Query 026946
Match_columns 230
No_of_seqs 107 out of 266
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 02:51:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026946.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026946hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02024 FtcD glutamate formi 100.0 9.4E-89 2E-93 616.8 22.6 210 1-221 65-282 (298)
2 COG3643 Glutamate formiminotra 100.0 1.1E-81 2.4E-86 557.2 18.6 205 1-216 65-273 (302)
3 PF07837 FTCD_N: Formiminotran 100.0 2.4E-49 5.2E-54 337.6 5.4 113 1-124 63-178 (178)
4 PF02971 FTCD: Formiminotransf 100.0 6.2E-34 1.4E-38 235.6 11.2 91 125-216 1-98 (145)
5 PRK14637 hypothetical protein; 70.1 10 0.00022 31.9 5.1 70 6-80 23-98 (151)
6 COG0779 Uncharacterized protei 65.5 15 0.00032 31.2 5.2 45 33-77 47-96 (153)
7 PRK13365 protocatechuate 4,5-d 64.9 23 0.00049 32.4 6.7 71 135-205 95-188 (279)
8 PRK14633 hypothetical protein; 63.9 16 0.00034 30.6 5.1 71 5-80 18-94 (150)
9 PRK14643 hypothetical protein; 62.3 17 0.00036 31.0 5.0 73 5-78 23-102 (164)
10 cd04869 ACT_GcvR_2 ACT domains 59.3 54 0.0012 23.2 6.6 65 138-202 10-77 (81)
11 cd07359 PCA_45_Doxase_B_like S 58.7 30 0.00066 30.8 6.2 71 135-205 91-181 (271)
12 cd07364 PCA_45_Dioxygenase_B S 57.1 37 0.0008 31.0 6.6 71 135-205 95-188 (277)
13 TIGR00250 RNAse_H_YqgF RNAse H 55.5 15 0.00032 29.8 3.4 36 30-65 56-92 (130)
14 cd07363 45_DOPA_Dioxygenase Th 54.1 29 0.00062 31.0 5.3 72 129-205 70-158 (253)
15 PRK14646 hypothetical protein; 52.0 31 0.00066 29.1 4.9 69 6-78 22-98 (155)
16 PRK14647 hypothetical protein; 50.1 41 0.00089 28.3 5.4 70 6-80 23-99 (159)
17 PRK14639 hypothetical protein; 48.7 39 0.00084 28.0 4.9 68 6-78 12-86 (140)
18 cd07949 PCA_45_Doxase_B_like_1 46.5 71 0.0015 29.2 6.7 71 135-205 95-187 (276)
19 COG2984 ABC-type uncharacteriz 46.3 2.7E+02 0.0059 26.6 10.7 142 30-209 37-198 (322)
20 PRK14631 hypothetical protein; 45.5 49 0.0011 28.5 5.2 45 33-77 65-114 (174)
21 cd07368 PhnC_Bs_like PhnC is a 45.3 61 0.0013 29.5 6.0 71 135-205 92-187 (277)
22 PRK14640 hypothetical protein; 44.9 48 0.001 27.7 4.9 70 6-80 21-97 (152)
23 COG0180 TrpS Tryptophanyl-tRNA 43.6 1.1E+02 0.0023 29.0 7.5 76 28-150 147-227 (314)
24 PRK14635 hypothetical protein; 42.3 62 0.0013 27.3 5.3 35 33-67 48-82 (162)
25 PRK00109 Holliday junction res 41.3 35 0.00076 28.0 3.5 36 30-65 62-98 (138)
26 cd07367 CarBb CarBb is the B s 40.6 97 0.0021 28.0 6.6 71 135-205 87-178 (268)
27 PRK14641 hypothetical protein; 40.1 67 0.0014 27.7 5.2 70 6-80 24-104 (173)
28 PRK14638 hypothetical protein; 38.1 70 0.0015 26.8 4.9 69 6-78 23-98 (150)
29 cd04875 ACT_F4HF-DF N-terminal 37.9 1.4E+02 0.0031 20.9 6.6 62 138-201 10-73 (74)
30 PRK13366 protocatechuate 4,5-d 37.7 1.2E+02 0.0027 27.9 6.8 77 129-205 89-188 (284)
31 PRK08508 biotin synthase; Prov 37.3 2E+02 0.0042 26.0 8.0 87 135-222 71-175 (279)
32 PRK13364 protocatechuate 4,5-d 36.2 1.3E+02 0.0029 27.5 6.8 71 135-205 95-187 (278)
33 cd07362 HPCD_like Class III ex 35.7 84 0.0018 28.4 5.4 66 135-205 89-176 (272)
34 PRK13372 pcmA protocatechuate 34.5 1.1E+02 0.0025 30.2 6.4 73 133-205 240-336 (444)
35 cd07371 2A5CPDO_AB The alpha a 33.2 84 0.0018 28.3 5.0 66 135-205 84-171 (268)
36 PF03652 UPF0081: Uncharacteri 32.9 28 0.0006 28.4 1.7 27 38-64 68-95 (135)
37 COG0816 Predicted endonuclease 32.6 56 0.0012 27.3 3.5 35 30-64 61-96 (141)
38 COG0106 HisA Phosphoribosylfor 32.1 68 0.0015 29.3 4.1 83 133-221 59-158 (241)
39 KOG0968 DNA polymerase zeta, c 31.3 57 0.0012 36.2 4.0 57 4-61 1116-1172(1488)
40 cd08060 MPN_UPF0172 Mov34/MPN/ 31.1 1E+02 0.0022 26.5 5.0 47 179-225 48-100 (182)
41 COG3963 Phospholipid N-methylt 30.8 41 0.00089 29.7 2.4 54 8-63 103-158 (194)
42 COG2127 Uncharacterized conser 30.5 1.2E+02 0.0026 24.4 4.9 53 168-227 27-93 (107)
43 PRK12283 tryptophanyl-tRNA syn 30.2 1.8E+02 0.0038 28.5 6.9 118 18-150 130-292 (398)
44 PTZ00397 macrophage migration 29.6 78 0.0017 24.6 3.7 34 25-58 56-92 (116)
45 PF01187 MIF: Macrophage migra 29.5 75 0.0016 24.7 3.6 34 25-58 54-90 (114)
46 PRK12556 tryptophanyl-tRNA syn 29.3 1.4E+02 0.0031 28.0 6.0 36 18-54 137-176 (332)
47 PRK12282 tryptophanyl-tRNA syn 28.3 2.5E+02 0.0053 26.4 7.3 78 29-150 145-224 (333)
48 PF10071 DUF2310: Zn-ribbon-co 28.3 44 0.00095 30.8 2.3 21 44-64 188-208 (258)
49 cd07320 Extradiol_Dioxygenase_ 27.6 2.7E+02 0.0059 24.2 7.2 65 135-205 80-166 (260)
50 TIGR00629 uvde UV damage endon 27.3 1E+02 0.0023 29.0 4.7 45 183-227 91-139 (312)
51 PRK00092 ribosome maturation p 26.8 64 0.0014 26.7 2.9 71 5-80 21-98 (154)
52 PF02119 FlgI: Flagellar P-rin 26.4 1.2E+02 0.0026 29.0 4.9 58 111-174 137-204 (342)
53 PRK13370 mhpB 3-(2,3-dihydroxy 25.6 2.1E+02 0.0045 26.8 6.3 71 135-205 85-174 (313)
54 COG1435 Tdk Thymidine kinase [ 25.3 52 0.0011 29.3 2.1 19 47-65 101-119 (201)
55 PRK14632 hypothetical protein; 25.3 79 0.0017 27.1 3.2 70 6-80 23-98 (172)
56 cd04872 ACT_1ZPV ACT domain pr 25.2 2.4E+02 0.0052 20.5 5.5 79 131-218 4-84 (88)
57 cd07366 3MGA_Dioxygenase Subun 25.1 5.3E+02 0.011 24.3 8.9 71 135-205 148-243 (328)
58 cd07950 Gallate_Doxase_N The N 24.6 2.2E+02 0.0047 26.0 6.1 71 135-205 95-188 (277)
59 PF06792 UPF0261: Uncharacteri 24.5 80 0.0017 30.9 3.4 30 32-61 309-339 (403)
60 PRK14630 hypothetical protein; 24.5 1.1E+02 0.0023 25.5 3.7 66 5-77 22-94 (143)
61 cd04893 ACT_GcvR_1 ACT domains 23.8 2.7E+02 0.0059 19.9 5.5 62 136-202 10-72 (77)
62 PRK02001 hypothetical protein; 23.8 79 0.0017 26.7 2.9 48 32-81 40-91 (152)
63 cd04870 ACT_PSP_1 CT domains f 23.7 2.7E+02 0.0059 19.6 6.3 63 138-203 10-72 (75)
64 COG1671 Uncharacterized protei 23.6 67 0.0014 27.4 2.4 25 176-203 5-29 (150)
65 COG1324 CutA Uncharacterized p 23.6 1.8E+02 0.0038 23.4 4.7 65 131-199 6-77 (104)
66 PRK11589 gcvR glycine cleavage 23.6 3.5E+02 0.0076 23.4 6.9 76 128-203 95-174 (190)
67 cd02106 Band_7 The band 7 doma 23.4 1.4E+02 0.0029 21.8 3.9 37 184-220 81-117 (121)
68 PF13740 ACT_6: ACT domain; PD 23.4 91 0.002 22.4 2.8 60 138-202 13-73 (76)
69 PF00736 EF1_GNE: EF-1 guanine 23.3 2E+02 0.0043 22.0 4.8 47 144-191 20-71 (89)
70 PRK00745 4-oxalocrotonate taut 23.3 1.2E+02 0.0026 20.6 3.3 27 33-59 10-36 (62)
71 COG0141 HisD Histidinol dehydr 23.3 61 0.0013 31.9 2.4 59 35-118 305-369 (425)
72 PF09419 PGP_phosphatase: Mito 23.3 95 0.0021 26.6 3.3 30 46-77 96-125 (168)
73 PRK12706 flgI flagellar basal 23.2 1.9E+02 0.0041 27.7 5.5 43 126-175 181-223 (328)
74 TIGR02298 HpaD_Fe 3,4-dihydrox 22.8 2.1E+02 0.0045 26.1 5.7 75 129-205 86-180 (282)
75 COG1748 LYS9 Saccharopine dehy 22.8 1.6E+02 0.0034 28.7 5.0 70 129-210 26-104 (389)
76 PF02576 DUF150: Uncharacteris 22.8 43 0.00094 27.2 1.1 48 33-80 35-87 (141)
77 PRK13363 protocatechuate 4,5-d 22.6 6.5E+02 0.014 23.8 9.0 70 136-205 153-247 (335)
78 COG5595 Zn-ribbon-containing, 22.4 64 0.0014 29.2 2.1 20 45-64 187-206 (256)
79 PF10539 Dev_Cell_Death: Devel 22.2 1.1E+02 0.0023 25.5 3.3 44 33-87 9-60 (130)
80 PRK13551 agmatine deiminase; P 22.0 2.2E+02 0.0047 27.3 5.8 91 99-201 85-196 (362)
81 cd03400 Band_7_1 A subgroup of 22.0 1.1E+02 0.0024 23.7 3.2 37 184-220 84-120 (124)
82 PF02873 MurB_C: UDP-N-acetyle 21.8 88 0.0019 24.7 2.6 53 4-58 39-96 (105)
83 PRK03011 butyrate kinase; Prov 21.7 60 0.0013 30.8 2.0 47 26-80 99-152 (358)
84 PF03665 UPF0172: Uncharacteri 21.5 1.6E+02 0.0035 25.7 4.5 42 184-225 60-106 (196)
85 PRK02399 hypothetical protein; 21.4 1E+02 0.0022 30.2 3.5 29 33-61 311-340 (406)
86 PRK00124 hypothetical protein; 21.2 70 0.0015 27.1 2.1 25 176-203 4-28 (151)
87 PRK14644 hypothetical protein; 21.1 1.6E+02 0.0035 24.3 4.2 33 35-67 36-69 (136)
88 PF02900 LigB: Catalytic LigB 21.0 2E+02 0.0044 25.3 5.1 70 136-205 94-181 (272)
89 PF00403 HMA: Heavy-metal-asso 20.8 2.7E+02 0.0058 18.6 7.5 48 139-193 11-58 (62)
90 PF00586 AIRS: AIR synthase re 20.8 98 0.0021 22.9 2.6 37 170-206 58-95 (96)
91 PRK14645 hypothetical protein; 20.3 1.2E+02 0.0025 25.6 3.2 69 5-77 23-99 (154)
92 PF07498 Rho_N: Rho terminatio 20.2 1.7E+02 0.0037 19.2 3.4 33 188-224 7-39 (43)
93 PF08013 Tagatose_6_P_K: Tagat 20.0 4.2E+02 0.0092 26.2 7.3 60 169-228 45-118 (424)
No 1
>TIGR02024 FtcD glutamate formiminotransferase. This model covers enzymes from metazoa as well as gram-positive bacteria and archaea. In humans, deficiency of this enzyme results in a disease phenotype. The crystal structure of the enzyme has been studied in the context of the catalytic mechanism.
Probab=100.00 E-value=9.4e-89 Score=616.83 Aligned_cols=210 Identities=26% Similarity=0.470 Sum_probs=202.1
Q ss_pred CHHHHHHhcCCCCCCcCCCCCcccccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcEeeec--ccCCCCCChHHHHhh
Q 026946 1 MADAAYGAINLETHSGAHPRLGVVDDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPVFLYA--AAHPTGKPLDTIRRE 78 (230)
Q Consensus 1 ~~~~A~elIDm~~H~G~HPR~GavDviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPVyLYg--aa~p~rr~La~iRr~ 78 (230)
|+++|+++|||++|+|+|||||||||||||||+++|||||+++|+.+|++||++++||||||| +++|+|++|++||||
T Consensus 65 ~~~~A~elIDm~~H~G~HPR~GAvDvipf~Pl~~~t~eec~~lA~~vg~~i~~~l~VPVyLY~~aA~~p~r~~La~IRrG 144 (298)
T TIGR02024 65 LAKKAAELIDMRNHKGEHPRMGAADVIPFIPVRNVTMEECVELAKEFGKRLGEELGVPVYLYEEAATRPERQTLAAIRKG 144 (298)
T ss_pred HHHHHHHhcCcccccCCCCCCCccceeeeeeCCCCCHHHHHHHHHHHHHHHHHhhCCCEEEehhhccCCCCCCHHHHhhh
Confidence 579999999999999999999999999999999999999999999999999999999999996 578999999999995
Q ss_pred cCccCCCCCCCcccccCCCCC-CCCCCCCCCCCCCCCCCeeeecCCCCeeeeeeeecCCCHHHHHHHHHHhccCCCCCCC
Q 026946 79 LGYYRPNSMGNQWAGWTMPEI-LPERPNEGPIQVSPARGIAMIGARPWVALYNIPIMSTDVAATRRIARMVSARGGGLPT 157 (230)
Q Consensus 79 ~G~f~~~~~~~~~~g~~~~~~-~~~~PD~Gp~~~~p~~Gat~vGAr~~liayNV~L~t~dl~~A~~IA~~vR~~~GGL~~ 157 (230)
||+|+.++++ .+|+|||||+++||++|+|+||||+||+||||||+|+|+++||+||++||+|||||++
T Consensus 145 -----------q~eg~~e~~~~~~~~PD~Gp~~~~p~~Gat~vGAr~~liayNV~L~t~d~~~a~~IAk~vR~~gGGL~~ 213 (298)
T TIGR02024 145 -----------QYEALFEKIKDPKWKPDFGPSEFNPKAGATATGARKFLIAFNVNLGTSNLEIAKKIAKAIRFQGGGLRF 213 (298)
T ss_pred -----------hhccchhhccCCCCCCCCCCCCCCCCCCeEEEecCCceEEEEEeecCCCHHHHHHHHHHhhhcCCCccc
Confidence 8999998875 4999999999999999999999999999999999999999999999999999999999
Q ss_pred ceEeeeecC-CCeEEEEeecCCCCCCCHHHHHHHHHHHHHHcCCcccceeecCCCHHHHH----HHHHH
Q 026946 158 VQTLGLVHG-EDSTEIACMLLEPNQVGADRVQNRVEKLAAEEGLDVEKGYFTDFSPEMIV----EKYMN 221 (230)
Q Consensus 158 VqAmg~~~~-~g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~~~Gv~V~~~y~~~f~~~~il----e~~~~ 221 (230)
||||||+|+ +|++||||||+||++||+|+|||+|+++|++||++|++||++||+|+++| |.+++
T Consensus 214 VqAmgl~~~~~~~vqVsmNl~d~~~t~~~~v~e~v~~~A~~~Gv~V~gse~vGl~P~~al~~~~~~yl~ 282 (298)
T TIGR02024 214 VKAIGLYLEEKNLVQVSMNLTNYEKTPLYRVFELIKMEAQRYGVPVVGSELVGLVPLKALLDVAAYYLR 282 (298)
T ss_pred eEEeeEeecCCCeEEEEeeccCCccCCHHHHHHHHHHHHHHhCCCccccEEecCcHHHHHHHHHHHHhc
Confidence 999999986 69999999999999999999999999999999999999999999999988 77775
No 2
>COG3643 Glutamate formiminotransferase [Amino acid transport and metabolism]
Probab=100.00 E-value=1.1e-81 Score=557.24 Aligned_cols=205 Identities=25% Similarity=0.453 Sum_probs=196.1
Q ss_pred CHHHHHHhcCCCCCCcCCCCCcccccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcEeeec--ccCCCCCChHHHHhh
Q 026946 1 MADAAYGAINLETHSGAHPRLGVVDDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPVFLYA--AAHPTGKPLDTIRRE 78 (230)
Q Consensus 1 ~~~~A~elIDm~~H~G~HPR~GavDviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPVyLYg--aa~p~rr~La~iRr~ 78 (230)
++++|.++|||++|+|+||||||+|||||+||.++|||||+++|+.+|+++|++||||||||+ +++|+|++|++|||+
T Consensus 65 ~ik~AaelIDM~~H~GeHpRmGA~DViPfvPl~d~tteecveiske~gkrvgeelgiPVylYe~aatrp~R~~La~IRkg 144 (302)
T COG3643 65 LIKKAAELIDMRNHKGEHPRMGAADVIPFVPLKDTTTEECVEISKELGKRVGEELGIPVYLYEDAATRPERQNLADIRKG 144 (302)
T ss_pred HHHHHHHhhchhccCCCCCCCCccceeceeecccccHHHHHHHHHHHHHHhhHhhCCcEEEehhhccCcccccHHHHhhh
Confidence 478999999999999999999999999999999999999999999999999999999999998 468999999999996
Q ss_pred cCccCCCCCCCcccccCCCCCC-CCCCCCCCCCCCCCCCeeeecCCCCeeeeeeeecCCCHHHHHHHHHHhccCCCCCCC
Q 026946 79 LGYYRPNSMGNQWAGWTMPEIL-PERPNEGPIQVSPARGIAMIGARPWVALYNIPIMSTDVAATRRIARMVSARGGGLPT 157 (230)
Q Consensus 79 ~G~f~~~~~~~~~~g~~~~~~~-~~~PD~Gp~~~~p~~Gat~vGAr~~liayNV~L~t~dl~~A~~IA~~vR~~~GGL~~ 157 (230)
||||+.+++++ .|+|||||.++||++|+|+||||.|||||||||+|+|++|+|+||++||.++|||++
T Consensus 145 -----------qyE~l~ekikep~WaPDfGp~~~~PtaG~t~iGaR~pLiAfNvNL~t~n~eI~kkIakaiR~s~GG~~~ 213 (302)
T COG3643 145 -----------QYEGLKEKIKEPKWAPDFGPREVHPTAGVTAIGARMPLIAFNVNLDTSNMEIGKKIAKAIRFSSGGLRF 213 (302)
T ss_pred -----------hhhhHHHHhcCcccCCCCCccccCCCCcceEeecccceEEEEeccCcccchHHHHHHHHHhhcCCCeee
Confidence 88999998876 999999999999999999999999999999999999999999999999999999999
Q ss_pred ceEeeee-cCCCeEEEEeecCCCCCCCHHHHHHHHHHHHHHcCCcccceeecCCCHHHHH
Q 026946 158 VQTLGLV-HGEDSTEIACMLLEPNQVGADRVQNRVEKLAAEEGLDVEKGYFTDFSPEMIV 216 (230)
Q Consensus 158 VqAmg~~-~~~g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~~~Gv~V~~~y~~~f~~~~il 216 (230)
|||+|+. .++|++||||||+||++||+|++||+|+.+|.||||.|++|..+|+.|.+.|
T Consensus 214 vkAi~~~L~dk~~vQVSMN~~ny~KtpiyR~fEtiK~EA~Rygv~vv~sEivGl~P~~aL 273 (302)
T COG3643 214 VKAIAVELKDKGIVQVSMNMTNYEKTPIYRVFETIKMEANRYGVNVVGSEIVGLVPEQAL 273 (302)
T ss_pred eeeeeeeeccCCeEEEEEeecccccCcHHHHHHHHHHHHHhcCCCcccceEeccchHHHH
Confidence 9999997 6789999999999999999999999999999999999999987777777543
No 3
>PF07837 FTCD_N: Formiminotransferase domain, N-terminal subdomain; InterPro: IPR012886 The formiminotransferase (FT) domain of formiminotransferase-cyclodeaminase (FTCD) forms a homodimer, with each protomer being comprised of two subdomains. The formiminotransferase domain has an N-terminal subdomain that is made up of a six-stranded mixed beta-pleated sheet and five alpha helices, which are arranged on the external surface of the beta sheet. This, in turn, faces the beta-sheet of the C-terminal subdomain to form a double beta-sheet layer. The two subdomains are separated by a short linker sequence, which is not thought to be any more flexible than the remainder of the molecule. The substrate is predicted to form a number of contacts with residues found in both the N-terminal and C-terminal subdomains []. This entry represents the N-terminal subdomain of the formiminotransferase domain.; GO: 0005542 folic acid binding, 0016740 transferase activity, 0008152 metabolic process; PDB: 2PFD_C 1QD1_B.
