Query 039996
Match_columns 241
No_of_seqs 106 out of 257
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 04:05:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039996.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039996hhsearch_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 3.6E-96 8E-101 670.3 26.1 226 4-237 2-283 (298)
2 COG3643 Glutamate formiminotra 100.0 2.6E-86 5.6E-91 592.0 22.5 221 4-232 2-274 (302)
3 PF07837 FTCD_N: Formiminotran 100.0 6.2E-57 1.3E-61 387.3 7.6 118 5-130 1-118 (178)
4 PF02971 FTCD: Formiminotransf 100.0 1.4E-34 3E-39 241.6 11.2 92 140-232 1-99 (145)
5 PRK13365 protocatechuate 4,5-d 90.9 2.5 5.5E-05 38.9 10.3 70 151-220 96-188 (279)
6 cd07364 PCA_45_Dioxygenase_B S 79.8 9.9 0.00021 35.0 8.1 71 150-220 95-188 (277)
7 cd07363 45_DOPA_Dioxygenase Th 72.5 30 0.00064 31.1 9.0 65 151-220 78-158 (253)
8 cd07368 PhnC_Bs_like PhnC is a 64.7 59 0.0013 29.8 9.4 70 151-220 93-187 (277)
9 PRK13364 protocatechuate 4,5-d 61.8 87 0.0019 29.0 9.9 70 151-220 96-187 (278)
10 PRK13366 protocatechuate 4,5-d 56.1 69 0.0015 29.8 8.3 78 143-220 88-188 (284)
11 cd07371 2A5CPDO_AB The alpha a 55.0 1E+02 0.0022 28.0 9.1 67 152-220 86-171 (268)
12 cd07359 PCA_45_Doxase_B_like S 54.9 40 0.00088 30.2 6.4 70 151-220 92-181 (271)
13 PRK08508 biotin synthase; Prov 53.3 1.5E+02 0.0032 27.0 9.9 118 109-238 40-176 (279)
14 COG3808 OVP1 Inorganic pyropho 53.0 8.5 0.00019 39.5 1.9 30 19-50 550-579 (703)
15 cd07365 MhpB_like Subunit B of 52.5 1.9E+02 0.004 27.3 10.6 69 152-220 87-174 (310)
16 cd07370 HPCD The Class III ext 51.3 1.9E+02 0.0042 26.3 11.0 40 100-139 137-179 (280)
17 TIGR02298 HpaD_Fe 3,4-dihydrox 50.9 1.8E+02 0.0039 26.8 10.1 68 151-220 94-180 (282)
18 PRK13370 mhpB 3-(2,3-dihydroxy 49.6 1.7E+02 0.0036 27.6 9.9 69 152-220 87-174 (313)
19 PRK02412 aroD 3-dehydroquinate 48.8 1.6E+02 0.0035 26.5 9.3 48 190-237 111-161 (253)
20 PRK11712 ribonuclease G; Provi 48.2 35 0.00076 34.2 5.4 54 117-170 276-343 (489)
21 TIGR03699 mena_SCO4550 menaqui 48.1 1.6E+02 0.0036 27.1 9.5 43 194-237 175-219 (340)
22 cd07952 ED_3B_like Uncharacter 47.4 42 0.00091 30.1 5.3 72 67-139 81-169 (256)
23 TIGR00757 RNaseEG ribonuclease 46.8 24 0.00053 34.5 3.9 82 117-214 264-360 (414)
24 KOG1541 Predicted protein carb 45.1 19 0.00042 33.5 2.8 73 67-149 28-133 (270)
25 PF00403 HMA: Heavy-metal-asso 44.6 99 0.0021 21.0 7.1 48 154-208 11-58 (62)
26 cd07367 CarBb CarBb is the B s 42.9 93 0.002 28.3 6.9 71 150-220 87-178 (268)
27 cd04869 ACT_GcvR_2 ACT domains 42.9 1.2E+02 0.0026 21.5 7.3 64 154-217 11-77 (81)
28 cd02396 PCBP_like_KH K homolog 42.3 57 0.0012 23.0 4.4 47 16-73 16-62 (65)
29 cd07949 PCA_45_Doxase_B_like_1 41.7 97 0.0021 28.5 6.8 70 151-220 96-187 (276)
30 PRK14470 ribosomal RNA large s 39.7 2.6E+02 0.0056 26.6 9.6 104 126-236 142-270 (336)
31 PRK14465 ribosomal RNA large s 37.2 87 0.0019 30.0 6.0 127 108-236 132-279 (342)
32 PRK14467 ribosomal RNA large s 37.1 2.9E+02 0.0063 26.4 9.5 121 107-237 125-277 (348)
33 PRK14462 ribosomal RNA large s 35.7 4.1E+02 0.0089 25.6 11.0 117 107-235 136-286 (356)
34 PF00013 KH_1: KH domain syndr 34.7 49 0.0011 22.6 3.0 36 16-58 16-51 (60)
35 COG0106 HisA Phosphoribosylfor 34.3 43 0.00093 30.9 3.3 82 150-237 61-159 (241)
36 PRK14459 ribosomal RNA large s 34.0 1.6E+02 0.0035 28.6 7.2 120 107-235 147-304 (373)
37 PRK13363 protocatechuate 4,5-d 32.8 2.2E+02 0.0047 27.3 7.8 40 100-139 200-249 (335)
38 TIGR01182 eda Entner-Doudoroff 32.0 85 0.0018 27.9 4.7 55 97-162 145-199 (204)
39 COG1324 CutA Uncharacterized p 32.0 1.1E+02 0.0023 24.9 4.9 65 146-214 6-77 (104)
40 cd07362 HPCD_like Class III ex 31.6 1.2E+02 0.0025 27.7 5.7 63 151-220 90-176 (272)
41 cd07943 DRE_TIM_HOA 4-hydroxy- 30.8 3.5E+02 0.0075 24.2 8.5 72 145-236 103-178 (263)
42 PF02037 SAP: SAP domain; Int 30.6 96 0.0021 19.8 3.6 28 204-237 7-34 (35)
43 TIGR03217 4OH_2_O_val_ald 4-hy 30.5 3.5E+02 0.0076 25.6 8.8 70 148-237 108-181 (333)
44 cd07372 2A5CPDO_B The beta sub 30.5 4.5E+02 0.0097 24.5 9.9 68 151-220 96-188 (294)
45 cd04866 LigD_Pol_like_3 LigD_P 30.4 67 0.0015 29.2 3.8 60 67-130 110-171 (223)
46 COG2984 ABC-type uncharacteriz 30.0 2.8E+02 0.0062 26.7 8.1 80 131-226 116-200 (322)
47 TIGR02024 FtcD glutamate formi 29.9 94 0.002 29.6 4.8 46 91-136 167-218 (298)
48 PLN02424 ketopantoate hydroxym 29.6 3.4E+02 0.0074 26.2 8.6 78 108-220 77-157 (332)
49 cd07362 HPCD_like Class III ex 29.1 4.4E+02 0.0096 24.0 10.1 39 101-139 136-178 (272)
50 PRK14457 ribosomal RNA large s 28.0 5.1E+02 0.011 24.7 9.5 123 108-235 128-278 (345)
51 cd07951 ED_3B_N_AMMECR1 The N- 28.0 2.7E+02 0.0058 24.6 7.2 47 93-139 120-169 (256)
52 PRK14633 hypothetical protein; 27.8 57 0.0012 27.5 2.8 43 79-126 18-61 (150)
53 smart00771 ZipA_C ZipA, C-term 26.3 3.6E+02 0.0079 22.1 8.7 93 141-236 4-130 (131)
54 PRK14454 ribosomal RNA large s 26.3 2.6E+02 0.0056 26.6 7.2 120 107-235 127-274 (342)
55 cd04861 LigD_Pol_like LigD_Pol 25.4 94 0.002 28.4 3.9 60 67-130 115-175 (227)
56 cd07950 Gallate_Doxase_N The N 25.3 2.2E+02 0.0048 26.2 6.3 70 151-220 96-188 (277)
57 cd04887 ACT_MalLac-Enz ACT_Mal 25.3 1E+02 0.0022 21.4 3.3 26 15-40 47-72 (74)
58 PRK13372 pcmA protocatechuate 25.1 2E+02 0.0044 28.8 6.4 75 146-220 238-336 (444)
59 PRK07114 keto-hydroxyglutarate 25.1 1.1E+02 0.0024 27.5 4.2 47 97-154 155-203 (222)
60 PF00682 HMGL-like: HMGL-like 24.8 4.4E+02 0.0096 22.7 7.9 63 153-235 107-173 (237)
61 cd02106 Band_7 The band 7 doma 24.8 1.4E+02 0.003 21.9 4.2 36 200-235 82-117 (121)
62 cd04863 MtLigD_Pol_like MtLigD 24.7 2.4E+02 0.0052 25.8 6.3 60 67-130 119-179 (231)
63 cd03400 Band_7_1 A subgroup of 24.7 1E+02 0.0022 24.1 3.5 37 199-235 84-120 (124)
64 PRK12706 flgI flagellar basal 24.3 1.6E+02 0.0035 28.4 5.3 43 141-190 181-223 (328)
65 PF13091 PLDc_2: PLD-like doma 24.1 1.1E+02 0.0023 23.2 3.5 75 3-99 9-83 (126)
66 PRK14366 Maf-like protein; Pro 24.0 5E+02 0.011 22.8 12.0 125 111-238 46-190 (195)
67 COG1514 LigT 2'-5' RNA ligase 23.7 2.4E+02 0.0051 24.4 5.9 80 9-97 44-127 (180)
68 cd07055 BMC_like_2 Bacterial M 23.5 2.1E+02 0.0046 21.2 4.7 48 21-77 9-58 (61)
69 PF13740 ACT_6: ACT domain; PD 23.5 1.4E+02 0.0029 21.7 3.8 60 153-217 13-73 (76)
70 PRK14635 hypothetical protein; 23.2 77 0.0017 27.0 2.7 64 78-152 18-83 (162)
71 PF03129 HGTP_anticodon: Antic 23.0 2.3E+02 0.005 20.6 5.0 89 101-208 2-93 (94)
72 PF02900 LigB: Catalytic LigB 22.9 2.4E+02 0.0053 25.1 6.0 70 151-220 94-181 (272)
73 COG1359 Uncharacterized conser 22.8 1.8E+02 0.0039 22.3 4.5 49 7-56 6-57 (100)
74 cd04875 ACT_F4HF-DF N-terminal 22.6 2.8E+02 0.0061 19.5 6.8 62 153-216 10-73 (74)
75 cd07366 3MGA_Dioxygenase Subun 22.2 3.1E+02 0.0067 26.1 6.8 70 151-220 149-243 (328)
76 PRK14637 hypothetical protein; 22.1 85 0.0018 26.6 2.8 44 79-127 22-67 (151)
77 smart00322 KH K homology RNA-b 21.9 2.4E+02 0.0051 18.3 5.1 46 16-75 19-64 (69)
78 PRK14643 hypothetical protein; 21.9 84 0.0018 27.0 2.7 64 79-152 23-88 (164)
79 PRK14647 hypothetical protein; 21.8 87 0.0019 26.6 2.8 59 80-152 23-83 (159)
80 TIGR03700 mena_SCO4494 putativ 21.8 6.7E+02 0.014 23.5 9.8 43 194-237 182-226 (351)
81 COG2159 Predicted metal-depend 21.8 1.5E+02 0.0032 27.4 4.5 64 138-219 98-162 (293)
82 cd07048 BMC_PduB_repeat2 1,2-p 21.7 2.2E+02 0.0048 21.5 4.6 48 27-82 18-69 (70)
83 PRK14640 hypothetical protein; 21.5 88 0.0019 26.4 2.8 60 79-152 20-81 (152)
84 COG1748 LYS9 Saccharopine dehy 21.4 1.5E+02 0.0033 29.0 4.7 70 144-225 26-104 (389)
85 PRK14630 hypothetical protein; 21.4 90 0.002 26.2 2.8 58 79-152 22-81 (143)
86 PF14606 Lipase_GDSL_3: GDSL-l 21.0 95 0.0021 27.2 2.9 68 5-83 63-131 (178)
87 cd07369 PydA_Rs_like PydA is a 20.6 7.2E+02 0.016 23.7 9.0 70 151-220 98-187 (329)
88 PF07823 CPDase: Cyclic phosph 20.6 1.8E+02 0.0038 25.3 4.5 95 20-129 57-160 (196)
89 PRK14639 hypothetical protein; 20.6 95 0.0021 25.9 2.7 44 79-127 11-56 (140)
90 PRK14632 hypothetical protein; 20.3 95 0.0021 26.8 2.8 71 67-151 5-81 (172)
91 PRK14646 hypothetical protein; 20.2 94 0.002 26.4 2.7 61 79-152 21-84 (155)
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=3.6e-96 Score=670.31 Aligned_cols=226 Identities=25% Similarity=0.337 Sum_probs=221.4
Q ss_pred cceeeEecccccCCCHHHHHHHHHHHhhCCCcEEEecCCCCCCCcceEEEeecCCCCCCCCcccHHHHHHHHHHHHHHcC
Q 039996 4 LMLTCCKVYISESQNKAALESIEQAARLFSAAIIVNKFEDVTYNRVGYTVVSKLAPTLSSDSCPLKSTVFAMIKAAFENI 83 (241)
Q Consensus 4 ~~lveCvpN~SEGR~~~~ie~I~~a~~~~~gv~lld~~~D~dyNRsv~T~vg~~~~~~~~~~~~v~~aa~~~~~~A~~~I 83 (241)
+||+|||||||||||+++||+|++++++++|++|||+|+|+|||||||||+|+|+ +|.+|+|+|+++|+++|
T Consensus 2 ~klveCvpnfSEGR~~~vie~I~~a~~~~~gv~lld~~~D~d~NRsv~Tlvg~pe--------~v~eaa~~~~~~A~elI 73 (298)
T TIGR02024 2 MKLVECVPNFSEGRNKEVIEKIVDAIIKTDNVKLLDVDMDPDHNRSVITFVGEPE--------CVVNAALKLAKKAAELI 73 (298)
T ss_pred ceeEEEeeeeccCCCHHHHHHHHHHHhcCCCcEEEeCCCCCCCCceEEEEecChH--------HHHHHHHHHHHHHHHhc
Confidence 3599999999999999999999999999999999999999999999999999999 99999999999999999
Q ss_pred CCCCCccCCCCCccccceeeeeCCCCCHHHHHHHHHHHHHhhccCCC---------------------------------
Q 039996 84 EPGMHSGSHPRLGVVDHICFHPLASAPLDQVAGIAKSVVGDIGSGLQ--------------------------------- 130 (241)
Q Consensus 84 Dm~~H~G~HPR~GavDvipf~Pl~~~t~~ec~~lA~~~a~~ig~~l~--------------------------------- 130 (241)
||++|+|+|||||||||||||||+++|||||+++|+.+|++||++|+
T Consensus 74 Dm~~H~G~HPR~GAvDvipf~Pl~~~t~eec~~lA~~vg~~i~~~l~VPVyLY~~aA~~p~r~~La~IRrGq~eg~~e~~ 153 (298)
T TIGR02024 74 DMRNHKGEHPRMGAADVIPFIPVRNVTMEECVELAKEFGKRLGEELGVPVYLYEEAATRPERQTLAAIRKGQYEALFEKI 153 (298)
T ss_pred CcccccCCCCCCCccceeeeeeCCCCCHHHHHHHHHHHHHHHHHhhCCCEEEehhhccCCCCCCHHHHhhhhhccchhhc
Confidence 99999999999999999999999999999999999999999999987
Q ss_pred ------------------CeEEeccCCCeeeeeeeccCCCHHHHHHHHHHhhccCCCcccceEEeeEec-CCeEEEEeec
Q 039996 131 ------------------GVIVIGSTRWVDNYNIPVFSTNIAAVRRIAKQVSERGGGLASVQAMVLIRG-EDITEVECNL 191 (241)
Q Consensus 131 ------------------Gat~vGAr~~liayNV~L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~-~g~~qVs~NL 191 (241)
|+|+||||+||+||||||+|+|+++||+|||+||+|||||++||||||+|+ +|++||||||
T Consensus 154 ~~~~~~PD~Gp~~~~p~~Gat~vGAr~~liayNV~L~t~d~~~a~~IAk~vR~~gGGL~~VqAmgl~~~~~~~vqVsmNl 233 (298)
T TIGR02024 154 KDPKWKPDFGPSEFNPKAGATATGARKFLIAFNVNLGTSNLEIAKKIAKAIRFQGGGLRFVKAIGLYLEEKNLVQVSMNL 233 (298)
T ss_pred cCCCCCCCCCCCCCCCCCCeEEEecCCceEEEEEeecCCCHHHHHHHHHHhhhcCCCccceEEeeEeecCCCeEEEEeec
Confidence 999999999999999999999999999999999999999999999999996 7999999999
Q ss_pred CCCCCCchHHHHHHHHHHHHhcCCeecceeeecCCHHHHH----HHHHHH
Q 039996 192 LKPSKIGGDKVQVEVDELAAVEGMAVGKGYYTDLSQEEII----ERYMKL 237 (241)
Q Consensus 192 ~d~~~t~~~~V~e~V~~~A~~~Gv~V~g~y~~g~~pe~il----e~~~~~ 237 (241)
+||++||+|+|||+|+++|++||++|.|||++||+|++++ ++|+++
T Consensus 234 ~d~~~t~~~~v~e~v~~~A~~~Gv~V~gse~vGl~P~~al~~~~~~yl~~ 283 (298)
T TIGR02024 234 TNYEKTPLYRVFELIKMEAQRYGVPVVGSELVGLVPLKALLDVAAYYLRL 283 (298)
T ss_pred cCCccCCHHHHHHHHHHHHHHhCCCccccEEecCcHHHHHHHHHHHHhcc
Confidence 9999999999999999999999999999999999999999 888763
No 2
>COG3643 Glutamate formiminotransferase [Amino acid transport and metabolism]
Probab=100.00 E-value=2.6e-86 Score=591.96 Aligned_cols=221 Identities=27% Similarity=0.340 Sum_probs=217.0
Q ss_pred cceeeEecccccCCCHHHHHHHHHHHhhCCCcEEEecCCCCCCCcceEEEeecCCCCCCCCcccHHHHHHHHHHHHHHcC
Q 039996 4 LMLTCCKVYISESQNKAALESIEQAARLFSAAIIVNKFEDVTYNRVGYTVVSKLAPTLSSDSCPLKSTVFAMIKAAFENI 83 (241)
Q Consensus 4 ~~lveCvpN~SEGR~~~~ie~I~~a~~~~~gv~lld~~~D~dyNRsv~T~vg~~~~~~~~~~~~v~~aa~~~~~~A~~~I 83 (241)
++|+||+||||||||+++||+|++++++.|+++|||+.+|++||||||||+|+|+ .+.+|+|++++.|.++|
T Consensus 2 ~kivecvpNfSEG~~~~~ie~i~a~~~~~~~v~ildve~danhNRsViT~vgdp~--------~~~~A~f~~ik~AaelI 73 (302)
T COG3643 2 MKIVECVPNFSEGRDLEKIEKIVAAAKSIPTVKILDVEMDANHNRSVITLVGDPS--------KVVNAAFALIKKAAELI 73 (302)
T ss_pred ccceeeccCccccccHHHHHHHHHHHhcCCceEEEEeccCCCCCceEEEEecChH--------HHHHHHHHHHHHHHHhh
Confidence 4799999999999999999999999999999999999999999999999999999 99999999999999999
Q ss_pred CCCCCccCCCCCccccceeeeeCCCCCHHHHHHHHHHHHHhhccCCC---------------------------------
Q 039996 84 EPGMHSGSHPRLGVVDHICFHPLASAPLDQVAGIAKSVVGDIGSGLQ--------------------------------- 130 (241)
Q Consensus 84 Dm~~H~G~HPR~GavDvipf~Pl~~~t~~ec~~lA~~~a~~ig~~l~--------------------------------- 130 (241)
||++|+|+||||||+|||||+||.++|||||+++||.+|+++|++|+
T Consensus 74 DM~~H~GeHpRmGA~DViPfvPl~d~tteecveiske~gkrvgeelgiPVylYe~aatrp~R~~La~IRkgqyE~l~eki 153 (302)
T COG3643 74 DMRNHKGEHPRMGAADVIPFVPLKDTTTEECVEISKELGKRVGEELGIPVYLYEDAATRPERQNLADIRKGQYEGLKEKI 153 (302)
T ss_pred chhccCCCCCCCCccceeceeecccccHHHHHHHHHHHHHHhhHhhCCcEEEehhhccCcccccHHHHhhhhhhhHHHHh
Confidence 99999999999999999999999999999999999999999999998
Q ss_pred ------------------CeEEeccCCCeeeeeeeccCCCHHHHHHHHHHhhccCCCcccceEEeeEe-cCCeEEEEeec
Q 039996 131 ------------------GVIVIGSTRWVDNYNIPVFSTNIAAVRRIAKQVSERGGGLASVQAMVLIR-GEDITEVECNL 191 (241)
Q Consensus 131 ------------------Gat~vGAr~~liayNV~L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~-~~g~~qVs~NL 191 (241)
|+|++|||.|||||||||+|+|++|+++||++||.++|||++|||+|+++ ++|++||||||
T Consensus 154 kep~WaPDfGp~~~~PtaG~t~iGaR~pLiAfNvNL~t~n~eI~kkIakaiR~s~GG~~~vkAi~~~L~dk~~vQVSMN~ 233 (302)
T COG3643 154 KEPKWAPDFGPREVHPTAGVTAIGARMPLIAFNVNLDTSNMEIGKKIAKAIRFSSGGLRFVKAIAVELKDKGIVQVSMNM 233 (302)
T ss_pred cCcccCCCCCccccCCCCcceEeecccceEEEEeccCcccchHHHHHHHHHhhcCCCeeeeeeeeeeeccCCeEEEEEee
Confidence 99999999999999999999999999999999999999999999999998 58999999999
Q ss_pred CCCCCCchHHHHHHHHHHHHhcCCeecceeeecCCHHHHHH
Q 039996 192 LKPSKIGGDKVQVEVDELAAVEGMAVGKGYYTDLSQEEIIE 232 (241)
Q Consensus 192 ~d~~~t~~~~V~e~V~~~A~~~Gv~V~g~y~~g~~pe~ile 232 (241)
+||++||+||+||.||++|.||||.|+||+++|+.|++.|-
T Consensus 234 ~ny~KtpiyR~fEtiK~EA~Rygv~vv~sEivGl~P~~aL~ 274 (302)
T COG3643 234 TNYEKTPIYRVFETIKMEANRYGVNVVGSEIVGLVPEQALI 274 (302)
T ss_pred cccccCcHHHHHHHHHHHHHhcCCCcccceEeccchHHHHH
Confidence 99999999999999999999999999999999999997653
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=6.2e-57 Score=387.25 Aligned_cols=118 Identities=36% Similarity=0.552 Sum_probs=103.2
Q ss_pred ceeeEecccccCCCHHHHHHHHHHHhhCCCcEEEecCCCCCCCcceEEEeecCCCCCCCCcccHHHHHHHHHHHHHHcCC
Q 039996 5 MLTCCKVYISESQNKAALESIEQAARLFSAAIIVNKFEDVTYNRVGYTVVSKLAPTLSSDSCPLKSTVFAMIKAAFENIE 84 (241)
Q Consensus 5 ~lveCvpN~SEGR~~~~ie~I~~a~~~~~gv~lld~~~D~dyNRsv~T~vg~~~~~~~~~~~~v~~aa~~~~~~A~~~ID 84 (241)
||+|||||||||||+++||+|++++++++|++|||+|+|+|||||||||+|+|+ +|.+|+|+++++|+++||
T Consensus 1 klveCvpN~SEgR~~~~ie~I~~a~~~~~gv~ll~~~~D~~~NRsv~T~vG~p~--------~v~~a~~~~~~~A~~~ID 72 (178)
T PF07837_consen 1 KLVECVPNFSEGRDKEVIEAIAKAARNVPGVKLLDVFSDADYNRSVITLVGEPE--------AVAEAAFAAIRKALELID 72 (178)
T ss_dssp -EEEE--EES-SSSHHHHHHHHHHCCTSTTEEEEEEEEETTTTEEEEEEEE-HH--------HHHHHHHHHHHHHHCC--
T ss_pred CeEEEeeeeccCCCHHHHHHHHHHHHcCCCCEEEecCCCCCCCCCeEEEeeChH--------HHHHHHHHHHHHHHHhcc
Confidence 699999999999999999999999999999999999999999999999999999 999999999999999999
Q ss_pred CCCCccCCCCCccccceeeeeCCCCCHHHHHHHHHHHHHhhccCCC
Q 039996 85 PGMHSGSHPRLGVVDHICFHPLASAPLDQVAGIAKSVVGDIGSGLQ 130 (241)
Q Consensus 85 m~~H~G~HPR~GavDvipf~Pl~~~t~~ec~~lA~~~a~~ig~~l~ 130 (241)
|++|+|+|||||||||||||||+++|||||+++|+++|++||++|+
T Consensus 73 m~~H~G~HPRlGavDvipf~Pl~~~t~eec~~~A~~~g~~i~~~l~ 118 (178)
T PF07837_consen 73 MRKHSGEHPRLGAVDVIPFIPLSGVTMEECAELARELGERIGEELG 118 (178)
T ss_dssp GGG---SS--SCSEEEEEEEEEES--HHHHHHHHHHHHHHHHHHHT
T ss_pred hhcccCCCCCCCccceeeeeeCCCCCHHHHHHHHHHHHHHHHHhhC
Confidence 9999999999999999999999999999999999999999999988
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=1.4e-34 Score=241.57 Aligned_cols=92 Identities=28% Similarity=0.336 Sum_probs=79.0
Q ss_pred CeeeeeeeccCCCHHHHHHHHHHhhccC------CCcccceEEeeEec-CCeEEEEeecCCCCCCchHHHHHHHHHHHHh
Q 039996 140 WVDNYNIPVFSTNIAAVRRIAKQVSERG------GGLASVQAMVLIRG-EDITEVECNLLKPSKIGGDKVQVEVDELAAV 212 (241)
Q Consensus 140 ~liayNV~L~t~dl~~Ar~IA~~vR~~~------GGL~~VqAmgl~~~-~g~~qVs~NL~d~~~t~~~~V~e~V~~~A~~ 212 (241)
|||||||||+++| ++||+||+.||++| |||++||||||+++ +|++||||||+||++||+|+|||+|+++|++
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 8999999998888 99999999999999 99999999999995 7999999999999999999999999999999
Q ss_pred cCCeecceeeecCCHHHHHH
Q 039996 213 EGMAVGKGYYTDLSQEEIIE 232 (241)
Q Consensus 213 ~Gv~V~g~y~~g~~pe~ile 232 (241)
|||+|+||+++|+.|.+.+.
