Query 026895
Match_columns 231
No_of_seqs 217 out of 1298
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 14:13:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026895.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026895hhsearch_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 1.4E-62 3.1E-67 415.4 15.2 141 40-181 3-162 (174)
2 PRK13014 methionine sulfoxide 100.0 5.5E-61 1.2E-65 411.3 16.8 164 37-224 2-184 (186)
3 PRK14054 methionine sulfoxide 100.0 1.7E-59 3.7E-64 398.0 15.5 150 42-215 2-170 (172)
4 TIGR00401 msrA methionine-S-su 100.0 1.5E-57 3.3E-62 378.3 15.0 130 44-174 1-149 (149)
5 PF01625 PMSR: Peptide methion 100.0 1.1E-57 2.5E-62 381.1 11.1 136 44-180 1-154 (155)
6 PRK05528 methionine sulfoxide 100.0 1.7E-56 3.7E-61 374.5 15.6 134 43-181 1-148 (156)
7 PRK00058 methionine sulfoxide 100.0 2E-56 4.3E-61 389.8 16.2 141 40-181 42-203 (213)
8 KOG1635 Peptide methionine sul 100.0 3.6E-55 7.7E-60 369.7 13.7 137 37-175 18-172 (191)
9 PRK05550 bifunctional methioni 100.0 6.1E-53 1.3E-57 381.2 15.1 138 41-181 125-281 (283)
10 PRK14018 trifunctional thiored 100.0 1.3E-51 2.8E-56 398.5 15.9 143 39-183 194-353 (521)
11 PF00403 HMA: Heavy-metal-asso 95.0 0.039 8.4E-07 38.2 4.0 46 50-110 10-55 (62)
12 COG2608 CopZ Copper chaperone 86.2 1.2 2.7E-05 32.2 4.0 47 49-110 13-59 (71)
13 PF02682 AHS1: Allophanate hyd 84.2 1.6 3.4E-05 38.1 4.4 43 54-113 28-72 (202)
14 COG2049 DUR1 Allophanate hydro 83.4 1.4 3.1E-05 39.5 3.8 40 54-110 26-67 (223)
15 PF07172 GRP: Glycine rich pro 81.1 1.4 3E-05 34.4 2.6 21 1-22 1-21 (95)
16 PF08098 ATX_III: Anemonia sul 77.9 0.83 1.8E-05 27.8 0.3 9 48-56 11-19 (27)
17 smart00796 AHS1 Allophanate hy 70.3 6.7 0.00015 34.2 4.2 41 54-111 28-70 (201)
18 PF03852 Vsr: DNA mismatch end 60.1 4.3 9.4E-05 30.6 0.9 19 37-55 50-68 (75)
19 PRK13379 protocatechuate 4,5-d 59.3 7.9 0.00017 31.6 2.3 44 187-231 18-61 (119)
20 PRK13377 protocatechuate 4,5-d 59.1 8.8 0.00019 31.8 2.6 44 187-231 17-60 (129)
21 cd07921 PCA_45_Doxase_A_like S 59.1 7.6 0.00016 31.1 2.2 42 189-231 8-49 (106)
22 TIGR00003 copper ion binding p 58.6 36 0.00077 20.6 5.0 47 50-111 14-60 (68)
23 TIGR02792 PCA_ligA protocatech 58.3 8.2 0.00018 31.5 2.3 43 188-231 12-54 (117)
24 cd07925 LigA_like_1 The A subu 58.1 8.5 0.00018 30.9 2.3 42 189-231 8-49 (106)
25 cd07924 PCA_45_Doxase_A The A 57.9 8.8 0.00019 31.5 2.4 44 187-231 14-57 (121)
26 TIGR02712 urea_carbox urea car 57.6 13 0.00028 40.6 4.3 32 63-111 842-873 (1201)
27 PRK13378 protocatechuate 4,5-d 56.6 11 0.00024 30.8 2.7 44 187-231 17-60 (117)
28 PF11491 DUF3213: Protein of u 54.2 12 0.00026 29.0 2.4 25 87-111 32-56 (88)
29 COG2217 ZntA Cation transport 51.0 18 0.00039 37.6 3.9 46 50-111 14-60 (713)
30 cd07923 Gallate_dioxygenase_C 49.3 11 0.00025 29.5 1.7 38 193-231 4-41 (94)
31 TIGR00370 conserved hypothetic 48.8 22 0.00048 31.1 3.7 39 54-110 23-61 (202)
32 COG3727 Vsr DNA G:T-mismatch r 47.6 20 0.00043 30.2 3.0 20 37-56 51-70 (150)
33 PF07746 LigA: Aromatic-ring-o 42.3 18 0.00039 27.8 1.8 34 197-231 1-34 (88)
34 COG3458 Acetyl esterase (deace 40.2 40 0.00086 31.8 4.0 71 44-118 148-238 (321)
35 COG3017 LolB Outer membrane li 39.6 30 0.00065 30.8 3.0 25 1-25 1-25 (206)
36 PRK13367 protocatechuate 4,5-d 39.3 29 0.00063 33.9 3.2 69 162-231 284-354 (420)
37 PF02617 ClpS: ATP-dependent C 35.0 1.8E+02 0.0039 21.3 6.5 57 95-152 10-82 (82)
38 PHA03303 envelope glycoprotein 34.9 13 0.00028 31.7 0.0 18 46-63 140-157 (159)
39 KOG2003 TPR repeat-containing 33.8 14 0.0003 37.3 -0.0 14 47-60 397-410 (840)
40 PRK14624 hypothetical protein; 33.2 27 0.00058 28.2 1.6 32 69-103 33-64 (115)
41 PF03622 IBV_3B: IBV 3B protei 32.7 26 0.00056 25.5 1.3 18 42-59 36-53 (64)
42 PF14198 TnpV: Transposon-enco 30.0 25 0.00053 28.1 0.9 54 163-229 28-81 (111)
43 COG4594 FecB ABC-type Fe3+-cit 29.5 88 0.0019 29.3 4.4 165 1-168 1-212 (310)
44 PRK13372 pcmA protocatechuate 27.8 43 0.00093 33.0 2.3 43 188-231 18-60 (444)
45 KOG4309 Transcription mediator 25.9 66 0.0014 28.4 2.8 27 91-117 140-172 (217)
46 KOG0207 Cation transport ATPas 25.5 75 0.0016 34.2 3.6 53 45-112 73-128 (951)
47 PF02083 Urotensin_II: Urotens 25.4 23 0.0005 17.9 -0.0 6 50-55 4-9 (12)
48 PF04990 RNA_pol_Rpb1_7: RNA p 23.0 40 0.00086 27.8 0.9 27 90-116 7-38 (135)
49 PF11691 DUF3288: Protein of u 21.2 51 0.0011 25.7 1.2 34 193-231 31-64 (90)
50 PF09716 ETRAMP: Malarial earl 20.7 88 0.0019 23.6 2.3 25 1-25 1-25 (84)
No 1
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.4e-62 Score=415.43 Aligned_cols=141 Identities=41% Similarity=0.663 Sum_probs=133.4
Q ss_pred CCCccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccC----CceeEEEEEEcCCCCcHHHHHHHHHhcc
Q 026895 40 GRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSH 115 (231)
Q Consensus 40 ~~~~~~a~fagGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~----gHaE~V~V~yDp~~iSy~~LL~~Ff~~h 115 (231)
..+|++|+||||||||+|+.|+++|||++|+|||+||+++||||++|| ||+|+|+|+|||++|||++||++||++|
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 356899999999999999999999999999999999999999999996 8999999999999999999999999999
Q ss_pred CC--------------ceEEEeCChHHHHHHHHHHHHHHh-hcCCCceEEEEeeCCCcccCchhHhhhhhhcCCcceecc
Q 026895 116 DC--------------RSIIFTNGTEESRLAAHSKEREQM-KSKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLIHLM 180 (231)
Q Consensus 116 DP--------------RS~If~~~~eq~~~A~~~~~~~~~-~~~~~~IvTeI~pl~~Fy~AEdyHQ~Y~l~knP~~~~~~ 180 (231)
|| ||+|||+|++|+++|+++++++++ +.+++||+|||+|+++||+||||||+| |+|||+.||.+
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 99 999999999999999999998887 466779999999999999999999999 58999988876
Q ss_pred C
Q 026895 181 G 181 (231)
Q Consensus 181 ~ 181 (231)
+
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=5.5e-61 Score=411.34 Aligned_cols=164 Identities=32% Similarity=0.559 Sum_probs=151.0
