Query 044080
Match_columns 419
No_of_seqs 164 out of 466
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 11:14:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044080.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044080hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03159 cation/H(+) antiporte 100.0 1.7E-91 3.7E-96 771.6 34.4 374 1-396 420-799 (832)
2 KOG1650 Predicted K+/H+-antipo 100.0 4E-69 8.7E-74 587.3 24.1 354 1-394 405-767 (769)
3 PRK11175 universal stress prot 99.3 8.8E-10 1.9E-14 108.5 22.0 283 49-391 5-300 (305)
4 cd01988 Na_H_Antiporter_C The 99.2 9.7E-10 2.1E-14 94.0 14.4 131 49-204 1-131 (132)
5 cd01989 STK_N The N-terminal d 98.2 6.7E-05 1.4E-09 65.6 14.5 139 49-208 1-146 (146)
6 PF00582 Usp: Universal stress 98.2 4.4E-05 9.6E-10 64.3 12.8 132 49-204 4-139 (140)
7 cd01988 Na_H_Antiporter_C The 98.1 0.0001 2.3E-09 62.6 14.1 128 225-390 1-132 (132)
8 cd00293 USP_Like Usp: Universa 98.1 0.00011 2.3E-09 61.4 13.2 129 49-203 1-129 (130)
9 cd01987 USP_OKCHK USP domain i 98.0 0.00011 2.4E-09 62.4 11.2 122 49-204 1-123 (124)
10 PF00582 Usp: Universal stress 97.9 9.4E-05 2E-09 62.3 10.1 132 224-389 3-139 (140)
11 cd01989 STK_N The N-terminal d 97.9 0.00028 6.1E-09 61.6 12.3 139 225-391 1-145 (146)
12 PRK15005 universal stress prot 97.8 0.00025 5.3E-09 61.7 10.8 134 49-203 4-142 (144)
13 PRK15456 universal stress prot 97.7 0.00055 1.2E-08 59.8 12.2 135 49-203 4-140 (142)
14 cd01987 USP_OKCHK USP domain i 97.7 0.00044 9.4E-09 58.7 10.4 122 225-389 1-123 (124)
15 PRK15118 universal stress glob 97.7 0.00048 1E-08 60.2 10.8 133 49-204 5-137 (144)
16 PRK10116 universal stress prot 97.6 0.00077 1.7E-08 58.5 11.1 40 223-262 3-42 (142)
17 PRK09982 universal stress prot 97.5 0.0007 1.5E-08 59.5 10.0 132 49-204 5-137 (142)
18 PRK09982 universal stress prot 97.5 0.0012 2.7E-08 57.9 11.5 39 224-262 4-42 (142)
19 PRK10116 universal stress prot 97.5 0.0017 3.7E-08 56.3 11.9 134 48-204 4-137 (142)
20 PRK15005 universal stress prot 97.4 0.0042 9.2E-08 53.9 13.3 138 224-390 3-144 (144)
21 PRK11175 universal stress prot 97.3 0.0025 5.4E-08 62.7 12.4 145 48-210 153-304 (305)
22 cd00293 USP_Like Usp: Universa 97.3 0.0049 1.1E-07 51.2 11.9 127 225-389 1-130 (130)
23 PRK15118 universal stress glob 97.2 0.0041 8.9E-08 54.2 10.3 38 223-260 3-40 (144)
24 PRK15456 universal stress prot 97.1 0.016 3.4E-07 50.5 13.3 136 224-390 3-142 (142)
25 PRK12652 putative monovalent c 95.8 0.084 1.8E-06 54.0 11.2 40 223-262 5-46 (357)
26 COG0589 UspA Universal stress 95.4 0.35 7.6E-06 41.4 12.3 143 48-204 6-150 (154)
27 PRK12652 putative monovalent c 95.4 0.33 7.2E-06 49.7 13.7 129 48-201 6-146 (357)
28 COG0589 UspA Universal stress 89.8 7.2 0.00016 33.1 11.9 143 223-391 5-152 (154)
29 PRK10490 sensor protein KdpD; 88.4 5.1 0.00011 46.0 12.5 123 46-204 249-372 (895)
30 TIGR00930 2a30 K-Cl cotranspor 83.1 1E+02 0.0022 36.0 20.0 132 47-210 575-711 (953)
31 PRK03359 putative electron tra 83.0 5.5 0.00012 39.0 8.1 109 228-374 30-149 (256)
32 KOG2310 DNA repair exonuclease 78.9 3.1 6.7E-05 44.5 5.0 157 149-349 42-221 (646)
33 PRK10490 sensor protein KdpD; 75.1 31 0.00068 39.7 12.3 123 223-389 250-372 (895)
34 PRK12342 hypothetical protein; 73.3 14 0.0003 36.1 7.6 31 228-259 29-59 (254)
35 TIGR02432 lysidine_TilS_N tRNA 64.1 7.8 0.00017 35.2 3.6 36 225-260 1-36 (189)
36 cd01984 AANH_like Adenine nucl 60.0 11 0.00024 29.5 3.4 33 226-259 1-33 (86)
37 COG2086 FixA Electron transfer 59.0 59 0.0013 31.9 8.8 110 228-376 31-150 (260)
38 PF01171 ATP_bind_3: PP-loop f 57.2 16 0.00034 33.3 4.4 37 225-261 1-37 (182)
39 PF02601 Exonuc_VII_L: Exonucl 55.2 22 0.00047 35.5 5.3 48 303-350 29-86 (319)
40 PF03686 UPF0146: Uncharacteri 52.1 24 0.00052 30.8 4.4 36 135-170 71-106 (127)
41 COG3969 Predicted phosphoadeno 51.0 19 0.00042 36.7 4.0 37 224-260 28-65 (407)
42 KOG0573 Asparagine synthase [A 49.1 1.1E+02 0.0024 32.5 9.2 76 224-325 251-328 (520)
43 COG2205 KdpD Osmosensitive K+ 47.7 1.5E+02 0.0033 33.8 10.6 120 223-382 248-367 (890)
44 COG2205 KdpD Osmosensitive K+ 46.9 1.9E+02 0.0041 33.1 11.2 123 47-203 248-371 (890)
45 PF03652 UPF0081: Uncharacteri 46.2 61 0.0013 28.4 6.1 61 145-210 37-98 (135)
46 cd01993 Alpha_ANH_like_II This 45.4 33 0.0007 30.7 4.4 36 225-260 1-38 (185)
47 cd01992 PP-ATPase N-terminal d 45.1 26 0.00056 31.5 3.7 36 225-260 1-36 (185)
48 PRK04148 hypothetical protein; 42.3 31 0.00067 30.4 3.6 35 136-170 79-113 (134)
49 PRK05253 sulfate adenylyltrans 41.4 30 0.00064 34.7 3.7 36 225-260 29-64 (301)
50 PF01507 PAPS_reduct: Phosphoa 37.6 42 0.00091 29.5 3.8 31 225-259 1-31 (174)
51 COG0037 MesJ tRNA(Ile)-lysidin 37.3 48 0.001 32.3 4.5 35 224-260 22-56 (298)
52 PRK08706 lipid A biosynthesis 37.2 89 0.0019 30.6 6.4 63 185-261 165-227 (289)
53 cd01713 PAPS_reductase This do 36.0 43 0.00093 29.0 3.6 34 225-259 1-34 (173)
54 TIGR02039 CysD sulfate adenyly 35.2 42 0.00091 33.5 3.7 36 225-260 21-56 (294)
55 cd01984 AANH_like Adenine nucl 34.3 55 0.0012 25.4 3.6 48 146-201 35-83 (86)
56 COG1570 XseA Exonuclease VII, 33.6 76 0.0017 33.5 5.4 46 304-349 151-203 (440)
57 PRK00286 xseA exodeoxyribonucl 32.4 77 0.0017 33.1 5.4 47 304-350 151-203 (438)
58 PRK12563 sulfate adenylyltrans 29.5 55 0.0012 33.0 3.4 35 225-259 39-73 (312)
59 PRK00109 Holliday junction res 29.2 95 0.002 27.3 4.6 59 147-210 42-100 (138)
60 TIGR02208 lipid_A_msbB lipid A 27.7 1.2E+02 0.0026 30.0 5.6 51 197-260 191-241 (305)
61 cd01712 ThiI ThiI is required 26.9 95 0.002 27.9 4.3 33 225-261 1-33 (177)
62 PLN03015 UDP-glucosyl transfer 26.9 79 0.0017 33.7 4.3 37 223-259 4-40 (470)
63 TIGR00237 xseA exodeoxyribonuc 25.7 1.2E+02 0.0027 31.8 5.5 46 304-349 145-197 (432)
64 COG1560 HtrB Lauroyl/myristoyl 24.4 66 0.0014 32.3 3.0 63 184-261 182-244 (308)
65 PRK08943 lipid A biosynthesis 24.4 1.4E+02 0.0031 29.6 5.4 51 197-260 200-250 (314)
66 PRK10660 tilS tRNA(Ile)-lysidi 23.3 1.2E+02 0.0025 32.0 4.7 38 223-260 15-53 (436)
67 PRK05646 lipid A biosynthesis 22.5 1.6E+02 0.0035 29.2 5.3 60 186-260 183-242 (310)
68 COG2117 Predicted subunit of t 22.2 1.5E+02 0.0033 27.3 4.5 33 225-259 2-34 (198)
69 PRK00536 speE spermidine synth 22.1 3.1E+02 0.0067 26.9 7.1 30 223-259 73-102 (262)
70 TIGR02207 lipid_A_htrB lipid A 22.0 1.8E+02 0.0039 28.6 5.6 52 197-260 187-238 (303)
71 cd01996 Alpha_ANH_like_III Thi 21.0 1.4E+02 0.0031 25.8 4.2 24 224-247 2-25 (154)
72 PRK08733 lipid A biosynthesis 20.9 1.8E+02 0.0039 28.8 5.3 50 197-259 193-242 (306)
73 PF15583 Imm41: Immunity prote 20.7 63 0.0014 29.3 1.8 30 229-260 9-38 (158)
74 PLN02555 limonoid glucosyltran 20.5 1.4E+02 0.0029 32.0 4.6 37 222-259 7-43 (480)
75 TIGR00342 thiazole biosynthesi 20.4 1.9E+02 0.004 29.7 5.4 35 223-261 172-206 (371)
76 COG4451 RbcS Ribulose bisphosp 20.1 1.4E+02 0.0031 25.9 3.7 38 223-260 53-91 (127)
No 1
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=100.00 E-value=1.7e-91 Score=771.62 Aligned_cols=374 Identities=42% Similarity=0.641 Sum_probs=319.7
Q ss_pred CeEEeeechHHHHhhccCCCcccccccccccccccccccccCCCCCceEEEEEecCCCCHHHHHHHHHHhcCCC-CCcEE
Q 044080 1 MALFTTFITTPTVMAIYKPAREGTSAVTHRKLRDLSATREAAGSKDVFRILACFHGPGNVSSLISLVEATRSTQ-KQLKL 79 (419)
Q Consensus 1 MaLvtTfittPlv~~lY~p~~r~~~~~~rr~i~~~~~~~~~~~~~~elRILvcv~~~~~v~~ll~Lle~~~~t~-~p~~V 79 (419)
|++++|++++|++.++|+|+||+ ..||||++|+ .+++.|+|||+|+|+++|+++|++|++++++++ +|++|
T Consensus 420 ~avl~T~i~~Plv~~ly~p~rk~-~~~~~r~i~~-------~~~~~elriL~cv~~~~~v~~li~Lle~s~~t~~sp~~v 491 (832)
T PLN03159 420 VAVAMTALITPVVTVVYRPARRL-VGYKRRTIQR-------SKHDAELRMLVCVHTPRNVPTIINLLEASHPTKRSPICI 491 (832)
T ss_pred HHHHHHHHHHHHHHHHhCHHhhh-cccccccccc-------CCCCCceeEEEEeccCCcHHHHHHHHHhcCCCCCCCceE
Confidence 35678999999999999999999 8999999999 688999999999999999999999999999998 99999
Q ss_pred EEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHHhhhc-CceEEEEEEEEccCCChHHHHHHHHHhc
Q 044080 80 FIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQAYSQL-GRVSVRPTTAISALSTMDQDICHVAENK 158 (419)
Q Consensus 80 ~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~f~~~-~~V~V~~~t~Vsp~~sm~~dIc~~A~~k 158 (419)
|+||||||++|++|++++|+.+++..+..++. ..++|+|++||+.|++. +.|+|+++|+|||+++||+|||++|+|+
T Consensus 492 y~lhLveL~~r~~~~l~~h~~~~~~~~~~~~~--~~~~~~i~~af~~~~~~~~~v~v~~~t~vs~~~~mh~dIc~~A~d~ 569 (832)
T PLN03159 492 YVLHLVELTGRASAMLIVHNTRKSGRPALNRT--QAQSDHIINAFENYEQHAGCVSVQPLTAISPYSTMHEDVCNLAEDK 569 (832)
T ss_pred EEEEEEeecCCCccceeeeecccccccccccc--cccccHHHHHHHHHHhhcCceEEEEEEEEeCcccHHHHHHHHHHhc
Confidence 99999999999999999998765433222221 25589999999999976 5899999999999999999999999999
Q ss_pred CccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEEEEcCCCCCCCCCCCCCccccceEEEEecCCcChHH
Q 044080 159 RVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGVLVDRGFGSGSPTPGPTATVAQRICIIFFGGPDDRE 238 (419)
Q Consensus 159 ~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGIlVDRG~~~~~~~~~~~~~~~~~I~v~F~GG~DDRe 238 (419)
+++|||+||||+|+ .||++++.+..+|.+|++||++||||||||||||+++..+..... ..++|+++|+|||||||
T Consensus 570 ~~slIilpfhk~~~--~dg~~~~~~~~~r~~n~~VL~~ApCsVgIlVDRg~~~~~~~~~~~--~~~~v~~~F~GG~DDRE 645 (832)
T PLN03159 570 RVSLIIIPFHKQQT--VDGGMEATNPAFRGVNQNVLANAPCSVGILVDRGLSGATRLASNQ--VSHHVAVLFFGGPDDRE 645 (832)
T ss_pred CCCEEEECCCCccC--CCCCccccCchHHHHHHHHHccCCCCEEEEEeCCCCccccccccc--cceeEEEEecCCcchHH
Confidence 99999999999999 899999888999999999999999999999999987543322222 57899999999999999
Q ss_pred HHHHHHHHhcCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhhHHHHHHHHHhc--CCCc
Q 044080 239 ALELGGMMAEHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREELDETILAEFRSK--WNGV 316 (419)
Q Consensus 239 AL~la~rma~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~i~ef~~~--~~~~ 316 (419)
||+||+|||+||+|++||+||+..+........ .....+.+. .....+..+.|+++|+++++|||.+ .+++
T Consensus 646 ALa~a~rma~~p~v~lTVirf~~~~~~~~~~~~--~~~~~~~~~-----~~~~~~~~~~e~~~D~~~~~ef~~~~~~~~~ 718 (832)
T PLN03159 646 ALAYAWRMSEHPGITLTVMRFIPGEDAAPTASQ--PASSPSDPR-----IPTVETDGKKERQLDEEYINEFRARNAGNES 718 (832)
T ss_pred HHHHHHHHhcCCCeEEEEEEEEccccccccccc--ccccccccc-----cccccccchhHHHHHHHHHHHHHHhcCCCCc
Confidence 999999999999999999999965432211000 000000000 0000011245788999999999998 5789
Q ss_pred eEEEEEEcCChHHHHHHhhhcCC-CcEEEEccCCC-CchhhcccccccCCCCccccchhhhhcCCCCceecEEEEeeecC
Q 044080 317 ADYTEKVTSSIVEGVLTLGRSGD-YDLIIVGKGRF-PSKMIAKLADRQAEHAELGPIGDILASSGQGVVSSVLVVQQHDM 394 (419)
Q Consensus 317 V~y~e~~v~~~~e~~~~i~~~~~-~dLviVGR~~~-~s~~~~gl~~~w~e~~eLG~iGd~Las~d~~~~aSvLVvQq~~~ 394 (419)
|.|+|+.|+|+.|++.+||+|.+ |||+||||+|+ ++++++||++ |+||||||+|||+|||+||.+++||||||||..
T Consensus 719 v~y~E~~V~~~~e~~~~l~~~~~~ydL~iVGr~~~~~~~~~~gL~~-w~e~pELG~iGD~LaS~d~~~~~SVLVvQQ~~~ 797 (832)
T PLN03159 719 IVYTEKVVSNGEETVAAIRSMDSAHDLFIVGRGQGMISPLTAGLTD-WSECPELGAIGDLLASSDFAATVSVLVVQQYVG 797 (832)
T ss_pred eEEEEEecCCHHHHHHHHHHhhccCcEEEEecCCCCCcchhccccc-cccCCccchhhhHHhcCCCCCceeEEEEEeecc
Confidence 99999999999999999999986 99999999984 5899999999 999999999999999999999999999999985
Q ss_pred CC
Q 044080 395 AH 396 (419)
Q Consensus 395 ~~ 396 (419)
..