Probab=100.00 E-value=2.4e-49 Score=337.64 Aligned_cols=113 Identities=39% Similarity=0.656 Sum_probs=85.2
Q ss_pred CHHHHHHhcCCCCCCcCCCCCcccccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcEeeec--ccCCCCCChHHHHhh
Q 026946 1 MADAAYGAINLETHSGAHPRLGVVDDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPVFLYA--AAHPTGKPLDTIRRE 78 (230)
Q Consensus 1 ~~~~A~elIDm~~H~G~HPR~GavDviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPVyLYg--aa~p~rr~La~iRr~ 78 (230)
|+++|+++|||++|+|+|||||||||||||||+++|||||+++|+++|++||++|+||||||| +++|+||+|++|||+
T Consensus 63 ~~~~A~~~IDm~~H~G~HPRlGavDvipf~Pl~~~t~eec~~~A~~~g~~i~~~l~vPVyLYg~aA~~p~r~~L~~iRrg 142 (178)
T PF07837_consen 63 AIRKALELIDMRKHSGEHPRLGAVDVIPFIPLSGVTMEECAELARELGERIGEELGVPVYLYGEAAAHPERRNLADIRRG 142 (178)
T ss_dssp HHHHHHCC--GGG---SS--SCSEEEEEEEEEES--HHHHHHHHHHHHHHHHHHHT--EEEEETT-SSCCCSSHHHHCTT
T ss_pred HHHHHHHhcchhcccCCCCCCCccceeeeeeCCCCCHHHHHHHHHHHHHHHHHhhCCCEEEehhhhCCcccCcHHHHHHH
Confidence 478999999999999999999999999999999999999999999999999999999999999 689999999999994
Q ss_pred cCccCCCCCCCcccccCCCCC-CCCCCCCCCCCCCCCCCeeeecCCC
Q 026946 79 LGYYRPNSMGNQWAGWTMPEI-LPERPNEGPIQVSPARGIAMIGARP 124 (230)
Q Consensus 79 ~G~f~~~~~~~~~~g~~~~~~-~~~~PD~Gp~~~~p~~Gat~vGAr~ 124 (230)
||+++.++.. .+|+|||||+++||++|+|+||||.
T Consensus 143 -----------e~e~l~~~~~~~~w~PD~Gp~~~~~~~Gat~vGAr~ 178 (178)
T PF07837_consen 143 -----------EYEGLKEKIKDPEWAPDFGPAEFHPTAGATAVGARK 178 (178)
T ss_dssp -----------CCCCHHHHTTSCCC--SBS-S---TTTB-EEEEE-S
T ss_pred -----------HHHhhhhhccCCCCCCCCCCCCCCCCCCeEEEeecC
Confidence 5556665443 3899999999999999999999985
No 4
>PF02971 FTCD: Formiminotransferase domain; InterPro: IPR013802 The formiminotransferase (FT) domain of formiminotransferase-cyclodeaminase (FTCD) forms a homodimer, with each protomer being comprised of two subdomains. The formiminotransferase domain has an N-terminal subdomain that is made up of a six-stranded mixed beta-pleated sheet and five alpha helices, which are arranged on the external surface of the beta sheet. This, in turn, faces the beta-sheet of the C-terminal subdomain to form a double beta-sheet layer. The two subdomains are separated by a short linker sequence, which is not thought to be any more flexible than the remainder of the molecule. The substrate is predicted to form a number of contacts with residues found in both the N-terminal and C-terminal subdomains []. In humans, deficiency of this enzyme results in a disease phenotype []. This entry represents the C-terminal subdomain of the formiminotransferase domain.; GO: 0005542 folic acid binding, 0016740 transferase activity, 0008152 metabolic process; PDB: 1QD1_B 2PFD_C.
Probab=100.00 E-value=6.2e-34 Score=235.62 Aligned_cols=91 Identities=22% Similarity=0.395 Sum_probs=76.8
Q ss_pred CeeeeeeeecCCCHHHHHHHHHHhccCC------CCCCCceEeeee-cCCCeEEEEeecCCCCCCCHHHHHHHHHHHHHH
Q 026946 125 WVALYNIPIMSTDVAATRRIARMVSARG------GGLPTVQTLGLV-HGEDSTEIACMLLEPNQVGADRVQNRVEKLAAE 197 (230)
Q Consensus 125 ~liayNV~L~t~dl~~A~~IA~~vR~~~------GGL~~VqAmg~~-~~~g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~~ 197 (230)
|||||||||+++| ++||+||++||++| |||++||||||+ .++|++||||||+|+++||+|+|||+|+++|++
T Consensus 1 FLIAyNVnLl~T~-~iA~~IA~~iR~sgrg~~~PGgl~~VkAiG~~l~~~~~aQVSmNltd~~~Tpl~~vfe~v~~eA~~ 79 (145)
T PF02971_consen 1 FLIAYNVNLLTTK-EIAKKIAKAIRESGRGKDQPGGLKYVKAIGWYLEERGIAQVSMNLTDYEKTPLHRVFEEVKREAAR 79 (145)
T ss_dssp --EEEEEEESS-H-HHHHHHHHHHCTTTTCTTC--SCTTEEEEEEEETTTTEEEEEEEES-TTTS-HHHHHHHHHHHHHC
T ss_pred CeEEEEeccCCcH-HHHHHHHHHHHhcCCCCCCCCCcceeeEeEEeeccCCeeEEEEeeecCCCCcHHHHHHHHHHHHHH
Confidence 8999999999988 99999999999999 999999999998 457999999999999999999999999999999
Q ss_pred cCCcccceeecCCCHHHHH
Q 026946 198 EGLDVEKGYFTDFSPEMIV 216 (230)
Q Consensus 198 ~Gv~V~~~y~~~f~~~~il 216 (230)
|||+|+||++.|+.|.+.|
T Consensus 80 ~Gv~v~gsElVGlvP~~Al 98 (145)
T PF02971_consen 80 YGVPVVGSELVGLVPLDAL 98 (145)
T ss_dssp TT--EEEEEEES-B-HHHH
T ss_pred hCCCccceEEEccccHHHH
Confidence 9999999988888887654
No 5
>PRK14637 hypothetical protein; Provisional
Probab=70.06 E-value=10 Score=31.86 Aligned_cols=70 Identities=16% Similarity=0.188 Sum_probs=41.5
Q ss_pred HHhcCCCCCC-cCCCCCccc-ccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcEeeecccCC--CC--CChHHHHhhc
Q 026946 6 YGAINLETHS-GAHPRLGVV-DDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPVFLYAAAHP--TG--KPLDTIRREL 79 (230)
Q Consensus 6 ~elIDm~~H~-G~HPR~Gav-DviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPVyLYgaa~p--~r--r~La~iRr~~ 79 (230)
+++.|++-.. |.++-+=+. |. | .++|+++|.++++.|...|-..++..-|.-+=.+| +| +...+.||-.
T Consensus 23 ~eLvdve~~~~~~~~~lrV~ID~----~-~gV~iddC~~vSr~Is~~LD~~~~~~~y~LEVSSPGldRpL~~~~~f~r~~ 97 (151)
T PRK14637 23 CKLVDLSRRVQQAQGRVRAVIYS----A-GGVGLDDCARVHRILVPRLEALGGVRDVFLEVSSPGIERVIKNAAEFSIFV 97 (151)
T ss_pred CEEEEEEEEecCCCcEEEEEEEC----C-CCCCHHHHHHHHHHHHHHhcccccccCcEEEEeCCCCCCCCCCHHHHHHhC
Confidence 4566666543 233333222 42 2 57999999999999999886544444454454555 22 5566666643
Q ss_pred C
Q 026946 80 G 80 (230)
Q Consensus 80 G 80 (230)
|
T Consensus 98 G 98 (151)
T PRK14637 98 G 98 (151)
T ss_pred C
Confidence 3
No 6
>COG0779 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=65.54 E-value=15 Score=31.23 Aligned_cols=45 Identities=18% Similarity=0.338 Sum_probs=33.3
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCc-EeeecccCCC-C---CChHHHHh
Q 026946 33 ARASLDEAAWLAKAVAADIGSRFQVP-VFLYAAAHPT-G---KPLDTIRR 77 (230)
Q Consensus 33 ~~~t~eec~~lA~~la~~i~~~l~vP-VyLYgaa~p~-r---r~La~iRr 77 (230)
+++|+++|.++++.+...+=.+-+++ -|+-+=++|- - +.+.+-+|
T Consensus 47 g~v~lddC~~vSr~is~~LD~edpi~~~Y~LEVSSPGldRpL~~~~~f~r 96 (153)
T COG0779 47 GGVTLDDCADVSRAISALLDVEDPIEGAYFLEVSSPGLDRPLKTAEHFAR 96 (153)
T ss_pred CCCCHHHHHHHHHHHHHHhccCCcccccEEEEeeCCCCCCCcCCHHHHHH
Confidence 78999999999999999888777788 4444666663 3 44445555
No 7
>PRK13365 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=64.90 E-value=23 Score=32.41 Aligned_cols=71 Identities=20% Similarity=0.094 Sum_probs=49.1
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCceEeeeecC--------C---C-----eEEEEeecCCCCCCCH---HHHHHHHHHHH
Q 026946 135 STDVAATRRIARMVSARGGGLPTVQTLGLVHG--------E---D-----STEIACMLLEPNQVGA---DRVQNRVEKLA 195 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~--------~---g-----~~qVS~Nl~d~~~tp~---~~V~e~v~~~A 195 (230)
..|.++|++|++.++++|=.+...+.++|.|+ . + +|+|++|..-....++ ++.=+.|++.+
T Consensus 95 ~g~~eLA~~i~~~~~~~g~~~~~~~~~~lDHG~~vPL~~l~~~~~~~~~pvVpi~in~~~~p~~~~~~~~~lG~al~~~i 174 (279)
T PRK13365 95 RGDVQLQAHIAECLVNDEFDLTVFQDKPIDHGCAAPLPLLWPHVPDWPGTVVPIAINVLQYPLPTARRCYRLGQALRRAI 174 (279)
T ss_pred CCCHHHHHHHHHHHHHcCCCeeeccCCCCCchhhhHHHHhCCccccCCCCeEEEEEecccCCCCCHHHHHHHHHHHHHHH
Confidence 46789999999999987655555556666543 1 2 7999999776666667 44445666666
Q ss_pred HH----cCCcccce
Q 026946 196 AE----EGLDVEKG 205 (230)
Q Consensus 196 ~~----~Gv~V~~~ 205 (230)
.+ .+|-|++|
T Consensus 175 ~~~~~d~rV~iIaS 188 (279)
T PRK13365 175 ESYPEDLRVVVVGT 188 (279)
T ss_pred HhcCcCCCEEEEEe
Confidence 54 36777765
No 8
>PRK14633 hypothetical protein; Provisional
Probab=63.89 E-value=16 Score=30.57 Aligned_cols=71 Identities=14% Similarity=0.162 Sum_probs=43.1
Q ss_pred HHHhcCCCCCCcCCCCCccc-ccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcEeee-cccCC--CC--CChHHHHhh
Q 026946 5 AYGAINLETHSGAHPRLGVV-DDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPVFLY-AAAHP--TG--KPLDTIRRE 78 (230)
Q Consensus 5 A~elIDm~~H~G~HPR~Gav-DviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPVyLY-gaa~p--~r--r~La~iRr~ 78 (230)
-+++.|++-....++.+=+. |. | .|+|+++|.+++|.|+..+=.+-.+|=.+| +=.+| +| ++..+.+|-
T Consensus 18 G~eL~dve~~~~~~~~lrV~ID~----~-~Gv~lddC~~vSr~i~~~LD~~d~i~~~Y~LEVSSPGldRpL~~~~~f~r~ 92 (150)
T PRK14633 18 GYILWGIEVVGSGKLTIRIFIDH----E-NGVSVDDCQIVSKEISAVFDVEDPVSGKYILEVSSPGMNRQIFNIIQAQAL 92 (150)
T ss_pred CCEEEEEEEEeCCCcEEEEEEeC----C-CCCCHHHHHHHHHHHHHHhccCcCCCCCeEEEEeCCCCCCCCCCHHHHHHh
Confidence 35677887664433322222 31 2 589999999999999998865444554433 44555 22 555666664
Q ss_pred cC
Q 026946 79 LG 80 (230)
Q Consensus 79 ~G 80 (230)
.|
T Consensus 93 ~G 94 (150)
T PRK14633 93 VG 94 (150)
T ss_pred CC
Confidence 33
No 9
>PRK14643 hypothetical protein; Provisional
Probab=62.25 E-value=17 Score=31.03 Aligned_cols=73 Identities=5% Similarity=0.089 Sum_probs=43.0
Q ss_pred HHHhcCCCCCCcCCCC-Cccc-ccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcEeee-cccCCC-C---CChHHHHh
Q 026946 5 AYGAINLETHSGAHPR-LGVV-DDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPVFLY-AAAHPT-G---KPLDTIRR 77 (230)
Q Consensus 5 A~elIDm~~H~G~HPR-~Gav-DviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPVyLY-gaa~p~-r---r~La~iRr 77 (230)
-+++.|++-.+...+. +=+. |. |.-|=+++|+++|..+++.++..|=.+-.+|-.+| +=.+|- - ++..+.+|
T Consensus 23 G~eL~die~~~~~~~~~lrV~Id~-~~~~~ggvtldDC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGleRpL~~~~df~r 101 (164)
T PRK14643 23 NLKVYEINNLKEFENDMIQILVED-ILQANKPLDFDILIKANDLVSNKIDQFIKTSEKYLLEISSSGIEKQIRSQEELVK 101 (164)
T ss_pred CCEEEEEEEEecCCCcEEEEEEec-CCCcCCCcCHHHHHHHHHHHHHHhCccCCCCCCeEEEecCCCCCCCCCCHHHHHH
Confidence 3567777766544333 2111 10 00122579999999999999999886656776555 545552 2 44455555
Q ss_pred h
Q 026946 78 E 78 (230)
Q Consensus 78 ~ 78 (230)
-
T Consensus 102 ~ 102 (164)
T PRK14643 102 A 102 (164)
T ss_pred h
Confidence 3
No 10
>cd04869 ACT_GcvR_2 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the second of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR in
Probab=59.26 E-value=54 Score=23.17 Aligned_cols=65 Identities=14% Similarity=0.241 Sum_probs=46.1
Q ss_pred HHHHHHHHHHhccCCCCCCCceEeeeec---CCCeEEEEeecCCCCCCCHHHHHHHHHHHHHHcCCcc
Q 026946 138 VAATRRIARMVSARGGGLPTVQTLGLVH---GEDSTEIACMLLEPNQVGADRVQNRVEKLAAEEGLDV 202 (230)
Q Consensus 138 l~~A~~IA~~vR~~~GGL~~VqAmg~~~---~~g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~~~Gv~V 202 (230)
.-+-.+|++.+.+.+.-+..++...... +.+.....+.+.=+...++.++.+.++.+++++|+.+
T Consensus 10 ~Giv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~p~~~~~~~l~~~l~~l~~~~~~~~ 77 (81)
T cd04869 10 PGIVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLALPAGTDLDALREELEELCDDLNVDI 77 (81)
T ss_pred CCHHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEecCCCCCHHHHHHHHHHHHHHhcceE
Confidence 3455679999999999888887766542 2244433333333455689999999999999999865
No 11
>cd07359 PCA_45_Doxase_B_like Subunit B of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and simlar enzymes. This subfamily of class III extradiol dioxygenases consists of a number of proteins with known enzymatic activities: Protocatechuate (PCA) 4,5-dioxygenase (LigAB), 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), 3-O-Methylgallate Dioxygenase, 2-aminophenol 1,6-dioxygenase, as well as proteins without any known enzymatic activity. These proteins play essential roles in the degradation of aromatic compounds by catalyzing the incorporation of both atoms of molecular oxygen into their preferred substrates. As members of the Class III extradiol dioxygenase family, the enzymes use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like class III enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model repres
Probab=58.66 E-value=30 Score=30.80 Aligned_cols=71 Identities=15% Similarity=0.090 Sum_probs=43.6
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCceEeeeecC-------------CCeEEEEeecCCCCCCCHHHHHHHHHHHHH-----
Q 026946 135 STDVAATRRIARMVSARGGGLPTVQTLGLVHG-------------EDSTEIACMLLEPNQVGADRVQNRVEKLAA----- 196 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~-------------~g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~----- 196 (230)
..|.++|++|.+.++..+==......+++.|+ --+||||||...+..-++.+.++.-+.+++
T Consensus 91 ~~d~elA~~i~~~~~~~g~~~a~~~~~~lDHg~~vpL~~l~~~~~~pvVpvsv~~~~~~~~~~~~~~~lG~aL~~~i~~~ 170 (271)
T cd07359 91 PGDADLARHLLAGLVEDGFDVAFSYELRLDHGITVPLHFLDPDNDVPVVPVLVNCVTPPLPSLRRCYALGRALRRAIESF 170 (271)
T ss_pred CCCHHHHHHHHHHHHHcCCCeeccCCCCCCcchhhHHHHhcCCCCCCEEEEEecccCCCCCCHHHHHHHHHHHHHHHHhc
Confidence 36789999999887754311111112333333 147999999887665677766655555544
Q ss_pred --HcCCcccce
Q 026946 197 --EEGLDVEKG 205 (230)
Q Consensus 197 --~~Gv~V~~~ 205 (230)
+.+|-|++|
T Consensus 171 ~~d~rV~iIaS 181 (271)
T cd07359 171 PGDLRVAVLGT 181 (271)
T ss_pred CCCCcEEEEec
Confidence 346777775
No 12
>cd07364 PCA_45_Dioxygenase_B Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate. Protocatechuate 4,5-dioxygenase (LigAB) catalyzes the oxidization and subsequent ring-opening of protocatechuate (or 3,4-dihydroxybenzoic acid, PCA), an intermediate in the breakdown of lignin and other compounds. Protocatechuate 4,5-dioxygenase is an aromatic ring opening dioxygenase belonging to the class III extradiol enzyme family, a group of enyzmes that cleaves aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon using a non-heme Fe(II). LigAB is composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. The B subunit (LigB) is the catalytic subunit of LigAB.
Probab=57.05 E-value=37 Score=31.03 Aligned_cols=71 Identities=10% Similarity=0.101 Sum_probs=46.0
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCceEeeeecC----------C-C-----eEEEEeecCCCCCCCHHHHHHH---HHHHH
Q 026946 135 STDVAATRRIARMVSARGGGLPTVQTLGLVHG----------E-D-----STEIACMLLEPNQVGADRVQNR---VEKLA 195 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~----------~-g-----~~qVS~Nl~d~~~tp~~~V~e~---v~~~A 195 (230)
..|.++|++|++.+++.|=-...++.++|.|+ + + +||||+|...+...++.+.++. |++.+
T Consensus 95 ~g~~~LA~~i~~~~~~~g~~~~~~~~~~lDHG~~vPL~~l~p~~~~~p~pVV~vsvn~~~~p~~~~~~~~~lG~al~~~i 174 (277)
T cd07364 95 QGHPDLAWHIAQSLILDDFDMTIVNEMDVDHGLTVPLSIMYGQPEAWPCKVIPLCVNVVQYPQPTGKRCFALGKAIRRAV 174 (277)
T ss_pred CCCHHHHHHHHHHHHHcCCCEEecCCCCCCcchhhhHHHhCCccccCCCCeEEEEeccCCCCCCCHHHHHHHHHHHHHHH
Confidence 56889999999999876422223333444443 1 1 5999999887777777776654 44444
Q ss_pred HH----cCCcccce
Q 026946 196 AE----EGLDVEKG 205 (230)
Q Consensus 196 ~~----~Gv~V~~~ 205 (230)
++ .+|-|++|
T Consensus 175 ~~~~rd~rV~iIaS 188 (277)
T cd07364 175 ESYDEDLKVAIWGT 188 (277)
T ss_pred HhcCcCCCEEEEec
Confidence 33 55777765
No 13
>TIGR00250 RNAse_H_YqgF RNAse H-fold protein YqgF. This protein family, which exhibits an RNAse H fold in crystal structure, has been proposed as a putative Holliday junction resolvase, an alternate to RuvC.
Probab=55.51 E-value=15 Score=29.85 Aligned_cols=36 Identities=28% Similarity=0.381 Sum_probs=28.4
Q ss_pred eeCC-CCCHHHHHHHHHHHHHHHhhhcCCcEeeeccc
Q 026946 30 HPLA-RASLDEAAWLAKAVAADIGSRFQVPVFLYAAA 65 (230)
Q Consensus 30 ~Pl~-~~t~eec~~lA~~la~~i~~~l~vPVyLYgaa 65 (230)
.|+. +-|..+-...++.++++|..++++||+|+-+.