Q ss_pred CCCCCCccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccC----CceeEEEEEEcCCCCcHHHHHHHHH
Q 026895 37 DELGRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFW 112 (231)
Q Consensus 37 ~~~~~~~~~a~fagGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~----gHaE~V~V~yDp~~iSy~~LL~~Ff 112 (231)
|..+.++++|+||||||||+|+.|++++||++|+|||+||+++||||++|| ||+|+|+|+|||++|||++||++||
T Consensus 2 ~~~~~~~~~a~~agGCFWg~E~~f~~l~GV~~t~vGYagG~~~nPtY~~Vcsg~tgH~E~V~V~yDp~~iSy~~LL~~Ff 81 (186)
T PRK13014 2 DAAADGMETATFAGGCFWGVEGVFQHVPGVVSVVSGYSGGHVDNPTYEQVCTGTTGHAEAVQITYDPKQVSYENLLQIFF 81 (186)
T ss_pred CCCCCCccEEEEecCCceeeHHHHccCCCEEEEEeeecCCCCCCCChhhhcCCCCCceEEEEEEECCCcCCHHHHHHHHH
Confidence 445667899999999999999999999999999999999999999999997 8999999999999999999999999
Q ss_pred hccCC--------------ceEEEeCChHHHHHHHHHHHHHHhh-cCCCceEEEEeeCCCcccCchhHhhhhhhcCCcce
Q 026895 113 TSHDC--------------RSIIFTNGTEESRLAAHSKEREQMK-SKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLI 177 (231)
Q Consensus 113 ~~hDP--------------RS~If~~~~eq~~~A~~~~~~~~~~-~~~~~IvTeI~pl~~Fy~AEdyHQ~Y~l~knP~~~ 177 (231)
.+||| ||+|||+|++|+++|+.++++++++ .+.++|+|+|+|+++||+||+|||+|+ +|||+
T Consensus 82 ~~hDPt~~~~Qg~D~G~QYRS~If~~~~eQ~~~a~~~~~~~~~~~~~~~~i~Tei~p~~~Fy~AEeyHQ~Yl-~k~p~-- 158 (186)
T PRK13014 82 STHDPTQLNRQGPDRGEQYRSAIFYHDEEQKKVAEAYIAQLDEAGIFKKPIVTPIKPYKNFYPAEDYHQDYL-KKNPT-- 158 (186)
T ss_pred HhcCCCccCCCCCCCCCCceEEEEeCCHHHHHHHHHHHHHHHhccccCCCcEEEEecCCCeeeCHHHHHHHH-HhCCC--
Confidence 99999 9999999999999999999887654 367899999999999999999999995 68998
Q ss_pred eccCCCChHHHHhhHHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcC
Q 026895 178 HLMGNLPQEELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKG 224 (231)
Q Consensus 178 ~~~~~~~~~~~~~S~~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~ 224 (231)
++||+..+.||+.+ +++.+.+.|+++
T Consensus 159 --------------------~~yc~~~~~~~~~~-~~~~~~~~~~~~ 184 (186)
T PRK13014 159 --------------------HPYIVYNDLPKGSG-LKAFFESHYGNQ 184 (186)
T ss_pred --------------------CCccEEEeChhhhh-HHHHHHHHhccC
Confidence 79999999999976 788787776553
No 3
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=100.00 E-value=1.7e-59 Score=398.00 Aligned_cols=150 Identities=37% Similarity=0.626 Sum_probs=137.6
Q ss_pred CccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccC----CceeEEEEEEcCCCCcHHHHHHHHHhccCC
Q 026895 42 PLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSHDC 117 (231)
Q Consensus 42 ~~~~a~fagGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~----gHaE~V~V~yDp~~iSy~~LL~~Ff~~hDP 117 (231)
++++|+||||||||+|+.|+++|||++|+|||+||+++||||++|| ||+|+|+|+|||++|||++||++||++|||
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 5799999999999999999999999999999999999999999996 899999999999999999999999999999
Q ss_pred --------------ceEEEeCChHHHHHHHHHHHHHHhh-cCCCceEEEEeeCCCcccCchhHhhhhhhcCCcceeccCC
Q 026895 118 --------------RSIIFTNGTEESRLAAHSKEREQMK-SKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLIHLMGN 182 (231)
Q Consensus 118 --------------RS~If~~~~eq~~~A~~~~~~~~~~-~~~~~IvTeI~pl~~Fy~AEdyHQ~Y~l~knP~~~~~~~~ 182 (231)
||+|||+|++|+++|+.++++++.+ .+.++|+|+|+|+++||+||+|||||| +|||+
T Consensus 82 t~~~~Qg~D~G~qYRS~If~~~~~q~~~a~~~~~~~~~~~~~~~~i~Tei~~~~~Fy~AEeyHQ~Yl-~k~p~------- 153 (172)
T PRK14054 82 TTLNRQGNDRGTQYRSAIFYHDEEQKEIAEASIAELQASGLFDKPIVTEVEPAETFYEAEEYHQDYL-EKNPN------- 153 (172)
T ss_pred CccCCCCCCCCcCceeEEEeCCHHHHHHHHHHHHHHHHhcccCCCcEEEEecCCCceECHHHHHHHH-HhCCC-------
Confidence 9999999999999999999888755 367899999999999999999999995 78998
Q ss_pred CChHHHHhhHHHHHhhhhhhhcCChhHHHHHHH
Q 026895 183 LPQEELEKSNLAAKLNSYAAELCPPRIQKQIDA 215 (231)
Q Consensus 183 ~~~~~~~~S~~Aarln~y~~~~~~pk~~k~l~~ 215 (231)
..||..++.|++.| |++
T Consensus 154 ---------------~~~~~~~~~~~~~~-~~~ 170 (172)
T PRK14054 154 ---------------GYCCIFVIPPKVLK-KRE 170 (172)
T ss_pred ---------------CcceeeccCHHHHH-HHh
Confidence 56666777777765 444
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=1.5e-57 Score=378.28 Aligned_cols=130 Identities=44% Similarity=0.725 Sum_probs=123.5
Q ss_pred cEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccC----CceeEEEEEEcCCCCcHHHHHHHHHhccCC--
Q 026895 44 KAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSHDC-- 117 (231)
Q Consensus 44 ~~a~fagGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~----gHaE~V~V~yDp~~iSy~~LL~~Ff~~hDP-- 117 (231)
++|+||||||||+|+.|++++||++|+|||+||+++||||++|| ||+|+|+|+|||++|||++||++||++|||
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 47999999999999999999999999999999999999999995 899999999999999999999999999999
Q ss_pred ------------ceEEEeCChHHHHHHHHHHHHHHhh-cCCCceEEEEeeCCCcccCchhHhhhhhhcCC
Q 026895 118 ------------RSIIFTNGTEESRLAAHSKEREQMK-SKSSIVTTQIQQLVAFYPAEPEHQKFELKRNP 174 (231)
Q Consensus 118 ------------RS~If~~~~eq~~~A~~~~~~~~~~-~~~~~IvTeI~pl~~Fy~AEdyHQ~Y~l~knP 174 (231)
||+|||+|++|+++|+.++++++++ .+.++|+|+|+|+++||+||+|||||| +|||
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 9999999999999999999888764 456799999999999999999999995 6788
No 5
>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=1.1e-57 Score=381.09 Aligned_cols=136 Identities=44% Similarity=0.710 Sum_probs=122.6
Q ss_pred cEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCcccc----CCceeEEEEEEcCCCCcHHHHHHHHHhccCC--
Q 026895 44 KAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNL----GDHAESVQVEYDPRVINFRQLLEVFWTSHDC-- 117 (231)
Q Consensus 44 ~~a~fagGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v----~gHaE~V~V~yDp~~iSy~~LL~~Ff~~hDP-- 117 (231)
++||||||||||+|+.|++++||++|+|||+||+.+||||++| +||+|+|+|+|||++|||++||++||++|||
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 6899999999999999999999999999999
Q ss_pred ------------ceEEEeCChHHHHHHHHHHHHHHhhcCCCceEEEEeeCCCcccCchhHhhhhhhcCCcceecc