T Consensus 798 ~~ 799 (832)
T PLN03159 798 TG 799 (832)
T ss_pred CC
Confidence 43
No 2
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=100.00 E-value=4e-69 Score=587.30 Aligned_cols=354 Identities=40% Similarity=0.616 Sum_probs=308.1
Q ss_pred CeEEeeechHHHHhhccCCCcccccccccccccccccccccCCCCCceEEEEEecCCCCHHHHHHHHHHhcCCC-CCcEE
Q 044080 1 MALFTTFITTPTVMAIYKPAREGTSAVTHRKLRDLSATREAAGSKDVFRILACFHGPGNVSSLISLVEATRSTQ-KQLKL 79 (419)
Q Consensus 1 MaLvtTfittPlv~~lY~p~~r~~~~~~rr~i~~~~~~~~~~~~~~elRILvcv~~~~~v~~ll~Lle~~~~t~-~p~~V 79 (419)
||+++|++|+|++..+|||.+++ ..|++|++++ .++++++|||+|+|+++++++++++++++.++. +|+.+
T Consensus 405 ~alv~t~I~~~~l~~~y~p~~~~-~~y~~~~i~~-------~~~~~~Lril~cl~~~~~is~~i~~le~~~~~~~~p~~v 476 (769)
T KOG1650|consen 405 MALVSTFITPPLLMFLYDPTRKY-HGYKKRGIQH-------LKPNSELRILTCLHGPENISGIINLLELSSGSLESPLSV 476 (769)
T ss_pred HHHHHHhhHHHHHHHhcchhhhc-CceEeehhhh-------cCCCCceEEEEEecCCCcchHHHHHHHHcCCCCCCCcce
Confidence 67899999999999999999999 8899999999 688999999999999999999999999999887 79999
Q ss_pred EEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHHhhhc--CceEEEEEEEEccCCChHHHHHHHHHh
Q 044080 80 FIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQAYSQL--GRVSVRPTTAISALSTMDQDICHVAEN 157 (419)
Q Consensus 80 ~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~f~~~--~~V~V~~~t~Vsp~~sm~~dIc~~A~~ 157 (419)
|++|||||++|+.|++++|+.++++.. +. . ...++++.++|+.|++. .+|.++++|+++|+.+||+|||.+|.+
T Consensus 477 ~~lhlveL~~~~~~~li~h~~~~~~~~--~~-~-s~~~~~i~~aF~~f~~~~~~~v~v~~~Ta~s~~~~m~edic~la~~ 552 (769)
T KOG1650|consen 477 YALHLVELVGRATPLLISHKLRKNGRV--ES-R-SSSSDQINVAFEAFEKLSQEGVMVRTFTALSPEKLMHEDICTLALD 552 (769)
T ss_pred eeeeeeecccccchhhhhhhhcccccc--cc-c-cccchhhHHHHHHHHHhcCCcEEEEeehhhCChhhchhhhhHHHHh
Confidence 999999999999999999987665321 11 0 24567999999999984 579999999999999999999999999
Q ss_pred cCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEEEEcCCCCCCCCCCCCCccccceEEEEecCCcChH
Q 044080 158 KRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGVLVDRGFGSGSPTPGPTATVAQRICIIFFGGPDDR 237 (419)
Q Consensus 158 k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGIlVDRG~~~~~~~~~~~~~~~~~I~v~F~GG~DDR 237 (419)
++++||++||||+|+ .+|..++.+..+|.+|++|+++|||||||||||| .......... ...++|+++|+||+|||
T Consensus 553 ~~~~liilpfhk~~~--~~~~~e~~~~~~r~in~~vl~~aPCSVgIlvdRg-~~~~~~~~~~-~~~~~v~~lF~GG~DDr 628 (769)
T KOG1650|consen 553 KGVSLIILPFHKHWS--DGGTLESDDPAIRELNRNVLKNAPCSVGILVDRG-LRRSGVTQKR-GSSYKVVVLFLGGKDDR 628 (769)
T ss_pred hCCcEEEeehhhhcc--CCCceecCcHHHHHHHHHHHhcCCCeEEEEEecC-cccccceecc-cceeEEEEEecCChhhH
Confidence 999999999999999 7778999999999999999999999999999998 2111111111 15789999999999999
Q ss_pred HHHHHHHHHhcCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhhHHHHHHHH-Hhc--CC
Q 044080 238 EALELGGMMAEHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREELDETILAEF-RSK--WN 314 (419)
Q Consensus 238 eAL~la~rma~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~i~ef-~~~--~~ 314 (419)
|||+|+.||++||.+++||+||+..+...... . ..+.++.+|++....| +.. .+
T Consensus 629 EALa~~~rm~~~~~v~lTVirf~~~~~~~~~~---------~--------------~~~~~~~l~~~~~~~~~~~~~~~~ 685 (769)
T KOG1650|consen 629 EALALAKRMAENPRVTLTVIRFFPDESKYNRK---------V--------------LVEVGKMLDQEGLEDFVKSTRESN 685 (769)
T ss_pred HHHHHHHHHhhCCceEEEEEEeeccchhhccc---------c--------------cchhhhhhhhhHHHHHHHHhhhch
Confidence 99999999999999999999999765432210 0 0124567777777777 543 45
Q ss_pred CceEEE-EEEcCChHHHHHHhhhcCC-CcEEEEccCC-CCchhhcccccccCCCCccccchhhhhcCCCCceecEEEEee
Q 044080 315 GVADYT-EKVTSSIVEGVLTLGRSGD-YDLIIVGKGR-FPSKMIAKLADRQAEHAELGPIGDILASSGQGVVSSVLVVQQ 391 (419)
Q Consensus 315 ~~V~y~-e~~v~~~~e~~~~i~~~~~-~dLviVGR~~-~~s~~~~gl~~~w~e~~eLG~iGd~Las~d~~~~aSvLVvQq 391 (419)
..+.|. |+.|.++.|+.++++++.+ |||++|||++ ..++.+.|+++ |+||||||+|||.|+|+||..++||||+||
T Consensus 686 ~~i~~~~ek~v~~~~et~~~~~~~~~~ydL~ivGr~~~~~~~~t~gl~~-W~e~pELg~IGd~las~~~~~~~svlvvqq 764 (769)
T KOG1650|consen 686 LDIIYAEEKIVLNGAETTALLRSITEDYDLFIVGRSHGMLSEATGGLSE-WSECPELGVIGDLLASSDFSSKVSVLVVQQ 764 (769)
T ss_pred hhhhhhhHHHHhcchhHHHHHHHhccccceEEEecccccccchhcCchh-cccCccccccCccccccccCccceEEEEEe
Confidence 578888 6999999999999999976 9999999999 48899999999 999999999999999999999999999999
Q ss_pred ecC
Q 044080 392 HDM 394 (419)
Q Consensus 392 ~~~ 394 (419)
|..
T Consensus 765 ~~~ 767 (769)
T KOG1650|consen 765 QLY 767 (769)
T ss_pred eec
Confidence 975
No 3
>PRK11175 universal stress protein UspE; Provisional
Probab=99.26 E-value=8.8e-10 Score=108.54 Aligned_cols=283 Identities=10% Similarity=0.059 Sum_probs=154.2
Q ss_pred EEEEEecCCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHH-HHHHHHHh
Q 044080 49 RILACFHGPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDR-VAGAFQAY 127 (419)
Q Consensus 49 RILvcv~~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~-I~~af~~f 127 (419)
|||+|+...+.....+..+-.++.. ...++++||.++-.....+.+........ . .... ...... +-++.+.+
T Consensus 5 ~ILv~~D~s~~~~~al~~a~~lA~~-~~a~l~ll~v~~~~~~~~~~~~~~~~~~~-~--~~~~--~~~~~~~l~~~~~~~ 78 (305)
T PRK11175 5 NILVVIDPNQDDQPALRRAVYLAQR-NGGKITAFLPIYDFSYEMTTLLSPDEREA-M--RQGV--ISQRTAWIREQAKPY 78 (305)
T ss_pred eEEEEcCCCccccHHHHHHHHHHHh-cCCCEEEEEeccCchhhhhcccchhHHHH-H--HHHH--HHHHHHHHHHHHHHH
Confidence 6999999988888777766555433 34578888876432211111100000000 0 0000 001111 12222222
Q ss_pred hhcCceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEEEEcC
Q 044080 128 SQLGRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGVLVDR 207 (419)
Q Consensus 128 ~~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGIlVDR 207 (419)
. ..++.+...+.. ..+.++.|++.|++.++||||+++|.... ..+ ..+.....+|++++||+|-|. ..
T Consensus 79 ~-~~~~~~~~~v~~--~g~~~~~i~~~a~~~~~DLiV~G~~~~~~--~~~------~~~gs~~~~l~~~~~~pvlvv-~~ 146 (305)
T PRK11175 79 L-DAGIPIEIKVVW--HNRPFEAIIQEVIAGGHDLVVKMTHQHDK--LES------VIFTPTDWHLLRKCPCPVLMV-KD 146 (305)
T ss_pred h-hcCCceEEEEec--CCCcHHHHHHHHHhcCCCEEEEeCCCCcH--HHh------hccChhHHHHHhcCCCCEEEe-cc
Confidence 2 245666664443 35778999999999999999999986533 111 123344668999999999554 43
Q ss_pred CCCCCCCCCCCCccccceEEEEecCCcCh-------HHHHHHHHHHhcCC-CeEEEEEEeeeCCCCccCCcccCCCCCCC
Q 044080 208 GFGSGSPTPGPTATVAQRICIIFFGGPDD-------REALELGGMMAEHP-AVKLTVIKFVEKEGLESDGVMLRPSPSRS 279 (419)
Q Consensus 208 G~~~~~~~~~~~~~~~~~I~v~F~GG~DD-------ReAL~la~rma~~~-~v~lTVvr~~~~~~~~~~~~~~~~~~~~~ 279 (419)
+... ...+|+++.=|++.. ..||.+|.+||+.- +..++++++.......... . ...
T Consensus 147 ~~~~----------~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~~~~a~l~ll~v~~~~~~~~~~-~-----~~~ 210 (305)
T PRK11175 147 QDWP----------EGGKILVAVNVASEEPYHDALNEKLVEEAIDLAEQLNHAEVHLVNAYPVTPINIAI-E-----LPE 210 (305)
T ss_pred cccC----------CCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHhhCcCCceEEEEEecCcchhccc-c-----ccc
Confidence 2110 235799998776542 67999999999886 9999999987532211000 0 000
Q ss_pred CCcccccccccccccchhhhhhH---HHHHHHHHhcCCCceEEEEEEcCChHHHH-HHhhhcCCCcEEEEccCCCCchhh
Q 044080 280 GFNRKWSRLRFGFHLKCLREELD---ETILAEFRSKWNGVADYTEKVTSSIVEGV-LTLGRSGDYDLIIVGKGRFPSKMI 355 (419)
Q Consensus 280 ~~~~~~~~~~~~~~~~~~~~~~D---~~~i~ef~~~~~~~V~y~e~~v~~~~e~~-~~i~~~~~~dLviVGR~~~~s~~~ 355 (419)
....+...... .+.++++....+-..........++.+.+ ...++ .+.||+|+|-++. +
T Consensus 211 ------------~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~-~~~DLIVmG~~~~-~--- 273 (305)
T PRK11175 211 ------------FDPSVYNDAIRGQHLLAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEH-LDAELVILGTVGR-T--- 273 (305)
T ss_pred ------------cchhhHHHHHHHHHHHHHHHHHHHhCCChhheeeccCCHHHHHHHHHHH-hCCCEEEECCCcc-C---
Confidence 00000011111 12344444331111111112223444433 33332 4589999998751 1
Q ss_pred cccccccCCCCccccchhhhhcCCCCceecEEEEee
Q 044080 356 AKLADRQAEHAELGPIGDILASSGQGVVSSVLVVQQ 391 (419)
Q Consensus 356 ~gl~~~w~e~~eLG~iGd~Las~d~~~~aSvLVvQq 391 (419)
+ | ..-=+|-.++-++.. ...+||||..
T Consensus 274 -~----~-~~~llGS~a~~v~~~---~~~pVLvv~~ 300 (305)
T PRK11175 274 -G----L-SAAFLGNTAEHVIDH---LNCDLLAIKP 300 (305)
T ss_pred -C----C-cceeecchHHHHHhc---CCCCEEEEcC
Confidence 1 2 234488888888866 6789999963
No 4
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=99.16 E-value=9.7e-10 Score=94.01 Aligned_cols=131 Identities=21% Similarity=0.315 Sum_probs=98.3
Q ss_pred EEEEEecCCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHHhh
Q 044080 49 RILACFHGPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQAYS 128 (419)
Q Consensus 49 RILvcv~~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~f~ 128 (419)
|||+|+.+.++...++..+..++.. .+..++++|+++......... .+. . .....+.++.+..+.
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~-~~~~v~ll~v~~~~~~~~~~~--~~~-~-----------~~~~~~~~~~~~~~~ 65 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARA-QNGEIIPLNVIEVPNHSSPSQ--LEV-N-----------VQRARKLLRQAERIA 65 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhc-CCCeEEEEEEEecCCCCCcch--hHH-H-----------HHHHHHHHHHHHHHh
Confidence 6999999999999999999998865 467999999999876543311 000 0 033556666666665
Q ss_pred hcCceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEEE
Q 044080 129 QLGRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGVL 204 (419)
Q Consensus 129 ~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGIl 204 (419)
...++.++..+..+ .+..++||+.|++.++|||++|+++.+. .. ...+.....+|++++||+|.|+
T Consensus 66 ~~~g~~~~~~~~~~--~~~~~~I~~~a~~~~~dlIV~G~~~~~~--~~------~~~lGs~~~~v~~~~~~pvlvv 131 (132)
T cd01988 66 ASLGVPVHTIIRID--HDIASGILRTAKERQADLIIMGWHGSTS--LR------DRLFGGVIDQVLESAPCDVAVV 131 (132)
T ss_pred hhcCCceEEEEEec--CCHHHHHHHHHHhcCCCEEEEecCCCCC--cc------ceecCchHHHHHhcCCCCEEEe
Confidence 55677888777665 3688999999999999999999997765 21 1234556889999999999874
No 5
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=98.17 E-value=6.7e-05 Score=65.59 Aligned_cols=139 Identities=12% Similarity=0.166 Sum_probs=84.4
Q ss_pred EEEEEecCCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhh----HHHHhhhCCCCccccccCCcchHHHHHHH
Q 044080 49 RILACFHGPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSII----MVQRARKNGLPFINRFRRGEWHDRVAGAF 124 (419)
Q Consensus 49 RILvcv~~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~----~~~~~~~~~~~~~~~~~~~~~~d~I~~af 124 (419)
+||+++...++....+..+-.+... ....++++|.++......... ........ . ....+.++..+
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~-~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~-----~----~~~~~~~l~~~ 70 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLAT-KGQTIVLVHVHPPITSIPSSSGKLEVASAYKQE-----E----DKEAKELLLPY 70 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccC-CCCcEEEEEeccCcccCCCCccchHHHHHHHHH-----H----HHHHHHHHHHH
Confidence 4899999999888888887766554 456899999987542211000 00000000 0 01223333333
Q ss_pred HHhhhcCceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccch-hhHHHhhhcCC--ccE
Q 044080 125 QAYSQLGRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWR-GVNQRVLKNAP--CSV 201 (419)
Q Consensus 125 ~~f~~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r-~~n~~VL~~Ap--CsV 201 (419)
....+..++.+...+.. -.+.++.|++.|++.++|||+|+-|.+.. .... .+. .+-.+|+++|| |+|
T Consensus 71 ~~~~~~~~~~~~~~~~~--g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~--l~~~------~~gssva~~Vi~~a~~~c~V 140 (146)
T cd01989 71 RCFCSRKGVQCEDVVLE--DDDVAKAIVEYVADHGITKLVMGASSDNH--FSMK------FKKSDVASSVLKEAPDFCTV 140 (146)
T ss_pred HHHHhhcCCeEEEEEEe--CCcHHHHHHHHHHHcCCCEEEEeccCCCc--eeec------ccCCchhHHHHhcCCCCceE
Confidence 32222245565554433 23678999999999999999999886644 1111 122 35779999999 999
Q ss_pred EEEEcCC
Q 044080 202 GVLVDRG 208 (419)
Q Consensus 202 GIlVDRG 208 (419)
++|.+|
T Consensus 141 -lvv~~~ 146 (146)
T cd01989 141 -YVVSKG 146 (146)
T ss_pred -EEEeCc
Confidence 556665
No 6
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=98.17 E-value=4.4e-05 Score=64.29 Aligned_cols=132 Identities=16% Similarity=0.226 Sum_probs=84.9
Q ss_pred EEEEEecCCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHH---
Q 044080 49 RILACFHGPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQ--- 125 (419)
Q Consensus 49 RILvcv~~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~--- 125 (419)
|||+|+...++...++..+..++.. ....|+++|+++-............... ...........
T Consensus 4 ~Ilv~~d~~~~~~~al~~a~~la~~-~~~~i~~l~v~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~ 70 (140)
T PF00582_consen 4 RILVAIDGSEESRRALRFALELAKR-SGAEITLLHVIPPPPQYSFSAAEDEESE------------EEAEEEEQARQAEA 70 (140)
T ss_dssp EEEEEESSSHHHHHHHHHHHHHHHH-HTCEEEEEEEEESCHCHHHHHHHHHHHH------------HHHHHHHHHHHHHH
T ss_pred EEEEEECCCHHHHHHHHHHHHHHHh-hCCeEEEEEeeccccccccccccccccc------------cccchhhhhhhHHH
Confidence 7999999998888888776665543 4568999999998776655432121110 11111111111
Q ss_pred Hhh-hcCceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEEE
Q 044080 126 AYS-QLGRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGVL 204 (419)
Q Consensus 126 ~f~-~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGIl 204 (419)
.+. ......+...+.. .+..+.|+..|++.++|+||+|.++... ..+ ..+..+..++++++||+|-|+
T Consensus 71 ~~~~~~~~~~~~~~~~~---~~~~~~i~~~~~~~~~dliv~G~~~~~~--~~~------~~~gs~~~~l~~~~~~pVlvv 139 (140)
T PF00582_consen 71 EEAEAEGGIVIEVVIES---GDVADAIIEFAEEHNADLIVMGSRGRSG--LER------LLFGSVAEKLLRHAPCPVLVV 139 (140)
T ss_dssp HHHHHHTTSEEEEEEEE---SSHHHHHHHHHHHTTCSEEEEESSSTTS--TTT------SSSHHHHHHHHHHTSSEEEEE
T ss_pred HHHhhhccceeEEEEEe---eccchhhhhccccccceeEEEeccCCCC--ccC------CCcCCHHHHHHHcCCCCEEEe
Confidence 111 1133333333332 4788999999999999999999987433 121 245677889999999999664
No 7
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=98.11 E-value=0.0001 Score=62.65 Aligned_cols=128 Identities=18% Similarity=0.159 Sum_probs=77.5
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhhHHH
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREELDET 304 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~ 304 (419)
+|+++.-|.++.+.||++|.+|++.++.+++++++......... ... ....+..+.