T Consensus 56 lP~~~dG~~~~~a~~v~~f~~~L~~~~~~~v~~~DEr 92 (130)
T TIGR00250 56 LPLNMDGTEGPLTERAQKFANRLEGRFGVPVVLWDER 92 (130)
T ss_pred ccCCCCcCcCHHHHHHHHHHHHHHHHhCCCEEEEcCC
Confidence 4554 45556667789999999999999999999754
No 14
>cd07363 45_DOPA_Dioxygenase The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine. This subfamily is composed of plant 4,5-DOPA Dioxygenase, the uncharacterized Escherichia coli protein Jw3007, and similar proteins. 4,5-DOPA Dioxygenase catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine (4,5-DOPA). The reaction results in the opening of the cyclic ring between carbons 4 and 5 and producing an unstable seco-DOPA that rearranges to betalamic acid. 4,5-DOPA Dioxygenase is a key enzyme in the biosynthetic pathway of the plant pigment betalain. Homologs of DODA are present not only in betalain-producing plants but also in bacteria and archaea. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated ca
Probab=54.14 E-value=29 Score=30.96 Aligned_cols=72 Identities=17% Similarity=0.181 Sum_probs=46.2
Q ss_pred eeeeec-CCCHHHHHHHHHHhccCCCCCCCceEeeeecC----------C---CeEEEEeecCCCCCCCHHHHHH---HH
Q 026946 129 YNIPIM-STDVAATRRIARMVSARGGGLPTVQTLGLVHG----------E---DSTEIACMLLEPNQVGADRVQN---RV 191 (230)
Q Consensus 129 yNV~L~-t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~----------~---g~~qVS~Nl~d~~~tp~~~V~e---~v 191 (230)
|.|... ..|.++|++|++.+++.|=-......++|.|+ + -+||||+|... ++.+.++ .+
T Consensus 70 y~~~y~~~g~~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~vPL~~~~p~~~iPvV~isi~~~~----~~~~~~~lG~aL 145 (253)
T cd07363 70 YEIQYPAPGSPELAERVAELLKAAGIPARLDPERGLDHGAWVPLKLMYPDADIPVVQLSLPASL----DPAEHYALGRAL 145 (253)
T ss_pred eeccCCCCCCHHHHHHHHHHHHhcCCCccccCCcCCcccHHHHHHHHcCCCCCcEEEEEecCCC----CHHHHHHHHHHH
Confidence 555444 47889999999999875422223334666564 1 57999999772 4455444 44
Q ss_pred HHHHHHcCCcccce
Q 026946 192 EKLAAEEGLDVEKG 205 (230)
Q Consensus 192 ~~~A~~~Gv~V~~~ 205 (230)
++ +.+.+|-|++|
T Consensus 146 ~~-l~~~~v~ii~S 158 (253)
T cd07363 146 AP-LRDEGVLIIGS 158 (253)
T ss_pred Hh-hhhCCEEEEec
Confidence 44 33558888876
No 15
>PRK14646 hypothetical protein; Provisional
Probab=52.05 E-value=31 Score=29.06 Aligned_cols=69 Identities=9% Similarity=0.095 Sum_probs=42.0
Q ss_pred HHhcCCCCCC-cCCCCCccc-ccccceeC-CCCCHHHHHHHHHHHHHHHhhhcCCcEeee-cccCC--CC--CChHHHHh
Q 026946 6 YGAINLETHS-GAHPRLGVV-DDIVFHPL-ARASLDEAAWLAKAVAADIGSRFQVPVFLY-AAAHP--TG--KPLDTIRR 77 (230)
Q Consensus 6 ~elIDm~~H~-G~HPR~Gav-DviPf~Pl-~~~t~eec~~lA~~la~~i~~~l~vPVyLY-gaa~p--~r--r~La~iRr 77 (230)
+++.|++-+. |..+.+=+. | .|= .++|+++|..+++.|...+=.+-.+|=.+| +=.+| +| ++..+.+|
T Consensus 22 ~eLvdve~~~~~~~~~LrV~ID----k~~g~gVtldDC~~vSr~is~~LD~~D~i~~~Y~LEVSSPGldRpL~~~~df~r 97 (155)
T PRK14646 22 LKICSLNIQTNQNPIVIKIIIK----KTNGDDISLDDCALFNTPASEEIENSNLLNCSYVLEISSQGVSDELTSERDFKT 97 (155)
T ss_pred CEEEEEEEEeCCCCeEEEEEEE----CCCCCCccHHHHHHHHHHHHHHhCcCCCCCCCeEEEEcCCCCCCcCCCHHHHHH
Confidence 5677887655 444433322 3 121 259999999999999998875545664444 44555 22 44556666
Q ss_pred h
Q 026946 78 E 78 (230)
Q Consensus 78 ~ 78 (230)
-
T Consensus 98 ~ 98 (155)
T PRK14646 98 F 98 (155)
T ss_pred h
Confidence 3
No 16
>PRK14647 hypothetical protein; Provisional
Probab=50.12 E-value=41 Score=28.27 Aligned_cols=70 Identities=19% Similarity=0.256 Sum_probs=43.5
Q ss_pred HHhcCCCCCC-cCCCCCccc-ccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcE-eeecccCCC--C--CChHHHHhh
Q 026946 6 YGAINLETHS-GAHPRLGVV-DDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPV-FLYAAAHPT--G--KPLDTIRRE 78 (230)
Q Consensus 6 ~elIDm~~H~-G~HPR~Gav-DviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPV-yLYgaa~p~--r--r~La~iRr~ 78 (230)
++|.|++-+. |.++.+=+. |- =.++|+++|..+++.|...+=.+-.+|= |.-+=.+|- | +...+.+|-
T Consensus 23 ~~L~dv~~~~~~~~~~lrV~ID~-----~~gvslddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPG~~RpL~~~~~f~r~ 97 (159)
T PRK14647 23 LELVELEYKREGREMVLRLFIDK-----EGGVNLDDCAEVSRELSEILDVEDFIPERYTLEVSSPGLDRPLKKEADYERY 97 (159)
T ss_pred CEEEEEEEEecCCCeEEEEEEeC-----CCCCCHHHHHHHHHHHHHHHcccccCCCCeEEEEcCCCCCCcCCCHHHHHHh
Confidence 5678888775 445544433 42 2579999999999999998864433552 333545552 2 455566664
Q ss_pred cC
Q 026946 79 LG 80 (230)
Q Consensus 79 ~G 80 (230)
.|
T Consensus 98 ~G 99 (159)
T PRK14647 98 AG 99 (159)
T ss_pred CC
Confidence 33
No 17
>PRK14639 hypothetical protein; Provisional
Probab=48.69 E-value=39 Score=27.98 Aligned_cols=68 Identities=12% Similarity=0.108 Sum_probs=42.1
Q ss_pred HHhcCCCCCCc-CCCCCccc-ccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcEeee-cccCCC-C---CChHHHHhh
Q 026946 6 YGAINLETHSG-AHPRLGVV-DDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPVFLY-AAAHPT-G---KPLDTIRRE 78 (230)
Q Consensus 6 ~elIDm~~H~G-~HPR~Gav-DviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPVyLY-gaa~p~-r---r~La~iRr~ 78 (230)
+++.|++-+.. .++-+=+. |. =.++|+++|.++++.|.+.+-.+-.+|--+| +=.+|- - ++..+.+|-
T Consensus 12 ~eLvdve~~~~~~~~~lrV~Id~-----~~gv~iddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGl~RpL~~~~~f~r~ 86 (140)
T PRK14639 12 VSFYDDELVSENGRKIYRVYITK-----EGGVNLDDCERLSELLSPIFDVEPPVSGEYFLEVSSPGLERKLSKIEHFAKS 86 (140)
T ss_pred CEEEEEEEEecCCCcEEEEEEeC-----CCCCCHHHHHHHHHHHHHHhccccccCCCeEEEEeCCCCCCcCCCHHHHHHh
Confidence 67888887764 44434332 41 2679999999999999998875444553323 434442 2 445555553
No 18
>cd07949 PCA_45_Doxase_B_like_1 The B subunit of unknown Class III extradiol dioxygenases with similarity to Protocatechuate 4,5-dioxygenase. This subfamily is composed of proteins of unknown function with similarity to the B subunit of Protocatechuate 4,5-dioxygenase (LigAB). LigAB belongs to the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Dioxygenases play key roles in the degradation of aromatic compounds. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=46.52 E-value=71 Score=29.17 Aligned_cols=71 Identities=8% Similarity=0.034 Sum_probs=45.6
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCceEeeeecC----------C-C----eEEEEeecCCCCCCCHHHHH---HHHHHHHH
Q 026946 135 STDVAATRRIARMVSARGGGLPTVQTLGLVHG----------E-D----STEIACMLLEPNQVGADRVQ---NRVEKLAA 196 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~----------~-g----~~qVS~Nl~d~~~tp~~~V~---e~v~~~A~ 196 (230)
..|.++|++|++.+.+.|==+.....+++.|+ + + ++|||+|..-+...++.+.+ +.|++.+.
T Consensus 95 ~g~~~LA~~i~~~~~~~g~d~~~~~~~~lDHG~~vPL~~l~~~~d~~~pvV~i~~n~~~~p~~~~~~~~~lG~al~~~i~ 174 (276)
T cd07949 95 KGDPELSWHLIESLVEDEFDITTCQEMLVDHACTLPMQLFWPGAEWPIKVVPVSINTVQHPLPSPKRCFKLGQAIGRAIE 174 (276)
T ss_pred CCCHHHHHHHHHHHHHcCCCeeccCCCCCCcchhhHHHHhcCccCCCCCEEEEEeccCCCCCCCHHHHHHHHHHHHHHHH
Confidence 46789999999999875422223344555554 1 1 68999998866567774444 45556555
Q ss_pred H----cCCcccce
Q 026946 197 E----EGLDVEKG 205 (230)
Q Consensus 197 ~----~Gv~V~~~ 205 (230)
+ .+|-+++|
T Consensus 175 ~~~~d~rv~iiaS 187 (276)
T cd07949 175 SYPEDLRVVVLGT 187 (276)
T ss_pred hcCcCCCEEEEEe
Confidence 4 36777765
No 19
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=46.32 E-value=2.7e+02 Score=26.56 Aligned_cols=142 Identities=21% Similarity=0.288 Sum_probs=82.0
Q ss_pred eeCCCCCHHHHHHHHHHHHHHHhhhcCCcEeeecccCCCCCChHHHHhhcCccCCCCCCCcccccCCCCCCCCCCCC---
Q 026946 30 HPLARASLDEAAWLAKAVAADIGSRFQVPVFLYAAAHPTGKPLDTIRRELGYYRPNSMGNQWAGWTMPEILPERPNE--- 106 (230)
Q Consensus 30 ~Pl~~~t~eec~~lA~~la~~i~~~l~vPVyLYgaa~p~rr~La~iRr~~G~f~~~~~~~~~~g~~~~~~~~~~PD~--- 106 (230)
.++..-.+++|.+--+.--++.|-. -++|.|-.++-+-..+++|=|+| . ...||.
T Consensus 37 ~~veHpaLd~~~~G~~~aLk~~G~~--n~~i~~~na~~~~~~a~~iarql------------~--------~~~~dviv~ 94 (322)
T COG2984 37 QFVEHPALDAAREGVKEALKDAGYK--NVKIDYQNAQGDLGTAAQIARQL------------V--------GDKPDVIVA 94 (322)
T ss_pred EeecchhHHHHHHHHHHHHHhcCcc--CeEEEeecCCCChHHHHHHHHHh------------h--------cCCCcEEEe
Confidence 3444556888887665555555533 68999988887888888888852 1 112332
Q ss_pred --CCCC---CCCC-------CCee-eecCCC--Ceee--eeeeecCCCHHHHHHHHHHhccCCCCCCCceEeeeecCCCe
Q 026946 107 --GPIQ---VSPA-------RGIA-MIGARP--WVAL--YNIPIMSTDVAATRRIARMVSARGGGLPTVQTLGLVHGEDS 169 (230)
Q Consensus 107 --Gp~~---~~p~-------~Gat-~vGAr~--~lia--yNV~L~t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~~g~ 169 (230)
+|.. .+.+ +++| .+||+- =+-. =||+--.+-+.+++.|... --=||++|-+|++.
T Consensus 95 i~tp~Aq~~~s~~~~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~li----k~~~Pnak~Igv~Y---- 166 (322)
T COG2984 95 IATPAAQALVSATKTIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELI----KALLPNAKSIGVLY---- 166 (322)
T ss_pred cCCHHHHHHHHhcCCCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHH----HHhCCCCeeEEEEe----
Confidence 1110 0011 1222 444441 1111 3555544444466655521 11279999999953
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHHHHHHcCCcccceeecC
Q 026946 170 TEIACMLLEPNQVGADRVQNRVEKLAAEEGLDVEKGYFTD 209 (230)
Q Consensus 170 ~qVS~Nl~d~~~tp~~~V~e~v~~~A~~~Gv~V~~~y~~~ 209 (230)
++...-.-...|+++++|+..|+.|+..+.++
T Consensus 167 --------~p~E~ns~~l~eelk~~A~~~Gl~vve~~v~~ 198 (322)
T COG2984 167 --------NPGEANSVSLVEELKKEARKAGLEVVEAAVTS 198 (322)
T ss_pred --------CCCCcccHHHHHHHHHHHHHCCCEEEEEecCc
Confidence 12233345678999999999999999875533
No 20
>PRK14631 hypothetical protein; Provisional
Probab=45.45 E-value=49 Score=28.48 Aligned_cols=45 Identities=9% Similarity=0.203 Sum_probs=29.6
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcE-eeecccCCC-C---CChHHHHh
Q 026946 33 ARASLDEAAWLAKAVAADIGSRFQVPV-FLYAAAHPT-G---KPLDTIRR 77 (230)
Q Consensus 33 ~~~t~eec~~lA~~la~~i~~~l~vPV-yLYgaa~p~-r---r~La~iRr 77 (230)
+++|+++|..+++.|+..|=.+-.+|= |.-+=.+|- - ++..+.+|
T Consensus 65 ~gvtiddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGldRpL~~~~df~r 114 (174)
T PRK14631 65 RGIGVEDCVRVTQQVGAMLDVHDPISGEYALEVSSPGWDRPFFQLEQLQG 114 (174)
T ss_pred CCcCHHHHHHHHHHHHHHhcccccCCCCeEEEEeCCCCCCcCCCHHHHHH
Confidence 469999999999999998875444553 333445552 2 44555555
No 21
>cd07368 PhnC_Bs_like PhnC is a Class III Extradiol ring-cleavage dioxygenase involved in the polycyclic aromatic hydrocarbon (PAH) catabolic pathway. This subfamily is composed of Burkholderia sp. PhnC and similar poteins. PhnC is one of nine protein products encoded by the phn locus. These proteins are involved in the polycyclic aromatic hydrocarbon (PAH) catabolic pathway. PhnC is a member of the class III extradiol dioxygenase family, a group os enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=45.26 E-value=61 Score=29.46 Aligned_cols=71 Identities=8% Similarity=0.023 Sum_probs=46.4
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCceEeeeecC--------CC----------eEEEEeecCCCCCCCHHHHHHHHHHHHH
Q 026946 135 STDVAATRRIARMVSARGGGLPTVQTLGLVHG--------ED----------STEIACMLLEPNQVGADRVQNRVEKLAA 196 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~--------~g----------~~qVS~Nl~d~~~tp~~~V~e~v~~~A~ 196 (230)
..|.++|++|++.+...|=-....+.+++.|+ .. .+.|++|+.-+...|+.+.++.=+.+++
T Consensus 92 ~g~~eLA~~i~~~l~~~g~~~~~~~~~~lDHG~~vPL~~l~~~~~~~~~~~p~VPV~~n~~~~p~~~~~~~~~lG~al~~ 171 (277)
T cd07368 92 ENNEPLAHHIMQHGLEYGIDWAVARSFTVDHAATIPIHLAVRPVRAKGKGMRAIPVYLATGVDPFITSWRAHELGRVIGA 171 (277)
T ss_pred cCCHHHHHHHHHHHHHcCCCEeeecCcCCCcchhccHHHHhCcccccCCCCCeEEEEEecccCCCCCHHHHHHHHHHHHH
Confidence 35779999999999864311222233444443 11 6899999875556778887776665555
Q ss_pred -------HcCCcccce
Q 026946 197 -------EEGLDVEKG 205 (230)
Q Consensus 197 -------~~Gv~V~~~ 205 (230)
+.+|-|++|
T Consensus 172 ai~~~~~d~rVliIaS 187 (277)
T cd07368 172 AVEAWQGDERVAIIGS 187 (277)
T ss_pred HHHhcCCCCCEEEEEc
Confidence 468888876
No 22
>PRK14640 hypothetical protein; Provisional
Probab=44.94 E-value=48 Score=27.72 Aligned_cols=70 Identities=17% Similarity=0.264 Sum_probs=43.8
Q ss_pred HHhcCCCCCC-cCCCCCccc-ccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcE-eeecccCC--CC--CChHHHHhh
Q 026946 6 YGAINLETHS-GAHPRLGVV-DDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPV-FLYAAAHP--TG--KPLDTIRRE 78 (230)
Q Consensus 6 ~elIDm~~H~-G~HPR~Gav-DviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPV-yLYgaa~p--~r--r~La~iRr~ 78 (230)
+++.|++-+. |.++-+=+. |. | .++|+++|..+++.|...+=.+-.+|= |.-+=.+| +| +...+.+|-
T Consensus 21 ~el~dve~~~~~~~~~lrV~ID~----~-~gv~lddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGl~RpL~~~~~f~r~ 95 (152)
T PRK14640 21 FELWGIEFIRAGKHSTLRVYIDG----E-NGVSVENCAEVSHQVGAIMDVEDPITEEYYLEVSSPGLDRPLFKVAQFEKY 95 (152)
T ss_pred CEEEEEEEEecCCCcEEEEEEEC----C-CCCCHHHHHHHHHHHHHHhcccccCCCCeEEEEeCCCCCCcCCCHHHHHHh
Confidence 5677887654 556655443 42 2 579999999999999888864433442 33344555 22 556666664
Q ss_pred cC
Q 026946 79 LG 80 (230)
Q Consensus 79 ~G 80 (230)
.|
T Consensus 96 ~G 97 (152)
T PRK14640 96 VG 97 (152)
T ss_pred CC
Confidence 44
No 23
>COG0180 TrpS Tryptophanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=43.56 E-value=1.1e+02 Score=28.98 Aligned_cols=76 Identities=16% Similarity=0.281 Sum_probs=47.4
Q ss_pred cceeCCCCCHHHHHHHHHHHHHHHhhhcC----CcEeeecccCCCCCChHHHHhhcCccCCCCCCCcccccCCCCCCCCC
Q 026946 28 VFHPLARASLDEAAWLAKAVAADIGSRFQ----VPVFLYAAAHPTGKPLDTIRRELGYYRPNSMGNQWAGWTMPEILPER 103 (230)
Q Consensus 28 Pf~Pl~~~t~eec~~lA~~la~~i~~~l~----vPVyLYgaa~p~rr~La~iRr~~G~f~~~~~~~~~~g~~~~~~~~~~ 103 (230)
-+||+ |..-+.=++|+|.||+++...++ .|--+|.. ..+-
T Consensus 147 ~~VPV-G~DQ~qHleLtRDiA~rfn~~y~~~f~~P~~~~~~-----------------------------------~~~i 190 (314)
T COG0180 147 TLVPV-GEDQDQHLELTRDIARRFNHLYGEVFPLPEALISK-----------------------------------VARL 190 (314)
T ss_pred Ceecc-CCCchHHHHHHHHHHHHHHhhcCCccCCccccccC-----------------------------------CCcc
Confidence 36788 46777889999999999986433 22222211 0234
Q ss_pred CCC-CCCCCCCCCCeeeecCCCCeeeeeeeecCCCHHHHHHHHHHhcc
Q 026946 104 PNE-GPIQVSPARGIAMIGARPWVALYNIPIMSTDVAATRRIARMVSA 150 (230)
Q Consensus 104 PD~-Gp~~~~p~~Gat~vGAr~~liayNV~L~t~dl~~A~~IA~~vR~ 150 (230)
|+. ||.+++.+.+-++ |+|..+.-.+.|||-++.--
T Consensus 191 ~gL~g~~KMSkS~~ns~-----------I~L~D~~~~i~kKI~~~~td 227 (314)
T COG0180 191 PGLDGPGKMSKSDPNSA-----------IFLLDDPKTIRKKIKKAATD 227 (314)
T ss_pred cCCCCCCcccccCCCCe-----------eeccCCHHHHHHHHHHhccC
Confidence 555 7788888777622 45655555777777775543
No 24
>PRK14635 hypothetical protein; Provisional
Probab=42.25 E-value=62 Score=27.33 Aligned_cols=35 Identities=11% Similarity=0.080 Sum_probs=24.3
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcEeeecccCC
Q 026946 33 ARASLDEAAWLAKAVAADIGSRFQVPVFLYAAAHP 67 (230)
Q Consensus 33 ~~~t~eec~~lA~~la~~i~~~l~vPVyLYgaa~p 67 (230)
+++|+++|.++++.+...|=..-...-|.-+=.+|
T Consensus 48 ~gv~lddC~~vSr~is~~LD~~d~~~~Y~LEVSSP 82 (162)
T PRK14635 48 GSVSLLECEQVSRKLKEELERISPDLDFTLKVSSA 82 (162)
T ss_pred CCcCHHHHHHHHHHHHHHhCCCCCCCCeEEEEcCC
Confidence 57999999999999998886422232344454555
No 25
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=41.25 E-value=35 Score=27.95 Aligned_cols=36 Identities=25% Similarity=0.335 Sum_probs=27.2
Q ss_pred eeCC-CCCHHHHHHHHHHHHHHHhhhcCCcEeeeccc
Q 026946 30 HPLA-RASLDEAAWLAKAVAADIGSRFQVPVFLYAAA 65 (230)
Q Consensus 30 ~Pl~-~~t~eec~~lA~~la~~i~~~l~vPVyLYgaa 65 (230)
.|+. +-+..+-...++.++++|.+++++||+|+-+.