T Consensus 80 ~Gv~v~gsElVGlvP~~All 99 (145)
T PF02971_consen 80 YGVPVVGSELVGLVPLDALL 99 (145)
T ss_dssp TT--EEEEEEES-B-HHHHH
T ss_pred hCCCccceEEEccccHHHHH
Confidence 99999999999999997763
No 5
>PRK13365 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=90.95 E-value=2.5 Score=38.93 Aligned_cols=70 Identities=11% Similarity=0.039 Sum_probs=50.0
Q ss_pred CCHHHHHHHHHHhhccCCCcccceEEeeEec--------C---C-----eEEEEeecCCCCCCch---HHHHHHHHHHHH
Q 039996 151 TNIAAVRRIAKQVSERGGGLASVQAMVLIRG--------E---D-----ITEVECNLLKPSKIGG---DKVQVEVDELAA 211 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~--------~---g-----~~qVs~NL~d~~~t~~---~~V~e~V~~~A~ 211 (241)
.|.++|++|++.++++|=.+...+.++|.|+ + + .++|++|..-+...++ ++.=+.|.+..+
T Consensus 96 g~~eLA~~i~~~~~~~g~~~~~~~~~~lDHG~~vPL~~l~~~~~~~~~pvVpi~in~~~~p~~~~~~~~~lG~al~~~i~ 175 (279)
T PRK13365 96 GDVQLQAHIAECLVNDEFDLTVFQDKPIDHGCAAPLPLLWPHVPDWPGTVVPIAINVLQYPLPTARRCYRLGQALRRAIE 175 (279)
T ss_pred CCHHHHHHHHHHHHHcCCCeeeccCCCCCchhhhHHHHhCCccccCCCCeEEEEEecccCCCCCHHHHHHHHHHHHHHHH
Confidence 4899999999999988766666667777653 1 2 6899999766555566 444556666665
Q ss_pred h----cCCeecce
Q 039996 212 V----EGMAVGKG 220 (241)
Q Consensus 212 ~----~Gv~V~g~ 220 (241)
+ .+|-+.+|
T Consensus 176 ~~~~d~rV~iIaS 188 (279)
T PRK13365 176 SYPEDLRVVVVGT 188 (279)
T ss_pred hcCcCCCEEEEEe
Confidence 4 36777775
No 6
>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=79.82 E-value=9.9 Score=35.02 Aligned_cols=71 Identities=11% Similarity=0.073 Sum_probs=47.1
Q ss_pred CCCHHHHHHHHHHhhccCCCcccceEEeeEec--------C---C-----eEEEEeecCCCCCCchHHHHHH---HHHHH
Q 039996 150 STNIAAVRRIAKQVSERGGGLASVQAMVLIRG--------E---D-----ITEVECNLLKPSKIGGDKVQVE---VDELA 210 (241)
Q Consensus 150 t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~--------~---g-----~~qVs~NL~d~~~t~~~~V~e~---V~~~A 210 (241)
..|-++|++|++.+++.|=-....+.++|.|+ + + .+|||+|...+...++.+.++. +.+++
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 45899999999999987633333444555553 1 2 4899999887766667666654 44444
Q ss_pred Hh----cCCeecce
Q 039996 211 AV----EGMAVGKG 220 (241)
Q Consensus 211 ~~----~Gv~V~g~ 220 (241)
++ .+|-+.+|
T Consensus 175 ~~~~rd~rV~iIaS 188 (277)
T cd07364 175 ESYDEDLKVAIWGT 188 (277)
T ss_pred HhcCcCCCEEEEec
Confidence 33 55777775
No 7
>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=72.46 E-value=30 Score=31.11 Aligned_cols=65 Identities=11% Similarity=0.018 Sum_probs=42.9
Q ss_pred CCHHHHHHHHHHhhccCCCcccceEEeeEec----------C---CeEEEEeecCCCCCCchHHHH---HHHHHHHHhcC
Q 039996 151 TNIAAVRRIAKQVSERGGGLASVQAMVLIRG----------E---DITEVECNLLKPSKIGGDKVQ---VEVDELAAVEG 214 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~----------~---g~~qVs~NL~d~~~t~~~~V~---e~V~~~A~~~G 214 (241)
.|.++|++|++.+++.|==......++|.|+ + -.+|||+|... ++.+.+ +.+++ +.+.+
T Consensus 78 g~~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~vPL~~~~p~~~iPvV~isi~~~~----~~~~~~~lG~aL~~-l~~~~ 152 (253)
T cd07363 78 GSPELAERVAELLKAAGIPARLDPERGLDHGAWVPLKLMYPDADIPVVQLSLPASL----DPAEHYALGRALAP-LRDEG 152 (253)
T ss_pred CCHHHHHHHHHHHHhcCCCccccCCcCCcccHHHHHHHHcCCCCCcEEEEEecCCC----CHHHHHHHHHHHHh-hhhCC
Confidence 5799999999999976533333445667664 1 37999998772 344444 34444 33558
Q ss_pred Ceecce
Q 039996 215 MAVGKG 220 (241)
Q Consensus 215 v~V~g~ 220 (241)
|-+.+|
T Consensus 153 v~ii~S 158 (253)
T cd07363 153 VLIIGS 158 (253)
T ss_pred EEEEec
Confidence 888876
No 8
>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=64.66 E-value=59 Score=29.79 Aligned_cols=70 Identities=14% Similarity=-0.027 Sum_probs=46.9
Q ss_pred CCHHHHHHHHHHhhccCCCcccceEEeeEec--------CC----------eEEEEeecCCCCCCchHHHHHHHHHHHH-
Q 039996 151 TNIAAVRRIAKQVSERGGGLASVQAMVLIRG--------ED----------ITEVECNLLKPSKIGGDKVQVEVDELAA- 211 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~--------~g----------~~qVs~NL~d~~~t~~~~V~e~V~~~A~- 211 (241)
.|.++|++|++.+++.|==....+.+++.|+ .. .+.|++|+.-+...|+.+.++.=+.+++
T Consensus 93 g~~eLA~~i~~~l~~~g~~~~~~~~~~lDHG~~vPL~~l~~~~~~~~~~~p~VPV~~n~~~~p~~~~~~~~~lG~al~~a 172 (277)
T cd07368 93 NNEPLAHHIMQHGLEYGIDWAVARSFTVDHAATIPIHLAVRPVRAKGKGMRAIPVYLATGVDPFITSWRAHELGRVIGAA 172 (277)
T ss_pred CCHHHHHHHHHHHHHcCCCEeeecCcCCCcchhccHHHHhCcccccCCCCCeEEEEEecccCCCCCHHHHHHHHHHHHHH
Confidence 4789999999999975421223344555553 22 5899998875556777777766555555
Q ss_pred ------hcCCeecce
Q 039996 212 ------VEGMAVGKG 220 (241)
Q Consensus 212 ------~~Gv~V~g~ 220 (241)
..+|-|.+|
T Consensus 173 i~~~~~d~rVliIaS 187 (277)
T cd07368 173 VEAWQGDERVAIIGS 187 (277)
T ss_pred HHhcCCCCCEEEEEc
Confidence 568888886
No 9
>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=61.75 E-value=87 Score=29.01 Aligned_cols=70 Identities=14% Similarity=0.122 Sum_probs=45.6
Q ss_pred CCHHHHHHHHHHhhccCCCcccceEEeeEec-----------CC----eEEEEeecCCCCCCchHHHH---HHHHHHHHh
Q 039996 151 TNIAAVRRIAKQVSERGGGLASVQAMVLIRG-----------ED----ITEVECNLLKPSKIGGDKVQ---VEVDELAAV 212 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~-----------~g----~~qVs~NL~d~~~t~~~~V~---e~V~~~A~~ 212 (241)
.|.++|++|++.+.++|==......++|.|+ .+ .++|++|..-+...++.+.+ +.|.+.+++
T Consensus 96 ~~~~lA~~i~~~l~~~gid~~~~~~~~lDHG~~vPL~~l~~~~d~~~pvVpv~ln~~~~p~~~~~r~~~lG~al~~~i~~ 175 (278)
T PRK13364 96 GDTELSWHIIESLVEEEFDITTCQEMLVDHAFTLPLELFWPGRDYPVKVVPVCINTVQHPLPSARRCYKLGQAIGRAIAS 175 (278)
T ss_pred CCHHHHHHHHHHHHHcCCCeecccCCCCCcchhhhHHHhCcccCCCCCEEEEEeeccCCCCCCHHHHHHHHHHHHHHHHh
Confidence 4789999999999987611222334555543 12 68999998776666675555 456666543
Q ss_pred ----cCCeecce
Q 039996 213 ----EGMAVGKG 220 (241)
Q Consensus 213 ----~Gv~V~g~ 220 (241)
.+|-+.+|
T Consensus 176 ~~~d~rV~iIaS 187 (278)
T PRK13364 176 WPSDERVVVIGT 187 (278)
T ss_pred cCCCCCEEEEEe
Confidence 56777775
No 10
>PRK13366 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=56.12 E-value=69 Score=29.78 Aligned_cols=78 Identities=13% Similarity=0.101 Sum_probs=49.6
Q ss_pred eeeeeccCCCHHHHHHHHHHhhccCCCcccceEEeeEec--------C--------CeEEEEeecCCCCCCchHHHHH--
Q 039996 143 NYNIPVFSTNIAAVRRIAKQVSERGGGLASVQAMVLIRG--------E--------DITEVECNLLKPSKIGGDKVQV-- 204 (241)
Q Consensus 143 ayNV~L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~--------~--------g~~qVs~NL~d~~~t~~~~V~e-- 204 (241)
+.|++=-..|-++|++|++.+.+.|==....+.++|.|+ . -.++||+|...+...++.+.++
T Consensus 88 ~~~v~~~~g~~eLA~~i~~~l~~~g~~~~~~~~~~lDHG~~vPL~~l~p~~~~~~ipvVpisvn~~~~p~~~~~r~~~lG 167 (284)
T PRK13366 88 PRPVPKVIGHPDLAAHIAQSVIQDDFDLTIVNKMDVDHGLTVPLSLMCGQPDAWPCPVIPFAVNVVQYPVPSGRRCFALG 167 (284)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHCCCCEeecCCCCCCccHHHHHHHhCccccCCCCceEEEeeccCCCCCCCHHHHHHHH
Confidence 345552235799999999999986522333344555443 1 3489999998877667666554
Q ss_pred -HHHHHHHh----cCCeecce
Q 039996 205 -EVDELAAV----EGMAVGKG 220 (241)
Q Consensus 205 -~V~~~A~~----~Gv~V~g~ 220 (241)
.+.+..++ .+|-+.+|
T Consensus 168 ~al~~~i~~~~~d~rV~iIaS 188 (284)
T PRK13366 168 QAIRRAVESYDEDLNVQIWGT 188 (284)
T ss_pred HHHHHHHHhcCcCCCEEEEec
Confidence 45555543 45777775
No 11
>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=55.00 E-value=1e+02 Score=28.00 Aligned_cols=67 Identities=12% Similarity=0.031 Sum_probs=41.1
Q ss_pred CHHHHHHHHHHhhccCCCcccc----eEEeeEec-----------C--CeEEEEeecCCCCCCchHHHHHHHHHHHHh--
Q 039996 152 NIAAVRRIAKQVSERGGGLASV----QAMVLIRG-----------E--DITEVECNLLKPSKIGGDKVQVEVDELAAV-- 212 (241)
Q Consensus 152 dl~~Ar~IA~~vR~~~GGL~~V----qAmgl~~~-----------~--g~~qVs~NL~d~~~t~~~~V~e~V~~~A~~-- 212 (241)
|.++|++|++.+++. |++.. ..++|.|+ . -.+|||+|....+..-.++.=+.+.+..++
T Consensus 86 ~~eLA~~i~~~~~~~--gi~~~~~~~~~~~lDHG~~vPL~~l~p~~~ipvV~vs~~~~~~~~~~~~~lG~al~~~l~~~~ 163 (268)
T cd07371 86 DVELAEACVEEGRKA--GLVTRMMRYPRFPIDTGTITALTLMRPGTDIPPVVISANNLYLSGEETEGEMDLAGKATRDAG 163 (268)
T ss_pred CHHHHHHHHHHHHHC--CCcEEEecCCCCCCCchhHHHHHHhcCCCCCCeEEEEecCcCCCHHHHHHHHHHHHHHHHHcC
Confidence 899999999999975 44432 34555553 1 279999986632222233333444444466
Q ss_pred cCCeecce
Q 039996 213 EGMAVGKG 220 (241)
Q Consensus 213 ~Gv~V~g~ 220 (241)
.+|-|.+|
T Consensus 164 ~rv~iIgS 171 (268)
T cd07371 164 KRVAVLGS 171 (268)
T ss_pred CcEEEEEe
Confidence 56888876
No 12
>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=54.91 E-value=40 Score=30.23 Aligned_cols=70 Identities=17% Similarity=0.061 Sum_probs=43.1
Q ss_pred CCHHHHHHHHHHhhccCCCcccceEEeeEec-------------CCeEEEEeecCCCCCCchHHHHHHHHHHHH------
Q 039996 151 TNIAAVRRIAKQVSERGGGLASVQAMVLIRG-------------EDITEVECNLLKPSKIGGDKVQVEVDELAA------ 211 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~-------------~g~~qVs~NL~d~~~t~~~~V~e~V~~~A~------ 211 (241)
.|.++|++|.+.+++.|==......+++.|+ --++||+||...+..-++.+.++.=+.+++
T Consensus 92 ~d~elA~~i~~~~~~~g~~~a~~~~~~lDHg~~vpL~~l~~~~~~pvVpvsv~~~~~~~~~~~~~~~lG~aL~~~i~~~~ 171 (271)
T cd07359 92 GDADLARHLLAGLVEDGFDVAFSYELRLDHGITVPLHFLDPDNDVPVVPVLVNCVTPPLPSLRRCYALGRALRRAIESFP 171 (271)
T ss_pred CCHHHHHHHHHHHHHcCCCeeccCCCCCCcchhhHHHHhcCCCCCCEEEEEecccCCCCCCHHHHHHHHHHHHHHHHhcC
Confidence 5789999999888765421112222334442 136999999877655566665555554444
Q ss_pred -hcCCeecce
Q 039996 212 -VEGMAVGKG 220 (241)
Q Consensus 212 -~~Gv~V~g~ 220 (241)
..+|-|.+|
T Consensus 172 ~d~rV~iIaS 181 (271)
T cd07359 172 GDLRVAVLGT 181 (271)
T ss_pred CCCcEEEEec
Confidence 347878775
No 13
>PRK08508 biotin synthase; Provisional
Probab=53.32 E-value=1.5e+02 Score=26.96 Aligned_cols=118 Identities=19% Similarity=0.126 Sum_probs=66.7
Q ss_pred CCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeee-eccCCCHHHHHHHHHHhhccCCCcccceEEeeEe-------
Q 039996 109 APLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNI-PVFSTNIAAVRRIAKQVSERGGGLASVQAMVLIR------- 180 (241)
Q Consensus 109 ~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV-~L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~------- 180 (241)
.+.||.++.|+...+. |++.+.+-.+- .++..+++....|.+.||+.+-++.-+=..|...
T Consensus 40 ~s~eeI~~~a~~a~~~-----------g~~~~~lv~sg~~~~~~~~e~~~ei~~~ik~~~p~l~i~~s~G~~~~e~l~~L 108 (279)
T PRK08508 40 KDIEQIVQEAKMAKAN-----------GALGFCLVTSGRGLDDKKLEYVAEAAKAVKKEVPGLHLIACNGTASVEQLKEL 108 (279)
T ss_pred CCHHHHHHHHHHHHHC-----------CCCEEEEEeccCCCCcccHHHHHHHHHHHHhhCCCcEEEecCCCCCHHHHHHH
Confidence 6889999988875543 23333221111 1223478888999999998764443111122211
Q ss_pred -cCCeEEEEeecCC-----CCCCc---hHHHHHHHHHHHHhcCCeecceeeecC--CHHHHHHHHHHHh
Q 039996 181 -GEDITEVECNLLK-----PSKIG---GDKVQVEVDELAAVEGMAVGKGYYTDL--SQEEIIERYMKLN 238 (241)
Q Consensus 181 -~~g~~qVs~NL~d-----~~~t~---~~~V~e~V~~~A~~~Gv~V~g~y~~g~--~pe~ile~~~~~~ 238 (241)
+.|.--+..||.- +++.+ ..++.+.++. |++.|+.+..+-+.|+ |+|++++....+-
T Consensus 109 k~aGld~~~~~lEt~~~~~~~i~~~~~~~~~l~~i~~-a~~~Gi~v~sg~I~GlGEt~ed~~~~l~~lr 176 (279)
T PRK08508 109 KKAGIFSYNHNLETSKEFFPKICTTHTWEERFQTCEN-AKEAGLGLCSGGIFGLGESWEDRISFLKSLA 176 (279)
T ss_pred HHcCCCEEcccccchHHHhcCCCCCCCHHHHHHHHHH-HHHcCCeecceeEEecCCCHHHHHHHHHHHH
Confidence 1122233333322 22333 3455556554 7899999999988665 5788888776553
No 14
>COG3808 OVP1 Inorganic pyrophosphatase [Energy production and conversion]
Probab=53.03 E-value=8.5 Score=39.50 Aligned_cols=30 Identities=17% Similarity=0.235 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHhhCCCcEEEecCCCCCCCcce
Q 039996 19 KAALESIEQAARLFSAAIIVNKFEDVTYNRVG 50 (241)
Q Consensus 19 ~~~ie~I~~a~~~~~gv~lld~~~D~dyNRsv 50 (241)
.+++|++.+-+|..|| ++.--.+|||+|+|
T Consensus 550 ~~vV~EVRRQfRE~PG--imegk~kPdY~R~V 579 (703)
T COG3808 550 MEVVEEVRRQFREIPG--IMEGKAKPDYGRCV 579 (703)
T ss_pred HHHHHHHHHHHhhCCc--cccCCcCCchhHHH
Confidence 4789999999999999 89999999999986
No 15
>cd07365 MhpB_like Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate. 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB) catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate, yielding the product 2-hydroxy-6-oxo-nona-2,4-diene 1,9-dicarboxylate. It is an essential enzyme in the beta-phenylpropionic degradation pathway, in which beta-phenylpropionic is first hydrolyzed to produce 2,3-dihydroxyphenylpropionate. The 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 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 represents the ca
Probab=52.54 E-value=1.9e+02 Score=27.27 Aligned_cols=69 Identities=13% Similarity=0.065 Sum_probs=42.3
Q ss_pred CHHHHHHHHHHhhccCCCcccceEEeeEec--------------CCeEEEEeecCCCCCCchHHHHHHH---HHHHHhc-
Q 039996 152 NIAAVRRIAKQVSERGGGLASVQAMVLIRG--------------EDITEVECNLLKPSKIGGDKVQVEV---DELAAVE- 213 (241)
Q Consensus 152 dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~--------------~g~~qVs~NL~d~~~t~~~~V~e~V---~~~A~~~- 213 (241)
|.++|++|++.....+=-+...+.+++.|+ --+++|++|..-+-..++.+.++.- .+..+.+
T Consensus 87 d~eLA~~L~~~~~~~g~d~a~~~~~~lDHg~~VPL~fL~~~~~~~pVVPI~vn~~~~P~~s~~r~~~lG~al~~ai~~~d 166 (310)
T cd07365 87 PRDLAEDLARHVLDSGIDVAISHRMQVDHGFTQPLEELFGGLDRYPVIPIFVNSVAPPLAPMRRARALGEAVGRFLAKLD 166 (310)
T ss_pred CHHHHHHHHHhhhhcCCChhhccCCCCCcchHhhHHHHhCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcC
Confidence 678999999888876533334433434332 1378999998665556665555544 4444444
Q ss_pred -CCeecce
Q 039996 214 -GMAVGKG 220 (241)
Q Consensus 214 -Gv~V~g~ 220 (241)
+|-|.+|
T Consensus 167 ~rV~VIaS 174 (310)
T cd07365 167 KRVLFLGS 174 (310)
T ss_pred CCEEEEEc
Confidence 4667665
No 16
>cd07370 HPCD The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate. 3,4-dihydroxyphenylacetate (homoprotocatechuate) 2,3-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 alpha-hydroxy-delta-carboxymethyl cis-muconic semialdehyde. HPCD 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.
