Query 039874
Match_columns 382
No_of_seqs 235 out of 2062
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 02:53:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039874.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039874hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR03228 anthran_1_2_A anthra 100.0 3.9E-56 8.4E-61 435.8 32.0 316 28-354 11-381 (438)
2 TIGR03229 benzo_1_2_benA benzo 100.0 6.5E-55 1.4E-59 427.7 31.3 316 29-355 12-377 (433)
3 COG4638 HcaE Phenylpropionate 100.0 9.8E-50 2.1E-54 389.8 29.0 334 32-381 4-357 (367)
4 PLN02281 chlorophyllide a oxyg 100.0 6.9E-46 1.5E-50 364.2 30.2 290 51-379 216-525 (536)
5 PLN02518 pheophorbide a oxygen 100.0 7.2E-43 1.6E-47 349.3 26.7 307 45-379 80-429 (539)
6 cd03545 Rieske_RO_Alpha_OHBDO_ 100.0 1.5E-38 3.2E-43 270.4 14.8 138 32-169 1-147 (150)
7 PLN00095 chlorophyllide a oxyg 100.0 3E-37 6.4E-42 291.0 22.9 273 52-346 69-371 (394)
8 cd03538 Rieske_RO_Alpha_AntDO 100.0 1.2E-36 2.5E-41 257.8 15.2 135 35-169 2-143 (146)
9 cd03541 Rieske_RO_Alpha_CMO Ri 100.0 2E-34 4.4E-39 234.8 13.2 115 55-169 1-115 (118)
10 cd03472 Rieske_RO_Alpha_BPDO_l 100.0 1.2E-33 2.5E-38 234.1 11.9 122 48-169 1-125 (128)
11 cd03539 Rieske_RO_Alpha_S5H Th 100.0 3.7E-33 8E-38 231.5 12.5 114 56-169 1-126 (129)
12 cd04338 Rieske_RO_Alpha_Tic55 100.0 6.1E-32 1.3E-36 225.9 13.7 119 49-169 11-129 (134)
13 cd03479 Rieske_RO_Alpha_PhDO_l 100.0 2.8E-31 6.1E-36 224.8 13.3 121 48-169 14-134 (144)
14 cd04337 Rieske_RO_Alpha_Cao Ca 100.0 4.2E-31 9.2E-36 219.3 12.5 116 47-169 9-124 (129)
15 cd03535 Rieske_RO_Alpha_NDO Ri 100.0 9.5E-31 2.1E-35 215.7 12.8 116 54-169 1-120 (123)
16 cd03536 Rieske_RO_Alpha_DTDO T 100.0 2.9E-30 6.2E-35 212.9 12.3 114 56-169 1-118 (123)
17 cd03537 Rieske_RO_Alpha_PrnD T 100.0 5.2E-30 1.1E-34 210.1 12.6 114 54-169 2-118 (123)
18 cd03531 Rieske_RO_Alpha_KSH Th 100.0 9E-30 2E-34 207.4 13.8 111 55-170 1-111 (115)
19 cd03480 Rieske_RO_Alpha_PaO Ri 100.0 5.7E-30 1.2E-34 215.0 12.7 119 50-169 12-133 (138)
20 cd03548 Rieske_RO_Alpha_OMO_CA 100.0 1.1E-29 2.5E-34 213.0 13.1 116 51-170 10-128 (136)
21 cd03542 Rieske_RO_Alpha_HBDO R 100.0 2.7E-29 5.8E-34 206.5 13.0 114 56-169 1-120 (123)
22 cd03532 Rieske_RO_Alpha_VanA_D 100.0 4E-29 8.7E-34 204.2 12.5 112 52-169 2-113 (116)
23 cd08883 RHO_alpha_C_CMO-like C 100.0 2.5E-28 5.5E-33 214.3 16.0 172 207-381 4-175 (175)
24 cd03469 Rieske_RO_Alpha_N Ries 100.0 1.8E-28 3.9E-33 201.3 12.5 114 56-169 1-115 (118)
25 cd08885 RHO_alpha_C_1 C-termin 99.9 2.9E-27 6.3E-32 210.3 15.3 174 206-381 3-190 (190)
26 cd08884 RHO_alpha_C_GbcA-like 99.9 3.8E-27 8.3E-32 212.0 14.8 184 195-381 3-205 (205)
27 cd08886 RHO_alpha_C_2 C-termin 99.9 4.2E-27 9E-32 207.7 14.7 170 206-379 3-182 (182)
28 cd08887 RHO_alpha_C_3 C-termin 99.9 3.3E-26 7.1E-31 202.5 14.1 173 207-381 4-185 (185)
29 cd00680 RHO_alpha_C C-terminal 99.9 1.1E-25 2.3E-30 198.7 14.2 172 207-381 3-188 (188)
30 cd03528 Rieske_RO_ferredoxin R 99.9 2.4E-25 5.2E-30 176.6 11.3 96 56-163 1-97 (98)
31 cd03474 Rieske_T4moC Toluene-4 99.9 5.6E-25 1.2E-29 177.6 12.6 102 56-169 1-103 (108)
32 cd03530 Rieske_NirD_small_Baci 99.9 7.3E-25 1.6E-29 173.7 11.2 97 56-164 1-98 (98)
33 TIGR02377 MocE_fam_FeS Rieske 99.9 6.3E-24 1.4E-28 169.1 11.5 100 55-165 1-101 (101)
34 cd03529 Rieske_NirD Assimilato 99.9 4.9E-24 1.1E-28 170.5 10.7 97 56-164 1-103 (103)
35 TIGR02378 nirD_assim_sml nitri 99.9 4.7E-24 1E-28 171.3 10.5 99 55-165 1-105 (105)
36 cd03478 Rieske_AIFL_N AIFL (ap 99.9 2.8E-23 6E-28 163.7 10.0 93 58-162 2-95 (95)
37 PRK09965 3-phenylpropionate di 99.9 5.2E-23 1.1E-27 165.3 11.4 101 55-168 2-104 (106)
38 PF00848 Ring_hydroxyl_A: Ring 99.9 1.8E-24 3.9E-29 193.6 3.1 173 208-381 11-208 (209)
39 PF00355 Rieske: Rieske [2Fe-2 99.9 3.7E-22 7.9E-27 157.9 10.0 93 55-158 1-96 (97)
40 PF13806 Rieske_2: Rieske-like 99.9 5.4E-22 1.2E-26 158.0 10.7 98 55-164 1-104 (104)
41 cd08882 RHO_alpha_C_MupW-like 99.9 2.4E-21 5.1E-26 178.4 12.4 105 277-381 128-243 (243)
42 PRK09511 nirD nitrite reductas 99.9 2.7E-21 5.8E-26 155.4 10.9 98 55-164 3-107 (108)
43 cd03477 Rieske_YhfW_C YhfW fam 99.8 3.7E-21 8.1E-26 149.6 9.6 79 59-139 2-80 (91)
44 cd03467 Rieske Rieske domain; 99.8 1.1E-20 2.4E-25 149.7 11.3 92 56-158 1-93 (98)
45 COG2146 {NirD} Ferredoxin subu 99.8 1.1E-20 2.5E-25 150.8 11.3 102 54-166 3-106 (106)
46 cd08880 RHO_alpha_C_ahdA1c-lik 99.8 1.4E-19 3.1E-24 164.4 15.1 173 206-381 3-222 (222)
47 cd03471 Rieske_cytochrome_b6f 99.8 1.1E-18 2.4E-23 142.3 11.6 91 67-168 21-114 (126)
48 cd03476 Rieske_ArOX_small Smal 99.8 1.4E-18 3E-23 143.0 11.4 96 57-164 4-114 (126)
49 cd03473 Rieske_CMP_Neu5Ac_hydr 99.7 1.4E-17 3E-22 130.7 7.9 71 63-135 15-89 (107)
50 cd08878 RHO_alpha_C_DMO-like C 99.7 1.5E-16 3.2E-21 141.2 14.3 169 208-380 5-196 (196)
51 cd08879 RHO_alpha_C_AntDO-like 99.7 1.4E-16 3.1E-21 146.3 11.9 173 206-381 3-237 (237)
52 TIGR02694 arsenite_ox_S arseni 99.7 1.8E-16 3.9E-21 130.7 10.6 95 57-163 7-115 (129)
53 cd03470 Rieske_cytochrome_bc1 99.7 4.6E-16 9.9E-21 128.1 11.5 92 61-163 5-125 (126)
54 cd08881 RHO_alpha_C_NDO-like C 99.7 7E-16 1.5E-20 138.4 11.7 168 206-381 8-206 (206)
55 PRK13474 cytochrome b6-f compl 99.5 7.6E-14 1.6E-18 121.8 11.0 86 68-165 74-163 (178)
56 TIGR01416 Rieske_proteo ubiqui 99.4 1.2E-12 2.5E-17 113.9 11.0 93 55-159 40-168 (174)
57 cd03475 Rieske_SoxF_SoxL SoxF 99.1 6.4E-10 1.4E-14 95.1 9.8 66 88-163 74-158 (171)
58 COG0723 QcrA Rieske Fe-S prote 98.7 4E-08 8.7E-13 86.2 6.8 80 78-167 83-169 (177)
59 TIGR03171 soxL2 Rieske iron-su 98.3 1.1E-06 2.4E-11 81.8 7.4 68 87-164 174-276 (321)
60 KOG1671 Ubiquinol cytochrome c 98.3 6.5E-07 1.4E-11 77.1 5.2 74 62-136 92-191 (210)
61 PF08417 PaO: Pheophorbide a o 97.5 0.00028 6E-09 54.9 5.8 72 280-353 1-84 (92)
62 PF11723 Aromatic_hydrox: Homo 97.1 0.015 3.4E-07 52.1 13.5 98 281-380 128-236 (240)
63 KOG1336 Monodehydroascorbate/f 95.6 0.0057 1.2E-07 60.4 1.9 39 100-138 1-40 (478)
64 PF09740 DUF2043: Uncharacteri 69.0 2.8 6.1E-05 33.4 1.4 36 89-127 63-100 (110)
65 PF11730 DUF3297: Protein of u 49.0 23 0.00049 25.5 3.0 46 33-78 7-65 (71)
66 PTZ00059 dynein light chain; P 41.7 1.1E+02 0.0023 23.4 6.1 44 42-86 41-89 (90)
67 PLN03058 dynein light chain ty 40.7 1E+02 0.0022 25.4 6.0 47 42-88 73-123 (128)
68 PF15567 Imm19: Immunity prote 40.7 12 0.00026 28.7 0.6 47 52-99 31-77 (88)
69 PF14446 Prok-RING_1: Prokaryo 38.8 22 0.00048 24.5 1.6 25 111-135 18-47 (54)
70 PF01221 Dynein_light: Dynein 38.3 77 0.0017 24.0 4.9 45 41-86 39-88 (89)
71 PF05265 DUF723: Protein of un 36.5 19 0.00041 25.4 1.0 16 112-127 30-45 (60)
72 TIGR02697 WPE_wolbac Wolbachia 31.4 51 0.0011 20.4 2.2 30 33-62 2-33 (36)
73 PHA02102 hypothetical protein 28.7 21 0.00046 25.2 0.2 8 3-10 47-54 (72)
74 PF14920 MTBP_C: MDM2-binding 27.6 24 0.00052 31.9 0.5 16 113-128 15-30 (251)
75 COG1645 Uncharacterized Zn-fin 25.8 41 0.00089 27.7 1.5 31 93-126 26-56 (131)
76 COG4391 Uncharacterized protei 24.0 56 0.0012 23.1 1.7 18 110-127 44-61 (62)
77 PF11572 DUF3234: Protein of u 23.9 22 0.00047 27.3 -0.4 50 52-106 5-54 (103)
78 PF07282 OrfB_Zn_ribbon: Putat 20.6 84 0.0018 22.3 2.2 33 94-127 27-59 (69)
No 1
>TIGR03228 anthran_1_2_A anthranilate 1,2-dioxygenase, large subunit. Anthranilate (2-aminobenzoate) is an intermediate of tryptophan (Trp) biosynthesis and degradation. Members of this family are the large subunit of anthranilate 1,2-dioxygenase, which acts in Trp degradation by converting anthranilate to catechol. Closely related paralogs typically are the benzoate 1,2-dioxygenase large subunit, among the larger set of ring-hydroxylating dioxygenases.
Probab=100.00 E-value=3.9e-56 Score=435.80 Aligned_cols=316 Identities=24% Similarity=0.438 Sum_probs=239.7
Q ss_pred ccCCCCCCCccCCHHHHHHHHHhccccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCcccc
Q 039874 28 EKALTPPSSWYTDPSFLALELHRVFYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILAT 107 (382)
Q Consensus 28 ~~~~~lp~~~Y~~~~~~~~E~~~if~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~ 107 (382)
+...++|.+.|+|+++|++|+++||.+.|++||+++|||++|+|+++.+++++|||+|++||+++||.|+|||||++|+.
T Consensus 11 ~~~~~v~~~~ytd~~if~~E~~~IF~~~W~~v~h~selp~~GDy~t~~ig~~pviv~R~~dG~i~a~~N~C~HRGa~L~~ 90 (438)
T TIGR03228 11 DGVFRIARDMFTEPELFDLEMELIFEKNWIYACHESELPNNHDFVTVRAGRQPMIVTRDGKGELHALVNACQHRGATLTR 90 (438)
T ss_pred cCceecChheECCHHHHHHHHHHHHhhCCEEEEEHHHCCCCCCeEEEEECCeEEEEEECCCCCEEEEcccCCCCCCcccc
Confidence 34557999999999999999999999999999999999999999999999999999999999999999999999999994
Q ss_pred -CCCCcceEEccCCCceecCCCceeecccccCC-CCCCccCCCCcceeeEEECcEEEEEcCCCccccccccccchhHhhh
Q 039874 108 -GSGKKSWFVCPYHGWTYGLDGTLLKATRITGI-KDFNVKEFGLVPLEVATWGPFVLLNMGKEAVHQEEVDSNVVANEWL 185 (382)
Q Consensus 108 -g~~~~~~i~CpyHgw~f~~~G~~~~~p~~~~~-~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~~~~~~~~~~~~~~e~l 185 (382)
++++.+.|+||||||+|++||+|+++|..... +.|+++..+|++++|++++||||+++++++. +++.+||
T Consensus 91 ~~~Gn~~~~~CPYHgW~y~~dG~L~~vp~~~~y~~~fd~~~~~L~~~rv~~y~GfIFv~l~~~a~--------~~l~e~l 162 (438)
T TIGR03228 91 VGKGNQSTFTCPFHAWCYKSDGRLVKVKAPGEYCEGFDKATRGLKKARIASYRGFVFVSLDVAAT--------DSLEDFL 162 (438)
T ss_pred CCccccCEEEcCCCCCcccCCCceeecCcccccCCCCChhhCCCcceeEEEECCEEEEEeCCCCC--------CCHHHHh
Confidence 88988999999999999999999999975443 4688888999999999999999999998752 3799999
Q ss_pred CChhhhhhhc----CCCCCeEEE-EEEEEEeCcccchhhhhcCCCCCCCCCcCccccccCCc--------c------ccc
Q 039874 186 GGSSEILSIN----GIDSSLSYL-CRREYTIECNWKVFCDNYLDGGYHVPYAHKGLASGLQL--------D------SYS 246 (382)
Q Consensus 186 ~~~~~~l~~~----~~d~~~~~~-~~~~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~~~--------~------~~~ 246 (382)
|++...+..+ +. ..++.+ +..++.++||||+++||++| +||++++|++++..... . .+.
T Consensus 163 g~~~~~ld~~~~~~~~-g~le~~~~~~~~~~~~NWKl~~EN~~D-~YH~~~vH~~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (438)
T TIGR03228 163 GDARVFLDMMVAQSPT-GELEVLPGKSAYTYAGNWKLQNENGLD-GYHVSTVHYNYVATVQHRQQVNAAKGGELATLDYS 240 (438)
T ss_pred hhHHHHHHHHhhccCc-CceEEecceEEEEeCCchHHHHHhccc-cccchhhChhhHhhhhhhcccccccccCccccccc
Confidence 9876655433 22 235544 35678999999999999999 89999999986532110 0 000
Q ss_pred cc------------cc-CceeeeeecCCCCCCCccc--------cccCC--------ccEEEEecCceeeccCCCeEEEE
Q 039874 247 TS------------LY-EKVSIQRCESGSTEGTDDT--------HRLGS--------KAIYAFIYPNFMINRYGPWMDTN 297 (382)
Q Consensus 247 ~~------------~~-~~~~~~~~~~~~~~~~~~~--------~~~g~--------~~~~~~lfPn~~i~~~~~~~~~~ 297 (382)
.. .. ..+++...........+.+ ..+|. ......||||+.+..... ..+.
T Consensus 241 ~~~~~~~~~~~~~~~~~nGH~~~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~~~~~~n~~iFPNl~~~~~~~-~~iR 319 (438)
T TIGR03228 241 KLGAGDAETDDGWFSFKNGHSVLFSEMPNPAVRPGYASVMPRLVAEFGQARAEWMMHRLRNLNLYPSLFFMDQIS-SQLR 319 (438)
T ss_pred cccccccccCcceEecCCCcEEEeeccCCccccchhhHHHHHHHHHhCchhhHhhhccceEEEECCceeeeccCC-ceEE
Confidence 00 00 0111111110000000101 11221 123457999999875432 2678
Q ss_pred EEEEcCCCeEEEEEEEEEcCCCCChH--HHH---HHhccccCCchhhHHHHHHHHhhcccCC
Q 039874 298 LVIPLAPTRCKVVFDYFLDGSLKDDK--AFI---EQSLKDSEQVQMEDIILCEGVQRGLESP 354 (382)
Q Consensus 298 ~~~P~s~~~t~v~~~~~~~~~~~~~~--~~~---~~~~~~~~~v~~ED~~i~e~~q~~l~s~ 354 (382)
.+.|+++++|+++++.+..+++++.. ..+ +.++...+.+..+|.++++.+|+|+..+
T Consensus 320 v~~P~~~d~tev~~~~~~~k~~~~e~~~~r~r~~~~~~gpsG~~~~DD~e~~~~~q~g~~~~ 381 (438)
T TIGR03228 320 IIRPVAWNKTEIISQCIGVKGESDADRENRIRQFEDFFNVSGMGTPDDLVEFREAQRGFQGR 381 (438)
T ss_pred EEEeCCCCeEEEEEEEEEECCCCHHHHHHHHHHHhcccCCccCCCCchHHHHHHHHHHhccC
Confidence 89999999999999888888765421 111 2334567788899999999999999864
No 2
>TIGR03229 benzo_1_2_benA benzoate 1,2-dioxygenase, large subunit. Benzoate 1,2-dioxygenase (EC 1.14.12.10) belongs to the larger family of aromatic ring-hydroxylating dioxygenases. Members of this family all act on benzoate, but may have additional activities on various benozate analogs. This model describes the large subunit. Between the trusted and noise cutoffs are similar enzymes, likely to act on benzoate but perhaps best identified according to some other activity, such as 2-chlorobenzoate 1,2-dioxygenase (1.14.12.13).
Probab=100.00 E-value=6.5e-55 Score=427.70 Aligned_cols=316 Identities=22% Similarity=0.430 Sum_probs=233.8
Q ss_pred cCCCCCCCccCCHHHHHHHHHhccccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccC
Q 039874 29 KALTPPSSWYTDPSFLALELHRVFYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATG 108 (382)
Q Consensus 29 ~~~~lp~~~Y~~~~~~~~E~~~if~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g 108 (382)
...+||+++|+|+++|++|+++||.+.|++||++++|+++|+++++.+++++|+|+|++||+++||.|+|||||++|+.|
T Consensus 12 ~~~~~~~~~Ytd~~~f~~E~~~IF~~~W~~v~~~selp~~gd~~t~~~~~~~vvv~R~~dG~i~af~N~C~HRga~L~~~ 91 (433)
T TIGR03229 12 GIFRCKREMFTDPELFDLEMKHIFEGNWIYLAHESQIPNNNDYYTTYMGRQPIFIARNKDGELNAFINACSHRGAMLCRH 91 (433)
T ss_pred CCccCChhhcCCHHHHHHHHHHHhhhCCEEEEEHHHCCCCCCeEEEEECCeEEEEEECCCCcEEEEeCcCCCCCCCcccc
Confidence 34579999999999999999999999999999999999999999999999999999999999999999999999999975
Q ss_pred -CCCcceEEccCCCceecCCCceeecccccC--C-CCCCc-cCCCCcce-eeEEECcEEEEEcCCCccccccccccchhH
Q 039874 109 -SGKKSWFVCPYHGWTYGLDGTLLKATRITG--I-KDFNV-KEFGLVPL-EVATWGPFVLLNMGKEAVHQEEVDSNVVAN 182 (382)
Q Consensus 109 -~~~~~~i~CpyHgw~f~~~G~~~~~p~~~~--~-~~~~~-~~~~l~~~-~v~~~~g~v~v~~~~~~~~~~~~~~~~~~~ 182 (382)
.++.+.|+||||||+||+||+|+++|.... . ..|++ ++.+|+++ +++.++||||+++++++ +|+.
T Consensus 92 ~~g~~~~~~CPyHgW~f~~~G~l~~vP~~~~~~~~~~fd~~~~~~L~~v~rve~y~GfIFv~l~~~~---------~~l~ 162 (433)
T TIGR03229 92 KRGNKTTYTCPFHGWTFNNSGKLLKVKDPEDAGYPECFNKDGSHDLKKVARFESYRGFLFGSLNPDV---------LPLE 162 (433)
T ss_pred cccCCCEEEcCCCCCEecCCcceEeCCCcccccCccccCcHhhcCCccceEEEEECCEEEEEcCCCC---------CCHH
Confidence 567779999999999999999999997432 2 35665 36899999 58889999999999876 4899
Q ss_pred hhhCChhhhhhhcCC--CCCeEEE-EEEEEEeCcccchhhhhcCCCCCCCCCcCccccccCCccc----------ccccc
Q 039874 183 EWLGGSSEILSINGI--DSSLSYL-CRREYTIECNWKVFCDNYLDGGYHVPYAHKGLASGLQLDS----------YSTSL 249 (382)
Q Consensus 183 e~l~~~~~~l~~~~~--d~~~~~~-~~~~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~~~~~----------~~~~~ 249 (382)
++||++.+.|..+.. ..++... +..++.++||||+++||++| +||++++|++++....... +....
T Consensus 163 e~Lg~~~~~ld~~~~~~~~~~~~~~~~~~~~~~~NWKl~~EN~~D-~YH~~~vH~~~~~~~~~~~~~~~~~~~~~~~~~~ 241 (433)
T TIGR03229 163 EHLGETAKIIDMIVDQSPDGLEVLRGSSTYTYEGNWKLQAENGAD-GYHVSAVHWNYAATTNQRKQREAGDEIKAMSAGT 241 (433)
T ss_pred HHhhhHHHHHHHHhhcCcCCCeEEeeeEEEEecCchhhhHHhccC-cccchhhcccHHHhhhhhhccccccccccccccc
Confidence 999988777654421 1233333 45678999999999999999 8999999988764311100 10000
Q ss_pred ----------cC-ceeeeeecCCCC-CCC-----cc-ccccCC--------ccEEEEecCceeeccCCCeEEEEEEEEcC
Q 039874 250 ----------YE-KVSIQRCESGST-EGT-----DD-THRLGS--------KAIYAFIYPNFMINRYGPWMDTNLVIPLA 303 (382)
Q Consensus 250 ----------~~-~~~~~~~~~~~~-~~~-----~~-~~~~g~--------~~~~~~lfPn~~i~~~~~~~~~~~~~P~s 303 (382)
.+ .++........+ ..+ +. ...+|. ......||||+++.. +....++.+.|++
T Consensus 242 ~~~~~~~~~~~~~gH~~~~~~~~~~~~r~~~~~~~~l~~~~g~~~~~~~~~~~~~~~iFPNl~~~~-~~~~~ir~~~P~~ 320 (433)
T TIGR03229 242 WGKQGGGSYSFEHGHMLLWTRWGNPEDRPLYERRDELAEKFGEAKADWMIENSRNLCLYPNVYLMD-QFSSQIRVFRPIS 320 (433)
T ss_pred cccCCCceEecCCCceEEeeeccCcccccchhHHHHHHHHhChhHHHHhhccceEEEEcCcchhhc-cCCceEEEEEECC
Confidence 01 111111000000 000 00 011111 123457999999873 3345788999999
Q ss_pred CCeEEEEEEEEEcCCCCChH--HHHHHh---ccccCCchhhHHHHHHHHhhcccCCC
Q 039874 304 PTRCKVVFDYFLDGSLKDDK--AFIEQS---LKDSEQVQMEDIILCEGVQRGLESPA 355 (382)
Q Consensus 304 ~~~t~v~~~~~~~~~~~~~~--~~~~~~---~~~~~~v~~ED~~i~e~~q~~l~s~~ 355 (382)
+++|+++.+.++++..++.. ..+.+. +.....+..||.++++.+|+|+.++.
T Consensus 321 ~d~tev~~~~~~~~~~~~e~~~~r~r~~~~~~~~~G~~~~DD~e~~~~~Q~g~~~~~ 377 (433)
T TIGR03229 321 VDKTEVTIYCIAPKGESAEARAKRIRQYEDFFNASGMATPDDLEEFRACQKGYNGTG 377 (433)
T ss_pred CCeEEEEEEEEEECCCCHHHHHHHHHHHhcccCCccCCcCChHHHHHHHHHHhcCCC
Confidence 99999999888887765421 112222 22344556899999999999999863
No 3
>COG4638 HcaE Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]
Probab=100.00 E-value=9.8e-50 Score=389.82 Aligned_cols=334 Identities=27% Similarity=0.411 Sum_probs=252.7
Q ss_pred CCCCCccCCHHHHHHHHHhccccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCC
Q 039874 32 TPPSSWYTDPSFLALELHRVFYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGK 111 (382)
Q Consensus 32 ~lp~~~Y~~~~~~~~E~~~if~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~ 111 (382)
++|..+|+|++++++|++.||.+.|++||+++||+++ ++++++++|+++||+|++||+++||.|+|||||++|+.|++.