T Consensus 62 lP~~~~G~~~~~~~~v~~f~~~L~~~~~~~v~~~DEr 98 (138)
T PRK00109 62 LPLNMDGTEGPRTERARKFANRLEGRFGLPVVLVDER 98 (138)
T ss_pred ccCCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEcCC
Confidence 3544 44555566678899999999899999999754
No 26
>cd07367 CarBb CarBb is the B subunit of the Class III Extradiol ring-cleavage dioxygenase, 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBb is the B subunit of 2-aminophenol 1,6-dioxygenase (CarB), which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. It is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, it has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=40.55 E-value=97 Score=27.95 Aligned_cols=71 Identities=14% Similarity=0.116 Sum_probs=45.8
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCceEeeeecC-------------CCeEEEEeecCCCCCCCHHHHHH---HHHHHHHH-
Q 026946 135 STDVAATRRIARMVSARGGGLPTVQTLGLVHG-------------EDSTEIACMLLEPNQVGADRVQN---RVEKLAAE- 197 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~-------------~g~~qVS~Nl~d~~~tp~~~V~e---~v~~~A~~- 197 (230)
..|.++|++|++.+++.|=-......++|.|+ --+||||+|.......|+.+.++ .|++.+.+
T Consensus 87 ~gd~~LA~~i~~~l~~~g~~~~~~~~~~lDHG~~vPL~~l~p~~~iPvV~isin~~~~p~~~~~~~~~lG~al~~~i~~~ 166 (268)
T cd07367 87 PGHREFARAFVRQAAEDGFDLAQAEELRPDHGVMVPLLFMGPKLDIPVVPLIVNINTDPAPSPRRCWALGKVLAQYVEKR 166 (268)
T ss_pred CCCHHHHHHHHHHHHHcCCCeeeecCccCCcchhchHHHhCCCCCCCEEEEEecccCCCCCCHHHHHHHHHHHHHHHHhc
Confidence 67899999999999887522222233444442 14799999998655667777554 45555444
Q ss_pred ----cCCcccce
Q 026946 198 ----EGLDVEKG 205 (230)
Q Consensus 198 ----~Gv~V~~~ 205 (230)
.+|-|++|
T Consensus 167 ~~~d~rV~iiaS 178 (268)
T cd07367 167 RPAGERVAVIAA 178 (268)
T ss_pred CCCCCcEEEEEc
Confidence 45666654
No 27
>PRK14641 hypothetical protein; Provisional
Probab=40.08 E-value=67 Score=27.70 Aligned_cols=70 Identities=13% Similarity=0.227 Sum_probs=43.6
Q ss_pred HHhcCCCCCC-cCCCCCccc-ccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCc-----EeeecccCCC--C--CChHH
Q 026946 6 YGAINLETHS-GAHPRLGVV-DDIVFHPLARASLDEAAWLAKAVAADIGSRFQVP-----VFLYAAAHPT--G--KPLDT 74 (230)
Q Consensus 6 ~elIDm~~H~-G~HPR~Gav-DviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vP-----VyLYgaa~p~--r--r~La~ 74 (230)
++|.|++-+. |.++.+=++ |- -+++|+++|.++++.|...|=.+-.+| -|.-+=.+|- | +...+
T Consensus 24 ~eLvdve~~~~~~~~~lrV~ID~-----~~gv~lDdC~~vSr~Is~~LD~~d~i~~~~~~~Y~LEVSSPGldRpL~~~~~ 98 (173)
T PRK14641 24 VYLVSMTVKGSGKGRKIEVLLDA-----DTGIRIDQCAFFSRRIRERLEEDEELLGLVGEDFDLMVSSPGLGEPIILPRQ 98 (173)
T ss_pred eEEEEEEEEeCCCCcEEEEEEeC-----CCCCCHHHHHHHHHHHHHHhCcccccccCCCCCeEEEEeCCCCCCcCCCHHH
Confidence 5677887554 556655443 42 357999999999999998886433343 3444445552 2 45566
Q ss_pred HHhhcC
Q 026946 75 IRRELG 80 (230)
Q Consensus 75 iRr~~G 80 (230)
.||-.|
T Consensus 99 f~r~~G 104 (173)
T PRK14641 99 YGRHVG 104 (173)
T ss_pred HHHhCC
Confidence 666434
No 28
>PRK14638 hypothetical protein; Provisional
Probab=38.10 E-value=70 Score=26.75 Aligned_cols=69 Identities=9% Similarity=0.174 Sum_probs=40.7
Q ss_pred HHhcCCCCCC-cCCCCCccc-ccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcE-eeecccCC--CC--CChHHHHhh
Q 026946 6 YGAINLETHS-GAHPRLGVV-DDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPV-FLYAAAHP--TG--KPLDTIRRE 78 (230)
Q Consensus 6 ~elIDm~~H~-G~HPR~Gav-DviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPV-yLYgaa~p--~r--r~La~iRr~ 78 (230)
+++.|++-.. |.++-+=+. |. |=+++|+++|..+++.|...+=.+-.+|= |.-+=++| +| +...+.+|-
T Consensus 23 ~elvdve~~~~~~~~~lrV~ID~----~~G~v~lddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGldRpL~~~~~f~r~ 98 (150)
T PRK14638 23 LEIFDVQYRRESRGWVLRIIIDN----PVGYVSVRDCELFSREIERFLDREDLIEHSYTLEVSSPGLDRPLRGPKDYVRF 98 (150)
T ss_pred CEEEEEEEEecCCCcEEEEEEEC----CCCCcCHHHHHHHHHHHHHHhccccccCCceEEEEeCCCCCCCCCCHHHHHHh
Confidence 5677777554 444444433 42 32349999999999999988864433442 32243555 22 445555553
No 29
>cd04875 ACT_F4HF-DF N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase). This CD includes the N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase) which catalyzes the hydrolysis of 10-formyltetrahydrofolate (formyl-FH4) to FH4 and formate. Formyl-FH4 hydrolase generates the formate that is used by purT-encoded 5'-phosphoribosylglycinamide transformylase for step three of de novo purine nucleotide synthesis. Formyl-FH4 hydrolase, a hexamer which is activated by methionine and inhibited by glycine, is proposed to regulate the balance FH4 and C1-FH4 in response to changing growth conditions. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=37.86 E-value=1.4e+02 Score=20.89 Aligned_cols=62 Identities=11% Similarity=0.171 Sum_probs=42.3
Q ss_pred HHHHHHHHHHhccCCCCCCCceEeeeecCCCe--EEEEeecCCCCCCCHHHHHHHHHHHHHHcCCc
Q 026946 138 VAATRRIARMVSARGGGLPTVQTLGLVHGEDS--TEIACMLLEPNQVGADRVQNRVEKLAAEEGLD 201 (230)
Q Consensus 138 l~~A~~IA~~vR~~~GGL~~VqAmg~~~~~g~--~qVS~Nl~d~~~tp~~~V~e~v~~~A~~~Gv~ 201 (230)
.-+-++|++.+.+.|+.+-.++.-- .+..+. +++.+++. ...+...++.+..+.++.+.|+.
T Consensus 10 ~Giv~~it~~l~~~g~nI~~~~~~~-~~~~~~f~~~~~~~~~-~~~~~~~~l~~~l~~l~~~l~~~ 73 (74)
T cd04875 10 PGIVAAVSGFLAEHGGNIVESDQFV-DPDSGRFFMRVEFELE-GFDLSREALEAAFAPVAAEFDMD 73 (74)
T ss_pred CCHHHHHHHHHHHcCCCEEeeeeee-cCCCCeEEEEEEEEeC-CCCCCHHHHHHHHHHHHHHcCCc
Confidence 5677899999999999888776543 222333 33344432 11367899999999999988764
No 30
>PRK13366 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=37.68 E-value=1.2e+02 Score=27.89 Aligned_cols=77 Identities=13% Similarity=0.132 Sum_probs=48.5
Q ss_pred eeeeecCCCHHHHHHHHHHhccCCCCCCCceEeeeecC------------C----CeEEEEeecCCCCCCCHHHHHH---
Q 026946 129 YNIPIMSTDVAATRRIARMVSARGGGLPTVQTLGLVHG------------E----DSTEIACMLLEPNQVGADRVQN--- 189 (230)
Q Consensus 129 yNV~L~t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~------------~----g~~qVS~Nl~d~~~tp~~~V~e--- 189 (230)
.||.=-..|.++|++|++.+.+.|==...++.++|.|+ + -+|+||+|..-+...++.+.++
T Consensus 89 ~~v~~~~g~~eLA~~i~~~l~~~g~~~~~~~~~~lDHG~~vPL~~l~p~~~~~~ipvVpisvn~~~~p~~~~~r~~~lG~ 168 (284)
T PRK13366 89 RPVPKVIGHPDLAAHIAQSVIQDDFDLTIVNKMDVDHGLTVPLSLMCGQPDAWPCPVIPFAVNVVQYPVPSGRRCFALGQ 168 (284)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHCCCCEeecCCCCCCccHHHHHHHhCccccCCCCceEEEeeccCCCCCCCHHHHHHHHH
Confidence 35552257889999999999876422222333444332 1 4589999999877777766665
Q ss_pred HHHHHHHH----cCCcccce
Q 026946 190 RVEKLAAE----EGLDVEKG 205 (230)
Q Consensus 190 ~v~~~A~~----~Gv~V~~~ 205 (230)
.|.+..++ .+|-+++|
T Consensus 169 al~~~i~~~~~d~rV~iIaS 188 (284)
T PRK13366 169 AIRRAVESYDEDLNVQIWGT 188 (284)
T ss_pred HHHHHHHhcCcCCCEEEEec
Confidence 44455443 45777765
No 31
>PRK08508 biotin synthase; Provisional
Probab=37.26 E-value=2e+02 Score=25.96 Aligned_cols=87 Identities=18% Similarity=0.121 Sum_probs=50.0
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCceEeeee--------cCCCeEEEEeecCC-----CCCCC---HHHHHHHHHHHHHHc
Q 026946 135 STDVAATRRIARMVSARGGGLPTVQTLGLV--------HGEDSTEIACMLLE-----PNQVG---ADRVQNRVEKLAAEE 198 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~--------~~~g~~qVS~Nl~d-----~~~tp---~~~V~e~v~~~A~~~ 198 (230)
..+++.-..|.+.||+.+-++.-+=..|.. .+-|.--+..|+.- +++.+ ..++.+.++. |++.
T Consensus 71 ~~~~e~~~ei~~~ik~~~p~l~i~~s~G~~~~e~l~~Lk~aGld~~~~~lEt~~~~~~~i~~~~~~~~~l~~i~~-a~~~ 149 (279)
T PRK08508 71 DKKLEYVAEAAKAVKKEVPGLHLIACNGTASVEQLKELKKAGIFSYNHNLETSKEFFPKICTTHTWEERFQTCEN-AKEA 149 (279)
T ss_pred cccHHHHHHHHHHHHhhCCCcEEEecCCCCCHHHHHHHHHcCCCEEcccccchHHHhcCCCCCCCHHHHHHHHHH-HHHc
Confidence 446777888888888764333211122221 11233344444331 12333 4555566655 7899
Q ss_pred CCcccceeecCC--CHHHHHHHHHHH
Q 026946 199 GLDVEKGYFTDF--SPEMIVEKYMNL 222 (230)
Q Consensus 199 Gv~V~~~y~~~f--~~~~ile~~~~~ 222 (230)
|++|+.+...|+ |++++++....+
T Consensus 150 Gi~v~sg~I~GlGEt~ed~~~~l~~l 175 (279)
T PRK08508 150 GLGLCSGGIFGLGESWEDRISFLKSL 175 (279)
T ss_pred CCeecceeEEecCCCHHHHHHHHHHH
Confidence 999999887665 678888876544
No 32
>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=36.24 E-value=1.3e+02 Score=27.53 Aligned_cols=71 Identities=15% Similarity=0.116 Sum_probs=45.6
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCceEeeeecC-----------CC----eEEEEeecCCCCCCCHHHHHH---HHHHHHH
Q 026946 135 STDVAATRRIARMVSARGGGLPTVQTLGLVHG-----------ED----STEIACMLLEPNQVGADRVQN---RVEKLAA 196 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~-----------~g----~~qVS~Nl~d~~~tp~~~V~e---~v~~~A~ 196 (230)
..|.++|++|++.+.++|==+..+..+++.|+ .+ +++||+|..-+...++.+.++ .|++.++
T Consensus 95 ~~~~~lA~~i~~~l~~~gid~~~~~~~~lDHG~~vPL~~l~~~~d~~~pvVpv~ln~~~~p~~~~~r~~~lG~al~~~i~ 174 (278)
T PRK13364 95 KGDTELSWHIIESLVEEEFDITTCQEMLVDHAFTLPLELFWPGRDYPVKVVPVCINTVQHPLPSARRCYKLGQAIGRAIA 174 (278)
T ss_pred CCCHHHHHHHHHHHHHcCCCeecccCCCCCcchhhhHHHhCcccCCCCCEEEEEeeccCCCCCCHHHHHHHHHHHHHHHH
Confidence 35789999999999876411122233444443 12 689999988766677766554 5555554
Q ss_pred H----cCCcccce
Q 026946 197 E----EGLDVEKG 205 (230)
Q Consensus 197 ~----~Gv~V~~~ 205 (230)
+ .+|-|++|
T Consensus 175 ~~~~d~rV~iIaS 187 (278)
T PRK13364 175 SWPSDERVVVIGT 187 (278)
T ss_pred hcCCCCCEEEEEe
Confidence 3 56777765
No 33
>cd07362 HPCD_like Class III extradiol dioxygenases with similarity to homoprotocatechuate 2,3-dioxygenase, which catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate. This subfamily of class III extradiol dioxygenases consists of two types of proteins with known enzymatic activities; 3,4-dihydroxyphenylacetate (homoprotocatechuate) 2,3-dioxygenase (HPCD) and 2-amino-5-chlorophenol 1,6-dioxygenase. HPCD catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate (hpca), a central intermediate in the bacterial degradation of aromatic compounds. The enzyme incorporates both atoms of molecular oxygen into hpca, resulting in aromatic ring-opening to yield the product alpha-hydroxy-delta-carboxymethyl cis-muconic semialdehyde. 2-amino-5-chlorophenol 1,6-dioxygenase catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. The enzyme is probably a heterotetrame
Probab=35.68 E-value=84 Score=28.42 Aligned_cols=66 Identities=12% Similarity=0.028 Sum_probs=39.6
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCc--e--EeeeecC-------------CCeEEEEeecCCCCCCCHHHHHH---HHHHH
Q 026946 135 STDVAATRRIARMVSARGGGLPTV--Q--TLGLVHG-------------EDSTEIACMLLEPNQVGADRVQN---RVEKL 194 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~V--q--Amg~~~~-------------~g~~qVS~Nl~d~~~tp~~~V~e---~v~~~ 194 (230)
..|.++|++|++.+++.| ++-. . .++|.|+ --+||||+|.+ ..++.+.++ .|.+.
T Consensus 89 ~g~~~LA~~i~~~l~~~G--i~~~~~~~~~~~lDHG~~vPL~~l~p~~~iPVV~vs~~~~---~~~~~~~~~lG~ai~~a 163 (272)
T cd07362 89 PGDPELGRLLVEEGQEAG--LRVKAVNDPTYIWDYGTVVPLRYLNPNKDIPVVSISACWT---AASLEESYTWGEVIGKA 163 (272)
T ss_pred CCCHHHHHHHHHHHHHcC--CceeeccCCCCCCCcchHHHHHHhCCCCCCcEEEEeccCC---CCCHHHHHHHHHHHHHH
Confidence 478899999999998743 3321 1 2444444 14799999975 334555552 22232
Q ss_pred HH--HcCCcccce
Q 026946 195 AA--EEGLDVEKG 205 (230)
Q Consensus 195 A~--~~Gv~V~~~ 205 (230)
.+ ..+|-|++|
T Consensus 164 l~~~~~rv~ii~S 176 (272)
T cd07362 164 LLESDKRVVFLAS 176 (272)
T ss_pred HHhhCCCEEEEEe
Confidence 22 466777765
No 34
>PRK13372 pcmA protocatechuate 4,5-dioxygenase; Provisional
Probab=34.52 E-value=1.1e+02 Score=30.24 Aligned_cols=73 Identities=12% Similarity=0.085 Sum_probs=51.2
Q ss_pred ecCCCHHHHHHHHHHhccCCCCCCCceEeeeecC----------C------CeEEEEeecCCCCCCCHHHHHHHHHHHHH
Q 026946 133 IMSTDVAATRRIARMVSARGGGLPTVQTLGLVHG----------E------DSTEIACMLLEPNQVGADRVQNRVEKLAA 196 (230)
Q Consensus 133 L~t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~----------~------g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~ 196 (230)
--..+-++|++|++.+...+=-+...+.|+|.|+ + -+||||+|...+-.-++.+.++.=+.++.
T Consensus 240 ~~pG~peLA~~I~~~L~~~GfD~a~~~erglDHG~~vPL~lm~P~ad~~~IPVVPvsvN~~~~Plps~~R~~~LG~AL~~ 319 (444)
T PRK13372 240 DVIGHPELAAHIAQSVIQDDFDLTIVNEMDVDHGLTVPLSLMCGDPEAWPCPVIPFAVNVVQYPVPSGRRCYELGQAIRR 319 (444)
T ss_pred CCCCCHHHHHHHHHHHHhcCCChhhccCCCCCchhhhhHHHhCCcccCCCCCeEEEEecCCCCCCCCHHHHHHHHHHHHH
Confidence 3456789999999999876423344456666555 1 46999999997767888888776554432
Q ss_pred --H------cCCcccce
Q 026946 197 --E------EGLDVEKG 205 (230)
Q Consensus 197 --~------~Gv~V~~~ 205 (230)
+ .||-|+||
T Consensus 320 lres~~~D~erVlIIGS 336 (444)
T PRK13372 320 AIDKWDADPLNVQIWGT 336 (444)
T ss_pred HHhhcccccCCEEEEec
Confidence 3 67888876
No 35
>cd07371 2A5CPDO_AB The alpha and beta subunits of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. This subfamily contains both alpha and beta subunits of 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, an intermediate during p-chloronitrobenzene degradation. 2A5CPDO is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. Alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication.
Probab=33.17 E-value=84 Score=28.27 Aligned_cols=66 Identities=15% Similarity=0.140 Sum_probs=41.9
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCc----eEeeeecC-----------C--CeEEEEeecCCCCCCCHHHHHH---HHHHH
Q 026946 135 STDVAATRRIARMVSARGGGLPTV----QTLGLVHG-----------E--DSTEIACMLLEPNQVGADRVQN---RVEKL 194 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~V----qAmg~~~~-----------~--g~~qVS~Nl~d~~~tp~~~V~e---~v~~~ 194 (230)
..|.++|++|++.+++. |++.. ..++|.|+ . -.+|||+|... .++.+.++ .+.+.
T Consensus 84 ~g~~eLA~~i~~~~~~~--gi~~~~~~~~~~~lDHG~~vPL~~l~p~~~ipvV~vs~~~~~---~~~~~~~~lG~al~~~ 158 (268)
T cd07371 84 NVDVELAEACVEEGRKA--GLVTRMMRYPRFPIDTGTITALTLMRPGTDIPPVVISANNLY---LSGEETEGEMDLAGKA 158 (268)
T ss_pred CCCHHHHHHHHHHHHHC--CCcEEEecCCCCCCCchhHHHHHHhcCCCCCCeEEEEecCcC---CCHHHHHHHHHHHHHH
Confidence 47889999999999865 44322 34444443 1 37999998763 34555554 44444
Q ss_pred HHH--cCCcccce
Q 026946 195 AAE--EGLDVEKG 205 (230)
Q Consensus 195 A~~--~Gv~V~~~ 205 (230)
.++ .+|-|++|
T Consensus 159 l~~~~~rv~iIgS 171 (268)
T cd07371 159 TRDAGKRVAVLGS 171 (268)
T ss_pred HHHcCCcEEEEEe
Confidence 466 56878776
No 36
>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=32.89 E-value=28 Score=28.44 Aligned_cols=27 Identities=30% Similarity=0.498 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHhhhc-CCcEeeecc
Q 026946 38 DEAAWLAKAVAADIGSRF-QVPVFLYAA 64 (230)
Q Consensus 38 eec~~lA~~la~~i~~~l-~vPVyLYga 64 (230)
.+-...++.+++++.+++ ++||+|+-+
T Consensus 68 ~~~~~~v~~f~~~L~~~~~~ipV~~~DE 95 (135)
T PF03652_consen 68 SEQARRVRKFAEELKKRFPGIPVILVDE 95 (135)
T ss_dssp -CCHHHHHHHHHHHHHHH-TSEEEEEEC
T ss_pred cHHHHHHHHHHHHHHHhcCCCcEEEECC
Confidence 334455678888888888 999999964
No 37
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=32.62 E-value=56 Score=27.32 Aligned_cols=35 Identities=31% Similarity=0.489 Sum_probs=26.1
Q ss_pred eeCC-CCCHHHHHHHHHHHHHHHhhhcCCcEeeecc
Q 026946 30 HPLA-RASLDEAAWLAKAVAADIGSRFQVPVFLYAA 64 (230)
Q Consensus 30 ~Pl~-~~t~eec~~lA~~la~~i~~~l~vPVyLYga 64 (230)
.|+. +-+...-.+.++.++++|.+++++||.|--+
T Consensus 61 lP~~m~g~~~~~~~~~~~f~~~L~~r~~lpv~l~DE 96 (141)
T COG0816 61 LPLNMDGTEGPRAELARKFAERLKKRFNLPVVLWDE 96 (141)
T ss_pred cCcCCCCCcchhHHHHHHHHHHHHHhcCCCEEEEcC
Confidence 3552 2233336778999999999999999999754
No 38
>COG0106 HisA Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]
Probab=32.10 E-value=68 Score=29.30 Aligned_cols=83 Identities=14% Similarity=0.236 Sum_probs=55.4
Q ss_pred ecCCCHHHHHHHHHHhccC---CCCCCCceEeeeecCCCeEEEEeecCCCCCCCHHHHHHHHHHHHHHcCCcccc-----
Q 026946 133 IMSTDVAATRRIARMVSAR---GGGLPTVQTLGLVHGEDSTEIACMLLEPNQVGADRVQNRVEKLAAEEGLDVEK----- 204 (230)
Q Consensus 133 L~t~dl~~A~~IA~~vR~~---~GGL~~VqAmg~~~~~g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~~~Gv~V~~----- 204 (230)
....+.++.++|.+.+.-. |||++..+.+..+.+.|..-|-. -|-..+=.+.+++.+++||-+|+=
T Consensus 59 g~~~n~~~i~~i~~~~~~~vQvGGGIRs~~~v~~ll~~G~~rVii------Gt~av~~p~~v~~~~~~~g~rivv~lD~r 132 (241)
T COG0106 59 GGPRNLEAIKEILEATDVPVQVGGGIRSLEDVEALLDAGVARVII------GTAAVKNPDLVKELCEEYGDRIVVALDAR 132 (241)
T ss_pred CCcccHHHHHHHHHhCCCCEEeeCCcCCHHHHHHHHHCCCCEEEE------ecceecCHHHHHHHHHHcCCcEEEEEEcc
Confidence 3446679999999999743 99999999988875445444332 122233346778888888854442
Q ss_pred -------eee--cCCCHHHHHHHHHH
Q 026946 205 -------GYF--TDFSPEMIVEKYMN 221 (230)
Q Consensus 205 -------~y~--~~f~~~~ile~~~~ 221 (230)
||- +++++.+++++...