Probab=51.29 E-value=1.9e+02 Score=26.26 Aligned_cols=40 Identities=13% Similarity=0.235 Sum_probs=30.9
Q ss_pred ceeeeeCC---CCCHHHHHHHHHHHHHhhccCCCCeEEeccCC
Q 039996 100 HICFHPLA---SAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTR 139 (241)
Q Consensus 100 vipf~Pl~---~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~ 139 (241)
-+|++|+. ..+.+++.++.+.|++-+.++-+++.+||...
T Consensus 137 ~~pvV~is~~~~~~~~~~~~lG~al~~~~~~~~~~v~iIaSG~ 179 (280)
T cd07370 137 HFKVVSVAVWCTHDIEESRRLGEAIRRAIAASDRRVALLASGS 179 (280)
T ss_pred CceEEEEeecCCCCHHHHHHHHHHHHHHHHhcCCCEEEEEecc
Confidence 57899985 37899999988888887765445777887765
No 17
>TIGR02298 HpaD_Fe 3,4-dihydroxyphenylacetate 2,3-dioxygenase. This enzyme catalyzes the ring-opening step in the degradation of 4-hydroxyphenylacetate.
Probab=50.87 E-value=1.8e+02 Score=26.76 Aligned_cols=68 Identities=18% Similarity=0.134 Sum_probs=42.5
Q ss_pred CCHHHHHHHHHHhhccCCCccc----ceEEeeEec---------C----CeEEEEeecCCCCCCchHHHHHHHHHHHHh-
Q 039996 151 TNIAAVRRIAKQVSERGGGLAS----VQAMVLIRG---------E----DITEVECNLLKPSKIGGDKVQVEVDELAAV- 212 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~GGL~~----VqAmgl~~~---------~----g~~qVs~NL~d~~~t~~~~V~e~V~~~A~~- 212 (241)
.|.++|++|++..++. |++. -..++|.|+ . -.+|||+|....+..-.++.=+.+.+++++
T Consensus 94 gd~eLA~~i~~~~~~~--gi~~~~~~~~~~~lDHG~~vPL~~l~p~~~ipvV~is~~~~~~~~~~~~~lG~al~~~i~~~ 171 (282)
T TIGR02298 94 GNPALGQLIADEAQEH--GVKTLAHQVPSLGLEYGTLVPMRYMNEDGHFKVVSIAAWCTVHDIEESRALGEAIRKAIEQS 171 (282)
T ss_pred CCHHHHHHHHHHHHHC--CCceeeccCCCCCCCeehHhHHHHhCCCCCCcEEEEeecCCCCCHHHHHHHHHHHHHHHHhc
Confidence 4799999999999864 3432 234556654 1 379999984433333335555566666554
Q ss_pred -cCCeecce
Q 039996 213 -EGMAVGKG 220 (241)
Q Consensus 213 -~Gv~V~g~ 220 (241)
.+|-|.+|
T Consensus 172 ~~rV~iIaS 180 (282)
T TIGR02298 172 DGRVAVLAS 180 (282)
T ss_pred CCCEEEEEe
Confidence 46767765
No 18
>PRK13370 mhpB 3-(2,3-dihydroxyphenyl)propionate dioxygenase; Provisional
Probab=49.64 E-value=1.7e+02 Score=27.59 Aligned_cols=69 Identities=13% Similarity=0.037 Sum_probs=44.0
Q ss_pred CHHHHHHHHHHhhccCCCcccceEEeeEec---------C-----CeEEEEeecCCCCCCchHHHHHHHHHHHH-----h
Q 039996 152 NIAAVRRIAKQVSERGGGLASVQAMVLIRG---------E-----DITEVECNLLKPSKIGGDKVQVEVDELAA-----V 212 (241)
Q Consensus 152 dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~---------~-----g~~qVs~NL~d~~~t~~~~V~e~V~~~A~-----~ 212 (241)
|.++|++|++.+.+.|=-......+.+.|+ . -+++|++|..-+-..++.+.++.=+.+++ .
T Consensus 87 d~eLA~~i~~~~~~~g~d~a~~~~~~lDHG~~vPL~~l~~~~~~~pVVpI~vn~~~~p~~s~~r~~~lG~aI~~ai~~~d 166 (313)
T PRK13370 87 PSDLAEALAEAVLDSGIDVAVSYRMQVDHGFAQPLEFLLGGLDAYPVIPVFINSVAAPLPPFRRVRLLGEAVGRFLATLD 166 (313)
T ss_pred CHHHHHHHHHHhHhcCCChhhcCCcCCCEeHHHHHHHhcCCCCCceEEEEeecCCCCCcCCHHHHHHHHHHHHHHHHhcC
Confidence 688999999988876633444455555443 1 26899999765555666666655554444 3
Q ss_pred cCCeecce
Q 039996 213 EGMAVGKG 220 (241)
Q Consensus 213 ~Gv~V~g~ 220 (241)
.+|-|.+|
T Consensus 167 ~rVlvIaS 174 (313)
T PRK13370 167 KRVLFLGS 174 (313)
T ss_pred CCEEEEEe
Confidence 45667775
No 19
>PRK02412 aroD 3-dehydroquinate dehydratase; Provisional
Probab=48.76 E-value=1.6e+02 Score=26.47 Aligned_cols=48 Identities=27% Similarity=0.375 Sum_probs=31.7
Q ss_pred ecCCCCCCchHHHHHHHHHHHHhcCCeecceee-ecCCH--HHHHHHHHHH
Q 039996 190 NLLKPSKIGGDKVQVEVDELAAVEGMAVGKGYY-TDLSQ--EEIIERYMKL 237 (241)
Q Consensus 190 NL~d~~~t~~~~V~e~V~~~A~~~Gv~V~g~y~-~g~~p--e~ile~~~~~ 237 (241)
...|.+....++.+..+...+++.|..|..||. .+-|| +++.+.+.+.
T Consensus 111 d~vDiEl~~~~~~~~~l~~~~~~~~~kvI~S~H~f~~tP~~~~l~~~~~~~ 161 (253)
T PRK02412 111 DYIDVELFSGKDVVKEMVAFAHEHGVKVVLSYHDFEKTPPKEEIVERLRKM 161 (253)
T ss_pred CEEEEeccCChHHHHHHHHHHHHcCCEEEEeeCCCCCCcCHHHHHHHHHHH
Confidence 344555444566677777778888999999987 35555 6666555443
No 20
>PRK11712 ribonuclease G; Provisional
Probab=48.25 E-value=35 Score=34.24 Aligned_cols=54 Identities=26% Similarity=0.383 Sum_probs=44.2
Q ss_pred HHHHHHHhhccCCCCeEEeccCCCeeeeeeeccC--C-----------CHHHHHHHHHHhhccC-CCc
Q 039996 117 IAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFS--T-----------NIAAVRRIAKQVSERG-GGL 170 (241)
Q Consensus 117 lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t--~-----------dl~~Ar~IA~~vR~~~-GGL 170 (241)
+.+.+.+++|-.-+|-.+|=-+.-|++.-||-.. . +++.|+.|||.+|=|+ ||+
T Consensus 276 i~~~l~~~V~L~sGg~lvIe~TeAlt~IDVnsGk~~~~~~~eet~~~tN~eAa~eiarqlrLR~igGi 343 (489)
T PRK11712 276 IQRALERKVELKSGGYLIIDQTEAMTTVDINTGAFVGHRNLEETIFNTNIEATQAIARQLRLRNLGGI 343 (489)
T ss_pred HHHHhcCcEEcCCCcEEEEeccccEEEEEecCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCe
Confidence 4566788888777799999999999999998833 1 3899999999999998 664
No 21
>TIGR03699 mena_SCO4550 menaquinone biosynthesis protein, SCO4550 family. members of this protein family are involved in menaquinone biosynthesis by an alternate pathway via futalosine.
Probab=48.10 E-value=1.6e+02 Score=27.13 Aligned_cols=43 Identities=19% Similarity=0.227 Sum_probs=32.0
Q ss_pred CCCCchHHHHHHHHHHHHhcCCeecceeeec--CCHHHHHHHHHHH
Q 039996 194 PSKIGGDKVQVEVDELAAVEGMAVGKGYYTD--LSQEEIIERYMKL 237 (241)
Q Consensus 194 ~~~t~~~~V~e~V~~~A~~~Gv~V~g~y~~g--~~pe~ile~~~~~ 237 (241)
+++.+.++..+.++ .|++.|+.+.-+.+.| -+++++++....+
T Consensus 175 ~~~~s~~~~l~~i~-~a~~~Gi~v~~~~iiGlgEt~ed~~~~l~~l 219 (340)
T TIGR03699 175 PKKISSEEWLEVME-TAHKLGLPTTATMMFGHVETLEDRIEHLERI 219 (340)
T ss_pred CCCCCHHHHHHHHH-HHHHcCCCccceeEeeCCCCHHHHHHHHHHH
Confidence 44567777777766 7888999998777765 6788888875543
No 22
>cd07952 ED_3B_like Uncharacterized class III extradiol dioxygenases. This subfamily is composed of proteins of unknown function with similarity to the catalytic B subunit of class III extradiol dioxygenases. Class III extradiol dioxygenases use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. They play key roles in the degradation of aromatic compounds.
Probab=47.36 E-value=42 Score=30.14 Aligned_cols=72 Identities=15% Similarity=0.178 Sum_probs=46.1
Q ss_pred cHHHHHHHHHHHH---HHcCCCCCCccCCCCCcccccee-----------eeeCC--CC-CHHHHHHHHHHHHHhhccCC
Q 039996 67 PLKSTVFAMIKAA---FENIEPGMHSGSHPRLGVVDHIC-----------FHPLA--SA-PLDQVAGIAKSVVGDIGSGL 129 (241)
Q Consensus 67 ~v~~aa~~~~~~A---~~~IDm~~H~G~HPR~GavDvip-----------f~Pl~--~~-t~~ec~~lA~~~a~~ig~~l 129 (241)
.+.+...+..+++ ...+|...|...|+..| +||=- ++|++ .. +.++|.++.+.|++-+-+.-
T Consensus 81 ela~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~-lDHG~~VPL~fl~~~pvV~is~~~~~~~~~~~~lG~aL~~~~~~~~ 159 (256)
T cd07952 81 ELANEIYKSARADGIPVLGINFATSSGDNSDFP-LDWGELIPLSFLKKRPIVLITPPRLLPREELVEFGRALGKALEGYE 159 (256)
T ss_pred HHHHHHHHHHHHcCCceeeccchhhccccCCCC-CCccccccHhhCCCCCeEEEccccCCCHHHHHHHHHHHHHHHHhcC
Confidence 4555554444432 23566677888999888 77753 44443 33 88888888888877655433
Q ss_pred CCeEEeccCC
Q 039996 130 QGVIVIGSTR 139 (241)
Q Consensus 130 ~Gat~vGAr~ 139 (241)
.++.+||...
T Consensus 160 ~~vliIaSGd 169 (256)
T cd07952 160 KRVAVIISAD 169 (256)
T ss_pred CcEEEEEecC
Confidence 4677777764
No 23
>TIGR00757 RNaseEG ribonuclease, Rne/Rng family. The C-terminal half of RNase E (excluded from the seed alignment for this model) lacks ribonuclease activity but participates in mRNA degradation by organizing the degradosome.
Probab=46.79 E-value=24 Score=34.51 Aligned_cols=82 Identities=22% Similarity=0.287 Sum_probs=55.3
Q ss_pred HHHHHHHhhccCCCCeEEeccCCCeeeeeeeccC-------------CCHHHHHHHHHHhhccC-CCcccceEEeeEecC
Q 039996 117 IAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFS-------------TNIAAVRRIAKQVSERG-GGLASVQAMVLIRGE 182 (241)
Q Consensus 117 lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t-------------~dl~~Ar~IA~~vR~~~-GGL~~VqAmgl~~~~ 182 (241)
+.+.+.+++|-.-+|-.+|=-+.-|++.-||-.. ++++.|+.|||.+|=|+ ||+=-|
T Consensus 264 i~~~l~~~V~L~~Gg~lvIe~TEALtvIDVNsG~~~~~~~~eet~~~~NleAa~EIaRQlRLRnigGiIvI--------- 334 (414)
T TIGR00757 264 IDKATQRKVWLPSGGYIVIDQTEALTTIDVNSGRFTGGGNLEETALNTNLEAAKEIARQLRLRNLGGIIII--------- 334 (414)
T ss_pred HHHhcCCcEECCCCeEEEEecCccEEEEEecCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhhcCCCCeEEE---------
Confidence 3455777777666688888888889999888742 45999999999999888 664222
Q ss_pred CeEEEEeecCCCC-CCchHHHHHHHHHHHHhcC
Q 039996 183 DITEVECNLLKPS-KIGGDKVQVEVDELAAVEG 214 (241)
Q Consensus 183 g~~qVs~NL~d~~-~t~~~~V~e~V~~~A~~~G 214 (241)
-..|.. .---.+|.+.+++..++-.
T Consensus 335 -------DFIdM~~~~~~~~v~~~l~~~~~~D~ 360 (414)
T TIGR00757 335 -------DFIDMKSEKNQRRVLERLKEALRRDR 360 (414)
T ss_pred -------ECCCCCCHHHHHHHHHHHHHHHhcCC
Confidence 122221 2334457777777766443
No 24
>KOG1541 consensus Predicted protein carboxyl methylase [General function prediction only]
Probab=45.10 E-value=19 Score=33.46 Aligned_cols=73 Identities=29% Similarity=0.393 Sum_probs=43.5
Q ss_pred cHHHHHHHHHHHHHHcCCCCCC---------------------ccCCCCCccccceeeeeCCCCCHHHHHHHHHHHH---
Q 039996 67 PLKSTVFAMIKAAFENIEPGMH---------------------SGSHPRLGVVDHICFHPLASAPLDQVAGIAKSVV--- 122 (241)
Q Consensus 67 ~v~~aa~~~~~~A~~~IDm~~H---------------------~G~HPR~GavDvipf~Pl~~~t~~ec~~lA~~~a--- 122 (241)
.+..-=-.|+..|+|+.|+-.. +| |+.+|+ |..|= =++.+++ +.+-
T Consensus 28 ri~~IQ~em~eRaLELLalp~~~~~~iLDIGCGsGLSg~vL~~~G-h~wiGv-DiSps------ML~~a~~--~e~egdl 97 (270)
T KOG1541|consen 28 RIVLIQAEMAERALELLALPGPKSGLILDIGCGSGLSGSVLSDSG-HQWIGV-DISPS------MLEQAVE--RELEGDL 97 (270)
T ss_pred eeeeehHHHHHHHHHHhhCCCCCCcEEEEeccCCCcchheeccCC-ceEEee-cCCHH------HHHHHHH--hhhhcCe
Confidence 4444445789999999999763 23 665552 33321 1233332 3333
Q ss_pred --HhhccCCC-------CeEEeccCCCeeeeeeecc
Q 039996 123 --GDIGSGLQ-------GVIVIGSTRWVDNYNIPVF 149 (241)
Q Consensus 123 --~~ig~~l~-------Gat~vGAr~~liayNV~L~ 149 (241)
.++|+.++ |++-|+|-.||.|=|=..+
T Consensus 98 il~DMG~GlpfrpGtFDg~ISISAvQWLcnA~~s~~ 133 (270)
T KOG1541|consen 98 ILCDMGEGLPFRPGTFDGVISISAVQWLCNADKSLH 133 (270)
T ss_pred eeeecCCCCCCCCCccceEEEeeeeeeecccCcccc
Confidence 23444444 9999999999988654443
No 25
>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=44.62 E-value=99 Score=21.01 Aligned_cols=48 Identities=17% Similarity=0.315 Sum_probs=37.8
Q ss_pred HHHHHHHHHhhccCCCcccceEEeeEecCCeEEEEeecCCCCCCchHHHHHHHHH
Q 039996 154 AAVRRIAKQVSERGGGLASVQAMVLIRGEDITEVECNLLKPSKIGGDKVQVEVDE 208 (241)
Q Consensus 154 ~~Ar~IA~~vR~~~GGL~~VqAmgl~~~~g~~qVs~NL~d~~~t~~~~V~e~V~~ 208 (241)
.=+++|-+.++. +++|+..-+....+.+.|.- |++.+++.++.+.|++
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 567788888876 57799988888778777766 5556888999998876
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=42.87 E-value=93 Score=28.30 Aligned_cols=71 Identities=15% Similarity=0.113 Sum_probs=45.4
Q ss_pred CCCHHHHHHHHHHhhccCCCcccceEEeeEec-------------CCeEEEEeecCCCCCCchHHHH---HHHHHHHHh-
Q 039996 150 STNIAAVRRIAKQVSERGGGLASVQAMVLIRG-------------EDITEVECNLLKPSKIGGDKVQ---VEVDELAAV- 212 (241)
Q Consensus 150 t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~-------------~g~~qVs~NL~d~~~t~~~~V~---e~V~~~A~~- 212 (241)
..|.++|++|++.+++.|=-......++|.|+ --.+|||+|...+...|+.+.+ +.|.+++++
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 46889999999999887532223334455552 1378999999875555666654 445555444
Q ss_pred ----cCCeecce
Q 039996 213 ----EGMAVGKG 220 (241)
Q Consensus 213 ----~Gv~V~g~ 220 (241)
.+|-|.+|
T Consensus 167 ~~~d~rV~iiaS 178 (268)
T cd07367 167 RPAGERVAVIAA 178 (268)
T ss_pred CCCCCcEEEEEc
Confidence 56666664
No 27
>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=42.87 E-value=1.2e+02 Score=21.50 Aligned_cols=64 Identities=14% Similarity=0.253 Sum_probs=45.8
Q ss_pred HHHHHHHHHhhccCCCcccceEEeeEe---cCCeEEEEeecCCCCCCchHHHHHHHHHHHHhcCCee
Q 039996 154 AAVRRIAKQVSERGGGLASVQAMVLIR---GEDITEVECNLLKPSKIGGDKVQVEVDELAAVEGMAV 217 (241)
Q Consensus 154 ~~Ar~IA~~vR~~~GGL~~VqAmgl~~---~~g~~qVs~NL~d~~~t~~~~V~e~V~~~A~~~Gv~V 217 (241)
-+-.+|++.+.+.|+-+..++...... +.+.....+.+.-+...+..++.+.++.+++++|+.+
T Consensus 11 Giv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~p~~~~~~~l~~~l~~l~~~~~~~~ 77 (81)
T cd04869 11 GIVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLALPAGTDLDALREELEELCDDLNVDI 77 (81)
T ss_pred CHHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEecCCCCCHHHHHHHHHHHHHHhcceE
Confidence 455679999999998888877766552 1244433333333455689999999999999999765
No 28
>cd02396 PCBP_like_KH K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are represented here, in tandem arrangement, followed by a large spacer region, with the third domain near the C-terminal end of the protein. The poly(C) binding proteins (PCBPs) can be divided into two groups, hnRNPs K/J and the alphaCPs, which share a triple KH domain configuration and poly(C) binding specificity. They play roles in mRNA stabilization, translational activation, and translational silencing. Nova-1 and Nova-2 are nuclear RNA-binding proteins that regulate splicing. This group also contains plant proteins that seem to have two tandem repeat arrrangements, like Hen4, a protein that plays a role in AGAMOUS (AG) pre-mRNA processing and important step in plant development. In general, KH binds single-stran
Probab=42.28 E-value=57 Score=23.00 Aligned_cols=47 Identities=9% Similarity=0.132 Sum_probs=29.3
Q ss_pred CCCHHHHHHHHHHHhhCCCcEEEecCCCCCCCcceEEEeecCCCCCCCCcccHHHHHH
Q 039996 16 SQNKAALESIEQAARLFSAAIIVNKFEDVTYNRVGYTVVSKLAPTLSSDSCPLKSTVF 73 (241)
Q Consensus 16 GR~~~~ie~I~~a~~~~~gv~lld~~~D~dyNRsv~T~vg~~~~~~~~~~~~v~~aa~ 73 (241)
||.-..|..|.+.- --.+.+.+-..+.+.+| ++|+.|+++ ++.+|..