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~---------~~~---------------~~~~~~~~~ 56 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARAQNGEIIPLNVIEVPNHSSP---------SQL---------------EVNVQRARK 56 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhcCCCeEEEEEEEecCCCCCc---------chh---------------HHHHHHHHH
Confidence 58999889999999999999999999999999999865331110 000 001111223
Q ss_pred HHHHHHhc---CCCceEEEEEEcCChHH-HHHHhhhcCCCcEEEEccCCCCchhhcccccccCCCCccccchhhhhcCCC
Q 044080 305 ILAEFRSK---WNGVADYTEKVTSSIVE-GVLTLGRSGDYDLIIVGKGRFPSKMIAKLADRQAEHAELGPIGDILASSGQ 380 (419)
Q Consensus 305 ~i~ef~~~---~~~~V~y~e~~v~~~~e-~~~~i~~~~~~dLviVGR~~~~s~~~~gl~~~w~e~~eLG~iGd~Las~d~ 380 (419)
.++.+... .+-.+.+....-.+..+ ++...++ .+.||||+|.++ .+ |....-||-..+.++..
T Consensus 57 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~-~~~dlIV~G~~~-~~---------~~~~~~lGs~~~~v~~~-- 123 (132)
T cd01988 57 LLRQAERIAASLGVPVHTIIRIDHDIASGILRTAKE-RQADLIIMGWHG-ST---------SLRDRLFGGVIDQVLES-- 123 (132)
T ss_pred HHHHHHHHhhhcCCceEEEEEecCCHHHHHHHHHHh-cCCCEEEEecCC-CC---------CccceecCchHHHHHhc--
Confidence 33333332 11123332222234433 3333332 348999999997 21 22345688888888865
Q ss_pred CceecEEEEe
Q 044080 381 GVVSSVLVVQ 390 (419)
Q Consensus 381 ~~~aSvLVvQ 390 (419)
++.+||||+
T Consensus 124 -~~~pvlvv~ 132 (132)
T cd01988 124 -APCDVAVVK 132 (132)
T ss_pred -CCCCEEEeC
Confidence 678999985
No 8
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=98.07 E-value=0.00011 Score=61.37 Aligned_cols=129 Identities=19% Similarity=0.198 Sum_probs=86.4
Q ss_pred EEEEEecCCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHHhh
Q 044080 49 RILACFHGPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQAYS 128 (419)
Q Consensus 49 RILvcv~~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~f~ 128 (419)
+||+|+...+....++..+..++.. ....++++|+.+-.+.....+.... ....+..++.+..+.
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~~-~~~~i~~l~v~~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~ 65 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLARR-LGAELVLLHVVDPPPSSAAELAELL--------------EEEARALLEALREAL 65 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHh-cCCEEEEEEEecCCCCcchhHHHHH--------------HHHHHHHHHHHHHHH
Confidence 5899999999999999988877655 4678999999876554433110000 022334444444433
Q ss_pred hcCceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEE
Q 044080 129 QLGRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGV 203 (419)
Q Consensus 129 ~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGI 203 (419)
...++.+...+.... ..++|++.+++.++|+||+|++++.. ..+ ..+....++++++++|+|-+
T Consensus 66 ~~~~~~~~~~~~~~~---~~~~i~~~~~~~~~dlvvig~~~~~~--~~~------~~~~~~~~~ll~~~~~pvli 129 (130)
T cd00293 66 AEAGVKVETVVLEGD---PAEAILEAAEELGADLIVMGSRGRSG--LRR------LLLGSVAERVLRHAPCPVLV 129 (130)
T ss_pred hcCCCceEEEEecCC---CHHHHHHHHHHcCCCEEEEcCCCCCc--cce------eeeccHHHHHHhCCCCCEEe
Confidence 335677766554432 27999999999999999999986643 111 13345577899999999854
No 9
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=97.95 E-value=0.00011 Score=62.37 Aligned_cols=122 Identities=19% Similarity=0.183 Sum_probs=82.1
Q ss_pred EEEEEecCCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHHhh
Q 044080 49 RILACFHGPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQAYS 128 (419)
Q Consensus 49 RILvcv~~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~f~ 128 (419)
|||+|+...+....+++.+..++.. ....++++|.++-..- . + . ...+..++.+..+.
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~-~~~~l~ll~v~~~~~~--~-~-------------~-----~~~~~~l~~~~~~~ 58 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADR-LKAPWYVVYVETPRLN--R-L-------------S-----EAERRRLAEALRLA 58 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHH-hCCCEEEEEEecCccc--c-C-------------C-----HHHHHHHHHHHHHH
Confidence 6999999999999999988877654 4568999999863210 0 0 0 12233444444444
Q ss_pred hcCceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcC-CccEEEE
Q 044080 129 QLGRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNA-PCSVGVL 204 (419)
Q Consensus 129 ~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~A-pCsVGIl 204 (419)
+..++.+ .+.. ..+..+.|++.|++.++|+|++++|.++. ... -.+.....+|+.+| ||+|=|.
T Consensus 59 ~~~~~~~--~~~~--~~~~~~~I~~~~~~~~~dllviG~~~~~~--~~~------~~~Gs~~~~v~~~a~~~~v~v~ 123 (124)
T cd01987 59 EELGAEV--VTLP--GDDVAEAIVEFAREHNVTQIVVGKSRRSR--WRE------LFRGSLVDRLLRRAGNIDVHIV 123 (124)
T ss_pred HHcCCEE--EEEe--CCcHHHHHHHHHHHcCCCEEEeCCCCCch--HHH------HhcccHHHHHHHhCCCCeEEEe
Confidence 3333432 2222 35678999999999999999999997754 211 12345577999999 9998653
No 10
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=97.92 E-value=9.4e-05 Score=62.25 Aligned_cols=132 Identities=20% Similarity=0.231 Sum_probs=81.7
Q ss_pred ceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhhHH
Q 044080 224 QRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREELDE 303 (419)
Q Consensus 224 ~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~ 303 (419)
.+|++++-|+++.+.|+.+|.+|++..+..++++++.......... . ..........+.
T Consensus 3 ~~Ilv~~d~~~~~~~al~~a~~la~~~~~~i~~l~v~~~~~~~~~~--------------------~-~~~~~~~~~~~~ 61 (140)
T PF00582_consen 3 KRILVAIDGSEESRRALRFALELAKRSGAEITLLHVIPPPPQYSFS--------------------A-AEDEESEEEAEE 61 (140)
T ss_dssp SEEEEEESSSHHHHHHHHHHHHHHHHHTCEEEEEEEEESCHCHHHH--------------------H-HHHHHHHHHHHH
T ss_pred CEEEEEECCCHHHHHHHHHHHHHHHhhCCeEEEEEeeccccccccc--------------------c-ccccccccccch
Confidence 5899999999999999999999999999999999998754422110 0 000000000000
Q ss_pred HHHH-----HHHhcCCCceEEEEEEcCChHHHHHHhhhcCCCcEEEEccCCCCchhhcccccccCCCCccccchhhhhcC
Q 044080 304 TILA-----EFRSKWNGVADYTEKVTSSIVEGVLTLGRSGDYDLIIVGKGRFPSKMIAKLADRQAEHAELGPIGDILASS 378 (419)
Q Consensus 304 ~~i~-----ef~~~~~~~V~y~e~~v~~~~e~~~~i~~~~~~dLviVGR~~~~s~~~~gl~~~w~e~~eLG~iGd~Las~ 378 (419)
.... +..........+......+..+.+....+..++||+|+|+++. + . |.+ --+|.+.+.|+..
T Consensus 62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~-~-------~-~~~-~~~gs~~~~l~~~ 131 (140)
T PF00582_consen 62 EEQARQAEAEEAEAEGGIVIEVVIESGDVADAIIEFAEEHNADLIVMGSRGR-S-------G-LER-LLFGSVAEKLLRH 131 (140)
T ss_dssp HHHHHHHHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHTTCSEEEEESSST-T-------S-TTT-SSSHHHHHHHHHH
T ss_pred hhhhhhHHHHHHhhhccceeEEEEEeeccchhhhhccccccceeEEEeccCC-C-------C-ccC-CCcCCHHHHHHHc
Confidence 0000 0111122345555556667655444443445699999999972 1 1 222 3489999999865
Q ss_pred CCCceecEEEE
Q 044080 379 GQGVVSSVLVV 389 (419)
Q Consensus 379 d~~~~aSvLVv 389 (419)
+..+||||
T Consensus 132 ---~~~pVlvv 139 (140)
T PF00582_consen 132 ---APCPVLVV 139 (140)
T ss_dssp ---TSSEEEEE
T ss_pred ---CCCCEEEe
Confidence 66799987
No 11
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=97.85 E-value=0.00028 Score=61.62 Aligned_cols=139 Identities=7% Similarity=0.068 Sum_probs=80.7
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhhHHH
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREELDET 304 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~ 304 (419)
+|++++=|.+..+.||.+|.++++..+..+++++++++....... ..... ..... ....++.-++
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~--------~~~~~-----~~~~~--~~~~~~~~~~ 65 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLATKGQTIVLVHVHPPITSIPSS--------SGKLE-----VASAY--KQEEDKEAKE 65 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccCCCCcEEEEEeccCcccCCCC--------ccchH-----HHHHH--HHHHHHHHHH
Confidence 488999999999999999999999999999999997543211100 00000 00000 0011112234
Q ss_pred HHHHHHhc-CCCceEEEEEEcC--ChHHHHHHhhhcCCCcEEEEccCCCCchhhcccccccCCCCccc-cchhhhhcCCC
Q 044080 305 ILAEFRSK-WNGVADYTEKVTS--SIVEGVLTLGRSGDYDLIIVGKGRFPSKMIAKLADRQAEHAELG-PIGDILASSGQ 380 (419)
Q Consensus 305 ~i~ef~~~-~~~~V~y~e~~v~--~~~e~~~~i~~~~~~dLviVGR~~~~s~~~~gl~~~w~e~~eLG-~iGd~Las~d~ 380 (419)
++.++... ....+.++...+. ++.+.+-..-+..+.||||+|+++.. + |. +--|| -+.+.++..
T Consensus 66 ~l~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~-----~----l~-~~~~gssva~~Vi~~-- 133 (146)
T cd01989 66 LLLPYRCFCSRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDN-----H----FS-MKFKKSDVASSVLKE-- 133 (146)
T ss_pred HHHHHHHHHhhcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCC-----c----ee-ecccCCchhHHHHhc--
Confidence 55555443 2234555555443 44543322222234899999998621 1 22 22355 688888855
Q ss_pred Cce--ecEEEEee
Q 044080 381 GVV--SSVLVVQQ 391 (419)
Q Consensus 381 ~~~--aSvLVvQq 391 (419)
.. .+||||+.
T Consensus 134 -a~~~c~Vlvv~~ 145 (146)
T cd01989 134 -APDFCTVYVVSK 145 (146)
T ss_pred -CCCCceEEEEeC
Confidence 45 79999985
No 12
>PRK15005 universal stress protein F; Provisional
Probab=97.78 E-value=0.00025 Score=61.73 Aligned_cols=134 Identities=17% Similarity=0.184 Sum_probs=74.1
Q ss_pred EEEEEecCCCC--HHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHH
Q 044080 49 RILACFHGPGN--VSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQA 126 (419)
Q Consensus 49 RILvcv~~~~~--v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~ 126 (419)
+||+++...++ ....+..+..++.. ....++++|.++............. ...+..+ ...+...+.++.
T Consensus 4 ~ILv~~D~s~~~~~~~a~~~a~~la~~-~~~~l~ll~v~~~~~~~~~~~~~~~---~~~~~~~-----~~~~~~~~~l~~ 74 (144)
T PRK15005 4 TILVPIDISDSELTQRVISHVEAEAKI-DDAEVHFLTVIPSLPYYASLGLAYS---AELPAMD-----DLKAEAKSQLEE 74 (144)
T ss_pred cEEEecCCCchhHHHHHHHHHHHHHhc-cCCeEEEEEEEccCccccccccccc---ccchHHH-----HHHHHHHHHHHH
Confidence 59999988776 23455544444432 3558999999985332111100000 0000000 011112222333
Q ss_pred hhhc---CceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEE
Q 044080 127 YSQL---GRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGV 203 (419)
Q Consensus 127 f~~~---~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGI 203 (419)
+.+. .++.++..+. ..+..+.|++.|++.++|||+++-|+. . ..+ ..+.....+|++++||+|-|
T Consensus 75 ~~~~~~~~~~~~~~~v~---~G~p~~~I~~~a~~~~~DLIV~Gs~~~-~--~~~------~llGS~a~~vl~~a~cpVlv 142 (144)
T PRK15005 75 IIKKFKLPTDRVHVHVE---EGSPKDRILELAKKIPADMIIIASHRP-D--ITT------YLLGSNAAAVVRHAECSVLV 142 (144)
T ss_pred HHHHhCCCCCceEEEEe---CCCHHHHHHHHHHHcCCCEEEEeCCCC-C--chh------eeecchHHHHHHhCCCCEEE
Confidence 3221 3445554433 356789999999999999999997732 2 222 12334577999999999965
No 13
>PRK15456 universal stress protein UspG; Provisional
Probab=97.73 E-value=0.00055 Score=59.78 Aligned_cols=135 Identities=9% Similarity=0.064 Sum_probs=75.5
Q ss_pred EEEEEecCCC--CHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHH
Q 044080 49 RILACFHGPG--NVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQA 126 (419)
Q Consensus 49 RILvcv~~~~--~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~ 126 (419)
|||+++...+ +....+..+..++.. . -+++++|.++-.............. .+ .+.. ....+..++.+..
T Consensus 4 ~ILv~vD~S~~~~s~~al~~A~~la~~-~-~~l~llhv~~~~~~~~~~~~~~~~~--~~--~~~~--~~~~~~~l~~~~~ 75 (142)
T PRK15456 4 TIIMPVDVFEMELSDKAVRHAEFLAQD-D-GVIHLLHVLPGSASLSLHRFAADVR--RF--EEHL--QHEAEERLQTMVS 75 (142)
T ss_pred cEEEeccCCchhHHHHHHHHHHHHHhc-C-CeEEEEEEecCcccccccccccchh--hH--HHHH--HHHHHHHHHHHHH
Confidence 6999988764 566666655555432 2 3799999987532110000000000 00 0000 0112222222222
Q ss_pred hhhcCceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEE
Q 044080 127 YSQLGRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGV 203 (419)
Q Consensus 127 f~~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGI 203 (419)
.....++.++..+.. .+..++|++.|++.++|||+||-|.+.. .+ -.+...-.+|++++||+|-|
T Consensus 76 ~~~~~~~~v~~~v~~---G~~~~~I~~~a~~~~~DLIVmG~~g~~~---~~------~llGS~a~~v~~~a~~pVLv 140 (142)
T PRK15456 76 HFTIDPSRIKQHVRF---GSVRDEVNELAEELGADVVVIGSRNPSI---ST------HLLGSNASSVIRHANLPVLV 140 (142)
T ss_pred HhCCCCcceEEEEcC---CChHHHHHHHHhhcCCCEEEEcCCCCCc---cc------eecCccHHHHHHcCCCCEEE
Confidence 111145666655544 4778999999999999999999986421 11 12334477999999999955
No 14
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=97.68 E-value=0.00044 Score=58.66 Aligned_cols=122 Identities=20% Similarity=0.185 Sum_probs=73.5
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhhHHH
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREELDET 304 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~ 304 (419)
+|++++-|++..++|+.+|.+||+..+..|+++++........ . ...+ +
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~----------~----------------~~~~-----~ 49 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADRLKAPWYVVYVETPRLNRL----------S----------------EAER-----R 49 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHhCCCEEEEEEecCccccC----------C----------------HHHH-----H
Confidence 5899999999999999999999999999999999985432100 0 0011 2
Q ss_pred HHHHHHhc-CCCceEEEEEEcCChHHHHHHhhhcCCCcEEEEccCCCCchhhcccccccCCCCccccchhhhhcCCCCce
Q 044080 305 ILAEFRSK-WNGVADYTEKVTSSIVEGVLTLGRSGDYDLIIVGKGRFPSKMIAKLADRQAEHAELGPIGDILASSGQGVV 383 (419)
Q Consensus 305 ~i~ef~~~-~~~~V~y~e~~v~~~~e~~~~i~~~~~~dLviVGR~~~~s~~~~gl~~~w~e~~eLG~iGd~Las~d~~~~ 383 (419)
.+++++.. ..-.+.+....-.+..+.+.-.-+-.+.||+|+|.++. +. | +.--+|-..+-|+..- .+
T Consensus 50 ~l~~~~~~~~~~~~~~~~~~~~~~~~~I~~~~~~~~~dllviG~~~~-~~--------~-~~~~~Gs~~~~v~~~a--~~ 117 (124)
T cd01987 50 RLAEALRLAEELGAEVVTLPGDDVAEAIVEFAREHNVTQIVVGKSRR-SR--------W-RELFRGSLVDRLLRRA--GN 117 (124)
T ss_pred HHHHHHHHHHHcCCEEEEEeCCcHHHHHHHHHHHcCCCEEEeCCCCC-ch--------H-HHHhcccHHHHHHHhC--CC
Confidence 23333322 11123443333334444333222224489999999972 11 2 2335777777777542 36
Q ss_pred ecEEEE
Q 044080 384 SSVLVV 389 (419)
Q Consensus 384 aSvLVv 389 (419)
..|||+
T Consensus 118 ~~v~v~ 123 (124)
T cd01987 118 IDVHIV 123 (124)
T ss_pred CeEEEe
Confidence 678775
No 15
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=97.67 E-value=0.00048 Score=60.16 Aligned_cols=133 Identities=9% Similarity=0.107 Sum_probs=76.1
Q ss_pred EEEEEecCCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHHhh
Q 044080 49 RILACFHGPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQAYS 128 (419)
Q Consensus 49 RILvcv~~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~f~ 128 (419)
|||+++...++-...+..+..++.. ....+++||...- . +... ...... .. .... ..........++.+.
T Consensus 5 ~ILvavD~S~~s~~al~~a~~la~~-~~a~l~ll~v~~~--~-~~~~-~~~~~~-~~---~~~~-~~~~~~~~~~l~~~~ 74 (144)
T PRK15118 5 HILIAVDLSPESKVLVEKAVSMARP-YNAKVSLIHVDVN--Y-SDLY-TGLIDV-NL---GDMQ-KRISEETHHALTELS 74 (144)
T ss_pred EEEEEccCChhHHHHHHHHHHHHHh-hCCEEEEEEEccC--h-hhhh-hhhhhc-ch---HHHH-HHHHHHHHHHHHHHH
Confidence 6999998888877777665555432 2458999998321 1 0110 000000 00 0000 011223334445554
Q ss_pred hcCceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEEE
Q 044080 129 QLGRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGVL 204 (419)
Q Consensus 129 ~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGIl 204 (419)
+..++.+..... -..+.++.||+.|++.++|||++|-|.. . +. .+..+..+|+++|||+|-|.