T Consensus 133 ~g~vav~GW~e~s~~~~~~l~~~~~~ 158 (241)
T COG0106 133 DGKVAVSGWQEDSGVELEELAKRLEE 158 (241)
T ss_pred CCccccccccccccCCHHHHHHHHHh
Confidence 343 67888887776553
No 39
>KOG0968 consensus DNA polymerase zeta, catalytic subunit [Replication, recombination and repair]
Probab=31.33 E-value=57 Score=36.19 Aligned_cols=57 Identities=26% Similarity=0.299 Sum_probs=41.9
Q ss_pred HHHHhcCCCCCCcCCCCCcccccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcEee
Q 026946 4 AAYGAINLETHSGAHPRLGVVDDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPVFL 61 (230)
Q Consensus 4 ~A~elIDm~~H~G~HPR~GavDviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPVyL 61 (230)
+|++.|.=..--|.-=--|=+|- =|+=|.|.|.||+-++-+++|++|.+..+=||+|
T Consensus 1116 raIe~Vn~~d~w~AkVVYGDTDS-mFVlL~GaT~eeAF~IGq~iAe~VT~~NP~PV~L 1172 (1488)
T KOG0968|consen 1116 RAIEMVNRGDYWGAKVVYGDTDS-MFVLLPGATVEEAFEIGQEIAEAVTNSNPKPVVL 1172 (1488)
T ss_pred HHHHHHhcCCcCCeEEEEcCCCc-eEEEecCccHHHHHHHHHHHHHHHHhcCCCCeEE
Confidence 44555543333333333355553 4899999999999999999999999999999987
No 40
>cd08060 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family of unknown function includes neighbor of COX4 (Noc4p). This family includes Noc4p (neighbor of COX4; neighbor of Cytochrome c Oxidase 4; nucleolar complex associated 4 homolog) which belongs to the family of unknown function, UPF0172, with MPN/JAMM-like domains. Proteins in this family are homologs of the NOC4 gene which is conserved in eukaryotic members including human, dog, mouse, rat, chicken, zebrafish, fruit fly, mosquito, S.pombe, K.lactis, E.gossypii, M.grisea, N.crassa, A.thaliana, and rice. NOC4 highly expressed in the pancreas and moderately in liver, heart, lung, kidney, brain, skeletal muscle, and placenta. This nucleolar protein forms a complex with Nop14p that mediates maturation and nuclear export of 40S ribosomal subunits. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=31.08 E-value=1e+02 Score=26.53 Aligned_cols=47 Identities=19% Similarity=0.131 Sum_probs=34.2
Q ss_pred CCCCCHH-HHHHHHHHHHHHcCCcccceee--c---CCCHHHHHHHHHHHHHh
Q 026946 179 PNQVGAD-RVQNRVEKLAAEEGLDVEKGYF--T---DFSPEMIVEKYMNLINA 225 (230)
Q Consensus 179 ~~~tp~~-~V~e~v~~~A~~~Gv~V~~~y~--~---~f~~~~ile~~~~~~~~ 225 (230)
+..+|+. ..+..|++.|++.|+.++|-|. + +.+++.+-++...++.+
T Consensus 48 ~~l~P~~Eval~~ve~~~~~~gl~IvG~Yhsh~~~~d~~~~~~a~kIadki~~ 100 (182)
T cd08060 48 LALAPMLEVALALVDAYCKSSGLVIVGYYQANERLDDSSPSPVAKKIADKIAE 100 (182)
T ss_pred cccCHHHHHHHHHHHHHHHHCCCEEEEEEecCCcccCCCCcHHHHHHHHHHHH
Confidence 5566663 4689999999999999999887 3 34566666666666554
No 41
>COG3963 Phospholipid N-methyltransferase [Lipid metabolism]
Probab=30.82 E-value=41 Score=29.74 Aligned_cols=54 Identities=20% Similarity=0.223 Sum_probs=44.2
Q ss_pred hcCCCCCCcCCCCCcccccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcE--eeec
Q 026946 8 AINLETHSGAHPRLGVVDDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPV--FLYA 63 (230)
Q Consensus 8 lIDm~~H~G~HPR~GavDviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPV--yLYg 63 (230)
.+|+++|.|+|+-.=.=-|++.+|+.+..|.--+++-.++=.+|.- +=|+ |-||
T Consensus 103 a~~l~~~l~e~~gq~~D~viS~lPll~~P~~~~iaile~~~~rl~~--gg~lvqftYg 158 (194)
T COG3963 103 AFDLRTTLGEHKGQFFDSVISGLPLLNFPMHRRIAILESLLYRLPA--GGPLVQFTYG 158 (194)
T ss_pred hhhHHHHHhhcCCCeeeeEEeccccccCcHHHHHHHHHHHHHhcCC--CCeEEEEEec
Confidence 5789999999998877778999999999999999888888887775 4454 4456
No 42
>COG2127 Uncharacterized conserved protein [Function unknown]
Probab=30.49 E-value=1.2e+02 Score=24.43 Aligned_cols=53 Identities=17% Similarity=0.189 Sum_probs=37.9
Q ss_pred CeEEEEeecCCCCCCCHHHHHHHHHH--------------HHHHcCCcccceeecCCCHHHHHHHHHHHHHhhh
Q 026946 168 DSTEIACMLLEPNQVGADRVQNRVEK--------------LAAEEGLDVEKGYFTDFSPEMIVEKYMNLINATA 227 (230)
Q Consensus 168 g~~qVS~Nl~d~~~tp~~~V~e~v~~--------------~A~~~Gv~V~~~y~~~f~~~~ile~~~~~~~~~~ 227 (230)
-+.+|- |+|-++||.+-|...++. .+...|..|+|.| +.++.|.+.+++.+.+
T Consensus 27 ~~ykVi--llNDd~T~mefVv~vL~~~F~~s~e~A~~lMl~VH~~G~av~gv~-----t~evAEtk~~~v~~~g 93 (107)
T COG2127 27 KMYKVI--LLNDDYTPMEFVVYVLQKFFGMSEERATKLMLQVHREGKAVVGVY-----TREVAETKVAQVRDAG 93 (107)
T ss_pred CceeEE--EecCCCcHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCcEEEEEc-----cHHHHHHHHHHHHHHH
Confidence 445665 456789999999888876 4567788888876 5667777776665543
No 43
>PRK12283 tryptophanyl-tRNA synthetase; Reviewed
Probab=30.24 E-value=1.8e+02 Score=28.45 Aligned_cols=118 Identities=14% Similarity=0.107 Sum_probs=65.9
Q ss_pred CCCCcccccc----cceeCCCCCHHHHHHHHHHHHHHHhhhcCCc--Ee-------------------------eec---
Q 026946 18 HPRLGVVDDI----VFHPLARASLDEAAWLAKAVAADIGSRFQVP--VF-------------------------LYA--- 63 (230)
Q Consensus 18 HPR~GavDvi----Pf~Pl~~~t~eec~~lA~~la~~i~~~l~vP--Vy-------------------------LYg--- 63 (230)
=|-|=|.|.. -++|+ |..-..-++|||.+|+++...++.. ++ .|+
T Consensus 130 YPvLqAADILl~~a~iVPV-G~DQ~qHleLaRdIA~rfN~~yg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 208 (398)
T PRK12283 130 YPLLQSADILIYRAGLVPV-GEDQVPHVEMTREIARRFNHLYGREPGFEEKAEAAIKKLGKKRAKLYHELRNAYQEEGDD 208 (398)
T ss_pred CcHHHHHHHHhcCCCEeee-ccccHHHHHHHHHHHHHHHHhcCccccchhHHHHHhhccchhhHHHHHHHHHHHHhhcch
Confidence 3555555553 35666 5788889999999999988776531 11 111
Q ss_pred ----ccC-----CCCCChHHHHhhcCccCCCCCCCcccccCCC--CCCCCCCCCCCCCCCCCCCeeeecCCCCeeeeeee
Q 026946 64 ----AAH-----PTGKPLDTIRRELGYYRPNSMGNQWAGWTMP--EILPERPNEGPIQVSPARGIAMIGARPWVALYNIP 132 (230)
Q Consensus 64 ----aa~-----p~rr~La~iRr~~G~f~~~~~~~~~~g~~~~--~~~~~~PD~Gp~~~~p~~Gat~vGAr~~liayNV~ 132 (230)
.+. ..-+++.+.++.+|+|++-..+ -+- ..+. ....+-|+.-+.+++.+.|- -|+
T Consensus 209 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~-~P~~~~~~~~~I~gLdg~KMSKS~~n------------~I~ 274 (398)
T PRK12283 209 EALEQARALLQEQQNLSMGDRERLFGYLEGAGKI-ILP-EPQALLTEASKMPGLDGQKMSKSYGN------------TIG 274 (398)
T ss_pred hhhhhhhhhhhhhhhhhhhhhccccccccccCCc-ccC-CCcccccCCCcccCCCCCcCCCCCCC------------eee
Confidence 011 1235666777877775443211 000 0000 01144566655678877641 266
Q ss_pred ecCCCHHHHHHHHHHhcc
Q 026946 133 IMSTDVAATRRIARMVSA 150 (230)
Q Consensus 133 L~t~dl~~A~~IA~~vR~ 150 (230)
|..+.-++.+||-+++-.
T Consensus 275 L~Ds~~~I~kKI~~a~TD 292 (398)
T PRK12283 275 LREDPESVTKKIRTMPTD 292 (398)
T ss_pred CcCCHHHHHHHHHhCCCC
Confidence 665555888888887653
No 44
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=29.60 E-value=78 Score=24.57 Aligned_cols=34 Identities=21% Similarity=0.259 Sum_probs=28.0
Q ss_pred ccccceeC---CCCCHHHHHHHHHHHHHHHhhhcCCc
Q 026946 25 DDIVFHPL---ARASLDEAAWLAKAVAADIGSRFQVP 58 (230)
Q Consensus 25 DviPf~Pl---~~~t~eec~~lA~~la~~i~~~l~vP 58 (230)
|=|-|+-| ++.+.|+.-++++.|.+.+.+.|+||
T Consensus 56 ~p~a~v~i~~~g~~~~e~k~~l~~~i~~~l~~~lgi~ 92 (116)
T PTZ00397 56 DGCCFVRVTSIGGISRSNNSSIAAAITKILASHLKVK 92 (116)
T ss_pred CceEEEEEEEecCCCHHHHHHHHHHHHHHHHHHhCcC
Confidence 44444444 56889999999999999999999988
No 45
>PF01187 MIF: Macrophage migration inhibitory factor (MIF); InterPro: IPR001398 Macrophage migration inhibitory factor (MIF) is a key regulatory cytokine within innate and adaptive immune responses, capable of promoting and modulating the magnitude of the response []. MIF is released from T-cells and macrophages, and acts within the neuroendocrine system. MIF is capable of tautomerase activity, although its biological function has not been fully characterised. It is induced by glucocorticoid and is capable of overriding the anti-inflammatory actions of glucocorticoid []. MIF regulates cytokine secretion and the expression of receptors involved in the immune response. It can be taken up into target cells in order to interact with intracellular signalling molecules, inhibiting p53 function, and/or activating components of the mitogen-activated protein kinase and Jun-activation domain-binding protein-1 (Jab-1) []. MIF has been linked to various inflammatory diseases, such as rheumatoid arthritis and atherosclerosis []. The MIF homologue D-dopachrome tautomerase (4.1.1.84 from EC) is involved in detoxification through the conversion of dopaminechrome (and possibly norepinephrinechrome), the toxic quinine product of the neurotransmitter dopamine (and norepinephrine), to an indole derivative that can serve as a precursor to neuromelanin [, ].; PDB: 1UIZ_C 3FWT_A 1HFO_F 2WKB_D 3RF4_B 2OS5_A 3RF5_A 2XCZ_A 3FWU_A 3B64_A ....
Probab=29.53 E-value=75 Score=24.75 Aligned_cols=34 Identities=12% Similarity=0.236 Sum_probs=25.4
Q ss_pred cccccee---CCCCCHHHHHHHHHHHHHHHhhhcCCc
Q 026946 25 DDIVFHP---LARASLDEAAWLAKAVAADIGSRFQVP 58 (230)
Q Consensus 25 DviPf~P---l~~~t~eec~~lA~~la~~i~~~l~vP 58 (230)
|=|-++- ++..+.+++-+++..|.+-+.++|+||
T Consensus 54 ~P~a~v~l~sig~~~~~~n~~~s~~i~~~l~~~LgIp 90 (114)
T PF01187_consen 54 DPAAFVELKSIGGLDPEQNKKYSAAITEFLEEELGIP 90 (114)
T ss_dssp SS-EEEEEEESSSSSHHHHHHHHHHHHHHHHHHHT--
T ss_pred CCEEEEEEEEccCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence 4444444 456789999999999999999999998
No 46
>PRK12556 tryptophanyl-tRNA synthetase; Provisional
Probab=29.25 E-value=1.4e+02 Score=27.98 Aligned_cols=36 Identities=17% Similarity=0.168 Sum_probs=26.9
Q ss_pred CCCCccccccc----ceeCCCCCHHHHHHHHHHHHHHHhhh
Q 026946 18 HPRLGVVDDIV----FHPLARASLDEAAWLAKAVAADIGSR 54 (230)
Q Consensus 18 HPR~GavDviP----f~Pl~~~t~eec~~lA~~la~~i~~~ 54 (230)
=|-|=|.|..- ++|+ |..-..-.+++|.+|+++...
T Consensus 137 YPvLqAADIl~~~~d~Vpv-G~DQ~qhleLtRdiA~rfn~~ 176 (332)
T PRK12556 137 YPILMAADILLFQATHVPV-GKDQIQHIEIARDIATYFNHT 176 (332)
T ss_pred chHHHhhhhhhccCCEEEe-ccccHHHHHHHHHHHHHHHHh
Confidence 46666666643 6777 577888899999999998865
No 47
>PRK12282 tryptophanyl-tRNA synthetase II; Reviewed
Probab=28.32 E-value=2.5e+02 Score=26.41 Aligned_cols=78 Identities=14% Similarity=0.184 Sum_probs=51.1
Q ss_pred ceeCCCCCHHHHHHHHHHHHHHHhhhcCCcEeeecccC-CCCCChHHHHhhcCccCCCCCCCcccccCCCCCCCCCCCC-
Q 026946 29 FHPLARASLDEAAWLAKAVAADIGSRFQVPVFLYAAAH-PTGKPLDTIRRELGYYRPNSMGNQWAGWTMPEILPERPNE- 106 (230)
Q Consensus 29 f~Pl~~~t~eec~~lA~~la~~i~~~l~vPVyLYgaa~-p~rr~La~iRr~~G~f~~~~~~~~~~g~~~~~~~~~~PD~- 106 (230)
++|+ |+.-..-++++|.+|+++....+.|+|..-.+. +. ...-|+.
T Consensus 145 ~vpv-G~DQ~~h~~laRdiA~~~n~~~~~~~~~~p~~~~~~-------------------------------~~~i~~L~ 192 (333)
T PRK12282 145 LVPV-GDDQLPMIEQTREIVRRFNSLYGTDVLVEPEALLPE-------------------------------AGRLPGLD 192 (333)
T ss_pred EEEe-ccccHHHHHHHHHHHHHHhhhcCCccccCchhcccC-------------------------------CCcccCCC
Confidence 4565 577888899999999999988777877654321 00 0112333
Q ss_pred CCCCCCCCCCeeeecCCCCeeeeeeeecCCCHHHHHHHHHHhcc
Q 026946 107 GPIQVSPARGIAMIGARPWVALYNIPIMSTDVAATRRIARMVSA 150 (230)
Q Consensus 107 Gp~~~~p~~Gat~vGAr~~liayNV~L~t~dl~~A~~IA~~vR~ 150 (230)
|+.+++.+.+ + .|+|..+.=++.+||-++.-.
T Consensus 193 g~~KMSKS~~-----------~-~I~L~D~pe~I~kKI~~A~td 224 (333)
T PRK12282 193 GKAKMSKSLG-----------N-AIYLSDDADTIKKKVMSMYTD 224 (333)
T ss_pred CCCcCCCCCC-----------C-eeeeeCCHHHHHHHHHhCcCC
Confidence 3467776664 2 377766555888888887654
No 48
>PF10071 DUF2310: Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); InterPro: IPR016908 This group represents uncharacterised conserved proteins.
Probab=28.27 E-value=44 Score=30.78 Aligned_cols=21 Identities=14% Similarity=0.360 Sum_probs=17.3
Q ss_pred HHHHHHHHhhhcCCcEeeecc
Q 026946 44 AKAVAADIGSRFQVPVFLYAA 64 (230)
Q Consensus 44 A~~la~~i~~~l~vPVyLYga 64 (230)
-+.|.++|....+||+|+|=.
T Consensus 188 G~~l~~~Ie~~T~iPtYYyLy 208 (258)
T PF10071_consen 188 GRDLCKRIEKLTGIPTYYYLY 208 (258)
T ss_pred HHHHHHHHHHHhCCCeEEEEE
Confidence 346889999999999999953
No 49
>cd07320 Extradiol_Dioxygenase_3B_like Subunit B of Class III Extradiol ring-cleavage dioxygenases. Dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. Two major groups of dioxygenases have been identified according to the cleavage site of the aromatic ring. Intradiol enzymes cleave the aromatic ring between two hydroxyl groups, whereas extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Extradiol dioxygenases can be further divided into three classes. Class I and II enzymes are evolutionary related and show sequence similarity, with the two-domain class II enzymes evolving from the class I enzyme through gene duplication. Class III enzymes are different in sequence and structure and usually have two subunits, designated A and B. This model represents the catalytic subunit B of extradiol dioxygenase class
Probab=27.61 E-value=2.7e+02 Score=24.19 Aligned_cols=65 Identities=17% Similarity=0.152 Sum_probs=37.7
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCceE---eeeecC----------C----CeEEEEeecCCCCCCCHHHHHHHHHHHHHH
Q 026946 135 STDVAATRRIARMVSARGGGLPTVQT---LGLVHG----------E----DSTEIACMLLEPNQVGADRVQNRVEKLAAE 197 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~VqA---mg~~~~----------~----g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~~ 197 (230)
..|.++|++|++..++ + ++.... .++.|+ + -+|+|++|... .++.+.++.-+.++.-
T Consensus 80 ~~d~ela~~l~~~~~~-~--~~~~~~~~~~~~DHg~~vpl~~l~~~~~~~piVpi~i~~~~---~~~~~~~~lG~aL~~~ 153 (260)
T cd07320 80 KGDPDLAWEIAEELIK-E--IPVTIVNEMDGLDHGTLVPLSYIFGDPWDFKVIPLSVGVLV---PPFAKLFEFGKAIRAA 153 (260)
T ss_pred CCCHHHHHHHHHHHHh-c--CCEEEEcccccCCeeecccHHHHhCCCCCCcEEEEEeeccC---CCHHHHHHHHHHHHHH
Confidence 3678999999988764 2 221111 112111 1 58999998875 3566666655554432
Q ss_pred -----cCCcccce
Q 026946 198 -----EGLDVEKG 205 (230)
Q Consensus 198 -----~Gv~V~~~ 205 (230)
.+|-|++|
T Consensus 154 ~~~~~~~vliI~S 166 (260)
T cd07320 154 VEPSDLRVHVVAS 166 (260)
T ss_pred HHhcCCcEEEEEe
Confidence 35666655
No 50
>TIGR00629 uvde UV damage endonuclease UvdE. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=27.35 E-value=1e+02 Score=28.95 Aligned_cols=45 Identities=20% Similarity=0.260 Sum_probs=34.9
Q ss_pred CHHHHHHHHHHHHHHcCCccc--ceeecCCC--HHHHHHHHHHHHHhhh
Q 026946 183 GADRVQNRVEKLAAEEGLDVE--KGYFTDFS--PEMIVEKYMNLINATA 227 (230)
Q Consensus 183 p~~~V~e~v~~~A~~~Gv~V~--~~y~~~f~--~~~ile~~~~~~~~~~ 227 (230)
....-++.|.+.|+++|+++. -+||++++ .++++|+.++.+...+
T Consensus 91 ~~~~~l~~iG~~a~~~~iRLS~Hp~qfi~LnS~~~evv~~Si~~L~~ha 139 (312)
T TIGR00629 91 FAQKELREIGELAKTHQHRLTFHPGQFTQFTSPRESVVKSAIRDLAYHD 139 (312)
T ss_pred HHHHHHHHHHHHHHHcCeEEEECCCccccCCCCCHHHHHHHHHHHHHHH
Confidence 455678889999999998766 57999985 3589999887766443
No 51
>PRK00092 ribosome maturation protein RimP; Reviewed
Probab=26.85 E-value=64 Score=26.75 Aligned_cols=71 Identities=20% Similarity=0.326 Sum_probs=43.1
Q ss_pred HHHhcCCCCCC-cCCCCCccc-ccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcEe-eecccCC--CC--CChHHHHh
Q 026946 5 AYGAINLETHS-GAHPRLGVV-DDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPVF-LYAAAHP--TG--KPLDTIRR 77 (230)
Q Consensus 5 A~elIDm~~H~-G~HPR~Gav-DviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPVy-LYgaa~p--~r--r~La~iRr 77 (230)
-+++.|+.-+. |.++.+=++ |. -+++|+++|.++++.+...|=..-.+|-- .-+=.+| +| ++..+.+|
T Consensus 21 g~~l~dv~~~~~~~~~~l~V~Id~-----~~gv~iddc~~~Sr~is~~LD~~d~i~~~Y~LEVSSPGi~RpL~~~~~f~r 95 (154)
T PRK00092 21 GYELVDVEYVKEGRDSTLRIYIDK-----EGGIDLDDCEEVSRQISAVLDVEDPIPGAYTLEVSSPGLDRPLKKARDFRR 95 (154)
T ss_pred CCEEEEEEEEecCCCcEEEEEEEC-----CCCCCHHHHHHHHHHHHHHhccccCCCCCeEEEEeCCCCCCcCCCHHHHHH
Confidence 35678888665 456655554 53 26799999999999999988533224322 2233444 22 45556666
Q ss_pred hcC
Q 026946 78 ELG 80 (230)
Q Consensus 78 ~~G 80 (230)
-.|
T Consensus 96 ~~G 98 (154)
T PRK00092 96 FIG 98 (154)
T ss_pred hCC
Confidence 433
No 52
>PF02119 FlgI: Flagellar P-ring protein; InterPro: IPR001782 The flgH, flgI and fliF genes of Salmonella typhimurium encode the major proteins for the L, P and M rings of the flagellar basal body []. In fact, the basal body consists of four rings (L,P,S and M) surrounding the flagellar rod, which is believed to transmit motor rotation to the filament []. The M ring is integral to the inner membrane of the cell, and may be connected to the rod via the S (supramembrane) ring, which lies just distal to it. The L and P rings reside in the outer membrane and periplasmic space, respectively. The sequences of the FlgH, FlgI and FliF gene products have been determined []. FlgH and FlgI, which are exported across the cell membrane to their destinations in the outer membrane and periplasmic space, have typical N-terminal cleaved signal-peptide sequences [, ]. FlgH is predicted to have an extensive beta-sheet structure, in keeping with other outer membrane proteins, and FlgI is thought to have even more beta-structure content []. Several aspects of the DNA sequence of these genes and their surrounds suggest complex regulation of the flagellar gene system.; GO: 0005198 structural molecule activity, 0001539 ciliary or flagellar motility, 0009428 bacterial-type flagellum basal body, distal rod, P ring, 0030288 outer membrane-bounded periplasmic space
Probab=26.38 E-value=1.2e+02 Score=29.03 Aligned_cols=58 Identities=21% Similarity=0.304 Sum_probs=41.5
Q ss_pred CCCCCCeeeecCC-----CCee----eeeeeecCCCHHHHHHHHHHhccCC-CCCCCceEeeeecCCCeEEEEe
Q 026946 111 VSPARGIAMIGAR-----PWVA----LYNIPIMSTDVAATRRIARMVSARG-GGLPTVQTLGLVHGEDSTEIAC 174 (230)
Q Consensus 111 ~~p~~Gat~vGAr-----~~li----ayNV~L~t~dl~~A~~IA~~vR~~~-GGL~~VqAmg~~~~~g~~qVS~ 174 (230)
-||+.|-..=||. ++-. .+++.|+..|...|++||.+|-.+- .+. +...+.+.+||..