T Consensus 16 G~~G~~i~~i~~~t--ga~I~i~~~~~~~~~~r-~v~I~G~~~--------~v~~A~~ 62 (65)
T cd02396 16 GKGGSTIKEIREET--GAKIRVSKSVLPGSTER-VVTISGKPS--------AVQKALL 62 (65)
T ss_pred CCCcHHHHHHHHHH--CCEEEEcCCCCCCCCce-EEEEEeCHH--------HHHHHHH
Confidence 67777888887652 12333433333246667 599999999 7766643
No 29
>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=41.69 E-value=97 Score=28.55 Aligned_cols=70 Identities=10% Similarity=0.046 Sum_probs=45.1
Q ss_pred CCHHHHHHHHHHhhccCCCcccceEEeeEec----------C-C----eEEEEeecCCCCCCch---HHHHHHHHHHHHh
Q 039996 151 TNIAAVRRIAKQVSERGGGLASVQAMVLIRG----------E-D----ITEVECNLLKPSKIGG---DKVQVEVDELAAV 212 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~----------~-g----~~qVs~NL~d~~~t~~---~~V~e~V~~~A~~ 212 (241)
.|.++|++|++.+.+.|==......++|.|+ + + .+||++|..-+...++ ++.=+.|.+.+++
T Consensus 96 g~~~LA~~i~~~~~~~g~d~~~~~~~~lDHG~~vPL~~l~~~~d~~~pvV~i~~n~~~~p~~~~~~~~~lG~al~~~i~~ 175 (276)
T cd07949 96 GDPELSWHLIESLVEDEFDITTCQEMLVDHACTLPMQLFWPGAEWPIKVVPVSINTVQHPLPSPKRCFKLGQAIGRAIES 175 (276)
T ss_pred CCHHHHHHHHHHHHHcCCCeeccCCCCCCcchhhHHHHhcCccCCCCCEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHh
Confidence 3789999999999876522333345565554 1 1 5899999876556666 4444556665554
Q ss_pred ----cCCeecce
Q 039996 213 ----EGMAVGKG 220 (241)
Q Consensus 213 ----~Gv~V~g~ 220 (241)
.+|-+.+|
T Consensus 176 ~~~d~rv~iiaS 187 (276)
T cd07949 176 YPEDLRVVVLGT 187 (276)
T ss_pred cCcCCCEEEEEe
Confidence 36777775
No 30
>PRK14470 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=39.69 E-value=2.6e+02 Score=26.56 Aligned_cols=104 Identities=15% Similarity=0.120 Sum_probs=64.0
Q ss_pred ccCCCCeEEeccCCCeeeeeeeccCCCHHHHHHHHHH----------hh-ccCCCcccceEEeeEecCCeEEEEeecCCC
Q 039996 126 GSGLQGVIVIGSTRWVDNYNIPVFSTNIAAVRRIAKQ----------VS-ERGGGLASVQAMVLIRGEDITEVECNLLKP 194 (241)
Q Consensus 126 g~~l~Gat~vGAr~~liayNV~L~t~dl~~Ar~IA~~----------vR-~~~GGL~~VqAmgl~~~~g~~qVs~NL~d~ 194 (241)
+.....++..|--.||.||. ++..+-++-+. |. ..+|=++.++.++.......+.||.|=.|.
T Consensus 142 ~~~i~nIvfmGmGEPllN~d------~v~~~i~~l~~~~~~~~~~~~ItVsTnG~~p~i~~l~~~~~~~~LaiSLhA~~~ 215 (336)
T PRK14470 142 ERPITGVVFMGQGEPFLNYD------EVLRAAYALCDPAGARIDGRRISISTAGVVPMIRRYTAEGHKFRLCISLNAAIP 215 (336)
T ss_pred CCCCCEEEEEecCccccCHH------HHHHHHHHHhCccccccCCCceEEEecCChHHHHHHHhcCCCceEEEecCCCCH
Confidence 34556888889888888875 12222222221 11 122545666655443212458888888773
Q ss_pred C----------CCchHHHHHHHHHHHHhcCCeecceee----ecCCHHHHHHHHHH
Q 039996 195 S----------KIGGDKVQVEVDELAAVEGMAVGKGYY----TDLSQEEIIERYMK 236 (241)
Q Consensus 195 ~----------~t~~~~V~e~V~~~A~~~Gv~V~g~y~----~g~~pe~ile~~~~ 236 (241)
+ ..|+..+.+.++...+. |-++.=.|. ++-+++++.+.+..
T Consensus 216 e~r~~I~p~~~~~~le~il~ai~~~~~~-~rri~ieyvLI~GvNDseeda~~La~l 270 (336)
T PRK14470 216 WKRRALMPIEQGFPLDELVEAIREHAAL-RGRVTLEYVMISGVNVGEEDAAALGRL 270 (336)
T ss_pred HHHHHhcCccccCCHHHHHHHHHHHHHh-CCCeEEEEEEEecccCCHHHHHHHHHH
Confidence 2 45788999999999877 766666665 56678877766553
No 31
>PRK14465 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=37.19 E-value=87 Score=29.96 Aligned_cols=127 Identities=10% Similarity=0.099 Sum_probs=75.5
Q ss_pred CCCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccCCCHHHHHH-HHH-----HhhccC-CCcccceEEeeEe
Q 039996 108 SAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFSTNIAAVRR-IAK-----QVSERG-GGLASVQAMVLIR 180 (241)
Q Consensus 108 ~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t~dl~~Ar~-IA~-----~vR~~~-GGL~~VqAmgl~~ 180 (241)
+.|.+|-++-.-.+.+.++++...++..|--.||.||.--+...+ +.+. -.. .|+=+. |=++.++.++-..
T Consensus 132 nlta~EI~~qv~~~~~~~~~~~~niVFmGmGEPL~N~d~V~~~~~--~l~~~~~~~~~~r~itvST~G~~~~i~~l~~~~ 209 (342)
T PRK14465 132 NLKAHEIVDQVLQVEKIVGDRATNVVFMGMGEPMHNYFNVIRAAS--ILHDPDAFNLGAKRITISTSGVVNGIRRFIENK 209 (342)
T ss_pred CCCHHHHHHHHHHHHHhcCCCceEEEEEcCCcchhhHHHHHHHHH--HHhChhhhcCCCCeEEEeCCCchHHHHHHHhhc
Confidence 556677666555555555666668888898888888732222111 1110 001 111122 3345565544211
Q ss_pred cCCeEEEEeecCCC----------CCCchHHHHHHHHHHHHhcCCeecceee----ecCCHHHHHHHHHH
Q 039996 181 GEDITEVECNLLKP----------SKIGGDKVQVEVDELAAVEGMAVGKGYY----TDLSQEEIIERYMK 236 (241)
Q Consensus 181 ~~g~~qVs~NL~d~----------~~t~~~~V~e~V~~~A~~~Gv~V~g~y~----~g~~pe~ile~~~~ 236 (241)
..-...||.|=.|. .+-|+..+++.++..+++.|-+|.=.|+ +|-++|++-+.+..
T Consensus 210 ~~~~LaiSLhA~~~e~R~~l~Pi~~~~~le~ll~al~~~~~~~~r~v~ieyvLI~GvNDs~eda~~L~~l 279 (342)
T PRK14465 210 EPYNFAISLNHPDPNGRLQIMDIEEKFPLEELLQAAKDFTRELKRRITFEYVMIPGVNMGRENANKLVKI 279 (342)
T ss_pred cCceEEEEecCCChhhcceEeeccccCCHHHHHHHHHHHHHHcCCEEEEEEEEECCccCCHHHHHHHHHH
Confidence 12357788887772 3568899999999999998888876665 56667776665543
No 32
>PRK14467 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=37.12 E-value=2.9e+02 Score=26.39 Aligned_cols=121 Identities=13% Similarity=0.147 Sum_probs=74.8
Q ss_pred CCCCHHHHHHHHHHHHHhhc-cCCCCeEEeccCCCeeeeeeeccCCCHHHHHHHHHHhhcc--------------CCCcc
Q 039996 107 ASAPLDQVAGIAKSVVGDIG-SGLQGVIVIGSTRWVDNYNIPVFSTNIAAVRRIAKQVSER--------------GGGLA 171 (241)
Q Consensus 107 ~~~t~~ec~~lA~~~a~~ig-~~l~Gat~vGAr~~liayNV~L~t~dl~~Ar~IA~~vR~~--------------~GGL~ 171 (241)
++.|.+|-++-...+-+... +..+|+|..|--.||.||.. ..+..+.+.+. +|-.+
T Consensus 125 rnlt~~EIv~Qv~~~~~~~~~~~v~~VvfmGmGEPL~N~d~---------v~~~l~~l~~~~gl~~~~r~itvsT~G~~~ 195 (348)
T PRK14467 125 RNLRTAEIIDQYIQVQKFLGENRIRNVVFMGMGEPLANYEN---------VRKAVQIMTSPWGLDLSKRRITISTSGIIH 195 (348)
T ss_pred CCCCHHHHHHHHHHHHHHhccCCCCeEEEEccChhhcCHHH---------HHHHHHHHcChhccCcCCCcEEEECCCChh
Confidence 57888888865554444332 34679999998888988722 22222333221 24444
Q ss_pred cceEEeeEe--c-CCeEEEEeecCCCC----------CCchHHHHHHHHHHHHhcCCeecceee----ecCCHHHHHHHH
Q 039996 172 SVQAMVLIR--G-EDITEVECNLLKPS----------KIGGDKVQVEVDELAAVEGMAVGKGYY----TDLSQEEIIERY 234 (241)
Q Consensus 172 ~VqAmgl~~--~-~g~~qVs~NL~d~~----------~t~~~~V~e~V~~~A~~~Gv~V~g~y~----~g~~pe~ile~~ 234 (241)
.++.++... . -+.+ ||.|-.|.+ .-|+..+.+.++....+.|-+|.=.|. .+-+++++-+.+
T Consensus 196 ~i~~l~~~~~l~~v~La-lSLha~~~e~r~~i~p~~~~~~l~~l~~~~~~~~~~~g~~V~ieyvLIpGvNDs~e~a~~La 274 (348)
T PRK14467 196 QIKRMAEDPVMPEVNLA-VSLNASSQKLRERIMPISKTNTLEELMEVLKQYPLPPGRRIMLEYVLIKGVNDSPEDALRLA 274 (348)
T ss_pred HHHHHHhhccccCeeEE-EECCCCCHHHHHHhcCCccccCHHHHHHHHHHHHHhcCCeEEEEEEEECCccCCHHHHHHHH
Confidence 554444321 1 2445 899888843 346677888888888888888777765 445577776665
Q ss_pred HHH
Q 039996 235 MKL 237 (241)
Q Consensus 235 ~~~ 237 (241)
..+
T Consensus 275 ~~l 277 (348)
T PRK14467 275 QLI 277 (348)
T ss_pred HHH
Confidence 543
No 33
>PRK14462 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=35.70 E-value=4.1e+02 Score=25.59 Aligned_cols=117 Identities=11% Similarity=0.091 Sum_probs=75.8
Q ss_pred CCCCHHHHHHHHHHHHHhhcc---CCCCeEEeccCCCeeeeeeeccCCCHHHHHHHHHHhhcc--------------CCC
Q 039996 107 ASAPLDQVAGIAKSVVGDIGS---GLQGVIVIGSTRWVDNYNIPVFSTNIAAVRRIAKQVSER--------------GGG 169 (241)
Q Consensus 107 ~~~t~~ec~~lA~~~a~~ig~---~l~Gat~vGAr~~liayNV~L~t~dl~~Ar~IA~~vR~~--------------~GG 169 (241)
++.|.+|-++-...+-+.... ..+|+|..|--.||.||. ...+..+.+++. .|-
T Consensus 136 RnLt~~EIv~QV~~~~~~~~~~~~~~~~vVfmGmGEPL~N~d---------~v~~~l~~l~~~~Gl~~~~r~itVsTsG~ 206 (356)
T PRK14462 136 RNLSAGEIVGQILWIKKDNNIPYEKRVNIVYMGMGEPLDNLD---------NVSKAIKIFSENDGLAISPRRQTISTSGL 206 (356)
T ss_pred ccCCHHHHHHHHHHHHHhhhccccccCCeEEeCCcccccCHH---------HHHHHHHHhcCccCCCcCCCceEEECCCC
Confidence 578888887766655454432 356999999999999883 333344444443 243
Q ss_pred cccceEEeeEecCCe---EEEEeecCCC----------CCCchHHHHHHHHHHHHhcCCeecceee----ecCCHHHHHH
Q 039996 170 LASVQAMVLIRGEDI---TEVECNLLKP----------SKIGGDKVQVEVDELAAVEGMAVGKGYY----TDLSQEEIIE 232 (241)
Q Consensus 170 L~~VqAmgl~~~~g~---~qVs~NL~d~----------~~t~~~~V~e~V~~~A~~~Gv~V~g~y~----~g~~pe~ile 232 (241)
.+.++.++- .+. .-||.+-.|. ...|+..+.+.++..+.+.|-+|.=.|. +|=++|++-+
T Consensus 207 ~~~i~~L~~---~dl~v~LaiSLha~d~e~r~~l~pv~~~~~l~~ll~~l~~y~~~~~~~i~ieyvLI~GvNDs~e~a~~ 283 (356)
T PRK14462 207 ASKIKKLGE---MNLGVQLAISLHAVDDELRSELMPINKAYNIESIIDAVRKFPIDQRKRVMFEYLVIKDVNDDLKSAKK 283 (356)
T ss_pred hHHHHHHHh---cCCCeEEEEECCCCCHHHHHHhCCCCccCCHHHHHHHHHHHHHHhCCeEEEEEEEECCCCCCHHHHHH
Confidence 455554332 232 4456777773 2557788999999999888988888876 4566777666
Q ss_pred HHH
Q 039996 233 RYM 235 (241)
Q Consensus 233 ~~~ 235 (241)
.+.
T Consensus 284 La~ 286 (356)
T PRK14462 284 LVK 286 (356)
T ss_pred HHH
Confidence 554
No 34
>PF00013 KH_1: KH domain syndrome, contains KH motifs.; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....
Probab=34.73 E-value=49 Score=22.59 Aligned_cols=36 Identities=14% Similarity=0.189 Sum_probs=26.2
Q ss_pred CCCHHHHHHHHHHHhhCCCcEEEecCCCCCCCcceEEEeecCC
Q 039996 16 SQNKAALESIEQAARLFSAAIIVNKFEDVTYNRVGYTVVSKLA 58 (241)
Q Consensus 16 GR~~~~ie~I~~a~~~~~gv~lld~~~D~dyNRsv~T~vg~~~ 58 (241)
||+-..|.+|.+.. |+. +++..+ + +|..+++.|+++
T Consensus 16 G~~G~~i~~I~~~t----~~~-I~i~~~-~-~~~~v~I~G~~~ 51 (60)
T PF00013_consen 16 GKKGSNIKEIEEET----GVK-IQIPDD-D-ERDIVTISGSPE 51 (60)
T ss_dssp TGGGHHHHHHHHHH----TSE-EEEEST-T-EEEEEEEEESHH
T ss_pred CCCCCcHHHhhhhc----CeE-EEEcCC-C-CcEEEEEEeCHH
Confidence 67777788887664 555 555444 5 888999999777
No 35
>COG0106 HisA Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]
Probab=34.35 E-value=43 Score=30.86 Aligned_cols=82 Identities=20% Similarity=0.251 Sum_probs=56.2
Q ss_pred CCCHHHHHHHHHHhh---ccCCCcccceEEeeEecCCeEEEEeecCCCCCCchHHHHHHHHHHHHhcCCeecc-------
Q 039996 150 STNIAAVRRIAKQVS---ERGGGLASVQAMVLIRGEDITEVECNLLKPSKIGGDKVQVEVDELAAVEGMAVGK------- 219 (241)
Q Consensus 150 t~dl~~Ar~IA~~vR---~~~GGL~~VqAmgl~~~~g~~qVs~NL~d~~~t~~~~V~e~V~~~A~~~Gv~V~g------- 219 (241)
..+.++.++|.+.+. +-|||.+..+.....++.|..-|-. -|-..+=.+.+++++++||-+|.=
T Consensus 61 ~~n~~~i~~i~~~~~~~vQvGGGIRs~~~v~~ll~~G~~rVii------Gt~av~~p~~v~~~~~~~g~rivv~lD~r~g 134 (241)
T COG0106 61 PRNLEAIKEILEATDVPVQVGGGIRSLEDVEALLDAGVARVII------GTAAVKNPDLVKELCEEYGDRIVVALDARDG 134 (241)
T ss_pred cccHHHHHHHHHhCCCCEEeeCCcCCHHHHHHHHHCCCCEEEE------ecceecCHHHHHHHHHHcCCcEEEEEEccCC
Confidence 346899999999996 5789999999888887544433332 222233346777888888743332
Q ss_pred -------eeeecCCHHHHHHHHHHH
Q 039996 220 -------GYYTDLSQEEIIERYMKL 237 (241)
Q Consensus 220 -------~y~~g~~pe~ile~~~~~ 237 (241)
.+.+++++++..++++..
T Consensus 135 ~vav~GW~e~s~~~~~~l~~~~~~~ 159 (241)
T COG0106 135 KVAVSGWQEDSGVELEELAKRLEEV 159 (241)
T ss_pred ccccccccccccCCHHHHHHHHHhc
Confidence 145888999888877653
No 36
>PRK14459 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=33.99 E-value=1.6e+02 Score=28.60 Aligned_cols=120 Identities=12% Similarity=0.084 Sum_probs=74.8
Q ss_pred CCCCHHHHHHHHHHHHHhhcc--------CCCCeEEeccCCCeeeeeeeccCCCHHHHHHHHHHhhc---cC--------
Q 039996 107 ASAPLDQVAGIAKSVVGDIGS--------GLQGVIVIGSTRWVDNYNIPVFSTNIAAVRRIAKQVSE---RG-------- 167 (241)
Q Consensus 107 ~~~t~~ec~~lA~~~a~~ig~--------~l~Gat~vGAr~~liayNV~L~t~dl~~Ar~IA~~vR~---~~-------- 167 (241)
++.|.+|-++-...+-+.+.+ ++..++..|--.||.||.- + .++.+.+.+ .+
T Consensus 147 RnLt~~EIv~Qv~~~~~~~~~~~~~~~~~~i~nVvfmGmGEPLlN~d~------V---~~~i~~l~~~~~~g~gis~r~I 217 (373)
T PRK14459 147 RNLSTAEIVEQVRAAARALRDGEVPGGPGRLSNVVFMGMGEPLANYKR------V---VAAVRRITAPAPEGLGISARNV 217 (373)
T ss_pred CccCHHHHHHHHHHHHHHhhhcccccCCCceeEEEEecCCcchhhHHH------H---HHHHHHHhCcccccCCccCCEE
Confidence 578999988877666554432 2334888887777877642 2 222233332 11
Q ss_pred -----CCcccceEEeeEecCCeEEEEeecCCCC----------CCchHHHHHHHHHHHHhcCCeecceee----ecCCHH
Q 039996 168 -----GGLASVQAMVLIRGEDITEVECNLLKPS----------KIGGDKVQVEVDELAAVEGMAVGKGYY----TDLSQE 228 (241)
Q Consensus 168 -----GGL~~VqAmgl~~~~g~~qVs~NL~d~~----------~t~~~~V~e~V~~~A~~~Gv~V~g~y~----~g~~pe 228 (241)
|=.+.++.++-..-.-.+-||.|-.|.+ +-|+.++.+.++..+.+.|.+|.=.|. +|=+++
T Consensus 218 TvST~Gl~~~i~~la~~~l~~~LavSLha~d~e~R~~l~p~n~~~~l~~ll~a~~~~~~~~grrv~ieyvLi~GvNDs~e 297 (373)
T PRK14459 218 TVSTVGLVPAIRKLADEGLPVTLAVSLHAPDDELRDELVPVNTRWKVDEVLDAARYYADATGRRVSIEYALIRDINDQPW 297 (373)
T ss_pred EEECcCchhHHHHHHHhcCCeEEEEEeCCCCHHHHHHhcCcccCCCHHHHHHHHHHHHHHhCCEEEEEEEEeCCCCCCHH
Confidence 2223333332111012478999988843 456899999999999999999888886 556677
Q ss_pred HHHHHHH
Q 039996 229 EIIERYM 235 (241)
Q Consensus 229 ~ile~~~ 235 (241)
++-+.+.
T Consensus 298 ~a~~L~~ 304 (373)
T PRK14459 298 RADLLGK 304 (373)
T ss_pred HHHHHHH
Confidence 6655444
No 37
>PRK13363 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=32.75 E-value=2.2e+02 Score=27.25 Aligned_cols=40 Identities=20% Similarity=0.140 Sum_probs=29.9
Q ss_pred ceeeeeCC-C-------CCHHHHHHHHHHHHHhhccCC--CCeEEeccCC
Q 039996 100 HICFHPLA-S-------APLDQVAGIAKSVVGDIGSGL--QGVIVIGSTR 139 (241)
Q Consensus 100 vipf~Pl~-~-------~t~~ec~~lA~~~a~~ig~~l--~Gat~vGAr~ 139 (241)
-+|++||. + .|.++|.++.+.|++-+.+.- .++.+||...
T Consensus 200 dipVVpIsl~~~~~P~~~s~~~~~~lG~aL~~~i~~~~~d~rVlIIaSGd 249 (335)
T PRK13363 200 VLPTVPVLVNTFYPPNQPTPRRCIALGRSLRRAIRSWPEDARVAVIASGG 249 (335)
T ss_pred CCcEEEEEeccCCCcCCCCHHHHHHHHHHHHHHHHhcCcCCCEEEEEeCc
Confidence 47999985 2 677999999999988876421 3778887764
No 38
>TIGR01182 eda Entner-Doudoroff aldolase. 2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida
Probab=32.05 E-value=85 Score=27.90 Aligned_cols=55 Identities=15% Similarity=0.338 Sum_probs=36.2
Q ss_pred cccceeeeeCCCCCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccCCCHHHHHHHHHH
Q 039996 97 VVDHICFHPLASAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFSTNIAAVRRIAKQ 162 (241)
Q Consensus 97 avDvipf~Pl~~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t~dl~~Ar~IA~~ 162 (241)
-...+||+|.+|++.+. +.+.+.. |+.++|...||..-.- +...|.+.-++.|+.