T Consensus 75 ~~~~~~~~~~~~--~~G~p~~~I~~~a~~~~~DLIV~Gs~~~-~------~~----~lgSva~~v~~~a~~pVLvv 137 (144)
T PRK15118 75 TNAGYPITETLS--GSGDLGQVLVDAIKKYDMDLVVCGHHQD-F------WS----KLMSSARQLINTVHVDMLIV 137 (144)
T ss_pred HhCCCCceEEEE--EecCHHHHHHHHHHHhCCCEEEEeCccc-H------HH----HHHHHHHHHHhhCCCCEEEe
Confidence 434555432222 2346789999999999999999998742 1 11 12366789999999999553
No 16
>PRK10116 universal stress protein UspC; Provisional
Probab=97.60 E-value=0.00077 Score=58.52 Aligned_cols=40 Identities=15% Similarity=0.185 Sum_probs=35.8
Q ss_pred cceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeeeC
Q 044080 223 AQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVEK 262 (419)
Q Consensus 223 ~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~~ 262 (419)
..+|++++=|.++...||.+|.+||+..+.+|++++++..
T Consensus 3 ~~~ILv~~D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~ 42 (142)
T PRK10116 3 YSNILVAVAVTPESQQLLAKAVSIARPVNGKISLITLASD 42 (142)
T ss_pred CceEEEEccCCcchHHHHHHHHHHHHHhCCEEEEEEEccC
Confidence 3589999889999999999999999988999999998743
No 17
>PRK09982 universal stress protein UspD; Provisional
Probab=97.54 E-value=0.0007 Score=59.47 Aligned_cols=132 Identities=6% Similarity=0.093 Sum_probs=74.6
Q ss_pred EEEEEecCCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHHhh
Q 044080 49 RILACFHGPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQAYS 128 (419)
Q Consensus 49 RILvcv~~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~f~ 128 (419)
+||+++...++....+..+..++.. .+.+++++|+++...-..+....... .. . .. ...+..-..++.+.
T Consensus 5 ~ILvavD~S~~s~~al~~A~~lA~~-~~a~l~llhV~~~~~~~~~~~~~~~~-~~-~---~~----~~~~~~~~~l~~~~ 74 (142)
T PRK09982 5 HIGVAISGNEEDALLVNKALELARH-NDAHLTLIHIDDGLSELYPGIYFPAT-ED-I---LQ----LLKNKSDNKLYKLT 74 (142)
T ss_pred EEEEEecCCcchHHHHHHHHHHHHH-hCCeEEEEEEccCcchhchhhhccch-HH-H---HH----HHHHHHHHHHHHHH
Confidence 6999999888877777765555433 45689999998643211000000000 00 0 00 11111112222332
Q ss_pred hc-CceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEEE
Q 044080 129 QL-GRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGVL 204 (419)
Q Consensus 129 ~~-~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGIl 204 (419)
+. ....++..+.. .+.++.||+.|++.++|||+||-| +.. +. ..+ .+-.+|+++|+|+|-|.
T Consensus 75 ~~~~~~~~~~~v~~---G~p~~~I~~~A~~~~aDLIVmG~~-~~~------~~---~~~-~va~~V~~~s~~pVLvv 137 (142)
T PRK09982 75 KNIQWPKTKLRIER---GEMPETLLEIMQKEQCDLLVCGHH-HSF------IN---RLM-PAYRGMINKMSADLLIV 137 (142)
T ss_pred HhcCCCcceEEEEe---cCHHHHHHHHHHHcCCCEEEEeCC-hhH------HH---HHH-HHHHHHHhcCCCCEEEe
Confidence 21 22234433333 477899999999999999999955 211 11 122 26789999999999553
No 18
>PRK09982 universal stress protein UspD; Provisional
Probab=97.53 E-value=0.0012 Score=57.90 Aligned_cols=39 Identities=21% Similarity=0.278 Sum_probs=36.2
Q ss_pred ceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeeeC
Q 044080 224 QRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVEK 262 (419)
Q Consensus 224 ~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~~ 262 (419)
++|+++.=|+++.+.|+++|.+||+.++.++++++++..
T Consensus 4 k~ILvavD~S~~s~~al~~A~~lA~~~~a~l~llhV~~~ 42 (142)
T PRK09982 4 KHIGVAISGNEEDALLVNKALELARHNDAHLTLIHIDDG 42 (142)
T ss_pred eEEEEEecCCcchHHHHHHHHHHHHHhCCeEEEEEEccC
Confidence 579999999999999999999999999999999999754
No 19
>PRK10116 universal stress protein UspC; Provisional
Probab=97.50 E-value=0.0017 Score=56.34 Aligned_cols=134 Identities=13% Similarity=0.119 Sum_probs=79.3
Q ss_pred eEEEEEecCCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHHh
Q 044080 48 FRILACFHGPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQAY 127 (419)
Q Consensus 48 lRILvcv~~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~f 127 (419)
-+||+++...++....+..+..++.. ....++++|.++...-..... ..... .. .. ...++..+.++.+
T Consensus 4 ~~ILv~~D~s~~s~~al~~A~~lA~~-~~a~l~ll~v~~~~~~~~~~~--~~~~~-~~---~~----~~~~~~~~~l~~~ 72 (142)
T PRK10116 4 SNILVAVAVTPESQQLLAKAVSIARP-VNGKISLITLASDPEMYNQFA--APMLE-DL---RS----VMQEETQSFLDKL 72 (142)
T ss_pred ceEEEEccCCcchHHHHHHHHHHHHH-hCCEEEEEEEccCcccchhhh--HHHHH-HH---HH----HHHHHHHHHHHHH
Confidence 36999998888877777776666543 245788899986532111110 00000 00 00 1122333344454
Q ss_pred hhcCceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEEE
Q 044080 128 SQLGRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGVL 204 (419)
Q Consensus 128 ~~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGIl 204 (419)
.+..++.+... +....+-.+.|++.|++.++||||+|-|.... +... + ..-.+|+++++|+|-|+
T Consensus 73 ~~~~~~~~~~~--~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~~------~~~~---~-s~a~~v~~~~~~pVLvv 137 (142)
T PRK10116 73 IQDADYPIEKT--FIAYGELSEHILEVCRKHHFDLVICGNHNHSF------FSRA---S-CSAKRVIASSEVDVLLV 137 (142)
T ss_pred HHhcCCCeEEE--EEecCCHHHHHHHHHHHhCCCEEEEcCCcchH------HHHH---H-HHHHHHHhcCCCCEEEE
Confidence 44444444322 22356778999999999999999999875432 1111 1 34569999999999665
No 20
>PRK15005 universal stress protein F; Provisional
Probab=97.41 E-value=0.0042 Score=53.87 Aligned_cols=138 Identities=15% Similarity=0.095 Sum_probs=76.0
Q ss_pred ceEEEEecCCcCh--HHHHHHHHHHhcCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhh
Q 044080 224 QRICIIFFGGPDD--REALELGGMMAEHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREEL 301 (419)
Q Consensus 224 ~~I~v~F~GG~DD--ReAL~la~rma~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 301 (419)
.+|++++=|.+.+ +.|+.+|.++|+..+.+++++++++........ . .. ... +.......++.
T Consensus 3 ~~ILv~~D~s~~~~~~~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~~-~--~~-~~~-----------~~~~~~~~~~~ 67 (144)
T PRK15005 3 RTILVPIDISDSELTQRVISHVEAEAKIDDAEVHFLTVIPSLPYYASL-G--LA-YSA-----------ELPAMDDLKAE 67 (144)
T ss_pred ccEEEecCCCchhHHHHHHHHHHHHHhccCCeEEEEEEEccCcccccc-c--cc-ccc-----------cchHHHHHHHH
Confidence 4799997777764 789999999999999999999998642211100 0 00 000 00000001111
Q ss_pred HHHHHHHHHhc-CCCceEEEEEE-cCChHHHHHHhhhcCCCcEEEEccCCCCchhhcccccccCCCCccccchhhhhcCC
Q 044080 302 DETILAEFRSK-WNGVADYTEKV-TSSIVEGVLTLGRSGDYDLIIVGKGRFPSKMIAKLADRQAEHAELGPIGDILASSG 379 (419)
Q Consensus 302 D~~~i~ef~~~-~~~~V~y~e~~-v~~~~e~~~~i~~~~~~dLviVGR~~~~s~~~~gl~~~w~e~~eLG~iGd~Las~d 379 (419)
-.+.++++... ....+.++..+ ..++.+.+...-+-.+.||||+|.++ . ++.+ .=+|-..+.++..
T Consensus 68 ~~~~l~~~~~~~~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~~-~-----~~~~-----~llGS~a~~vl~~- 135 (144)
T PRK15005 68 AKSQLEEIIKKFKLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIASHR-P-----DITT-----YLLGSNAAAVVRH- 135 (144)
T ss_pred HHHHHHHHHHHhCCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCCC-C-----Cchh-----eeecchHHHHHHh-
Confidence 12334444443 22223333333 33445433322222459999999764 1 1222 2378888888866
Q ss_pred CCceecEEEEe
Q 044080 380 QGVVSSVLVVQ 390 (419)
Q Consensus 380 ~~~~aSvLVvQ 390 (419)
+..+||||.
T Consensus 136 --a~cpVlvVr 144 (144)
T PRK15005 136 --AECSVLVVR 144 (144)
T ss_pred --CCCCEEEeC
Confidence 678999983
No 21
>PRK11175 universal stress protein UspE; Provisional
Probab=97.35 E-value=0.0025 Score=62.70 Aligned_cols=145 Identities=12% Similarity=0.071 Sum_probs=80.5
Q ss_pred eEEEEEecCCCCH-------HHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHH
Q 044080 48 FRILACFHGPGNV-------SSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRV 120 (419)
Q Consensus 48 lRILvcv~~~~~v-------~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I 120 (419)
-+||+++...+.. ..++..+..++.......++++|..+............... ... .+ ...+..
T Consensus 153 ~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~~~~a~l~ll~v~~~~~~~~~~~~~~~~~-~~~---~~----~~~~~~ 224 (305)
T PRK11175 153 GKILVAVNVASEEPYHDALNEKLVEEAIDLAEQLNHAEVHLVNAYPVTPINIAIELPEFDP-SVY---ND----AIRGQH 224 (305)
T ss_pred CeEEEEeCCCCCccchhHHHHHHHHHHHHHHhhCcCCceEEEEEecCcchhccccccccch-hhH---HH----HHHHHH
Confidence 4799998865442 24555555444321145789999887543211000000000 000 00 112233
Q ss_pred HHHHHHhhhcCceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCcc
Q 044080 121 AGAFQAYSQLGRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCS 200 (419)
Q Consensus 121 ~~af~~f~~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCs 200 (419)
.+.++.+.+..++........ ..+..+.|++.|++.++|||+|+.|.+.. ..+ -.+.....+|++++||+
T Consensus 225 ~~~l~~~~~~~~~~~~~~~v~--~G~~~~~I~~~a~~~~~DLIVmG~~~~~~--~~~------~llGS~a~~v~~~~~~p 294 (305)
T PRK11175 225 LLAMKALRQKFGIDEEQTHVE--EGLPEEVIPDLAEHLDAELVILGTVGRTG--LSA------AFLGNTAEHVIDHLNCD 294 (305)
T ss_pred HHHHHHHHHHhCCChhheeec--cCCHHHHHHHHHHHhCCCEEEECCCccCC--Ccc------eeecchHHHHHhcCCCC
Confidence 334455544334443222222 24677899999999999999999986654 222 12334577999999999
Q ss_pred EEEEEcCCCC
Q 044080 201 VGVLVDRGFG 210 (419)
Q Consensus 201 VGIlVDRG~~ 210 (419)
|-|+-.+||.
T Consensus 295 VLvv~~~~~~ 304 (305)
T PRK11175 295 LLAIKPDGYV 304 (305)
T ss_pred EEEEcCCCCC
Confidence 9765466653
No 22
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=97.30 E-value=0.0049 Score=51.16 Aligned_cols=127 Identities=19% Similarity=0.203 Sum_probs=74.3
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhhHHH
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREELDET 304 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~ 304 (419)
+|++++-+++....++.+|.+||+..+..++++++......... . . .......-++
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~~~~~~i~~l~v~~~~~~~~~----------~------------~--~~~~~~~~~~ 56 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLARRLGAELVLLHVVDPPPSSAA----------E------------L--AELLEEEARA 56 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHhcCCEEEEEEEecCCCCcch----------h------------H--HHHHHHHHHH
Confidence 58899899999999999999999999999999999754321100 0 0 0001111234
Q ss_pred HHHHHHhc-CCCceEEEEEEcCC-h-HHHHHHhhhcCCCcEEEEccCCCCchhhcccccccCCCCccccchhhhhcCCCC
Q 044080 305 ILAEFRSK-WNGVADYTEKVTSS-I-VEGVLTLGRSGDYDLIIVGKGRFPSKMIAKLADRQAEHAELGPIGDILASSGQG 381 (419)
Q Consensus 305 ~i~ef~~~-~~~~V~y~e~~v~~-~-~e~~~~i~~~~~~dLviVGR~~~~s~~~~gl~~~w~e~~eLG~iGd~Las~d~~ 381 (419)
.+..+... ....+.+....... . .++...+++ .++|++|+|.++.. . |. .--.|.+++.|+..
T Consensus 57 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~-~~~dlvvig~~~~~--------~-~~-~~~~~~~~~~ll~~--- 122 (130)
T cd00293 57 LLEALREALAEAGVKVETVVLEGDPAEAILEAAEE-LGADLIVMGSRGRS--------G-LR-RLLLGSVAERVLRH--- 122 (130)
T ss_pred HHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHH-cCCCEEEEcCCCCC--------c-cc-eeeeccHHHHHHhC---
Confidence 55555543 11223333333222 2 233333332 44899999988621 1 32 23567777777754
Q ss_pred ceecEEEE
Q 044080 382 VVSSVLVV 389 (419)
Q Consensus 382 ~~aSvLVv 389 (419)
+...||+|
T Consensus 123 ~~~pvliv 130 (130)
T cd00293 123 APCPVLVV 130 (130)
T ss_pred CCCCEEeC
Confidence 55677764
No 23
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=97.15 E-value=0.0041 Score=54.21 Aligned_cols=38 Identities=21% Similarity=0.173 Sum_probs=34.8
Q ss_pred cceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEee
Q 044080 223 AQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFV 260 (419)
Q Consensus 223 ~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~ 260 (419)
..+|+++.=|.+..+.||.+|..||+..+..++++++.
T Consensus 3 ~~~ILvavD~S~~s~~al~~a~~la~~~~a~l~ll~v~ 40 (144)
T PRK15118 3 YKHILIAVDLSPESKVLVEKAVSMARPYNAKVSLIHVD 40 (144)
T ss_pred ceEEEEEccCChhHHHHHHHHHHHHHhhCCEEEEEEEc
Confidence 35799999999999999999999999899999999984
No 24
>PRK15456 universal stress protein UspG; Provisional
Probab=97.08 E-value=0.016 Score=50.51 Aligned_cols=136 Identities=16% Similarity=0.093 Sum_probs=76.0
Q ss_pred ceEEEEecCCc--ChHHHHHHHHHHhcCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhh
Q 044080 224 QRICIIFFGGP--DDREALELGGMMAEHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREEL 301 (419)
Q Consensus 224 ~~I~v~F~GG~--DDReAL~la~rma~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 301 (419)
.+|+++.=|.+ ....|+.+|.+||+.. ..+.++++++........ ...... ... .+..++.
T Consensus 3 ~~ILv~vD~S~~~~s~~al~~A~~la~~~-~~l~llhv~~~~~~~~~~-----~~~~~~---------~~~--~~~~~~~ 65 (142)
T PRK15456 3 KTIIMPVDVFEMELSDKAVRHAEFLAQDD-GVIHLLHVLPGSASLSLH-----RFAADV---------RRF--EEHLQHE 65 (142)
T ss_pred ccEEEeccCCchhHHHHHHHHHHHHHhcC-CeEEEEEEecCccccccc-----ccccch---------hhH--HHHHHHH
Confidence 47999987773 7999999999999875 489999988543211000 000000 000 0011122
Q ss_pred HHHHHHHHHhc-CCCceEEEEEE-cCChHHHHHHhhhcCCCcEEEEccCCCCchhhcccccccCCCCccccchhhhhcCC
Q 044080 302 DETILAEFRSK-WNGVADYTEKV-TSSIVEGVLTLGRSGDYDLIIVGKGRFPSKMIAKLADRQAEHAELGPIGDILASSG 379 (419)
Q Consensus 302 D~~~i~ef~~~-~~~~V~y~e~~-v~~~~e~~~~i~~~~~~dLviVGR~~~~s~~~~gl~~~w~e~~eLG~iGd~Las~d 379 (419)
-++.++++... ....+.+.-.. ..++.+.+...-+-.+.||||+|.++ .+ + ...=||-.++-++..
T Consensus 66 ~~~~l~~~~~~~~~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g-~~---------~-~~~llGS~a~~v~~~- 133 (142)
T PRK15456 66 AEERLQTMVSHFTIDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGSRN-PS---------I-STHLLGSNASSVIRH- 133 (142)
T ss_pred HHHHHHHHHHHhCCCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcCCC-CC---------c-cceecCccHHHHHHc-
Confidence 22345555543 21223333222 23444433222222448999999986 22 2 122379999999866
Q ss_pred CCceecEEEEe
Q 044080 380 QGVVSSVLVVQ 390 (419)
Q Consensus 380 ~~~~aSvLVvQ 390 (419)
++.+||||.