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~Wy~v~~~~el~~~-~~~~~~i~g~~lvi~R~~dg~~~al~d~C~HRga~Ls~g~~~ 82 (367)
T COG4638 4 RLPPPFYTDPELFQLELERIFYKHWYVVAHSSELPKP-DPLTVRIGGEPLVVVRDKDGQVHALADVCPHRGARLSEGRVG 82 (367)
T ss_pred cCCCccccCHHHHHHHHHHhhhhCEEEEccHHHCCCC-CceeEEEcCeEEEEEECCCCCEEEEeccCCCCCchhccccCC
Confidence 7889999999999999999999999999999999975 999999999999999999999999999999999999999988
Q ss_pred c-ceEEccCCCceecCCCceeecccccCCCCCCccCCCCcceeeEEECcEEEEEcCCCccccccccccchhHhhhCChhh
Q 039874 112 K-SWFVCPYHGWTYGLDGTLLKATRITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKEAVHQEEVDSNVVANEWLGGSSE 190 (382)
Q Consensus 112 ~-~~i~CpyHgw~f~~~G~~~~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~~~~~~~~~~~~~~e~l~~~~~ 190 (382)
+ +.|+||||||+|+++|+|+.+|......+|++.+.+|++++|+++.|+|||++++++. +...++++...
T Consensus 83 ~~~~l~CpyHgW~y~~~G~~~~ip~~~~~~~~~~~~~~l~~~~~~~~~G~Iwi~~~~~~~---------~~~~~~~p~~~ 153 (367)
T COG4638 83 GKGRLTCPYHGWTYDLDGRLRGVPARGYPLDFDKSEHGLKRYPVEERYGFIWIWLGDPPP---------AAEAFLPPAEP 153 (367)
T ss_pred CCceEecCCCceEECCCCcEecCCccccCCCCCHhhCCccccceEEEccEEEEecCCCcc---------ChhHhcccccc
Confidence 8 8999999999999999999999654445677566899999999999999999998874 23334433322
Q ss_pred hhhhcCCCCCeEE-EEEEEEEeCcccchhhhhcCCCCCCCCCcCccccccCCccc---ccccccCceee-eeecCCCCCC
Q 039874 191 ILSINGIDSSLSY-LCRREYTIECNWKVFCDNYLDGGYHVPYAHKGLASGLQLDS---YSTSLYEKVSI-QRCESGSTEG 265 (382)
Q Consensus 191 ~l~~~~~d~~~~~-~~~~~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~~~~~---~~~~~~~~~~~-~~~~~~~~~~ 265 (382)
. +. .++.. .+.....+++|||.++||++|++||++++|+++.+...... +.......... .....+. ..
T Consensus 154 ~-~~----~~~~~~~~~~~~~~~~nwk~~vEn~~d~~~H~~~vH~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-~~ 227 (367)
T COG4638 154 Y-ED----DRSRLGGGSFTINVPGNWKLAVENNLDDPYHVPFVHPGLLGTEPHTEVGAYDVTAGGHWDVILATGNPF-FQ 227 (367)
T ss_pred c-cc----ccccccCceEEEEecccceEEeeccCCccccccccCHHHhcccccccccccccccCCceeeeeccCCCc-cC
Confidence 1 11 12222 24566788999999999777657999999999877543322 22222111111 1111100 00
Q ss_pred Ccc-------cc-c--c-CCccEEEEecCce--eeccCCCeEEEEEEEEcCCCeEEEEEEEEEcCCCCChHHHHH-Hhcc
Q 039874 266 TDD-------TH-R--L-GSKAIYAFIYPNF--MINRYGPWMDTNLVIPLAPTRCKVVFDYFLDGSLKDDKAFIE-QSLK 331 (382)
Q Consensus 266 ~~~-------~~-~--~-g~~~~~~~lfPn~--~i~~~~~~~~~~~~~P~s~~~t~v~~~~~~~~~~~~~~~~~~-~~~~ 331 (382)
+.. .. . . -......+++||. ..........+..+.|+++++|.++..+++.....+..+... .+..
T Consensus 228 p~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 307 (367)
T COG4638 228 PLGSEASSYGFDGNYEVHVPGAYLLFLYPNSTVWNHVTVDDVIVFFVQPIDEDETMVTLVWLVLPDLVEGVDYFDKLIRR 307 (367)
T ss_pred CcchhhhccccccccccccCceeEEEEcCCchheeeecccceeEEEEEecCCceeEEEeeeeeccchhhHHHHHHHHHHH
Confidence 000 00 0 0 1123456899984 444455567788999999999999998877766544333323 3344
Q ss_pred ccCCchhhHHHHHHHHhhcccCCCCCCCCCCCCcChHHHHHHHHHHHHhc
Q 039874 332 DSEQVQMEDIILCEGVQRGLESPAYCSGRYAPSVEQTMYHFHSLLHCNLT 381 (382)
Q Consensus 332 ~~~~v~~ED~~i~e~~q~~l~s~~~~~g~~~~~~E~~i~~f~~~~~~~l~ 381 (382)
....++.||.+|+|.+|.++.+..+..|.+....+....++++|+++.+.
T Consensus 308 ~~~~~~~qD~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 357 (367)
T COG4638 308 FRQEILDQDREILENQQPGRLSPALERGPYPIREDAGSVQFRRWLAERLV 357 (367)
T ss_pred HhccCcHHHHHHHHHHhcccccccccCCCccccccchhhHHHHHHHHHHh
Confidence 66779999999999999999998887888888889999999999988764
No 4
>PLN02281 chlorophyllide a oxygenase
Probab=100.00 E-value=6.9e-46 Score=364.22 Aligned_cols=290 Identities=19% Similarity=0.238 Sum_probs=211.9
Q ss_pred ccccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecCCCce
Q 039874 51 VFYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGLDGTL 130 (382)
Q Consensus 51 if~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~G~~ 130 (382)
.|++.|++||.++||+ +|+++.+++.|++|+|+|+.+|+++|+.|+|||||++|+.|.+.++.|+||||||+||.+|+|
T Consensus 216 ~lrn~Wy~Va~s~EL~-~g~~~~v~llG~~IVL~R~~dG~v~A~~D~CPHRgaPLs~G~v~g~~L~CPYHGW~FD~dG~c 294 (536)
T PLN02281 216 HLKNFWYPVAFTADLK-HDTMVPIECFEQPWVIFRGEDGKPGCVRNTCAHRACPLDLGTVNEGRIQCPYHGWEYSTDGEC 294 (536)
T ss_pred hhhcccEEEEEHHHCC-CCCeEEEEECCEEEEEEECCCCeEEEEeCcCcCCCCccccceeeCCEEEeCCCCCEECCCCCE
Confidence 6889999999999999 488999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecccccCCCCCCccCCCCcceeeEEECcEEEEEcCCCccccccccccchhHhhhCChhhhhhhcCCCCCeEEEEEEEEE
Q 039874 131 LKATRITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKEAVHQEEVDSNVVANEWLGGSSEILSINGIDSSLSYLCRREYT 210 (382)
Q Consensus 131 ~~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~~~~~~~~~~~~~~e~l~~~~~~l~~~~~d~~~~~~~~~~~~ 210 (382)
+.+|..+. ...++++|||++++|+|||++++++++ +.++ .++. ..++.......++
T Consensus 295 v~iP~~~~------~~~~l~sYPV~e~~GlVwV~lgd~~~a-------P~~p-~ld~----------p~~~~~~~~~~~~ 350 (536)
T PLN02281 295 KKMPSTKL------LKVKIKSLPCLEQEGMIWIWPGDEPPA-------PILP-SLQP----------PSGFLIHAELVMD 350 (536)
T ss_pred eeCCCCcc------ccCCcceEeEEEECCEEEEEeCCCCCC-------CCCc-cccC----------cccceEEEEEEEE
Confidence 99998542 246799999999999999999875421 1122 2221 0133333345678
Q ss_pred eCcccchhhhhcCCCCCCCCCcCccccccCCcccccccccCceeeeeecCCCCCCCccccccCCccEEEEecCceeeccC
Q 039874 211 IECNWKVFCDNYLDGGYHVPYAHKGLASGLQLDSYSTSLYEKVSIQRCESGSTEGTDDTHRLGSKAIYAFIYPNFMINRY 290 (382)
Q Consensus 211 ~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~lfPn~~i~~~ 290 (382)
++||||+++||++| +||++++|+++++... ..... .... ..... .++.+... ...+.|+.|+++....
T Consensus 351 ~~~nwkllvENllD-~~H~~fvH~~t~g~~~--~~p~~----v~~~-~~~~~--~~p~~~~~--pv~~~f~aP~~v~l~i 418 (536)
T PLN02281 351 LPVEHGLLLDNLLD-LAHAPFTHTSTFAKGW--SVPSL----VKFL-TPTSG--LQGYWDPY--PIDMEFKPPCIVLSTI 418 (536)
T ss_pred ecCCHHHHHHhccc-cccccccCcccccCcc--cCCce----eEEe-cccCC--CCcccccC--CceEEEECcEEEEEee
Confidence 99999999999999 8999999999877421 11100 1111 11100 01111111 1246788999887542
Q ss_pred C-----------------CeEEEEEEEEcCCCeEEEEEEEEEcCCCCC--hHHHHHH-hccccCCchhhHHHHHHHHhhc
Q 039874 291 G-----------------PWMDTNLVIPLAPTRCKVVFDYFLDGSLKD--DKAFIEQ-SLKDSEQVQMEDIILCEGVQRG 350 (382)
Q Consensus 291 ~-----------------~~~~~~~~~P~s~~~t~v~~~~~~~~~~~~--~~~~~~~-~~~~~~~v~~ED~~i~e~~q~~ 350 (382)
+ ..+.++.++|+++++|++++.+ .+....+ +.++.++ +.....+++.||..|+|+||+.
T Consensus 419 ~~~~~G~~~~~~~~~~~~~~~~~h~~TPeT~~sTryF~~~-~Rnf~~~~~d~~~~~~~l~~~~~~vF~ED~~iLEaQQ~~ 497 (536)
T PLN02281 419 GISKPGKLEGKSTQQCATHLHQLHVCLPSSKNKTRLLYRM-SLDFAPILKNLPFMEHLWRHFAEQVLNEDLRLVLGQQER 497 (536)
T ss_pred ccccCCccccccccccccceEEEEEEEECCCCeEEEEEEe-cccCccccccccchHHHHHHHhhHhhHhHHHHHHHHHHH
Confidence 1 1246778899999999998853 3343333 2334444 4445667999999999999999
Q ss_pred ccCCCCCCCCCCCCcChHHHHHHHHHHHH
Q 039874 351 LESPAYCSGRYAPSVEQTMYHFHSLLHCN 379 (382)
Q Consensus 351 l~s~~~~~g~~~~~~E~~i~~f~~~~~~~ 379 (382)
+..+... -.+....|.++.+||+|+++.
T Consensus 498 i~~~~~~-~~l~l~aD~~~v~~RRWl~~~ 525 (536)
T PLN02281 498 MLNGANI-WNLPVAYDKLGVRYRLWRNAV 525 (536)
T ss_pred hhccccc-ccccchhhHHHHHHHHHHHHh
Confidence 9774311 123346899999999999874
No 5
>PLN02518 pheophorbide a oxygenase
Probab=100.00 E-value=7.2e-43 Score=349.34 Aligned_cols=307 Identities=15% Similarity=0.250 Sum_probs=208.7
Q ss_pred HHHHHhccccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEc-CCCcEEEEeccCcCCCCccccCCCC-cceEEccCCCc
Q 039874 45 ALELHRVFYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRD-DNGKIHAFHNVCRHHASILATGSGK-KSWFVCPYHGW 122 (382)
Q Consensus 45 ~~E~~~if~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~-~~g~~~a~~n~C~Hrg~~L~~g~~~-~~~i~CpyHgw 122 (382)
..+.+-+|++.|++||.++||+ +|+++.++++|++|||+|+ .+|+++||+|+|||||++|+.|.++ ++.|+||||||
T Consensus 80 ~~~~~f~~~~~Wy~Va~~~dL~-~g~p~~~~llG~~lVl~Rd~~~G~~~A~~d~CPHRgapLS~G~v~~~g~L~CpYHGW 158 (539)
T PLN02518 80 SSDSKFSWRDHWYPVSLVEDLD-PSVPTPFQLLGRDLVLWKDPNQGEWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGW 158 (539)
T ss_pred ccchhhhhhhhCEEEEEHHHCC-CCCeEEEEECCEEEEEEEECCCCeEEEEcccCcCcCCCcccceecCCCEEEcCCCCC
Confidence 3445568999999999999997 6889999999999999998 8999999999999999999999985 67899999999
Q ss_pred eecCCCceeecccccCCCCC----CccCCCCcceeeEEECcEEEEEcCCCcc--ccccccccchhHhhhCChhhhhhhcC
Q 039874 123 TYGLDGTLLKATRITGIKDF----NVKEFGLVPLEVATWGPFVLLNMGKEAV--HQEEVDSNVVANEWLGGSSEILSING 196 (382)
Q Consensus 123 ~f~~~G~~~~~p~~~~~~~~----~~~~~~l~~~~v~~~~g~v~v~~~~~~~--~~~~~~~~~~~~e~l~~~~~~l~~~~ 196 (382)
+||++|+|+.+|..+..... ......+++|||++++|+|||++++++. +.+.. .|.+.+. +.
T Consensus 159 ~Fd~~G~c~~IP~~~~~~~~~~~~~~~~a~v~sypv~e~~GlIwV~~~~~~~~~a~~~~--~P~~~~~-------~~--- 226 (539)
T PLN02518 159 SFDGCGSCTRIPQAAPEGPEARAVKSPRACAIKFPTMVSQGLLFVWPDENGWERAQATK--PPMLPDE-------FD--- 226 (539)
T ss_pred EEcCCCCeeecccccccccccccccCcccccceEeEEEECCEEEEEeCCcccccccccc--CCCCccc-------cc---
Confidence 99999999999975432111 1123469999999999999999987521 11110 0112111 11
Q ss_pred CCCCeEEEEEEEEEeCcccchhhhhcCCCCCCCCCcCccccccCCcccccccccCceeeeeec-CCCCCCCccccccCCc
Q 039874 197 IDSSLSYLCRREYTIECNWKVFCDNYLDGGYHVPYAHKGLASGLQLDSYSTSLYEKVSIQRCE-SGSTEGTDDTHRLGSK 275 (382)
Q Consensus 197 ~d~~~~~~~~~~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~g~~ 275 (382)
+.++... ....+++++|++++||++| .||++++|+++++..+..... .+.+.... .+.. +....+..
T Consensus 227 -~~~~~~~-~~~~~~~~~~~~l~EN~lD-~sH~pfvH~~~~G~~~~~~~~-----~~~v~~~~~~Gf~----g~~~~~~~ 294 (539)
T PLN02518 227 -DPEFSTV-TIQRDLFYGYDTLMENVSD-PSHIDFAHHKVTGRRDRAKPL-----PFKVESSGPWGFA----GANSDNPR 294 (539)
T ss_pred -CCCceeE-EEEEEEecCchhHHHhCCc-cchhceeccccccCccccccc-----cceEEEcCCCccc----ccccCCCc
Confidence 1233332 2335789999999999999 899999999987753221110 01111110 0000 00011222
Q ss_pred cEEEEecCceeeccC---------C----CeEEEEEEEEcCCCeEEEEEEEEEcCC---CCC-------hHHHHHHhccc
Q 039874 276 AIYAFIYPNFMINRY---------G----PWMDTNLVIPLAPTRCKVVFDYFLDGS---LKD-------DKAFIEQSLKD 332 (382)
Q Consensus 276 ~~~~~lfPn~~i~~~---------~----~~~~~~~~~P~s~~~t~v~~~~~~~~~---~~~-------~~~~~~~~~~~ 332 (382)
....|..|++++... + ..+.++.++|+++++|++++... +.. ... .+.|..+..
T Consensus 295 ~~~~F~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tP~s~g~tr~f~~~~-Rnf~~~~~~~~~~~k~~PrW~~h~~-- 371 (539)
T PLN02518 295 ITAKFVAPCYYINKIEIDTKLPIVGDQKWVIWICSFNVPMAPGKTRSIVCSA-RNFFQFSMPGPAWWQLVPRWYEHWT-- 371 (539)
T ss_pred eEEEEECCeEEEEeeeeeccccCCCCcceEEEEEEEEEECCCCeEEEEEEec-ccchhccccchhhhhcCchHHHHhh--
Confidence 345688998865421 1 11244678999999999987433 221 111 123333332
Q ss_pred cCCchhhHHHHHHHHhhcccCCC----------CCCCCCCC-CcChHHHHHHHHHHHH
Q 039874 333 SEQVQMEDIILCEGVQRGLESPA----------YCSGRYAP-SVEQTMYHFHSLLHCN 379 (382)
Q Consensus 333 ~~~v~~ED~~i~e~~q~~l~s~~----------~~~g~~~~-~~E~~i~~f~~~~~~~ 379 (382)
..+|++||+.+++.|++.+.... +....++| .+|+.+..||+|++++
T Consensus 372 ~n~Vl~~D~~~lh~Qe~~~~~~~~e~~~~v~~~w~k~~~~Pt~aD~~viayR~Wl~~~ 429 (539)
T PLN02518 372 SNKVYDGDMIVLQGQEKIFLSKSGEGSADVNAQYTKLTFTPTQADRFVLAFRNWLRRH 429 (539)
T ss_pred hccchHhHHHHHHHHHHHHhhccccccccchhhhhhhccCCCchhHHHHHHHHHHHHh
Confidence 46899999999999998874421 22223333 6899999999999986
No 6
>cd03545 Rieske_RO_Alpha_OHBDO_like Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H), terephthalate 1,2-dioxygenase system (TERDOS) and similar proteins. ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. OHBDO converts 2-chlorobenzoate (2-CBA) to catechol as well as 2,4-dCBA and 2,5-dCBA to 4-chlorocatechol, as part of the chlorobenzoate degradation pathway. Although ortho-substituted chlorobe
Probab=100.00 E-value=1.5e-38 Score=270.44 Aligned_cols=138 Identities=32% Similarity=0.653 Sum_probs=127.0
Q ss_pred CCCCCccCCHHHHHHHHHhccc-cCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccC-C
Q 039874 32 TPPSSWYTDPSFLALELHRVFY-RSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATG-S 109 (382)
Q Consensus 32 ~lp~~~Y~~~~~~~~E~~~if~-~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g-~ 109 (382)
.+|+++|+|+++|+.|+++||+ +.|++||++++|+++|+++++.++|++|+|+|+.+|+++|+.|+|||||++|+.| .
T Consensus 1 ~~~~~~y~d~~~~~~E~~~if~~~~W~~v~~~~el~~~g~~~~~~i~g~~iiv~r~~~g~v~A~~n~CpHrg~~L~~g~~ 80 (150)
T cd03545 1 RVPYKVFTDRAYFDREQERIFRGKTWSYVGLEAEIPNAGDFKSTFVGDTPVVVTRAEDGSLHAWVNRCAHRGALVCRERR 80 (150)
T ss_pred CCChhhccCHHHHHHHHHhhhCCCceEEEEEHHHCCCCCCEEEEEECCceEEEEECCCCCEEEEcccCcCCCCEeccccc
Confidence 3688999999999999999998 9999999999999889999999999999999998999999999999999999977 4
Q ss_pred CCcceEEccCCCceecCCCceeecccccCC-------CCCCccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 110 GKKSWFVCPYHGWTYGLDGTLLKATRITGI-------KDFNVKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 110 ~~~~~i~CpyHgw~f~~~G~~~~~p~~~~~-------~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
++++.|+||||||+||++|+|+++|...++ ..+++...+|++++|++++|+|||+|++++
T Consensus 81 g~~~~i~CP~Hgw~Fdl~G~~~~ip~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~ifv~l~~~~ 147 (150)
T cd03545 81 GNDGSLTCVYHQWAYDLKGNLKGVPFRRGLKGQGGMPKDFDMKQHGLEKLRVETVGGLVFASFSDEV 147 (150)
T ss_pred CCCCEEECCCCCCEECCCCCEEECccccccccccccccCcCHHHCCCcceeEeEECCEEEEEeCCCC
Confidence 566789999999999999999999986553 246777889999999999999999999876
No 7
>PLN00095 chlorophyllide a oxygenase; Provisional
Probab=100.00 E-value=3e-37 Score=290.98 Aligned_cols=273 Identities=14% Similarity=0.151 Sum_probs=184.5
Q ss_pred cccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecCCCcee
Q 039874 52 FYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGLDGTLL 131 (382)
Q Consensus 52 f~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~G~~~ 131 (382)
.++.|++||+++||+++|+++.+++.|++|+|+|+.+|+++|+.|+|||||++|++|.+.++.|+||||||+||.+|+|+
T Consensus 69 ~r~~WypVa~ssdL~~~g~~~~f~L~GepIVL~Rd~dGqv~Af~N~CPHRGapLSeG~v~~g~L~CPYHGW~FD~~G~C~ 148 (394)
T PLN00095 69 ARAHWFPVAFAAGLRDEDALIAFDLFNVPWVLFRDADGEAGCIKDECAHRACPLSLGKLVDGKAQCPYHGWEYETGGECA 148 (394)
T ss_pred hhcCeEEEEEHHHCCCCCceEEEEECCEEEEEEECCCCCEEEEeccCCCCCCccccCcccCCEEEecCCCcEECCCCCEe
Confidence 36899999999999668999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecccccCCCCCCccCCCCcceeeEEECcEEEEEcCCCcccccccc-ccchhHhhhCC-----hhhhhhhcCCCCCeEEEE
Q 039874 132 KATRITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKEAVHQEEVD-SNVVANEWLGG-----SSEILSINGIDSSLSYLC 205 (382)
Q Consensus 132 ~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~~~~~~~~-~~~~~~e~l~~-----~~~~l~~~~~d~~~~~~~ 205 (382)
.+|+.... . ....+++|||++++|+|||++++..++ +.. +...-+.++.+ .+..+... +.+....
T Consensus 149 ~iP~~~~~---~-~~~~v~tYPV~e~dGlVwVw~G~~~p~--dflg~~~~~e~~~~~~~~~~~P~~~~~~---~gf~~~a 219 (394)
T PLN00095 149 KMPSCKKF---L-KGVFADAAPVIERDGFIFLWAGESDPA--DFVGPEAACESIDDDVLAANEPGMFAPG---EGFTPMA 219 (394)
T ss_pred eCCCcccc---c-cccccceEEEEEECCEEEEEeCCcchh--hhccccccccccccchhhccCCcccCCC---CCceEEE
Confidence 99975432 1 134688999999999999999864321 000 00000011111 00111111 2344433
Q ss_pred EEEEEeCcccchhhhhcCCCCCC-CCCcCccccccC-Ccc----cccccccCceeeeeecCCCCCCCccccccCCccEEE
Q 039874 206 RREYTIECNWKVFCDNYLDGGYH-VPYAHKGLASGL-QLD----SYSTSLYEKVSIQRCESGSTEGTDDTHRLGSKAIYA 279 (382)
Q Consensus 206 ~~~~~~~~NWK~~vEN~~D~~yH-~~~vH~~~~~~~-~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 279 (382)
....++++.|.+++||.+| ..| .+++|+.++... ... .+..++... ....+ ...++... +...
T Consensus 220 ev~~Dlp~d~~~L~ENllD-~aH~a~~~~t~tf~~~~~~r~~~~~~~~~~~~~-~~~~l-------~g~~~~~p--~~~~ 288 (394)
T PLN00095 220 EVIADIKLDADEVLERLLA-IGERARREATVSFDVSDAKRGRDALFPVDGTKI-IAKVL-------RGGRDAVP--QSAT 288 (394)
T ss_pred EEEEeccccHHHHHHhhcC-ccccCCccCceeeecccccccccCccchhhhhh-hhhhh-------eeecccCC--ccee
Confidence 4446999999999999999 799 599998766421 110 011111000 00001 11122222 2345
Q ss_pred EecCceeeccCC------------Ce-EEEEEEEEcCCCeEEEEEEEEEcCCCCChHHHHHH-----hccccCCchhhHH
Q 039874 280 FIYPNFMINRYG------------PW-MDTNLVIPLAPTRCKVVFDYFLDGSLKDDKAFIEQ-----SLKDSEQVQMEDI 341 (382)
Q Consensus 280 ~lfPn~~i~~~~------------~~-~~~~~~~P~s~~~t~v~~~~~~~~~~~~~~~~~~~-----~~~~~~~v~~ED~ 341 (382)
|..|+++.+..+ .+ .+++.+.|.++++||+.+++.+.-... +.+.+. ...+..+|+.||+
T Consensus 289 F~ppc~~~s~i~l~~~~g~~~~~~~~l~qlhvclP~~~G~tRll~R~~~dF~~~--~~~~~~~~~~~w~~~a~~vl~e~l 366 (394)
T PLN00095 289 FKPACVIASTIALEDGPGGGDGTDMNVEQLHVCLPAKPGLCRLLFRLAFDFVAV--PEGAQAAAGDVWANLAMMVLKEEL 366 (394)
T ss_pred EcCceeeeeeecccccCCCCccccceeeeEEEEEecCCCceEEEEeeccccccc--HHHhHhchHHHHHHHHHHHHHHHH
Confidence 899998865321 13 367889999999999999887654321 222211 1234578999999
Q ss_pred HHHHH
Q 039874 342 ILCEG 346 (382)
Q Consensus 342 ~i~e~ 346 (382)
+++.+
T Consensus 367 ~~v~~ 371 (394)
T PLN00095 367 EDVRA 371 (394)
T ss_pred HHHhc
Confidence 98865
No 8
>cd03538 Rieske_RO_Alpha_AntDO Rieske non-heme iron oxygenase (RO) family, Anthranilate 1,2-dioxygenase (AntDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. AntDO converts anthranilate to catechol, a naturally occurring compound formed through tryptophan degradation and an important intermediate in the metabolism of many N-heterocyclic compounds such as indole, o-nitrobenzoate, carbazole, and quinaldine.