T Consensus 145 plp~i~~~ptGGV~~~N-------~~~~l~a---Ga~~vg~Gs~L~~~~~-~~~~~~~~i~~~a~~ 199 (204)
T TIGR01182 145 PFPQVRFCPTGGINLAN-------VRDYLAA---PNVACGGGSWLVPKDL-IAAGDWDEITRLARE 199 (204)
T ss_pred cCCCCcEEecCCCCHHH-------HHHHHhC---CCEEEEEChhhcCchh-hccccHHHHHHHHHH
Confidence 45689999999999863 3333332 9999999999985332 333455444444443
No 39
>COG1324 CutA Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]
Probab=32.03 E-value=1.1e+02 Score=24.92 Aligned_cols=65 Identities=15% Similarity=0.296 Sum_probs=45.8
Q ss_pred eeccCCCHHHHHHHHHHhhccC-----CCcccceEEeeEec--CCeEEEEeecCCCCCCchHHHHHHHHHHHHhcC
Q 039996 146 IPVFSTNIAAVRRIAKQVSERG-----GGLASVQAMVLIRG--EDITEVECNLLKPSKIGGDKVQVEVDELAAVEG 214 (241)
Q Consensus 146 V~L~t~dl~~Ar~IA~~vR~~~-----GGL~~VqAmgl~~~--~g~~qVs~NL~d~~~t~~~~V~e~V~~~A~~~G 214 (241)
|..+..|.+-|++|||.+=+.. -=+|+++++=|.-| ..-.|+.| +. ||.-+...+..++...-+.
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 3445579999999999998766 55788999988864 22245555 22 6777777777777666655
No 40
>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=31.63 E-value=1.2e+02 Score=27.71 Aligned_cols=63 Identities=10% Similarity=0.014 Sum_probs=38.7
Q ss_pred CCHHHHHHHHHHhhccCCCcccc--e--EEeeEec-------------CCeEEEEeecCCCCCCchHHHH-------HHH
Q 039996 151 TNIAAVRRIAKQVSERGGGLASV--Q--AMVLIRG-------------EDITEVECNLLKPSKIGGDKVQ-------VEV 206 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~GGL~~V--q--Amgl~~~-------------~g~~qVs~NL~d~~~t~~~~V~-------e~V 206 (241)
.|.++|++|++.+++.| ++-. . .++|.|+ --.+|||+|.. ..++.+.+ +.+
T Consensus 90 g~~~LA~~i~~~l~~~G--i~~~~~~~~~~~lDHG~~vPL~~l~p~~~iPVV~vs~~~~---~~~~~~~~~lG~ai~~al 164 (272)
T cd07362 90 GDPELGRLLVEEGQEAG--LRVKAVNDPTYIWDYGTVVPLRYLNPNKDIPVVSISACWT---AASLEESYTWGEVIGKAL 164 (272)
T ss_pred CCHHHHHHHHHHHHHcC--CceeeccCCCCCCCcchHHHHHHhCCCCCCcEEEEeccCC---CCCHHHHHHHHHHHHHHH
Confidence 47899999999998754 3321 1 3455553 12689999874 23444444 333
Q ss_pred HHHHHhcCCeecce
Q 039996 207 DELAAVEGMAVGKG 220 (241)
Q Consensus 207 ~~~A~~~Gv~V~g~ 220 (241)
+.+ ..+|-|.+|
T Consensus 165 ~~~--~~rv~ii~S 176 (272)
T cd07362 165 LES--DKRVVFLAS 176 (272)
T ss_pred Hhh--CCCEEEEEe
Confidence 333 467777775
No 41
>cd07943 DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain. 4-hydroxy 2-ketovalerate aldolase (Also known as 4-hydroxy-2-ketovalerate aldolase and 4-hydroxy-2-oxopentanoate aldolase (HOA)) converts 4-hydroxy-2-oxopentanoate to acetaldehyde and pyruvate, the penultimate step in the meta-cleavage pathway for the degradation of phenols, cresols and catechol. This family includes the Escherichia coli MhpE aldolase, the Pseudomonas DmpG aldolase, and the Burkholderia xenovorans BphI pyruvate aldolase. In Pseudomonas, the DmpG aldolase tightly associates with a dehydrogenase (DmpF ) and is inactive without it. HOA has a canonical TIM-barrel fold with a C-terminal extension that forms a funnel leading to the active site. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate
Probab=30.75 E-value=3.5e+02 Score=24.17 Aligned_cols=72 Identities=11% Similarity=0.143 Sum_probs=46.5
Q ss_pred eeeccCCCHHHHHHHHHHhhccCCCcccceEEeeEecCCeEEEEeecCCCCCCchHHHHHHHHHHHHhcCCeecceee--
Q 039996 145 NIPVFSTNIAAVRRIAKQVSERGGGLASVQAMVLIRGEDITEVECNLLKPSKIGGDKVQVEVDELAAVEGMAVGKGYY-- 222 (241)
Q Consensus 145 NV~L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~~g~~qVs~NL~d~~~t~~~~V~e~V~~~A~~~Gv~V~g~y~-- 222 (241)
+|....+|....++..+.+++.| .+|.+|+.|...+++..+.+.+++. .+.|+... |+
T Consensus 103 ri~~~~s~~~~~~~~i~~ak~~G-----------------~~v~~~~~~~~~~~~~~~~~~~~~~-~~~G~d~i--~l~D 162 (263)
T cd07943 103 RVATHCTEADVSEQHIGAARKLG-----------------MDVVGFLMMSHMASPEELAEQAKLM-ESYGADCV--YVTD 162 (263)
T ss_pred EEEechhhHHHHHHHHHHHHHCC-----------------CeEEEEEEeccCCCHHHHHHHHHHH-HHcCCCEE--EEcC
Confidence 44445556666666666655532 3666777777788899999888875 45676433 33
Q ss_pred --ecCCHHHHHHHHHH
Q 039996 223 --TDLSQEEIIERYMK 236 (241)
Q Consensus 223 --~g~~pe~ile~~~~ 236 (241)
--++|+++-+...+
T Consensus 163 T~G~~~P~~v~~lv~~ 178 (263)
T cd07943 163 SAGAMLPDDVRERVRA 178 (263)
T ss_pred CCCCcCHHHHHHHHHH
Confidence 23779988765554
No 42
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=30.57 E-value=96 Score=19.78 Aligned_cols=28 Identities=25% Similarity=0.364 Sum_probs=21.9
Q ss_pred HHHHHHHHhcCCeecceeeecCCHHHHHHHHHHH
Q 039996 204 VEVDELAAVEGMAVGKGYYTDLSQEEIIERYMKL 237 (241)
Q Consensus 204 e~V~~~A~~~Gv~V~g~y~~g~~pe~ile~~~~~ 237 (241)
...+.+++++|++..|. .++++++..+.
T Consensus 7 ~eLk~~l~~~gL~~~G~------K~~Li~Rl~~~ 34 (35)
T PF02037_consen 7 AELKEELKERGLSTSGK------KAELIERLKEH 34 (35)
T ss_dssp HHHHHHHHHTTS-STSS------HHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCCCCC------HHHHHHHHHHh
Confidence 46788999999999998 78888776543
No 43
>TIGR03217 4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase. Members of this protein family are 4-hydroxy-2-oxovalerate aldolase, also called 4-hydroxy-2-ketovalerate aldolase and 2-oxo-4-hydroxypentanoate aldolase. This enzyme, part of the pathway for the meta-cleavage of catechol, produces pyruvate and acetaldehyde. Acetaldehyde is then converted by acetaldehyde dehydrogenase (acylating) (DmpF; EC 1.2.1.10) to acetyl-CoA. The two enzymes are tightly associated.
Probab=30.54 E-value=3.5e+02 Score=25.55 Aligned_cols=70 Identities=14% Similarity=0.167 Sum_probs=46.5
Q ss_pred ccCCCHHHHHHHHHHhhccCCCcccceEEeeEecCCeEEEEeecCCCCCCchHHHHHHHHHHHHhcCCeecceeeec---
Q 039996 148 VFSTNIAAVRRIAKQVSERGGGLASVQAMVLIRGEDITEVECNLLKPSKIGGDKVQVEVDELAAVEGMAVGKGYYTD--- 224 (241)
Q Consensus 148 L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~~g~~qVs~NL~d~~~t~~~~V~e~V~~~A~~~Gv~V~g~y~~g--- 224 (241)
...++.+.+++..+.+|+.| .+|..|+.+...+++..+.+.++.. .++|.... |+.|
T Consensus 108 ~~~~e~d~~~~~i~~ak~~G-----------------~~v~~~l~~s~~~~~e~l~~~a~~~-~~~Ga~~i--~i~DT~G 167 (333)
T TIGR03217 108 THCTEADVSEQHIGMARELG-----------------MDTVGFLMMSHMTPPEKLAEQAKLM-ESYGADCV--YIVDSAG 167 (333)
T ss_pred eccchHHHHHHHHHHHHHcC-----------------CeEEEEEEcccCCCHHHHHHHHHHH-HhcCCCEE--EEccCCC
Confidence 34556666776666666532 3666777777788999888888764 56886543 4433
Q ss_pred -CCHHHHHHHHHHH
Q 039996 225 -LSQEEIIERYMKL 237 (241)
Q Consensus 225 -~~pe~ile~~~~~ 237 (241)
++|+++.+....+
T Consensus 168 ~~~P~~v~~~v~~l 181 (333)
T TIGR03217 168 AMLPDDVRDRVRAL 181 (333)
T ss_pred CCCHHHHHHHHHHH
Confidence 7799887765543
No 44
>cd07372 2A5CPDO_B The beta subunit 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. 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. 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 carbon. The active 2A5CPDO enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. The alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication. This model describes the beta subunit, which contains a putative metal binding site with two conserved histidines; these residues are equivalent to two out of three Fe(II) bindin
Probab=30.51 E-value=4.5e+02 Score=24.46 Aligned_cols=68 Identities=12% Similarity=0.086 Sum_probs=44.1
Q ss_pred CCHHHHHHHHHHhhccCCCccc----ceEEeeEec-------------CCeEEEEeecCCCC---CCchHH---HHHHHH
Q 039996 151 TNIAAVRRIAKQVSERGGGLAS----VQAMVLIRG-------------EDITEVECNLLKPS---KIGGDK---VQVEVD 207 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~GGL~~----VqAmgl~~~-------------~g~~qVs~NL~d~~---~t~~~~---V~e~V~ 207 (241)
.|.++|++|++..++.| ++. ...++|.|+ --.|+||+|.+.+. .-|+.+ .=+.+.
T Consensus 96 gd~eLA~~i~~~~~~~G--i~~~~~~~~~~~LDHGt~vPL~fl~p~~~~pvV~is~~~l~~~~~~~~~~~~~~~lG~ai~ 173 (294)
T cd07372 96 VDVELAEACCEEGRKAG--LVTKMMRNPRFRVDYGTITTLHMIRPQWDIPVVGISANNTPYYLNTKEGLGEMDVLGKATR 173 (294)
T ss_pred CCHHHHHHHHHHHHHCC--CCeeeccCCCCCCCchHHHHHHHhCCCCCCcEEEEecCcccccccccCCHHHHHHHHHHHH
Confidence 47899999999999754 332 234555553 13789999876532 133444 445677
Q ss_pred HHHHhcC--Ceecce
Q 039996 208 ELAAVEG--MAVGKG 220 (241)
Q Consensus 208 ~~A~~~G--v~V~g~ 220 (241)
+.++++| |-+.+|
T Consensus 174 ~al~~~~~RV~vIaS 188 (294)
T cd07372 174 EAIRKTGRRAVLLAS 188 (294)
T ss_pred HHHHhcCCeEEEEEe
Confidence 7677888 766665
No 45
>cd04866 LigD_Pol_like_3 LigD_Pol_like_3: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 3. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated repair DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.
Probab=30.35 E-value=67 Score=29.24 Aligned_cols=60 Identities=8% Similarity=0.113 Sum_probs=42.4
Q ss_pred cHHHHHHHHHHHHHHcCCCCCCccCCCCCccccceeeeeCC--CCCHHHHHHHHHHHHHhhccCCC
Q 039996 67 PLKSTVFAMIKAAFENIEPGMHSGSHPRLGVVDHICFHPLA--SAPLDQVAGIAKSVVGDIGSGLQ 130 (241)
Q Consensus 67 ~v~~aa~~~~~~A~~~IDm~~H~G~HPR~GavDvipf~Pl~--~~t~~ec~~lA~~~a~~ig~~l~ 130 (241)
.++++|+ ..++.++...|...-.+-=--|. ==++||. ..+-+++-.+|+.+|+.+..+.+
T Consensus 110 ~v~~~A~-~vr~~L~~lgL~~f~KTSG~kGl---HV~vPl~~~~~~~~~~r~fa~~iA~~l~~~~P 171 (223)
T cd04866 110 LAVEAAN-LLKEILDALGLTSFVKTSGNKGL---QVYIPLPDNKFTYDETRLFTEFIAEYLCQQFP 171 (223)
T ss_pred HHHHHHH-HHHHHHHHcCCccceEccCCCeE---EEEEEcCCCCCCHHHHHHHHHHHHHHHHHHCc
Confidence 5666654 56778888888766322212222 2467887 58899999999999999998877
No 46
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=29.97 E-value=2.8e+02 Score=26.68 Aligned_cols=80 Identities=15% Similarity=0.189 Sum_probs=51.9
Q ss_pred CeE-EeccCC--Ceee--eeeeccCCCHHHHHHHHHHhhccCCCcccceEEeeEecCCeEEEEeecCCCCCCchHHHHHH
Q 039996 131 GVI-VIGSTR--WVDN--YNIPVFSTNIAAVRRIAKQVSERGGGLASVQAMVLIRGEDITEVECNLLKPSKIGGDKVQVE 205 (241)
Q Consensus 131 Gat-~vGAr~--~lia--yNV~L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~~g~~qVs~NL~d~~~t~~~~V~e~ 205 (241)
++| .+|++- -+-. =||+-.++-..+.++|.. ---=||.+|.+|++.. +...-.-..+++
T Consensus 116 avtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~l----ik~~~Pnak~Igv~Y~------------p~E~ns~~l~ee 179 (322)
T COG2984 116 AVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIEL----IKALLPNAKSIGVLYN------------PGEANSVSLVEE 179 (322)
T ss_pred ccCchhhccCCccccCCCCceeecCCcchHHHHHHH----HHHhCCCCeeEEEEeC------------CCCcccHHHHHH
Confidence 554 566652 1222 477766655556665552 1123789999998862 334445567899
Q ss_pred HHHHHHhcCCeecceeeecCC
Q 039996 206 VDELAAVEGMAVGKGYYTDLS 226 (241)
Q Consensus 206 V~~~A~~~Gv~V~g~y~~g~~ 226 (241)
++++|+..|+.|...+.++..
T Consensus 180 lk~~A~~~Gl~vve~~v~~~n 200 (322)
T COG2984 180 LKKEARKAGLEVVEAAVTSVN 200 (322)
T ss_pred HHHHHHHCCCEEEEEecCccc
Confidence 999999999999998774443
No 47
>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=29.89 E-value=94 Score=29.55 Aligned_cols=46 Identities=24% Similarity=0.144 Sum_probs=24.6
Q ss_pred CCCCCccccc--eeeeeCCCCCH-HHHHHHHHHHHHhhccCCC---CeEEec
Q 039996 91 SHPRLGVVDH--ICFHPLASAPL-DQVAGIAKSVVGDIGSGLQ---GVIVIG 136 (241)
Q Consensus 91 ~HPR~GavDv--ipf~Pl~~~t~-~ec~~lA~~~a~~ig~~l~---Gat~vG 136 (241)
.||+-|++=+ .||+=--++.+ ..-.++||++|+.|-++-+ ++-++|
T Consensus 167 ~~p~~Gat~vGAr~~liayNV~L~t~d~~~a~~IAk~vR~~gGGL~~VqAmg 218 (298)
T TIGR02024 167 FNPKAGATATGARKFLIAFNVNLGTSNLEIAKKIAKAIRFQGGGLRFVKAIG 218 (298)
T ss_pred CCCCCCeEEEecCCceEEEEEeecCCCHHHHHHHHHHhhhcCCCccceEEee
Confidence 4888888744 34421113333 2234567777777766544 444444
No 48
>PLN02424 ketopantoate hydroxymethyltransferase
Probab=29.63 E-value=3.4e+02 Score=26.21 Aligned_cols=78 Identities=15% Similarity=0.099 Sum_probs=46.8
Q ss_pred CCCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccC--CCHHHHHHHHHHh-hccCCCcccceEEeeEecCCe
Q 039996 108 SAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFS--TNIAAVRRIAKQV-SERGGGLASVQAMVLIRGEDI 184 (241)
Q Consensus 108 ~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t--~dl~~Ar~IA~~v-R~~~GGL~~VqAmgl~~~~g~ 184 (241)
.+||||-+.-.+.+.+. +...++--..+-.| .+.+.|-+=|.++ ++.| +=++.+|+|.
T Consensus 77 ~Vtld~mi~H~~aV~Rg------------a~~a~vVaDmPfgSY~~s~e~av~nA~rl~~eaG-------a~aVKlEGg~ 137 (332)
T PLN02424 77 PITLDEMLVHCRAVARG------------ANRPLLVGDLPFGSYESSTDQAVESAVRMLKEGG-------MDAVKLEGGS 137 (332)
T ss_pred CcCHHHHHHHHHHHhcc------------CCCCEEEeCCCCCCCCCCHHHHHHHHHHHHHHhC-------CcEEEECCCc
Confidence 48899999888887763 33344443444432 2455554444433 5421 2334454332
Q ss_pred EEEEeecCCCCCCchHHHHHHHHHHHHhcCCeecce
Q 039996 185 TEVECNLLKPSKIGGDKVQVEVDELAAVEGMAVGKG 220 (241)
Q Consensus 185 ~qVs~NL~d~~~t~~~~V~e~V~~~A~~~Gv~V~g~ 220 (241)
....+.|+.++ +.||+|.|.
T Consensus 138 ---------------~~~~~~I~~l~-~~GIPV~gH 157 (332)
T PLN02424 138 ---------------PSRVTAAKAIV-EAGIAVMGH 157 (332)
T ss_pred ---------------HHHHHHHHHHH-HcCCCEEEe
Confidence 44568899999 999999974
No 49
>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=29.10 E-value=4.4e+02 Score=23.96 Aligned_cols=39 Identities=13% Similarity=0.130 Sum_probs=27.3
Q ss_pred eeeeeCC----CCCHHHHHHHHHHHHHhhccCCCCeEEeccCC
Q 039996 101 ICFHPLA----SAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTR 139 (241)
Q Consensus 101 ipf~Pl~----~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~ 139 (241)
+|++|++ ..+.++|.++-+.|++.+.+.-.++.++|.-.
T Consensus 136 iPVV~vs~~~~~~~~~~~~~lG~ai~~al~~~~~rv~ii~SG~ 178 (272)
T cd07362 136 IPVVSISACWTAASLEESYTWGEVIGKALLESDKRVVFLASGS 178 (272)
T ss_pred CcEEEEeccCCCCCHHHHHHHHHHHHHHHHhhCCCEEEEEeCc
Confidence 6777775 25888888888777777775423677777654
No 50
>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=28.02 E-value=5.1e+02 Score=24.71 Aligned_cols=123 Identities=14% Similarity=0.114 Sum_probs=73.9
Q ss_pred CCCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccCCCHHHHHHHHH--Hhhc-----c-CCCcccceEEeeE
Q 039996 108 SAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFSTNIAAVRRIAK--QVSE-----R-GGGLASVQAMVLI 179 (241)
Q Consensus 108 ~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t~dl~~Ar~IA~--~vR~-----~-~GGL~~VqAmgl~ 179 (241)
+.|.+|-++-...+-+..+....++|..|.-.||.||.-. ++..+.+.. .+.. + .|-.+.++.++=.
T Consensus 128 nlt~~EIv~qv~~~~~~~~~~~~~IvfmGmGEPlln~~~v-----~~~i~~l~~~~~i~~r~itvST~G~~~~i~~L~~~ 202 (345)
T PRK14457 128 SLKAHEIVDQVLTVQEDMQRRVSHVVFMGMGEPLLNIDEV-----LAAIRCLNQDLGIGQRRITVSTVGVPKTIPQLAEL 202 (345)
T ss_pred ccCHHHHHHHHHHHHHHhcCCCCEEEEEecCccccCHHHH-----HHHHHHHhcccCCccCceEEECCCchhhHHHHHhh
Confidence 4677777766555555555566799999999888876211 122222222 1111 1 2333344443311
Q ss_pred e------cCCeEEEEeecCCC----------CCCchHHHHHHHHHHHHhcCCeecceee----ecCCHHHHHHHHH
Q 039996 180 R------GEDITEVECNLLKP----------SKIGGDKVQVEVDELAAVEGMAVGKGYY----TDLSQEEIIERYM 235 (241)
Q Consensus 180 ~------~~g~~qVs~NL~d~----------~~t~~~~V~e~V~~~A~~~Gv~V~g~y~----~g~~pe~ile~~~ 235 (241)
. ..-.+.||.|-.|. ..-|+.++.+.+++...+.|-+|.=.|. .|-+++++-+.+.
T Consensus 203 ~~~~~~~~~~~laiSLha~~~e~r~~i~p~~~~~~l~~l~~~~~~y~~~~gr~I~iey~LIpGvNDs~e~a~~La~ 278 (345)
T PRK14457 203 AFQRLGRLQFTLAVSLHAPNQKLRETLIPSAKNYPIENLLEDCRHYVAITGRRVSFEYILLGGVNDLPEHAEELAN 278 (345)
T ss_pred hhhhcccCceEEEEEeCCCCHHHHHHhcCCccCCCHHHHHHHHHHHHHHhCCEEEEEEEEECCcCCCHHHHHHHHH
Confidence 0 01236789988883 3556888999999988888988777765 5666777665554
No 51
>cd07951 ED_3B_N_AMMECR1 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain. This subfamily is composed of uncharacterized proteins containing an N-terminal domain with similarity to the catalytic B subunit of class III extradiol dioxygenases and a C-terminal AMMECR1-like domain. This model represents the N-terminal domain. Class III extradiol dioxygenases use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon, however, proteins in this subfamily do not contain a potential metal binding site and may not exhibit class III extradiol dioxygenase-like activity. The AMMECR1 protein was proposed to be a regulatory factor that is potentially involved in the development of AMME contiguous gene deletion syndrome.
Probab=27.96 E-value=2.7e+02 Score=24.59 Aligned_cols=47 Identities=9% Similarity=0.009 Sum_probs=32.2
Q ss_pred CCCccc-cceeeeeC--CCCCHHHHHHHHHHHHHhhccCCCCeEEeccCC
Q 039996 93 PRLGVV-DHICFHPL--ASAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTR 139 (241)
Q Consensus 93 PR~Gav-Dvipf~Pl--~~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~ 139 (241)
|-|.-. +-+|++|+ +..+.++|.++.+.|++.+.+.=..+.++|...