T Consensus 134 --a~~pVLvV~ 142 (142)
T PRK15456 134 --ANLPVLVVR 142 (142)
T ss_pred --CCCCEEEeC
Confidence 678999984
No 25
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=95.80 E-value=0.084 Score=53.98 Aligned_cols=40 Identities=13% Similarity=0.121 Sum_probs=36.4
Q ss_pred cceEEEEecCCcChHHHHHHHHHHhcCC--CeEEEEEEeeeC
Q 044080 223 AQRICIIFFGGPDDREALELGGMMAEHP--AVKLTVIKFVEK 262 (419)
Q Consensus 223 ~~~I~v~F~GG~DDReAL~la~rma~~~--~v~lTVvr~~~~ 262 (419)
.++|++++=|.+..+.|+.+|..||+.. +.+|+++++++.
T Consensus 5 ykkILVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~ 46 (357)
T PRK12652 5 ANRLLVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASG 46 (357)
T ss_pred cCeEEEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecC
Confidence 5689999999999999999999999884 699999999864
No 26
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=95.42 E-value=0.35 Score=41.40 Aligned_cols=143 Identities=17% Similarity=0.210 Sum_probs=74.5
Q ss_pred eEEEEEec-CCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHH
Q 044080 48 FRILACFH-GPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQA 126 (419)
Q Consensus 48 lRILvcv~-~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~ 126 (419)
-+||+.+. ..+.....+..+..+... ....+++++.++-............... ........ .....+..+..+.
T Consensus 6 ~~il~~~d~~s~~~~~a~~~a~~~~~~-~~~~~~~~~v~~~~~~~~~~~~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~ 81 (154)
T COG0589 6 KKILVAVDVGSEAAEKALEEAVALAKR-LGAPLILLVVIDPLEPTALVSVALADAP--IPLSEEEL-EEEAEELLAEAKA 81 (154)
T ss_pred ceEEEEeCCCCHHHHHHHHHHHHHHHh-cCCeEEEEEEecccccccccccccccch--hhhhHHHH-HHHHHHHHHHHHH
Confidence 35777766 444444444443333332 3345556666655443322211000000 00000000 0223555555555
Q ss_pred hhhcCceEE-EEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEEE
Q 044080 127 YSQLGRVSV-RPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGVL 204 (419)
Q Consensus 127 f~~~~~V~V-~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGIl 204 (419)
..+..++.. .....- -..-.+.|+..|.+..+|+|+++-++.+. .++ -.+..+-++|++++||+|-|+
T Consensus 82 ~~~~~~~~~~~~~~~~--g~~~~~~i~~~a~~~~adliV~G~~g~~~--l~~------~llGsvs~~v~~~~~~pVlvv 150 (154)
T COG0589 82 LAEAAGVPVVETEVVE--GSPSAEEILELAEEEDADLIVVGSRGRSG--LSR------LLLGSVAEKVLRHAPCPVLVV 150 (154)
T ss_pred HHHHcCCCeeEEEEec--CCCcHHHHHHHHHHhCCCEEEECCCCCcc--ccc------eeeehhHHHHHhcCCCCEEEE
Confidence 444444442 332222 22225899999999999999999876654 222 234556789999999999554
No 27
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=95.38 E-value=0.33 Score=49.66 Aligned_cols=129 Identities=8% Similarity=0.036 Sum_probs=78.5
Q ss_pred eEEEEEecCCCCHHHHHHHHHHhcCCC-CCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHH
Q 044080 48 FRILACFHGPGNVSSLISLVEATRSTQ-KQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQA 126 (419)
Q Consensus 48 lRILvcv~~~~~v~~ll~Lle~~~~t~-~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~ 126 (419)
-|||+++..-++....+.-+-.++... ...+++++|+++...-... . ... ....+.+++..+.
T Consensus 6 kkILVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~~-~--~~~-------------~~~~eelle~~~~ 69 (357)
T PRK12652 6 NRLLVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASGRAVDPE-G--QDE-------------LAAAEELLERVEV 69 (357)
T ss_pred CeEEEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecCcccccc-h--hHH-------------HHHHHHHHHHHHH
Confidence 479999999999988887665555431 1469999999984321111 0 000 0223344444444
Q ss_pred hhhc------CceEEEEEEEEc-----cCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhh
Q 044080 127 YSQL------GRVSVRPTTAIS-----ALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLK 195 (419)
Q Consensus 127 f~~~------~~V~V~~~t~Vs-----p~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~ 195 (419)
..+. .++.++..+... ...+.++.|++.|++.++|||+|+=..+ .+| +.+..|.+-. -|.
T Consensus 70 ~~~~~l~~~~~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~----~~~----~~~~~~~~~~-~~~ 140 (357)
T PRK12652 70 WATEDLGDDASSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYN----PGG----TAPMLQPLER-ELA 140 (357)
T ss_pred HHHHhhhcccCCCceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCCCC----CCC----CCcccchHHH-HHH
Confidence 4322 478887766552 1257899999999999999999995433 222 3344454443 355
Q ss_pred cCCccE
Q 044080 196 NAPCSV 201 (419)
Q Consensus 196 ~ApCsV 201 (419)
++-|++
T Consensus 141 ~~~~~~ 146 (357)
T PRK12652 141 RAGITY 146 (357)
T ss_pred hcCCce
Confidence 555554
No 28
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=89.81 E-value=7.2 Score=33.07 Aligned_cols=143 Identities=23% Similarity=0.170 Sum_probs=81.0
Q ss_pred cceEEEEec-CCcChHHHHHHHHHHhcCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhh
Q 044080 223 AQRICIIFF-GGPDDREALELGGMMAEHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREEL 301 (419)
Q Consensus 223 ~~~I~v~F~-GG~DDReAL~la~rma~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 301 (419)
..+|++.+- |.+--+.|+..+..++...+..++++.++.......... ..... .............
T Consensus 5 ~~~il~~~d~~s~~~~~a~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~-------~~~~~------~~~~~~~~~~~~~ 71 (154)
T COG0589 5 YKKILVAVDVGSEAAEKALEEAVALAKRLGAPLILLVVIDPLEPTALVS-------VALAD------APIPLSEEELEEE 71 (154)
T ss_pred cceEEEEeCCCCHHHHHHHHHHHHHHHhcCCeEEEEEEecccccccccc-------ccccc------chhhhhHHHHHHH
Confidence 457888888 999999999999999999888888777765433211100 00000 0000000011233
Q ss_pred HHHHHHHHHhc-CCCceEE--EEEEcCCh-HHHHHHhhhcCCCcEEEEccCCCCchhhcccccccCCCCccccchhhhhc
Q 044080 302 DETILAEFRSK-WNGVADY--TEKVTSSI-VEGVLTLGRSGDYDLIIVGKGRFPSKMIAKLADRQAEHAELGPIGDILAS 377 (419)
Q Consensus 302 D~~~i~ef~~~-~~~~V~y--~e~~v~~~-~e~~~~i~~~~~~dLviVGR~~~~s~~~~gl~~~w~e~~eLG~iGd~Las 377 (419)
.++.+++++.. ....+.+ .+....++ .+.+..+..-.+.||+|+|.++. + . |.+ --||-+.+.++.
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~-~-------~-l~~-~llGsvs~~v~~ 141 (154)
T COG0589 72 AEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGR-S-------G-LSR-LLLGSVAEKVLR 141 (154)
T ss_pred HHHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCC-c-------c-ccc-eeeehhHHHHHh
Confidence 34555555554 2222221 22223344 34444333334699999999741 1 1 222 568888888886
Q ss_pred CCCCceecEEEEee
Q 044080 378 SGQGVVSSVLVVQQ 391 (419)
Q Consensus 378 ~d~~~~aSvLVvQq 391 (419)
. +..+||||..
T Consensus 142 ~---~~~pVlvv~~ 152 (154)
T COG0589 142 H---APCPVLVVRS 152 (154)
T ss_pred c---CCCCEEEEcc
Confidence 6 7889999874
No 29
>PRK10490 sensor protein KdpD; Provisional
Probab=88.35 E-value=5.1 Score=45.96 Aligned_cols=123 Identities=11% Similarity=0.073 Sum_probs=79.4
Q ss_pred CceEEEEEecCCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHH
Q 044080 46 DVFRILACFHGPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQ 125 (419)
Q Consensus 46 ~elRILvcv~~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~ 125 (419)
..-|||||+....+...++.-...++.. .....+++|+..-..+ . . . .....++...++
T Consensus 249 ~~eriLV~v~~~~~~~~lIr~~~rlA~~-~~a~~~~l~V~~~~~~--~-----------~---~----~~~~~~l~~~~~ 307 (895)
T PRK10490 249 TRDAILLCIGHNTGSEKLVRTAARLAAR-LGSVWHAVYVETPRLH--R-----------L---P----EKKRRAILSALR 307 (895)
T ss_pred cCCeEEEEECCCcchHHHHHHHHHHHHh-cCCCEEEEEEecCCcC--c-----------C---C----HHHHHHHHHHHH
Confidence 3458999999999999999865555543 3447889996532111 0 0 0 023455666665
Q ss_pred HhhhcCceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCC-ccEEEE
Q 044080 126 AYSQLGRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAP-CSVGVL 204 (419)
Q Consensus 126 ~f~~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~Ap-CsVGIl 204 (419)
.++..+..+... ...+.++.|.+.|++++++.|+||=+.+.. + . ....+.+++++.+| -+|=|+
T Consensus 308 -lA~~lGa~~~~~----~~~dva~~i~~~A~~~~vt~IViG~s~~~~------~--~--~~~s~~~~l~r~~~~idi~iv 372 (895)
T PRK10490 308 -LAQELGAETATL----SDPAEEKAVLRYAREHNLGKIIIGRRASRR------W--W--RRESFADRLARLGPDLDLVIV 372 (895)
T ss_pred -HHHHcCCEEEEE----eCCCHHHHHHHHHHHhCCCEEEECCCCCCC------C--c--cCCCHHHHHHHhCCCCCEEEE
Confidence 555444443322 357899999999999999999999654322 1 0 01257888999988 555444
No 30
>TIGR00930 2a30 K-Cl cotransporter.
Probab=83.09 E-value=1e+02 Score=35.99 Aligned_cols=132 Identities=12% Similarity=0.215 Sum_probs=78.3
Q ss_pred ceEEEEEecCCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHH
Q 044080 47 VFRILACFHGPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQA 126 (419)
Q Consensus 47 elRILvcv~~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~ 126 (419)
.-++|+.+.+|.+-+.|++|+..+.+. .. -..+.|+++.+..... .+.+ ...+++. .
T Consensus 575 rPqiLvl~~~p~~~~~Ll~f~~~l~~~-~g-l~i~~~v~~~~~~~~~----~~~~-------------~~~~~~~----~ 631 (953)
T TIGR00930 575 RPQCLVLTGPPVCRPALLDFASQFTKG-KG-LMICGSVIQGPRLECV----KEAQ-------------AAEAKIQ----T 631 (953)
T ss_pred CCeEEEEeCCCcCcHHHHHHHHHhccC-Cc-EEEEEEEecCchhhhH----HHHH-------------HHHHHHH----H
Confidence 358999999999999999999998853 23 4455688876432111 0100 0111121 1
Q ss_pred hhhcCceEEEEEEEEccCCChHHHHHHHHHh-----cCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccE
Q 044080 127 YSQLGRVSVRPTTAISALSTMDQDICHVAEN-----KRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSV 201 (419)
Q Consensus 127 f~~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~-----k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsV 201 (419)
+-+ .-.++.|+.+.-..++.+-+-.+.+- .+.+.|+++|...|+ .+... .-..|-.+.+..+ -...
T Consensus 632 ~~~--~~~~~~f~~~~~~~~~~~g~~~l~q~~GlG~l~PNtv~lg~~~~w~--~~~~~--~~~~y~~~i~~a~---~~~~ 702 (953)
T TIGR00930 632 WLE--KNKVKAFYAVVVADDLREGVRHLIQASGLGRMKPNTLVMGYKKDWR--QAEPR--AWETYIGIIHDAF---DAHL 702 (953)
T ss_pred HHH--HhCCCeEEEEecCCCHHHHHHHHHHhcCCCCCCCCEEEecCccchh--hccch--hHHHHHHHHHHHH---HcCC
Confidence 211 13455666666667999999888887 468999999998887 33211 1123333443332 2444
Q ss_pred EEEEcCCCC
Q 044080 202 GVLVDRGFG 210 (419)
Q Consensus 202 GIlVDRG~~ 210 (419)
||+|-|+..
T Consensus 703 ~v~i~r~~~ 711 (953)
T TIGR00930 703 AVVVVRNSE 711 (953)
T ss_pred cEEEEcccc
Confidence 555556643
No 31
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=82.95 E-value=5.5 Score=38.97 Aligned_cols=109 Identities=11% Similarity=0.081 Sum_probs=62.0
Q ss_pred EEecCCcChHHHHHHHHHHhcCC-CeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhhHHHHH
Q 044080 228 IIFFGGPDDREALELGGMMAEHP-AVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREELDETIL 306 (419)
Q Consensus 228 v~F~GG~DDReAL~la~rma~~~-~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~i 306 (419)
+.+.=.|.|+.||+.|+||.+.. +.++|++.+=++.. -++..+
T Consensus 30 ~~~~iN~~D~~AlE~Alrlke~~~g~~Vtvvs~Gp~~a------------------------------------~~~~~l 73 (256)
T PRK03359 30 ADAKISQYDLNAIEAACQLKQQAAEAQVTALSVGGKAL------------------------------------TNAKGR 73 (256)
T ss_pred CccccChhhHHHHHHHHHHhhhcCCCEEEEEEECCcch------------------------------------hhHHHH
Confidence 34444699999999999999864 47999987622110 011223
Q ss_pred HHHHhcCCCceEEEE-EE--cCChHHHHHH----hhhcCCCcEEEEccCC--CCchhhc-ccccccCCCCccccchhh
Q 044080 307 AEFRSKWNGVADYTE-KV--TSSIVEGVLT----LGRSGDYDLIIVGKGR--FPSKMIA-KLADRQAEHAELGPIGDI 374 (419)
Q Consensus 307 ~ef~~~~~~~V~y~e-~~--v~~~~e~~~~----i~~~~~~dLviVGR~~--~~s~~~~-gl~~~w~e~~eLG~iGd~ 374 (419)
.+.-..+-++....+ .. -.|+..|..+ |++. +||||+.|+.. +.+.++- -+++ |-..|.+..+-++
T Consensus 74 r~aLAmGaD~avli~d~~~~g~D~~~tA~~La~ai~~~-~~DLVl~G~~s~D~~tgqvg~~lAe-~Lg~P~vt~v~~l 149 (256)
T PRK03359 74 KDVLSRGPDELIVVIDDQFEQALPQQTASALAAAAQKA-GFDLILCGDGSSDLYAQQVGLLVGE-ILNIPAINGVSKI 149 (256)
T ss_pred HHHHHcCCCEEEEEecCcccCcCHHHHHHHHHHHHHHh-CCCEEEEcCccccCCCCcHHHHHHH-HhCCCceeeEEEE
Confidence 333333333333322 21 1244444444 4442 49999999987 3333333 3344 6667777777664
No 32
>KOG2310 consensus DNA repair exonuclease MRE11 [Replication, recombination and repair]
Probab=78.93 E-value=3.1 Score=44.50 Aligned_cols=157 Identities=20% Similarity=0.336 Sum_probs=86.0
Q ss_pred HHHHHHHHhcCccEEEec---ccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEEEEcCCCC-CCC---CCCCCCcc
Q 044080 149 QDICHVAENKRVTMIILP---FHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGVLVDRGFG-SGS---PTPGPTAT 221 (419)
Q Consensus 149 ~dIc~~A~~k~adLIIlP---~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGIlVDRG~~-~~~---~~~~~~~~ 221 (419)
++||.+|.++.+||||++ ||.+-- ........+..+-+.-|..-||..-||-|.+.. +.. .+.-. +
T Consensus 42 eEIl~iA~e~~VDmiLlGGDLFHeNkP-----Sr~~L~~~i~lLRryClgdkP~~le~lSD~s~~f~~~~f~~VNY~--D 114 (646)
T KOG2310|consen 42 EEILEIAQENDVDMILLGGDLFHENKP-----SRKTLHRCLELLRRYCLGDKPVQLEILSDQSVNFGNSVFGNVNYE--D 114 (646)
T ss_pred HHHHHHHHhcCCcEEEecCcccccCCc-----cHHHHHHHHHHHHHHccCCCceeeEEecccceeccccccceeccc--C
Confidence 689999999999999998 343321 011112233445556677789999999888742 111 11111 2
Q ss_pred ccceEEEEecC--CcChH-------HHHHH------HHHHhcCCC-eEEEEEEeeeCCCCccCCcccCCCCCCCCCcccc
Q 044080 222 VAQRICIIFFG--GPDDR-------EALEL------GGMMAEHPA-VKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKW 285 (419)
Q Consensus 222 ~~~~I~v~F~G--G~DDR-------eAL~l------a~rma~~~~-v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~ 285 (419)
...+|.+|.|+ |.+|. -||.+ +.-.-+.+. -++.|.-++.......
T Consensus 115 pNlNIsIPVFsIHGNHDDpSG~~~lsalDIL~~~GLVNyFGk~~~id~I~vsPiLlqKG~tk------------------ 176 (646)
T KOG2310|consen 115 PNLNISIPVFSIHGNHDDPSGDGRLSALDILSAAGLVNYFGKVSEIDKIDVSPILLQKGSTK------------------ 176 (646)
T ss_pred CCcceeeeeEEeecCCCCCccccccchHHHHHhcchhhhhccccCcceEEEEeeeeccCcee------------------
Confidence 45678888774 54432 23322 233333332 3566666665432111
Q ss_pred cccccccccchhhhhhHHHHHHHHHhcCCCceEEEEEEcCChHHHHHHhhhcCCCcEEEEccCC
Q 044080 286 SRLRFGFHLKCLREELDETILAEFRSKWNGVADYTEKVTSSIVEGVLTLGRSGDYDLIIVGKGR 349 (419)
Q Consensus 286 ~~~~~~~~~~~~~~~~D~~~i~ef~~~~~~~V~y~e~~v~~~~e~~~~i~~~~~~dLviVGR~~ 349 (419)
.+ -|.+ -...|+.+...|+. ++|.|.--. .. +-.+|+|+||-..+
T Consensus 177 lA-LYGL-----g~irDeRL~R~Fk~---~~V~f~rPe--~~--------e~dWFNllvlHQNr 221 (646)
T KOG2310|consen 177 LA-LYGL-----GSIRDERLYRMFKN---GKVTFLRPE--EY--------EDDWFNLLVLHQNR 221 (646)
T ss_pred EE-Eeec-----cccchHHHHHHHHh---CceEEecCc--cc--------cccceeeEEEeecc
Confidence 00 1111 12458888888886 568774321 11 11348888887654
No 33
>PRK10490 sensor protein KdpD; Provisional
Probab=75.13 E-value=31 Score=39.66 Aligned_cols=123 Identities=13% Similarity=0.098 Sum_probs=76.7
Q ss_pred cceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhhH
Q 044080 223 AQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREELD 302 (419)
Q Consensus 223 ~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D 302 (419)
..+|+|.--|+|..+.+++.|.|||..-+..++++++..+..... + ....+.+.