Probab=100.00 E-value=1.2e-36 Score=257.83 Aligned_cols=135 Identities=32% Similarity=0.709 Sum_probs=123.6
Q ss_pred CCccCCHHHHHHHHHhccccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccc-cCCCC-c
Q 039874 35 SSWYTDPSFLALELHRVFYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILA-TGSGK-K 112 (382)
Q Consensus 35 ~~~Y~~~~~~~~E~~~if~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~-~g~~~-~ 112 (382)
.++|+|+++|+.|+++||++.|+.||++++|+++|++++++++|++|+|+|+.+|+++|+.|+|||||++|+ .+.+. +
T Consensus 2 ~~~y~~~~~~~~e~~~i~~~~W~~v~~~~elp~~G~~~~~~i~g~~i~v~r~~~g~v~A~~n~CpHrg~~L~~~~~g~~~ 81 (146)
T cd03538 2 KDVYTDPEIFALEMERLFGNAWIYVGHESQVPNPGDYITTRIGDQPVVMVRHTDGSVHVLYNRCPHKGTKIVSDGCGNTG 81 (146)
T ss_pred CceEcCHHHHHHHHHHHhhcCCEEEEEHHHCCCCCCEEEEEECCeeEEEEECCCCCEEEEeccCcCCCCEeecccccccC
Confidence 368999999999999999999999999999998899999999999999999989999999999999999997 45454 4
Q ss_pred ceEEccCCCceecCCCceeecccccCCC--CCCc--cCCCCcce-eeEEECcEEEEEcCCCc
Q 039874 113 SWFVCPYHGWTYGLDGTLLKATRITGIK--DFNV--KEFGLVPL-EVATWGPFVLLNMGKEA 169 (382)
Q Consensus 113 ~~i~CpyHgw~f~~~G~~~~~p~~~~~~--~~~~--~~~~l~~~-~v~~~~g~v~v~~~~~~ 169 (382)
+.|+||||||+||+||+|+++|..++++ +|++ ...+|+++ +|++++|||||++++++
T Consensus 82 ~~i~CP~Hgw~Fd~~G~~~~~p~~~~~~~~~~~~~~~~~~L~~~~~v~~~~g~ifv~~~~~~ 143 (146)
T cd03538 82 KFFRCPYHAWSFKTDGSLLAIPLKKGYEGTGFDPSHADKGMQRVGAVDIYRGFVFARLSPSG 143 (146)
T ss_pred CEEECCCCCCEECCCCCEEECCchhcCCcccCCcchhhCCCCcceeEEEECCEEEEEcCCCC
Confidence 5799999999999999999999988765 5665 37899999 79999999999999876
No 9
>cd03541 Rieske_RO_Alpha_CMO Rieske non-heme iron oxygenase (RO) family, Choline monooxygenase (CMO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. CMO is a novel RO found in certain plants which catalyzes the first step in betaine synthesis. CMO is not found in animals or bacteria. In these organisms, the first step in betaine synthesis is catalyzed by either the membrane-bound choline dehydrogenase (CDH) or the soluble choline oxidase (COX).
Probab=100.00 E-value=2e-34 Score=234.76 Aligned_cols=115 Identities=68% Similarity=1.309 Sum_probs=110.9
Q ss_pred CCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecCCCceeecc
Q 039874 55 SWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGLDGTLLKAT 134 (382)
Q Consensus 55 ~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~G~~~~~p 134 (382)
+|++||+++||+++|++++++++|++|+|+|+.+|+++|+.|+|||||++|+.|.++++.|+||||||+||++|+|+.+|
T Consensus 1 ~W~~v~~~~el~~~g~~~~~~~~g~~i~v~r~~dg~v~A~~n~C~Hrg~~L~~g~~~~~~i~CP~Hgw~f~l~G~l~~~P 80 (118)
T cd03541 1 GWQVAGYSDQVKEKNQYFTGRLGNVEYVVCRDGNGKLHAFHNVCTHRASILACGSGKKSCFVCPYHGWVYGLDGSLTKAT 80 (118)
T ss_pred CCEEEEEHHHCCCCCCeEEEEECCeEEEEEECCCCCEEEEeCCCCCCcCCccCCccccCEEEeCCCCCEEcCCCeEEeCC
Confidence 59999999999999999999999999999999999999999999999999999999988999999999999999999999
Q ss_pred cccCCCCCCccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 135 RITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 135 ~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
...+++.|+++..+|++++|++++|||||+++++.
T Consensus 81 ~~~~~~~~~~~~~~L~~~~~~~~~g~vfv~~~~~~ 115 (118)
T cd03541 81 QATGIQNFNPKELGLVPLKVAEWGPFVLISVDRSL 115 (118)
T ss_pred CcccccCCCHHHCCCceEeEEEECCEEEEEeCCCc
Confidence 99999999999999999999999999999999764
No 10
>cd03472 Rieske_RO_Alpha_BPDO_like Rieske non-heme iron oxygenase (RO) family, Biphenyl dioxygenase (BPDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of BPDO and similar proteins including cumene dioxygenase (CumDO), nitrobenzene dioxygenase (NBDO), alkylbenzene dioxygenase (AkbDO) and dibenzofuran 4,4a-dioxygenase (DFDO). ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. BPDO degrades biphenyls and polychlorinated biphenyls (PCB's) while CumDO degrades cumene (isopropylbenzene), an aromatic hydrocarbon that is i
Probab=100.00 E-value=1.2e-33 Score=234.13 Aligned_cols=122 Identities=29% Similarity=0.619 Sum_probs=111.2
Q ss_pred HHhccccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCC-CcceEEccCCCceecC
Q 039874 48 LHRVFYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSG-KKSWFVCPYHGWTYGL 126 (382)
Q Consensus 48 ~~~if~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~-~~~~i~CpyHgw~f~~ 126 (382)
+++||++.|+.||+++||+++|++.++++++++|+|+|+.+|+++|+.|+|||||++|+.|.. +++.|+||||||+||+
T Consensus 1 ~~~i~~~~W~~v~~~~el~~~g~~~~~~~~~~~i~l~r~~~g~i~A~~n~C~Hrg~~L~~g~~g~~~~i~CP~Hgw~fd~ 80 (128)
T cd03472 1 LERVFARSWLLLGHETHIPKAGDYLTTYMGEDPVIVVRQKDGSIRVFLNQCRHRGMRICRSDAGNAKAFTCTYHGWAYDT 80 (128)
T ss_pred CcchhhCCCeEeEEHHHCCCCCCEEEEEECCceEEEEECCCCCEEEEhhhCcCCCCeeeccCCCCcCEEECCcCCeEECC
Confidence 367899999999999999988998899999999999999999999999999999999998764 4568999999999999
Q ss_pred CCceeecccccC-C-CCCCccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 127 DGTLLKATRITG-I-KDFNVKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 127 ~G~~~~~p~~~~-~-~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
+|+|+++|..+. + ..|++...+|++++|++++|||||++++++
T Consensus 81 ~G~~~~~P~~~~~~~~~~~~~~~~l~~~~v~~~~g~vfv~~~~~~ 125 (128)
T cd03472 81 AGNLVNVPFEKEAFCDGLDKADWGPLQARVETYKGLIFANWDAEA 125 (128)
T ss_pred CcCEEeccCcccccccCCCHHHCCCcceeEeEECCEEEEEcCCCC
Confidence 999999999654 3 367777889999999999999999999986
No 11
>cd03539 Rieske_RO_Alpha_S5H This alignment model represents the N-terminal rieske iron-sulfur domain of the oxygenase alpha subunit (NagG) of salicylate 5-hydroxylase (S5H). S5H converts salicylate (2-hydroxybenzoate), a metabolic intermediate of phenanthrene, to gentisate (2,5-dihydroxybenzoate) as part of an alternate pathway for naphthalene catabolism. S5H is a multicomponent enzyme made up of NagGH (the oxygenase components), NagAa (the ferredoxin reductase component), and NagAb (the ferredoxin component). The oxygenase component is made up of alpha (NagG) and beta (NagH) subunits.
Probab=100.00 E-value=3.7e-33 Score=231.46 Aligned_cols=114 Identities=37% Similarity=0.707 Sum_probs=105.0
Q ss_pred CeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCC-CCcceEEccCCCceecCCCceeecc
Q 039874 56 WQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGS-GKKSWFVCPYHGWTYGLDGTLLKAT 134 (382)
Q Consensus 56 W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~-~~~~~i~CpyHgw~f~~~G~~~~~p 134 (382)
|++||+++||+++|+++++.+++.+|+|+|+.||+++||.|+|||||++|+.|. ++.+.|+||||||+||++|+|+++|
T Consensus 1 W~~v~~~~~l~~~g~~~~~~~~~~~v~v~r~~dg~v~A~~n~C~Hrg~~L~~g~~~~~~~l~CPyHgw~fdl~G~l~~~p 80 (129)
T cd03539 1 WCYVGLEAEIPNPGDFKRTLIGERSVIMTRDPDGGINVVENVCAHRGMRFCRERNGNAKDFVCPYHQWNYSLKGDLQGVP 80 (129)
T ss_pred CEEEEEHHHCCCCCCEEEEEECCcEEEEEECCCCCEEEEeccCcCCCCEeeeeccCccCEEECCCCCCEECCCCCEeecc
Confidence 999999999998899999999999999999999999999999999999999765 4557899999999999999999999
Q ss_pred cccCC-----------CCCCccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 135 RITGI-----------KDFNVKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 135 ~~~~~-----------~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
...++ +.|++...+|++++|++++|+|||++++++
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~Ifv~~~~~~ 126 (129)
T cd03539 81 FRRGVKKDGKVNGGMPKDFKTKDHGLTKLKVATRGGVVFASFDHDV 126 (129)
T ss_pred ccccccccccccccccCCcChHHCCCceeeEeEECCEEEEEeCCCC
Confidence 87654 357777889999999999999999999886
No 12
>cd04338 Rieske_RO_Alpha_Tic55 Tic55 is a 55kDa LLS1-related non-heme iron oxygenase associated with protein transport through the plant inner chloroplast membrane. This domain represents the N-terminal Rieske domain of the Tic55 oxygenase alpha subunit. Tic55 is closely related to the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic cyanobacterial photosynthesizers including LLS1 (lethal leaf spot 1, also known as PaO), Ptc52, and ACD1 (accelerated cell death 1). ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis.
Probab=99.98 E-value=6.1e-32 Score=225.92 Aligned_cols=119 Identities=19% Similarity=0.362 Sum_probs=106.2
Q ss_pred HhccccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecCCC
Q 039874 49 HRVFYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGLDG 128 (382)
Q Consensus 49 ~~if~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~G 128 (382)
+.+|++.|++|+.+++|++ |..+.++++|++|+|+|+.+|+++||+|+|||||++|+.|.+.++.|+||||||+||++|
T Consensus 11 ~~~~~~~W~~v~~~~el~~-~~~~~~~v~g~~ivl~r~~~G~v~A~~n~CpHrga~L~~G~~~~~~i~CP~Hgw~Fd~~G 89 (134)
T cd04338 11 EYDWREEWYPLYLLKDVPT-DAPLGLSVYDEPFVLFRDQNGQLRCLEDRCPHRLAKLSEGQLIDGKLECLYHGWQFGGEG 89 (134)
T ss_pred ccccccCcEEEEEHHHCCC-CCCEEEEECCceEEEEEcCCCCEEEEcCcCCCCcCcccCCeecCCEEEccCCCCEECCCC
Confidence 3479999999999999995 556789999999999999899999999999999999999999889999999999999999
Q ss_pred ceeecccccCCCCCCccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 129 TLLKATRITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 129 ~~~~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
+|+.+|..+....++. ..+|++|+|++++|+|||++++.+
T Consensus 90 ~~~~~P~~~~~~~~~~-~~~l~~y~v~~~~G~V~V~~~~~~ 129 (134)
T cd04338 90 KCVKIPQLPADAKIPK-NACVKSYEVRDSQGVVWMWMSEAT 129 (134)
T ss_pred CEEECCCCCccCCCCc-ccCcceEeEEEECCEEEEEcCCCC
Confidence 9999998665434433 356999999999999999999765
No 13
>cd03479 Rieske_RO_Alpha_PhDO_like Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3,4-dioxygenase (CBDO), phenoxybenzoate dioxygenase (POB-dioxygenase) and 3-nitrobenzoate oxygenase (MnbA). ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. PhDO and CBDO are two-component RO systems, containing oxygenase and reductase components. PhDO catalyzes the dihydroxylation of phthalate to form th
Probab=99.97 E-value=2.8e-31 Score=224.78 Aligned_cols=121 Identities=22% Similarity=0.420 Sum_probs=109.6
Q ss_pred HHhccccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecCC
Q 039874 48 LHRVFYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGLD 127 (382)
Q Consensus 48 ~~~if~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~ 127 (382)
++++|++.|++||++++|+++|+++.++++|++++|+|+.+|+++|+.|+|||||++|+.|.+.++.|+||||||+|+.+
T Consensus 14 ~~~~~~~~W~~v~~~~eL~~~g~~~~~~~~g~~i~v~r~~~G~v~A~~n~CpHrG~~L~~G~~~~~~i~CP~Hgw~F~~~ 93 (144)
T cd03479 14 MGELLRRYWQPVALSSELTEDGQPVRVRLLGEDLVAFRDTSGRVGLLDEHCPHRGASLVFGRVEECGLRCCYHGWKFDVD 93 (144)
T ss_pred hhhHhhCceEEEEEHHHCCCCCCEEEEEECCcEEEEEEeCCCCEEEEcCcCCCCCCcccCCcccCCEEEccCCCcEECCC
Confidence 35689999999999999997799999999999999999989999999999999999999999888899999999999999
Q ss_pred CceeecccccCCCCCCccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 128 GTLLKATRITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 128 G~~~~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
|+|+.+|..+....+ ....+|++|+|++++|+|||++++..
T Consensus 94 G~~~~~P~~~~~~~~-~~~~~l~~~~v~~~~G~I~V~~~~~~ 134 (144)
T cd03479 94 GQCLEMPSEPPDSQL-KQKVRQPAYPVRERGGLVWAYMGPAE 134 (144)
T ss_pred CCEEECCCCccccCC-ccccCcceEeEEEECCEEEEECCCCC
Confidence 999999986654433 34578999999999999999998743
No 14
>cd04337 Rieske_RO_Alpha_Cao Cao (chlorophyll a oxygenase) is a rieske non-heme iron-sulfur protein located within the plastid-envelope inner and thylakoid membranes, that catalyzes the conversion of chlorophyllide a to chlorophyllide b. CAO is found not only in plants but also in chlorophytes and prochlorophytes. This domain represents the N-terminal rieske domain of the oxygenase alpha subunit. ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Cao is closely related to several other plant RO's including Tic 55, a 55 kDa protein associated with protein transport through the inner
Probab=99.97 E-value=4.2e-31 Score=219.28 Aligned_cols=116 Identities=24% Similarity=0.445 Sum_probs=106.8
Q ss_pred HHHhccccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecC
Q 039874 47 ELHRVFYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGL 126 (382)
Q Consensus 47 E~~~if~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~ 126 (382)
+++.+|++.|++|+++++|+ +|+++.++++|++++|+|+.+|+++|++|+|||||++|+.|.+.++.|+||||||+||.
T Consensus 9 ~~~~~~~~~W~~v~~~~el~-~g~~~~~~v~g~~l~l~r~~~g~v~A~~n~CpH~g~~L~~G~~~~~~i~CP~Hgw~Fd~ 87 (129)
T cd04337 9 ELEPGLRNFWYPVEFSKDLK-MDTMVPFELFGQPWVLFRDEDGTPGCIRDECAHRACPLSLGKVIEGRIQCPYHGWEYDG 87 (129)
T ss_pred cccchhhCccEEEEEHHHCC-CCCeEEEEECCcEEEEEECCCCcEEEEeCcCCCCcCCcccCcEeCCEEEeCCCCCEECC
Confidence 56778999999999999999 69999999999999999998999999999999999999999998899999999999999
Q ss_pred CCceeecccccCCCCCCccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 127 DGTLLKATRITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 127 ~G~~~~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
+|+|+.+|..+ ....+|++|++++++|+|||+++++.
T Consensus 88 tG~~~~~P~~~------~~~~~l~~y~v~v~~g~V~V~~~~~~ 124 (129)
T cd04337 88 DGECTKMPSTK------CLNVGIAALPCMEQDGMIWVWPGDDP 124 (129)
T ss_pred CCCEEeCCcCC------CccCCcceEeEEEECCEEEEEcCCCC
Confidence 99999988643 23468999999999999999998765
No 15
>cd03535 Rieske_RO_Alpha_NDO Rieske non-heme iron oxygenase (RO) family, Nathphalene 1,2-dioxygenase (NDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. NDO is a three-component RO system consisting of a reductase, a ferredoxin, and a hetero-hexameric alpha-beta subunit oxygenase component. NDO catalyzes the oxidation of naphthalene to cis-(1R,2S)-dihydroxy-1,2-dihydronaphthalene (naphthalene cis-dihydrodiol) with the consumption of O2 and NAD(P)H. NDO has a relaxed substrate specificity and can oxidize almost 1
Probab=99.97 E-value=9.5e-31 Score=215.72 Aligned_cols=116 Identities=30% Similarity=0.690 Sum_probs=104.4
Q ss_pred cCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCc-ceEEccCCCceecCCCceee
Q 039874 54 RSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKK-SWFVCPYHGWTYGLDGTLLK 132 (382)
Q Consensus 54 ~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~-~~i~CpyHgw~f~~~G~~~~ 132 (382)
+.|+.||+++||+++|++..+.+++++++|+|+.+|+++|+.|+|||||++|+.|...+ +.|+||||||+||.+|+|+.
T Consensus 1 ~~w~~v~~~~el~~~g~~~~~~~~~~~iiv~r~~~g~~~A~~n~CpHrg~~L~~g~~~~~~~i~Cp~Hgw~Fd~tG~~~~ 80 (123)
T cd03535 1 RAWVFLGHESEIPNAGDYVVRYIGDDSFIVCRDEDGEIRAMFNSCRHRGMQVCRAEMGNTSHFRCPYHGWTYRNTGRLVG 80 (123)
T ss_pred CCCEEEEEHHHCCCCCCEEEEEECCeEEEEEECCCCCEEEEcccCccCCCEeeccccCCCCEEECCcCCCEECCCcCEee
Confidence 57999999999998899998899999999999989999999999999999999876654 68999999999999999999
Q ss_pred cccccCC--CCCCccCCCCccee-eEEECcEEEEEcCCCc
Q 039874 133 ATRITGI--KDFNVKEFGLVPLE-VATWGPFVLLNMGKEA 169 (382)
Q Consensus 133 ~p~~~~~--~~~~~~~~~l~~~~-v~~~~g~v~v~~~~~~ 169 (382)
+|...+. .++++...+|++++ +++++|||||+|++++
T Consensus 81 ~p~~~~~~~~~~~~~~~~L~~~~~~e~~~g~vfv~l~~~~ 120 (123)
T cd03535 81 VPAQQEAYGGGFDKSQWGLRPAPNLDSYNGLIFGSLDPKA 120 (123)
T ss_pred CCCcccccccCcCHHHCCCccceeEEEECCEEEEEeCCCC
Confidence 9987653 36777789999997 5678999999999876
No 16
>cd03536 Rieske_RO_Alpha_DTDO This alignment model represents the N-terminal rieske domain of the oxygenase alpha subunit (DitA) of diterpenoid dioxygenase (DTDO). DTDO is a novel aromatic-ring-hydroxylating dioxygenase found in Pseudomonas and other proteobacteria that degrades dehydroabietic acid (DhA). Specifically, DitA hydroxylates 7-oxodehydroabietic acid to 7-oxo-11,12-dihydroxy-8, 13-abietadien acid. The ditA1 and ditA2 genes encode the alpha and beta subunits of the oxygenase component of DTDO while the ditA3 gene encodes the ferredoxin component of DTDO. The organization of the genes encoding the various diterpenoid dioxygenase components, the phylogenetic distinctiveness of both the alpha subunit and the ferredoxin component, and the unusual iron-sulfur cluster of the ferredoxin all suggest that this enzyme belongs to a new class of aromatic ring-hydroxylating dioxygenases.
Probab=99.97 E-value=2.9e-30 Score=212.86 Aligned_cols=114 Identities=27% Similarity=0.559 Sum_probs=102.3
Q ss_pred CeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCC-cceEEccCCCceecCCCceeecc
Q 039874 56 WQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGK-KSWFVCPYHGWTYGLDGTLLKAT 134 (382)
Q Consensus 56 W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~-~~~i~CpyHgw~f~~~G~~~~~p 134 (382)
|+.||+++||+++|++.++.+++.+++|+|+.+|+++|+.|+|||||++|+.|... ...|+||||||+||.+|+++.+|
T Consensus 1 w~~v~~~~el~~~g~~~~~~~~~~~i~v~r~~~g~v~A~~n~CpH~g~~L~~~~~~~~~~i~Cp~Hgw~fd~~G~~~~~p 80 (123)
T cd03536 1 WVLLGHESEIPNKGDFMVRDMGSDSVIVARDKDGEIHVSLNVCPHRGMRISTTDGGNTQIHVCIYHGWAFRPNGDFIGAP 80 (123)
T ss_pred CEEeEEHHHCCCCCCEEEEEECCceEEEEECCCCCEEEEeeeCCCCCCCcccccCCCcCEEECCcCCCEECCCCcEEECC
Confidence 99999999999889999999999999999988999999999999999999976553 46799999999999999999999
Q ss_pred cccCC---CCCCccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 135 RITGI---KDFNVKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 135 ~~~~~---~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
....+ +.+++...+|++++|++++|+|||++++++
T Consensus 81 ~~~~~~~~~~~~~~~~~L~~~~v~~~~g~Ifv~~~~~~ 118 (123)
T cd03536 81 VEKECMHGKMRTKAELGLHKARVTLYGGLIFATWNIDG 118 (123)
T ss_pred ccccccccCCCCHHHCCCcceeEEEECCEEEEEeCCCC
Confidence 86543 235566788999999999999999999876
No 17
>cd03537 Rieske_RO_Alpha_PrnD This alignment model represents the N-terminal rieske domain of the oxygenase alpha subunit of aminopyrrolnitrin oxygenase (PrnD). PrnD is a novel Rieske N-oxygenase that catalyzes the final step in the pyrrolnitrin biosynthetic pathway, the oxidation of the amino group in aminopyrrolnitrin to a nitro group, forming the antibiotic pyrrolnitrin. The biosynthesis of pyrrolnitrin is one of the best examples of enzyme-catalyzed arylamine oxidation. Although arylamine oxygenases are widely distributed within the microbial world and used in a variety of metabolic reactions, PrnD represents one of only two known examples of arylamine oxygenases or N-oxygenases involved in arylnitro group formation, the other being AurF involved in aureothin biosynthesis.
Probab=99.97 E-value=5.2e-30 Score=210.06 Aligned_cols=114 Identities=22% Similarity=0.339 Sum_probs=100.5
Q ss_pred cCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecCCCceeec
Q 039874 54 RSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGLDGTLLKA 133 (382)
Q Consensus 54 ~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~G~~~~~ 133 (382)
+.|++|+.+++|+ ++.+.+++.|++++|+|+.+|+++|++|+|||||++|+.|.+.++.|+||||||+||.+|+|+.+
T Consensus 2 ~~W~~v~~~~~l~--~~~~~~~~~g~~ivl~r~~~g~v~a~~n~CpHrg~~Ls~G~v~~~~l~CpyHGw~Fd~~G~~~~i 79 (123)
T cd03537 2 ASWYVAMRSDDLK--DKPTELTLFGRPCVAWRGATGRAVVMDRHCSHLGANLADGRVKDGCIQCPFHHWRYDEQGQCVHI 79 (123)
T ss_pred CcEEEEEEHHHcC--CCcEEEEECCeEEEEEEccCCEEEEEcCCCCCCCCCccCCEEeCCEEECCCCCCEECCCCCEEEC
Confidence 6799999999996 46788999999999999989999999999999999999999999999999999999999999999
Q ss_pred ccccC-CCCCC--ccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 134 TRITG-IKDFN--VKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 134 p~~~~-~~~~~--~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
|.... .+.+. +...++++|+|+|++|+|||+++++.
T Consensus 80 P~~~~~~~~~~~~p~~~~~~~~pv~e~~G~Vwv~~g~~~ 118 (123)
T cd03537 80 PGHSTAVRRLEPVPRGARQPTLVTAERYGYVWVWYGSPQ 118 (123)
T ss_pred CCCcccccccccCCcccccccEeEEEECCEEEEEcCCCC
Confidence 98543 21111 23468999999999999999998754
No 18
>cd03531 Rieske_RO_Alpha_KSH The alignment model represents the N-terminal rieske iron-sulfur domain of KshA, the oxygenase component of 3-ketosteroid 9-alpha-hydroxylase (KSH). The terminal oxygenase component of KSH is a key enzyme in the microbial steroid degradation pathway, catalyzing the 9 alpha-hydroxylation of 4-androstene-3,17-dione (AD) and 1,4-androstadiene-3,17-dione (ADD). KSH is a two-component class IA monooxygenase, with terminal oxygenase (KshA) and oxygenase reductase (KshB) components. KSH activity has been found in many actino- and proteo- bacterial genera including Rhodococcus, Nocardia, Arthrobacter, Mycobacterium, and Burkholderia.
Probab=99.97 E-value=9e-30 Score=207.39 Aligned_cols=111 Identities=18% Similarity=0.333 Sum_probs=101.9
Q ss_pred CCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecCCCceeecc
Q 039874 55 SWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGLDGTLLKAT 134 (382)
Q Consensus 55 ~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~G~~~~~p 134 (382)
.|+.|+.++||+ +|+++.+++.|++|+|+|+.+|+++|++|+|||||++|+.|.+.++.|+||||||+||++|+|+.+|
T Consensus 1 gW~~v~~~~dl~-~g~~~~~~~~g~~i~l~r~~~g~~~a~~n~CpH~ga~L~~G~~~~~~i~CP~Hg~~fd~~G~~~~~p 79 (115)
T cd03531 1 GWHCLGLARDFR-DGKPHGVEAFGTKLVVFADSDGALNVLDAYCRHMGGDLSQGTVKGDEIACPFHDWRWGGDGRCKAIP 79 (115)
T ss_pred CcEEEEEHHHCC-CCCeEEEEECCeEEEEEECCCCCEEEEcCcCCCCCCCCccCcccCCEEECCCCCCEECCCCCEEECC
Confidence 599999999998 6899999999999999999899999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCccCCCCcceeeEEECcEEEEEcCCCcc
Q 039874 135 RITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKEAV 170 (382)
Q Consensus 135 ~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~~ 170 (382)
.....+ ...+|++|+|++++|+|||+++++..
