 115 (135)
T PRK15266 94 GQSVRIHVQKNIWTYPLFVNTF 115 (135)
T ss_pred CceEEEEEcCCcccCchhhhhc
Confidence 3889999999998877766655
No 38
>COG4594 FecB ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=31.36 E-value=73 Score=30.04 Aligned_cols=165 Identities=22% Similarity=0.303 Sum_probs=85.1
Q ss_pred CcchhhHHHHHHHHHHHHhhhhhcccCCCCCCCcCc-cCC-----CCCccEEEEcCCcccchhhhhccC-----------
Q 025993 1 MVLSKRYLFFSVLHLLLLTDTALCIRFPDRVSTSIN-DEL-----GRPLKAAVFALGSFWRSEAVFGCL----------- 63 (245)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~-----~~~~~~a~fagGCFWg~Ea~F~~l----------- 63 (245)
|++.+-.+.+++++++|+..+|+++.......+.+. |+. +...+.++.=-=.|=-.=+.++-.
T Consensus 1 ~~~~~~~~i~~lll~lllva~C~~s~~~~~~~~~tVkde~Gt~tv~k~PKRVVVLE~SFaDaLaal~v~PVGIADDnk~k 80 (310)
T COG4594 1 MHMKKTAIILTLLLLLLLVAACSSSDNNQKSKAHTVKDELGTFTVPKTPKRVVVLELSFADALAALGVTPVGIADDNKKK 80 (310)
T ss_pred CCchhhHHHHHHHHHHHHHHHhcCcCcccccceeeeeccCCceecCCCCceEEEEEecHHHHHHHcCCeeeeeccCchhh
Confidence 777788888888888888888988865553333333 332 334555553222221111111111
Q ss_pred ---CCeEEeeeeec-CCCCCCCCccccC------------Ccee--------EEEEEEcCCCCCHHHHHHHHHhcCCCCc
Q 025993 64 ---NGVVRTTVGYA-GGSKTNPEFRNLG------------DHAE--------SVQVEYDPRVINFRQLLEVFWTSHDCRQ 119 (245)
Q Consensus 64 ---~GV~~t~vGYa-GG~~~~PtY~~v~------------gHaE--------aV~V~yDp~~isy~~LL~~Ff~~hdPt~ 119 (245)
+-|.+-.-+|. =|+...|+-|.+. -|.- +=-|.+....-+|.+=++.|-.+-+-
T Consensus 81 rI~k~Vr~ki~~ytSVGTRsQPslE~Is~LKPDLIIAD~sRHk~vy~eLkKIAPTi~LkS~~~dY~eni~s~~tIaka-- 158 (310)
T COG4594 81 RILKDVRDKIDPYTSVGTRSQPSLEAISALKPDLIIADSSRHKKVYKELKKIAPTIALKSRNEDYQENIDSFKTIAKA-- 158 (310)
T ss_pred hhhHHHHhhcCCcccccCCCCCCHHHHhccCCCeEEecchhhHHHHHHHHhhcceeEecccCccHHHHHHHHHHHHHH--
Confidence 22333344575 4777888877541 2321 22355566666777777777655432
Q ss_pred CCCCCCCCCCCceeeeccCCHHHHHHHHHHH--HHHHhhc-CC-CceEEEEeeCCCc--ccCchhhhhh
Q 025993 120 VFGQGPDVGNQYRSIIFTNGTEESRLAAHSK--EREQMKS-KS-SIVTTQIQQLVAF--YPAEPEHQKF 182 (245)
Q Consensus 120 ~~rQg~d~G~QYRSaIf~~~e~q~~~A~~~~--~~~~~~~-~~-~~i~TeI~p~~~F--y~AEeyHQ~Y 182 (245)
+|. ..|-|+++|+.-+ .+..++. .+ ..+..-+...+.| +..|-|-=..