T Consensus 250 ~eriLV~v~~~~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~~~---------------------~-----~~~~~~l~ 303 (895)
T PRK10490 250 RDAILLCIGHNTGSEKLVRTAARLAARLGSVWHAVYVETPRLHRL---------------------P-----EKKRRAIL 303 (895)
T ss_pred CCeEEEEECCCcchHHHHHHHHHHHHhcCCCEEEEEEecCCcCcC---------------------C-----HHHHHHHH
Confidence 468999999999999999999999999999999999864322110 0 00112222
Q ss_pred HHHHHHHHhcCCCceEEEEEEcCChHHHHHHhhhcCCCcEEEEccCCCCchhhcccccccCCCCccccchhhhhcCCCCc
Q 044080 303 ETILAEFRSKWNGVADYTEKVTSSIVEGVLTLGRSGDYDLIIVGKGRFPSKMIAKLADRQAEHAELGPIGDILASSGQGV 382 (419)
Q Consensus 303 ~~~i~ef~~~~~~~V~y~e~~v~~~~e~~~~i~~~~~~dLviVGR~~~~s~~~~gl~~~w~e~~eLG~iGd~Las~d~~~ 382 (419)
+. + ++-.+.+.. +....-.|..+++...-...+-+.||+|++.+ + .| . --|-+.|.|+... .
T Consensus 304 ~~-~-~lA~~lGa~--~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~-~--------~~--~-~~~s~~~~l~r~~--~ 365 (895)
T PRK10490 304 SA-L-RLAQELGAE--TATLSDPAEEKAVLRYAREHNLGKIIIGRRAS-R--------RW--W-RRESFADRLARLG--P 365 (895)
T ss_pred HH-H-HHHHHcCCE--EEEEeCCCHHHHHHHHHHHhCCCEEEECCCCC-C--------CC--c-cCCCHHHHHHHhC--C
Confidence 22 2 233332222 43444456655544444445589999999972 2 15 1 1356788887554 4
Q ss_pred eecEEEE
Q 044080 383 VSSVLVV 389 (419)
Q Consensus 383 ~aSvLVv 389 (419)
...|.||
T Consensus 366 ~idi~iv 372 (895)
T PRK10490 366 DLDLVIV 372 (895)
T ss_pred CCCEEEE
Confidence 5677777
No 34
>PRK12342 hypothetical protein; Provisional
Probab=73.30 E-value=14 Score=36.10 Aligned_cols=31 Identities=13% Similarity=0.031 Sum_probs=25.2
Q ss_pred EEecCCcChHHHHHHHHHHhcCCCeEEEEEEe
Q 044080 228 IIFFGGPDDREALELGGMMAEHPAVKLTVIKF 259 (419)
Q Consensus 228 v~F~GG~DDReAL~la~rma~~~~v~lTVvr~ 259 (419)
+++.=+|.|+-||+.|.||.+ .+.++|++.+
T Consensus 29 ~~~~iNp~D~~AlE~AlrLk~-~g~~Vtvls~ 59 (254)
T PRK12342 29 AEAKISQFDLNAIEAASQLAT-DGDEIAALTV 59 (254)
T ss_pred CCccCChhhHHHHHHHHHHhh-cCCEEEEEEe
Confidence 344557999999999999995 4678999876
No 35
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=64.11 E-value=7.8 Score=35.24 Aligned_cols=36 Identities=22% Similarity=0.233 Sum_probs=31.1
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEee
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFV 260 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~ 260 (419)
+|++.|.||.|.-.+|.++.++++..+..+.++++-
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~~~~~~v~~v~vd 36 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQPKLKIRLIAAHVD 36 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCCEEEEEeC
Confidence 588999999999999999999887767778888873
No 36
>cd01984 AANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide.
Probab=60.03 E-value=11 Score=29.51 Aligned_cols=33 Identities=18% Similarity=0.269 Sum_probs=25.8
Q ss_pred EEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEe
Q 044080 226 ICIIFFGGPDDREALELGGMMAEHPAVKLTVIKF 259 (419)
Q Consensus 226 I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~ 259 (419)
|++++-||+|+-.+|.++.+.+ ..+..++++++
T Consensus 1 ilv~~sgg~dS~~~l~~~~~~~-~~~~~~~~~~~ 33 (86)
T cd01984 1 ILVALSGGLDSSVLLHLAKRLK-SGGPEVVALVV 33 (86)
T ss_pred CEEEeeCCHHHHHHHHHHHHHH-hcCCCEEEEEe
Confidence 5789999999999999999986 33445666655
No 37
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=58.96 E-value=59 Score=31.91 Aligned_cols=110 Identities=17% Similarity=0.081 Sum_probs=64.6
Q ss_pred EEecCCcChHHHHHHHHHHhc-CCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhhHHHHH
Q 044080 228 IIFFGGPDDREALELGGMMAE-HPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREELDETIL 306 (419)
Q Consensus 228 v~F~GG~DDReAL~la~rma~-~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~i 306 (419)
+++.=.|.|+-|++.|.||.+ ..+.++|++.+=++.. ++.+
T Consensus 31 v~~~in~~D~~AvEeAlrLke~~~~~eV~vlt~Gp~~a--------------------------------------~~~l 72 (260)
T COG2086 31 VPLSINPFDLNAVEEALRLKEKGYGGEVTVLTMGPPQA--------------------------------------EEAL 72 (260)
T ss_pred CCcccChhhHHHHHHHHHhhccCCCceEEEEEecchhh--------------------------------------HHHH
Confidence 344446899999999999999 6899999997621110 0122
Q ss_pred HHHHhcCCCceEEEE---EEcCChHHHHHHhhhc---CCCcEEEEccCC--CCchhhc-ccccccCCCCccccchhhhh
Q 044080 307 AEFRSKWNGVADYTE---KVTSSIVEGVLTLGRS---GDYDLIIVGKGR--FPSKMIA-KLADRQAEHAELGPIGDILA 376 (419)
Q Consensus 307 ~ef~~~~~~~V~y~e---~~v~~~~e~~~~i~~~---~~~dLviVGR~~--~~s~~~~-gl~~~w~e~~eLG~iGd~La 376 (419)
.+....+-++..-.+ ..-.|+..+..+|.+. .++|||+.|+.. ..+.++- .|++ |-..|.++-+-++-.
T Consensus 73 r~aLAmGaDraili~d~~~~~~d~~~ta~~Laa~~~~~~~~LVl~G~qa~D~~t~qvg~~lAe-~Lg~P~~t~v~~i~~ 150 (260)
T COG2086 73 REALAMGADRAILITDRAFAGADPLATAKALAAAVKKIGPDLVLTGKQAIDGDTGQVGPLLAE-LLGWPQVTYVSKIEI 150 (260)
T ss_pred HHHHhcCCCeEEEEecccccCccHHHHHHHHHHHHHhcCCCEEEEecccccCCccchHHHHHH-HhCCceeeeEEEEEE
Confidence 222222333333222 1223455555556553 348999999987 3333333 3445 666777777666553
No 38
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=57.21 E-value=16 Score=33.26 Aligned_cols=37 Identities=22% Similarity=0.312 Sum_probs=31.2
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeee
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVE 261 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~ 261 (419)
+|+|-+.||+|.-..|.+...+....+..++++++-.
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~~~~~~~~~~~vdh 37 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRRRNGIKLIAVHVDH 37 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHTTTTTEEEEEEEE-
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHHhcCCCeEEEEEec
Confidence 5889999999999999999999998888999999853
No 39
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=55.17 E-value=22 Score=35.50 Aligned_cols=48 Identities=17% Similarity=0.164 Sum_probs=33.2
Q ss_pred HHHHHHHHhc-CCCceEEEEEEc---CChHHHHHHhhhcC------CCcEEEEccCCC
Q 044080 303 ETILAEFRSK-WNGVADYTEKVT---SSIVEGVLTLGRSG------DYDLIIVGKGRF 350 (419)
Q Consensus 303 ~~~i~ef~~~-~~~~V~y~e~~v---~~~~e~~~~i~~~~------~~dLviVGR~~~ 350 (419)
.+|+..++.+ ..-.+.+-...| ....+++.+|+..+ .||+||+|||++
T Consensus 29 ~D~~~~~~~r~~~~~~~~~p~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGGG 86 (319)
T PF02601_consen 29 QDFLRTLKRRNPIVEIILYPASVQGEGAAASIVSALRKANEMGQADDFDVIIIIRGGG 86 (319)
T ss_pred HHHHHHHHHhCCCcEEEEEeccccccchHHHHHHHHHHHHhccccccccEEEEecCCC
Confidence 3677777765 223466666666 34577888887763 389999999973
No 40
>PF03686 UPF0146: Uncharacterised protein family (UPF0146); InterPro: IPR005353 The function of this family of proteins is unknown.; PDB: 2K4M_A.
Probab=52.15 E-value=24 Score=30.83 Aligned_cols=36 Identities=17% Similarity=0.232 Sum_probs=28.4
Q ss_pred EEEEEEEccCCChHHHHHHHHHhcCccEEEecccCC
Q 044080 135 VRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQ 170 (419)
Q Consensus 135 V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~ 170 (419)
..-.++|-|...||..|.++|+.-++||+|.|++..
T Consensus 71 a~lIYSiRPP~El~~~il~lA~~v~adlii~pL~~e 106 (127)
T PF03686_consen 71 ADLIYSIRPPPELQPPILELAKKVGADLIIRPLGGE 106 (127)
T ss_dssp EEEEEEES--TTSHHHHHHHHHHHT-EEEEE-BTTB
T ss_pred CcEEEEeCCChHHhHHHHHHHHHhCCCEEEECCCCC
Confidence 366789999999999999999999999999998743
No 41
>COG3969 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]
Probab=50.97 E-value=19 Score=36.67 Aligned_cols=37 Identities=30% Similarity=0.473 Sum_probs=31.4
Q ss_pred ceEEEEecCCcChHHHHHHHHHHhcCCCe-EEEEEEee
Q 044080 224 QRICIIFFGGPDDREALELGGMMAEHPAV-KLTVIKFV 260 (419)
Q Consensus 224 ~~I~v~F~GG~DDReAL~la~rma~~~~v-~lTVvr~~ 260 (419)
.+|+|-|.||+|.-..|.|+...++.-+. .+.|+.+-
T Consensus 28 ~~VcVSFSGGKDS~lmLhL~~~~ar~~~~~~i~VlfiD 65 (407)
T COG3969 28 PRVCVSFSGGKDSGLMLHLVAEVARENGRDKISVLFID 65 (407)
T ss_pred CeEEEEecCCCchhHHHHHHHHHHHHhCCCceEEEEEc
Confidence 48999999999999999999999966555 68888763
No 42
>KOG0573 consensus Asparagine synthase [Amino acid transport and metabolism]
Probab=49.13 E-value=1.1e+02 Score=32.48 Aligned_cols=76 Identities=21% Similarity=0.312 Sum_probs=50.9
Q ss_pred ceEEEEecCCcChHHHHHHHHHHh-cCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhhH
Q 044080 224 QRICIIFFGGPDDREALELGGMMA-EHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREELD 302 (419)
Q Consensus 224 ~~I~v~F~GG~DDReAL~la~rma-~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D 302 (419)
-+|||+|.||-|--....++-+.+ .|+.|.|-=|-|-.++. . ... ...|++.-
T Consensus 251 s~VcVlfSGGvDs~vvA~l~h~~vp~ne~IdLINVaF~n~e~--~----------~~~--------------~~PDRktg 304 (520)
T KOG0573|consen 251 SNVCVLFSGGVDSTVVAVLAHYVVPENEPIDLINVAFGNPEG--S----------KEQ--------------NVPDRKTG 304 (520)
T ss_pred CcEEEEecCCchHHHHHHHHHhhcCCCCceeEEEeeccCCCc--c----------ccc--------------CCccHHHH
Confidence 479999999999999999998887 66666664444432211 0 000 12456666
Q ss_pred HHHHHHHHhc-CCCceEEEEEEcC
Q 044080 303 ETILAEFRSK-WNGVADYTEKVTS 325 (419)
Q Consensus 303 ~~~i~ef~~~-~~~~V~y~e~~v~ 325 (419)
-.-++||+.. .+-.+.+.|+-|.
T Consensus 305 r~g~~eL~s~~P~R~~nlV~vnV~ 328 (520)
T KOG0573|consen 305 RRGLEELQSLYPKRSWNLVEVNVT 328 (520)
T ss_pred HHHHHHHHHhCCcceEEEEeccCC
Confidence 6778888887 5556778777664
No 43
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=47.71 E-value=1.5e+02 Score=33.77 Aligned_cols=120 Identities=18% Similarity=0.272 Sum_probs=72.0
Q ss_pred cceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeeeCCCCccCCcccCCCCCCCCCcccccccccccccchhhhhhH
Q 044080 223 AQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVEKEGLESDGVMLRPSPSRSGFNRKWSRLRFGFHLKCLREELD 302 (419)
Q Consensus 223 ~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D 302 (419)
..+|+|-.-|++.....++.|.|||..-+...|++++..++..... ....+.++
T Consensus 248 ~e~ilvcI~~~~~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~~--------------------------~~~~~~l~ 301 (890)
T COG2205 248 RERILVCISGSPGSEKLIRRAARLASRLHAKWTAVYVETPELHRLS--------------------------EKEARRLH 301 (890)
T ss_pred cceEEEEECCCCchHHHHHHHHHHHHHhCCCeEEEEEecccccccc--------------------------HHHHHHHH
Confidence 3589999888899999999999999999999999998754431110 01122333
Q ss_pred HHHHHHHHhcCCCceEEEEEEcCChHHHHHHhhhcCCCcEEEEccCCCCchhhcccccccCCCCccccchhhhhcCCCCc
Q 044080 303 ETILAEFRSKWNGVADYTEKVTSSIVEGVLTLGRSGDYDLIIVGKGRFPSKMIAKLADRQAEHAELGPIGDILASSGQGV 382 (419)
Q Consensus 303 ~~~i~ef~~~~~~~V~y~e~~v~~~~e~~~~i~~~~~~dLviVGR~~~~s~~~~gl~~~w~e~~eLG~iGd~Las~d~~~ 382 (419)
.. + ++...... .+....-.|-.+.+..-....+..-+|+||++. + +|.+.-. |.+.|.|+...-+.
T Consensus 302 ~~-~-~Lae~lGa--e~~~l~~~dv~~~i~~ya~~~~~TkiViG~~~~-~--------rw~~~~~-~~l~~~L~~~~~~i 367 (890)
T COG2205 302 EN-L-RLAEELGA--EIVTLYGGDVAKAIARYAREHNATKIVIGRSRR-S--------RWRRLFK-GSLADRLAREAPGI 367 (890)
T ss_pred HH-H-HHHHHhCC--eEEEEeCCcHHHHHHHHHHHcCCeeEEeCCCcc-h--------HHHHHhc-ccHHHHHHhcCCCc
Confidence 32 1 12222222 222222233344333333334578999999972 2 3776322 88888898665333
No 44
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=46.88 E-value=1.9e+02 Score=33.08 Aligned_cols=123 Identities=18% Similarity=0.175 Sum_probs=74.0
Q ss_pred ceEEEEEecCCCCHHHHHHHHHHhcCCCCCcEEEEEEEeeeCCCCchhhHHHHhhhCCCCccccccCCcchHHHHHHHHH
Q 044080 47 VFRILACFHGPGNVSSLISLVEATRSTQKQLKLFIMHLVELTERSSSIIMVQRARKNGLPFINRFRRGEWHDRVAGAFQA 126 (419)
Q Consensus 47 elRILvcv~~~~~v~~ll~Lle~~~~t~~p~~V~~LhLvELt~R~s~~~~~~~~~~~~~~~~~~~~~~~~~d~I~~af~~ 126 (419)
.-||||||..-..-..+++-+..++.. -....+++|+..-.....+. ....++-..++-
T Consensus 248 ~e~ilvcI~~~~~~e~liR~a~RlA~~-~~a~~~av~v~~~~~~~~~~--------------------~~~~~l~~~~~L 306 (890)
T COG2205 248 RERILVCISGSPGSEKLIRRAARLASR-LHAKWTAVYVETPELHRLSE--------------------KEARRLHENLRL 306 (890)
T ss_pred cceEEEEECCCCchHHHHHHHHHHHHH-hCCCeEEEEEeccccccccH--------------------HHHHHHHHHHHH
Confidence 358999999998888888755444432 22356777765432221211 223455555555
Q ss_pred hhhcCceEEEEEEEEccCCChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCC-ccEEE
Q 044080 127 YSQLGRVSVRPTTAISALSTMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAP-CSVGV 203 (419)
Q Consensus 127 f~~~~~V~V~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~Ap-CsVGI 203 (419)
-+++++ .+.+ .. -.+..++|...|+..++.-|++|=+.+.+ +.. -..+.|..++++.+| -+|=|
T Consensus 307 ae~lGa-e~~~--l~--~~dv~~~i~~ya~~~~~TkiViG~~~~~r------w~~--~~~~~l~~~L~~~~~~idv~i 371 (890)
T COG2205 307 AEELGA-EIVT--LY--GGDVAKAIARYAREHNATKIVIGRSRRSR------WRR--LFKGSLADRLAREAPGIDVHI 371 (890)
T ss_pred HHHhCC-eEEE--Ee--CCcHHHHHHHHHHHcCCeeEEeCCCcchH------HHH--HhcccHHHHHHhcCCCceEEE
Confidence 455443 2222 22 26899999999999999999999765533 100 011456777777776 44533
No 45
>PF03652 UPF0081: Uncharacterised protein family (UPF0081); InterPro: IPR005227 Holliday junction resolvases (HJRs) are key enzymes of DNA recombination. The principal HJRs are now known or confidently predicted for all bacteria and archaea whose genomes have been completely sequenced, with many species encoding multiple potential HJRs. Structural and evolutionary relationships of HJRs and related nucleases suggests that the HJR function has evolved independently from at least four distinct structural folds, namely RNase H, endonuclease, endonuclease VII-colicin E and RusA (IPR008822 from INTERPRO): The endonuclease fold, whose structural prototypes are the phage exonuclease, the very short patch repair nuclease (Vsr) and type II restriction enzymes, is shown to encompass by far a greater diversity of nucleases than previously suspected. This fold unifies archaeal HJRs (IPR002732 from INTERPRO), repair nucleases such as RecB (IPR004586 from INTERPRO) and Vsr (IPR004603 from INTERPRO), restriction enzymes and a variety of predicted nucleases whose specific activities remain to be determined. The RNase H fold characterises the RuvC family (IPR002176 from INTERPRO), which is nearly ubiquitous in bacteria, and in addition the YqgF family (IPR005227 from INTERPRO). The proteins of this family, typified by Escherichia coli YqgF, are likely to function as an alternative to RuvC in most bacteria, but could be the principal HJRs in low-GC Gram-positive bacteria and Aquifex. Endonuclease VII of phage T4 (IPR004211 from INTERPRO) is shown to serve as a structural template for many nucleases, including McrA and other type II restriction enzymes. Together with colicin E7, endonuclease VII defines a distinct metal-dependent nuclease fold. Horizontal gene transfer, lineage-specific gene loss and gene family expansion, and non-orthologous gene displacement seem to have been major forces in the evolution of HJRs and related nucleases. A remarkable case of displacement is seen in the Lyme disease spirochete Borrelia burgdorferi, which does not possess any of the typical HJRs, but instead encodes, in its chromosome and each of the linear plasmids, members of the exonuclease family predicted to function as HJRs. The diversity of HJRs and related nucleases in bacteria and archaea contrasts with their near absence in eukaryotes. The few detected eukaryotic representatives of the endonuclease fold and the RNase H fold have probably been acquired from bacteria via horizontal gene transfer. The identity of the principal HJR(s) involved in recombination in eukaryotes remains uncertain; this function could be performed by topoisomerase IB or by a novel, so far undetected, class of enzymes. Likely HJRs and related nucleases were identified in the genomes of numerous bacterial and eukaryotic DNA viruses. Gene flow between viral and cellular genomes has probably played a major role in the evolution of this class of enzymes. This family represents the YqgF family of putative Holliday junction resolvases. With the exception of the spirochetes, the YqgF family is represented in all bacterial lineages, including the mycoplasmas with their highly degenerate genomes. The RuvC resolvases are conspicuously absent in the low-GC Gram-positive bacterial lineage, with the exception of Ureaplasma parvum (Ureaplasma urealyticum biotype 1) (Q9PQY7 from SWISSPROT, []). Furthermore, loss of function ruvC mutants of E. coli show a residual HJR activity that cannot be ascribed to the prophage-encoded RusA resolvase []. This suggests that the YqgF family proteins could be alternative HJRs whose function partially overlaps with that of RuvC [].; GO: 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination, 0006974 response to DNA damage stimulus, 0005737 cytoplasm; PDB: 1NU0_A 1OVQ_A 1NMN_B 1VHX_B 1IV0_A.