Q 026895 118 ------------RSIIFTNGTEESRLAAHSKEREQMKSKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLIHLM 180 (231)
Q Consensus 118 ------------RS~If~~~~eq~~~A~~~~~~~~~~~~~~~IvTeI~pl~~Fy~AEdyHQ~Y~l~knP~~~~~~ 180 (231)
||+|||+|++|+++|+.++++++++.+.++|+|+|+|+++||+||+|||+|+ .|||+.||++
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 9999999999999999999988877567899999999999999999999995 6899977765
No 6
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=100.00 E-value=1.7e-56 Score=374.48 Aligned_cols=134 Identities=24% Similarity=0.375 Sum_probs=124.0
Q ss_pred ccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCcHHHHHHHHHhccCC-----
Q 026895 43 LKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVFWTSHDC----- 117 (231)
Q Consensus 43 ~~~a~fagGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~gHaE~V~V~yDp~~iSy~~LL~~Ff~~hDP----- 117 (231)
|++|+||||||||+|+.|++++||++|+|||+||+++||++.. +||+|+|+|+|||++|||++||++||++|||
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 METVYFAGGCLWGVQAFFKTLPGVIHTEAGRANGRTSTLDGPY-DGYAECVKTHFDPRMVSITDLMGYLFEIIDPYSVNK 79 (156)
T ss_pred CCEEEEecCCchhhHHHHhcCCCEEEEEEEcCCCCCCCCCCCC-CCcEEEEEEEECCCcCCHHHHHHHHHHhCCcccccc
Confidence 4789999999999999999999999999999999999998433 7999999999999999999999999999999
Q ss_pred ---------ceEEEeCChHHHHHHHHHHHHHHhhcCCCceEEEEeeCCCcccCchhHhhhhhhcCCcceeccC
Q 026895 118 ---------RSIIFTNGTEESRLAAHSKEREQMKSKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLIHLMG 181 (231)
Q Consensus 118 ---------RS~If~~~~eq~~~A~~~~~~~~~~~~~~~IvTeI~pl~~Fy~AEdyHQ~Y~l~knP~~~~~~~ 181 (231)
||+|||+|++|+++|++++++++. .++|+|+|+|+.+||+||+||||| ++|||..||++.
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 999999999999999998877653 358999999999999999999999 478999777775
No 7
>PRK00058 methionine sulfoxide reductase A; Provisional
Probab=100.00 E-value=2e-56 Score=389.76 Aligned_cols=141 Identities=42% Similarity=0.662 Sum_probs=130.3
Q ss_pred CCCccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccC----CceeEEEEEEcCCCCcHHHHHHHHHhcc
Q 026895 40 GRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSH 115 (231)
Q Consensus 40 ~~~~~~a~fagGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~----gHaE~V~V~yDp~~iSy~~LL~~Ff~~h 115 (231)
..++++|+||||||||+|+.|++++||++|+|||+||.++||||++|| ||+|+|+|+|||++|||++||++||++|
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 456899999999999999999999999999999999999999999995 8999999999999999999999999999
Q ss_pred CC--------------ceEEEeCChHHHHHHHHHHHHHHhhc---CCCceEEEEeeCCCcccCchhHhhhhhhcCCccee
Q 026895 116 DC--------------RSIIFTNGTEESRLAAHSKEREQMKS---KSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLIH 178 (231)
Q Consensus 116 DP--------------RS~If~~~~eq~~~A~~~~~~~~~~~---~~~~IvTeI~pl~~Fy~AEdyHQ~Y~l~knP~~~~ 178 (231)
|| ||+|||+|++|+++|+.++++++++. ..++|+|+|+|+++||+||+|||||| +|||..||
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 99 99999999999999999888776542 13489999999999999999999995 78998777
Q ss_pred ccC
Q 026895 179 LMG 181 (231)
Q Consensus 179 ~~~ 181 (231)
++.
T Consensus 201 ~~~ 203 (213)
T PRK00058 201 GLG 203 (213)
T ss_pred ccC
Confidence 765
No 8
>KOG1635 consensus Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.6e-55 Score=369.68 Aligned_cols=137 Identities=45% Similarity=0.752 Sum_probs=129.9
Q ss_pred CCCCCCccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccCC----ceeEEEEEEcCCCCcHHHHHHHHH
Q 026895 37 DELGRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGD----HAESVQVEYDPRVINFRQLLEVFW 112 (231)
Q Consensus 37 ~~~~~~~~~a~fagGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~g----HaE~V~V~yDp~~iSy~~LL~~Ff 112 (231)
|.+..+++.|+||+|||||+|..|.+||||++|+|||+||.+.||||++||+ |+|+|+|+|||.+|||++||++||
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 4567789999999999999999999999999999999999999999999984 999999999999999999999999
Q ss_pred hccCC--------------ceEEEeCChHHHHHHHHHHHHHHhhcCCCceEEEEeeCCCcccCchhHhhhhhhcCCc
Q 026895 113 TSHDC--------------RSIIFTNGTEESRLAAHSKEREQMKSKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPF 175 (231)
Q Consensus 113 ~~hDP--------------RS~If~~~~eq~~~A~~~~~~~~~~~~~~~IvTeI~pl~~Fy~AEdyHQ~Y~l~knP~ 175 (231)
.+||| ||+||+++++|.++|+.++++.|.+ +.++|+|+|+|+++||.||||||+|+ .|||.
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 99999 9999999999999999999998876 67799999999999999999999995 56884
No 9
>PRK05550 bifunctional methionine sulfoxide reductase B/A protein; Provisional
Probab=100.00 E-value=6.1e-53 Score=381.24 Aligned_cols=138 Identities=35% Similarity=0.569 Sum_probs=128.3
Q ss_pred CCccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccC----CceeEEEEEEcCCCCcHHHHHHHHHhccC
Q 026895 41 RPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLG----DHAESVQVEYDPRVINFRQLLEVFWTSHD 116 (231)
Q Consensus 41 ~~~~~a~fagGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~----gHaE~V~V~yDp~~iSy~~LL~~Ff~~hD 116 (231)
..+++|+||||||||+|+.|++++||++|+|||+||+++||||++|| ||+|+|+|+|||++|||++||++||++||
T Consensus 125 ~~~~~~~fagGCFWg~E~~F~~~~GV~~t~vGYagG~~~nPtY~~VcsG~tgH~EaV~V~yDp~~isy~~LL~~F~~~hD 204 (283)
T PRK05550 125 YDTEEAIFAGGCFWGVEYYFKKLPGVLSVESGYTGGDTKNPTYEQVCSGTTGHAEAVRVEFDPAKISYETLLKVFFEIHD 204 (283)
T ss_pred ccceEEEEecCCchhhhhhHhhCcCEEEEEEeeCCCCCCCCChhhcccCCCCCeEEEEEEECCccCCHHHHHHHHHhhcC
Confidence 34799999999999999999999999999999999999999999985 89999999999999999999999999999
Q ss_pred C--------------ceEEEeCChHHHHHHHHHHHHHHhhcCCCceEEEEeeCCCcccCchhHhhhhhhcCCcc-eeccC
Q 026895 117 C--------------RSIIFTNGTEESRLAAHSKEREQMKSKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFL-IHLMG 181 (231)
Q Consensus 117 P--------------RS~If~~~~eq~~~A~~~~~~~~~~~~~~~IvTeI~pl~~Fy~AEdyHQ~Y~l~knP~~-~~~~~ 181 (231)
| ||+|||+|++|+++|++++++++++. .+|+|+|+|+++||+||+|||||+ .|||.. ||++.