T Consensus 159 -------vgK--------ekE~ekrLa~Hkk~ia~~k~~l~k~~~~~~~Gvsr~~~f~l~~~~sy~G~~ 212 (310)
T COG4594 159 -------VGK--------EKEMEKRLAKHKKKIAEIKKKLPKGTNSLAIGVSRATQFNLHTEESYTGQL 212 (310)
T ss_pred -------hCc--------hHHHHHHHHHHHHHHHHHHHhCcCCcceeeEEecchhheeccccchHHHHH
Confidence 121 3567777776532 2222221 11 1255556666666 4555454443
No 39
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=29.59 E-value=17 Score=36.86 Aligned_cols=16 Identities=31% Similarity=0.443 Sum_probs=12.9
Q ss_pred EEcCCcccchhhhhcc
Q 025993 47 VFALGSFWRSEAVFGC 62 (245)
Q Consensus 47 ~fagGCFWg~Ea~F~~ 62 (245)
-||.||=||+|.+=.+
T Consensus 397 ~fa~g~dwcle~lk~s 412 (840)
T KOG2003|consen 397 DFAAGCDWCLESLKAS 412 (840)
T ss_pred chhcccHHHHHHHHHh
Confidence 4899999999987443
No 40
>PRK13367 protocatechuate 4,5-dioxygenase; Provisional
Probab=27.92 E-value=56 Score=32.27 Aligned_cols=67 Identities=18% Similarity=0.171 Sum_probs=46.1
Q ss_pred hhhhhhhhhcCCcceeccCCCCh---HHHHhhhHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 025993 177 PEHQKFELKRNPFLIHLMGNLPQ---EELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 245 (245)
Q Consensus 177 eyHQ~Y~l~k~P~~~~~l~~~~~---~~~~~S~~Aarlngy~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 245 (245)
+.++.|..+-++.+. -+..+|. -+..+|.-+=+||.||...+.|...+.|++-=+.++ +.|+|+++|
T Consensus 285 ~~~~~~~~~~~~~~~-~~~~ipGt~~f~~~~~~kgy~lN~f~~sl~~~~~R~~f~~d~~a~~-~~~~lt~eq 354 (420)
T PRK13367 285 DVVERHRQHIAHQLA-GVEKLPGTYPFTLERSLKAYRINRFLHRLIEPAWRERFLADPEALY-DEAGLSEEE 354 (420)
T ss_pred HHHHHHHHHhhHhhc-CcccCCCCcccCHHHHHHHHHHHHHHHHhcCHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 566776433344322 2222332 356777888899999999999999888888666676 889998753
No 41
>PRK10802 peptidoglycan-associated outer membrane lipoprotein; Provisional
Probab=26.64 E-value=74 Score=27.24 Aligned_cols=25 Identities=12% Similarity=-0.032 Sum_probs=13.0
Q ss_pred CcchhhHHHHHHHHHHHHhhhhhcc
Q 025993 1 MVLSKRYLFFSVLHLLLLTDTALCI 25 (245)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~ 25 (245)
|++++..-++.+++.++++.+|++.
T Consensus 1 m~~~~~~~~~~~~~~~~~laaC~s~ 25 (173)
T PRK10802 1 MQLNKVLKGLMLALPVMAIAACSSN 25 (173)
T ss_pred CcchHHHHHHHHHHHHHHHHHcCCC
Confidence 7776643223333333446777753
No 42
>TIGR00370 conserved hypothetical protein TIGR00370.
Probab=26.25 E-value=82 Score=27.83 Aligned_cols=39 Identities=23% Similarity=0.407 Sum_probs=26.3
Q ss_pred cchhhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCCHHHHHHH
Q 025993 54 WRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEV 110 (245)
Q Consensus 54 Wg~Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~gHaEaV~V~yDp~~isy~~LL~~ 110 (245)
|.+-..+.+.+||+++..||. +|-|.|||..+ ..+|+..
T Consensus 23 ~~l~~~l~~~~gi~e~vP~~~-----------------sllv~fdp~~~-~~~l~~~ 61 (202)
T TIGR00370 23 WAAAAYLEEQPGFVECIPGMN-----------------NLTVFYDMYEV-YKHLPQR 61 (202)
T ss_pred HHHHHHHhcCCCcEEeecccE-----------------EEEEEECchhh-HHHHHHH
Confidence 333333443488999887764 57799999987 6666554
No 43
>PRK14624 hypothetical protein; Provisional
Probab=25.78 E-value=41 Score=27.41 Aligned_cols=32 Identities=16% Similarity=0.213 Sum_probs=21.3
Q ss_pred eeeeecCCCCCCCCccccCCceeEEEEEEcCCCCC
Q 025993 69 TTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVIN 103 (245)
Q Consensus 69 t~vGYaGG~~~~PtY~~v~gHaEaV~V~yDp~~is 103 (245)
+..|.+||..-.-+ +.|.-|.+.|..||+.+.