T Consensus 120 ~~l~~~~~~~pvVpi~~~~~~~~~~~~lG~aL~~~~~~~~~~vlii~Sgd 169 (256)
T cd07951 120 YFLRKAGSDGKLVRIGLSGLSPEELYAFGRALAAAAEELGRRVALIASGD 169 (256)
T ss_pred HhhcccCCcCCeEEEecCCCCHHHHHHHHHHHHHHHHhcCCcEEEEEecc
Confidence 444433 56888988 567889999999999887753223556666543
No 52
>PRK14633 hypothetical protein; Provisional
Probab=27.84 E-value=57 Score=27.50 Aligned_cols=43 Identities=9% Similarity=0.155 Sum_probs=28.2
Q ss_pred HHHcCCCCCCccCCCCCccc-cceeeeeCCCCCHHHHHHHHHHHHHhhc
Q 039996 79 AFENIEPGMHSGSHPRLGVV-DHICFHPLASAPLDQVAGIAKSVVGDIG 126 (241)
Q Consensus 79 A~~~IDm~~H~G~HPR~Gav-Dvipf~Pl~~~t~~ec~~lA~~~a~~ig 126 (241)
-+++.|++.....++.+=+. | .| +|+|+++|..++|.++..+=
T Consensus 18 G~eL~dve~~~~~~~~lrV~ID----~~-~Gv~lddC~~vSr~i~~~LD 61 (150)
T PRK14633 18 GYILWGIEVVGSGKLTIRIFID----HE-NGVSVDDCQIVSKEISAVFD 61 (150)
T ss_pred CCEEEEEEEEeCCCcEEEEEEe----CC-CCCCHHHHHHHHHHHHHHhc
Confidence 45577777654322222221 2 12 57999999999999999885
No 53
>smart00771 ZipA_C ZipA, C-terminal domain (FtsZ-binding). C-terminal domain of ZipA, a component of cell division in E.coli. It interacts with the FtsZ protein in one of the initial steps of septum formation. The structure of this domain is composed of three alpha-helices and a beta-sheet consisting of six antiparallel beta-strands.
Probab=26.34 E-value=3.6e+02 Score=22.07 Aligned_cols=93 Identities=15% Similarity=0.069 Sum_probs=56.0
Q ss_pred eeeeeeeccCCCHHHHHHHHHHhhccCCCcccceEEeeEe--c----CCeEEEEe-ecCCCC------------------
Q 039996 141 VDNYNIPVFSTNIAAVRRIAKQVSERGGGLASVQAMVLIR--G----EDITEVEC-NLLKPS------------------ 195 (241)
Q Consensus 141 liayNV~L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~--~----~g~~qVs~-NL~d~~------------------ 195 (241)
++..||--....--.+.+|-..+... ||++ -.|+.+| + .|.+..|+ |+++|.
T Consensus 4 ~i~l~v~a~~~~~f~G~~l~~~~~~~--G~~~-G~~~ifhr~~~~~g~g~vlFSlan~~~pg~F~~~~~~~~~t~Gltlf 80 (131)
T smart00771 4 VIGLNVVAKEGQPFSGAELLQALEQL--GFVF-GEDGIFHRHDDLAGSGPVLFSLANMVKPGTFDLDNMDNFSTPGVSFF 80 (131)
T ss_pred EEEEEEEeCCCCcccHHHHHHHHHHc--CCEe-cCCCceEeccccCCCCCeEEEEecccCCCCCCchhhhhCccCeEEEE
Confidence 45555554433334455566665553 3443 4566654 2 35688998 988863
Q ss_pred ---------CCchHHHHHHHHHHHHhcCCeecceeeecCCHHHHHHHHHH
Q 039996 196 ---------KIGGDKVQVEVDELAAVEGMAVGKGYYTDLSQEEIIERYMK 236 (241)
Q Consensus 196 ---------~t~~~~V~e~V~~~A~~~Gv~V~g~y~~g~~pe~ile~~~~ 236 (241)
..+-.+-.+..+++|.+.|-.|....-.-||++.+-+.+.+
T Consensus 81 l~lP~~~~~~~~F~~M~~~A~~lA~~L~g~llDd~r~~lt~~~~~~~r~~ 130 (131)
T smart00771 81 LDLPSVGDALQNFDLMLQTARRLADDLGGVVLDDQRRPLTPQAIAEYRAR 130 (131)
T ss_pred EECCCCCcHHHHHHHHHHHHHHHHHHcCCEEECCCCCcCCHHHHHHHHhh
Confidence 12233444566778888888888777777888776655443
No 54
>PRK14454 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=26.31 E-value=2.6e+02 Score=26.58 Aligned_cols=120 Identities=13% Similarity=0.116 Sum_probs=72.1
Q ss_pred CCCCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccCCCHHHHHHHHHHhhc--------------cCCCccc
Q 039996 107 ASAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFSTNIAAVRRIAKQVSE--------------RGGGLAS 172 (241)
Q Consensus 107 ~~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t~dl~~Ar~IA~~vR~--------------~~GGL~~ 172 (241)
++.|.+|-++-....-...++..+|++..|--.||.||...+ +..+.+++ .+|=.|.
T Consensus 127 rnlt~~EI~~qv~~~~~~~~~~~~gvV~mggGEPLln~d~v~---------~~l~~l~~~~gi~~~~r~itvsTsG~~p~ 197 (342)
T PRK14454 127 RNLTAGEMLDQILAAQNDIGERISNIVLMGSGEPLDNYENVM---------KFLKIVNSPYGLNIGQRHITLSTCGIVPK 197 (342)
T ss_pred ccCCHHHHHHHHHHHHHHhcCCCCCEEEECCchhhcCHHHHH---------HHHHHHhcccccCcCCCceEEECcCChhH
Confidence 478999988776666555555667888899998888774222 22222222 1243444
Q ss_pred ceEEeeEecCCeEEEEeecCCCC----------CCchHHHHHHHHHHHHhcCCeecceee----ecCCHHHHHHHHH
Q 039996 173 VQAMVLIRGEDITEVECNLLKPS----------KIGGDKVQVEVDELAAVEGMAVGKGYY----TDLSQEEIIERYM 235 (241)
Q Consensus 173 VqAmgl~~~~g~~qVs~NL~d~~----------~t~~~~V~e~V~~~A~~~Gv~V~g~y~----~g~~pe~ile~~~ 235 (241)
++.++=..-.-...+|.+-.|.+ ..|+..+.+.+++...+.|-+|.=.|. .|-+++++-+.+.
T Consensus 198 i~~l~~~~~~~~laisLka~d~e~r~~l~pv~~~~~L~~l~~~~~~~~~~~~~rv~iey~LI~gvNDs~eda~~La~ 274 (342)
T PRK14454 198 IYELADENLQITLAISLHAPNDELRKKMMPIANKYSIEELIEACKYYINKTNRRITFEYALVKGVNDSKEDAKELGK 274 (342)
T ss_pred HHHHHhhcccceEEEecCCCCHHHHHHhcCCcccCCHHHHHHHHHHHHHHhCCEEEEEEEeECCCCCCHHHHHHHHH
Confidence 33322111011256777777733 556777888888878888888776665 4455776655444
No 55
>cd04861 LigD_Pol_like LigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. PaeLigD is monomeric, containing an N-terminal phosphoesterase module, a central polymerase (Pol) domain, and a C-terminal ATP-dependent ligase domain. Mycobacterium tuberculosis (Mt)LigD, also found in this group, is monomeric and contains the same modules but these are arranged differently: an N-terminal Pol domain, a central phosphoesterase module, and a C-terminal ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase do
Probab=25.43 E-value=94 Score=28.37 Aligned_cols=60 Identities=15% Similarity=0.311 Sum_probs=40.6
Q ss_pred cHHHHHHHHHHHHHHcCCCCCCccCCCCCccccceeeeeCC-CCCHHHHHHHHHHHHHhhccCCC
Q 039996 67 PLKSTVFAMIKAAFENIEPGMHSGSHPRLGVVDHICFHPLA-SAPLDQVAGIAKSVVGDIGSGLQ 130 (241)
Q Consensus 67 ~v~~aa~~~~~~A~~~IDm~~H~G~HPR~GavDvipf~Pl~-~~t~~ec~~lA~~~a~~ig~~l~ 130 (241)
.++++|+ .+++-++...|..--.+-=--|.= =++||. ..|-+++-.+|+.+|+.+.++.+
T Consensus 115 ~v~~~A~-~vr~~L~~lgL~~f~KTSG~kGlH---V~vPl~~~~~~~~~r~fa~~iA~~l~~~~P 175 (227)
T cd04861 115 DVVEAAL-LLRELLDELGLESFPKTSGGKGLH---VYVPLAPRYTWDEVRAFAKALARELARRLP 175 (227)
T ss_pred HHHHHHH-HHHHHHHHcCCccceEccCCCeEE---EEEEcCCCCCHHHHHHHHHHHHHHHHHHCc
Confidence 5666665 457777777776543222122222 356666 68999999999999999998877
No 56
>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=25.27 E-value=2.2e+02 Score=26.18 Aligned_cols=70 Identities=17% Similarity=0.113 Sum_probs=45.7
Q ss_pred CCHHHHHHHHHHhhccCCCcccceEEeeEec-----------CC-----eEEEEeecCCCCCCchHHHH---HHHHHHHH
Q 039996 151 TNIAAVRRIAKQVSERGGGLASVQAMVLIRG-----------ED-----ITEVECNLLKPSKIGGDKVQ---VEVDELAA 211 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~-----------~g-----~~qVs~NL~d~~~t~~~~V~---e~V~~~A~ 211 (241)
.|-++|++|++.+.+.|=.....+.++|.|+ .+ .+-|++|.+.....++.+-+ +.+.+.++
T Consensus 96 g~~~LA~~i~~~~~~~g~~~~~~~~~~lDHG~~vPL~~l~p~~~~~~~~vVpi~~~~~~~~l~~~~~~~~lG~al~~~i~ 175 (277)
T cd07950 96 GHAALAQHIAESLVADEFDLTFFQDKPLDHGCFSPLSLLLPHEDGWPVKVVPLQVGVLQFPLPTARRCYKLGQALRRAIE 175 (277)
T ss_pred CCHHHHHHHHHHHHhcCCCeeeccCCCCCceeeeeHHHhCcccccCCCceEEEEEEeEecCCCCHHHHHHHHHHHHHHHH
Confidence 5789999999999887644555566666664 11 45577888766655666444 45555555
Q ss_pred hc----CCeecce
Q 039996 212 VE----GMAVGKG 220 (241)
Q Consensus 212 ~~----Gv~V~g~ 220 (241)
++ +|-+.+|
T Consensus 176 ~~~~d~rv~iIaS 188 (277)
T cd07950 176 SYPEDLKVAVVGT 188 (277)
T ss_pred hcCcCCCEEEEEc
Confidence 43 6777765
No 57
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.26 E-value=1e+02 Score=21.40 Aligned_cols=26 Identities=15% Similarity=0.273 Sum_probs=24.0
Q ss_pred cCCCHHHHHHHHHHHhhCCCcEEEec
Q 039996 15 ESQNKAALESIEQAARLFSAAIIVNK 40 (241)
Q Consensus 15 EGR~~~~ie~I~~a~~~~~gv~lld~ 40 (241)
|-+|.+-++.|.+.+++.|||.+.++
T Consensus 47 ev~~~~~l~~i~~~L~~i~gV~~~~~ 72 (74)
T cd04887 47 DAPSEEHAETIVAAVRALPEVKVLSV 72 (74)
T ss_pred EcCCHHHHHHHHHHHhcCCCeEEEEe
Confidence 67899999999999999999998876
No 58
>PRK13372 pcmA protocatechuate 4,5-dioxygenase; Provisional
Probab=25.15 E-value=2e+02 Score=28.83 Aligned_cols=75 Identities=13% Similarity=0.105 Sum_probs=52.9
Q ss_pred eeccCCCHHHHHHHHHHhhccCCCcccceEEeeEec----------C------CeEEEEeecCCCCCCchHHHHHHHHHH
Q 039996 146 IPVFSTNIAAVRRIAKQVSERGGGLASVQAMVLIRG----------E------DITEVECNLLKPSKIGGDKVQVEVDEL 209 (241)
Q Consensus 146 V~L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~----------~------g~~qVs~NL~d~~~t~~~~V~e~V~~~ 209 (241)
++--..+-++|++|++.+.+.|==+...+.|+|.|+ + -.+|||+|..-+-.-++.+.++.=+.+
T Consensus 238 v~~~pG~peLA~~I~~~L~~~GfD~a~~~erglDHG~~vPL~lm~P~ad~~~IPVVPvsvN~~~~Plps~~R~~~LG~AL 317 (444)
T PRK13372 238 VPDVIGHPELAAHIAQSVIQDDFDLTIVNEMDVDHGLTVPLSLMCGDPEAWPCPVIPFAVNVVQYPVPSGRRCYELGQAI 317 (444)
T ss_pred CCCCCCCHHHHHHHHHHHHhcCCChhhccCCCCCchhhhhHHHhCCcccCCCCCeEEEEecCCCCCCCCHHHHHHHHHHH
Confidence 444556889999999999976533445567777765 1 358999999877677788877654443
Q ss_pred H--Hh------cCCeecce
Q 039996 210 A--AV------EGMAVGKG 220 (241)
Q Consensus 210 A--~~------~Gv~V~g~ 220 (241)
+ .+ .||-|.||
T Consensus 318 ~~lres~~~D~erVlIIGS 336 (444)
T PRK13372 318 RRAIDKWDADPLNVQIWGT 336 (444)
T ss_pred HHHHhhcccccCCEEEEec
Confidence 3 23 67888886
No 59
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=25.13 E-value=1.1e+02 Score=27.53 Aligned_cols=47 Identities=13% Similarity=0.127 Sum_probs=32.3
Q ss_pred cccceeeeeCCCCCH--HHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccCCCHH
Q 039996 97 VVDHICFHPLASAPL--DQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFSTNIA 154 (241)
Q Consensus 97 avDvipf~Pl~~~t~--~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t~dl~ 154 (241)
....+||+|.+|++. +. +.+.+.. |+.++|...||+.-.. +...|.+
T Consensus 155 p~p~i~~~ptGGV~~~~~n-------~~~yl~a---Ga~avg~Gs~L~~~~~-~~~~~~~ 203 (222)
T PRK07114 155 PMPWTKIMPTGGVEPTEEN-------LKKWFGA---GVTCVGMGSKLIPKEA-LAAKDYA 203 (222)
T ss_pred cCCCCeEEeCCCCCcchhc-------HHHHHhC---CCEEEEEChhhcCccc-cccccHH
Confidence 446789999999987 32 3444442 9999999999986443 4444543
No 60
>PF00682 HMGL-like: HMGL-like of this family is not conserved in other members. are a sub-families of this Pfam.; InterPro: IPR000891 Pyruvate carboxylase (6.4.1.1 from EC) (PC), a member of the biotin-dependent enzyme family, is involved in the gluconeogenesis by mediating the carboxylation of pyruvate to oxaloacetate. Biotin-dependent carboxylase enzymes perform a two step reaction. Enzyme-bound biotin is first carboxylated by bicarbonate and ATP and the carboxyl group temporarily bound to biotin is subsequently transferred to an acceptor substrate such as pyruvate []. PC has three functional domains: a biotin carboxylase (BC) domain, a carboxyltransferase (CT) domain which perform the second part of the reaction and a biotinyl domain [, ]. The mechanism by which the carboxyl group is transferred from the carboxybiotin to the pyruvate is not well understood. The pyruvate carboxyltransferase domain is also found in other pyruvate binding enzymes and acetyl-CoA dependent enzymes suggesting that this domain can be associated with different enzymatic activities. This domain is found towards the N-terminal region of various aldolase enzymes. This N-terminal TIM barrel domain [] interacts with the C-terminal domain. The C-terminal DmpG_comm domain (IPR012425 from INTERPRO) is thought to promote heterodimerisation with members of IPR003361 from INTERPRO to form a bifunctional aldolase-dehydrogenase []. ; GO: 0003824 catalytic activity; PDB: 3MP5_E 3MP3_E 2CW6_E 3MP4_D 3HBL_A 3HB9_C 3HO8_A 3BG5_C 1YDN_B 3RMJ_A ....
Probab=24.77 E-value=4.4e+02 Score=22.66 Aligned_cols=63 Identities=19% Similarity=0.225 Sum_probs=41.5
Q ss_pred HHHHHHHHHHhhccCCCcccceEEeeEecCCeEEEEeecCCCCCCchHHHHHHHHHHHHhcCCeecceee----ecCCHH
Q 039996 153 IAAVRRIAKQVSERGGGLASVQAMVLIRGEDITEVECNLLKPSKIGGDKVQVEVDELAAVEGMAVGKGYY----TDLSQE 228 (241)
Q Consensus 153 l~~Ar~IA~~vR~~~GGL~~VqAmgl~~~~g~~qVs~NL~d~~~t~~~~V~e~V~~~A~~~Gv~V~g~y~----~g~~pe 228 (241)
++.+++..+..|+.|. +|+.|+.|...+++..+.+.++++. ++|+... ++ --++|+
T Consensus 107 ~~~~~~~v~~ak~~g~-----------------~v~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~i--~l~Dt~G~~~P~ 166 (237)
T PF00682_consen 107 LERIEEAVKYAKELGY-----------------EVAFGCEDASRTDPEELLELAEALA-EAGADII--YLADTVGIMTPE 166 (237)
T ss_dssp HHHHHHHHHHHHHTTS-----------------EEEEEETTTGGSSHHHHHHHHHHHH-HHT-SEE--EEEETTS-S-HH
T ss_pred HHHHHHHHHHHHhcCC-----------------ceEeCccccccccHHHHHHHHHHHH-HcCCeEE--EeeCccCCcCHH
Confidence 6667777777766432 4488899999999999998887764 4476443 33 236788
Q ss_pred HHHHHHH
Q 039996 229 EIIERYM 235 (241)
Q Consensus 229 ~ile~~~ 235 (241)
++-+...
T Consensus 167 ~v~~lv~ 173 (237)
T PF00682_consen 167 DVAELVR 173 (237)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 7766544
No 61
>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=24.75 E-value=1.4e+02 Score=21.87 Aligned_cols=36 Identities=19% Similarity=0.185 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHhcCCeecceeeecCCHHHHHHHHH
Q 039996 200 DKVQVEVDELAAVEGMAVGKGYYTDLSQEEIIERYM 235 (241)
Q Consensus 200 ~~V~e~V~~~A~~~Gv~V~g~y~~g~~pe~ile~~~ 235 (241)
..+.+.+......+|+.+.+-.++++++.+-+..++
T Consensus 82 ~~v~~~l~~~~~~~Gi~i~~v~i~~i~~~~~~~~ai 117 (121)
T cd02106 82 AEVREALQEDLDKYGIEVVDVRIKDIDPPEEVQEAM 117 (121)
T ss_pred HHHHHHHHHHHHhcCCEEEEEEEEecCCCHHHHHHH
Confidence 456667777789999999999898877554444433
No 62
>cd04863 MtLigD_Pol_like MtLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Mycobacterium tuberculosis (Mt)LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. MtLigD is monomeric and contains an N-terminal Pol domain, a central phosphoesterase module, and a C-terminal ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The MtLigD Pol domain is stimulated by manganese, is error-prone, and prefers adding rNTPs to dNTPs in vitro. The MtLigD Pol domain has been shown to prefer DNA gapped substrates
Probab=24.73 E-value=2.4e+02 Score=25.83 Aligned_cols=60 Identities=12% Similarity=0.180 Sum_probs=44.5
Q ss_pred cHHHHHHHHHHHHHHcCCCCCCccCCCCCccccceeeeeCC-CCCHHHHHHHHHHHHHhhccCCC
Q 039996 67 PLKSTVFAMIKAAFENIEPGMHSGSHPRLGVVDHICFHPLA-SAPLDQVAGIAKSVVGDIGSGLQ 130 (241)
Q Consensus 67 ~v~~aa~~~~~~A~~~IDm~~H~G~HPR~GavDvipf~Pl~-~~t~~ec~~lA~~~a~~ig~~l~ 130 (241)
.+.++|+. +++.++...|...-.+-=--|.= =++||. ..|-+|+-.+|+.+|+.+.++.+
T Consensus 119 ~v~~~A~~-~r~~L~~lgL~s~~KTSG~kGlH---V~vPl~~~~~~~~vr~fa~~~A~~l~~~~P 179 (231)
T cd04863 119 ECARVALW-LRDRLAALGLASFPKTSGSKGLH---LYVPLDGPVSSDQTKEFAKALARELEREHP 179 (231)
T ss_pred HHHHHHHH-HHHHHHHcCCccceECCCCCeEE---EEEEcCCCCCHHHHHHHHHHHHHHHHHHCc
Confidence 67777765 78888888888774333333333 355665 68899999999999999998877
No 63
>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=24.69 E-value=1e+02 Score=24.06 Aligned_cols=37 Identities=11% Similarity=0.154 Sum_probs=27.8
Q ss_pred hHHHHHHHHHHHHhcCCeecceeeecCCHHHHHHHHH
Q 039996 199 GDKVQVEVDELAAVEGMAVGKGYYTDLSQEEIIERYM 235 (241)
Q Consensus 199 ~~~V~e~V~~~A~~~Gv~V~g~y~~g~~pe~ile~~~ 235 (241)
..++++.++...+.+|+.|..-.+.++.+-+-++.++
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 4567788888888899999999888888544444444
No 64
>PRK12706 flgI flagellar basal body P-ring protein; Provisional
Probab=24.29 E-value=1.6e+02 Score=28.40 Aligned_cols=43 Identities=23% Similarity=0.349 Sum_probs=35.1
Q ss_pred eeeeeeeccCCCHHHHHHHHHHhhccCCCcccceEEeeEecCCeEEEEee
Q 039996 141 VDNYNIPVFSTNIAAVRRIAKQVSERGGGLASVQAMVLIRGEDITEVECN 190 (241)
Q Consensus 141 liayNV~L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~~g~~qVs~N 190 (241)
.-.++++|...|...|.||+++|-..-|+ +...+.+.++|..-
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 45799999999999999999999988776 44445577888773
No 65
>PF13091 PLDc_2: PLD-like domain; PDB: 2ZE4_A 2ZE9_A 1BYS_A 1BYR_A 1V0T_A 1V0U_A 1V0V_A 1V0S_A 1V0R_A 1V0W_A ....