T Consensus 137 n~~t~GrIp~Ga~vEr~v~~~~~~~~~l~L~L~~~dfttA~rIa~aIN~~fg~~~------A~a~d~~~I~v~~ 204 (342)
T PF02119_consen 137 NHPTVGRIPNGAIVEREVPYDFDDNGTLTLNLNNPDFTTAQRIADAINSRFGPGV------ARAVDAGTIEVSV 204 (342)
T ss_pred cCCccEEecCcEEEEEcCCCCcCCCCeEEEEecCCChHHHHHHHHHHHHhcCCCc------eEeeCCCEEEEEc
Confidence 4688877777774 2222 4488899999999999999998763 333 4444567788775
No 53
>PRK13370 mhpB 3-(2,3-dihydroxyphenyl)propionate dioxygenase; Provisional
Probab=25.62 E-value=2.1e+02 Score=26.75 Aligned_cols=71 Identities=11% Similarity=0.025 Sum_probs=43.2
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCceEeeeecC--------------CCeEEEEeecCCCCCCCHHHHHHHHHHHHH----
Q 026946 135 STDVAATRRIARMVSARGGGLPTVQTLGLVHG--------------EDSTEIACMLLEPNQVGADRVQNRVEKLAA---- 196 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~--------------~g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~---- 196 (230)
..|.++|++|++.+...+=-+.....+.+.|+ --+|+|++|..-+-..++.+.++.=+.+++
T Consensus 85 ~~d~eLA~~i~~~~~~~g~d~a~~~~~~lDHG~~vPL~~l~~~~~~~pVVpI~vn~~~~p~~s~~r~~~lG~aI~~ai~~ 164 (313)
T PRK13370 85 PVPSDLAEALAEAVLDSGIDVAVSYRMQVDHGFAQPLEFLLGGLDAYPVIPVFINSVAAPLPPFRRVRLLGEAVGRFLAT 164 (313)
T ss_pred CCCHHHHHHHHHHhHhcCCChhhcCCcCCCEeHHHHHHHhcCCCCCceEEEEeecCCCCCcCCHHHHHHHHHHHHHHHHh
Confidence 44578999999888765422333344443332 137999999775555676666655554444
Q ss_pred -HcCCcccce
Q 026946 197 -EEGLDVEKG 205 (230)
Q Consensus 197 -~~Gv~V~~~ 205 (230)
..+|-|++|
T Consensus 165 ~d~rVlvIaS 174 (313)
T PRK13370 165 LDKRVLFLGS 174 (313)
T ss_pred cCCCEEEEEe
Confidence 345666665
No 54
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=25.33 E-value=52 Score=29.32 Aligned_cols=19 Identities=26% Similarity=0.606 Sum_probs=15.6
Q ss_pred HHHHHhhhcCCcEeeeccc
Q 026946 47 VAADIGSRFQVPVFLYAAA 65 (230)
Q Consensus 47 la~~i~~~l~vPVyLYgaa 65 (230)
+-.+|+++|++||++||-.
T Consensus 101 ~l~~lad~lgi~Vi~~GL~ 119 (201)
T COG1435 101 VLNELADRLGIPVICYGLD 119 (201)
T ss_pred HHHHHHhhcCCEEEEeccc
Confidence 4467888999999999953
No 55
>PRK14632 hypothetical protein; Provisional
Probab=25.30 E-value=79 Score=27.07 Aligned_cols=70 Identities=13% Similarity=0.201 Sum_probs=41.6
Q ss_pred HHhcCCCCCCcCCCCCccc-ccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcEeee-cccCCC-C---CChHHHHhhc
Q 026946 6 YGAINLETHSGAHPRLGVV-DDIVFHPLARASLDEAAWLAKAVAADIGSRFQVPVFLY-AAAHPT-G---KPLDTIRREL 79 (230)
Q Consensus 6 ~elIDm~~H~G~HPR~Gav-DviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPVyLY-gaa~p~-r---r~La~iRr~~ 79 (230)
+++.|++-+.+..+-+=+. |. | .++|+++|..+++.|+..|=.+-.+|=-+| +=.+|- - +...+-+|-.
T Consensus 23 ~eLvdve~~~~~~~~lrV~ID~----~-~GV~ldDC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGldRpL~~~~~f~r~i 97 (172)
T PRK14632 23 LELWGIELSYGGRTVVRLFVDG----P-EGVTIDQCAEVSRHVGLALEVEDVISSAYVLEVSSPGLERPFFRAEQMSPYV 97 (172)
T ss_pred CEEEEEEEEeCCCcEEEEEEEC----C-CCCCHHHHHHHHHHHHHHhcccccCCCCeEEEEeCCCCCCcCCCHHHHHHhC
Confidence 5677888775443323222 31 2 579999999999999988864433553333 445552 2 4445555533
Q ss_pred C
Q 026946 80 G 80 (230)
Q Consensus 80 G 80 (230)
|
T Consensus 98 G 98 (172)
T PRK14632 98 G 98 (172)
T ss_pred C
Confidence 3
No 56
>cd04872 ACT_1ZPV ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein. This CD, ACT_1ZPV, includes those single ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein (pdb structure 1ZPV). Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.19 E-value=2.4e+02 Score=20.52 Aligned_cols=79 Identities=13% Similarity=0.217 Sum_probs=49.3
Q ss_pred eeecCCC-HHHHHHHHHHhccCCCCCCCceEeeeecCCCeEEEEeecCCCC-CCCHHHHHHHHHHHHHHcCCcccceeec
Q 026946 131 IPIMSTD-VAATRRIARMVSARGGGLPTVQTLGLVHGEDSTEIACMLLEPN-QVGADRVQNRVEKLAAEEGLDVEKGYFT 208 (230)
Q Consensus 131 V~L~t~d-l~~A~~IA~~vR~~~GGL~~VqAmg~~~~~g~~qVS~Nl~d~~-~tp~~~V~e~v~~~A~~~Gv~V~~~y~~ 208 (230)
|.+...| .-+-.+|++.+.+.++-+-.+...-. .+.....+-+.-+. ..++.++.+.+++++.++|+.+.
T Consensus 4 l~i~g~D~pGiva~vt~~la~~g~nI~~~~~~~~---~~~f~~~~~v~~~~~~~~~~~L~~~l~~l~~~~~l~~~----- 75 (88)
T cd04872 4 ITVVGKDRVGIVAGVSTKLAELNVNILDISQTIM---DGYFTMIMIVDISESNLDFAELQEELEELGKELGVKIR----- 75 (88)
T ss_pred EEEEcCCCCCHHHHHHHHHHHcCCCEEechhHhh---CCccEEEEEEEeCCCCCCHHHHHHHHHHHHHHcCCEEE-----
Confidence 4444433 45667788888888877666554432 23333333222233 56789999999999999998763
Q ss_pred CCCHHHHHHH
Q 026946 209 DFSPEMIVEK 218 (230)
Q Consensus 209 ~f~~~~ile~ 218 (230)
+.++++.|.
T Consensus 76 -i~~~~~~~~ 84 (88)
T cd04872 76 -IQHEDIFKA 84 (88)
T ss_pred -EEhHHHHHH
Confidence 345555554
No 57
>cd07366 3MGA_Dioxygenase Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 3-O-Methylgallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate. 3-O-Methylgallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate (3MGA) between carbons 2 and 3. 3-O-Methylgallate Dioxygenase is a key enzyme in the syringate degradation pathway, in which the syringate is first converted to 3-O-Methylgallate by O-demethylase. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which uses a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=25.05 E-value=5.3e+02 Score=24.32 Aligned_cols=71 Identities=18% Similarity=0.219 Sum_probs=42.5
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCceEe----eeecC-------------CCeEEEEeec-CCCCCCCHHHHH---HHHHH
Q 026946 135 STDVAATRRIARMVSARGGGLPTVQTL----GLVHG-------------EDSTEIACML-LEPNQVGADRVQ---NRVEK 193 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~VqAm----g~~~~-------------~g~~qVS~Nl-~d~~~tp~~~V~---e~v~~ 193 (230)
..|.++|++|++.+.+.|=-...++.+ ++.|+ --+|+||+|. .++...++.+.+ +.|++
T Consensus 148 ~gd~eLA~~I~~~l~~~G~dv~~~~~~~~~~~lDHG~~~~l~~~~p~~~iPVVpisin~~~~p~~ps~~r~y~lG~aL~~ 227 (328)
T cd07366 148 PCHPELARHLIKHTVADGFDVAALDHLPDTVGIPHAFGFIYRRIMGDLVIPVVPVLINTFYPPNQPSARRCFEFGRAVAR 227 (328)
T ss_pred CCCHHHHHHHHHHHHHcCCCeeeecccCcccCCCcchhhHHHHhcCCCCCcEEEEeecCCCCCCCCCHHHHHHHHHHHHH
Confidence 367899999999988753111111111 22332 1479999998 455466664444 45666
Q ss_pred HHHH----cCCcccce
Q 026946 194 LAAE----EGLDVEKG 205 (230)
Q Consensus 194 ~A~~----~Gv~V~~~ 205 (230)
.+++ .+|-|++|
T Consensus 228 ai~~~~~d~rV~IIaS 243 (328)
T cd07366 228 AIRSWPGDARVGVIAS 243 (328)
T ss_pred HHHhcCCCCCEEEEEe
Confidence 6543 46777765
No 58
>cd07950 Gallate_Doxase_N The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. In this subfamily, the subunits A and B are fused to make a single polypeptide chain. The dimer interface for this subfamily may resemble the tetramer interface of classical LigAB en
Probab=24.58 E-value=2.2e+02 Score=26.01 Aligned_cols=71 Identities=21% Similarity=0.142 Sum_probs=46.0
Q ss_pred CCCHHHHHHHHHHhccCCCCCCCceEeeeecC-----------CC-----eEEEEeecCCCCCCCHHHHH---HHHHHHH
Q 026946 135 STDVAATRRIARMVSARGGGLPTVQTLGLVHG-----------ED-----STEIACMLLEPNQVGADRVQ---NRVEKLA 195 (230)
Q Consensus 135 t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~-----------~g-----~~qVS~Nl~d~~~tp~~~V~---e~v~~~A 195 (230)
..|.++|++|++.+.+.+=.....+.+++.|+ .+ +|-|++|++.....++.+.+ +.|++.+
T Consensus 95 ~g~~~LA~~i~~~~~~~g~~~~~~~~~~lDHG~~vPL~~l~p~~~~~~~~vVpi~~~~~~~~l~~~~~~~~lG~al~~~i 174 (277)
T cd07950 95 RGHAALAQHIAESLVADEFDLTFFQDKPLDHGCFSPLSLLLPHEDGWPVKVVPLQVGVLQFPLPTARRCYKLGQALRRAI 174 (277)
T ss_pred CCCHHHHHHHHHHHHhcCCCeeeccCCCCCceeeeeHHHhCcccccCCCceEEEEEEeEecCCCCHHHHHHHHHHHHHHH
Confidence 46789999999998876534444556666554 12 45677888876665777544 4555555
Q ss_pred HHc----CCcccce
Q 026946 196 AEE----GLDVEKG 205 (230)
Q Consensus 196 ~~~----Gv~V~~~ 205 (230)
+++ +|-+++|
T Consensus 175 ~~~~~d~rv~iIaS 188 (277)
T cd07950 175 ESYPEDLKVAVVGT 188 (277)
T ss_pred HhcCcCCCEEEEEc
Confidence 543 5767765
No 59
>PF06792 UPF0261: Uncharacterised protein family (UPF0261); InterPro: IPR008322 The proteins in this entry are functionally uncharacterised.
Probab=24.50 E-value=80 Score=30.87 Aligned_cols=30 Identities=27% Similarity=0.334 Sum_probs=23.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhhcC-CcEee
Q 026946 32 LARASLDEAAWLAKAVAADIGSRFQ-VPVFL 61 (230)
Q Consensus 32 l~~~t~eec~~lA~~la~~i~~~l~-vPVyL 61 (230)
+-.+|.|||.++++.||++|...-+ |-|+|
T Consensus 309 lmRtt~eE~~~~g~~ia~kLn~~~gpv~v~l 339 (403)
T PF06792_consen 309 LMRTTPEENRQLGEFIAEKLNRAKGPVRVLL 339 (403)
T ss_pred EeeCCHHHHHHHHHHHHHHHhcCCCCEEEEE
Confidence 3468999999999999999997444 44444
No 60
>PRK14630 hypothetical protein; Provisional
Probab=24.48 E-value=1.1e+02 Score=25.52 Aligned_cols=66 Identities=14% Similarity=0.144 Sum_probs=39.4
Q ss_pred HHHhcCCCCCC-cCCCCCccc-ccccceeCCCCCHHHHHHHHHHHHHHHhhhcCCc-EeeecccCCC-C---CChHHHHh
Q 026946 5 AYGAINLETHS-GAHPRLGVV-DDIVFHPLARASLDEAAWLAKAVAADIGSRFQVP-VFLYAAAHPT-G---KPLDTIRR 77 (230)
Q Consensus 5 A~elIDm~~H~-G~HPR~Gav-DviPf~Pl~~~t~eec~~lA~~la~~i~~~l~vP-VyLYgaa~p~-r---r~La~iRr 77 (230)
-+++.|++.+. |.++.+=+. |- | .++|+++|..++|.+...+-+ .+| -|.-+=.+|- . ++..+-+|
T Consensus 22 G~eLvdve~~~~~~~~~lrV~Id~----~-~gV~idDC~~vSr~i~~~ld~--~i~~~Y~LEVSSPGldRpL~~~~df~r 94 (143)
T PRK14630 22 GIEIIEINTFRNRNEGKIQIVLYK----K-DSFGVDTLCDLHKMILLILEA--VLKYNFSLEISTPGINRKIKSDREFKI 94 (143)
T ss_pred CCEEEEEEEEecCCCcEEEEEEEC----C-CCCCHHHHHHHHHHHHHHhcc--cCCCCeEEEEeCCCCCCcCCCHHHHHH
Confidence 35788888655 445533322 31 2 579999999999999888743 233 2222435552 2 44455555
No 61
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=23.82 E-value=2.7e+02 Score=19.92 Aligned_cols=62 Identities=13% Similarity=0.041 Sum_probs=43.4
Q ss_pred CCHHHHHHHHHHhccCCCCCCCceEeeeec-CCCeEEEEeecCCCCCCCHHHHHHHHHHHHHHcCCcc
Q 026946 136 TDVAATRRIARMVSARGGGLPTVQTLGLVH-GEDSTEIACMLLEPNQVGADRVQNRVEKLAAEEGLDV 202 (230)
Q Consensus 136 ~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~-~~g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~~~Gv~V 202 (230)
+..-+-.+|++.+.+.|+-.-.++..-... ---++.++.+ ..+...+.+..+.+|+++|+.+
T Consensus 10 Dr~GiVa~vs~~la~~g~nI~d~~q~~~~~~F~m~~~~~~~-----~~~~~~l~~~l~~~~~~~~l~i 72 (77)
T cd04893 10 DRPGILNELTRAVSESGCNILDSRMAILGTEFALTMLVEGS-----WDAIAKLEAALPGLARRLDLTL 72 (77)
T ss_pred CCChHHHHHHHHHHHcCCCEEEceeeEEcCEEEEEEEEEec-----cccHHHHHHHHHHHHHHcCCEE
Confidence 335677889999999988877666555210 0123444443 3478999999999999999865
No 62
>PRK02001 hypothetical protein; Validated
Probab=23.77 E-value=79 Score=26.66 Aligned_cols=48 Identities=10% Similarity=0.201 Sum_probs=30.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhhcCCcEeeecccCCC--C--CChHHHHhhcCc
Q 026946 32 LARASLDEAAWLAKAVAADIGSRFQVPVFLYAAAHPT--G--KPLDTIRRELGY 81 (230)
Q Consensus 32 l~~~t~eec~~lA~~la~~i~~~l~vPVyLYgaa~p~--r--r~La~iRr~~G~ 81 (230)
-.++|+++|.++++.|...+=.+ . .-|.-+=.+|- | +...+.+|-.|.
T Consensus 40 ~~Gv~lddC~~vSr~is~~LD~~-d-~~Y~LEVSSPGldRpL~~~~~f~r~~G~ 91 (152)
T PRK02001 40 DEGVWIEDCVELSRAIEHNLDRE-E-EDFELEVGSAGLTSPLKVPRQYKKNIGR 91 (152)
T ss_pred CCCCCHHHHHHHHHHHHHHhcCC-C-CCeEEEEeCCCCCCcCCCHHHHHHhCCC
Confidence 35799999999999999888643 2 34444545552 2 445555554443
No 63
>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_1 CD includes the first of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.67 E-value=2.7e+02 Score=19.63 Aligned_cols=63 Identities=17% Similarity=0.277 Sum_probs=40.3
Q ss_pred HHHHHHHHHHhccCCCCCCCceEeeeecCCCeEEEEeecCCCCCCCHHHHHHHHHHHHHHcCCccc
Q 026946 138 VAATRRIARMVSARGGGLPTVQTLGLVHGEDSTEIACMLLEPNQVGADRVQNRVEKLAAEEGLDVE 203 (230)
Q Consensus 138 l~~A~~IA~~vR~~~GGL~~VqAmg~~~~~g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~~~Gv~V~ 203 (230)
.-+-.+|++.+.+.+..+-.+..- ... +.....+-+.=+....+.++.+..+.++++.|+.+.
T Consensus 10 pGiv~~vt~~la~~~~nI~dl~~~-~~~--~~f~~~~~v~~p~~~~~~~l~~~l~~l~~~l~l~i~ 72 (75)
T cd04870 10 PGLTSALTEVLAAHGVRILDVGQA-VIH--GRLSLGILVQIPDSADSEALLKDLLFKAHELGLQVR 72 (75)
T ss_pred CCHHHHHHHHHHHCCCCEEecccE-EEc--CeeEEEEEEEcCCCCCHHHHHHHHHHHHHHcCceEE
Confidence 356677888888887666655421 112 222222222224446799999999999999998763
No 64
>COG1671 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.65 E-value=67 Score=27.41 Aligned_cols=25 Identities=20% Similarity=0.429 Sum_probs=22.0
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHcCCccc
Q 026946 176 LLEPNQVGADRVQNRVEKLAAEEGLDVE 203 (230)
Q Consensus 176 l~d~~~tp~~~V~e~v~~~A~~~Gv~V~ 203 (230)
..|.+.+| |.++|++.|.++|+.|+
T Consensus 5 ~VDADACP---Vk~~i~r~A~r~~~~v~ 29 (150)
T COG1671 5 WVDADACP---VKDEIYRVAERMGLKVT 29 (150)
T ss_pred EEeCCCCc---hHHHHHHHHHHhCCeEE
Confidence 35888899 99999999999999776
No 65
>COG1324 CutA Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]
Probab=23.64 E-value=1.8e+02 Score=23.43 Aligned_cols=65 Identities=15% Similarity=0.338 Sum_probs=42.6
Q ss_pred eeecCCCHHHHHHHHHHhccCC-----CCCCCceEeeeecCC--CeEEEEeecCCCCCCCHHHHHHHHHHHHHHcC
Q 026946 131 IPIMSTDVAATRRIARMVSARG-----GGLPTVQTLGLVHGE--DSTEIACMLLEPNQVGADRVQNRVEKLAAEEG 199 (230)
Q Consensus 131 V~L~t~dl~~A~~IA~~vR~~~-----GGL~~VqAmg~~~~~--g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~~~G 199 (230)
|..+..|.+-|++||+.+=+.. --+|+|+++=|+.+. .-.|+.| +. +|.-....+.+++...-+.