T Consensus 33 ~v~g~sGgG~VkV~---~nG~~~i~~i~Idp~lld 64 (115)
T PRK14624 33 RVVGDAGAGMVTVT---ATGEGQITNVFINKQLFD 64 (115)
T ss_pred EEEEEECCcEEEEE---EEcCccEEEEEECHHHcC
Confidence 45566655321111 357889999999999984
No 44
>PF02083 Urotensin_II: Urotensin II; InterPro: IPR001483 Urotensin II, a small peptide that contains a disulphide bridge, was originally isolated from the caudal portion of the spinal cord of teleost and elasmobranch fish []. The peptide has also been found in the brain of frogs []. Urotensin II seems to be involved in smooth muscle stimulation.; GO: 0005179 hormone activity, 0005576 extracellular region
Probab=25.42 E-value=23 Score=18.08 Aligned_cols=6 Identities=33% Similarity=1.171 Sum_probs=4.2
Q ss_pred CCcccc
Q 025993 50 LGSFWR 55 (245)
Q Consensus 50 gGCFWg 55 (245)
.-|||-
T Consensus 4 ~~CFWK 9 (12)
T PF02083_consen 4 SECFWK 9 (12)
T ss_pred cchhhh
Confidence 359994
No 45
>PF07746 LigA: Aromatic-ring-opening dioxygenase LigAB, LigA subunit; InterPro: IPR011986 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes (IPR000627 from INTERPRO) use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) [, ]. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Extradiol dioxygenases are usually homo-multimeric, bind one atom of ferrous ion per subunit and have a subunit size of about 33 kDa. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes (IPR000486 from INTERPRO) show sequence similarity, with the two-domain class II enzymes having evolved from a class I enzyme through gene duplication. Class III enzymes are different in sequence and structure, but they do share several common active-site characteristics with the class II enzymes, in particular the coordination sphere and the disposition of the putative catalytic base are very similar. Class III enzymes usually have two subunits, designated A (IPR004183 from INTERPRO) and B (IPR004183 from INTERPRO). LigAB is a protocatechuate 4,5-dioxygenase (1.13.11.8 from EC) that belongs to the extradiol class III enzyme family. The LigA subunit of this enzyme is multi-helical, containing a compact array of 6 short helices [].; PDB: 1BOU_A 1B4U_A.
Probab=24.45 E-value=56 Score=25.35 Aligned_cols=33 Identities=15% Similarity=0.285 Sum_probs=22.4
Q ss_pred hhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCC
Q 025993 211 LNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRD 244 (245)
Q Consensus 211 lngy~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~ 244 (245)
||.+|.....|.+.+.|.+-=..++ +.|+|+++
T Consensus 1 lNkf~~~L~~~~~r~~F~~D~~a~~-~~~~Lt~e 33 (88)
T PF07746_consen 1 LNKFCWSLNDPENRERFLADPEAYL-DEYGLTEE 33 (88)
T ss_dssp HHHHHHGGGSHHHHHHHHH-HHHHH-HCCT--HH
T ss_pred ChHHHHHHcCHHHHHHHHHCHHHHH-HHcCCCHH
Confidence 5778888888888887777666666 77887764
No 46
>PF14198 TnpV: Transposon-encoded protein TnpV
Probab=22.34 E-value=43 Score=26.93 Aligned_cols=54 Identities=17% Similarity=0.262 Sum_probs=30.5
Q ss_pred hhhhhhhhhcCCcceeccCCCChHHHHhhhHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCC
Q 025993 177 PEHQKFELKRNPFLIHLMGNLPQEELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILR 243 (245)
Q Consensus 177 eyHQ~Y~l~k~P~~~~~l~~~~~~~~~~S~~Aarlngy~~~~~~pk~~k~l~~~~~~~~~~~~~~~~ 243 (245)
..|++|+.+.+|..|..+- ..-+|+.||+.+-. ...+.++.-++++. +.+|+.+
T Consensus 28 ~~~~~yLke~~p~~Y~~ll-----------~~g~L~~~l~eid~-~A~e~~e~l~~q~~-~~~gvtE 81 (111)
T PF14198_consen 28 RMRKRYLKEHKPILYNNLL-----------LSGKLNEHLAEIDE-QAQERFERLVEQMA-EKEGVTE 81 (111)
T ss_pred HHHHHHHHHhHHHHHHHHH-----------HcchHHHHHHHHHH-HHHHHHHHHHHHHH-HhcCCcH
Confidence 4689997777888765553 34466777765432 22233333333333 5666653
No 47
>PF04990 RNA_pol_Rpb1_7: RNA polymerase Rpb1, domain 7; InterPro: IPR007073 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). This domain, domain 7, represents a mobile module of the RNA polymerase. Domain 7 interacts with the lobe domain of Rpb2 (IPR007642 from INTERPRO) [, ].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_M 1Y77_A 3CQZ_A 3GTM_A 1TWA_A 4A3I_A 2NVY_A 2NVT_A 1I6H_A 1TWF_A ....