Probab=24.05 E-value=1.1e+02 Score=23.16 Aligned_cols=75 Identities=11% Similarity=0.157 Sum_probs=41.4
Q ss_pred ccceeeEecccccCCCHHHHHHHHHHHhhCCCcEEEecCCCCCCCcceEEEeecCCCCCCCCcccHHHHHHHHHHHHHHc
Q 039996 3 KLMLTCCKVYISESQNKAALESIEQAARLFSAAIIVNKFEDVTYNRVGYTVVSKLAPTLSSDSCPLKSTVFAMIKAAFEN 82 (241)
Q Consensus 3 ~~~lveCvpN~SEGR~~~~ie~I~~a~~~~~gv~lld~~~D~dyNRsv~T~vg~~~~~~~~~~~~v~~aa~~~~~~A~~~ 82 (241)
+..+.-|.|+| .+.++++++.++.+....++|+=-.... .++ .....-.....+.+..
T Consensus 9 ~~~i~i~~~~~---~~~~i~~~l~~~~~~gv~v~ii~~~~~~-----------~~~--------~~~~~~~~~~~~~~~~ 66 (126)
T PF13091_consen 9 QKSIWIASPYI---TDPDIIKALLDAAKRGVKVRIIVDSNQD-----------DSE--------AINLASLKELRELLKN 66 (126)
T ss_dssp SSEEEEEESSS----SCHHHHHHHHHHHTT-EEEEEEECGGG-----------HHC--------CCSHHHHHHHHHHHHH
T ss_pred CCEEEEEEEec---CcHHHHHHHHHHHHCCCeEEEEECCCcc-----------ccc--------hhhhHHHHHHHhhhcc
Confidence 56789999999 7788899999877765555554322111 222 2233444444444343
Q ss_pred CCCCCCccCCCCCcccc
Q 039996 83 IEPGMHSGSHPRLGVVD 99 (241)
Q Consensus 83 IDm~~H~G~HPR~GavD 99 (241)
-..+-+...|+-+-.+|
T Consensus 67 ~~i~v~~~~H~K~~i~d 83 (126)
T PF13091_consen 67 AGIEVRNRLHAKFYIID 83 (126)
T ss_dssp TTHCEES-B--EEEEET
T ss_pred ceEEEecCCCcceEEec
Confidence 33332257788888887
No 66
>PRK14366 Maf-like protein; Provisional
Probab=23.96 E-value=5e+02 Score=22.83 Aligned_cols=125 Identities=12% Similarity=0.069 Sum_probs=76.6
Q ss_pred HHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccC--CCHHHHHHHHHHhhccCCCcccceEEeeEecCCeEE--
Q 039996 111 LDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFS--TNIAAVRRIAKQVSERGGGLASVQAMVLIRGEDITE-- 186 (241)
Q Consensus 111 ~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t--~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~~g~~q-- 186 (241)
.+-+..+|+.=|+.++..+++..++||-- ++.++=.+.. .|.+-|++.=+.++++. -.-+-++.+....+...
T Consensus 46 ~~~v~~lA~~KA~~v~~~~~~~~vI~ADT-vV~~~g~ilgKP~~~eeA~~mL~~lsG~~--h~V~Tgv~l~~~~~~~~~~ 122 (195)
T PRK14366 46 KDYSIRMAKEKAEKVQSLRPDKFVLGADT-VVCCGRRILLKAETEEQAEEYLELLSGRR--HRVYTSVCLYTPGGKLHIR 122 (195)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCEEEEeCe-EEEECCEEecCCCCHHHHHHHHHHhCCCC--cEEEEEEEEEECCCeEEEE
Confidence 34477777777777777677899999988 5566644433 68999999888886544 23455666654333322
Q ss_pred EEeecCCCCCCchHHHHHHHHH-----HHHhcCC---------eecceee--ecCCHHHHHHHHHHHh
Q 039996 187 VECNLLKPSKIGGDKVQVEVDE-----LAAVEGM---------AVGKGYY--TDLSQEEIIERYMKLN 238 (241)
Q Consensus 187 Vs~NL~d~~~t~~~~V~e~V~~-----~A~~~Gv---------~V~g~y~--~g~~pe~ile~~~~~~ 238 (241)
+..--+-+..-+...+..-|+. -|..||+ .+.|+|+ .||...++.+.-.+.+
T Consensus 123 ~~~T~V~F~~ls~~~I~~Yv~~~ep~dkAGay~Iqg~g~~li~~I~Gdy~nVvGLPl~~~~~~L~~~~ 190 (195)
T PRK14366 123 SVVTVVKFKRLSKQEIKYYIASGEWKGKAGGCNIQGLAGKFVLSINGSYSSIIGLPLHETYCLLSGYF 190 (195)
T ss_pred EEEEEEEECCCCHHHHHHHHhcCCccceeeeEeecCChhhcEeeeECCCCcccCcCHHHHHHHHHHHh
Confidence 2222334667777777777654 2333333 3344444 7887776665544443
No 67
>COG1514 LigT 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]
Probab=23.75 E-value=2.4e+02 Score=24.42 Aligned_cols=80 Identities=11% Similarity=0.059 Sum_probs=54.1
Q ss_pred EecccccCCCHHHHHHHHHHHhhCC---CcEEEecCCCCCCCcceEEEeecCCCCCCCCcccHHHHHHHHHHHHHHcCCC
Q 039996 9 CKVYISESQNKAALESIEQAARLFS---AAIIVNKFEDVTYNRVGYTVVSKLAPTLSSDSCPLKSTVFAMIKAAFENIEP 85 (241)
Q Consensus 9 CvpN~SEGR~~~~ie~I~~a~~~~~---gv~lld~~~D~dyNRsv~T~vg~~~~~~~~~~~~v~~aa~~~~~~A~~~IDm 85 (241)
+.--++|++.+++++++.+..+..+ ...=++.|+++.++|.++.=+.+ . .-..+..+.++.++...-+
T Consensus 44 flGev~e~~~~~l~~~l~~i~~~~~f~i~l~g~g~F~~~~~~rvi~~~v~~-~--------~~L~~L~~~l~~~~~~~g~ 114 (180)
T COG1514 44 FLGEVDEDKADELIEALARIAAPEPFPITLDGAGSFPNPRRPRVIWVGVEE-T--------EELRALAEELERALARLGL 114 (180)
T ss_pred ccCCcCchHHHHHHHHHHHhhcCCceEEEEeeEcccCCCCCCcEEEEcCCC-c--------HHHHHHHHHHHHHHHhcCC
Confidence 4456789999999888887776531 23337889999999887765555 3 3566777778878877766
Q ss_pred C-CCccCCCCCcc
Q 039996 86 G-MHSGSHPRLGV 97 (241)
Q Consensus 86 ~-~H~G~HPR~Ga 97 (241)
. .+.--||.+-.
T Consensus 115 ~~~~r~F~PHvTl 127 (180)
T COG1514 115 RPEERPFVPHVTL 127 (180)
T ss_pred CCCCCCcCCCEEE
Confidence 6 44444554443
No 68
>cd07055 BMC_like_2 Bacterial Micro-Compartment (BMC)-like domain 2. BMC like 2 domains exist in cyanobacteria, proteobacteria, and actinobacteria and are homologs of carboxysome shell proteins. They might be encoded from putative organelles involved in unknown metabolic process. Although it has been suggested that these carboxysome shell protein homologs form hexamers and further assemble into the flat facets of the polyhedral bacterial organelles shell at present no experimental evidence exists to directly support this view.
Probab=23.47 E-value=2.1e+02 Score=21.16 Aligned_cols=48 Identities=13% Similarity=0.205 Sum_probs=34.7
Q ss_pred HHHHHHHH--HhhCCCcEEEecCCCCCCCcceEEEeecCCCCCCCCcccHHHHHHHHHH
Q 039996 21 ALESIEQA--ARLFSAAIIVNKFEDVTYNRVGYTVVSKLAPTLSSDSCPLKSTVFAMIK 77 (241)
Q Consensus 21 ~ie~I~~a--~~~~~gv~lld~~~D~dyNRsv~T~vg~~~~~~~~~~~~v~~aa~~~~~ 77 (241)
++|.|..+ +.+..+|.++|.|..=+-|=..+-+.|+.. .| |++++.++
T Consensus 9 v~~~iiAaDiA~Kaa~V~i~d~f~gCPq~~~~l~i~Gdvs--------~V-e~Al~~i~ 58 (61)
T cd07055 9 VIDMIYAADIAEKASGVFVSDIFGSCPQHMITLAIFGETS--------AV-ELAMREIE 58 (61)
T ss_pred hhhHHHHHHHhhhccCeEEEEecCCCCCceEEEEEEecHH--------HH-HHHHHHHh
Confidence 45555433 445579999999999888888888899997 44 66666554
No 69
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=23.47 E-value=1.4e+02 Score=21.65 Aligned_cols=60 Identities=20% Similarity=0.213 Sum_probs=40.5
Q ss_pred HHHHHHHHHHhhccCCCcccceEEeeEec-CCeEEEEeecCCCCCCchHHHHHHHHHHHHhcCCee
Q 039996 153 IAAVRRIAKQVSERGGGLASVQAMVLIRG-EDITEVECNLLKPSKIGGDKVQVEVDELAAVEGMAV 217 (241)
Q Consensus 153 l~~Ar~IA~~vR~~~GGL~~VqAmgl~~~-~g~~qVs~NL~d~~~t~~~~V~e~V~~~A~~~Gv~V 217 (241)
--+..+|++.+.+.|+-+-.++---+... -....|+.+ .....++....+++++++|+.|
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 35678899999998877665554433211 233455554 4478899999999999999876
No 70
>PRK14635 hypothetical protein; Provisional
Probab=23.22 E-value=77 Score=27.01 Aligned_cols=64 Identities=16% Similarity=0.240 Sum_probs=38.8
Q ss_pred HHHHcCCCCCCc-cCCCCCccc-cceeeeeCCCCCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccCCC
Q 039996 78 AAFENIEPGMHS-GSHPRLGVV-DHICFHPLASAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFSTN 152 (241)
Q Consensus 78 ~A~~~IDm~~H~-G~HPR~Gav-Dvipf~Pl~~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t~d 152 (241)
.-+++.|++.+. |.++.+=+. |--- .+=+++|+++|.++++.++..+=.. -+ .-+|+..+.+.-
T Consensus 18 ~g~el~dve~~~~~~~~~lrV~ID~~~-~~~~gv~lddC~~vSr~is~~LD~~---------d~-~~~Y~LEVSSPG 83 (162)
T PRK14635 18 LPVKLYSLKVNQRPNHSLIEVVLDNLE-HPYGSVSLLECEQVSRKLKEELERI---------SP-DLDFTLKVSSAG 83 (162)
T ss_pred CCCEEEEEEEEecCCCcEEEEEEecCC-CCCCCcCHHHHHHHHHHHHHHhCCC---------CC-CCCeEEEEcCCC
Confidence 355666776543 344433322 2100 0126799999999999999887531 11 248988888864
No 71
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=23.05 E-value=2.3e+02 Score=20.60 Aligned_cols=89 Identities=8% Similarity=0.101 Sum_probs=58.9
Q ss_pred eeeeeCCCCCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccCCCHHHHHHHHHHhhccCCCcccceEEeeEe
Q 039996 101 ICFHPLASAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFSTNIAAVRRIAKQVSERGGGLASVQAMVLIR 180 (241)
Q Consensus 101 ipf~Pl~~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~ 180 (241)
|-++|++.- .++..+.|..+++.+... | |.+.++..+..++++|-.+-+. |.|++=-+|=..
T Consensus 2 v~Ii~~~~~-~~~~~~~a~~l~~~L~~~--g------------i~v~~d~~~~~~~k~~~~a~~~---g~p~~iiiG~~e 63 (94)
T PF03129_consen 2 VVIIPVGKK-DEEIIEYAQELANKLRKA--G------------IRVELDDSDKSLGKQIKYADKL---GIPFIIIIGEKE 63 (94)
T ss_dssp EEEEESSCS-HHHHHHHHHHHHHHHHHT--T------------SEEEEESSSSTHHHHHHHHHHT---TESEEEEEEHHH
T ss_pred EEEEEeCCC-cHHHHHHHHHHHHHHHHC--C------------CEEEEECCCCchhHHHHHHhhc---CCeEEEEECchh
Confidence 557888754 677888999999999874 3 7788887888888888877765 666665555332
Q ss_pred -cCCeEEEEeecCCCC--CCchHHHHHHHHH
Q 039996 181 -GEDITEVECNLLKPS--KIGGDKVQVEVDE 208 (241)
Q Consensus 181 -~~g~~qVs~NL~d~~--~t~~~~V~e~V~~ 208 (241)
+.|.++|-. +.+-. ..|+.++.+.+++
T Consensus 64 ~~~~~v~vk~-~~~~~~~~v~~~el~~~l~~ 93 (94)
T PF03129_consen 64 LENGTVTVKD-RDTGEQETVSLEELIEYLKE 93 (94)
T ss_dssp HHTTEEEEEE-TTTTEEEEEECCHHHHHHHH
T ss_pred HhCCEEEEEE-CCCCcEEEEEHHHHHHHHhh
Confidence 356666654 33322 3455555555443
No 72
>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=22.92 E-value=2.4e+02 Score=25.06 Aligned_cols=70 Identities=17% Similarity=0.144 Sum_probs=42.7
Q ss_pred CCHHHHHHHHHHhhccCCCcccceEEeeEec--------C-----CeEEEEeecCCCCCCchHHHHHH---HHHHHH--h
Q 039996 151 TNIAAVRRIAKQVSERGGGLASVQAMVLIRG--------E-----DITEVECNLLKPSKIGGDKVQVE---VDELAA--V 212 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~--------~-----g~~qVs~NL~d~~~t~~~~V~e~---V~~~A~--~ 212 (241)
.|.++|++|++.++.+|--...-..++|.|+ . -.+|||+|-.-+..-++.+.++. +.++.+ .
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 4689999999999987643334455566553 1 25899999855556666666654 444444 5
Q ss_pred cCCeecce
Q 039996 213 EGMAVGKG 220 (241)
Q Consensus 213 ~Gv~V~g~ 220 (241)
++|-|.+|
T Consensus 174 ~rv~vi~S 181 (272)
T PF02900_consen 174 ERVAVIAS 181 (272)
T ss_dssp GCEEEEEE
T ss_pred CCEEEEEe
Confidence 57777776
No 73
>COG1359 Uncharacterized conserved protein [Function unknown]
Probab=22.84 E-value=1.8e+02 Score=22.27 Aligned_cols=49 Identities=10% Similarity=0.122 Sum_probs=37.0
Q ss_pred eeEecccccCCCHHH---HHHHHHHHhhCCCcEEEecCCCCCCCcceEEEeec
Q 039996 7 TCCKVYISESQNKAA---LESIEQAARLFSAAIIVNKFEDVTYNRVGYTVVSK 56 (241)
Q Consensus 7 veCvpN~SEGR~~~~---ie~I~~a~~~~~gv~lld~~~D~dyNRsv~T~vg~ 56 (241)
+.+..+...|...+. +..++++.++-+|+--.+++.|.+ |-..|.|.-.
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~lv~~sr~EeGcl~Y~l~~d~~-~~~~~~~~E~ 57 (100)
T COG1359 6 VLARFKPKPGHREEFLDLLAELVEASRAEEGCLSYELHRDPD-NPGRFVLIEV 57 (100)
T ss_pred EEEEEEeCcchHHHHHHHHHHHHHHhccCCCceEEEEEEeCC-CCCEEEEEEE
Confidence 445566677766666 566777777889999999999998 7777777664
No 74
>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=22.63 E-value=2.8e+02 Score=19.49 Aligned_cols=62 Identities=18% Similarity=0.207 Sum_probs=42.8
Q ss_pred HHHHHHHHHHhhccCCCcccceEEeeEecCCe--EEEEeecCCCCCCchHHHHHHHHHHHHhcCCe
Q 039996 153 IAAVRRIAKQVSERGGGLASVQAMVLIRGEDI--TEVECNLLKPSKIGGDKVQVEVDELAAVEGMA 216 (241)
Q Consensus 153 l~~Ar~IA~~vR~~~GGL~~VqAmgl~~~~g~--~qVs~NL~d~~~t~~~~V~e~V~~~A~~~Gv~ 216 (241)
--+-++|++.+.+.|+-+-.++.-- .++.+. +++.+++- .......++.+..+.++.+.|+.
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 4677899999999999888776554 232333 34444432 22367899999999999988763
No 75
>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=22.23 E-value=3.1e+02 Score=26.10 Aligned_cols=70 Identities=13% Similarity=0.086 Sum_probs=42.1
Q ss_pred CCHHHHHHHHHHhhccCCCcccceEE----eeEec-------------CCeEEEEeec-CCCCCCch---HHHHHHHHHH
Q 039996 151 TNIAAVRRIAKQVSERGGGLASVQAM----VLIRG-------------EDITEVECNL-LKPSKIGG---DKVQVEVDEL 209 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~GGL~~VqAm----gl~~~-------------~g~~qVs~NL-~d~~~t~~---~~V~e~V~~~ 209 (241)
.|.++|++|++.+.+.|==...++.+ ++.|+ --.|+||+|. .++..-++ ++.=+.|.++
T Consensus 149 gd~eLA~~I~~~l~~~G~dv~~~~~~~~~~~lDHG~~~~l~~~~p~~~iPVVpisin~~~~p~~ps~~r~y~lG~aL~~a 228 (328)
T cd07366 149 CHPELARHLIKHTVADGFDVAALDHLPDTVGIPHAFGFIYRRIMGDLVIPVVPVLINTFYPPNQPSARRCFEFGRAVARA 228 (328)
T ss_pred CCHHHHHHHHHHHHHcCCCeeeecccCcccCCCcchhhHHHHhcCCCCCcEEEEeecCCCCCCCCCHHHHHHHHHHHHHH
Confidence 47899999999988755211121112 23333 1379999998 45545566 4444556666
Q ss_pred HH----hcCCeecce
Q 039996 210 AA----VEGMAVGKG 220 (241)
Q Consensus 210 A~----~~Gv~V~g~ 220 (241)
++ ..+|-|.+|
T Consensus 229 i~~~~~d~rV~IIaS 243 (328)
T cd07366 229 IRSWPGDARVGVIAS 243 (328)
T ss_pred HHhcCCCCCEEEEEe
Confidence 55 356777776
No 76
>PRK14637 hypothetical protein; Provisional
Probab=22.07 E-value=85 Score=26.61 Aligned_cols=44 Identities=14% Similarity=0.197 Sum_probs=28.9
Q ss_pred HHHcCCCCCCc-cCCCCCccc-cceeeeeCCCCCHHHHHHHHHHHHHhhcc
Q 039996 79 AFENIEPGMHS-GSHPRLGVV-DHICFHPLASAPLDQVAGIAKSVVGDIGS 127 (241)
Q Consensus 79 A~~~IDm~~H~-G~HPR~Gav-Dvipf~Pl~~~t~~ec~~lA~~~a~~ig~ 127 (241)
-+++.|++... |.++-+=+. |. | +++|+++|.++++.+...+-.
T Consensus 22 g~eLvdve~~~~~~~~~lrV~ID~----~-~gV~iddC~~vSr~Is~~LD~ 67 (151)
T PRK14637 22 GCKLVDLSRRVQQAQGRVRAVIYS----A-GGVGLDDCARVHRILVPRLEA 67 (151)
T ss_pred CCEEEEEEEEecCCCcEEEEEEEC----C-CCCCHHHHHHHHHHHHHHhcc
Confidence 45666776543 333333322 42 2 679999999999999988753
No 77
>smart00322 KH K homology RNA-binding domain.
Probab=21.95 E-value=2.4e+02 Score=18.33 Aligned_cols=46 Identities=11% Similarity=0.132 Sum_probs=30.0
Q ss_pred CCCHHHHHHHHHHHhhCCCcEEEecCCCCCCCcceEEEeecCCCCCCCCcccHHHHHHHH
Q 039996 16 SQNKAALESIEQAARLFSAAIIVNKFEDVTYNRVGYTVVSKLAPTLSSDSCPLKSTVFAM 75 (241)
Q Consensus 16 GR~~~~ie~I~~a~~~~~gv~lld~~~D~dyNRsv~T~vg~~~~~~~~~~~~v~~aa~~~ 75 (241)
|++-..|.+|.+.. |+.+ ++..+.+ +...+++.|+++ .+..+.-..
T Consensus 19 G~~G~~i~~i~~~~----~~~i-~~~~~~~-~~~~v~i~g~~~--------~v~~a~~~i 64 (69)
T smart00322 19 GKGGSTIKKIEEET----GVKI-DIPEDGS-EERVVEITGPPE--------NVEKAAELI 64 (69)
T ss_pred CCCchHHHHHHHHH----CCEE-EECCCCC-CccEEEEEcCHH--------HHHHHHHHH
Confidence 77888888888765 4343 3322222 778899999987 666655443
No 78
>PRK14643 hypothetical protein; Provisional
Probab=21.92 E-value=84 Score=27.03 Aligned_cols=64 Identities=9% Similarity=0.092 Sum_probs=38.3
Q ss_pred HHHcCCCCCCccCCCC-Cccc-cceeeeeCCCCCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccCCC
Q 039996 79 AFENIEPGMHSGSHPR-LGVV-DHICFHPLASAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFSTN 152 (241)
Q Consensus 79 A~~~IDm~~H~G~HPR-~Gav-Dvipf~Pl~~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t~d 152 (241)
-+++.|++......++ +=+. |. |..|=+++|+++|..+++.++..+=.+ -+.--+|+..+.+.-
T Consensus 23 G~eL~die~~~~~~~~~lrV~Id~-~~~~~ggvtldDC~~vSr~is~~LD~~---------d~i~~~Y~LEVSSPG 88 (164)
T PRK14643 23 NLKVYEINNLKEFENDMIQILVED-ILQANKPLDFDILIKANDLVSNKIDQF---------IKTSEKYLLEISSSG 88 (164)
T ss_pred CCEEEEEEEEecCCCcEEEEEEec-CCCcCCCcCHHHHHHHHHHHHHHhCcc---------CCCCCCeEEEecCCC
Confidence 4567777766544333 2111 10 001235799999999999999988732 123345777777754
No 79
>PRK14647 hypothetical protein; Provisional
Probab=21.83 E-value=87 Score=26.57 Aligned_cols=59 Identities=19% Similarity=0.239 Sum_probs=37.4
Q ss_pred HHcCCCCCCc-cCCCCCccc-cceeeeeCCCCCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccCCC
Q 039996 80 FENIEPGMHS-GSHPRLGVV-DHICFHPLASAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFSTN 152 (241)
Q Consensus 80 ~~~IDm~~H~-G~HPR~Gav-Dvipf~Pl~~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t~d 152 (241)
+++.|++.+. |.++.+=+. |. =+++|+++|..+++.++..+=.. -++--+|...+.|.-
T Consensus 23 ~~L~dv~~~~~~~~~~lrV~ID~-----~~gvslddC~~vSr~is~~LD~~---------d~i~~~Y~LEVSSPG 83 (159)
T PRK14647 23 LELVELEYKREGREMVLRLFIDK-----EGGVNLDDCAEVSRELSEILDVE---------DFIPERYTLEVSSPG 83 (159)
T ss_pred CEEEEEEEEecCCCeEEEEEEeC-----CCCCCHHHHHHHHHHHHHHHccc---------ccCCCCeEEEEcCCC
Confidence 4577777664 444444332 32 25799999999999999988632 112235766666643
No 80
>TIGR03700 mena_SCO4494 putative menaquinone biosynthesis protein, SCO4494 family. Members of this protein family appear to be involved in menaquinone biosynthesis by an alternate pathway via futalosine, based on close phylogenetic correlation with known markers of the futalosine pathway, gene clustering in many organisms, and paralogy with the SCO4550 protein.