T Consensus 80 ~~~~~p----~~~~l~~ypv~~~~g~v~v~~~~~~~ 111 (115)
T cd03531 80 YARRVP----PLARTRAWPTLERNGQLFVWHDPEGN 111 (115)
T ss_pred cccCCC----cccccceEeEEEECCEEEEECCCCCC
Confidence 754332 24678999999999999999998874
No 19
>cd03480 Rieske_RO_Alpha_PaO Rieske non-heme iron oxygenase (RO) family, Pheophorbide a oxygenase (PaO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic cyanobacterial photosynthesizers including LLS1 (lethal leaf spot 1, also known as PaO) and ACD1 (accelerated cell death 1). ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. PaO expression increases upon physical wounding of plant leaves and is thought to catalyze a key step in chlorophyll degradation. The
Probab=99.97 E-value=5.7e-30 Score=214.97 Aligned_cols=119 Identities=19% Similarity=0.361 Sum_probs=103.9
Q ss_pred hccccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcC-CCcEEEEeccCcCCCCccccCCCC-cceEEccCCCceecCC
Q 039874 50 RVFYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDD-NGKIHAFHNVCRHHASILATGSGK-KSWFVCPYHGWTYGLD 127 (382)
Q Consensus 50 ~if~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~-~g~~~a~~n~C~Hrg~~L~~g~~~-~~~i~CpyHgw~f~~~ 127 (382)
..|++.|++|+.++||+ +|+++.+++.|++|+|+|+. +|+++||.|+|||||++|+.|.+. ++.|+||||||+||.+
T Consensus 12 ~~~~~~W~~v~~~~el~-~g~~~~~~~~g~~i~v~r~~~dG~~~A~~n~CpHrga~L~~G~~~~~~~i~CP~Hgw~Fd~t 90 (138)
T cd03480 12 FDWREVWYPVAYVEDLD-PSRPTPFTLLGRDLVIWWDRNSQQWRAFDDQCPHRLAPLSEGRIDEEGCLECPYHGWSFDGS 90 (138)
T ss_pred CCCccceEEEEEHHHCC-CCCcEEEEECCeeEEEEEECCCCEEEEEcCCCcCCcCccccceEcCCCEEEeCCCCCEECCC
Confidence 35889999999999999 58999999999999999986 999999999999999999999875 4689999999999999
Q ss_pred CceeecccccCCCCC-CccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 128 GTLLKATRITGIKDF-NVKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 128 G~~~~~p~~~~~~~~-~~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
|+|+.+|........ .....+|++|+|++++|+|||++++.+
T Consensus 91 G~~~~~P~~~~~g~~~~~~~~~l~~ypv~v~~g~V~V~~~~~~ 133 (138)
T cd03480 91 GSCQRIPQAAEGGKAHTSPRACVASLPTAVRQGLLFVWPGEPE 133 (138)
T ss_pred CCEEECCCCccccccCCCcccccceEeEEEECCEEEEecCChH
Confidence 999999976543211 123467999999999999999998765
No 20
>cd03548 Rieske_RO_Alpha_OMO_CARDO Rieske non-heme iron oxygenase (RO) family, 2-Oxoquinoline 8-monooxygenase (OMO) and Carbazole 1,9a-dioxygenase (CARDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. OMO catalyzes the NADH-dependent oxidation of the N-heterocyclic aromatic compound 2-oxoquinoline to 8-hydroxy-2-oxoquinoline, the second step in the bacterial degradation of quinoline. OMO consists of a reductase component (OMR) and an oxygenase component (OMO) that together function to shuttle electrons from the
Probab=99.96 E-value=1.1e-29 Score=212.97 Aligned_cols=116 Identities=22% Similarity=0.347 Sum_probs=101.6
Q ss_pred ccccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCC--CCcceEEccCCCceecC-C
Q 039874 51 VFYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGS--GKKSWFVCPYHGWTYGL-D 127 (382)
Q Consensus 51 if~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~--~~~~~i~CpyHgw~f~~-~ 127 (382)
.|++.|++||+++||+ +|+++.++++|++|+|+| .+|+++|+.|+|||||++|+.|. +.++.|+||||||+||+ +
T Consensus 10 ~~~~~W~~v~~~~el~-~g~~~~~~~~g~~i~l~r-~~g~v~A~~n~CpHrg~~L~~g~~~~~~~~i~Cp~Hgw~Fdl~t 87 (136)
T cd03548 10 GFRNHWYPALFSHELE-EGEPKGIQLCGEPILLRR-VDGKVYALKDRCLHRGVPLSKKPECFTKGTITCWYHGWTYRLDD 87 (136)
T ss_pred CcccCcEEEEEHHHCC-CCCeEEEEECCcEEEEEe-cCCEEEEEeCcCcCCCCccccCcccccCCEEEecCCccEEeCCC
Confidence 6999999999999999 599999999999999999 58999999999999999999875 45678999999999998 8
Q ss_pred CceeecccccCCCCCCccCCCCcceeeEEECcEEEEEcCCCcc
Q 039874 128 GTLLKATRITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKEAV 170 (382)
Q Consensus 128 G~~~~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~~ 170 (382)
|+|+.+|..+.. ..+...+|++|+|++++|+|||++++...
T Consensus 88 G~~~~~~~~p~~--~~~~~~~L~~ypv~~~~g~V~v~~~~~~~ 128 (136)
T cd03548 88 GKLVTILANPDD--PLIGRTGLKTYPVEEAKGMIFVFVGDGDY 128 (136)
T ss_pred ccEEEcccCCCc--cccccCCCceEeEEEECCEEEEEeCCccc
Confidence 999998764432 22335679999999999999999987653
No 21
>cd03542 Rieske_RO_Alpha_HBDO Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. HBDO catalyzes the double hydroxylation of 2-halobenzoates with concomitant release of halogenide and carbon dioxide, yielding catechol.
Probab=99.96 E-value=2.7e-29 Score=206.46 Aligned_cols=114 Identities=29% Similarity=0.671 Sum_probs=100.4
Q ss_pred CeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCC-CCcceEEccCCCceecCCCceeecc
Q 039874 56 WQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGS-GKKSWFVCPYHGWTYGLDGTLLKAT 134 (382)
Q Consensus 56 W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~-~~~~~i~CpyHgw~f~~~G~~~~~p 134 (382)
|+.||+++||+++|+++++.+++++++|+|+.+|+++|+.|+|||||++|+.|. ++++.|+||||||+||.||+|+.+|
T Consensus 1 w~~v~~~~elp~~g~~~~~~~~~~~i~l~r~~~g~v~A~~n~C~Hrg~~L~~g~~~~~~~i~CP~Hg~~Fd~~G~~~~~p 80 (123)
T cd03542 1 WVYLAHESQIPNNNDYFTTTIGRQPVVITRDKDGELNAFINACSHRGAMLCRRKQGNKGTFTCPFHGWTFSNTGKLLKVK 80 (123)
T ss_pred CEEeEEHHHCCCCCCEEEEEECCcEEEEEECCCCCEEEEcccCcCCCCccccccccCCCEEECcCCCCEecCCccEEECC
Confidence 999999999999999999999999999999999999999999999999999764 4556899999999999999999988
Q ss_pred cccC--C-CCCCcc-CCCCccee-eEEECcEEEEEcCCCc
Q 039874 135 RITG--I-KDFNVK-EFGLVPLE-VATWGPFVLLNMGKEA 169 (382)
Q Consensus 135 ~~~~--~-~~~~~~-~~~l~~~~-v~~~~g~v~v~~~~~~ 169 (382)
.... . ..|++. ..+|++++ ++.++||||+++++++
T Consensus 81 ~~~~~~y~~~~~~~~~~~L~~~~~~~~~~g~v~~~~~~~~ 120 (123)
T cd03542 81 DPKTAGYPEGFNCDGSHDLTKVARFESYRGFLFGSLNADV 120 (123)
T ss_pred cccccCcCcccChhhcCCCccceeEEEECCEEEEEcCCCC
Confidence 6332 2 245555 68999994 7889999999999876
No 22
>cd03532 Rieske_RO_Alpha_VanA_DdmC Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Vanillate-O-demethylase is a heterodimeric enzyme consisting of a terminal oxygenase (VanA) and reductase (VanB) components. This enzyme reductively catalyzes the conversion of vanillate into protocatechuate and formaldehyde. Protocatechuate and vanillate are important intermediate metabolites in the degrad
Probab=99.96 E-value=4e-29 Score=204.17 Aligned_cols=112 Identities=21% Similarity=0.408 Sum_probs=101.7
Q ss_pred cccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecCCCcee
Q 039874 52 FYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGLDGTLL 131 (382)
Q Consensus 52 f~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~G~~~ 131 (382)
+++.|++||.++||+ |+++.+++.|++++|+|+.+|+++|++|+|||||++|+.|.+.++.|+||||||+||.+|+|+
T Consensus 2 ~~~~W~~v~~~~el~--~~~~~~~~~g~~i~l~r~~~g~~~a~~n~CpH~g~~L~~G~~~~~~i~Cp~Hg~~fd~~G~~~ 79 (116)
T cd03532 2 PRNAWYVAAWADELG--DKPLARTLLGEPVVLYRTQDGRVAALEDRCPHRSAPLSKGSVEGGGLVCGYHGLEFDSDGRCV 79 (116)
T ss_pred cCCcEEEEEEHHHcC--CCcEEEEECCceEEEEECCCCCEEEeCCcCCCCCCCccCCcccCCEEEeCCCCcEEcCCCCEE
Confidence 568999999999998 678899999999999999899999999999999999999999889999999999999999999
Q ss_pred ecccccCCCCCCccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 132 KATRITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 132 ~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
.+|..... +....|++|+|++++|+|||++++++
T Consensus 80 ~~p~~~~~----~~~~~l~~~~v~~~~g~v~v~~~~~~ 113 (116)
T cd03532 80 HMPGQERV----PAKACVRSYPVVERDALIWIWMGDAA 113 (116)
T ss_pred eCCCCCCC----CCccccccCCEEEECCEEEEEcCCcc
Confidence 99976532 23467999999999999999998664
No 23
>cd08883 RHO_alpha_C_CMO-like C-terminal catalytic domain of plant choline monooxygenase (CMO) and related aromatic ring hydroxylating dioxygenases. C-terminal catalytic domain of plant choline monooxygenase and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and have an N-terminal domain, which binds a Rieske-like 2Fe-2S cluster, and a C-
Probab=99.96 E-value=2.5e-28 Score=214.30 Aligned_cols=172 Identities=56% Similarity=0.982 Sum_probs=126.6
Q ss_pred EEEEeCcccchhhhhcCCCCCCCCCcCccccccCCcccccccccCceeeeeecCCCCCCCccccccCCccEEEEecCcee
Q 039874 207 REYTIECNWKVFCDNYLDGGYHVPYAHKGLASGLQLDSYSTSLYEKVSIQRCESGSTEGTDDTHRLGSKAIYAFIYPNFM 286 (382)
Q Consensus 207 ~~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~lfPn~~ 286 (382)
.+++++||||+++|||+| +||++++|++++.......+.....+.+.....+.... .+......+....+.++|||++
T Consensus 4 ~~~~~~~NWK~~~en~~e-~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~lFPN~~ 81 (175)
T cd08883 4 REYVIECNWKVYVDNYLE-GYHVPFAHPGLAAVLDYATYRTELFEYVSLQSAPARAE-EGSFFYRLGNAALYAWIYPNLM 81 (175)
T ss_pred EEeeeecCceEEehhcCC-cccCcccchhHHhhcccCceEEEEcCcEEEEEecccCC-CCccccccCcCeEEEEECCCEe
Confidence 457889999999999999 99999999998765433333222223322222211110 0111112223345568999999
Q ss_pred eccCCCeEEEEEEEEcCCCeEEEEEEEEEcCCCCChHHHHHHhccccCCchhhHHHHHHHHhhcccCCCCCCCCCCCCcC
Q 039874 287 INRYGPWMDTNLVIPLAPTRCKVVFDYFLDGSLKDDKAFIEQSLKDSEQVQMEDIILCEGVQRGLESPAYCSGRYAPSVE 366 (382)
Q Consensus 287 i~~~~~~~~~~~~~P~s~~~t~v~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ED~~i~e~~q~~l~s~~~~~g~~~~~~E 366 (382)
+..+++++.++++.|+++++|++...+|........+..++.... +.+|+.||.+++|.+|+||+|+++..|++++.+|
T Consensus 82 i~~~~~~~~~~~~~P~~p~~t~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~~ED~~i~e~vQ~Gl~S~~~~~G~l~~~~E 160 (175)
T cd08883 82 LNRYPPGMDVNVVLPLGPERCKVVFDYFVDDSDGSDEAFIAESIE-SDRVQKEDIEICESVQRGLESGAYDPGRFSPKRE 160 (175)
T ss_pred eeecCCeEEEEEEEeCCCCcEEEEEEEEEeccccchhHHHHHHHH-HHHHHHHHHHHHHHHhhhhcCCCCCCCCCCCccc
Confidence 998888899999999999999999988877643222333344444 7789999999999999999999999999998889
Q ss_pred hHHHHHHHHHHHHhc
Q 039874 367 QTMYHFHSLLHCNLT 381 (382)
Q Consensus 367 ~~i~~f~~~~~~~l~ 381 (382)
.+|++||+|++++|.
T Consensus 161 ~~v~~Fh~~l~~~l~ 175 (175)
T cd08883 161 NGVHHFHRLLAQALN 175 (175)
T ss_pred hHHHHHHHHHHHhhC
Confidence 999999999999873
No 24
>cd03469 Rieske_RO_Alpha_N Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable microorganisms to tolerate and even exclusively utilize aromatic compounds for growth. ROs consist of two or three components: reductase, oxygenase, and ferredoxin (in some cases) components. The oxygenase component may contain alpha and beta subunits, with the beta subunit having a purely structural function. Some oxygenase components contain only an alpha subunit. The oxygenase alpha subunit has two domains, an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from the reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Reduced pyridine nucleotide is used as the i
Probab=99.96 E-value=1.8e-28 Score=201.26 Aligned_cols=114 Identities=39% Similarity=0.875 Sum_probs=104.6
Q ss_pred CeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCC-CcceEEccCCCceecCCCceeecc
Q 039874 56 WQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSG-KKSWFVCPYHGWTYGLDGTLLKAT 134 (382)
Q Consensus 56 W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~-~~~~i~CpyHgw~f~~~G~~~~~p 134 (382)
|++||.++||+++|+.+.+++.+++++|+|+.+|+++|+.|+|||||++|+.|.. .++.|+||||||+||++|+|+.+|
T Consensus 1 w~~v~~~~el~~~g~~~~~~~~~~~i~v~r~~~g~~~a~~n~CpH~g~~L~~g~~~~~~~i~Cp~Hg~~Fd~~G~~~~~P 80 (118)
T cd03469 1 WYFVGHSSELPEPGDYVTLELGGEPLVLVRDRDGEVRAFHNVCPHRGARLCEGRGGNAGRLVCPYHGWTYDLDGKLVGVP 80 (118)
T ss_pred CEEeEEHHHCCCCCCEEEEEECCccEEEEECCCCCEEEEEEeCCCCCCEeeeccCCCCCEEECCCCCCEECCCCcEEeCC
Confidence 9999999999977999999999999999999899999999999999999999888 788999999999999999999999
Q ss_pred cccCCCCCCccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 135 RITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 135 ~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
.......+.....+|++|+|++++|+|||+++++.
T Consensus 81 ~~~~~~~~~~~~~~L~~~~v~~~~g~v~v~~~~~~ 115 (118)
T cd03469 81 REEGFPGFDKEKLGLRTVPVEEWGGLIFVNLDPDA 115 (118)
T ss_pred cccccCCCCHHHCCCeEEEEEEECCEEEEEcCCCC
Confidence 87665445555678999999999999999999865
No 25
>cd08885 RHO_alpha_C_1 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of a functionally uncharacterized subgroup of the Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and
Probab=99.95 E-value=2.9e-27 Score=210.31 Aligned_cols=174 Identities=22% Similarity=0.375 Sum_probs=122.1
Q ss_pred EEEEEeCcccchhhhhcCCCCCCCCCcCccccccCCcc--ccc-ccccCceeeeeecC----C-C---CCCCccccccCC
Q 039874 206 RREYTIECNWKVFCDNYLDGGYHVPYAHKGLASGLQLD--SYS-TSLYEKVSIQRCES----G-S---TEGTDDTHRLGS 274 (382)
Q Consensus 206 ~~~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~~~~--~~~-~~~~~~~~~~~~~~----~-~---~~~~~~~~~~g~ 274 (382)
+..++++||||+++|||+| |||++.+|++++...... .+. ......+....... . . ...+...+....
T Consensus 3 ~~~~~~~~NWK~~~en~~E-~YH~~~~H~~t~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (190)
T cd08885 3 REEEVWDTNWKVLAENFME-GYHLPGLHPGTLHPFMPAELSYFRPEDGRGFTRHKGTKHFNETIEPAHPPNPGLTEEWRR 81 (190)
T ss_pred eeeeeccCCchhhHhhcCc-cccccccccchhhccCchhhcccccCCCcceeeeecccccccCccccCCCCCCCChhhhc
Confidence 4567899999999999999 999999999987643211 110 11111122221111 0 0 000111111112
Q ss_pred ccEEEEecCceeeccCCCeEEEEEEEEcCCCeEEEEEEEEEcCCCCC---hHHHHHHhccccCCchhhHHHHHHHHhhcc
Q 039874 275 KAIYAFIYPNFMINRYGPWMDTNLVIPLAPTRCKVVFDYFLDGSLKD---DKAFIEQSLKDSEQVQMEDIILCEGVQRGL 351 (382)
Q Consensus 275 ~~~~~~lfPn~~i~~~~~~~~~~~~~P~s~~~t~v~~~~~~~~~~~~---~~~~~~~~~~~~~~v~~ED~~i~e~~q~~l 351 (382)
...+.++|||+++..+++++.++++.|+++++|++++.+++.++..+ ...+.+.....++.|..||++++|++|+|+
T Consensus 82 ~~~~~~iFPN~~i~~~~~~~~~~~~~P~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ED~~~~e~~Q~Gl 161 (190)
T cd08885 82 RLVLFAIFPTHLLALTPDYVWWLSLLPEGAGRVRVRWGVLVAPEAADDPEAAEYIAELKALLDAINDEDRLVVEGVQRGL 161 (190)
T ss_pred ceEEEEECCcEEEEecCCeEEEEEEEecCCCeEEEEEEEEEcchhcccchhHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 34456799999999888888899999999999999998887765432 122333333356789999999999999999
Q ss_pred cCCCCCCCCCCCCcChHHHHHHHHHHHHhc
Q 039874 352 ESPAYCSGRYAPSVEQTMYHFHSLLHCNLT 381 (382)
Q Consensus 352 ~s~~~~~g~~~~~~E~~i~~f~~~~~~~l~ 381 (382)
+|+++..|++++ .|.+|++||+|++++|.
T Consensus 162 ~S~~~~~g~l~~-~E~~i~~fh~~l~~~l~ 190 (190)
T cd08885 162 GSRFAVPGRLSH-LERPIWQFQRYLASRLA 190 (190)
T ss_pred cCCCCCCCCCCc-ccccHHHHHHHHHHHhC
Confidence 999999999985 69999999999999874
No 26
>cd08884 RHO_alpha_C_GbcA-like C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases. C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components an
Probab=99.95 E-value=3.8e-27 Score=211.97 Aligned_cols=184 Identities=23% Similarity=0.380 Sum_probs=130.7
Q ss_pred cCCCCCeEEEEEEEEEeCcccchhhhhcCCCCCCCCCcCccccc-cCCcccccccc-c---Cceeeee---------ecC
Q 039874 195 NGIDSSLSYLCRREYTIECNWKVFCDNYLDGGYHVPYAHKGLAS-GLQLDSYSTSL-Y---EKVSIQR---------CES 260 (382)
Q Consensus 195 ~~~d~~~~~~~~~~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~-~~~~~~~~~~~-~---~~~~~~~---------~~~ 260 (382)
|++ ++++..++.++.++||||+++|||+| |||++++|+++.. ....+.+.... . +...... ...
T Consensus 3 ~~l-~~~~~~~~~~~~~~~NWK~~~en~~e-~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (205)
T cd08884 3 YDL-ANLKVAHRISYEVAANWKLVVENYRE-CYHCAGVHPELARSLSEFDDGGNPDPEAGGADFRGRRGPLRGGAESFTM 80 (205)
T ss_pred CCc-hhcEEccceEEEEccCceehhHhCcc-cccCccccHHHHhhcccccccccccccccccceeeecccccCCceeecC
Confidence 445 46777777889999999999999999 9999999999765 22222211110 0 0000000 000
Q ss_pred -CCCCCCc--cc-cccCCccEEEEecCceeeccCCCeEEEEEEEEcCCCeEEEEEEEEEcCCCCChHHH-HHHhccccCC
Q 039874 261 -GSTEGTD--DT-HRLGSKAIYAFIYPNFMINRYGPWMDTNLVIPLAPTRCKVVFDYFLDGSLKDDKAF-IEQSLKDSEQ 335 (382)
Q Consensus 261 -~~~~~~~--~~-~~~g~~~~~~~lfPn~~i~~~~~~~~~~~~~P~s~~~t~v~~~~~~~~~~~~~~~~-~~~~~~~~~~ 335 (382)
+....+. +. +.......+.++|||+++..+++++.++++.|+++++|++.+.+|+.++..+.+++ .+...+.+.+
T Consensus 81 ~~~~~~p~~~~~~~~~~~~~~~~~lfPN~~~~~~~d~~~~~~~~P~~p~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (205)
T cd08884 81 DGKAVAPPLPGLTEADDRGALYYTLYPNSFLHLHPDHVVTFRVLPLSPDETLVRCKWLVHPDAVEGVDYDLDDLVEVWDA 160 (205)
T ss_pred CCCcccCCCCCCCccccCceEEEEeCCcEEEEEcCCEEEEEEEEeCCCCceEEEEEEEECCchhcccccCHHHHHHHHHH
Confidence 0000011 10 10112345568999999999999999999999999999999998887655322222 3455567789
Q ss_pred chhhHHHHHHHHhhcccCCCCCCCCCCCCcChHHHHHHHHHHHHhc
Q 039874 336 VQMEDIILCEGVQRGLESPAYCSGRYAPSVEQTMYHFHSLLHCNLT 381 (382)
Q Consensus 336 v~~ED~~i~e~~q~~l~s~~~~~g~~~~~~E~~i~~f~~~~~~~l~ 381 (382)
|..||.+++|.+|+|++|+++..|++++ .|.+|++||+|+++.|+
T Consensus 161 v~~ED~~i~e~vQ~Gl~S~~~~~g~l~~-~E~~v~~F~~~~~~~l~ 205 (205)
T cd08884 161 TNRQDWAICERNQRGVNSPAYRPGPYSP-MEGGVLAFDRWYLERMG 205 (205)
T ss_pred HHHHHHHHHHHhcccccCCCcCCCCcCC-ccHHHHHHHHHHHHHhC
Confidence 9999999999999999999999999985 79999999999999874
No 27
>cd08886 RHO_alpha_C_2 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of a functionally uncharacterized subgroup of the Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and
Probab=99.95 E-value=4.2e-27 Score=207.73 Aligned_cols=170 Identities=30% Similarity=0.481 Sum_probs=121.6
Q ss_pred EEEEEeCcccchhhhhcCCCCCCCCCcCccccccCCcccccccccCceeeeeecCCCCCCCcccc-ccCCccEEEEecCc
Q 039874 206 RREYTIECNWKVFCDNYLDGGYHVPYAHKGLASGLQLDSYSTSLYEKVSIQRCESGSTEGTDDTH-RLGSKAIYAFIYPN 284 (382)
Q Consensus 206 ~~~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~~~~~lfPn 284 (382)
+.+++++||||+++|||+| +||++++|+++++......+..+..+.++........+. ..... .......+.++|||
T Consensus 3 ~~~~~~~~NWK~~~en~~e-~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~lFPN 80 (182)
T cd08886 3 RLTSEIKANWKNVVDNYLE-CYHCHTAHPDFVDSLDMDTYKHTTHGNYSSQMANYGSAE-NSEYSVKPDADFAFYWLWPN 80 (182)
T ss_pred eEEEEeecccEEEEecCCc-cccCcccChhHHhcccccccEEEecCcEEEEEecccccc-ccccccccCcceeEEEEeCC
Confidence 4567899999999999999 999999999988654444433332333332211110100 00000 01122345679999
Q ss_pred eeeccCCC--eEEEEEEEEcCCCeEEEEEEEEEcCCCCChHHHHHHhccccCCch-hhHHHHHHHHhhcccCCCCCCCCC
Q 039874 285 FMINRYGP--WMDTNLVIPLAPTRCKVVFDYFLDGSLKDDKAFIEQSLKDSEQVQ-MEDIILCEGVQRGLESPAYCSGRY 361 (382)
Q Consensus 285 ~~i~~~~~--~~~~~~~~P~s~~~t~v~~~~~~~~~~~~~~~~~~~~~~~~~~v~-~ED~~i~e~~q~~l~s~~~~~g~~ 361 (382)
+++..+++ ++.++++.|+++++|++.+.+|+..+..++.. ....+.+.+|+ .||.+++|++|+|++|+++..|+|
T Consensus 81 ~~i~~~~~~~~~~~~~~~P~~p~~t~~~~~~~~~~~~~~~~~--~~~~~~~~~v~~~ED~~l~e~vQ~Gl~S~~~~~g~l 158 (182)
T cd08886 81 TMLNVYPGAGNMGVINIIPVDAETTLQHYDFYFRDEELTDEE--KELIEYYRQVLQPEDLELVESVQRGLKSRAFGQGRI 158 (182)
T ss_pred EEEEeeCCCCeEEEEEEEeCCCCeEEEEEEEEecCCCccHHH--HHHHHHHHHhcchhhHHHHHHHhcccccCCCCCcee
Confidence 99998764 78899999999999999998887655433221 23344566777 999999999999999999999999
Q ss_pred C------CCcChHHHHHHHHHHHH
Q 039874 362 A------PSVEQTMYHFHSLLHCN 379 (382)
Q Consensus 362 ~------~~~E~~i~~f~~~~~~~ 379 (382)
+ +.+|.+|++||+|++++
T Consensus 159 ~~~~~~~~~~E~~v~~fh~~l~~~ 182 (182)
T cd08886 159 VVDPSGSGISEHAVHHFHGLVLEA 182 (182)
T ss_pred ccCcccCCccchhHHHHHHHHhcC
Confidence 7 57899999999999863
No 28
>cd08887 RHO_alpha_C_3 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of a functionally uncharacterized subgroup of the Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and
Probab=99.94 E-value=3.3e-26 Score=202.49 Aligned_cols=173 Identities=23% Similarity=0.317 Sum_probs=123.0
Q ss_pred EEEEeCcccchhhhhcCCCCCCCCCcCccccccCCccccc-ccccCceeeeeecCCC-----CCCCccccccCCccEEEE
Q 039874 207 REYTIECNWKVFCDNYLDGGYHVPYAHKGLASGLQLDSYS-TSLYEKVSIQRCESGS-----TEGTDDTHRLGSKAIYAF 280 (382)
Q Consensus 207 ~~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-----~~~~~~~~~~g~~~~~~~ 280 (382)
.+++++||||+++||++| +||++++|+++++........ .+..+.++....+... ...++.+...+......+
T Consensus 4 ~~~~~~~NWK~~~en~~E-~YH~~~~H~~t~~~~~~~~~~~~~~~g~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (185)
T cd08887 4 RRFDVAANWKLALDGFLE-GYHFKVLHKNTIAPYFYDNLSVYDAFGPHSRIVFPRKSIESLRDLPEDEWDLRRHLTVIYT 82 (185)
T ss_pred eeeecCCCceEehhhccc-ccccchhchhhhcccccCCceEEeccCCeeeeecchhhHHHHhcCChhHCCccCCeeEEEE
Confidence 557899999999999999 999999999987643222211 1222232222211000 000111221122234457
Q ss_pred ecCceeeccCCCeEEEEEEEEcCCCeEEEEEEEEEcCCCCCh--HHHHHHhcccc-CCchhhHHHHHHHHhhcccCCCCC
Q 039874 281 IYPNFMINRYGPWMDTNLVIPLAPTRCKVVFDYFLDGSLKDD--KAFIEQSLKDS-EQVQMEDIILCEGVQRGLESPAYC 357 (382)
Q Consensus 281 lfPn~~i~~~~~~~~~~~~~P~s~~~t~v~~~~~~~~~~~~~--~~~~~~~~~~~-~~v~~ED~~i~e~~q~~l~s~~~~ 357 (382)
+|||+++..+++++.++++.|+++++|++.+.+|.+++..+. .+.++...... ..|..||.+++|.+|+|++|+++.