T Consensus 6 Vl~T~pd~e~Ae~iar~lleerLaACvni~p~i~S~Y~W~G~Iee~~E~~l-ii---KT~~~~~~~l~~~ikelHp 77 (104)
T COG1324 6 VLTTAPDEESAERIARKLLEERLAACVNIIPGIKSIYWWEGKIEEDEEVAL-II---KTTSEKFEELIERIKELHP 77 (104)
T ss_pred EEEeCCChHHHHHHHHHHHHHHhhhheecccCccEEEEECCeeeecceeEE-EE---EehHHhHHHHHHHHHHhCC
Confidence 3345589999999999975432 558899999998641 2245555 22 6666666666666555444
No 66
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=23.64 E-value=3.5e+02 Score=23.45 Aligned_cols=76 Identities=9% Similarity=0.069 Sum_probs=61.5
Q ss_pred eeeeeecCCC-HHHHHHHHHHhccCCCCCCCceEeeee--c-CCCeEEEEeecCCCCCCCHHHHHHHHHHHHHHcCCccc
Q 026946 128 LYNIPIMSTD-VAATRRIARMVSARGGGLPTVQTLGLV--H-GEDSTEIACMLLEPNQVGADRVQNRVEKLAAEEGLDVE 203 (230)
Q Consensus 128 ayNV~L~t~d-l~~A~~IA~~vR~~~GGL~~VqAmg~~--~-~~g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~~~Gv~V~ 203 (230)
-|+|.+...| --+-++|++.+.+++-.+...++--.. + +..+....+.+.=|..+.+..+.+..+.+|.+.++...
T Consensus 95 ~~~v~v~G~DrPGIV~~vT~~la~~~iNI~~L~T~~~~a~~~~~~lf~~~~~v~lP~~~~~~~L~~~l~~l~~eL~vd~~ 174 (190)
T PRK11589 95 TVWVQVEVADSPHLIERFTALFDSHHMNIAELVSRTQPAEGERPAQLHIQITAHSPASQDAANIEQAFKALCTELNAQGS 174 (190)
T ss_pred eEEEEEEECCCCCHHHHHHHHHHHcCCChhheEEeeecCCCCCcccEEEEEEEEcCCCCCHHHHHHHHHHHHHHhCceEE
Confidence 3777776544 578899999999999988888887775 3 34577777777788888999999999999999998654
No 67
>cd02106 Band_7 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic HflK/C plays a role i
Probab=23.42 E-value=1.4e+02 Score=21.76 Aligned_cols=37 Identities=22% Similarity=0.294 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHcCCcccceeecCCCHHHHHHHHH
Q 026946 184 ADRVQNRVEKLAAEEGLDVEKGYFTDFSPEMIVEKYM 220 (230)
Q Consensus 184 ~~~V~e~v~~~A~~~Gv~V~~~y~~~f~~~~ile~~~ 220 (230)
-..|.+.+......+|+.+..-.++++++.+-++.++
T Consensus 81 ~~~v~~~l~~~~~~~Gi~i~~v~i~~i~~~~~~~~ai 117 (121)
T cd02106 81 AAEVREALQEDLDKYGIEVVDVRIKDIDPPEEVQEAM 117 (121)
T ss_pred HHHHHHHHHHHHHhcCCEEEEEEEEecCCCHHHHHHH
Confidence 3456677777889999999998887776444344444
No 68
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=23.37 E-value=91 Score=22.36 Aligned_cols=60 Identities=18% Similarity=0.196 Sum_probs=41.4
Q ss_pred HHHHHHHHHHhccCCCCCCCceEeeeec-CCCeEEEEeecCCCCCCCHHHHHHHHHHHHHHcCCcc
Q 026946 138 VAATRRIARMVSARGGGLPTVQTLGLVH-GEDSTEIACMLLEPNQVGADRVQNRVEKLAAEEGLDV 202 (230)
Q Consensus 138 l~~A~~IA~~vR~~~GGL~~VqAmg~~~-~~g~~qVS~Nl~d~~~tp~~~V~e~v~~~A~~~Gv~V 202 (230)
..+..+|++.+.+.++-+-.++---+.. --.+.+|+.+ ...+.++.+.++++++++|+.|
T Consensus 13 pGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~-----~~~~~~l~~~L~~l~~~~~l~v 73 (76)
T PF13740_consen 13 PGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIP-----EDSLERLESALEELAEELGLDV 73 (76)
T ss_dssp TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEES-----HHHHHHHHHHHHHHHHHTT-EE
T ss_pred CcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeC-----cccHHHHHHHHHHHHHHCCcEE
Confidence 5677889999999888776666544321 1144555554 3478999999999999999876
No 69
>PF00736 EF1_GNE: EF-1 guanine nucleotide exchange domain; InterPro: IPR014038 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) []. This entry represents the guanine nucleotide exchange domain of the beta (EF-1beta, also known as EF1B-alpha) and delta (EF-1delta, also known as EF1B-beta) chains of EF1B proteins from eukaryotes and archaea. The beta and delta chains have exchange activity, which mainly resides in their homologous guanine nucleotide exchange domains, found in the C-terminal region of the peptides. Their N-terminal regions may be involved in interactions with the gamma chain (EF-1gamma). More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0003746 translation elongation factor activity, 0006414 translational elongation, 0005853 eukaryotic translation elongation factor 1 complex; PDB: 2YY3_B 1GH8_A 1B64_A 1IJE_B 1IJF_B 1F60_B 1G7C_B 2B7B_B 2B7C_B.
Probab=23.29 E-value=2e+02 Score=22.04 Aligned_cols=47 Identities=9% Similarity=0.191 Sum_probs=33.6
Q ss_pred HHHHhcc--CCCCCCCceEeee-ecCCC--eEEEEeecCCCCCCCHHHHHHHH
Q 026946 144 IARMVSA--RGGGLPTVQTLGL-VHGED--STEIACMLLEPNQVGADRVQNRV 191 (230)
Q Consensus 144 IA~~vR~--~~GGL~~VqAmg~-~~~~g--~~qVS~Nl~d~~~tp~~~V~e~v 191 (230)
+.+.|+. ..+||...++.-. |...| ..|++|-+.| +..+.+.+++.+
T Consensus 20 l~~~Ik~~i~~~gl~w~~~~~~epIaFGlk~L~v~~vv~D-~~~~~d~lee~i 71 (89)
T PF00736_consen 20 LEKKIKRKIPMEGLKWGEKSKEEPIAFGLKALQVSCVVED-DEGSTDDLEEAI 71 (89)
T ss_dssp HHHHHHHHS-TTTEEEEEEEEEEEECTTEEEEEEEEEECT-TTCGHHHHHHHH
T ss_pred HHHHHHHhchhcceeeeeeeeeeeecccEEEEEEEEEEEc-CccChHHHHHHH
Confidence 5555522 2578877766665 34444 4899998889 888999999998
No 70
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=23.29 E-value=1.2e+02 Score=20.55 Aligned_cols=27 Identities=7% Similarity=0.126 Sum_probs=23.6
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCCcE
Q 026946 33 ARASLDEAAWLAKAVAADIGSRFQVPV 59 (230)
Q Consensus 33 ~~~t~eec~~lA~~la~~i~~~l~vPV 59 (230)
.+-|-|+--+|++.|.+.+.+.+++|-
T Consensus 10 ~grs~eqk~~l~~~it~~l~~~~~~p~ 36 (62)
T PRK00745 10 EGRTVEQKRKLVEEITRVTVETLGCPP 36 (62)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHcCCCh
Confidence 367999999999999999999999763
No 71
>COG0141 HisD Histidinol dehydrogenase [Amino acid transport and metabolism]
Probab=23.27 E-value=61 Score=31.93 Aligned_cols=59 Identities=32% Similarity=0.447 Sum_probs=36.7
Q ss_pred CCHHHHHHHHHHHHHHHhhhcCCcEeeecccCCCCCChHHHHhh----cCccCCCCCCCcccccCCCCCCCCCCCC--CC
Q 026946 35 ASLDEAAWLAKAVAADIGSRFQVPVFLYAAAHPTGKPLDTIRRE----LGYYRPNSMGNQWAGWTMPEILPERPNE--GP 108 (230)
Q Consensus 35 ~t~eec~~lA~~la~~i~~~l~vPVyLYgaa~p~rr~La~iRr~----~G~f~~~~~~~~~~g~~~~~~~~~~PD~--Gp 108 (230)
-+++||+++++.+|-+--+ | ....-+.-|..||.. +|.|.+.+ --|| ||
T Consensus 305 ~~l~ea~~~~N~~APEHLe---i------~~~~p~~~l~~I~nAGsIFlG~~sPe~----------------~GDY~aG~ 359 (425)
T COG0141 305 DDLDEAVEISNEYAPEHLE---L------QTENPRELLGKIRNAGSIFLGHYSPES----------------LGDYAAGP 359 (425)
T ss_pred CCHHHHHHHHHhhChHhhh---h------hhcCHHHHHHHhcccceeeecCCCCcc----------------ccccccCC
Confidence 4688899877776653221 1 112235668888884 44444333 2366 89
Q ss_pred CCCCCCCCee
Q 026946 109 IQVSPARGIA 118 (230)
Q Consensus 109 ~~~~p~~Gat 118 (230)
+++-||.|.+
T Consensus 360 NHVLPT~g~A 369 (425)
T COG0141 360 NHVLPTSGTA 369 (425)
T ss_pred CccCCCCccc
Confidence 9988999974
No 72
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=23.27 E-value=95 Score=26.58 Aligned_cols=30 Identities=20% Similarity=0.288 Sum_probs=23.8
Q ss_pred HHHHHHhhhcCCcEeeecccCCCCCChHHHHh
Q 026946 46 AVAADIGSRFQVPVFLYAAAHPTGKPLDTIRR 77 (230)
Q Consensus 46 ~la~~i~~~l~vPVyLYgaa~p~rr~La~iRr 77 (230)
.-++.+.+.++|||+.|.+..| ....++.+
T Consensus 96 ~~a~~~~~~lgIpvl~h~~kKP--~~~~~i~~ 125 (168)
T PF09419_consen 96 ERAEALEKALGIPVLRHRAKKP--GCFREILK 125 (168)
T ss_pred HHHHHHHHhhCCcEEEeCCCCC--ccHHHHHH
Confidence 3466777888899999998888 66667777
No 73
>PRK12706 flgI flagellar basal body P-ring protein; Provisional
Probab=23.23 E-value=1.9e+02 Score=27.67 Aligned_cols=43 Identities=19% Similarity=0.291 Sum_probs=34.9
Q ss_pred eeeeeeeecCCCHHHHHHHHHHhccCCCCCCCceEeeeecCCCeEEEEee
Q 026946 126 VALYNIPIMSTDVAATRRIARMVSARGGGLPTVQTLGLVHGEDSTEIACM 175 (230)
Q Consensus 126 liayNV~L~t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~~g~~qVS~N 175 (230)
.-.++++|...|...|.+|+++|-..-|+ +...+.+.++|..-
T Consensus 181 ~~~i~L~L~~pDFtTA~rIa~aIN~~~g~-------A~a~D~~tV~V~~P 223 (328)
T PRK12706 181 YTHYNIILKKGDYTLINRISKILTSKNIK-------NNIKSGNIIEIEVK 223 (328)
T ss_pred CCeEEEEECCCCcHHHHHHHHHHHhhccC-------ceecCCCeEEEeCC
Confidence 55789999999999999999999987665 34445678888874
No 74
>TIGR02298 HpaD_Fe 3,4-dihydroxyphenylacetate 2,3-dioxygenase. This enzyme catalyzes the ring-opening step in the degradation of 4-hydroxyphenylacetate.
Probab=22.81 E-value=2.1e+02 Score=26.09 Aligned_cols=75 Identities=19% Similarity=0.193 Sum_probs=44.5
Q ss_pred eeeeec-CCCHHHHHHHHHHhccCCCCCCC----ceEeeeecC----------C---CeEEEEeecCCCCCCCHHHHHHH
Q 026946 129 YNIPIM-STDVAATRRIARMVSARGGGLPT----VQTLGLVHG----------E---DSTEIACMLLEPNQVGADRVQNR 190 (230)
Q Consensus 129 yNV~L~-t~dl~~A~~IA~~vR~~~GGL~~----VqAmg~~~~----------~---g~~qVS~Nl~d~~~tp~~~V~e~ 190 (230)
|++... ..|.++|++|++..++. |++. -..++|.|+ + -+||||+|....+.--.++.=+.
T Consensus 86 ~~~~y~~~gd~eLA~~i~~~~~~~--gi~~~~~~~~~~~lDHG~~vPL~~l~p~~~ipvV~is~~~~~~~~~~~~~lG~a 163 (282)
T TIGR02298 86 QDLRYDYPGNPALGQLIADEAQEH--GVKTLAHQVPSLGLEYGTLVPMRYMNEDGHFKVVSIAAWCTVHDIEESRALGEA 163 (282)
T ss_pred hCceeeCCCCHHHHHHHHHHHHHC--CCceeeccCCCCCCCeehHhHHHHhCCCCCCcEEEEeecCCCCCHHHHHHHHHH
Confidence 444444 46789999999998854 3332 134455444 1 47999998443332233444556
Q ss_pred HHHHHHH--cCCcccce
Q 026946 191 VEKLAAE--EGLDVEKG 205 (230)
Q Consensus 191 v~~~A~~--~Gv~V~~~ 205 (230)
+++++.+ .+|-|++|
T Consensus 164 l~~~i~~~~~rV~iIaS 180 (282)
T TIGR02298 164 IRKAIEQSDGRVAVLAS 180 (282)
T ss_pred HHHHHHhcCCCEEEEEe
Confidence 6666554 45666665
No 75
>COG1748 LYS9 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]
Probab=22.79 E-value=1.6e+02 Score=28.65 Aligned_cols=70 Identities=17% Similarity=0.224 Sum_probs=48.9
Q ss_pred eeeeecCCCHHHHHHHHHHhccCCCCCCCceEeeee-cCCC-------eEEEEeecCCCCCCCHHHHHHHHHHHHHHcCC
Q 026946 129 YNIPIMSTDVAATRRIARMVSARGGGLPTVQTLGLV-HGED-------STEIACMLLEPNQVGADRVQNRVEKLAAEEGL 200 (230)
Q Consensus 129 yNV~L~t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~-~~~g-------~~qVS~Nl~d~~~tp~~~V~e~v~~~A~~~Gv 200 (230)
++|.+-+.+.+-+++|+..+.+ .||++.+. .+.. ..++..|+..+.++. .+-+.|.+.|+
T Consensus 26 ~~V~iAdRs~~~~~~i~~~~~~------~v~~~~vD~~d~~al~~li~~~d~VIn~~p~~~~~------~i~ka~i~~gv 93 (389)
T COG1748 26 GEVTIADRSKEKCARIAELIGG------KVEALQVDAADVDALVALIKDFDLVINAAPPFVDL------TILKACIKTGV 93 (389)
T ss_pred ceEEEEeCCHHHHHHHHhhccc------cceeEEecccChHHHHHHHhcCCEEEEeCCchhhH------HHHHHHHHhCC
Confidence 6899988888888888877655 79999986 3321 128888887665543 66667777888
Q ss_pred cccce-eecCC
Q 026946 201 DVEKG-YFTDF 210 (230)
Q Consensus 201 ~V~~~-y~~~f 210 (230)
.++.+ |+..+
T Consensus 94 ~yvDts~~~~~ 104 (389)
T COG1748 94 DYVDTSYYEEP 104 (389)
T ss_pred CEEEcccCCch
Confidence 77664 44433
No 76
>PF02576 DUF150: Uncharacterised BCR, YhbC family COG0779; InterPro: IPR003728 The RimP protein facilitates maturation of the 30S ribsomal subunit, and is required for the efficient production of translationally competent ribosmomes [].; PDB: 1IB8_A.
Probab=22.79 E-value=43 Score=27.17 Aligned_cols=48 Identities=19% Similarity=0.355 Sum_probs=23.6
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcCC-cEeeecccCCC-CCC---hHHHHhhcC
Q 026946 33 ARASLDEAAWLAKAVAADIGSRFQV-PVFLYAAAHPT-GKP---LDTIRRELG 80 (230)
Q Consensus 33 ~~~t~eec~~lA~~la~~i~~~l~v-PVyLYgaa~p~-rr~---La~iRr~~G 80 (230)
.++|+++|.+++|.+...+=.+-.+ .-|.-+=.+|- .|. ..+.+|-.|
T Consensus 35 ~gv~lddc~~~sr~i~~~LD~~d~i~~~y~LEVSSPG~~r~L~~~~~~~~~iG 87 (141)
T PF02576_consen 35 GGVSLDDCEKVSRAISALLDAEDPIPEDYTLEVSSPGIDRPLKSPRDFERFIG 87 (141)
T ss_dssp S---HHHHHHHHHHHGGGTTTS----S-EEEEEE--SSSS--SSHHHHHHH-S
T ss_pred CCCCHHHHHHHHHHHHHHHccccccCcceEEEEeCCCCCCcCCCHHHHHHhcC
Confidence 4699999999888888777553233 33444545552 344 456666433
No 77
>PRK13363 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=22.64 E-value=6.5e+02 Score=23.82 Aligned_cols=70 Identities=16% Similarity=0.124 Sum_probs=40.5
Q ss_pred CCHHHHHHHHHHhccCCCCCCCceEee----eecC-------------CCeEEEEeecC-CCCCCCHHHHHHHHHHHHH-
Q 026946 136 TDVAATRRIARMVSARGGGLPTVQTLG----LVHG-------------EDSTEIACMLL-EPNQVGADRVQNRVEKLAA- 196 (230)
Q Consensus 136 ~dl~~A~~IA~~vR~~~GGL~~VqAmg----~~~~-------------~g~~qVS~Nl~-d~~~tp~~~V~e~v~~~A~- 196 (230)
.|.++|++|++.+.+.|=-+..++.+- +.|+ --+|+|++|.. ++...++.+.++.-+.++.
T Consensus 153 gd~eLA~~I~~~l~~~G~d~~~~~~~~~~~glDHG~~~pl~~l~p~~dipVVpIsl~~~~~P~~~s~~~~~~lG~aL~~~ 232 (335)
T PRK13363 153 VVPELARHMIRRLVDDGFDITALDRLPDGEGEGHAFGFVHRQLMKDNVLPTVPVLVNTFYPPNQPTPRRCIALGRSLRRA 232 (335)
T ss_pred CCHHHHHHHHHHHHHcCCCeeeecccccccCCCccchhhHHHhcCCCCCcEEEEEeccCCCcCCCCHHHHHHHHHHHHHH
Confidence 688999999999987541111111111 2222 25799999964 3324556666655554443
Q ss_pred --H----cCCcccce
Q 026946 197 --E----EGLDVEKG 205 (230)
Q Consensus 197 --~----~Gv~V~~~ 205 (230)
+ .+|-|++|
T Consensus 233 i~~~~~d~rVlIIaS 247 (335)
T PRK13363 233 IRSWPEDARVAVIAS 247 (335)
T ss_pred HHhcCcCCCEEEEEe
Confidence 3 45777775
No 78
>COG5595 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]
Probab=22.41 E-value=64 Score=29.17 Aligned_cols=20 Identities=15% Similarity=0.348 Sum_probs=17.1
Q ss_pred HHHHHHHhhhcCCcEeeecc
Q 026946 45 KAVAADIGSRFQVPVFLYAA 64 (230)
Q Consensus 45 ~~la~~i~~~l~vPVyLYga 64 (230)
|.+.+||-..+++|+|+|=+
T Consensus 187 r~l~~rIek~t~iptyYyly 206 (256)
T COG5595 187 RYLSKRIEKCTGIPTYYYLY 206 (256)
T ss_pred HHHHHHHHHHhCCCceEEEE
Confidence 45888999999999999954
No 79
>PF10539 Dev_Cell_Death: Development and cell death domain; InterPro: IPR013989 The DCD (Development and Cell Death) domain is found in plant proteins involved in development and cell death. The DCD domain is an ~130 amino acid long stretch that contains several mostly invariable motifs. These include a FGLP and a LFL motif at the N terminus and a PAQV and a PLxE motif towards the C terminus of the domain. The DCD domain is present in proteins with different architectures. Some of these proteins contain additional recognizable motifs, like the KELCH repeats or the ParB domain []. Biological studies indicate a role of these proteins in phytohormone response, embryo development and programmed cell death by pathogens or ozone. The predicted secondary structure of the DCD domain is mostly composed of beta strands and confined by an alpha-helix at the N- and at the C terminus []. Proteins known to contain a DCD domain are listed below: Carrot B2 protein. Pea Gda-1 protein. Soybean N-rich protein (NRP).
Probab=22.20 E-value=1.1e+02 Score=25.53 Aligned_cols=44 Identities=20% Similarity=0.296 Sum_probs=29.8
Q ss_pred CCCCHHHHHHH--------HHHHHHHHhhhcCCcEeeecccCCCCCChHHHHhhcCccCCCCC
Q 026946 33 ARASLDEAAWL--------AKAVAADIGSRFQVPVFLYAAAHPTGKPLDTIRRELGYYRPNSM 87 (230)
Q Consensus 33 ~~~t~eec~~l--------A~~la~~i~~~l~vPVyLYgaa~p~rr~La~iRr~~G~f~~~~~ 87 (230)
.+.|++||..- ...+.+.|- -|.|.|||.... |+=+|=|+..+.
T Consensus 9 n~~T~~ECf~~~lFGLP~~~~~~V~~I~--pG~~LFLfn~~~---------r~L~GifeA~S~ 60 (130)
T PF10539_consen 9 NNKTKPECFRRQLFGLPAGHKDFVKKIK--PGMPLFLFNYSD---------RKLYGIFEATSD 60 (130)
T ss_pred CCCCHHHHHhcccccCChhhhhHHheeC--CCCEEEEEEcCC---------CEEEEEEEecCC
Confidence 46799999861 123444443 379999998654 455788988874
No 80
>PRK13551 agmatine deiminase; Provisional
Probab=22.03 E-value=2.2e+02 Score=27.26 Aligned_cols=91 Identities=16% Similarity=0.170 Sum_probs=51.3
Q ss_pred CCCCCCCCCCCCCCCCCCeeeecCCCCeeeeeeeec-----------CCCHHHHHHHHHHhccCCCCCCCceEeeeecCC
Q 026946 99 ILPERPNEGPIQVSPARGIAMIGARPWVALYNIPIM-----------STDVAATRRIARMVSARGGGLPTVQTLGLVHGE 167 (230)
Q Consensus 99 ~~~~~PD~Gp~~~~p~~Gat~vGAr~~liayNV~L~-----------t~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~~ 167 (230)
.+.|.=|+||.-+....|- ..++.|+.|-= ..|=.++++||+. .|++.++...|-.+.