T Consensus 205 Pt~~~~Qg~D~G~QYRS~If~~d~eq~~~A~~~~~~~~~~~--~~i~TeI~~l~~Fy~AEeyHQ~Yl-~k~p~~~yc~~~ 281 (283)
T PRK05550 205 PTQLNRQGPDIGTQYRSAIFYHDDEQKQIAEKLIAELTKKG--YPVVTEVEAAGPFYPAEDYHQDYY-EKHGKQPYCHIV 281 (283)
T ss_pred CCccCCCCCCCCcCceEEEEeCCHHHHHHHHHHHHHHHhcC--CceEEEEeeCCCeeECHHHHHHHH-HhCCCCCeeeee
Confidence 9 99999999999999999998887643 289999999999999999999995 689985 66653
No 10
>PRK14018 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional
Probab=100.00 E-value=1.3e-51 Score=398.47 Aligned_cols=143 Identities=29% Similarity=0.450 Sum_probs=134.5
Q ss_pred CCCCccEEEEcCCcccchhhhhccCCCeEEeeeeecCCCCCCCCcccc---CCceeEEEEEEcCCCCcHHHHHHHHHhcc
Q 026895 39 LGRPLKAAVFALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNL---GDHAESVQVEYDPRVINFRQLLEVFWTSH 115 (231)
Q Consensus 39 ~~~~~~~a~fagGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v---~gHaE~V~V~yDp~~iSy~~LL~~Ff~~h 115 (231)
.+.++++||||||||||+|++|++++||++|+|||+||+++||||++| +||+|+|+|+|||++|||++||++||++|
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 CC--------------ceEEEeCChHHHHHHHHHHHHHHhhcCCCceEEEEeeCCCcccCchhHhhhhhhcCCcceeccC
Q 026895 116 DC--------------RSIIFTNGTEESRLAAHSKEREQMKSKSSIVTTQIQQLVAFYPAEPEHQKFELKRNPFLIHLMG 181 (231)
Q Consensus 116 DP--------------RS~If~~~~eq~~~A~~~~~~~~~~~~~~~IvTeI~pl~~Fy~AEdyHQ~Y~l~knP~~~~~~~ 181 (231)
|| ||+|||+|++|+++|+.+++.++++ +.++|+|||+|+++||+||+|||||| +|||..||++.
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 99 9999999999999999998887764 57789999999999999999999995 68999999987
Q ss_pred CC
Q 026895 182 NL 183 (231)
Q Consensus 182 ~~ 183 (231)
.-
T Consensus 352 ~~ 353 (521)
T PRK14018 352 LR 353 (521)
T ss_pred cc
Confidence 44
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=95.03 E-value=0.039 Score=38.17 Aligned_cols=46 Identities=26% Similarity=0.393 Sum_probs=40.4
Q ss_pred CCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCcHHHHHHH
Q 026895 50 LGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEV 110 (231)
Q Consensus 50 gGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~gHaE~V~V~yDp~~iSy~~LL~~ 110 (231)
+||-+-++..+.++|||.++.+-+..+ .|.|.||++.++.++|.+.
T Consensus 10 ~~C~~~v~~~l~~~~GV~~v~vd~~~~---------------~v~v~~~~~~~~~~~i~~~ 55 (62)
T PF00403_consen 10 EGCAKKVEKALSKLPGVKSVKVDLETK---------------TVTVTYDPDKTSIEKIIEA 55 (62)
T ss_dssp HHHHHHHHHHHHTSTTEEEEEEETTTT---------------EEEEEESTTTSCHHHHHHH
T ss_pred HHHHHHHHHHHhcCCCCcEEEEECCCC---------------EEEEEEecCCCCHHHHHHH
Confidence 478888999999999999999988765 6889999999999998765
No 12
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=86.18 E-value=1.2 Score=32.23 Aligned_cols=47 Identities=17% Similarity=0.314 Sum_probs=41.1
Q ss_pred cCCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCcHHHHHHH
Q 026895 49 ALGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEV 110 (231)
Q Consensus 49 agGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~gHaE~V~V~yDp~~iSy~~LL~~ 110 (231)
.+||.=-++..+..++||.++.+-...|. +.|+||+..++-++|.+.
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 45777778888999999999999988774 789999999999999876
No 13
>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=84.25 E-value=1.6 Score=38.12 Aligned_cols=43 Identities=23% Similarity=0.321 Sum_probs=34.4
Q ss_pred cchhhhhcc--CCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCcHHHHHHHHHh
Q 026895 54 WRSEAVFGC--LNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVFWT 113 (231)
Q Consensus 54 W~~Ea~F~~--l~GV~~t~vGYaGG~~~nPtY~~v~gHaE~V~V~yDp~~iSy~~LL~~Ff~ 113 (231)
|.+.+.+.+ ++||++++.+|. +|-|.|||..+++.+|.+..-.
T Consensus 28 ~al~~~l~~~~~~gi~e~vp~~~-----------------sllV~fdp~~~~~~~l~~~l~~ 72 (202)
T PF02682_consen 28 LALARALRAAPLPGIVEVVPAYR-----------------SLLVHFDPLRIDRAALRAALEE 72 (202)
T ss_dssp HHHHHHHHHHT-TTEEEEEEESS-----------------EEEEEESTTTSHHHHHHHHHHH
T ss_pred HHHHHHHhcCCCCCeEEeecccc-----------------EEEEEEcCCcCCHHHHHHHHHH
Confidence 555566666 899999999987 7889999999999988876643
No 14
>COG2049 DUR1 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]
Probab=83.41 E-value=1.4 Score=39.46 Aligned_cols=40 Identities=38% Similarity=0.628 Sum_probs=31.3
Q ss_pred cchhhhhcc--CCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCcHHHHHHH
Q 026895 54 WRSEAVFGC--LNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEV 110 (231)
Q Consensus 54 W~~Ea~F~~--l~GV~~t~vGYaGG~~~nPtY~~v~gHaE~V~V~yDp~~iSy~~LL~~ 110 (231)
|++.....+ ++||++++.||. ++.|.||+.+++..+|++.
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 444444444 459999999998 7899999999998888764
No 15
>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=81.10 E-value=1.4 Score=34.38 Aligned_cols=21 Identities=33% Similarity=0.472 Sum_probs=15.1
Q ss_pred CcchhhHHHHHHHHHHHHhchh
Q 026895 1 MVLSKRYLFFSVLHLLLLTDTA 22 (231)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~ 22 (231)
|- ||.+|||.++++.+++.++
T Consensus 1 Ma-SK~~llL~l~LA~lLlisS 21 (95)
T PF07172_consen 1 MA-SKAFLLLGLLLAALLLISS 21 (95)
T ss_pred Cc-hhHHHHHHHHHHHHHHHHh
Confidence 55 9999999988755544444
No 16
>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=77.88 E-value=0.83 Score=27.76 Aligned_cols=9 Identities=22% Similarity=0.652 Sum_probs=5.5
Q ss_pred EcCCcccch
Q 026895 48 FALGSFWRS 56 (231)
Q Consensus 48 fagGCFW~~ 56 (231)
+-||||||-
T Consensus 11 ~~~gC~WGQ 19 (27)
T PF08098_consen 11 YTGGCPWGQ 19 (27)
T ss_dssp TTTT-SSS-
T ss_pred eecCCcccc
Confidence 357899984
No 17
>smart00796 AHS1 Allophanate hydrolase subunit 1. This domain represents subunit 1 of allophanate hydrolase (AHS1).