Probab=21.83 E-value=6.7e+02 Score=23.50 Aligned_cols=43 Identities=14% Similarity=0.194 Sum_probs=30.4
Q ss_pred CCCCchHHHHHHHHHHHHhcCCeecceeeecC--CHHHHHHHHHHH
Q 039996 194 PSKIGGDKVQVEVDELAAVEGMAVGKGYYTDL--SQEEIIERYMKL 237 (241)
Q Consensus 194 ~~~t~~~~V~e~V~~~A~~~Gv~V~g~y~~g~--~pe~ile~~~~~ 237 (241)
+.+++..+..+.++ .|++.|+.+..+.+.|+ |+++.++....+
T Consensus 182 ~~~~~~~~~l~~i~-~a~~~Gi~~~sg~i~GlgEt~edrv~~l~~L 226 (351)
T TIGR03700 182 PEKISAERWLEIHR-TAHELGLKTNATMLYGHIETPAHRVDHMLRL 226 (351)
T ss_pred CCCCCHHHHHHHHH-HHHHcCCCcceEEEeeCCCCHHHHHHHHHHH
Confidence 44566666666665 56778999999988776 477777765543
No 81
>COG2159 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]
Probab=21.77 E-value=1.5e+02 Score=27.39 Aligned_cols=64 Identities=22% Similarity=0.203 Sum_probs=46.6
Q ss_pred CCCeeeeeeeccCCCHHHHHHHHHHhhccCCCcccceEEeeEec-CCeEEEEeecCCCCCCchHHHHHHHHHHHHhcCCe
Q 039996 138 TRWVDNYNIPVFSTNIAAVRRIAKQVSERGGGLASVQAMVLIRG-EDITEVECNLLKPSKIGGDKVQVEVDELAAVEGMA 216 (241)
Q Consensus 138 r~~liayNV~L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~-~g~~qVs~NL~d~~~t~~~~V~e~V~~~A~~~Gv~ 216 (241)
..|+..++|+..+. -..++.|-+.+++ +|+.++|=....++ ... |+ .+.-+=+.|+++|+.
T Consensus 98 drf~~~~~v~p~~~-~~a~~E~er~v~~--~gf~g~~l~p~~~~~~~~--------~~-------~~~pi~~~a~~~gvp 159 (293)
T COG2159 98 DRFVGFARVDPRDP-EAAAEELERRVRE--LGFVGVKLHPVAQGFYPD--------DP-------RLYPIYEAAEELGVP 159 (293)
T ss_pred cceeeeeeeCCCch-HHHHHHHHHHHHh--cCceEEEecccccCCCCC--------Ch-------HHHHHHHHHHHcCCC
Confidence 46888899999987 5788999999998 88888887776653 110 11 155555678889987
Q ss_pred ecc
Q 039996 217 VGK 219 (241)
Q Consensus 217 V~g 219 (241)
|.=
T Consensus 160 v~i 162 (293)
T COG2159 160 VVI 162 (293)
T ss_pred EEE
Confidence 753
No 82
>cd07048 BMC_PduB_repeat2 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2. PduB proteins are homologs of the carboxysome shell protein. They are encoded within the pdu operon and might be required for the formation of the outer shell of the bacterial pdu polyhedral organelles involved in coenzyme B12-dependent degradation of 1,2-propanediol. Although it has been suggested that PduB might form hexamers and further assemble into the flat facets of the polyhedral outer shell of the pdu organelles at present no experimental evidence directly supports this view. PduB proteins contain two tandem BMC domains repeats. This CD contains repeat 2 (the second BMC domain of PduB).
Probab=21.70 E-value=2.2e+02 Score=21.50 Aligned_cols=48 Identities=15% Similarity=0.068 Sum_probs=34.1
Q ss_pred HHHhhCCCcEEEecCCC----CCCCcceEEEeecCCCCCCCCcccHHHHHHHHHHHHHHc
Q 039996 27 QAARLFSAAIIVNKFED----VTYNRVGYTVVSKLAPTLSSDSCPLKSTVFAMIKAAFEN 82 (241)
Q Consensus 27 ~a~~~~~gv~lld~~~D----~dyNRsv~T~vg~~~~~~~~~~~~v~~aa~~~~~~A~~~ 82 (241)
+++-+...|.|+.+..- ---+...+++-|+.. +|.+|+-...+.+.++
T Consensus 18 D~~lKaA~V~Ll~~~~~~~g~~~~Gk~~i~vtGDva--------AV~aAv~ag~~~~~~~ 69 (70)
T cd07048 18 DTALKAANVDIVGYASPSGGTSFSNEVILTISGDSG--------AVRQALIAAREVGLQL 69 (70)
T ss_pred HHHHhhcCeEEEEEEccccCCCcCCEEEEEEEecHH--------HHHHHHHHHHHHhhcc
Confidence 34445568999988763 336889999999998 7777766666655554
No 83
>PRK14640 hypothetical protein; Provisional
Probab=21.51 E-value=88 Score=26.37 Aligned_cols=60 Identities=20% Similarity=0.253 Sum_probs=39.9
Q ss_pred HHHcCCCCCCc-cCCCCCccc-cceeeeeCCCCCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccCCC
Q 039996 79 AFENIEPGMHS-GSHPRLGVV-DHICFHPLASAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFSTN 152 (241)
Q Consensus 79 A~~~IDm~~H~-G~HPR~Gav-Dvipf~Pl~~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t~d 152 (241)
-+++.|++.+. |.++-+=+. |. | .|+|+++|..++|.+...+=.+ -++--+|+..+.|.-
T Consensus 20 G~el~dve~~~~~~~~~lrV~ID~----~-~gv~lddC~~vSr~is~~LD~~---------d~i~~~Y~LEVSSPG 81 (152)
T PRK14640 20 GFELWGIEFIRAGKHSTLRVYIDG----E-NGVSVENCAEVSHQVGAIMDVE---------DPITEEYYLEVSSPG 81 (152)
T ss_pred CCEEEEEEEEecCCCcEEEEEEEC----C-CCCCHHHHHHHHHHHHHHhccc---------ccCCCCeEEEEeCCC
Confidence 45678887654 566655444 42 2 5799999999999998877532 123346777777643
No 84
>COG1748 LYS9 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]
Probab=21.39 E-value=1.5e+02 Score=28.98 Aligned_cols=70 Identities=16% Similarity=0.154 Sum_probs=49.8
Q ss_pred eeeeccCCCHHHHHHHHHHhhccCCCcccceEEeeEec-CCe-------EEEEeecCCCCCCchHHHHHHHHHHHHhcCC
Q 039996 144 YNIPVFSTNIAAVRRIAKQVSERGGGLASVQAMVLIRG-EDI-------TEVECNLLKPSKIGGDKVQVEVDELAAVEGM 215 (241)
Q Consensus 144 yNV~L~t~dl~~Ar~IA~~vR~~~GGL~~VqAmgl~~~-~g~-------~qVs~NL~d~~~t~~~~V~e~V~~~A~~~Gv 215 (241)
++|.+.+.+.+-+++|+....+ .+|++.+... ... .++..|+..+..+. .+-+.|-+-|+
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 7899988888888888877655 8999999863 211 28888888766554 55566777888
Q ss_pred eecce-eeecC
Q 039996 216 AVGKG-YYTDL 225 (241)
Q Consensus 216 ~V~g~-y~~g~ 225 (241)
.+... |+..+
T Consensus 94 ~yvDts~~~~~ 104 (389)
T COG1748 94 DYVDTSYYEEP 104 (389)
T ss_pred CEEEcccCCch
Confidence 77664 44444
No 85
>PRK14630 hypothetical protein; Provisional
Probab=21.39 E-value=90 Score=26.18 Aligned_cols=58 Identities=14% Similarity=0.175 Sum_probs=38.1
Q ss_pred HHHcCCCCCCc-cCCCCCccc-cceeeeeCCCCCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccCCC
Q 039996 79 AFENIEPGMHS-GSHPRLGVV-DHICFHPLASAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFSTN 152 (241)
Q Consensus 79 A~~~IDm~~H~-G~HPR~Gav-Dvipf~Pl~~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t~d 152 (241)
-+++.|++.+. |.++.+=+. |. | .++|+++|..++|.+...+-+. .--+|...+.|.-
T Consensus 22 G~eLvdve~~~~~~~~~lrV~Id~----~-~gV~idDC~~vSr~i~~~ld~~-----------i~~~Y~LEVSSPG 81 (143)
T PRK14630 22 GIEIIEINTFRNRNEGKIQIVLYK----K-DSFGVDTLCDLHKMILLILEAV-----------LKYNFSLEISTPG 81 (143)
T ss_pred CCEEEEEEEEecCCCcEEEEEEEC----C-CCCCHHHHHHHHHHHHHHhccc-----------CCCCeEEEEeCCC
Confidence 56788888654 455543322 31 2 6799999999999998887432 2235666666643
No 86
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=20.97 E-value=95 Score=27.18 Aligned_cols=68 Identities=10% Similarity=0.049 Sum_probs=36.9
Q ss_pred ceeeEecccccCCCHHHHHHHHHHHh-hCCCcEEEecCCCCCCCcceEEEeecCCCCCCCCcccHHHHHHHHHHHHHHcC
Q 039996 5 MLTCCKVYISESQNKAALESIEQAAR-LFSAAIIVNKFEDVTYNRVGYTVVSKLAPTLSSDSCPLKSTVFAMIKAAFENI 83 (241)
Q Consensus 5 ~lveCvpN~SEGR~~~~ie~I~~a~~-~~~gv~lld~~~D~dyNRsv~T~vg~~~~~~~~~~~~v~~aa~~~~~~A~~~I 83 (241)
-.++|.||+|.-.=.+-+....+.+| .+|.+.||=+.+-...+. .+-.... .-.+..-++.+++++..
T Consensus 63 ~~ld~~~N~~~~~~~~~~~~fv~~iR~~hP~tPIllv~~~~~~~~---~~~~~~~--------~~~~~~~~~~r~~v~~l 131 (178)
T PF14606_consen 63 IVLDCGPNMSPEEFRERLDGFVKTIREAHPDTPILLVSPIPYPAG---YFDNSRG--------ETVEEFREALREAVEQL 131 (178)
T ss_dssp EEEEESHHCCTTTHHHHHHHHHHHHHTT-SSS-EEEEE----TTT---TS--TTS----------HHHHHHHHHHHHHHH
T ss_pred EEEEeecCCCHHHHHHHHHHHHHHHHHhCCCCCEEEEecCCcccc---ccCchHH--------HHHHHHHHHHHHHHHHH
Confidence 36899999887766666777777776 557888887665543333 1222222 34455555566666543
No 87
>cd07369 PydA_Rs_like PydA is a Class III Extradiol ring-cleavage dioxygenase required for the degradation of 3-hydroxy-4-pyridone (HP). This subfamily is composed of Rhizobium sp. PydA and similar proteins. PydA is required for the degradation of 3-hydroxy-4-pyridone (HP), an intermediate in the Leucaena toxin mimosine degradation pathway. It is a member of the class III extradiol dioxygenase family, a group of enzymes that 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=20.65 E-value=7.2e+02 Score=23.68 Aligned_cols=70 Identities=9% Similarity=0.105 Sum_probs=44.5
Q ss_pred CCHHHHHHHHHHhhccC------CCcccceEEeeEe-----c--CCeEEEEeecCCCCCCchHHHH---HHHHHHHHh--
Q 039996 151 TNIAAVRRIAKQVSERG------GGLASVQAMVLIR-----G--EDITEVECNLLKPSKIGGDKVQ---VEVDELAAV-- 212 (241)
Q Consensus 151 ~dl~~Ar~IA~~vR~~~------GGL~~VqAmgl~~-----~--~g~~qVs~NL~d~~~t~~~~V~---e~V~~~A~~-- 212 (241)
.|.++|++|++.+++.| ..+..=-+..+++ + --.++|++|...+..-++.+.+ +.|.+..++
T Consensus 98 gd~eLA~~I~~~l~~~G~dva~~~~~~~DHG~~vPL~~l~p~~~ipvVpI~in~~~~p~~~~~r~~~lG~AI~~aie~~~ 177 (329)
T cd07369 98 GNPEVAEQLLRALVHDSFDCARMGEIEYGNNLLVPWKLMKPDLDVSVIPIYTNVFSPPLMKYSRAYALGAAVRKAIEDLP 177 (329)
T ss_pred CCHHHHHHHHHHHHHCCCCeeecCCcCCCccceeeHHHhcCCCCCcEEEEEEeccCCCCCCHHHHHHHHHHHHHHHHhcC
Confidence 48999999999999876 1221111112221 1 2468999999887666666655 456666655
Q ss_pred --cCCeecce
Q 039996 213 --EGMAVGKG 220 (241)
Q Consensus 213 --~Gv~V~g~ 220 (241)
..|.|.+|
T Consensus 178 ~d~rVaiIaS 187 (329)
T cd07369 178 DDLRVAFMAT 187 (329)
T ss_pred CCCCEEEEEe
Confidence 35777775
No 88
>PF07823 CPDase: Cyclic phosphodiesterase-like protein; InterPro: IPR012386 2',3' Cyclic nucleotide phosphodiesterases (CPDases) are enzymes that catalyse at least two distinct steps in the splicing of tRNA introns in eukaryotes. The active site is characterised by two conserved histidine residues []. The enzyme has six cysteine residues, four of which are involved in forming two intra-molecular disulphide bridges. One of these bridges is involved in the catalytic activity of the enzyme as it opens when CPDase is semi-reduced []. Proteins in this entryand belong to 3.1.4.37 from EC and catalyse the reaction Nucleoside 2',3'-cyclic phosphate + H2O = nucleoside 2'-phosphate. ; GO: 0004112 cyclic-nucleotide phosphodiesterase activity; PDB: 1JH7_A 1JH6_B 1FSI_B.
Probab=20.62 E-value=1.8e+02 Score=25.27 Aligned_cols=95 Identities=17% Similarity=0.148 Sum_probs=45.0
Q ss_pred HHHHHHHHHHhhCC----CcEEEecCCCCCCCcceEEEeecCCCCCCCCcccHHHHHHHHHHHHHHcCCCCCCccCCCCC
Q 039996 20 AALESIEQAARLFS----AAIIVNKFEDVTYNRVGYTVVSKLAPTLSSDSCPLKSTVFAMIKAAFENIEPGMHSGSHPRL 95 (241)
Q Consensus 20 ~~ie~I~~a~~~~~----gv~lld~~~D~dyNRsv~T~vg~~~~~~~~~~~~v~~aa~~~~~~A~~~IDm~~H~G~HPR~ 95 (241)
.+++++..+.+..+ -+++-++..+..|-|++|--+..-+ .|. .+.+.+.++.+-...... +-
T Consensus 57 ~~L~~~~~~~~~~~~~~~~v~~~~v~~g~~yfq~vyl~v~~t~--------~L~----~l~~~~r~~~~~~~~~~~--~~ 122 (196)
T PF07823_consen 57 KVLDSAAAALKPLPKNHFTVRFDKVASGDKYFQCVYLEVEKTP--------ELM----SLAQIARELFVEGPPDEV--KA 122 (196)
T ss_dssp HHHHHHHHH-B-E-----EEEEEEEEEEEETTEEEEEEE---H--------HHH----HHHCHHHHCT------------
T ss_pred HHHHHHHHhccCcccceeEEEeeeEeeCCeEEEEEEEEecCCh--------hHH----HHHHHHHHHhhhcccccc--cc
Confidence 45555566666553 6788899999999999999987765 444 444444554433322211 22
Q ss_pred ccccceeeeeC-----CCCCHHHHHHHHHHHHHhhccCC
Q 039996 96 GVVDHICFHPL-----ASAPLDQVAGIAKSVVGDIGSGL 129 (241)
Q Consensus 96 GavDvipf~Pl-----~~~t~~ec~~lA~~~a~~ig~~l 129 (241)
+--+.=||.|. ++.+.+|- +.++.+.+++.+.|
T Consensus 123 ~~~~~~~y~PHlSLlY~d~~~~e~-~~~~~~~~~i~~~l 160 (196)
T PF07823_consen 123 AEWPREPYMPHLSLLYGDLPPEEK-AEAAEIAQRIDDAL 160 (196)
T ss_dssp T----S----EEEEE-----HHHH-HHHHHHHHHH-TT-
T ss_pred ccccCCCCCCeEEEEEcCCCcccH-HHHHHHHHHhcccc
Confidence 22233455554 45666665 66777888888875
No 89
>PRK14639 hypothetical protein; Provisional
Probab=20.59 E-value=95 Score=25.90 Aligned_cols=44 Identities=9% Similarity=0.038 Sum_probs=31.5
Q ss_pred HHHcCCCCCCcc-CCCCCccc-cceeeeeCCCCCHHHHHHHHHHHHHhhcc
Q 039996 79 AFENIEPGMHSG-SHPRLGVV-DHICFHPLASAPLDQVAGIAKSVVGDIGS 127 (241)
Q Consensus 79 A~~~IDm~~H~G-~HPR~Gav-Dvipf~Pl~~~t~~ec~~lA~~~a~~ig~ 127 (241)
-+++.|++.+.+ .++-+=+. |. =+++|+++|..+++.++..+=.
T Consensus 11 G~eLvdve~~~~~~~~~lrV~Id~-----~~gv~iddC~~vSr~is~~LD~ 56 (140)
T PRK14639 11 GVSFYDDELVSENGRKIYRVYITK-----EGGVNLDDCERLSELLSPIFDV 56 (140)
T ss_pred CCEEEEEEEEecCCCcEEEEEEeC-----CCCCCHHHHHHHHHHHHHHhcc
Confidence 467888887754 44434332 42 3679999999999999998863
No 90
>PRK14632 hypothetical protein; Provisional
Probab=20.32 E-value=95 Score=26.82 Aligned_cols=71 Identities=20% Similarity=0.226 Sum_probs=41.7
Q ss_pred cHHHHHHHHHHHH-----HHcCCCCCCccCCCCCccc-cceeeeeCCCCCHHHHHHHHHHHHHhhccCCCCeEEeccCCC
Q 039996 67 PLKSTVFAMIKAA-----FENIEPGMHSGSHPRLGVV-DHICFHPLASAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRW 140 (241)
Q Consensus 67 ~v~~aa~~~~~~A-----~~~IDm~~H~G~HPR~Gav-Dvipf~Pl~~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~ 140 (241)
++.+.+..+++.. +++.|++.+.|..+-+=+. |. | .|+|+++|..+++.++..+=.. . ++
T Consensus 5 ~~~~~i~~li~pv~~~~G~eLvdve~~~~~~~~lrV~ID~----~-~GV~ldDC~~vSr~is~~LD~~-d--------~i 70 (172)
T PRK14632 5 ALDATIADMAGPFLASLGLELWGIELSYGGRTVVRLFVDG----P-EGVTIDQCAEVSRHVGLALEVE-D--------VI 70 (172)
T ss_pred hHHHHHHHHHHHHHHHCCCEEEEEEEEeCCCcEEEEEEEC----C-CCCCHHHHHHHHHHHHHHhccc-c--------cC
Confidence 3444444444443 3577777665433322222 31 3 5799999999999999888632 0 11
Q ss_pred eeeeeeeccCC
Q 039996 141 VDNYNIPVFST 151 (241)
Q Consensus 141 liayNV~L~t~ 151 (241)
=-+|+..+.+.
T Consensus 71 ~~~Y~LEVSSP 81 (172)
T PRK14632 71 SSAYVLEVSSP 81 (172)
T ss_pred CCCeEEEEeCC
Confidence 23577777664
No 91
>PRK14646 hypothetical protein; Provisional
Probab=20.25 E-value=94 Score=26.39 Aligned_cols=61 Identities=10% Similarity=0.116 Sum_probs=38.2
Q ss_pred HHHcCCCCCCc-cCCCCCccc-cceeeeeC-CCCCHHHHHHHHHHHHHhhccCCCCeEEeccCCCeeeeeeeccCCC
Q 039996 79 AFENIEPGMHS-GSHPRLGVV-DHICFHPL-ASAPLDQVAGIAKSVVGDIGSGLQGVIVIGSTRWVDNYNIPVFSTN 152 (241)
Q Consensus 79 A~~~IDm~~H~-G~HPR~Gav-Dvipf~Pl-~~~t~~ec~~lA~~~a~~ig~~l~Gat~vGAr~~liayNV~L~t~d 152 (241)
-+++.|++.+. |..+.+=+. | .|= +++|+++|..+++.++..+=.+ -++--+|+..+.+.-
T Consensus 21 G~eLvdve~~~~~~~~~LrV~ID----k~~g~gVtldDC~~vSr~is~~LD~~---------D~i~~~Y~LEVSSPG 84 (155)
T PRK14646 21 DLKICSLNIQTNQNPIVIKIIIK----KTNGDDISLDDCALFNTPASEEIENS---------NLLNCSYVLEISSQG 84 (155)
T ss_pred CCEEEEEEEEeCCCCeEEEEEEE----CCCCCCccHHHHHHHHHHHHHHhCcC---------CCCCCCeEEEEcCCC
Confidence 35688888665 444434332 3 222 2599999999999999877532 122345777777644
Done!