Probab=21.35 E-value=43 Score=27.85 Aligned_cols=27 Identities=30% Similarity=0.560 Sum_probs=21.0
Q ss_pred eeEEEEEEcCCCCCH-----HHHHHHHHhcCC
Q 025993 90 AESVQVEYDPRVINF-----RQLLEVFWTSHD 116 (245)
Q Consensus 90 aEaV~V~yDp~~isy-----~~LL~~Ff~~hd 116 (245)
+...+|.|||+.-+= +++++.||..-|
T Consensus 7 t~~teIyYDPdp~~Tvi~eD~e~V~~y~e~pd 38 (135)
T PF04990_consen 7 TASTEIYYDPDPRNTVIEEDREFVESYFEIPD 38 (135)
T ss_dssp ECEEEEEE-SSTTSSSSSTTHCHHHHCCCTT-
T ss_pred hhheeEEECCCCCCCcchhhHHHHHHHHhCCC
Confidence 578899999998654 789999999877
No 48
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=21.22 E-value=98 Score=33.64 Aligned_cols=54 Identities=20% Similarity=0.208 Sum_probs=41.6
Q ss_pred EEEEcCCcccch---hhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCCHHHHHHHHHh
Q 025993 45 AAVFALGSFWRS---EAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVFWT 113 (245)
Q Consensus 45 ~a~fagGCFWg~---Ea~F~~l~GV~~t~vGYaGG~~~~PtY~~v~gHaEaV~V~yDp~~isy~~LL~~Ff~ 113 (245)
--+-||+|-=|+ |...+.+.||.+..|--.. |--+|.|||+++|.+.+++.+=.
T Consensus 73 l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~---------------~~~~v~~dp~v~s~~~~~e~ie~ 129 (951)
T KOG0207|consen 73 LSVNGMTCASCVATIERNLRKIEGVESAVVALSA---------------SKAEVIYDPAVTSPDSIAESIED 129 (951)
T ss_pred EEecCceeHHHHHHHHHHhhccCCcceEEEEeec---------------cceeEEECCcccCchhHHHHHHh
Confidence 356689999986 4556777899888776654 34458999999999999988753
No 49
>PRK12700 flgH flagellar basal body L-ring protein; Reviewed
Probab=21.19 E-value=98 Score=28.07 Aligned_cols=23 Identities=26% Similarity=0.206 Sum_probs=14.1
Q ss_pred chhhHHHHHHHHHH-HHhhhhhcc
Q 025993 3 LSKRYLFFSVLHLL-LLTDTALCI 25 (245)
Q Consensus 3 ~~~~~~~~~~~~~~-~~~~~~~~~ 25 (245)
|-|-.|.|++++.+ +++++|+..
T Consensus 2 ~~~~~~~~~~~~~~~~~L~gCa~~ 25 (230)
T PRK12700 2 MLKTVLRLPVCAALLALAAGCAMI 25 (230)
T ss_pred eeeehhHHHHHHHHHHHhhcccCC
Confidence 34666777777733 446788653
Done!