Probab=70.25 E-value=6.7 Score=34.16 Aligned_cols=41 Identities=34% Similarity=0.456 Sum_probs=31.7
Q ss_pred cchhhhhc--cCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCcHHHHHHHH
Q 026895 54 WRSEAVFG--CLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVF 111 (231)
Q Consensus 54 W~~Ea~F~--~l~GV~~t~vGYaGG~~~nPtY~~v~gHaE~V~V~yDp~~iSy~~LL~~F 111 (231)
|.+...++ .++||++++.||. +|-|.|||.+++..+|++..
T Consensus 28 ~~l~~~l~~~~~~gi~e~vp~~~-----------------sllv~fdp~~~~~~~l~~~l 70 (201)
T smart00796 28 LALARALRAAPLPGVVELVPGYR-----------------SLLVHFDPLVIDPAALLARL 70 (201)
T ss_pred HHHHHHHHhcCCCCeEEccccce-----------------EEEEEEcCCCCCHHHHHHHH
Confidence 44444444 3689999998886 78899999999999887644
No 18
>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=60.12 E-value=4.3 Score=30.62 Aligned_cols=19 Identities=37% Similarity=0.642 Sum_probs=13.8
Q ss_pred CCCCCCccEEEEcCCcccc
Q 026895 37 DELGRPLKAAVFALGSFWR 55 (231)
Q Consensus 37 ~~~~~~~~~a~fagGCFW~ 55 (231)
|..-...+.|+|--||||.
T Consensus 50 Div~~~~k~aIFVdGCFWH 68 (75)
T PF03852_consen 50 DIVFPKYKIAIFVDGCFWH 68 (75)
T ss_dssp SEEEGGGTEEEEEE-TTTT
T ss_pred CEEECCCCEEEEEecceeC
Confidence 4433467899999999996
No 19
>PRK13379 protocatechuate 4,5-dioxygenase subunit alpha; Provisional
Probab=59.26 E-value=7.9 Score=31.65 Aligned_cols=44 Identities=16% Similarity=0.219 Sum_probs=35.8
Q ss_pred HHHhhHHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 026895 187 ELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 231 (231)
Q Consensus 187 ~~~~S~~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 231 (231)
+...|--+=+||.+|...+.|...++|++--..++ ..|+|++.|
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 34566677889999999999999999988666666 889998753
No 20
>PRK13377 protocatechuate 4,5-dioxygenase subunit alpha; Provisional
Probab=59.13 E-value=8.8 Score=31.77 Aligned_cols=44 Identities=16% Similarity=0.406 Sum_probs=35.9
Q ss_pred HHHhhHHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 026895 187 ELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 231 (231)
Q Consensus 187 ~~~~S~~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 231 (231)
+...|--+=+||.+|.....|...++|++--..++ ..|+|++.|
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 45566777889999999999999999988666666 889998754
No 21
>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=59.12 E-value=7.6 Score=31.12 Aligned_cols=42 Identities=14% Similarity=0.183 Sum_probs=33.3
Q ss_pred HhhHHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 026895 189 EKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 231 (231)
Q Consensus 189 ~~S~~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 231 (231)
..|--+=+||.+|...+.|...+++++-=..++ +.|+|+++|
T Consensus 8 ~~s~kgy~LN~f~~sL~~a~~Re~F~aD~eAy~-~~~gLTeEe 49 (106)
T cd07921 8 ERSRKGYALNKMCMSLNKAENREAFKADEEAYC-DKFGLTEEQ 49 (106)
T ss_pred HHHHHhhhHHHHHHHHCCHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 345556688999999999999998888666666 889998764
No 22
>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=58.55 E-value=36 Score=20.57 Aligned_cols=47 Identities=26% Similarity=0.266 Sum_probs=36.3
Q ss_pred CCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCcHHHHHHHH
Q 026895 50 LGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVF 111 (231)
Q Consensus 50 gGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~gHaE~V~V~yDp~~iSy~~LL~~F 111 (231)
..|-|-++..+...+||..+.+...++ .+.|.||+...+-..+....
T Consensus 14 ~~c~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~ 60 (68)
T TIGR00003 14 QHCVDKIEKFVGELEGVSKVQVKLEKA---------------SVKVEFDAPQATEICIAEAI 60 (68)
T ss_pred HHHHHHHHHHHhcCCCEEEEEEEcCCC---------------EEEEEeCCCCCCHHHHHHHH
Confidence 478999999999999999888877766 35678888777767665543
No 23
>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=58.29 E-value=8.2 Score=31.47 Aligned_cols=43 Identities=12% Similarity=0.286 Sum_probs=34.9
Q ss_pred HHhhHHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 026895 188 LEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 231 (231)
Q Consensus 188 ~~~S~~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 231 (231)
...|--+=+||.+|.....|...++|++--..++ ..|+|++.|
T Consensus 12 ~~~srkgy~LN~fc~sl~~~~nRerF~ade~Ay~-d~~~Lt~eq 54 (117)
T TIGR02792 12 AQQARKGYNLNQFCMSLMKAENRERFKADESAYL-DEWNLTPAQ 54 (117)
T ss_pred HHHHHHHHHHHHHHHHhcCHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 4556667789999999999999999988666666 889998754
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=58.07 E-value=8.5 Score=30.86 Aligned_cols=42 Identities=10% Similarity=0.064 Sum_probs=33.8
Q ss_pred HhhHHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 026895 189 EKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 231 (231)
Q Consensus 189 ~~S~~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 231 (231)
..|.-+=+||.+|.....|...++|.+--..++ +.|+|++.|
T Consensus 8 ~~srkgy~LN~fc~sl~~~~nRe~F~aD~~Ay~-~~~~Lteeq 49 (106)
T cd07925 8 EMARKGYALNKMCFSFNDAANREAFLADEEAYC-EKFGLTPEQ 49 (106)
T ss_pred HHHHHhhHHHHHHHHHCCHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 455567788999999999999998888666666 889998754
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=57.85 E-value=8.8 Score=31.47 Aligned_cols=44 Identities=16% Similarity=0.434 Sum_probs=35.7
Q ss_pred HHHhhHHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 026895 187 ELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 231 (231)
Q Consensus 187 ~~~~S~~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 231 (231)
+...|--+=+||.+|.....|...++|++--..++ +.|+|++.|
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 34566677789999999999999999988666666 889998754
No 26
>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=57.58 E-value=13 Score=40.64 Aligned_cols=32 Identities=50% Similarity=0.828 Sum_probs=28.4
Q ss_pred CCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCcHHHHHHHH
Q 026895 63 LNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVF 111 (231)
Q Consensus 63 l~GV~~t~vGYaGG~~~nPtY~~v~gHaE~V~V~yDp~~iSy~~LL~~F 111 (231)
++||++++.||. ++.|.|||.+|+..+|++..