T Consensus 83 lFPN~~i~~~~~~~~~~~~~P~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ED~~~~e~~Q~Gl~s~~~~ 162 (185)
T cd08887 83 LFPNVSLLVQPDHLEIIQIEPGSPDRTRVTVYLLIPPPPDTEEARAYWDKNWDFLMAVVLDEDFEVAEEIQRGLASGAND 162 (185)
T ss_pred ECCceEEEecCCeEEEEEEEcCCCCceEEEEEEEecCCCCcHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhhhcCCCC
Confidence 999999998888889999999999999999988887765431 22233334445 789999999999999999999998
Q ss_pred CCCCCCCcChHHHHHHHHHHHHhc
Q 039874 358 SGRYAPSVEQTMYHFHSLLHCNLT 381 (382)
Q Consensus 358 ~g~~~~~~E~~i~~f~~~~~~~l~ 381 (382)
.|.++ ..|.+|++||+|++++|.
T Consensus 163 ~~~l~-~~E~~i~~fh~~~~~~l~ 185 (185)
T cd08887 163 HLTFG-RNESALQHFHRWLERALA 185 (185)
T ss_pred ceEee-cCCHHHHHHHHHHHHHhC
Confidence 88776 789999999999999874
No 29
>cd00680 RHO_alpha_C C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC), and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and have an N-terminal domain, which binds a Rieske-like 2Fe-2S cluster, and a C-te
Probab=99.93 E-value=1.1e-25 Score=198.66 Aligned_cols=172 Identities=28% Similarity=0.471 Sum_probs=120.4
Q ss_pred EEEEeCcccchhhhhcCCCCCCCCCcCccccccCC------ccccccccc-----CceeeeeecCCCCCCCccccccCCc
Q 039874 207 REYTIECNWKVFCDNYLDGGYHVPYAHKGLASGLQ------LDSYSTSLY-----EKVSIQRCESGSTEGTDDTHRLGSK 275 (382)
Q Consensus 207 ~~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~~------~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~g~~ 275 (382)
.+++++||||+++||++| +||++++|++++.... .+.+..... ...... +...........+.....
T Consensus 3 ~~~~~~~NWK~~~En~~E-~YH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 80 (188)
T cd00680 3 YEYEVDCNWKLAVENFLE-CYHVPTVHPDTLATGLPLPLLFGDHYRVDDTGEGPGEGLSRH-WGDGKGPQSALPGLKPGG 80 (188)
T ss_pred eEEEeccCceEehhhccc-cccccccChhhhccccccCcccCCceEEEeccCCCCChhhcc-cchhhhcccccccccccC
Confidence 456899999999999999 9999999999876421 111111100 000000 000000000000011223
Q ss_pred cEEEEecCceeeccCCCeEEEEEEEEcCCCeEEEEEEEEEcCCCC---ChHHHHHHhccccCCchhhHHHHHHHHhhccc
Q 039874 276 AIYAFIYPNFMINRYGPWMDTNLVIPLAPTRCKVVFDYFLDGSLK---DDKAFIEQSLKDSEQVQMEDIILCEGVQRGLE 352 (382)
Q Consensus 276 ~~~~~lfPn~~i~~~~~~~~~~~~~P~s~~~t~v~~~~~~~~~~~---~~~~~~~~~~~~~~~v~~ED~~i~e~~q~~l~ 352 (382)
....++|||+++..+++++.+..++|+++++|++++.++.++... ......+.+....+.|+.||++++|++|+|++
T Consensus 81 ~~~~~~fPn~~~~~~~~~~~~~~~~P~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ED~~~~e~~Q~gl~ 160 (188)
T cd00680 81 YLYLYLFPNLMIGLYPDSLQVQQFVPIGPNKTRLEVRLYRPKDEDAREEFDAELESLAGILRQVLDEDIELCERIQRGLR 160 (188)
T ss_pred eEEEEECCcEeeeecCCEEEEEEEEecCCCcEEEEEEEEEecccccchhhHHHHHHhHHHHHHHHHHHHHHHHHHhcccc
Confidence 445689999999988888899999999999999999888776542 12233344444567899999999999999999
Q ss_pred CCCCCCCCCCCCcChHHHHHHHHHHHHhc
Q 039874 353 SPAYCSGRYAPSVEQTMYHFHSLLHCNLT 381 (382)
Q Consensus 353 s~~~~~g~~~~~~E~~i~~f~~~~~~~l~ 381 (382)
|+++..|+++ ..|.+|++||+|+++++.
T Consensus 161 s~~~~~~~l~-~~E~~i~~f~~~~~~~~~ 188 (188)
T cd00680 161 SGAFRGGPLS-PLEEGIRHFHRWLRRALG 188 (188)
T ss_pred CCcCCCCCCC-cccccHHHHHHHHHHhcC
Confidence 9999999998 479999999999999863
No 30
>cd03528 Rieske_RO_ferredoxin Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable microorganisms to tolerate and even exclusively utilize aromatic compounds for growth. ROs consist of two or three components: reductase, oxygenase, and ferredoxin (in some cases) components. The ferredoxin component contains either a plant-type or Rieske-type [2Fe-2S] cluster. The Rieske ferredoxin component in this family carries an electron from the RO reductase component to the terminal RO oxygenase component. BPDO degrades biphenyls and polychlorinated biphenyls. BPDO ferredoxin (BphF) has structural features consistent with a minimal and perhaps archetypical Rieske protein in that the in
Probab=99.93 E-value=2.4e-25 Score=176.56 Aligned_cols=96 Identities=24% Similarity=0.322 Sum_probs=88.5
Q ss_pred CeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecC-CCceeecc
Q 039874 56 WQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGL-DGTLLKAT 134 (382)
Q Consensus 56 W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~-~G~~~~~p 134 (382)
|+.|+.++||+ +|+.+.+++.|++++|+|+ +|+++|+.|+|||||++|..|...++.|+||||||+||+ +|+++..|
T Consensus 1 w~~v~~~~~l~-~g~~~~~~~~g~~~~v~r~-~~~~~a~~~~CpH~g~~L~~g~~~~~~i~Cp~Hg~~fd~~~G~~~~~p 78 (98)
T cd03528 1 WVRVCAVDELP-EGEPKRVDVGGRPIAVYRV-DGEFYATDDLCTHGDASLSEGYVEGGVIECPLHGGRFDLRTGKALSLP 78 (98)
T ss_pred CeEEEEhhhcC-CCCEEEEEECCeEEEEEEE-CCEEEEECCcCCCCCCCCCCCeEeCCEEEeCCcCCEEECCCCcccCCC
Confidence 99999999997 7899999999999999998 569999999999999999998887889999999999999 99999877
Q ss_pred cccCCCCCCccCCCCcceeeEEECcEEEE
Q 039874 135 RITGIKDFNVKEFGLVPLEVATWGPFVLL 163 (382)
Q Consensus 135 ~~~~~~~~~~~~~~l~~~~v~~~~g~v~v 163 (382)
.. .+|++|++++++|.|||
T Consensus 79 ~~----------~~L~~~~v~~~~g~v~v 97 (98)
T cd03528 79 AT----------EPLKTYPVKVEDGDVYV 97 (98)
T ss_pred CC----------CCcceEeEEEECCEEEE
Confidence 52 35889999999999998
No 31
>cd03474 Rieske_T4moC Toluene-4-monooxygenase effector protein complex (T4mo), Rieske ferredoxin subunit; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. T4mo is a four-protein complex that catalyzes the NADH- and O2-dependent hydroxylation of toluene to form p-cresol. T4mo consists of an NADH oxidoreductase (T4moF), a diiron hydroxylase (T4moH), a catalytic effector protein (T4moD), and a Rieske ferredoxin (T4moC). T4moC contains a Rieske domain and functions as an obligate electron carrier between T4moF and T4moH. Rieske ferredoxins are found as subunits of membrane oxidase complexes, cis-dihydrodiol-forming aromatic dioxygenases, bacterial assimilatory nitrite reductases, and arsenite oxidase. Rieske ferredoxins are also found as soluble electron carriers in bacterial dioxygenase and monooxygenase complexes.
Probab=99.92 E-value=5.6e-25 Score=177.60 Aligned_cols=102 Identities=21% Similarity=0.334 Sum_probs=90.6
Q ss_pred CeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecCC-Cceeecc
Q 039874 56 WQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGLD-GTLLKAT 134 (382)
Q Consensus 56 W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~-G~~~~~p 134 (382)
|+.|+.+++|+ +|+.+.+++.+.+++|+|..+|+++|+.|+|||||++|+.|...++.|+||||||+||++ |.+.. |
T Consensus 1 w~~v~~~~~l~-~g~~~~~~~~~~~~~~~~~~~g~~~A~~n~CpH~g~~L~~g~~~g~~i~CP~Hg~~Fdl~~G~~~~-~ 78 (108)
T cd03474 1 FTKVCSLDDVW-EGEMELVDVDGEEVLLVAPEGGEFRAFQGICPHQEIPLAEGGFDGGVLTCRAHLWQFDADTGEGLN-P 78 (108)
T ss_pred CeEeeehhccC-CCceEEEEECCeEEEEEEccCCeEEEEcCcCCCCCCCcccCcccCCEEEeCCcCCEEECCCccccC-C
Confidence 89999999999 589999999899999999889999999999999999999998888899999999999994 65542 2
Q ss_pred cccCCCCCCccCCCCcceeeEEECcEEEEEcCCCc
Q 039874 135 RITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKEA 169 (382)
Q Consensus 135 ~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~~ 169 (382)
...+|++|+|++++|.|||++++++
T Consensus 79 ----------~~~~L~~~~v~v~~g~v~v~~~~~~ 103 (108)
T cd03474 79 ----------RDCRLARYPVKVEGGDILVDTEGVL 103 (108)
T ss_pred ----------CCCccceEeEEEECCEEEEeCCCcC
Confidence 2357999999999999999998755
No 32
>cd03530 Rieske_NirD_small_Bacillus Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium.
Probab=99.92 E-value=7.3e-25 Score=173.75 Aligned_cols=97 Identities=24% Similarity=0.417 Sum_probs=86.6
Q ss_pred CeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecC-CCceeecc
Q 039874 56 WQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGL-DGTLLKAT 134 (382)
Q Consensus 56 W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~-~G~~~~~p 134 (382)
|+.|+.++||+ +|+.+.++++|++++|+|+.+|+++|+.|+|||||++|+.|...++.|+||||||+||+ +|.+.. |
T Consensus 1 w~~v~~~~~l~-~~~~~~~~~~g~~i~l~r~~~g~~~A~~~~CpH~g~~L~~g~~~~~~i~Cp~Hg~~Fdl~~G~~~~-p 78 (98)
T cd03530 1 WIDIGALEDIP-PRGARKVQTGGGEIAVFRTADDEVFALENRCPHKGGPLSEGIVHGEYVTCPLHNWVIDLETGEAQG-P 78 (98)
T ss_pred CEEEEEHHHCC-CCCcEEEEECCEEEEEEEeCCCCEEEEcCcCCCCCCCccCCEEcCCEEECCCCCCEEECCCCCCCC-C
Confidence 89999999999 56778899999999999998899999999999999999999988899999999999999 787643 2
Q ss_pred cccCCCCCCccCCCCcceeeEEECcEEEEE
Q 039874 135 RITGIKDFNVKEFGLVPLEVATWGPFVLLN 164 (382)
Q Consensus 135 ~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~ 164 (382)
. ...|++|+|++.+|.|||.
T Consensus 79 ~----------~~~l~~y~v~v~~g~v~v~ 98 (98)
T cd03530 79 D----------EGCVRTFPVKVEDGRVYLG 98 (98)
T ss_pred C----------CCccceEeEEEECCEEEEC
Confidence 2 2468999999999999983
No 33
>TIGR02377 MocE_fam_FeS Rieske [2Fe-2S] domain protein, MocE subfamily. This model describes a subfamily of the Rieske-like [2Fe-2S] family of ferredoxins that includes MocE, part of the rhizopine (3-O-methyl-scyllo-inosamine) catabolic cluster in Rhizobium. Members of this family are related to, yet distinct from, the small subunit of nitrite reductase [NAD(P)H].
Probab=99.91 E-value=6.3e-24 Score=169.05 Aligned_cols=100 Identities=20% Similarity=0.300 Sum_probs=90.5
Q ss_pred CCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecC-CCceeec
Q 039874 55 SWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGL-DGTLLKA 133 (382)
Q Consensus 55 ~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~-~G~~~~~ 133 (382)
.|+.||..+||+ +|....+.+.|.+++|+|..+|+++|++|+|||+|++|+.|...++.|+||+|||+||+ +|+|+..
T Consensus 1 ~w~~v~~~~dl~-~g~~~~~~~~g~~i~l~r~~~g~~~A~~~~CpH~g~~L~~G~~~~~~i~CP~Hg~~Fdl~tG~~~~~ 79 (101)
T TIGR02377 1 NWVKACDADDIG-REDVARFDHGGRTFAIYRTPDDQYYATDGLCTHEYAHLADGLVMDTTVECPKHAGCFDYRTGEALNP 79 (101)
T ss_pred CcEEEEEHHHcC-CCCEEEEEECCeEEEEEEeCCCEEEEEcCcCCCCCCCCCCCEEcCCEEECCccCCEEECCCCcccCC
Confidence 499999999999 57788899999999999987899999999999999999999988899999999999998 8999987
Q ss_pred ccccCCCCCCccCCCCcceeeEEECcEEEEEc
Q 039874 134 TRITGIKDFNVKEFGLVPLEVATWGPFVLLNM 165 (382)
Q Consensus 134 p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~ 165 (382)
|.. .+|++|+|++.+|.|||.+
T Consensus 80 p~~----------~~l~~y~v~v~~g~v~V~~ 101 (101)
T TIGR02377 80 PVC----------VNLKTYPVKVVDGAVYVDI 101 (101)
T ss_pred Ccc----------CCcceEeEEEECCEEEEeC
Confidence 642 3588999999999999964
No 34
>cd03529 Rieske_NirD Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while fungal proteins have a C-terminal Rieske domain in addition to several other domains. The fungal NirD is involved in nutrient acquisition, functioning at the soil/fungus interface to control nutrient exchange between the fungus and the host plant. The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The Rieske [2Fe-2S] cluster is liganded to two histidine and two cysteine residues present in conserved sequences called Rieske motifs. In this family, only a few members contain these residues. Other members may have lost the ability to bind the Rieske [2Fe-2S] cluster.
Probab=99.91 E-value=4.9e-24 Score=170.47 Aligned_cols=97 Identities=20% Similarity=0.279 Sum_probs=85.6
Q ss_pred CeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCc-cccCCCC----cceEEccCCCceecC-CCc
Q 039874 56 WQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASI-LATGSGK----KSWFVCPYHGWTYGL-DGT 129 (382)
Q Consensus 56 W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~-L~~g~~~----~~~i~CpyHgw~f~~-~G~ 129 (382)
|+.||.++||+ +|+.+.++++|++|+|+|..+|+++|+.|+|||+|++ |+.|... +..|+||||||+||+ +|+
T Consensus 1 w~~v~~~~~l~-~g~~~~~~~~g~~i~l~r~~~g~~~A~~~~CpH~g~~ll~~G~~~~~~~~~~i~Cp~Hg~~Fdl~tG~ 79 (103)
T cd03529 1 WQTVCALDDLP-PGSGVAALVGDTQIAIFRLPGREVYAVQNMDPHSRANVLSRGIVGDIGGEPVVASPLYKQHFSLKTGR 79 (103)
T ss_pred CEEEeEHHHCC-CCCcEEEEECCEEEEEEEeCCCeEEEEeCcCCCCCCcccCCceEcccCCCeEEECCCCCCEEEcCCCC
Confidence 99999999999 6888999999999999999777999999999999997 6777543 347999999999998 899
Q ss_pred eeecccccCCCCCCccCCCCcceeeEEECcEEEEE
Q 039874 130 LLKATRITGIKDFNVKEFGLVPLEVATWGPFVLLN 164 (382)
Q Consensus 130 ~~~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~ 164 (382)
|+..|. .+|++|+|++.+|.|||.
T Consensus 80 ~~~~p~-----------~~l~~y~v~~~~g~v~v~ 103 (103)
T cd03529 80 CLEDED-----------VSVATFPVRVEDGEVYVK 103 (103)
T ss_pred ccCCCC-----------ccEeeEeEEEECCEEEEC
Confidence 997652 358999999999999984
No 35
>TIGR02378 nirD_assim_sml nitrite reductase [NAD(P)H], small subunit. This model describes NirD, the small subunit of nitrite reductase [NAD(P)H] (the assimilatory nitrite reductase), which associates with NirB, the large subunit (TIGR02374). In a few bacteria such as Klebsiella pneumoniae and in Fungi, the two regions are fused.
Probab=99.91 E-value=4.7e-24 Score=171.25 Aligned_cols=99 Identities=22% Similarity=0.401 Sum_probs=86.9
Q ss_pred CCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCC-CCccccCCCCcce----EEccCCCceecC-CC
Q 039874 55 SWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHH-ASILATGSGKKSW----FVCPYHGWTYGL-DG 128 (382)
Q Consensus 55 ~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hr-g~~L~~g~~~~~~----i~CpyHgw~f~~-~G 128 (382)
.|+.|+.++||++ |..+.+.+.|++++|+|..+|+++|+.|+|||+ +++|+.|...+.. |+||||||+||+ +|
T Consensus 1 ~w~~v~~~~el~~-g~~~~~~v~g~~l~v~r~~~~~~~a~~~~CpH~g~~~L~~g~~~~~~~~~~i~Cp~Hg~~Fdl~tG 79 (105)
T TIGR02378 1 TWQDICAIDDIPE-ETGVCVLLGDTQIAIFRVPGDQVFAIQNMCPHKRAFVLSRGIVGDAQGELWVACPLHKRNFRLEDG 79 (105)
T ss_pred CcEEEEEHHHCCC-CCcEEEEECCEEEEEEEeCCCcEEEEeCcCCCCCCccccceEEccCCCcEEEECCcCCCEEEcCCc
Confidence 5999999999995 678899999999999998788999999999999 8899988655444 999999999999 89
Q ss_pred ceeecccccCCCCCCccCCCCcceeeEEECcEEEEEc
Q 039874 129 TLLKATRITGIKDFNVKEFGLVPLEVATWGPFVLLNM 165 (382)
Q Consensus 129 ~~~~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~ 165 (382)
+++..|. .+|++|+|++++|.|||.+
T Consensus 80 ~~~~~~~-----------~~L~~y~v~v~~g~v~v~~ 105 (105)
T TIGR02378 80 RCLEDDS-----------GSVRTYEVRVEDGRVYVAL 105 (105)
T ss_pred cccCCCC-----------ccEeeEeEEEECCEEEEeC
Confidence 9886432 3689999999999999965
No 36
>cd03478 Rieske_AIFL_N AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. AIFL shares 35% homology with human AIF (apoptosis-inducing factor), mainly in the Pyr_redox domain. AIFL is predominantly localized to the mitochondria. AIFL induces apoptosis in a caspase-dependent manner.
Probab=99.89 E-value=2.8e-23 Score=163.69 Aligned_cols=93 Identities=26% Similarity=0.387 Sum_probs=84.7
Q ss_pred eeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecC-CCceeecccc
Q 039874 58 VVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGL-DGTLLKATRI 136 (382)
Q Consensus 58 ~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~-~G~~~~~p~~ 136 (382)
.||.++||+ +|+.+.+.+++.+++|+|. +|+++|+.|+|||+|++|..|...++.|+||||||+||+ +|+++..|..
T Consensus 2 ~v~~~~~l~-~g~~~~~~~~~~~v~v~r~-~g~~~A~~~~CpH~g~~L~~g~~~~~~i~CP~Hg~~Fdl~tG~~~~~p~~ 79 (95)
T cd03478 2 VVCRLSDLG-DGEMKEVDVGDGKVLLVRQ-GGEVHAIGAKCPHYGAPLAKGVLTDGRIRCPWHGACFNLRTGDIEDAPAL 79 (95)
T ss_pred ceeehhhCC-CCCEEEEEeCCcEEEEEEE-CCEEEEEcCcCcCCCCccCCCeEeCCEEEcCCCCCEEECCCCcCcCCCcc
Confidence 378999999 6889999999999999997 899999999999999999999888889999999999998 9999987763
Q ss_pred cCCCCCCccCCCCcceeeEEECcEEE
Q 039874 137 TGIKDFNVKEFGLVPLEVATWGPFVL 162 (382)
Q Consensus 137 ~~~~~~~~~~~~l~~~~v~~~~g~v~ 162 (382)
..|++|++++.+|.||
T Consensus 80 ----------~~l~~~~v~~~~g~i~ 95 (95)
T cd03478 80 ----------DSLPCYEVEVEDGRVY 95 (95)
T ss_pred ----------CCcceEEEEEECCEEC
Confidence 2488999999999986
No 37
>PRK09965 3-phenylpropionate dioxygenase ferredoxin subunit; Provisional
Probab=99.89 E-value=5.2e-23 Score=165.33 Aligned_cols=101 Identities=16% Similarity=0.197 Sum_probs=89.1
Q ss_pred CCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCc-ceEEccCCCceecC-CCceee
Q 039874 55 SWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKK-SWFVCPYHGWTYGL-DGTLLK 132 (382)
Q Consensus 55 ~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~-~~i~CpyHgw~f~~-~G~~~~ 132 (382)
.|+.||..+||+ +|..+.+.+. ++++|+|. +|+++|++|+|||+|++|+.|...+ +.|+||+|||+||+ +|+++.
T Consensus 2 ~~~~v~~~~~l~-~g~~~~~~~~-~~i~v~~~-~g~~~A~~~~CpH~g~~L~~G~~~~~~~i~Cp~Hg~~Fd~~tG~~~~ 78 (106)
T PRK09965 2 NRIYACPVADLP-EGEALRVDTS-PVIALFNV-GGEFYAIDDRCSHGNASLSEGYLEDDATVECPLHAASFCLRTGKALC 78 (106)
T ss_pred CcEEeeeHHHcC-CCCeEEEeCC-CeEEEEEE-CCEEEEEeCcCCCCCCCCCceEECCCCEEEcCCCCCEEEcCCCCeeC
Confidence 499999999999 5777888877 88999996 8999999999999999999888877 68999999999999 899987
Q ss_pred cccccCCCCCCccCCCCcceeeEEECcEEEEEcCCC
Q 039874 133 ATRITGIKDFNVKEFGLVPLEVATWGPFVLLNMGKE 168 (382)
Q Consensus 133 ~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~~~ 168 (382)
.|. ..+|++|+|++.+|.|||.++..
T Consensus 79 ~p~----------~~~l~~y~v~v~~g~v~v~~~~~ 104 (106)
T PRK09965 79 LPA----------TDPLRTYPVHVEGGDIFIDLPEA 104 (106)
T ss_pred CCC----------CCCcceEeEEEECCEEEEEccCC
Confidence 653 24688999999999999998765
No 38
>PF00848 Ring_hydroxyl_A: Ring hydroxylating alpha subunit (catalytic domain); InterPro: IPR015879 Aromatic ring hydroxylating dioxygenases are multicomponent 1,2-dioxygenase complexes that convert closed-ring structures to non-aromatic cis-diols []. The complex has both hydroxylase and electron transfer components. The hydroxylase component is itself composed of two subunits: an alpha-subunit of about 50 kDa, and a beta-subunit of about 20 kDa. The electron transfer component is either composed of two subunits: a ferredoxin and a ferredoxin reductase or by a single bifunctional ferredoxin/reductase subunit. Sequence analysis of hydroxylase subunits of ring hydroxylating systems (including toluene, benzene and napthalene 1,2-dioxygenases) suggests they are derived from a common ancestor []. The alpha-subunit binds both a Rieske-like 2Fe-2S cluster and an iron atom: conserved Cys and His residues in the N-terminal region may provide 2Fe-2S ligands, while conserved His and Tyr residues may coordinate the iron. The beta subunit may be responsible for the substrate specificity of the dioxygenase system [].; GO: 0005506 iron ion binding, 0016708 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of two atoms of oxygen into one donor, 0051537 2 iron, 2 sulfur cluster binding, 0019439 aromatic compound catabolic process, 0055114 oxidation-reduction process; PDB: 1WQL_A 3EN1_A 3EQQ_A 2CKF_A 2BMR_A 2BMQ_A 2BMO_A 2GBW_E 2GBX_C 2XRX_A ....