T Consensus 85 ~D~W~RD~GP~fv~~~~g~------~~~vdf~FNgWG~k~~~~~~~~~~D~~v~~~la~~-----~g~~~~~~~~lvlEG 153 (362)
T PRK13551 85 DDAWVRDTGPTFVINDKGE------VRGVDWGFNAWGGLVGGLYFPWDKDDQVAQKVLEI-----EGRDRYRAKPFVLEG 153 (362)
T ss_pred CCeeecccCCeEEEcCCCC------EEEEeeeeecCCCcccCccCCCccHHHHHHHHHHH-----cCCCcccccCeEEcC
Confidence 4588889999865333332 12667777741 1344778888875 366666665555444
Q ss_pred CeEEE----------EeecCCCCCCCHHHHHHHHHHHHHHcCCc
Q 026946 168 DSTEI----------ACMLLEPNQVGADRVQNRVEKLAAEEGLD 201 (230)
Q Consensus 168 g~~qV----------S~Nl~d~~~tp~~~V~e~v~~~A~~~Gv~ 201 (230)
|-+++ +| |+|+..-|--.=.+.-+.+.+.+|+.
T Consensus 154 G~ie~DG~GtlltTe~c-lln~nRNP~ls~~~ie~~Lk~~LGv~ 196 (362)
T PRK13551 154 GSIHVDGEGTLLTTEEC-LLNPNRNPHLTKEQIEQLLRDYLGVE 196 (362)
T ss_pred CcEEECCCeEEEEEhhh-hcCCCCCCCCCHHHHHHHHHHHHCCC
Confidence 55555 35 55655544332233333445567763
No 81
>cd03400 Band_7_1 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic H
Probab=21.97 E-value=1.1e+02 Score=23.66 Aligned_cols=37 Identities=8% Similarity=0.131 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHcCCcccceeecCCCHHHHHHHHH
Q 026946 184 ADRVQNRVEKLAAEEGLDVEKGYFTDFSPEMIVEKYM 220 (230)
Q Consensus 184 ~~~V~e~v~~~A~~~Gv~V~~~y~~~f~~~~ile~~~ 220 (230)
..++++.++...+.+|+.|..-.+.++++-+-++.++
T Consensus 84 ~~~i~~~l~~~~~~~Gi~v~~v~i~~i~~P~~v~~aI 120 (124)
T cd03400 84 ESAIKKELIEEFVGDGLILEEVLLRNIKLPDQIADAI 120 (124)
T ss_pred HHHHHHHHHHHhccCCeEEEEEEEecccCCHHHHHHH
Confidence 4567888888889999999998887776444444444
No 82
>PF02873 MurB_C: UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; InterPro: IPR011601 This entry represents a C-terminal conserved region of UDP-N-acetylenolpyruvoylglucosamine reductase 1.1.1.158 from EC, which is also called UDP-N-acetylmuramate dehydrogenase. It is a part of the pathway for the biosynthesis of the UDP-N-acetylmuramoyl-pentapeptide, which is a precursor of bacterial peptidoglycan. ; GO: 0008762 UDP-N-acetylmuramate dehydrogenase activity, 0055114 oxidation-reduction process; PDB: 1MBB_A 2Q85_A 2MBR_A 1UXY_A 1MBT_A 1HSK_A 2GQU_A 2GQT_A 3I99_A 3TX1_A.
Probab=21.81 E-value=88 Score=24.72 Aligned_cols=53 Identities=19% Similarity=0.147 Sum_probs=35.9
Q ss_pred HHHHhcCCCCCCcCCCCCcccccccceeC-----CCCCHHHHHHHHHHHHHHHhhhcCCc
Q 026946 4 AAYGAINLETHSGAHPRLGVVDDIVFHPL-----ARASLDEAAWLAKAVAADIGSRFQVP 58 (230)
Q Consensus 4 ~A~elIDm~~H~G~HPR~GavDviPf~Pl-----~~~t~eec~~lA~~la~~i~~~l~vP 58 (230)
.|-.|||----+| =|+|-+=|.+-|+. +++|.+|..+|++.+-+++-++++|.
T Consensus 39 ~Ag~LIe~aGlKG--~~iG~a~vS~kHanfivN~g~Ata~dv~~Li~~v~~~V~~~~Gi~ 96 (105)
T PF02873_consen 39 SAGWLIEQAGLKG--FRIGGAQVSEKHANFIVNHGGATAADVLALIEEVRERVKEKFGIE 96 (105)
T ss_dssp -HHHHHHHTT-TT---EETTEEE-SSSTTEEEE-SS--HHHHHHHHHHHHHHHHHHHS--
T ss_pred hHHHHHHHcCCCC--CeeCcCEechhhCCeEEECCCCCHHHHHHHHHHHHHHHHHHHCCe
Confidence 4566666655555 35677777777765 78999999999999999999988864
No 83
>PRK03011 butyrate kinase; Provisional
Probab=21.69 E-value=60 Score=30.79 Aligned_cols=47 Identities=15% Similarity=0.140 Sum_probs=28.2
Q ss_pred cccceeCCCCCHHHHHHHHHHHHHHHhhhcCCcEeeeccc-C---CC---CCChHHHHhhcC
Q 026946 26 DIVFHPLARASLDEAAWLAKAVAADIGSRFQVPVFLYAAA-H---PT---GKPLDTIRRELG 80 (230)
Q Consensus 26 viPf~Pl~~~t~eec~~lA~~la~~i~~~l~vPVyLYgaa-~---p~---rr~La~iRr~~G 80 (230)
.+|+.|+.+. +--+|.++++++++|+|.+-.+ + |+ ...|+.|||.+|
T Consensus 99 ~~~~~~~~nl--------~~~~a~~~~~~~~~p~~v~D~~~~~~~~~~a~~~~lp~i~R~~g 152 (358)
T PRK03011 99 GKYGEHASNL--------GAIIAYEIAKELGIPAFIVDPVVVDEMEPVARISGLPEIERKSI 152 (358)
T ss_pred cCCCCCCCCH--------HHHHHHHHHHhcCCCEEEECCcccccCCHHHHHcCCCCcceeec
Confidence 3455666654 3336666666779999999742 2 21 355667765433
No 84
>PF03665 UPF0172: Uncharacterised protein family (UPF0172); InterPro: IPR005366 This is a small family of proteins of unknown function.
Probab=21.46 E-value=1.6e+02 Score=25.65 Aligned_cols=42 Identities=26% Similarity=0.308 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHcCCcccceee-----cCCCHHHHHHHHHHHHHh
Q 026946 184 ADRVQNRVEKLAAEEGLDVEKGYF-----TDFSPEMIVEKYMNLINA 225 (230)
Q Consensus 184 ~~~V~e~v~~~A~~~Gv~V~~~y~-----~~f~~~~ile~~~~~~~~ 225 (230)
++..+..|+..|+..|+.++|.|. .+.+++.+-++...++++
T Consensus 60 lEvAL~qvd~~~~~~gl~IvGyY~Ane~~~d~~~~~~a~kiad~I~~ 106 (196)
T PF03665_consen 60 LEVALAQVDAYAKSNGLVIVGYYQANERLDDNSPSPVAEKIADKIAE 106 (196)
T ss_pred HHHHHHHHHHHHhhCCCEEEEEEEeccccccCCCCHHHHHHHHHHHh
Confidence 355688899999999999999887 345677776666666654
No 85
>PRK02399 hypothetical protein; Provisional
Probab=21.38 E-value=1e+02 Score=30.18 Aligned_cols=29 Identities=14% Similarity=0.250 Sum_probs=22.4
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhcC-CcEee
Q 026946 33 ARASLDEAAWLAKAVAADIGSRFQ-VPVFL 61 (230)
Q Consensus 33 ~~~t~eec~~lA~~la~~i~~~l~-vPVyL 61 (230)
-.+|.|||.++++.+|++|...-+ +-|+|
T Consensus 311 mRTt~eE~~~~g~~ia~kLn~a~gpv~vll 340 (406)
T PRK02399 311 MRTTPEENRQIGRWIAEKLNRAKGPVAFLI 340 (406)
T ss_pred eecCHHHHHHHHHHHHHHHhcCCCCeEEEE
Confidence 346899999999999999986655 44444
No 86
>PRK00124 hypothetical protein; Validated
Probab=21.24 E-value=70 Score=27.13 Aligned_cols=25 Identities=16% Similarity=0.401 Sum_probs=21.9
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHcCCccc
Q 026946 176 LLEPNQVGADRVQNRVEKLAAEEGLDVE 203 (230)
Q Consensus 176 l~d~~~tp~~~V~e~v~~~A~~~Gv~V~ 203 (230)
+.|-+.+| |.++|.+.|.++|+.|+
T Consensus 4 ~VDADACP---Vk~~i~r~a~r~~i~v~ 28 (151)
T PRK00124 4 YVDADACP---VKDIIIRVAERHGIPVT 28 (151)
T ss_pred EEECCCCc---HHHHHHHHHHHHCCeEE
Confidence 34888999 99999999999999776
No 87
>PRK14644 hypothetical protein; Provisional
Probab=21.12 E-value=1.6e+02 Score=24.26 Aligned_cols=33 Identities=18% Similarity=0.079 Sum_probs=23.3
Q ss_pred CCHHHHHHHHHHHHHHHhhhcCCcEeee-cccCC
Q 026946 35 ASLDEAAWLAKAVAADIGSRFQVPVFLY-AAAHP 67 (230)
Q Consensus 35 ~t~eec~~lA~~la~~i~~~l~vPVyLY-gaa~p 67 (230)
.++++|..+++.|...+=..-.+|=.+| +=++|
T Consensus 36 ~~iddC~~vSr~is~~LD~~d~i~~~Y~LEVSSP 69 (136)
T PRK14644 36 RDLKDIEELTKEISDFIDNLSVEFDFDSLDISSP 69 (136)
T ss_pred CCHHHHHHHHHHHHHHhccccCCCCCeEEEEECC
Confidence 3799999999999988875545664444 33444
No 88
>PF02900 LigB: Catalytic LigB subunit of aromatic ring-opening dioxygenase; InterPro: IPR004183 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes (IPR000627 from INTERPRO) use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) [, ]. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Extradiol dioxygenases are usually homo-multimeric, bind one atom of ferrous ion per subunit and have a subunit size of about 33 kDa. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes (IPR000486 from INTERPRO) show sequence similarity, with the two-domain class II enzymes having evolved from a class I enzyme through gene duplication. Class III enzymes are different in sequence and structure, but they do share several common active-site characteristics with the class II enzymes, in particular the coordination sphere and the disposition of the putative catalytic base are very similar. Class III enzymes usually have two subunits, designated A and B. Enzymes that belong to the extradiol class III family include Protocatechuate 4,5-dioxygenase (4,5-PCD; LigAB) (1.13.11.8 from EC) []; and 2'-aminobiphenyl-2,3-diol 1,2-dioxygenase (CarBaBb) []. The crystal structure of dioxygenase LigAB revealed that the molecule is an alpha2beta2 tetramer. The active site contains a non-heme iron coordinated by His12, His61, Glu242, and a water molecule located in a deep cleft of the beta subunit, which is covered by the alpha subunit []. This entry represents the structural domain of subunit B.; GO: 0008198 ferrous iron binding, 0016491 oxidoreductase activity, 0006725 cellular aromatic compound metabolic process; PDB: 2PW6_A 1B4U_D 1BOU_B.
Probab=21.02 E-value=2e+02 Score=25.34 Aligned_cols=70 Identities=21% Similarity=0.235 Sum_probs=41.9
Q ss_pred CCHHHHHHHHHHhccCCCCCCCceEeeeecC-------------CCeEEEEeecCCCCCCCHHHHHHH---HHHHHH--H
Q 026946 136 TDVAATRRIARMVSARGGGLPTVQTLGLVHG-------------EDSTEIACMLLEPNQVGADRVQNR---VEKLAA--E 197 (230)
Q Consensus 136 ~dl~~A~~IA~~vR~~~GGL~~VqAmg~~~~-------------~g~~qVS~Nl~d~~~tp~~~V~e~---v~~~A~--~ 197 (230)
.|.++|++|++.++..|--...-.-++|.|+ --++|||+|-.-+...++.+.++. ++++.. .
T Consensus 94 g~~~la~~i~~~l~~~g~~~~~~~~~~lDHG~~vPL~~l~p~~~~Pvv~is~~~~~~p~~~~~~~~~lG~aL~~~~~~~~ 173 (272)
T PF02900_consen 94 GDPELAERIAEHLRKAGFDVAASPERGLDHGVWVPLYFLFPDADIPVVPISINSFAPPSPSPERHYRLGRALRKARESSD 173 (272)
T ss_dssp B-HHHHHHHHHHHHHTTS-EEECSS--B-HHHHHHHHHHCTT-SSEEEEEEEETSSS-TS-HHHHHHHHHHHHHHHHTSG
T ss_pred CCHHHHHHHHHHHHhcCCCEEeccCcCCccccceeeeecccccCcceeeeEeecccccCCCHHHHHHHHHHHHHHHHhcC
Confidence 6789999999999876522222334444443 246999999865557777777764 444444 4
Q ss_pred cCCcccce
Q 026946 198 EGLDVEKG 205 (230)
Q Consensus 198 ~Gv~V~~~ 205 (230)
.+|-|++|
T Consensus 174 ~rv~vi~S 181 (272)
T PF02900_consen 174 ERVAVIAS 181 (272)
T ss_dssp GCEEEEEE
T ss_pred CCEEEEEe
Confidence 57777765
No 89
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=20.84 E-value=2.7e+02 Score=18.58 Aligned_cols=48 Identities=15% Similarity=0.452 Sum_probs=37.4
Q ss_pred HHHHHHHHHhccCCCCCCCceEeeeecCCCeEEEEeecCCCCCCCHHHHHHHHHH
Q 026946 139 AATRRIARMVSARGGGLPTVQTLGLVHGEDSTEIACMLLEPNQVGADRVQNRVEK 193 (230)
Q Consensus 139 ~~A~~IA~~vR~~~GGL~~VqAmg~~~~~g~~qVS~Nl~d~~~tp~~~V~e~v~~ 193 (230)
.=+++|-++++. +++|+..-+....+.+.|.- |++.+++.++.+.|++
T Consensus 11 ~C~~~v~~~l~~----~~GV~~v~vd~~~~~v~v~~---~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 11 GCAKKVEKALSK----LPGVKSVKVDLETKTVTVTY---DPDKTSIEKIIEAIEK 58 (62)
T ss_dssp HHHHHHHHHHHT----STTEEEEEEETTTTEEEEEE---STTTSCHHHHHHHHHH
T ss_pred HHHHHHHHHHhc----CCCCcEEEEECCCCEEEEEE---ecCCCCHHHHHHHHHH
Confidence 567778888876 67899988876667777766 5555888999999887
No 90
>PF00586 AIRS: AIR synthase related protein, N-terminal domain; InterPro: IPR000728 This family includes Hydrogen expression/formation protein, HypE, which may be involved in the maturation of NifE hydrogenase; AIR synthase and FGAM synthase, which are involved in de novo purine biosynthesis; and selenide, water dikinase, an enzyme which synthesizes selenophosphate from selenide and ATP.; GO: 0003824 catalytic activity; PDB: 3VIU_A 2Z1T_A 2Z1U_A 3C9U_B 3C9S_A 3C9R_A 1VQV_A 3C9T_B 3M84_A 3QTY_A ....
Probab=20.76 E-value=98 Score=22.90 Aligned_cols=37 Identities=14% Similarity=0.124 Sum_probs=24.1
Q ss_pred EEEEeecCCC-CCCCHHHHHHHHHHHHHHcCCccccee
Q 026946 170 TEIACMLLEP-NQVGADRVQNRVEKLAAEEGLDVEKGY 206 (230)
Q Consensus 170 ~qVS~Nl~d~-~~tp~~~V~e~v~~~A~~~Gv~V~~~y 206 (230)
+.++.++-+. +.--+.++.+-+.+.+.++|++++||.
T Consensus 58 ~~~~l~~~~~~~~~~l~~~~~Gi~~~~~~~g~~ivGG~ 95 (96)
T PF00586_consen 58 ILDSLGLPNPESPEELKEIVKGIAEACREFGIPIVGGD 95 (96)
T ss_dssp EEEEEEESTTSBHHHHHHHHHHHHHHHHHHT-EEEEEE
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHHHHHHHhCCcEeCcC
Confidence 4566666332 122356666677889999999999874
No 91
>PRK14645 hypothetical protein; Provisional
Probab=20.31 E-value=1.2e+02 Score=25.62 Aligned_cols=69 Identities=12% Similarity=0.201 Sum_probs=39.6
Q ss_pred HHHhcCCCCCC-cCCCCCccc-ccccceeC-CCCCHHHHHHHHHHHHHHHhhhcCCcE-eeecccCC--CC--CChHHHH
Q 026946 5 AYGAINLETHS-GAHPRLGVV-DDIVFHPL-ARASLDEAAWLAKAVAADIGSRFQVPV-FLYAAAHP--TG--KPLDTIR 76 (230)
Q Consensus 5 A~elIDm~~H~-G~HPR~Gav-DviPf~Pl-~~~t~eec~~lA~~la~~i~~~l~vPV-yLYgaa~p--~r--r~La~iR 76 (230)
-+++.|++-+. |.++.+=+. |. |- .++|+++|.++++.|...|=.+-.+|= |.-+=.+| +| +...+.+
T Consensus 23 G~elvdve~~~~~~~~ilrV~ID~----~~~~~v~lddC~~vSr~is~~LD~~d~i~~~Y~LEVSSPGldRpL~~~~df~ 98 (154)
T PRK14645 23 GYEVLEVQVQRSGGKRIVLVRIDR----KDEQPVTVEDLERASRALEAELDRLDPIEGEYRLEVESPGPKRPLFTARHFE 98 (154)
T ss_pred CCEEEEEEEEeCCCCeEEEEEEEC----CCCCCcCHHHHHHHHHHHHHHhcccccCCCceEEEEeCCCCCCCCCCHHHHH
Confidence 35778887764 444433222 21 22 249999999999999988864333443 22243444 22 4445555
Q ss_pred h
Q 026946 77 R 77 (230)
Q Consensus 77 r 77 (230)
|
T Consensus 99 r 99 (154)
T PRK14645 99 R 99 (154)
T ss_pred H
Confidence 5
No 92
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=20.21 E-value=1.7e+02 Score=19.25 Aligned_cols=33 Identities=9% Similarity=0.259 Sum_probs=23.2
Q ss_pred HHHHHHHHHHcCCcccceeecCCCHHHHHHHHHHHHH
Q 026946 188 QNRVEKLAAEEGLDVEKGYFTDFSPEMIVEKYMNLIN 224 (230)
Q Consensus 188 ~e~v~~~A~~~Gv~V~~~y~~~f~~~~ile~~~~~~~ 224 (230)
...++.+|.++||+ .+..+..++++...++.-.
T Consensus 7 ~~eL~~iAk~lgI~----~~~~~~K~eLI~~Il~~q~ 39 (43)
T PF07498_consen 7 LSELREIAKELGIE----GYSKMRKQELIFAILKAQA 39 (43)
T ss_dssp HHHHHHHHHCTT-T----TGCCS-HHHHHHHHHHHHC
T ss_pred HHHHHHHHHHcCCC----CCCcCCHHHHHHHHHHHHH
Confidence 35678899999997 4567788888888776543
No 93
>PF08013 Tagatose_6_P_K: Tagatose 6 phosphate kinase; InterPro: IPR012062 Escherichia coli and other enteric bacteria contain two closely related D-tagatose 1,6-bisphosphate (TagBP)-specific aldolases involved in catabolism of galactitol (genes gatY gatZ) and of N-acetyl-galactosamine and D-galactosamine (genes kbaY, kbaZ, also called agaY, agaZ). The catalytic subunits GatY/KbaY alone are sufficient to show aldolase activity and contain most or all of the residues that have been identified as essential in substrate/product recognition and catalysis for class II aldolases [, ]. However, these aldolases differ from other Class II aldolases (which are homodimeric enzymes) in that they require subunits GatZ/KbaZ for full activity and for good in vivo and in vitro stability. The Z subunits alone do not show any aldolase activity []. It should be noted that the previous suggestion of a tagatose 6P-kinase function for AgaZ [] and other members of this family turned out to be erroneous [, ].; GO: 0019402 galactitol metabolic process; PDB: 2FIQ_A 3TXV_A.
Probab=20.01 E-value=4.2e+02 Score=26.24 Aligned_cols=60 Identities=18% Similarity=0.235 Sum_probs=42.9
Q ss_pred eEEEEeecCC----CCCCCHHHHHHHHHHHHHHcCCcccc----e-ee-----cCCCHHHHHHHHHHHHHhhhc
Q 026946 169 STEIACMLLE----PNQVGADRVQNRVEKLAAEEGLDVEK----G-YF-----TDFSPEMIVEKYMNLINATAN 228 (230)
Q Consensus 169 ~~qVS~Nl~d----~~~tp~~~V~e~v~~~A~~~Gv~V~~----~-y~-----~~f~~~~ile~~~~~~~~~~~ 228 (230)
++|-+||=.| |.-.-|.+-.+.|.++|.+.|++... | ++ .+++.++.++++-+++.+-..
T Consensus 45 LiEAT~NQVnq~GGYTGmtP~dF~~~V~~iA~~~g~~~~~iiLGGDHLGP~~w~~lpaeeAM~~A~~li~ayv~ 118 (424)
T PF08013_consen 45 LIEATSNQVNQFGGYTGMTPADFRDFVREIADEVGFPRDRIILGGDHLGPNPWQHLPAEEAMAKAKELIRAYVE 118 (424)
T ss_dssp EEEEETTTCSTT-TTTTB-HHHHHHHHHHHHHHCT--GGGEEEEEEEESSCCCTTSBHHHHHHHHHHHHHHHHC
T ss_pred EEEeccccccccCCcCCCCHHHHHHHHHHHHHHcCCchhhEEecCCCCCcccccCCCHHHHHHHHHHHHHHHHH
Confidence 5889999998 55778899999999999999987653 2 22 567777777777666655443
Done!