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 689999998886 89999999999999887755
No 27
>PRK13378 protocatechuate 4,5-dioxygenase subunit alpha; Provisional
Probab=56.62 E-value=11 Score=30.77 Aligned_cols=44 Identities=9% Similarity=0.058 Sum_probs=35.4
Q ss_pred HHHhhHHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 026895 187 ELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 231 (231)
Q Consensus 187 ~~~~S~~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 231 (231)
+...|--+=+||.+|.....|...++|++--..++ ..|+|++.|
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 35566677789999999999999999988666666 889998753
No 28
>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=54.22 E-value=12 Score=29.01 Aligned_cols=25 Identities=24% Similarity=0.294 Sum_probs=13.3
Q ss_pred CCceeEEEEEEcCCCCcHHHHHHHH
Q 026895 87 GDHAESVQVEYDPRVINFRQLLEVF 111 (231)
Q Consensus 87 ~gHaE~V~V~yDp~~iSy~~LL~~F 111 (231)
.|.+-.-.|.|||+++|-++||+.+
T Consensus 32 NgYar~g~VifDe~kl~~e~lL~~l 56 (88)
T PF11491_consen 32 NGYARNGFVIFDESKLSKEELLEML 56 (88)
T ss_dssp -TTSS--EEE--B-S-SHHHH---H
T ss_pred cccccceEEEECcccCCHHHHHHHH
Confidence 4677778899999999999999765
No 29
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=50.99 E-value=18 Score=37.58 Aligned_cols=46 Identities=26% Similarity=0.356 Sum_probs=38.7
Q ss_pred CCcccchhhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCc-HHHHHHHH
Q 026895 50 LGSFWRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVIN-FRQLLEVF 111 (231)
Q Consensus 50 gGCFW~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~gHaE~V~V~yDp~~iS-y~~LL~~F 111 (231)
..|-|-+| .+++++||.+.++-++ +|.+.|.||+..++ .+++...-
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 36889999 9999999999999887 66888999998877 67766654
No 30
>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=49.26 E-value=11 Score=29.49 Aligned_cols=38 Identities=13% Similarity=0.215 Sum_probs=30.6
Q ss_pred HHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 026895 193 LAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 231 (231)
Q Consensus 193 ~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 231 (231)
-+=+||.+|...+.|...++|++--..++ ..|+|++.|
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 45578999999999999988888666665 889998754
No 31
>TIGR00370 conserved hypothetical protein TIGR00370.
Probab=48.79 E-value=22 Score=31.09 Aligned_cols=39 Identities=23% Similarity=0.407 Sum_probs=27.2
Q ss_pred cchhhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCcHHHHHHH
Q 026895 54 WRSEAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEV 110 (231)
Q Consensus 54 W~~Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~gHaE~V~V~yDp~~iSy~~LL~~ 110 (231)
|.+-..+++.+||++++.||. +|-|.|||..+ ..+|+..
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 344444444489999998886 78899999987 5555543
No 32
>COG3727 Vsr DNA G:T-mismatch repair endonuclease [DNA replication, recombination, and repair]
Probab=47.64 E-value=20 Score=30.19 Aligned_cols=20 Identities=25% Similarity=0.640 Sum_probs=16.1
Q ss_pred CCCCCCccEEEEcCCcccch
Q 026895 37 DELGRPLKAAVFALGSFWRS 56 (231)
Q Consensus 37 ~~~~~~~~~a~fagGCFW~~ 56 (231)
|.-....+.++|--||||.-
T Consensus 51 DiVl~~y~~viFvHGCFWh~ 70 (150)
T COG3727 51 DIVLPKYRCVIFVHGCFWHG 70 (150)
T ss_pred CEeecCceEEEEEeeeeccC
Confidence 45456778999999999983
No 33
>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=42.29 E-value=18 Score=27.85 Aligned_cols=34 Identities=18% Similarity=0.312 Sum_probs=24.9
Q ss_pred hhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 026895 197 LNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 231 (231)
Q Consensus 197 ln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 231 (231)
||.+|.....|..+++|++-=..++ +.|+|++.|
T Consensus 1 lNkf~~~L~~~~~r~~F~~D~~a~~-~~~~Lt~ee 34 (88)
T PF07746_consen 1 LNKFCWSLNDPENRERFLADPEAYL-DEYGLTEEE 34 (88)
T ss_dssp HHHHHHGGGSHHHHHHHHH-HHHHH-HCCT--HHH
T ss_pred ChHHHHHHcCHHHHHHHHHCHHHHH-HHcCCCHHH
Confidence 5888999999999988888666666 888888653
No 34
>COG3458 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=40.18 E-value=40 Score=31.78 Aligned_cols=71 Identities=21% Similarity=0.490 Sum_probs=53.1
Q ss_pred cEEEEcCCcc---cchhhhhccCCCeEEeeeeecCCCCC----------CC-------CccccCCceeEEEEEEcCCCCc
Q 026895 44 KAAVFALGSF---WRSEAVFGCLNGVVRTTVGYAGGSKT----------NP-------EFRNLGDHAESVQVEYDPRVIN 103 (231)
Q Consensus 44 ~~a~fagGCF---W~~Ea~F~~l~GV~~t~vGYaGG~~~----------nP-------tY~~v~gHaE~V~V~yDp~~iS 103 (231)
+.-|+=.||| |-.=.+..+++-|-..++|++||+.. +| .|--.|+.--+|++ +..=+
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 55556677889999999999998632 33 34444677778888 77779
Q ss_pred HHHHHHHHHhccCCc
Q 026895 104 FRQLLEVFWTSHDCR 118 (231)
Q Consensus 104 y~~LL~~Ff~~hDPR 118 (231)
|.+|- .||+.|||.
T Consensus 225 ydei~-~y~k~h~~~ 238 (321)
T COG3458 225 YDEIQ-TYFKRHDPK 238 (321)
T ss_pred HHHHH-HHHHhcCch
Confidence 99976 789999984
No 35
>COG3017 LolB Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]
Probab=39.62 E-value=30 Score=30.81 Aligned_cols=25 Identities=28% Similarity=0.301 Sum_probs=21.1
Q ss_pred CcchhhHHHHHHHHHHHHhchhccc
Q 026895 1 MVLSKRYLFFSVLHLLLLTDTALCI 25 (231)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~ 25 (231)
|+++++..++.+.++++++.+|+..
T Consensus 1 ~~~~~~~~~~l~~~As~LL~aC~~~ 25 (206)
T COG3017 1 MPMMKRLLFLLLALASLLLTACTLT 25 (206)
T ss_pred CchHHHHHHHHHHHHHHHHHhccCc
Confidence 8899999999988888888888553
No 36
>PRK13367 protocatechuate 4,5-dioxygenase; Provisional
Probab=39.33 E-value=29 Score=33.91 Aligned_cols=69 Identities=14% Similarity=0.096 Sum_probs=47.1
Q ss_pred chhHhhhhhhcCCcce--eccCCCChHHHHhhHHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 026895 162 EPEHQKFELKRNPFLI--HLMGNLPQEELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 231 (231)
Q Consensus 162 EdyHQ~Y~l~knP~~~--~~~~~~~~~~~~~S~~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 231 (231)
.+.++.|..+-++++- +.|.--..-+..+|--+=+||.||...+.|..+++|++--..++ ..|+|++.|
T Consensus 284 ~~~~~~~~~~~~~~~~~~~~ipGt~~f~~~~~~kgy~lN~f~~sl~~~~~R~~f~~d~~a~~-~~~~lt~eq 354 (420)
T PRK13367 284 VDVVERHRQHIAHQLAGVEKLPGTYPFTLERSLKAYRINRFLHRLIEPAWRERFLADPEALY-DEAGLSEEE 354 (420)
T ss_pred hHHHHHHHHHhhHhhcCcccCCCCcccCHHHHHHHHHHHHHHHHhcCHHHHHHHHhCHHHHH-HHcCCCHHH
Confidence 3566666433345422 22222222356677888899999999999999999988666666 889998754
No 37
>PF02617 ClpS: ATP-dependent Clp protease adaptor protein ClpS; InterPro: IPR003769 In the bacterial cytosol, ATP-dependent protein degradation is performed by several different chaperone-protease pairs, including ClpAP. ClpS directly influences the ClpAP machine by binding to the N-terminal domain of the chaperone ClpA. The degradation of ClpAP substrates, both SsrA-tagged proteins and ClpA itself, is specifically inhibited by ClpS. ClpS modifies ClpA substrate specificity, potentially redirecting degradation by ClpAP toward aggregated proteins []. ClpS is a small alpha/beta protein that consists of three alpha-helices connected to three antiparallel beta-strands []. The protein has a globular shape, with a curved layer of three antiparallel alpha-helices over a twisted antiparallel beta-sheet. Dimerization of ClpS may occur through its N-terminal domain. This short extended N-terminal region in ClpS is followed by the central seven-residue beta-strand, which is flanked by two other beta-strands in a small beta-sheet. ; GO: 0030163 protein catabolic process; PDB: 3O2O_B 1MBU_D 3O2B_C 2WA9_D 3O1F_A 2W9R_A 1MG9_A 1MBX_C 2WA8_C 1R6O_D ....