Probab=46.15 E-value=61 Score=28.39 Aligned_cols=61 Identities=16% Similarity=0.171 Sum_probs=45.7
Q ss_pred CChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcC-CccEEEEEcCCCC
Q 044080 145 STMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNA-PCSVGVLVDRGFG 210 (419)
Q Consensus 145 ~sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~A-pCsVGIlVDRG~~ 210 (419)
....+.|..++++.+++.|++|+-.+ .||.........+.|.+.+-+.. ++.| +|+|-.+.
T Consensus 37 ~~~~~~l~~li~~~~i~~iVvGlP~~----~~G~~~~~~~~v~~f~~~L~~~~~~ipV-~~~DEr~T 98 (135)
T PF03652_consen 37 EKDIEELKKLIEEYQIDGIVVGLPLN----MDGSESEQARRVRKFAEELKKRFPGIPV-ILVDERLT 98 (135)
T ss_dssp CCCHHHHHHHHHHCCECEEEEEEEBB----CTSSC-CCHHHHHHHHHHHHHHH-TSEE-EEEECSCS
T ss_pred chHHHHHHHHHHHhCCCEEEEeCCcc----cCCCccHHHHHHHHHHHHHHHhcCCCcE-EEECCChh
Confidence 57889999999999999999887544 45654444455678887777776 8898 78887654
No 46
>cd01993 Alpha_ANH_like_II This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=45.41 E-value=33 Score=30.69 Aligned_cols=36 Identities=19% Similarity=0.251 Sum_probs=29.6
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCC--CeEEEEEEee
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHP--AVKLTVIKFV 260 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~--~v~lTVvr~~ 260 (419)
+|++.|.||.|.-.+|.++.+...+- +..+.++++-
T Consensus 1 ~v~v~~SGG~DS~~ll~~l~~~~~~~~~~~~~~~~~~d 38 (185)
T cd01993 1 RILVALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVD 38 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHhhcCCCeEEEEEEEE
Confidence 58899999999999999998877543 6778888774
No 47
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.
Probab=45.06 E-value=26 Score=31.50 Aligned_cols=36 Identities=22% Similarity=0.376 Sum_probs=29.9
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEee
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFV 260 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~ 260 (419)
+|++.|.||.|.-.++.++.+...+-+..+.++++-
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~~~~~~v~~v~id 36 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKPRLGLRLVAVHVD 36 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCcEEEEEec
Confidence 488999999999999999988876545677777763
No 48
>PRK04148 hypothetical protein; Provisional
Probab=42.30 E-value=31 Score=30.42 Aligned_cols=35 Identities=20% Similarity=0.279 Sum_probs=31.1
Q ss_pred EEEEEEccCCChHHHHHHHHHhcCccEEEecccCC
Q 044080 136 RPTTAISALSTMDQDICHVAENKRVTMIILPFHKQ 170 (419)
Q Consensus 136 ~~~t~Vsp~~sm~~dIc~~A~~k~adLIIlP~hk~ 170 (419)
.-.+++-|...|+..|.++|.+-++||+|.|+...
T Consensus 79 ~liysirpp~el~~~~~~la~~~~~~~~i~~l~~e 113 (134)
T PRK04148 79 KLIYSIRPPRDLQPFILELAKKINVPLIIKPLSGE 113 (134)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHcCCCEEEEcCCCC
Confidence 45678889999999999999999999999998643
No 49
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=41.36 E-value=30 Score=34.68 Aligned_cols=36 Identities=11% Similarity=0.119 Sum_probs=29.0
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEee
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFV 260 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~ 260 (419)
+++|.|.||+|.-..|.+|.+........+.++++-
T Consensus 29 ~~vv~~SGGKDS~VLL~La~ka~~~~~~~~~vl~iD 64 (301)
T PRK05253 29 NPVMLYSIGKDSSVMLHLARKAFYPGKLPFPLLHVD 64 (301)
T ss_pred CEEEEecCCHHHHHHHHHHHHhhcccCCCeeEEEEe
Confidence 689999999999999999988765445667777653
No 50
>PF01507 PAPS_reduct: Phosphoadenosine phosphosulfate reductase family; InterPro: IPR002500 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases []. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) [, ]. It is also found in NodP nodulation protein P from Rhizobium meliloti (Sinorhizobium meliloti) which has ATP sulphurylase activity (sulphate adenylate transferase) [].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2GOY_C 3G5A_C 3G6K_D 3G59_A 3FWK_A 2WSI_A 2OQ2_B 1SUR_A 2O8V_A 1ZUN_A.
Probab=37.61 E-value=42 Score=29.50 Aligned_cols=31 Identities=26% Similarity=0.367 Sum_probs=23.9
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEe
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKF 259 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~ 259 (419)
+|++.|.||+|.-.+|.++.+....- .|+.+
T Consensus 1 ~i~vs~SGGKDS~v~l~l~~~~~~~~----~vv~~ 31 (174)
T PF01507_consen 1 NIVVSFSGGKDSTVMLHLAREAGRKV----PVVFI 31 (174)
T ss_dssp SEEEE--SSHHHHHHHHHHHHHHTTC----EEEEE
T ss_pred CeEEEecCCHHHHHHHHHHHHhcCCC----cEEEE
Confidence 48899999999999999999998773 45544
No 51
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=37.35 E-value=48 Score=32.26 Aligned_cols=35 Identities=17% Similarity=0.284 Sum_probs=31.8
Q ss_pred ceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEee
Q 044080 224 QRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFV 260 (419)
Q Consensus 224 ~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~ 260 (419)
.+|+|-+.||+|.-.+|.++..+..+ +.+.++++-
T Consensus 22 ~~ilVavSGGkDS~~ll~~L~~l~~~--~~~~a~~Vd 56 (298)
T COG0037 22 YKILVAVSGGKDSLALLHLLKELGRR--IEVEAVHVD 56 (298)
T ss_pred CeEEEEeCCChHHHHHHHHHHHhccC--ceEEEEEec
Confidence 58999999999999999999999988 888888874
No 52
>PRK08706 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=37.17 E-value=89 Score=30.60 Aligned_cols=63 Identities=19% Similarity=0.250 Sum_probs=42.4
Q ss_pred cchhhHHHhhhcCCccEEEEEcCCCCCCCCCCCCCccccceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeee
Q 044080 185 GWRGVNQRVLKNAPCSVGVLVDRGFGSGSPTPGPTATVAQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVE 261 (419)
Q Consensus 185 ~~r~~n~~VL~~ApCsVGIlVDRG~~~~~~~~~~~~~~~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~ 261 (419)
..+.+.+ .|++.-..||+|.|+..+ ....+.++|||-+ -.......+||...++.+-.+....
T Consensus 165 ~~r~i~k-~L~k~~~~v~~l~Dq~~~-----------~~~gv~v~FfG~~--a~t~~g~a~LA~~~~apvvp~~~~R 227 (289)
T PRK08706 165 GLRALVK-QFRKSSAPFLYLPDQDFG-----------RNDSVFVDFFGIQ--TATITGLSRIAALANAKVIPAIPVR 227 (289)
T ss_pred hHHHHHH-HHHhCCceEEEeCCCCCC-----------CCCCEEeccCCcc--chhhhHHHHHHHhcCCeEEEEEEEE
Confidence 3455553 454455789999998653 1235999999975 3455566788888777776666653
No 53
>cd01713 PAPS_reductase This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly modified version of the P loop, the fingerprint peptide of mononucleotide-binding proteins, is present in the active site of the protein, which appears to be a positively charged cleft containing a number of conserved arginine and lysine residues. Although PAPS reductase has no ATPase activity, it shows a striking similarity to the structure of the ATP pyrophosphatase (ATP PPase) domain of GMP synthetase, indicating that both enzyme families have evolved from a common ancestral nucleotide-binding fold. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) . It is also found in NodP nodulation protein P from Rhizobium meliloti which has ATP sulphurylase acti
Probab=36.00 E-value=43 Score=29.00 Aligned_cols=34 Identities=24% Similarity=0.275 Sum_probs=25.7
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEe
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKF 259 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~ 259 (419)
+|++.|.||+|.-.+|.++.+..... ..+.++.+
T Consensus 1 ~i~v~~SGGkDS~~ll~l~~~~~~~~-~~~~~v~~ 34 (173)
T cd01713 1 NVVVSFSGGKDSTVLLHLALKALPEL-KPVPVIFL 34 (173)
T ss_pred CeEEEecCChHHHHHHHHHHHhcccc-cCceEEEe
Confidence 48899999999999999988876542 34556654
No 54
>TIGR02039 CysD sulfate adenylyltransferase, small subunit. In Escherichia coli, ATP sulfurylase is a heterodimer composed of two subunits encoded by cysD and cysN, with APS kinase encoded by cysC. These genes are located in a unidirectionally transcribed gene cluster, and have been shown to be required for the synthesis of sulfur-containing amino acids. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules.
Probab=35.16 E-value=42 Score=33.53 Aligned_cols=36 Identities=14% Similarity=0.161 Sum_probs=29.2
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEee
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFV 260 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~ 260 (419)
+++|.|.||+|+-.+|.++.+.....+..+.++++-
T Consensus 21 ~~vv~~SGGKDS~VlLhLa~kaf~~~~~p~~vl~ID 56 (294)
T TIGR02039 21 RPVMLYSIGKDSSVLLHLARKAFYPGPLPFPLLHVD 56 (294)
T ss_pred CcEEEEecChHHHHHHHHHHHHhcccCCCeEEEEEe
Confidence 467889999999999999998875445677888773
No 55
>cd01984 AANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide.
Probab=34.32 E-value=55 Score=25.42 Aligned_cols=48 Identities=17% Similarity=0.118 Sum_probs=33.9
Q ss_pred ChHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccch-hhHHHhhhcCCccE
Q 044080 146 TMDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWR-GVNQRVLKNAPCSV 201 (419)
Q Consensus 146 sm~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r-~~n~~VL~~ApCsV 201 (419)
.+.+.+...|++.++++|+++.|.... .+.... + .....+++.++|.|
T Consensus 35 ~~~~~~~~~a~~~~~~~Iv~G~~~~d~--~~~~~~------~~~~~~~~~~~~~~~v 83 (86)
T cd01984 35 AFVRILKRLAAEEGADVIILGHNADDV--AGRRLG------ASANVLVVIKGAGIPV 83 (86)
T ss_pred HHHHHHHHHHHHcCCCEEEEcCCchhh--hhhccC------chhhhhhcccccCCce
Confidence 888999999999999999999985543 111111 1 23346777888876
No 56
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=33.58 E-value=76 Score=33.50 Aligned_cols=46 Identities=22% Similarity=0.236 Sum_probs=30.6
Q ss_pred HHHHHHHhc-CCCceEEEEEEc-CC--hHHHHHHhhhcC---CCcEEEEccCC
Q 044080 304 TILAEFRSK-WNGVADYTEKVT-SS--IVEGVLTLGRSG---DYDLIIVGKGR 349 (419)
Q Consensus 304 ~~i~ef~~~-~~~~V~y~e~~v-~~--~~e~~~~i~~~~---~~dLviVGR~~ 349 (419)
+++..++.+ ..-.|.+-...| .+ +.|++.+|+..+ ++|.+|||||+
T Consensus 151 DIl~~~~rR~P~~~viv~pt~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGG 203 (440)
T COG1570 151 DILHTLSRRFPSVEVIVYPTLVQGEGAAEEIVEAIERANQRGDVDVLIVARGG 203 (440)
T ss_pred HHHHHHHhhCCCCeEEEEeccccCCCcHHHHHHHHHHhhccCCCCEEEEecCc
Confidence 567777766 323444334333 33 588888888874 38999999997
No 57
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=32.40 E-value=77 Score=33.14 Aligned_cols=47 Identities=19% Similarity=0.217 Sum_probs=31.9
Q ss_pred HHHHHHHhcC-CCceEEEEEEcCC---hHHHHHHhhhcCC--CcEEEEccCCC
Q 044080 304 TILAEFRSKW-NGVADYTEKVTSS---IVEGVLTLGRSGD--YDLIIVGKGRF 350 (419)
Q Consensus 304 ~~i~ef~~~~-~~~V~y~e~~v~~---~~e~~~~i~~~~~--~dLviVGR~~~ 350 (419)
+++..+..+. .-+|.+-...|.. ..+++.+|+..+. ||+||+|||++
T Consensus 151 D~~~~~~~r~p~~~~~~~~~~vQG~~A~~~i~~al~~~~~~~~Dviii~RGGG 203 (438)
T PRK00286 151 DILTVLRRRFPLVEVIIYPTLVQGEGAAASIVAAIERANARGEDVLIVARGGG 203 (438)
T ss_pred HHHHHHHhcCCCCeEEEecCcCcCccHHHHHHHHHHHhcCCCCCEEEEecCCC
Confidence 6666666652 2355555555533 3778888888765 79999999973
No 58
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=29.48 E-value=55 Score=33.03 Aligned_cols=35 Identities=11% Similarity=0.141 Sum_probs=28.8
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEe
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKF 259 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~ 259 (419)
+++|.|.||+|+-..|.++.+........+.|+++
T Consensus 39 ~~~v~~SgGKDS~VlLhLa~kaf~~~~~~~pvl~V 73 (312)
T PRK12563 39 KPVMLYSIGKDSVVMLHLAMKAFRPTRPPFPLLHV 73 (312)
T ss_pred CcEEEecCChHHHHHHHHHHHhhcccCCCeeEEEe
Confidence 57899999999999999999987544556777776
No 59
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=29.25 E-value=95 Score=27.28 Aligned_cols=59 Identities=14% Similarity=0.048 Sum_probs=43.1
Q ss_pred hHHHHHHHHHhcCccEEEecccCCCCCCCCCCccccCccchhhHHHhhhcCCccEEEEEcCCCC
Q 044080 147 MDQDICHVAENKRVTMIILPFHKQWRGADDESMENLGHGWRGVNQRVLKNAPCSVGVLVDRGFG 210 (419)
Q Consensus 147 m~~dIc~~A~~k~adLIIlP~hk~~~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVGIlVDRG~~ 210 (419)
..+.|..++.+..++.||+|+=.+ .||.........+.|.+++-+.-++.| +|+|--+.
T Consensus 42 ~~~~l~~~i~~~~i~~iVvGlP~~----~~G~~~~~~~~v~~f~~~L~~~~~~~v-~~~DEr~T 100 (138)
T PRK00109 42 DWDRLEKLIKEWQPDGLVVGLPLN----MDGTEGPRTERARKFANRLEGRFGLPV-VLVDERLS 100 (138)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCC----CCCCcCHHHHHHHHHHHHHHHHhCCCE-EEEcCCcC
Confidence 468899999999999999887544 456544334456778877766668888 78887543
No 60
>TIGR02208 lipid_A_msbB lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase. This family consists of MsbB in E. coli and closely related proteins in other species. MsbB is homologous to HtrB (TIGR02207) and acts immediately after it in the biosynthesis of KDO-2 lipid A (also called Re LPS and Re endotoxin). These two enzymes act after creation of KDO-2 lipid IV-A by addition of the KDO sugars.