Probab=99.89 E-value=1.8e-24 Score=193.60 Aligned_cols=173 Identities=24% Similarity=0.433 Sum_probs=118.7
Q ss_pred EEEeCcccchhhhhcCCCCCCCCCcCccccccCCccccc------ccccCceeeeee-------cCCC-C-CCCccc---
Q 039874 208 EYTIECNWKVFCDNYLDGGYHVPYAHKGLASGLQLDSYS------TSLYEKVSIQRC-------ESGS-T-EGTDDT--- 269 (382)
Q Consensus 208 ~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~~~~~~~------~~~~~~~~~~~~-------~~~~-~-~~~~~~--- 269 (382)
+++++||||+++||++| +||++++|+++++........ ....+.+..... .... . ......
T Consensus 11 ~~~~~~NWK~~~EN~~e-~YH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 89 (209)
T PF00848_consen 11 RYEVDCNWKLAVENFLE-GYHVPFLHPSTLGFFDPSNDEQAEIASVEFFGGHGSVWAGRMREEPQPEPSERRAWKGRPFP 89 (209)
T ss_dssp HHHESS-HHHHHHHHHH-CTTHHHHTHHHHHHHSCTTGGHHEEEEEEEESSTCEEETHHHHHHHHHHHHHHHHSHHHHHH
T ss_pred EEEecccceEHHHhCcc-cccccccccchhhhhhccccccccccccccccccccccccccccccccccchhhhhhhhhcc
Confidence 35689999999999999 899999999986543322211 111111111110 0000 0 000000
Q ss_pred ----cccCCccEEEEecCceeeccCCCeEEEEEEEEcCCCeEEEEEEEEEcCCCCChHHHHHHhccccCC---chhhHHH
Q 039874 270 ----HRLGSKAIYAFIYPNFMINRYGPWMDTNLVIPLAPTRCKVVFDYFLDGSLKDDKAFIEQSLKDSEQ---VQMEDII 342 (382)
Q Consensus 270 ----~~~g~~~~~~~lfPn~~i~~~~~~~~~~~~~P~s~~~t~v~~~~~~~~~~~~~~~~~~~~~~~~~~---v~~ED~~ 342 (382)
........+..+|||+++...++.+.++.+.|+++++|++++.+++++.....+++.+...+.... |+.||.+
T Consensus 90 ~~~~~~~~~~~~~~~iFPn~~i~~~~~~~~~~~~~P~~p~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ED~~ 169 (209)
T PF00848_consen 90 PGLPDDQRMGYRNYVIFPNLSIIVYPDHFTVRTIIPIGPDRTEVWSWWFVPKDEGAPPEFREARIRNWDRFFGVFAEDIE 169 (209)
T ss_dssp HHHHHHHHTSEEEEEETTTEEEEE-TTTTEEEEEEEESTTEEEEEEEEEEETT--STHHHHHHHHHHHHHHHSTHHHHHH
T ss_pred ccccccccccccceeeCCCEEEEecccccEEEEEEECCCCeEEEEEEEEEeCCcccchhhHHHHHHHHHhcCcHHHHHHH
Confidence 000112345689999999977777778999999999999999999988854445555544433332 8999999
Q ss_pred HHHHHhhcccCCCCCCCCCCCCcChHHHHHHHHHHHHhc
Q 039874 343 LCEGVQRGLESPAYCSGRYAPSVEQTMYHFHSLLHCNLT 381 (382)
Q Consensus 343 i~e~~q~~l~s~~~~~g~~~~~~E~~i~~f~~~~~~~l~ 381 (382)
++|++|+|++|+++..|+++...|.+|++||+++++.|+
T Consensus 170 ~~e~~Q~gl~s~~~~~~~~~~~~E~~v~~f~~~~~~~~~ 208 (209)
T PF00848_consen 170 IVERQQRGLRSRGFDPGRLSGTSERGVRHFHRWWRRYMA 208 (209)
T ss_dssp HHHHHHHHTTSSTSCTSEESSCSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCCCCCCCCCcCCHHHHHHHHHHHHHhc
Confidence 999999999999998898877899999999999999986
No 39
>PF00355 Rieske: Rieske [2Fe-2S] domain; InterPro: IPR017941 There are multiple types of iron-sulphur clusters which are grouped into three main categories based on their atomic content: [2Fe-2S], [3Fe-4S], [4Fe-4S] (see PDOC00176 from PROSITEDOC), and other hybrid or mixed metal types. Two general types of [2Fe-2S] clusters are known and they differ in their coordinating residues. The ferredoxin-type [2Fe-2S] clusters are coordinated to the protein by four cysteine residues (see PDOC00175 from PROSITEDOC). The Rieske-type [2Fe-2S] cluster is coordinated to its protein by two cysteine residues and two histidine residues [, ]. The structure of several Rieske domains has been solved []. It contains three layers of antiparallel beta sheets forming two beta sandwiches. Both beta sandwiches share the central sheet 2. The metal-binding site is at the top of the beta sandwich formed by the sheets 2 and 3. The Fe1 iron of the Rieske cluster is coordinated by two cysteines while the other iron Fe2 is coordinated by two histidines. Two inorganic sulphide ions bridge the two iron ions forming a flat, rhombic cluster. Rieske-type iron-sulphur clusters are common to electron transfer chains of mitochondria and chloroplast and to non-haem iron oxygenase systems: The Rieske protein of the Ubiquinol-cytochrome c reductase (1.10.2.2 from EC) (also known as the bc1 complex or complex III), a complex of the electron transport chains of mitochondria and of some aerobic prokaryotes; it catalyses the oxidoreduction of ubiquinol and cytochrome c. The Rieske protein of chloroplastic plastoquinone-plastocyanin reductase (1.10.99.1 from EC) (also known as the b6f complex). It is functionally similar to the bc1 complex and catalyses the oxidoreduction of plastoquinol and cytochrome f. Bacterial naphthalene 1,2-dioxygenase subunit alpha, a component of the naphthalene dioxygenase (NDO) multicomponent enzyme system which catalyses the incorporation of both atoms of molecular oxygen into naphthalene to form cis-naphthalene dihydrodiol. Bacterial 3-phenylpropionate dioxygenase ferredoxin subunit. Bacterial toluene monoxygenase. Bacterial biphenyl dioxygenase. ; GO: 0016491 oxidoreductase activity, 0051537 2 iron, 2 sulfur cluster binding, 0055114 oxidation-reduction process; PDB: 2XRX_A 2XR8_O 2XSH_G 2XSO_I 2YFI_C 2YFL_A 2YFJ_K 1G8J_D 1G8K_D 1NYK_B ....
Probab=99.87 E-value=3.7e-22 Score=157.93 Aligned_cols=93 Identities=31% Similarity=0.559 Sum_probs=77.4
Q ss_pred CCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCC--CCcceEEccCCCceecCC-Ccee
Q 039874 55 SWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGS--GKKSWFVCPYHGWTYGLD-GTLL 131 (382)
Q Consensus 55 ~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~--~~~~~i~CpyHgw~f~~~-G~~~ 131 (382)
.|++|++++||++.|+...+.+++.. +++|..+|+++|+.|+|||+|++|..|. ..++.|+||||||+||++ |+++
T Consensus 1 ~W~~v~~~~el~~~~~~~~~~~~~~~-v~~~~~~g~~~A~~~~CpH~g~~l~~~~~~~~~~~i~Cp~Hg~~Fd~~tG~~~ 79 (97)
T PF00355_consen 1 QWVPVCRSSELPEPGDVKRVDVGGKL-VLVRRSDGEIYAFSNRCPHQGCPLSEGPFSEDGGVIVCPCHGWRFDLDTGECV 79 (97)
T ss_dssp SEEEEEEGGGSHSTTEEEEEEETTEE-EEEEETTTEEEEEESB-TTTSBBGGCSSEETTTTEEEETTTTEEEETTTSBEE
T ss_pred CEEEeeEHHHCCCCCCEEEEEcCCcE-EEEEeCCCCEEEEEccCCccceeEcceecccccCEEEeCCcCCEEeCCCceEe
Confidence 59999999999976888888995555 4555679999999999999999999884 456789999999999996 9999
Q ss_pred ecccccCCCCCCccCCCCcceeeEEEC
Q 039874 132 KATRITGIKDFNVKEFGLVPLEVATWG 158 (382)
Q Consensus 132 ~~p~~~~~~~~~~~~~~l~~~~v~~~~ 158 (382)
..|... +|+.++|++.+
T Consensus 80 ~~p~~~----------~l~~~~v~ve~ 96 (97)
T PF00355_consen 80 GGPAPR----------PLPLYPVKVEG 96 (97)
T ss_dssp ESTTCS----------BSTEEEEEEET
T ss_pred cCCCCC----------CcCCCCeEEeC
Confidence 998753 46677887765
No 40
>PF13806 Rieske_2: Rieske-like [2Fe-2S] domain; PDB: 2JO6_A 3C0D_A 3D89_A 2JZA_A.
Probab=99.87 E-value=5.4e-22 Score=158.04 Aligned_cols=98 Identities=26% Similarity=0.416 Sum_probs=88.6
Q ss_pred CCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcC-CCCccccCCCCcc----eEEccCCCceecC-CC
Q 039874 55 SWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRH-HASILATGSGKKS----WFVCPYHGWTYGL-DG 128 (382)
Q Consensus 55 ~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~H-rg~~L~~g~~~~~----~i~CpyHgw~f~~-~G 128 (382)
.|+.||..+||+ +|..+.+.++|++|+|+|..+|+++|++|+||| ++++|+.|.+.+. .|+||.|+|.||+ +|
T Consensus 1 ~W~~v~~~~~L~-~~~~~~~~v~g~~Ialf~~~~~~vyAi~n~Cph~~~~~Ls~G~i~~~~g~~~V~CPlH~~~f~L~tG 79 (104)
T PF13806_consen 1 SWVPVCPLDDLP-PGEGRAVEVDGRQIALFRVRDGEVYAIDNRCPHSQAGPLSDGLIGDGNGEPCVACPLHKWRFDLRTG 79 (104)
T ss_dssp SEEEEEETTTSC-TTSEEEEEETTEEEEEEEESTTEEEEEESBETTTTSSCGCGSEEEECTTEEEEEETTTTEEEETTTT
T ss_pred CeeEeccHHHCC-CCCcEEEEECCeEEEEEEeCCCCEEEEeccCCccCCcccceeEEccCCCCEEEECCCCCCeEECCCc
Confidence 599999999999 677899999999999999988999999999999 8999999977654 8999999999999 89
Q ss_pred ceeecccccCCCCCCccCCCCcceeeEEECcEEEEE
Q 039874 129 TLLKATRITGIKDFNVKEFGLVPLEVATWGPFVLLN 164 (382)
Q Consensus 129 ~~~~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~ 164 (382)
+|+..|. ..|++|||++.+|.|||.
T Consensus 80 ~~~~~~~-----------~~l~~ypvrv~~g~V~V~ 104 (104)
T PF13806_consen 80 ECLEDPD-----------VSLRTYPVRVEDGQVYVE 104 (104)
T ss_dssp EESSECS-----------EBSBEEEEEECTTEEEEE
T ss_pred CcCCCCC-----------CcEEeEEEEEECCEEEEC
Confidence 9987433 458899999999999985
No 41
>cd08882 RHO_alpha_C_MupW-like C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas fluorescens MupW and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and have an N-terminal domain, which binds a Rieske-l
Probab=99.86 E-value=2.4e-21 Score=178.38 Aligned_cols=105 Identities=20% Similarity=0.165 Sum_probs=83.2
Q ss_pred EEEEecCceeeccCCCeEEEEEEEE--cCCCeEEEEEEEEEcCCCCC----h---HHHHHHhccc--cCCchhhHHHHHH
Q 039874 277 IYAFIYPNFMINRYGPWMDTNLVIP--LAPTRCKVVFDYFLDGSLKD----D---KAFIEQSLKD--SEQVQMEDIILCE 345 (382)
Q Consensus 277 ~~~~lfPn~~i~~~~~~~~~~~~~P--~s~~~t~v~~~~~~~~~~~~----~---~~~~~~~~~~--~~~v~~ED~~i~e 345 (382)
.+.++|||+++...++++.++++.| ++|++|.+...++.+..... . .+.+...... ++.|+.||+.+++
T Consensus 128 ~~~~lFPN~~i~~~p~~~~~~r~~P~~~dpd~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~ED~~~~e 207 (243)
T cd08882 128 IHYTLFPNFTILPGPDGLLVYRFRPHGDDPEKCIFDIWSLERYPEGAEPPEPPEEHEVFSDAPELGGLGLVLDQDFSNLP 207 (243)
T ss_pred CeEEECCCccccCCCCccEEEEeecCCCCCCeEEEEEEEEEECCCCCCCCCCCccccccccccccccccchhHhHHHHHH
Confidence 4567999999998888888899999 59999999998876643211 1 0222222233 5889999999999
Q ss_pred HHhhcccCCCCCCCCCCCCcChHHHHHHHHHHHHhc
Q 039874 346 GVQRGLESPAYCSGRYAPSVEQTMYHFHSLLHCNLT 381 (382)
Q Consensus 346 ~~q~~l~s~~~~~g~~~~~~E~~i~~f~~~~~~~l~ 381 (382)
.+|+||+|+++..+.++...|.+|+|||++|+++|+
T Consensus 208 ~vQ~Gl~S~~~~~~~l~~~EE~~I~~FH~~l~~~l~ 243 (243)
T cd08882 208 AVQKGMHSRGFGGLVLANQEESRIRHFHEVLDDYLA 243 (243)
T ss_pred HHHHHhccCCCCCcccCchHHHHHHHHHHHHHHHhC
Confidence 999999999998888886666999999999999874
No 42
>PRK09511 nirD nitrite reductase small subunit; Provisional
Probab=99.86 E-value=2.7e-21 Score=155.40 Aligned_cols=98 Identities=17% Similarity=0.347 Sum_probs=85.3
Q ss_pred CCeeeeecCCcCCCCCeEEEEECCeeEEEEEc-CCCcEEEEeccCcCCCCc-cccCCCC--c--ceEEccCCCceecC-C
Q 039874 55 SWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRD-DNGKIHAFHNVCRHHASI-LATGSGK--K--SWFVCPYHGWTYGL-D 127 (382)
Q Consensus 55 ~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~-~~g~~~a~~n~C~Hrg~~-L~~g~~~--~--~~i~CpyHgw~f~~-~ 127 (382)
.|+.||..+||+ +|....+.++|++|+|+|. .+|+++|++|+|||.|++ |+.|... + ..|+||+|||+||+ +
T Consensus 3 ~~~~v~~~~dl~-~g~~~~v~v~g~~i~l~~~~~~g~~~A~~n~CpH~~~~~L~~G~~~~~~g~~~V~CP~H~~~Fdl~T 81 (108)
T PRK09511 3 QWKDICKIDDIL-PGTGVCALVGDEQVAIFRPYHDEQVFAISNIDPFFQASVLSRGLIAEHQGELWVASPLKKQRFRLSD 81 (108)
T ss_pred cceEeeEHhHcC-CCceEEEEECCEEEEEEEECCCCEEEEEeCcCCCCCCcccCCceEccCCCeEEEECCCCCCEEECCC
Confidence 499999999999 6888999999999999995 589999999999999985 8888663 2 25999999999999 8
Q ss_pred CceeecccccCCCCCCccCCCCcceeeEEECcEEEEE
Q 039874 128 GTLLKATRITGIKDFNVKEFGLVPLEVATWGPFVLLN 164 (382)
Q Consensus 128 G~~~~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~ 164 (382)
|+++..|. ..|++|||++.+|.|||.
T Consensus 82 G~~~~~~~-----------~~l~typV~ve~g~V~v~ 107 (108)
T PRK09511 82 GLCMEDEQ-----------FSVKHYDARVKDGVVQLR 107 (108)
T ss_pred cccCCCCC-----------ccEeeEeEEEECCEEEEe
Confidence 99986332 368999999999999985
No 43
>cd03477 Rieske_YhfW_C YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. It is commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes. YhfW is found in bacteria, some eukaryotes and archaea.
Probab=99.85 E-value=3.7e-21 Score=149.60 Aligned_cols=79 Identities=24% Similarity=0.525 Sum_probs=71.1
Q ss_pred eeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecCCCceeecccccC
Q 039874 59 VGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGLDGTLLKATRITG 138 (382)
Q Consensus 59 v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~G~~~~~p~~~~ 138 (382)
+|..+||+ +|+.+.+.++|++++|+|+.+|+++|+.|+|||+|++|+.|.. +..|+||||||+||.+|+++..|....
T Consensus 2 ~~~~~dl~-~g~~~~~~~~g~~v~v~r~~~g~~~A~~~~CpH~g~~l~~g~~-~~~i~CP~Hg~~Fd~~G~~~~~Pa~~~ 79 (91)
T cd03477 2 ITDIEDLA-PGEGGVVNIGGKRLAVYRDEDGVLHTVSATCTHLGCIVHWNDA-EKSWDCPCHGSRFSYDGEVIEGPAVSG 79 (91)
T ss_pred ccchhhcC-CCCeEEEEECCEEEEEEECCCCCEEEEcCcCCCCCCCCcccCC-CCEEECCCCCCEECCCCcEeeCCCCCC
Confidence 67899998 7899999999999999999899999999999999999998765 458999999999999999999886544
Q ss_pred C
Q 039874 139 I 139 (382)
Q Consensus 139 ~ 139 (382)
+
T Consensus 80 l 80 (91)
T cd03477 80 L 80 (91)
T ss_pred C
Confidence 3
No 44
>cd03467 Rieske Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes. The Rieske domain can be divided into two subdomains, with an incomplete six-stranded, antiparallel beta-barrel at one end, and an iron-sulfur cluster binding subdomain at the other. The Rieske iron-sulfur center contains a [2Fe-2S] cluster, which is involved in electron transfer, and is liganded to two histidine and two cysteine residues present in conserved sequences called Rieske motifs. In RO systems, the N-terminal Rieske domain of the alpha subunit acts as an electron shuttle that accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron in the alpha subunit C-terminal domain to be used for catalysis.
Probab=99.84 E-value=1.1e-20 Score=149.70 Aligned_cols=92 Identities=30% Similarity=0.519 Sum_probs=83.7
Q ss_pred CeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceecC-CCceeecc
Q 039874 56 WQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGL-DGTLLKAT 134 (382)
Q Consensus 56 W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~-~G~~~~~p 134 (382)
|+.++..++|+ +|+...+.+.+.+++|+|..+|+++|++|+|||+|++|..+...+..|+||+|||+||+ ||+++..|
T Consensus 1 w~~~~~~~~~~-~~~~~~~~~~~~~~~v~~~~~~~~~a~~~~CpH~g~~l~~~~~~~~~i~Cp~H~~~f~~~~G~~~~~p 79 (98)
T cd03467 1 WVVVGALSELP-PGGGRVVVVGGGPVVVVRREGGEVYALSNRCTHQGCPLSEGEGEDGCIVCPCHGSRFDLRTGEVVSGP 79 (98)
T ss_pred CEEeeeccccC-CCceEEEEECCeEEEEEEeCCCEEEEEcCcCCCCCccCCcCccCCCEEEeCCCCCEEeCCCccCcCCC
Confidence 89999999998 68889999999999999998889999999999999999988888889999999999999 99999877
Q ss_pred cccCCCCCCccCCCCcceeeEEEC
Q 039874 135 RITGIKDFNVKEFGLVPLEVATWG 158 (382)
Q Consensus 135 ~~~~~~~~~~~~~~l~~~~v~~~~ 158 (382)
. ..+|+++++++.+
T Consensus 80 ~----------~~~l~~~~v~~~~ 93 (98)
T cd03467 80 A----------PRPLPKYPVKVEG 93 (98)
T ss_pred C----------CCCcCEEEEEEeC
Confidence 5 2457888898884
No 45
>COG2146 {NirD} Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]
Probab=99.84 E-value=1.1e-20 Score=150.82 Aligned_cols=102 Identities=24% Similarity=0.373 Sum_probs=87.4
Q ss_pred cCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccccCCCCcc-eEEccCCCceecC-CCcee
Q 039874 54 RSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILATGSGKKS-WFVCPYHGWTYGL-DGTLL 131 (382)
Q Consensus 54 ~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~-~i~CpyHgw~f~~-~G~~~ 131 (382)
..|+.+|..++|+ ++..+.+.+.+...++++..+|+++|+.|+|||.|++|+.|.+.+. .|+||.|+|.||+ +|+|+
T Consensus 3 ~~w~~~c~~~dl~-~~~~~~v~~~~~~~~~~~~~~g~v~A~~n~CpH~~~~l~~g~v~~~~~i~Cp~H~a~Fdl~tG~~~ 81 (106)
T COG2146 3 MNWIRICKVDDLP-EGGGVRVLVGGGRFALVVRADGEVFAIDNRCPHAGAPLSRGLVEGDETVVCPLHGARFDLRTGECL 81 (106)
T ss_pred CceEEEEehHhcC-CCCceEEEecCCEEEEEEecCCEEEEEeCcCCCCCCcccccEeCCCCEEECCccCCEEEcCCCcee
Confidence 5799999999999 4666777775535666666799999999999999999999999886 5999999999999 89999
Q ss_pred ecccccCCCCCCccCCCCcceeeEEECcEEEEEcC
Q 039874 132 KATRITGIKDFNVKEFGLVPLEVATWGPFVLLNMG 166 (382)
Q Consensus 132 ~~p~~~~~~~~~~~~~~l~~~~v~~~~g~v~v~~~ 166 (382)
..|... .|++|++++.+|.|||.++
T Consensus 82 ~~p~~~----------~l~~y~vrve~g~v~v~~~ 106 (106)
T COG2146 82 EPPAGK----------TLKTYPVRVEGGRVFVDLD 106 (106)
T ss_pred cCCCCC----------ceeEEeEEEECCEEEEecC
Confidence 988643 1899999999999999864
No 46
>cd08880 RHO_alpha_C_ahdA1c-like C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins. C-terminal catalytic domain of the large subunit (ahdA1c) of the AhdA3A4A2cA1c salicylate 1-hydroxylase complex from Sphingomonas sp. strain P2, and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). AhdA3A4A2cA1c is one of three known isofunctional salicylate 1-hydroxylase complexes in strain P2, involved in phenanthrene degradation, which catalyze the monooxygenation of salicylate, the metabolite of phenanthene degradation, to produce catechol. This complex prefers salicylate over other substituted salicylates; the other two salicylate 1-hydroxylases have different substrate preferences. RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative deg
Probab=99.82 E-value=1.4e-19 Score=164.40 Aligned_cols=173 Identities=18% Similarity=0.226 Sum_probs=113.9
Q ss_pred EEEEEeCcccchhhhhcCCCCCCCCCcCc--cccccCCccc---ccccccCceeeeeecCCCCCC---------------
Q 039874 206 RREYTIECNWKVFCDNYLDGGYHVPYAHK--GLASGLQLDS---YSTSLYEKVSIQRCESGSTEG--------------- 265 (382)
Q Consensus 206 ~~~~~~~~NWK~~vEN~~D~~yH~~~vH~--~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~--------------- 265 (382)
..++.+++|||+++||+.| +||++.+|. .+++....+. ......+.++....+......
T Consensus 3 ~~~~~~~~nwk~~~~~~~~-~yh~~~~h~~~~t~g~~~~~~~~~~~~~~~g~H~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (222)
T cd08880 3 YYRQRIPGNWKLYAENVKD-PYHASLLHLFFVTFGLWRADQKSSIIDDEHGRHSVMTSTKSGDDEAAEKDSEEIRSFRDD 81 (222)
T ss_pred ceeeecCCCcHHHHHhccC-cchHHHHhhhheeeecccCCCCCceEEecCCCceEEEEecCCCcccccchHHHHHHHhhc
Confidence 3456889999999999999 899999999 5554322111 111222333322222111000
Q ss_pred -----C------ccccccCCccEEEEecCceeeccCCCeEEEEEEEEcCCCeEEEEEEEEEcCCCCCh-HHHHHHh---c
Q 039874 266 -----T------DDTHRLGSKAIYAFIYPNFMINRYGPWMDTNLVIPLAPTRCKVVFDYFLDGSLKDD-KAFIEQS---L 330 (382)
Q Consensus 266 -----~------~~~~~~g~~~~~~~lfPn~~i~~~~~~~~~~~~~P~s~~~t~v~~~~~~~~~~~~~-~~~~~~~---~ 330 (382)
+ ..+ ..+.......+|||+++...++++.++++.|+++++|++.+.++......+. .+..... +
T Consensus 82 ~~l~d~~~~~~~~e~-~~~~~~~~~~iFPNl~l~~~~~~l~v~~~~P~gpd~t~~~~~~~~~~~~~~e~~~~~~~~~~~~ 160 (222)
T cd08880 82 FTLLDPSLLDGRAEF-DDDITLVIQSIFPSLVVQQIQNTLAVRHIIPKGPDSFELVWTYFGYEDDDEEMTRLRLRQANLV 160 (222)
T ss_pred cccCCHHHHhhhHhh-cCCCceEEEEECCCEEEeccCCcEEEEEEEecCCCeEEEEEEEEEecCCCHHHHHHHHHHhccc
Confidence 0 001 0111124567999999988888888999999999999998877765533221 1111221 2
Q ss_pred cccCCchhhHHHHHHHHhhcccCCCCC------------CCCCCCCcChHHHHHHHHHHHHhc
Q 039874 331 KDSEQVQMEDIILCEGVQRGLESPAYC------------SGRYAPSVEQTMYHFHSLLHCNLT 381 (382)
Q Consensus 331 ~~~~~v~~ED~~i~e~~q~~l~s~~~~------------~g~~~~~~E~~i~~f~~~~~~~l~ 381 (382)
..+..|..||.+++|++|+|++|+++. .+.++ ..|.+|+.|++++++.|+
T Consensus 161 gp~g~v~~ED~ei~e~vQ~Gl~s~~~~~~~~~~g~~~~~~~~~~-~~E~~ir~f~~~y~~~M~ 222 (222)
T cd08880 161 GPAGFVSMEDGEAIEFVQRGVEGDGGDRSVIEMGGGDVESSDHM-VTEAAIRGFWKYYRKVMG 222 (222)
T ss_pred CCcCCCccchHHHHHHhCchhcCCCcccchhhhCCCCCCCcCcc-cCcHHHHHHHHHHHHHhC
Confidence 234689999999999999999998876 33333 479999999999999874
No 47
>cd03471 Rieske_cytochrome_b6f Iron-sulfur protein (ISP) component of the b6f complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The cytochrome b6f complex from Mastigocladus laminosus, a thermophilic cyanobacterium, contains four large subunits, including cytochrome f, cytochrome b6, the Rieske ISP, and subunit IV; as well as four small hydrophobic subunits, PetG, PetL, PetM, and PetN. Rieske ISP, one of the large subunits of the cytochrome bc-type complexes, is involved in respiratory and photosynthetic electron transfer. The core of the chloroplast b6f complex is similar to the analogous respiratory cytochrome bc(1) complex, but the domain arrangement outside the core and the complement of prosthetic groups are strikingly different.