Probab=35.01 E-value=1.8e+02 Score=21.28 Aligned_cols=57 Identities=23% Similarity=0.391 Sum_probs=31.8
Q ss_pred EEEcCCCCcHHHHHHHHHhccCC----------------ceEEEeCChHHHHHHHHHHHHHHhhcCCCceEEEE
Q 026895 95 VEYDPRVINFRQLLEVFWTSHDC----------------RSIIFTNGTEESRLAAHSKEREQMKSKSSIVTTQI 152 (231)
Q Consensus 95 V~yDp~~iSy~~LL~~Ff~~hDP----------------RS~If~~~~eq~~~A~~~~~~~~~~~~~~~IvTeI 152 (231)
|-||.++-||+...+..-+..+. |..|+..+.++.+.....+.+.. +....|+..+|
T Consensus 10 vL~NDe~ht~~~Vi~~L~~~~~~s~~~A~~~a~~v~~~G~avv~~~~~e~ae~~~~~l~~~g-~~~~~PL~~ti 82 (82)
T PF02617_consen 10 VLWNDEVHTFEQVIDVLRRVFGCSEEQARQIAMEVHREGRAVVGTGSREEAEEYAEKLQRAG-RDSGHPLRATI 82 (82)
T ss_dssp EEE--SSSBHHHHHHHHHHHC---HHHHHHHHHHHHHHSEEEEEEEEHHHHHHHHHHHHHHH-HHTT---EEEE
T ss_pred EEEcCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHhHcCCEeeeeCCHHHHHHHHHHHHHHh-hccCCCeEEeC
Confidence 78999999999988888776554 78887776655444433333332 12234565544
No 38
>PHA03303 envelope glycoprotein L; Provisional
Probab=34.94 E-value=13 Score=31.67 Aligned_cols=18 Identities=17% Similarity=0.445 Sum_probs=14.9
Q ss_pred EEEcCCcccchhhhhccC
Q 026895 46 AVFALGSFWRSEAVFGCL 63 (231)
Q Consensus 46 a~fagGCFW~~Ea~F~~l 63 (231)
..-..||+||.+.+|+++
T Consensus 140 ~pp~~GCV~g~~~~~~~~ 157 (159)
T PHA03303 140 DIPDIGCVFGADNLFQRL 157 (159)
T ss_pred CCCCCCccccHHHHHHHh
Confidence 344789999999999875
No 39
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=33.76 E-value=14 Score=37.27 Aligned_cols=14 Identities=36% Similarity=0.491 Sum_probs=11.9
Q ss_pred EEcCCcccchhhhh
Q 026895 47 VFALGSFWRSEAVF 60 (231)
Q Consensus 47 ~fagGCFW~~Ea~F 60 (231)
-||.||=||+|.+=
T Consensus 397 ~fa~g~dwcle~lk 410 (840)
T KOG2003|consen 397 DFAAGCDWCLESLK 410 (840)
T ss_pred chhcccHHHHHHHH
Confidence 48999999999763
No 40
>PRK14624 hypothetical protein; Provisional
Probab=33.15 E-value=27 Score=28.25 Aligned_cols=32 Identities=16% Similarity=0.213 Sum_probs=21.9
Q ss_pred eeeeecCCCCCCCCccccCCceeEEEEEEcCCCCc
Q 026895 69 TTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVIN 103 (231)
Q Consensus 69 t~vGYaGG~~~nPtY~~v~gHaE~V~V~yDp~~iS 103 (231)
+..|.+||..-.-+ ++|.-|.+.|..||+.+.
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 45677765321111 358899999999999985
No 41
>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=32.70 E-value=26 Score=25.54 Aligned_cols=18 Identities=33% Similarity=0.811 Sum_probs=15.4
Q ss_pred CccEEEEcCCcccchhhh
Q 026895 42 PLKAAVFALGSFWRSEAV 59 (231)
Q Consensus 42 ~~~~a~fagGCFW~~Ea~ 59 (231)
..+..|.-||+||-+|..
T Consensus 36 PFE~cyyrgGsfwEieSa 53 (64)
T PF03622_consen 36 PFEVCYYRGGSFWEIESA 53 (64)
T ss_pred CeeEEEEecCcEEEeecc
Confidence 468899999999998873
No 42
>PF14198 TnpV: Transposon-encoded protein TnpV
Probab=30.03 E-value=25 Score=28.08 Aligned_cols=54 Identities=17% Similarity=0.262 Sum_probs=30.9
Q ss_pred hhHhhhhhhcCCcceeccCCCChHHHHhhHHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCC
Q 026895 163 PEHQKFELKRNPFLIHLMGNLPQEELEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILR 229 (231)
Q Consensus 163 dyHQ~Y~l~knP~~~~~~~~~~~~~~~~S~~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~ 229 (231)
.-|++|+.+.+|..|..+- ..-+|+.||+.+-. ...++++.=+.+++ +.+|++|
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 3588997777888766553 44566777766432 22233333333333 5677764
No 43
>COG4594 FecB ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=29.46 E-value=88 Score=29.26 Aligned_cols=165 Identities=20% Similarity=0.279 Sum_probs=87.9
Q ss_pred CcchhhHHHHHHHHHHHHhchhccccCCCCCCCcCc-CC-----CCCCccEEEEcCCcccchhhhhcc------------
Q 026895 1 MVLSKRYLFFSVLHLLLLTDTALCIRFPDRVSTSIN-DE-----LGRPLKAAVFALGSFWRSEAVFGC------------ 62 (231)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-----~~~~~~~a~fagGCFW~~Ea~F~~------------ 62 (231)
|++.+..+..+++++||+..+|++..-.......+. |+ -+...++++.=-=.|--.=+.++-
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 677777888888888888888988755553333322 33 134556665422222221112221
Q ss_pred --CCCeEEeeeeecC-CCCCCCCccccC------------Ccee--------EEEEEEcCCCCcHHHHHHHHHhccCCce
Q 026895 63 --LNGVVRTTVGYAG-GSKTNPEFRNLG------------DHAE--------SVQVEYDPRVINFRQLLEVFWTSHDCRS 119 (231)
Q Consensus 63 --l~GV~~t~vGYaG-G~~~nPtY~~v~------------gHaE--------~V~V~yDp~~iSy~~LL~~Ff~~hDPRS 119 (231)
++-|.+-.-+|.. |+...|+-|.+. -|.- +=-|.+....-+|.+=++.|-.+-+
T Consensus 81 rI~k~Vr~ki~~ytSVGTRsQPslE~Is~LKPDLIIAD~sRHk~vy~eLkKIAPTi~LkS~~~dY~eni~s~~tIak--- 157 (310)
T COG4594 81 RILKDVRDKIDPYTSVGTRSQPSLEAISALKPDLIIADSSRHKKVYKELKKIAPTIALKSRNEDYQENIDSFKTIAK--- 157 (310)
T ss_pred hhhHHHHhhcCCcccccCCCCCCHHHHhccCCCeEEecchhhHHHHHHHHhhcceeEecccCccHHHHHHHHHHHHH---
Confidence 1224444556864 788888877642 2432 1235556666677777777766532
Q ss_pred EEEeCChHHHHHHHH--HHHHHHhhc-CCC-ceEEEEeeCCCc--ccCchhHhhh
Q 026895 120 IIFTNGTEESRLAAH--SKEREQMKS-KSS-IVTTQIQQLVAF--YPAEPEHQKF 168 (231)
Q Consensus 120 ~If~~~~eq~~~A~~--~~~~~~~~~-~~~-~IvTeI~pl~~F--y~AEdyHQ~Y 168 (231)
++==..|-|+++|+. .+.+..++. .+. .+..-|...+.| ++-|-|--..