Probab=27.71 E-value=1.2e+02 Score=29.96 Aligned_cols=51 Identities=20% Similarity=0.146 Sum_probs=35.6
Q ss_pred CCccEEEEEcCCCCCCCCCCCCCccccceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEee
Q 044080 197 APCSVGVLVDRGFGSGSPTPGPTATVAQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFV 260 (419)
Q Consensus 197 ApCsVGIlVDRG~~~~~~~~~~~~~~~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~ 260 (419)
....||++.|+..+ ....+.++|||-+-- ....+.+||...++.+-.+...
T Consensus 191 ~g~~v~il~Dq~~~-----------~~~gv~v~FfG~~a~--t~~~~a~LA~~~~apvv~~~~~ 241 (305)
T TIGR02208 191 RGESGYYLPDEDHG-----------PEQSVFVPFFATYKA--TLPVVGRLAKAGNAQVVPVFPG 241 (305)
T ss_pred CCCeEEEeCCCCCC-----------CCCCeEeccCCCcch--hHHHHHHHHHhcCCeEEEEEEE
Confidence 55789999998653 123599999997643 3334678888877777766654
No 61
>cd01712 ThiI ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide.
Probab=26.93 E-value=95 Score=27.87 Aligned_cols=33 Identities=18% Similarity=0.200 Sum_probs=26.7
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeee
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVE 261 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~ 261 (419)
+|++.|.||.|.-.++.++.+. +..++.++|..
T Consensus 1 ~vlv~~SGG~DS~~la~ll~~~----g~~v~av~~d~ 33 (177)
T cd01712 1 KALALLSGGIDSPVAAWLLMKR----GIEVDALHFNS 33 (177)
T ss_pred CEEEEecCChhHHHHHHHHHHc----CCeEEEEEEeC
Confidence 4789999999999998888773 56777787753
No 62
>PLN03015 UDP-glucosyl transferase
Probab=26.88 E-value=79 Score=33.71 Aligned_cols=37 Identities=16% Similarity=0.193 Sum_probs=32.8
Q ss_pred cceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEe
Q 044080 223 AQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKF 259 (419)
Q Consensus 223 ~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~ 259 (419)
.|=+++||.|--+=--.|.+|++|+.++++.+|++..
T Consensus 4 pHvvl~P~p~qGHi~P~l~LAk~La~~~g~~vT~v~t 40 (470)
T PLN03015 4 PHALLVASPGLGHLIPILELGNRLSSVLNIHVTILAV 40 (470)
T ss_pred cEEEEECCcccccHHHHHHHHHHHHhCCCCeEEEEEC
Confidence 4668999999999999999999999887889998854
No 63
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=25.68 E-value=1.2e+02 Score=31.76 Aligned_cols=46 Identities=17% Similarity=0.217 Sum_probs=29.3
Q ss_pred HHHHHHHhcC-CCceEEEEEEcCC---hHHHHHHhhhcCC---CcEEEEccCC
Q 044080 304 TILAEFRSKW-NGVADYTEKVTSS---IVEGVLTLGRSGD---YDLIIVGKGR 349 (419)
Q Consensus 304 ~~i~ef~~~~-~~~V~y~e~~v~~---~~e~~~~i~~~~~---~dLviVGR~~ 349 (419)
+++..++.+. .-.|.+-...|.. ..+++.+|+..+. +|+||||||+
T Consensus 145 D~~~~~~~r~p~~~~~~~~~~vQG~~a~~~i~~al~~~~~~~~~dviii~RGG 197 (432)
T TIGR00237 145 DILHILKRRDPSLKVVIYPTLVQGEGAVQSIVESIELANTKNECDVLIVGRGG 197 (432)
T ss_pred HHHHHHHhhCCCceEEEecccccCccHHHHHHHHHHHhhcCCCCCEEEEecCC
Confidence 5666666652 2245544444433 3667777776642 8999999997
No 64
>COG1560 HtrB Lauroyl/myristoyl acyltransferase [Cell envelope biogenesis, outer membrane]
Probab=24.43 E-value=66 Score=32.35 Aligned_cols=63 Identities=24% Similarity=0.374 Sum_probs=44.0
Q ss_pred ccchhhHHHhhhcCCccEEEEEcCCCCCCCCCCCCCccccceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeee
Q 044080 184 HGWRGVNQRVLKNAPCSVGVLVDRGFGSGSPTPGPTATVAQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVE 261 (419)
Q Consensus 184 ~~~r~~n~~VL~~ApCsVGIlVDRG~~~~~~~~~~~~~~~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~ 261 (419)
..++.+.+ .|++--+ ||++.|+-++ ....|+++|||-+ -.......+||...++.+-.++-.-
T Consensus 182 ~~ir~li~-~Lk~G~~-v~~lpDqd~~-----------~~~~vfvpFFg~~--a~T~t~~~~LA~~~~a~vip~~~~r 244 (308)
T COG1560 182 EGIRQLIK-ALKQGEA-VGYLPDQDYG-----------PGESVFVPFFGVP--AATTTGPAKLARLTGAAVVPVFPVR 244 (308)
T ss_pred hhHHHHHH-HHhcCCe-EEEecCcccC-----------CCCCeEeccCCCc--ccccchHHHHHHHhCCCEEEEEEEE
Confidence 45666664 4555444 5999999776 2346899999977 5567788999988886666555543
No 65
>PRK08943 lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase; Validated
Probab=24.36 E-value=1.4e+02 Score=29.63 Aligned_cols=51 Identities=18% Similarity=0.093 Sum_probs=34.3
Q ss_pred CCccEEEEEcCCCCCCCCCCCCCccccceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEee
Q 044080 197 APCSVGVLVDRGFGSGSPTPGPTATVAQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFV 260 (419)
Q Consensus 197 ApCsVGIlVDRG~~~~~~~~~~~~~~~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~ 260 (419)
....||++.|+..+ ....+.++|||-+-- ....+.+||...++.+-.+...
T Consensus 200 ~g~~v~il~Dq~~~-----------~~~gv~v~FfG~~a~--t~~g~a~LA~k~~apvvp~~~~ 250 (314)
T PRK08943 200 QGYWGYYLPDEDHG-----------PEHSVFVDFFATYKA--TLPGIGRLAKVCRARVVPLFPV 250 (314)
T ss_pred CCCeEEEeCCCCCC-----------CCCCEEeCCCCCchh--HhHHHHHHHHHhCCeEEEEEEE
Confidence 55799999998643 123599999997533 3335677887777666555543
No 66
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=23.32 E-value=1.2e+02 Score=32.03 Aligned_cols=38 Identities=32% Similarity=0.413 Sum_probs=31.7
Q ss_pred cceEEEEecCCcChHHHHHHHHHHh-cCCCeEEEEEEee
Q 044080 223 AQRICIIFFGGPDDREALELGGMMA-EHPAVKLTVIKFV 260 (419)
Q Consensus 223 ~~~I~v~F~GG~DDReAL~la~rma-~~~~v~lTVvr~~ 260 (419)
..+|++-+.||+|.-..|.+..++. ..++..++++++-
T Consensus 15 ~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~~~l~a~hvn 53 (436)
T PRK10660 15 SRQILVAFSGGLDSTVLLHLLVQWRTENPGVTLRAIHVH 53 (436)
T ss_pred CCeEEEEecCCHHHHHHHHHHHHHHHhcCCCeEEEEEEe
Confidence 3579999999999998888888776 4568899999984
No 67
>PRK05646 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=22.49 E-value=1.6e+02 Score=29.17 Aligned_cols=60 Identities=20% Similarity=0.250 Sum_probs=39.5
Q ss_pred chhhHHHhhhcCCccEEEEEcCCCCCCCCCCCCCccccceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEee
Q 044080 186 WRGVNQRVLKNAPCSVGVLVDRGFGSGSPTPGPTATVAQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFV 260 (419)
Q Consensus 186 ~r~~n~~VL~~ApCsVGIlVDRG~~~~~~~~~~~~~~~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~ 260 (419)
.+.+.+. | +....||+++|+..+ ....+.++|||-+- .....+.+||...++.|-.+...
T Consensus 183 ~r~ilk~-L-k~g~~v~il~Dq~~~-----------~~~gv~v~FfG~~a--~t~~g~a~LA~~~~apvvp~~~~ 242 (310)
T PRK05646 183 VRGMLKL-L-RAGRAIWYAPDQDYG-----------AKQSIFVPLFGIPA--ATVTATTKFARLGRARVIPFTQK 242 (310)
T ss_pred HHHHHHH-H-hCCCeEEEeCCCCCC-----------CCCCEEecCCCCcc--hhhhHHHHHHHhhCCcEEEEEEE
Confidence 4555533 3 467899999998643 12359999999763 34555677877766666555554
No 68
>COG2117 Predicted subunit of tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=22.24 E-value=1.5e+02 Score=27.29 Aligned_cols=33 Identities=24% Similarity=0.437 Sum_probs=22.8
Q ss_pred eEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEe
Q 044080 225 RICIIFFGGPDDREALELGGMMAEHPAVKLTVIKF 259 (419)
Q Consensus 225 ~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~ 259 (419)
+++++|.||+|.-.|.-+..++--+ ++|.-++|
T Consensus 2 ~v~vLfSGGKDSSLaA~iL~klgye--v~LVTvnF 34 (198)
T COG2117 2 DVYVLFSGGKDSSLAALILDKLGYE--VELVTVNF 34 (198)
T ss_pred ceEEEecCCCchhHHHHHHHHhCCC--cEEEEEEe
Confidence 5889999999997776666666333 34544555
No 69
>PRK00536 speE spermidine synthase; Provisional
Probab=22.14 E-value=3.1e+02 Score=26.90 Aligned_cols=30 Identities=17% Similarity=0.256 Sum_probs=16.9
Q ss_pred cceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEe
Q 044080 223 AQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKF 259 (419)
Q Consensus 223 ~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~ 259 (419)
..+|+++ ||-|- ..++.+.+||. ++++|-+
T Consensus 73 pk~VLIi--GGGDG----g~~REvLkh~~-~v~mVeI 102 (262)
T PRK00536 73 LKEVLIV--DGFDL----ELAHQLFKYDT-HVDFVQA 102 (262)
T ss_pred CCeEEEE--cCCch----HHHHHHHCcCC-eeEEEEC
Confidence 4577665 66553 23344555664 7766643
No 70
>TIGR02207 lipid_A_htrB lipid A biosynthesis lauroyl (or palmitoleoyl) acyltransferase. This model represents a narrow clade of acyltransferases, nearly all of which transfer a lauroyl group to KDO2-lipid IV-A, a lipid A precursor; these proteins are termed lipid A biosynthesis lauroyl acyltransferase, HtrB. An exception is a closely related paralog of E. coli HtrB, LpxP, which acts in cold shock conditions by transferring a palmitoleoyl rather than lauroyl group to the lipid A precursor. Members of this family are homologous to the family of acyltransferases responsible for the next step in lipid A biosynthesis.
Probab=21.99 E-value=1.8e+02 Score=28.63 Aligned_cols=52 Identities=13% Similarity=0.163 Sum_probs=33.0
Q ss_pred CCccEEEEEcCCCCCCCCCCCCCccccceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEee
Q 044080 197 APCSVGVLVDRGFGSGSPTPGPTATVAQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFV 260 (419)
Q Consensus 197 ApCsVGIlVDRG~~~~~~~~~~~~~~~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~ 260 (419)
....|||+.|+..+ ....+.++|||.+|-. .-..+.+||...++.+-.+...
T Consensus 187 ~g~~v~il~Dq~~~-----------~~~g~~v~FfG~~~a~-~~~g~a~LA~~~~apvip~~~~ 238 (303)
T TIGR02207 187 NGERIWYAPDHDYG-----------RKSSVFVPFFAVPDAA-TTTGTSILARLSKCAVVPFTPR 238 (303)
T ss_pred CCCeEEEeCCCCCC-----------CCCcEEeCCCCCCcch-hHHHHHHHHHHhCCeEEEEEEE
Confidence 56799999998653 1245999999987422 3334555665555555544443
No 71
>cd01996 Alpha_ANH_like_III This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domain has a strongly conserved motif SGGKD at the N terminus.
Probab=21.05 E-value=1.4e+02 Score=25.80 Aligned_cols=24 Identities=29% Similarity=0.059 Sum_probs=20.2
Q ss_pred ceEEEEecCCcChHHHHHHHHHHh
Q 044080 224 QRICIIFFGGPDDREALELGGMMA 247 (419)
Q Consensus 224 ~~I~v~F~GG~DDReAL~la~rma 247 (419)
+.+++.|.||.|.-.+|.++.+.-
T Consensus 2 yd~~v~lSGG~DSs~ll~l~~~~~ 25 (154)
T cd01996 2 YDCIIGVSGGKDSSYALYLLKEKY 25 (154)
T ss_pred CCEEEECCCchhHHHHHHHHHHHh
Confidence 458999999999999999887653
No 72
>PRK08733 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=20.94 E-value=1.8e+02 Score=28.81 Aligned_cols=50 Identities=12% Similarity=0.125 Sum_probs=34.0
Q ss_pred CCccEEEEEcCCCCCCCCCCCCCccccceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEe
Q 044080 197 APCSVGVLVDRGFGSGSPTPGPTATVAQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKF 259 (419)
Q Consensus 197 ApCsVGIlVDRG~~~~~~~~~~~~~~~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~ 259 (419)
..-.||++.|+..+ ....+.++|||-+- .....+.+||...++-+-.+..
T Consensus 193 ~g~~v~il~Dq~~~-----------~~~gv~v~FfG~~a--~t~~g~a~LA~~~~apvvp~~~ 242 (306)
T PRK08733 193 RGGFLWYAPDQDMR-----------GKDTVFVPFFGHPA--STITATHQLARLTGCAVVPYFH 242 (306)
T ss_pred CCCeEEEeCCCCCC-----------CCCcEEeCCCCCch--hHHHHHHHHHHHhCCeEEEEEE
Confidence 45689999998653 12359999999763 3555667788777666654433
No 73
>PF15583 Imm41: Immunity protein 41
Probab=20.73 E-value=63 Score=29.27 Aligned_cols=30 Identities=23% Similarity=0.492 Sum_probs=24.9
Q ss_pred EecCCcChHHHHHHHHHHhcCCCeEEEEEEee
Q 044080 229 IFFGGPDDREALELGGMMAEHPAVKLTVIKFV 260 (419)
Q Consensus 229 ~F~GG~DDReAL~la~rma~~~~v~lTVvr~~ 260 (419)
.||||.|| +|.|+.-|...++-.+|+-.+-
T Consensus 9 ~~iG~sDd--sl~L~~yLe~~~ke~itl~eIF 38 (158)
T PF15583_consen 9 NYIGGSDD--SLTLVSYLEDKKKEEITLSEIF 38 (158)
T ss_pred hhcCCchh--HHHHHHHHHhCCCCEeeHHHHH
Confidence 47999998 7888899999999888886553
No 74
>PLN02555 limonoid glucosyltransferase
Probab=20.53 E-value=1.4e+02 Score=31.99 Aligned_cols=37 Identities=19% Similarity=0.317 Sum_probs=32.3
Q ss_pred ccceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEe
Q 044080 222 VAQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKF 259 (419)
Q Consensus 222 ~~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~ 259 (419)
..|=+++||.+.-+=--.|.||++|+.+ ++.+|++.-
T Consensus 7 ~~HVv~~PfpaqGHi~Pml~lA~~La~~-G~~vT~v~T 43 (480)
T PLN02555 7 LVHVMLVSFPGQGHVNPLLRLGKLLASK-GLLVTFVTT 43 (480)
T ss_pred CCEEEEECCcccccHHHHHHHHHHHHhC-CCeEEEEec
Confidence 4567899999999999999999999977 899999864
No 75
>TIGR00342 thiazole biosynthesis/tRNA modification protein ThiI. The protein product of the thiI gene is required for the synthesis of the thiazole moiety in thiamine biosynthesis. It also acts in the generation of 4-thiouridine in tRNA, and may occur in species (such as Mycoplasma genitalium) that lack de novo thiamine biosynthesis.
Probab=20.38 E-value=1.9e+02 Score=29.75 Aligned_cols=35 Identities=14% Similarity=0.231 Sum_probs=28.7
Q ss_pred cceEEEEecCCcChHHHHHHHHHHhcCCCeEEEEEEeee
Q 044080 223 AQRICIIFFGGPDDREALELGGMMAEHPAVKLTVIKFVE 261 (419)
Q Consensus 223 ~~~I~v~F~GG~DDReAL~la~rma~~~~v~lTVvr~~~ 261 (419)
..+++++|.||.|.-.|+.++.+. +..+..++|-.
T Consensus 172 ~~kvlvllSGGiDS~vaa~ll~kr----G~~V~av~~~~ 206 (371)
T TIGR00342 172 QGKVLALLSGGIDSPVAAFMMMKR----GCRVVAVHFFN 206 (371)
T ss_pred CCeEEEEecCCchHHHHHHHHHHc----CCeEEEEEEeC
Confidence 568999999999999998888553 56788888863
No 76
>COG4451 RbcS Ribulose bisphosphate carboxylase small subunit [Energy production and conversion]
Probab=20.09 E-value=1.4e+02 Score=25.87 Aligned_cols=38 Identities=24% Similarity=0.234 Sum_probs=31.4
Q ss_pred cceEEEEecCCcChHHHHHHH-HHHhcCCCeEEEEEEee
Q 044080 223 AQRICIIFFGGPDDREALELG-GMMAEHPAVKLTVIKFV 260 (419)
Q Consensus 223 ~~~I~v~F~GG~DDReAL~la-~rma~~~~v~lTVvr~~ 260 (419)
-.-+..||||+.+..|||+=. .-++.||+--+.|+-|-
T Consensus 53 Wt~wg~p~f~~~~~~evlaele~Cr~dhp~eYIRliGfD 91 (127)
T COG4451 53 WTMWGTPMFGAKTAGEVLAELEACRADHPGEYIRLIGFD 91 (127)
T ss_pred eeecCCccccccchHHHHHHHHHHHHhCCCCeEEEEEec
Confidence 345778999999999999854 66789999988888774
Done!