Probab=99.79 E-value=1.1e-18 Score=142.31 Aligned_cols=91 Identities=19% Similarity=0.319 Sum_probs=73.6
Q ss_pred CCCCeEEEE-ECCeeEEEEEcCCCcE--EEEeccCcCCCCccccCCCCcceEEccCCCceecCCCceeecccccCCCCCC
Q 039874 67 DPQDFFSGR-IGEVEFVVCRDDNGKI--HAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGLDGTLLKATRITGIKDFN 143 (382)
Q Consensus 67 ~~g~~~~~~-~~~~~~vv~r~~~g~~--~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~G~~~~~p~~~~~~~~~ 143 (382)
+||++..++ ..+.+.++++..+|++ +|++|+|||+|++|..+.+ ++.|+||+|||+||.+|+++..|.
T Consensus 21 ~~~~~~~~~~~~~~~~Ilv~~~dg~i~~~A~~~~CpH~G~~l~~~~~-~~~i~CP~Hg~~Fd~tG~~~~gPa-------- 91 (126)
T cd03471 21 NPGDRSLVQGLKGDPTYLIVEEDKTIANYGINAVCTHLGCVVPWNAA-ENKFKCPCHGSQYDATGKVVRGPA-------- 91 (126)
T ss_pred CCCCeEEEEEecCCeEEEEEeCCCeEEEEEecCCCcCCCCCcCccCC-CCEEEcCCCCCEECCCCCEecCCC--------
Confidence 578888877 4555555555568977 8999999999999997655 458999999999999999998764
Q ss_pred ccCCCCcceeeEEECcEEEEEcCCC
Q 039874 144 VKEFGLVPLEVATWGPFVLLNMGKE 168 (382)
Q Consensus 144 ~~~~~l~~~~v~~~~g~v~v~~~~~ 168 (382)
..+|..|+|++.+|.|||.+-.+
T Consensus 92 --~~~L~~y~V~vedg~I~V~~~~~ 114 (126)
T cd03471 92 --PLSLALVHATVDDDKVVLSPWTE 114 (126)
T ss_pred --CCCCceEeEEEECCEEEEEECcc
Confidence 24688899999999999976543
No 48
>cd03476 Rieske_ArOX_small Small subunit of Arsenite oxidase (ArOX) family, Rieske domain; ArOX is a molybdenum/iron protein involved in the detoxification of arsenic, oxidizing it to arsenate. It consists of two subunits, a large subunit similar to members of the DMSO reductase family of molybdenum enzymes and a small subunit with a Rieske-type [2Fe-2S] cluster. The large subunit of ArOX contains the molybdenum site at which the oxidation of arsenite occurs. The small subunit contains a domain homologous to the Rieske domains of the cytochrome bc(1) and cytochrome b6f complexes as well as naphthalene 1,2-dioxygenase. The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer.
Probab=99.78 E-value=1.4e-18 Score=143.00 Aligned_cols=96 Identities=19% Similarity=0.239 Sum_probs=82.9
Q ss_pred eeeeecCCcCCCCCeEEEEECC--eeEEEEEcC---------CCcEEEEeccCcCCCCccccCCCCcceEEccCCCceec
Q 039874 57 QVVGYTDQLKDPQDFFSGRIGE--VEFVVCRDD---------NGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYG 125 (382)
Q Consensus 57 ~~v~~~~~l~~~g~~~~~~~~~--~~~vv~r~~---------~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~ 125 (382)
+.||..++|+ +|+.+.+++.+ .+++|+|.. +|+++|++|+|||+|++|..+. .++.|+||+|||+||
T Consensus 4 ~~v~~~~~l~-~g~~~~~~~~~~~~~i~v~r~~~~~~~~~~~~g~~~A~~~~CpH~g~~L~~g~-~~~~v~CP~Hg~~Fd 81 (126)
T cd03476 4 VKVANLSQLS-PGQPVTFNYPDESSPCVLVKLGVPVPGGVGPDNDIVAFSALCTHMGCPLTYDP-SNKTFVCPCHFSQFD 81 (126)
T ss_pred eEEeeHHHCC-CCCeEEEEcCCCCCcEEEEECCccccCccccCCEEEEEeCcCCCCCccccccc-cCCEEEccCcCCEEe
Confidence 4588999998 68899999877 899999974 6899999999999999999876 667899999999999
Q ss_pred C--CCceeecccccCCCCCCccCCCCcceeeEEE--CcEEEEE
Q 039874 126 L--DGTLLKATRITGIKDFNVKEFGLVPLEVATW--GPFVLLN 164 (382)
Q Consensus 126 ~--~G~~~~~p~~~~~~~~~~~~~~l~~~~v~~~--~g~v~v~ 164 (382)
+ +|+++..|. ...|+.|++++. +|.|||.
T Consensus 82 l~tgG~~~~gPa----------~~~L~~ypv~ve~~~g~V~~~ 114 (126)
T cd03476 82 PARGGQMVSGQA----------TQNLPQIVLEYDEASGDIYAV 114 (126)
T ss_pred CCCCCeEEcCCC----------CCCCCeEEEEEECCCCEEEEE
Confidence 9 379997764 246888999999 9999984
No 49
>cd03473 Rieske_CMP_Neu5Ac_hydrolase_N Cytidine monophosphate-N-acetylneuraminic acid (CMP Neu5Ac) hydroxylase family, N-terminal Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. CMP Neu5Ac hydroxylase is the key enzyme for the synthesis of N-glycolylneuraminic acid (NeuGc) from N-acetylneuraminic acid (Neu5Ac), NeuGc and Neu5Ac are members of a family of cell surface sugars called sialic acids. All mammals except humans have both NeuGc variants on their cell surfaces. In humans, the gene encoding CMP Neu5Ac hydroxylase has a mutation within its coding region that abolishes NeuGc production.
Probab=99.72 E-value=1.4e-17 Score=130.71 Aligned_cols=71 Identities=14% Similarity=0.337 Sum_probs=64.5
Q ss_pred CCcCCCCCeEEEEE-CCeeEEEEEcCCCcEEEEeccCcCCCCccccC--CCCcceEEccCCCceecC-CCceeeccc
Q 039874 63 DQLKDPQDFFSGRI-GEVEFVVCRDDNGKIHAFHNVCRHHASILATG--SGKKSWFVCPYHGWTYGL-DGTLLKATR 135 (382)
Q Consensus 63 ~~l~~~g~~~~~~~-~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~~g--~~~~~~i~CpyHgw~f~~-~G~~~~~p~ 135 (382)
.+|+ +|..+.+.+ +|.+|+|+|. +|+++|++|+|||+|++|+.| ...++.|+||+|+|+||+ +|+++..|.
T Consensus 15 ~eL~-~G~~~~v~v~~g~~I~V~~~-~G~~~A~~n~CpH~g~pL~~g~g~~~g~~V~CP~Hg~~FDLrTG~~~~~p~ 89 (107)
T cd03473 15 ANLK-EGINFFRNKEDGKKYIIYKS-KSELKACKNQCKHQGGLFIKDIEDLDGRTVRCTKHNWKLDVSTMKYVNPPD 89 (107)
T ss_pred hcCC-CCceEEEEecCCcEEEEEEE-CCEEEEEcCCCCCCCccccCCcceEeCCEEEeCCCCCEEEcCCCCCccCCc
Confidence 7888 699999999 9999999996 899999999999999999984 577789999999999999 899997664
No 50
>cd08878 RHO_alpha_C_DMO-like C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of Stenotrophomonas maltophilia dicamba O-demethylase (DMO) and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components an
Probab=99.71 E-value=1.5e-16 Score=141.16 Aligned_cols=169 Identities=18% Similarity=0.226 Sum_probs=107.7
Q ss_pred EEEeCcccchhhhhcCCCCCCCCCcCccccccCCcc-----cccccccC-ceeeeeecCCCCCCCccccc-cCCccEEEE
Q 039874 208 EYTIECNWKVFCDNYLDGGYHVPYAHKGLASGLQLD-----SYSTSLYE-KVSIQRCESGSTEGTDDTHR-LGSKAIYAF 280 (382)
Q Consensus 208 ~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~~~~-----~~~~~~~~-~~~~~~~~~~~~~~~~~~~~-~g~~~~~~~ 280 (382)
.++++|||++++||++| .+|++++|+++++..+.. .++....+ ..............+..+.. .+....+.+
T Consensus 5 ~~~~~~n~~~~~EN~~D-~~H~~fvH~~~~g~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (196)
T cd08878 5 YRHIDCNWLQVVENLMD-PSHVSFVHRSSIGRDAADLPSGPPKEVEEVPRGVTYRRWREDEDPPPFGFEGPVDRWRVIEF 83 (196)
T ss_pred cEEecCCcEEEehhCcc-ccchhhhChhhhCccccccccCCCceEEEeCCEEEEEEEecCCCCCCCCCCCCccEEEEEEE
Confidence 35689999999999999 799999999988754332 22211111 12222221111100111111 111234568
Q ss_pred ecCceeeccCC-----------CeEEEEEEEEcCCCeEEEEEEEEEcCCCCC-----hHHHHHHhccccCCchhhHHHHH
Q 039874 281 IYPNFMINRYG-----------PWMDTNLVIPLAPTRCKVVFDYFLDGSLKD-----DKAFIEQSLKDSEQVQMEDIILC 344 (382)
Q Consensus 281 lfPn~~i~~~~-----------~~~~~~~~~P~s~~~t~v~~~~~~~~~~~~-----~~~~~~~~~~~~~~v~~ED~~i~ 344 (382)
++||+++.... ....++.++|+++++|++++.++ .+.... .+...+........|+.||+.|+
T Consensus 84 ~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~tPid~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~v~~eD~~i~ 162 (196)
T cd08878 84 LLPNVLLIDPGVAPAGTREQGVRMRVTHWITPIDETTTHYFWFFV-RNFAPDEEKKDDEELTETLRSGLSGAFNEDKEAV 162 (196)
T ss_pred ECCEEEEEecccccCCcCCCcceEEEEEEEccCCCCeEEEEEEec-cCCCCCccccCCHHHHHHHHHHhhhhchhHHHHH
Confidence 99998876542 24567889999999998777544 333222 23344445556788999999999
Q ss_pred HHHhhcccCCCCCCCCCCCCcChHHHHHHHHHHHHh
Q 039874 345 EGVQRGLESPAYCSGRYAPSVEQTMYHFHSLLHCNL 380 (382)
Q Consensus 345 e~~q~~l~s~~~~~g~~~~~~E~~i~~f~~~~~~~l 380 (382)
|+||+++.+. .. ...+...|.++.+||+|+++.+
T Consensus 163 e~q~~~~~~~-~~-~~~l~~~D~~~~~~Rr~l~~~~ 196 (196)
T cd08878 163 EAQQRIIDRD-PT-REHLGLSDKGIVRFRRLLRRLL 196 (196)
T ss_pred HHHHHHHhcC-Cc-ccccccccHHHHHHHHHHHHhC
Confidence 9999998875 22 3333358999999999999874
No 51
>cd08879 RHO_alpha_C_AntDO-like C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of anthranilate 1,2-dioxygenase (AntDO) and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are
Probab=99.69 E-value=1.4e-16 Score=146.32 Aligned_cols=173 Identities=20% Similarity=0.208 Sum_probs=108.8
Q ss_pred EEEEEeCcccchhhhhcCCCCCCCCCcCccccccC------C-ccccc-----------ccccCceeeeeecCCCC----
Q 039874 206 RREYTIECNWKVFCDNYLDGGYHVPYAHKGLASGL------Q-LDSYS-----------TSLYEKVSIQRCESGST---- 263 (382)
Q Consensus 206 ~~~~~~~~NWK~~vEN~~D~~yH~~~vH~~~~~~~------~-~~~~~-----------~~~~~~~~~~~~~~~~~---- 263 (382)
..++.++||||+++||+.| +||++++|++++... . ..... ..+...+++........
T Consensus 3 ~~~~~~~~nWK~~~en~~d-~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nGH~~~~~~~~~~~~~~ 81 (237)
T cd08879 3 THRYRYRGNWKLQLENGTD-GYHPPFVHASYVATTGAAAADATRGGLSSFMTGPQGGGVRDLGNGHSVLDSRPEIPRLDA 81 (237)
T ss_pred eeEEEeeceEEEEeeecCc-cccCccccHHHHHhhhhhhccccccccccccccccCCceEecCCCcEEEEeccccccccc
Confidence 3567899999999999999 899999999876421 0 00000 01111222221110000
Q ss_pred ----CCCccc-----cccCC---------ccEEEEecCceeeccCCCeEEEEEEEEcCCCeEEEEEEEEEcCCCCChH--
Q 039874 264 ----EGTDDT-----HRLGS---------KAIYAFIYPNFMINRYGPWMDTNLVIPLAPTRCKVVFDYFLDGSLKDDK-- 323 (382)
Q Consensus 264 ----~~~~~~-----~~~g~---------~~~~~~lfPn~~i~~~~~~~~~~~~~P~s~~~t~v~~~~~~~~~~~~~~-- 323 (382)
.....+ ..+|. .....+||||+++... ...++.+.|++|++|+++.++++.++.++..
T Consensus 82 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IFPNl~i~~~--~~~ir~~~P~~pd~t~v~~~~l~~~~a~~e~~~ 159 (237)
T cd08879 82 DRPKPPIAEYRAALVAAHGEERARRILRGRGRNLNIFPNLFIIDI--SQQIRVIRPIAVDETEVTSWALRPKGAPDEVNR 159 (237)
T ss_pred ccccCccHHHHHHHHHHHhHHHHHHHHcCCCceeEEcCCeeeccC--cceEEEEEcCCCCeEEEEEEEEEeCCCCHHHHH
Confidence 000000 11221 1234589999999865 4667889999999999999888887654321
Q ss_pred HHHHH---hccccCCchhhHHHHHHHHhhcccCCCCC---C------------CCCC--CCcChHHHHHHHHHHHHhc
Q 039874 324 AFIEQ---SLKDSEQVQMEDIILCEGVQRGLESPAYC---S------------GRYA--PSVEQTMYHFHSLLHCNLT 381 (382)
Q Consensus 324 ~~~~~---~~~~~~~v~~ED~~i~e~~q~~l~s~~~~---~------------g~~~--~~~E~~i~~f~~~~~~~l~ 381 (382)
+..+. .....+.+..||.++++.+|+|+++++.. . |... ...|...+.|++.++++|+
T Consensus 160 ~~~~~~~~~~~~~g~v~~ED~e~~e~~Q~Gl~s~~~~~~~~~r~~~~~~~~~~g~~~~~~~~E~~~r~~y~~W~~~M~ 237 (237)
T cd08879 160 RRLRYSEDFFGPSGFATPDDLEAFERCQRGLAARGEEWVDLSRGLGREKADEDGVVTGAVTDELPMRNQWRAWKRLMT 237 (237)
T ss_pred HHHHHhhcccccccCCccchHHHHHHHHHHhcCCCcchhhhhcCCCCCCCCCCCccCCccccchhHHHHHHHHHHHhC
Confidence 11111 22345689999999999999999997531 1 2111 1359999999999988874
No 52
>TIGR02694 arsenite_ox_S arsenite oxidase, small subunit. This model represents the small subunit of an arsenite oxidase complex. It is a Rieske protein and appears to rely on the Tat (twin-arginine translocation) system to cross the membrane. Although this enzyme could run in the direction of arsenate reduction to arsenite in principle, the relevant biological function is arsenite oxidation for energy metabolism, not arsenic resistance. Homologs to both large (TIGR02693) and small subunits that score in the gray zone between the set trusted and noise bit score cutoffs for the respective models are found in Aeropyrum pernix K1 and in Sulfolobus tokodaii str. 7.
Probab=99.69 E-value=1.8e-16 Score=130.70 Aligned_cols=95 Identities=17% Similarity=0.225 Sum_probs=78.5
Q ss_pred eeeeecCCcCCCCCeEEEEECC--eeEEEEEc---------CCCcEEEEeccCcCCCCccccCCCCcceEEccCCCceec
Q 039874 57 QVVGYTDQLKDPQDFFSGRIGE--VEFVVCRD---------DNGKIHAFHNVCRHHASILATGSGKKSWFVCPYHGWTYG 125 (382)
Q Consensus 57 ~~v~~~~~l~~~g~~~~~~~~~--~~~vv~r~---------~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~ 125 (382)
..||..+||+ +|..+.+.+.+ .+++|+|. .+|+++|++|+|||.|++|..+. .+..|+||+|||+||
T Consensus 7 ~~v~~~~dl~-~g~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~G~~~A~~~~CpH~g~~L~~~~-~~~~i~CP~Hga~Fd 84 (129)
T TIGR02694 7 NRVANISELK-LNEPLDFNYPDASSPGVLLKLGTPVEGGVGPDGDIVAFSTLCTHMGCPVSYSA-DNKTFNCPCHFSVFD 84 (129)
T ss_pred eEEEeHHHCC-CCCCEEEecCCCCCCEEEEecCCcccCccccCCEEEEEeCcCCCCCccccccc-CCCEEEcCCCCCEEC
Confidence 4589999999 57788888764 47899984 58999999999999999999765 457899999999999
Q ss_pred CC--CceeecccccCCCCCCccCCCCcceeeEEE-CcEEEE
Q 039874 126 LD--GTLLKATRITGIKDFNVKEFGLVPLEVATW-GPFVLL 163 (382)
Q Consensus 126 ~~--G~~~~~p~~~~~~~~~~~~~~l~~~~v~~~-~g~v~v 163 (382)
++ |+++..|. ..+|.+|++++. +|.||.
T Consensus 85 l~tgG~~~~gP~----------~~~L~~y~v~v~~~G~V~~ 115 (129)
T TIGR02694 85 PEKGGQQVWGQA----------TQNLPQIVLRVADNGDIFA 115 (129)
T ss_pred CCCCCcEECCCC----------CCCCCeeEEEEECCCeEEE
Confidence 95 68987664 245888999997 589983
No 53
>cd03470 Rieske_cytochrome_bc1 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including uni- and multi-cellular eukaryotes, plants (in their mitochondria) and bacteria. The cytochrome bc(1) and b6f complexes are central components of the respiratory and photosynthetic electron transport chains, respectively, which carry out similar core electron and proton transfer steps. The bc(1) and b6f complexes share a common core structure of three catalytic subunits: cyt b, the Rieske ISP, and either a cyt c1 in the bc(1) complex or cyt f in the b6f complex, which are arranged in an integral membrane-bound dimeric complex. While the core of the b6f complex is similar to that of the bc(1) complex, the domain arrangement outside the core and the complement of prosthetic groups are strikingly different.
Probab=99.67 E-value=4.6e-16 Score=128.06 Aligned_cols=92 Identities=14% Similarity=0.251 Sum_probs=77.5
Q ss_pred ecCCcCCCCCeEEEEECCeeEEEEEcC----------------------------CCcEEEEeccCcCCCCccccCCCCc
Q 039874 61 YTDQLKDPQDFFSGRIGEVEFVVCRDD----------------------------NGKIHAFHNVCRHHASILATGSGKK 112 (382)
Q Consensus 61 ~~~~l~~~g~~~~~~~~~~~~vv~r~~----------------------------~g~~~a~~n~C~Hrg~~L~~g~~~~ 112 (382)
..++|+ +|..+++.+.|.+|+|+|.. +|+++|+.++|+|.|+.+..+.+.+
T Consensus 5 dl~~l~-~G~~~~v~w~Gkpv~I~~rt~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~CtH~gc~~~~~~~~~ 83 (126)
T cd03470 5 DLSKIE-EGQLITVEWRGKPVFIRRRTPEEIAEAKAVDLSLLDDPDPAANRVRSGKPEWLVVIGICTHLGCVPTYRAGDY 83 (126)
T ss_pred EhhhCC-CCCEEEEEECCeEEEEEECCHHHHhhhhhcchhhcCCccccccccccCCCcEEEEeCcCCCCCCeeccccCCC
Confidence 457888 79999999999999999953 6799999999999999998776667
Q ss_pred ceEEccCCCceecCCCceeecccccCCCCCCccCCCCcceeeEEEC-cEEEE
Q 039874 113 SWFVCPYHGWTYGLDGTLLKATRITGIKDFNVKEFGLVPLEVATWG-PFVLL 163 (382)
Q Consensus 113 ~~i~CpyHgw~f~~~G~~~~~p~~~~~~~~~~~~~~l~~~~v~~~~-g~v~v 163 (382)
+.|.||+|||+||++|+.+..|.. ..|+.+++++.+ +.|+|
T Consensus 84 ~~~~CPcHgs~Fdl~G~~~~gPa~----------~~L~~~p~~~~~~~~l~i 125 (126)
T cd03470 84 GGFFCPCHGSHYDASGRIRKGPAP----------LNLEVPPYKFLSDTTIVI 125 (126)
T ss_pred CEEEecCcCCEECCCCeEecCCCC----------CCCCeeeEEEecCCEEEe
Confidence 889999999999999999987653 357777888766 56654
No 54
>cd08881 RHO_alpha_C_NDO-like C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). This domain binds non-heme Fe(II). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents form the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are th
Probab=99.66 E-value=7e-16 Score=138.37 Aligned_cols=168 Identities=14% Similarity=0.120 Sum_probs=107.3
Q ss_pred EEEEEeCcccchhhhhcC-CCCCCCCCcCccccccCCcc---cccccccCceeeeeecCCCCCCCccccccCCccEEEEe
Q 039874 206 RREYTIECNWKVFCDNYL-DGGYHVPYAHKGLASGLQLD---SYSTSLYEKVSIQRCESGSTEGTDDTHRLGSKAIYAFI 281 (382)
Q Consensus 206 ~~~~~~~~NWK~~vEN~~-D~~yH~~~vH~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~l 281 (382)
..++.++||||+++|||+ | +||++++|++++...... ....... ...+.....+. +...........++
T Consensus 8 ~~~~~~~~NWK~~~en~~~d-~yH~~~~H~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~GH-----g~~~~~~~~~~~~i 80 (206)
T cd08881 8 PQKWVIKANWKLAAENFAGD-GYHTGTTHASALEAGLPPDAADLPPIDL-GLQFTAPWHGH-----GLGFFLDSPQHGTI 80 (206)
T ss_pred cEEEEecCcceehhhccccc-cccchhhhHHHHHhhCCcccccCCCCCC-CcEEEeCCCCe-----EEEEeccCcceeeE
Confidence 467889999999999999 9 899999999876422110 0000000 00111000000 00000002234579
Q ss_pred cCceeeccCCCeEEEEEEEEcCCCeEEEEEEEEEcCCCCCh--HHHHH---HhccccCCchhhHHHHHHHHhhcccCCCC
Q 039874 282 YPNFMINRYGPWMDTNLVIPLAPTRCKVVFDYFLDGSLKDD--KAFIE---QSLKDSEQVQMEDIILCEGVQRGLESPAY 356 (382)
Q Consensus 282 fPn~~i~~~~~~~~~~~~~P~s~~~t~v~~~~~~~~~~~~~--~~~~~---~~~~~~~~v~~ED~~i~e~~q~~l~s~~~ 356 (382)
|||+++...+ .+.++.+.|+++++|+++..+++.+++++. .+..+ ..+...+.+..||.++++.+|++++...-
T Consensus 81 FPN~~~~~~~-~~~~r~~~P~gp~~tev~~~~~~~kda~e~~~~~~~~~~~~~~gpaG~~~~DD~e~~e~~Q~g~~~~~~ 159 (206)
T cd08881 81 FPNLSFLPGY-FNTLRVWHPRGPDETEVWTWTLVDKDAPEEVKDRVRRQYTRTFGPAGTFEQDDGENWEEITRVARGYVA 159 (206)
T ss_pred CCcchhhhcc-CceEEEEEeCCCCeEEEEEEEEecCCCCHHHHHHHHHHHHhccCCcCCCcCchHHHHHHHHHhhccccc
Confidence 9999998654 456777899999999999988888877642 11222 22345677889999999999999996420
Q ss_pred -------C-------------CCCCC--CCcChHHHHHHHHHHHHhc
Q 039874 357 -------C-------------SGRYA--PSVEQTMYHFHSLLHCNLT 381 (382)
Q Consensus 357 -------~-------------~g~~~--~~~E~~i~~f~~~~~~~l~ 381 (382)
. +|... ...|..++.|++.++++|+
T Consensus 160 ~~~~l~~~mg~~~~~~~~~~~pg~~~~~~~~E~~~R~fy~~W~~~M~ 206 (206)
T cd08881 160 RQVPLNYQMGLGVEPEPDPGGPGIVGPGFYSEANQRGFYRRWLELME 206 (206)
T ss_pred cccChhhhcCCCCCCCCCCCCCCccccCccChHHHHHHHHHHHHHhC
Confidence 1 12111 1369999999999998874
No 55
>PRK13474 cytochrome b6-f complex iron-sulfur subunit; Provisional
Probab=99.52 E-value=7.6e-14 Score=121.80 Aligned_cols=86 Identities=23% Similarity=0.418 Sum_probs=69.6
Q ss_pred CCCeEEEE-ECCee-EEEEEcCCCcE--EEEeccCcCCCCccccCCCCcceEEccCCCceecCCCceeecccccCCCCCC
Q 039874 68 PQDFFSGR-IGEVE-FVVCRDDNGKI--HAFHNVCRHHASILATGSGKKSWFVCPYHGWTYGLDGTLLKATRITGIKDFN 143 (382)
Q Consensus 68 ~g~~~~~~-~~~~~-~vv~r~~~g~~--~a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~G~~~~~p~~~~~~~~~ 143 (382)
+|+...+. +.|.+ +++++ .+|++ +|++++|+|.|++|..+.+. +.|.||+|||+||.+|+.+..|..