T Consensus 158 avgKekE~ekrLa~Hkk~ia~~k~~l~k~~~~~~~Gvsr~~~f~l~~~~sy~G~~ 212 (310)
T COG4594 158 AVGKEKEMEKRLAKHKKKIAEIKKKLPKGTNSLAIGVSRATQFNLHTEESYTGQL 212 (310)
T ss_pred HhCchHHHHHHHHHHHHHHHHHHHhCcCCcceeeEEecchhheeccccchHHHHH
Confidence 222245667777753 333333321 111 255566666666 4445454443
No 44
>PRK13372 pcmA protocatechuate 4,5-dioxygenase; Provisional
Probab=27.81 E-value=43 Score=33.04 Aligned_cols=43 Identities=12% Similarity=0.273 Sum_probs=34.4
Q ss_pred HHhhHHHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 026895 188 LEKSNLAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 231 (231)
Q Consensus 188 ~~~S~~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 231 (231)
...|--+=+||.||.....|..+++|++--..++ ..|+|++.|
T Consensus 18 ~~~~~kgy~lN~f~~sl~~~~~R~~f~~d~~ay~-~~~~lt~eq 60 (444)
T PRK13372 18 ADQARKGYNLNQFCMSLMKADNRARFKADEGAYL-DEWALNEAQ 60 (444)
T ss_pred HHHHHHhhHHHHHHHHhcCHHHHHHHhhCHHHHH-HHcCCCHHH
Confidence 3455566778999999999999999988766676 889998754
No 45
>KOG4309 consensus Transcription mediator-related factor [Transcription]
Probab=25.86 E-value=66 Score=28.36 Aligned_cols=27 Identities=41% Similarity=0.561 Sum_probs=20.1
Q ss_pred eEEEEEEcCCCCcH------HHHHHHHHhccCC
Q 026895 91 ESVQVEYDPRVINF------RQLLEVFWTSHDC 117 (231)
Q Consensus 91 E~V~V~yDp~~iSy------~~LL~~Ff~~hDP 117 (231)
=+|+|+|||.+|-- .+.|+-||-.|-|
T Consensus 140 i~vEIEY~pcvI~~~Cw~M~~Eflqsflg~~~p 172 (217)
T KOG4309|consen 140 ISVEIEYGPCVIASDCWSMLLEFLQSFLGSHTP 172 (217)
T ss_pred EEEEEeeCCEEEhHHHHHHHHHHHHHHhcccCC
Confidence 46899999998753 4666677777666
No 46
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=25.51 E-value=75 Score=34.20 Aligned_cols=53 Identities=21% Similarity=0.213 Sum_probs=41.0
Q ss_pred EEEEcCCcccch---hhhhccCCCeEEeeeeecCCCCCCCCccccCCceeEEEEEEcCCCCcHHHHHHHHH
Q 026895 45 AAVFALGSFWRS---EAVFGCLNGVVRTTVGYAGGSKTNPEFRNLGDHAESVQVEYDPRVINFRQLLEVFW 112 (231)
Q Consensus 45 ~a~fagGCFW~~---Ea~F~~l~GV~~t~vGYaGG~~~nPtY~~v~gHaE~V~V~yDp~~iSy~~LL~~Ff 112 (231)
--+-|++|-=|+ |...+.+.||.+..+--..+ .-+|.|||+++|.+.+++.+=
T Consensus 73 l~v~GmtC~scv~~i~~~l~~~~gv~~~~val~~~---------------~~~v~~dp~v~s~~~~~e~ie 128 (951)
T KOG0207|consen 73 LSVNGMTCASCVATIERNLRKIEGVESAVVALSAS---------------KAEVIYDPAVTSPDSIAESIE 128 (951)
T ss_pred EEecCceeHHHHHHHHHHhhccCCcceEEEEeecc---------------ceeEEECCcccCchhHHHHHH
Confidence 345689999998 45567778998887766543 445899999999999998763
No 47
>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=25.37 E-value=23 Score=17.94 Aligned_cols=6 Identities=33% Similarity=1.171 Sum_probs=4.3
Q ss_pred CCcccc
Q 026895 50 LGSFWR 55 (231)
Q Consensus 50 gGCFW~ 55 (231)
.-|||-
T Consensus 4 ~~CFWK 9 (12)
T PF02083_consen 4 SECFWK 9 (12)
T ss_pred cchhhh
Confidence 359994
No 48
>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=23.03 E-value=40 Score=27.83 Aligned_cols=27 Identities=30% Similarity=0.560 Sum_probs=20.8
Q ss_pred eeEEEEEEcCCCCcH-----HHHHHHHHhccC
Q 026895 90 AESVQVEYDPRVINF-----RQLLEVFWTSHD 116 (231)
Q Consensus 90 aE~V~V~yDp~~iSy-----~~LL~~Ff~~hD 116 (231)
+...+|.|||+.-+= +++++.||.+.|
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 567899999987655 779999999876
No 49
>PF11691 DUF3288: Protein of unknown function (DUF3288); InterPro: IPR021705 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=21.23 E-value=51 Score=25.73 Aligned_cols=34 Identities=21% Similarity=0.349 Sum_probs=22.9
Q ss_pred HHHHhhhhhhhcCChhHHHHHHHHHHHHHhcCCCCCCCC
Q 026895 193 LAAKLNSYAAELCPPRIQKQIDAKIKDIIRKGWPILRDE 231 (231)
Q Consensus 193 ~Aarln~y~~~~~~pk~~k~l~~~~~~~~~~~~~~~~~~ 231 (231)
+|..++.|-..=++- .+++-+..+| ..|+|+++|
T Consensus 31 LARL~iRY~gFPGA~----diq~DL~kiL-~~W~lteee 64 (90)
T PF11691_consen 31 LARLRIRYQGFPGAR----DIQKDLDKIL-QKWGLTEEE 64 (90)
T ss_pred HHHHHHHhcCCCCHH----HHHHHHHHHH-HHcCCCHHH
Confidence 666668887665543 4555555565 899999875
No 50
>PF09716 ETRAMP: Malarial early transcribed membrane protein (ETRAMP); InterPro: IPR006389 These sequences represent a family of proteins from the malaria parasite Plasmodium falciparum, several of which have been shown to be expressed specifically in the ring stage as well as the rodent parasite Plasmodium yoelii []. A homologue from Plasmodium chabaudi was localized to the parasitophorous vacuole membrane []. Members have an initial hydrophobic, Phe/Tyr-rich stretch long enough to span the membrane, a highly charged region rich in Lys, a second putative transmembrane region, and a second highly charged, low complexity sequence region. Some members have up to 100 residues of additional C-terminal sequence. These genes have been shown to be found in the sub-telomeric regions of both Plasmodium falciparum and P. yoelii chromosomes.
Probab=20.73 E-value=88 Score=23.64 Aligned_cols=25 Identities=36% Similarity=0.611 Sum_probs=18.7
Q ss_pred CcchhhHHHHHHHHHHHHhchhccc
Q 026895 1 MVLSKRYLFFSVLHLLLLTDTALCI 25 (231)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~ 25 (231)
|.+++-+.||++++++-++..|.+.
T Consensus 1 MKi~kv~~ff~~Ll~i~~l~p~~~~ 25 (84)
T PF09716_consen 1 MKISKVFYFFAFLLAINLLTPCLCN 25 (84)
T ss_pred CcHHHHHHHHHHHHHHHhCcCcccc
Confidence 8999998888888876556555443
Done!