T Consensus 74 ~g~~~~v~~~~g~~~~lv~~-~~g~~~~~a~~~~CtH~gc~l~~~~~~-~~~~CP~Hgs~Fd~tG~~~~gPa~------- 144 (178)
T PRK13474 74 AGDRSLVQGLKGDPTYLVVE-EDGTIASYGINAVCTHLGCVVPWNSGE-NKFQCPCHGSQYDATGKVVRGPAP------- 144 (178)
T ss_pred CCCcEEEEEcCCCeEEEEEe-CCCEEEEEEecCCCCCCCCccccccCC-CEEEecCcCCEECCCCCCccCCCC-------
Confidence 46666655 66777 55555 58988 67799999999999977654 489999999999999999887652
Q ss_pred ccCCCCcceeeEEECcEEEEEc
Q 039874 144 VKEFGLVPLEVATWGPFVLLNM 165 (382)
Q Consensus 144 ~~~~~l~~~~v~~~~g~v~v~~ 165 (382)
.+|+.|+|++.+|.|+|.+
T Consensus 145 ---~~L~~y~v~v~~g~v~v~~ 163 (178)
T PRK13474 145 ---LSLALVHVTVEDDKVLFSP 163 (178)
T ss_pred ---CCCCeEeEEEECCEEEEEE
Confidence 4588899999999999976
No 56
>TIGR01416 Rieske_proteo ubiquinol-cytochrome c reductase, iron-sulfur subunit. Most members of this family have a recognizable twin-arginine translocation (tat) signal sequence (DeltaPh-dependent translocation in chloroplast) for transport across the membrane with the 2Fe-2S group already bound. These signal sequences include a motif resembling RRxFLK before the transmembrane helix.
Probab=99.42 E-value=1.2e-12 Score=113.94 Aligned_cols=93 Identities=17% Similarity=0.208 Sum_probs=74.7
Q ss_pred CCeeeeecCCcCCCCCeEEEEECCeeEEEEEcC----------------------------------CCcEEEEeccCcC
Q 039874 55 SWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDD----------------------------------NGKIHAFHNVCRH 100 (382)
Q Consensus 55 ~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~----------------------------------~g~~~a~~n~C~H 100 (382)
.|..| ..++|+ +|..+.+.+.|.+|+|+|.. +++++|+.++|+|
T Consensus 40 ~~~~v-~l~eL~-pG~~~~v~~~GkpI~I~~~t~~~~~~~~~~~~~~l~Dp~~~~~~~~~~~~~r~~~~~~~a~~~~CtH 117 (174)
T TIGR01416 40 APTEV-DVSKIQ-PGQQLTVEWRGKPVFIRRRTKKEIDALKALDLGALKDPNSEAQQPDYARVKRSGKPEWLVVIGICTH 117 (174)
T ss_pred CcEEE-EHHHCC-CCCeEEEEECCeEEEEEeCCHHHhhhhhccchhhcCCCcccccCcchhhhhhccCCcEEEEEeccCC
Confidence 47888 789999 78999999999999999862 4889999999999
Q ss_pred CCCccc-cCCCC-cceEEccCCCceecCCCceeecccccCCCCCCccCCCCcceeeEEECc
Q 039874 101 HASILA-TGSGK-KSWFVCPYHGWTYGLDGTLLKATRITGIKDFNVKEFGLVPLEVATWGP 159 (382)
Q Consensus 101 rg~~L~-~g~~~-~~~i~CpyHgw~f~~~G~~~~~p~~~~~~~~~~~~~~l~~~~v~~~~g 159 (382)
.|+.+. .+... .+.|.||+||++||++|+.+..|... +|..+++...++
T Consensus 118 ~Gc~~~~~~~~~~~~~~~CPcHgs~Fd~~G~~~~gpa~~----------~L~~~~~~~~~~ 168 (174)
T TIGR01416 118 LGCIPTYGPEEGDKGGFFCPCHGSHYDTAGRVRKGPAPL----------NLPVPPYKFLSD 168 (174)
T ss_pred CCCccccccCCCCCCEEEeCCCCCEECCCCcEecCCCCC----------CCCCCCEEEcCC
Confidence 998775 44333 46799999999999999999877644 355556665443
No 57
>cd03475 Rieske_SoxF_SoxL SoxF and SoxL family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. SoxF is a subunit of the terminal oxidase supercomplex SoxM in the plasma membrane of Sulfolobus acidocaldarius that combines features of a cytochrome bc(1) complex and a cytochrome. The Rieske domain of SoxF has a 12 residue insertion which is not found in eukaryotic and bacterial Rieske proteins and is thought to influence the redox properties of the iron-sulfur cluster. SoxL is a Rieske protein which may be part of an archaeal bc-complex homologue whose physiological function is still unknown. SoxL has two features not seen in other Rieske proteins; (i) a significantly greater distance between the two cluster-binding sites and (ii) an unexpected Pro - Asp substitution at one of the cluster binding sites. SoxF and SoxL are found in archaea and in bacteria.
Probab=99.09 E-value=6.4e-10 Score=95.14 Aligned_cols=66 Identities=23% Similarity=0.256 Sum_probs=49.7
Q ss_pred CCcEEEEeccCcCCCCcccc---------------CCCCcceEEccCCCceecC-CC-ceeecccccCCCCCCccCCCCc
Q 039874 88 NGKIHAFHNVCRHHASILAT---------------GSGKKSWFVCPYHGWTYGL-DG-TLLKATRITGIKDFNVKEFGLV 150 (382)
Q Consensus 88 ~g~~~a~~n~C~Hrg~~L~~---------------g~~~~~~i~CpyHgw~f~~-~G-~~~~~p~~~~~~~~~~~~~~l~ 150 (382)
+|+++|++++|+|+|++|.. |...++.|.||+|||+||+ +| ..+..|.. ..|.
T Consensus 74 ~g~IvA~S~iCpHlGc~l~~~~~y~~~~~~~~~~~g~~~~~~i~CPcHgS~FD~~tGg~v~~GPA~----------~pLp 143 (171)
T cd03475 74 NKSIVAFSAICQHLGCQPPPIVSYPSYYPPDKAPGLASKGAVIHCCCHGSTYDPYKGGVVLTGPAP----------RPLP 143 (171)
T ss_pred CCEEEEEeCcCCCCCCcccccccccccccccccccccccCCEEEcCCCCCEEeCCCCCeEcCCCCC----------CCcC
Confidence 68899999999999998752 4445678999999999999 55 45544442 3467
Q ss_pred ceeeEEEC--cEEEE
Q 039874 151 PLEVATWG--PFVLL 163 (382)
Q Consensus 151 ~~~v~~~~--g~v~v 163 (382)
.+.+++.+ |.||.
T Consensus 144 ~~~L~~d~~~d~iyA 158 (171)
T cd03475 144 AVILEYDSSTDDLYA 158 (171)
T ss_pred EeEEEEeCCCCcEEE
Confidence 77777663 66765
No 58
>COG0723 QcrA Rieske Fe-S protein [Energy production and conversion]
Probab=98.68 E-value=4e-08 Score=86.22 Aligned_cols=80 Identities=25% Similarity=0.428 Sum_probs=58.1
Q ss_pred CeeEEEEEcCCCcE-----EEEeccCcCCCCcccc-CCCCcceEEccCCCceecCCCceeecccccCCCCCCccCCCCcc
Q 039874 78 EVEFVVCRDDNGKI-----HAFHNVCRHHASILAT-GSGKKSWFVCPYHGWTYGLDGTLLKATRITGIKDFNVKEFGLVP 151 (382)
Q Consensus 78 ~~~~vv~r~~~g~~-----~a~~n~C~Hrg~~L~~-g~~~~~~i~CpyHgw~f~~~G~~~~~p~~~~~~~~~~~~~~l~~ 151 (382)
+....+++..++.+ .|+..+|.|.||.+.. +....+.|.||+||.+||.+|+.+..|... .|..
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~a~~~iCtHlGC~~~~~~~~~~~~~~CPCHGS~yd~~g~vv~GPA~~----------~L~~ 152 (177)
T COG0723 83 GPKGGVTRDGDGGVGNKEIVAYSAICTHLGCTVPWNNAGAEGGFFCPCHGSRYDPDGGVVKGPAPR----------PLPI 152 (177)
T ss_pred cccccceecccCCCCCccEEEEeeeccCCCCccCcccCCCCCeEEccCCCCeEcCCCCeeCCCCCC----------CcCC
Confidence 34444455555544 4999999999999997 667778899999999999999988887644 3555
Q ss_pred eeeEEECc-EEEEEcCC
Q 039874 152 LEVATWGP-FVLLNMGK 167 (382)
Q Consensus 152 ~~v~~~~g-~v~v~~~~ 167 (382)
++++..++ .+.+-.+.
T Consensus 153 ~~~~~~~d~~~~~~~~~ 169 (177)
T COG0723 153 PPLEYDSDKLYLIGLGT 169 (177)
T ss_pred ceEEEeCCceEEEEecc
Confidence 56666655 44444443
No 59
>TIGR03171 soxL2 Rieske iron-sulfur protein SoxL2. This iron-sulfur protein is found in a contiguous genomic region with subunits of cytochrome b558/566 in several archaeal species, and appears to be part of a cytochrome bc1-analogous system.
Probab=98.35 E-value=1.1e-06 Score=81.78 Aligned_cols=68 Identities=18% Similarity=0.283 Sum_probs=48.0
Q ss_pred CCCcEEEEeccCcCCCCcccc------C----------------------CCC---cceEEccCCCceecCC--Cceeec
Q 039874 87 DNGKIHAFHNVCRHHASILAT------G----------------------SGK---KSWFVCPYHGWTYGLD--GTLLKA 133 (382)
Q Consensus 87 ~~g~~~a~~n~C~Hrg~~L~~------g----------------------~~~---~~~i~CpyHgw~f~~~--G~~~~~ 133 (382)
.++.|.||+..|+|.||++.. + ... .+.|.||+||.+||.+ |+++..
T Consensus 174 p~~~IVAyS~IC~H~GC~~~~~~~Ypp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CPCHgS~FD~~~gg~Vv~G 253 (321)
T TIGR03171 174 PNKSIVAYSAICQHLGCTPPYIHFYPPNYVNPSQLTAPEPDQLTAQALLAAKQANVPALIHCDCHGSTYDPYHGAAVLTG 253 (321)
T ss_pred CCCCEEEEecccCcCCCCcchhhccCcccccccccccccccccchhhhhhhhccCCCCeEECCCCCCEECCCCCCceeCC
Confidence 356799999999999998831 0 011 1389999999999994 578888
Q ss_pred ccccCCCCCCccCCCCcceeeEEE--CcEEEEE
Q 039874 134 TRITGIKDFNVKEFGLVPLEVATW--GPFVLLN 164 (382)
Q Consensus 134 p~~~~~~~~~~~~~~l~~~~v~~~--~g~v~v~ 164 (382)
|.... |.+++++.. +|.|++-
T Consensus 254 PA~rp----------Lp~i~l~~d~~~~~l~Av 276 (321)
T TIGR03171 254 PTVRP----------LPAVILEWDSSTDYLYAI 276 (321)
T ss_pred CCCCC----------CCcceEEEeCCCCeEEEE
Confidence 87554 444555543 4666653
No 60
>KOG1671 consensus Ubiquinol cytochrome c reductase, subunit RIP1 [Energy production and conversion]
Probab=98.34 E-value=6.5e-07 Score=77.08 Aligned_cols=74 Identities=16% Similarity=0.271 Sum_probs=61.4
Q ss_pred cCCcCCCCCeEEEEECCeeEEEE--------------------------EcCCCcEEEEeccCcCCCCccccCCCCcceE
Q 039874 62 TDQLKDPQDFFSGRIGEVEFVVC--------------------------RDDNGKIHAFHNVCRHHASILATGSGKKSWF 115 (382)
Q Consensus 62 ~~~l~~~g~~~~~~~~~~~~vv~--------------------------r~~~g~~~a~~n~C~Hrg~~L~~g~~~~~~i 115 (382)
.++|| +|.-+++...|.|+++- |.++-++.++..+|.|.||-.....|..+.+
T Consensus 92 l~~IP-eGk~~~~kwrGkpvfirhrt~~ei~~~r~V~~s~lrDPq~d~~rvk~~ewl~~igVCThLGCVp~~~AGd~gg~ 170 (210)
T KOG1671|consen 92 LSDIP-EGKTVAFKWRGKPVFIRHRTKAEIEGERNVPQSTLRDPQDDVDRVKKPEWLVVIGVCTHLGCVPIANAGDYGGY 170 (210)
T ss_pred eecCC-CCCCcceeccCCceEEeeccccccccccccchhhccCchhhhhhccCcceEEEEeeeccccccccccccccCce
Confidence 34567 47777888888888873 4455567999999999999998888887889
Q ss_pred EccCCCceecCCCceeecccc
Q 039874 116 VCPYHGWTYGLDGTLLKATRI 136 (382)
Q Consensus 116 ~CpyHgw~f~~~G~~~~~p~~ 136 (382)
.||+||..||..|+....|..
T Consensus 171 ~CPCHGSHYdasGRIrkGPAP 191 (210)
T KOG1671|consen 171 YCPCHGSHYDASGRIRKGPAP 191 (210)
T ss_pred ecccccccccccCceecCCCC
Confidence 999999999999999998864
No 61
>PF08417 PaO: Pheophorbide a oxygenase; InterPro: IPR013626 This domain is found in bacterial and plant proteins to the C terminus of a Rieske 2Fe-2S domain (IPR005806 from INTERPRO). One of the proteins the domain is found in is Pheophorbide a oxygenase (PaO) which seems to be a key regulator of chlorophyll catabolism. Arabidopsis PaO (AtPaO) is a Rieske-type 2Fe-2S enzyme that is identical to Arabidopsis accelerated cell death 1 and homologous to lethal leaf spot 1 (LLS1) of maize [], in which the domain described here is also found. ; GO: 0010277 chlorophyllide a oxygenase [overall] activity, 0055114 oxidation-reduction process
Probab=97.47 E-value=0.00028 Score=54.88 Aligned_cols=72 Identities=22% Similarity=0.386 Sum_probs=51.4
Q ss_pred EecCceeecc----C----CC-eEEEEEEEEcCCCeEEEEEEEEEcCCC---CChHHHHHHhccccCCchhhHHHHHHHH
Q 039874 280 FIYPNFMINR----Y----GP-WMDTNLVIPLAPTRCKVVFDYFLDGSL---KDDKAFIEQSLKDSEQVQMEDIILCEGV 347 (382)
Q Consensus 280 ~lfPn~~i~~----~----~~-~~~~~~~~P~s~~~t~v~~~~~~~~~~---~~~~~~~~~~~~~~~~v~~ED~~i~e~~ 347 (382)
|+.|+++... . +. .+.++.++|++|++|++.++++..... .--+.|+.++ ....|++||..++..|
T Consensus 1 F~pPc~v~~~~~~~~~~~~~~~~~~~~~~vP~~pG~~Rli~r~~~~f~~~~~k~~P~wl~H~--~~n~VLd~Dl~lLh~Q 78 (92)
T PF08417_consen 1 FIPPCLVRSTEEGPKKKSCGKRLHQVFYCVPTGPGRCRLIWRFPRNFPAWIFKLIPRWLSHL--TSNKVLDQDLYLLHGQ 78 (92)
T ss_pred CCCCEEEEEeccccccCCCCCEEEEEEEEEECCCCeEEEEEEehhhhhhHHhhcCCHHHHHH--hhCcccHHHHHHHHHH
Confidence 4567777665 1 12 346788999999999999876654411 1124555555 3478999999999999
Q ss_pred hhcccC
Q 039874 348 QRGLES 353 (382)
Q Consensus 348 q~~l~s 353 (382)
|+.+.+
T Consensus 79 e~~l~~ 84 (92)
T PF08417_consen 79 ERRLAR 84 (92)
T ss_pred HHHHHH
Confidence 999877
No 62
>PF11723 Aromatic_hydrox: Homotrimeric ring hydroxylase; InterPro: IPR021028 This entry represents the catalytic domain from a family of homotrimeric enzymes that hydroxylate aromatic compounds, including 2-oxo-1,2-dihydroquinoline 8-monooxygenase from Pseudomonas putida and carbazole 1,9a-dioxygenase from Janthinobacterium. The catalytic domain is found C-termnial to the iron-sulphur-binding Rieske domain and is composed of antiparallel beta sheets and alpha helices []. It is part of a much larger superfamily of lipid binding domains which form a common fold that works as a versatile scaffold for binding bulky ligands [].; PDB: 1Z03_D 1Z01_E 1Z02_F 2DE6_A 2DE7_C 1WW9_A 2DE5_C 3GKQ_F 3GCF_L.
Probab=97.12 E-value=0.015 Score=52.15 Aligned_cols=98 Identities=10% Similarity=0.104 Sum_probs=57.3
Q ss_pred ecCceeec-cC--CCeEEEEEEEEcCCCeEEEEEEEEEcCCCCC--hHHHHHHh----c-cccCCchhhHHHHHHHHhhc
Q 039874 281 IYPNFMIN-RY--GPWMDTNLVIPLAPTRCKVVFDYFLDGSLKD--DKAFIEQS----L-KDSEQVQMEDIILCEGVQRG 350 (382)
Q Consensus 281 lfPn~~i~-~~--~~~~~~~~~~P~s~~~t~v~~~~~~~~~~~~--~~~~~~~~----~-~~~~~v~~ED~~i~e~~q~~ 350 (382)
..|++... .+ +...+.-+++|++.++.+.+- +.++.-..+ ..+|..++ . .....++.+|....|++|.=
T Consensus 128 wlPgVL~V~~~P~p~~~qyEwYVPID~~~h~Y~q-~l~~~~~t~ee~~~f~~~f~~~~~~~~l~gFN~~D~wAREamq~f 206 (240)
T PF11723_consen 128 WLPGVLMVENWPYPDFTQYEWYVPIDEDTHRYFQ-LLGKVCPTEEERKAFEYEFEEQWKPLALHGFNDDDIWAREAMQPF 206 (240)
T ss_dssp ETTTEEEEES-SSTTEEEEEEEEEEETTEEEEEE-EEEEE-SSHHHHHHHHHHHHHTHHHHTTTTTTHHHHHHHHHHHHH
T ss_pred eccceeecccCCCCCeeEEEEEEEecccceeeEe-EEeeecCCHHHHHHHHHHHHHHhHHhhccCCCchhHHHHHHhhhh
Confidence 34555443 33 444556678999999998654 444432222 12332222 1 24567889999999999965
Q ss_pred ccCCC-CCCCCCCCCcChHHHHHHHHHHHHh
Q 039874 351 LESPA-YCSGRYAPSVEQTMYHFHSLLHCNL 380 (382)
Q Consensus 351 l~s~~-~~~g~~~~~~E~~i~~f~~~~~~~l 380 (382)
...+. +..=+|- ..+..|..||+..++.-
T Consensus 207 Y~d~~Gw~~E~L~-~~D~sIi~WRkLas~~n 236 (240)
T PF11723_consen 207 YADDTGWDREQLF-EPDKSIIAWRKLASEHN 236 (240)
T ss_dssp HHTSHHHHH-----GGGHHHHHHHHHHHHH-
T ss_pred hhccCCCCHHHhc-CcchhHHHHHHHHHHhh
Confidence 44321 1111233 56999999999998753
No 63
>KOG1336 consensus Monodehydroascorbate/ferredoxin reductase [General function prediction only]
Probab=95.64 E-value=0.0057 Score=60.40 Aligned_cols=39 Identities=26% Similarity=0.501 Sum_probs=33.8
Q ss_pred CCCCccccCCCCcceEEccCCCceecC-CCceeecccccC
Q 039874 100 HHASILATGSGKKSWFVCPYHGWTYGL-DGTLLKATRITG 138 (382)
Q Consensus 100 Hrg~~L~~g~~~~~~i~CpyHgw~f~~-~G~~~~~p~~~~ 138 (382)
|.|+||..|--..+.++||+||.+|++ +|....-|....
T Consensus 1 hygapl~~g~~s~g~v~cpwhgacfn~~~gdiedfP~~~s 40 (478)
T KOG1336|consen 1 HYGAPLAKGVLSRGRVRCPWHGACFNLSTGDIEDFPGLDS 40 (478)
T ss_pred CCCcchhhccccCCcccccccceeecCCcCchhhCcCccc
Confidence 899999999777889999999999999 798877666544
No 64
>PF09740 DUF2043: Uncharacterized conserved protein (DUF2043); InterPro: IPR018610 This entry consists of uncharacterised proteins of unknown function. They contain three conserved cysteines and a {CP}{y/l}{HG} motif.
Probab=68.99 E-value=2.8 Score=33.36 Aligned_cols=36 Identities=28% Similarity=0.543 Sum_probs=23.7
Q ss_pred CcEEEEeccCcCCCCccccCCCC--cceEEccCCCceecCC
Q 039874 89 GKIHAFHNVCRHHASILATGSGK--KSWFVCPYHGWTYGLD 127 (382)
Q Consensus 89 g~~~a~~n~C~Hrg~~L~~g~~~--~~~i~CpyHgw~f~~~ 127 (382)
|++--..-.|+ |+|-.|... .+.+.||+||=--+.|
T Consensus 63 g~~e~v~~~Cr---APL~~G~LC~RrD~~kCPfHG~IIpRD 100 (110)
T PF09740_consen 63 GEFEPVPHACR---APLPNGGLCPRRDRKKCPFHGKIIPRD 100 (110)
T ss_pred CccCcCchhhc---CCCCCCCcCCccCcccCCCCCcccCCC
Confidence 44444444564 677777654 3568999998777664
No 65
>PF11730 DUF3297: Protein of unknown function (DUF3297); InterPro: IPR021724 This family is expressed in Proteobacteria and Actinobacteria. The function is not known.
Probab=49.05 E-value=23 Score=25.46 Aligned_cols=46 Identities=17% Similarity=0.174 Sum_probs=32.6
Q ss_pred CCCCccCCHHHHHHHHHhcc-------------ccCCeeeeecCCcCCCCCeEEEEECC
Q 039874 33 PPSSWYTDPSFLALELHRVF-------------YRSWQVVGYTDQLKDPQDFFSGRIGE 78 (382)
Q Consensus 33 lp~~~Y~~~~~~~~E~~~if-------------~~~W~~v~~~~~l~~~g~~~~~~~~~ 78 (382)
-|.+-|.+.++|+...--.| ..+|+.|..-..+...|.++++++.|
T Consensus 7 ~P~Sp~~~~~~l~~~iGIrfng~Er~nVeEYciSEGWvrv~~gka~DR~G~Pl~iklkG 65 (71)
T PF11730_consen 7 NPRSPHYDAEVLERGIGIRFNGKERTNVEEYCISEGWVRVAAGKALDRRGNPLTIKLKG 65 (71)
T ss_pred CCCChhhHHHHHhcCcceEECCeEcccceeEeccCCEEEeecCcccccCCCeeEEEEcc
Confidence 36678888998887654444 36899888777777667766666654
No 66
>PTZ00059 dynein light chain; Provisional
Probab=41.67 E-value=1.1e+02 Score=23.39 Aligned_cols=44 Identities=11% Similarity=0.434 Sum_probs=33.0
Q ss_pred HHHHHHHHhccccCCeeeeecCCcC-----CCCCeEEEEECCeeEEEEEc
Q 039874 42 SFLALELHRVFYRSWQVVGYTDQLK-----DPQDFFSGRIGEVEFVVCRD 86 (382)
Q Consensus 42 ~~~~~E~~~if~~~W~~v~~~~~l~-----~~g~~~~~~~~~~~~vv~r~ 86 (382)
.....|.++-|...|++|--.+ +. +++.++-+.+++..++|||.
T Consensus 41 ~~IK~~fD~~yg~~WhciVG~~-Fgs~vthe~~~~i~F~~~~~~vLlfK~ 89 (90)
T PTZ00059 41 AYIKKEFDKKYNPTWHCIVGRN-FGSYVTHETKHFIYFYLGQVAILLFKS 89 (90)
T ss_pred HHHHHHHHhhcCCCCEEEEecC-eeEEEEEeCCcEEEEEECCEEEEEEec
Confidence 3456788899999999874433 32 25678888889999999984
No 67
>PLN03058 dynein light chain type 1 family protein; Provisional
Probab=40.73 E-value=1e+02 Score=25.42 Aligned_cols=47 Identities=15% Similarity=0.215 Sum_probs=34.7
Q ss_pred HHHHHHHHhccccCCeeeeec---CCcC-CCCCeEEEEECCeeEEEEEcCC
Q 039874 42 SFLALELHRVFYRSWQVVGYT---DQLK-DPQDFFSGRIGEVEFVVCRDDN 88 (382)
Q Consensus 42 ~~~~~E~~~if~~~W~~v~~~---~~l~-~~g~~~~~~~~~~~~vv~r~~~ 88 (382)
.....|.++-|...|++|--. +.+. +++.++-+.++...++|||..+
T Consensus 73 ~~IKk~fDkkYG~tWHCIVGk~FGs~VTHe~~~fIyF~ig~~aiLLfKt~~ 123 (128)
T PLN03058 73 LALKKEFDSAYGPAWHCIVGTSFGSYVTHSTGGFLYFSIDKVYILLFKTAV 123 (128)
T ss_pred HHHHHHHhhhhCCceEEEECCcEEEEEEEcCCcEEEEEECCEEEEEEeccC
Confidence 445588899999999997522 1121 2567888999999999999754
No 68
>PF15567 Imm19: Immunity protein 19
Probab=40.67 E-value=12 Score=28.66 Aligned_cols=47 Identities=21% Similarity=0.239 Sum_probs=35.2
Q ss_pred cccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCc
Q 039874 52 FYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCR 99 (382)
Q Consensus 52 f~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~ 99 (382)
+..+|++-+.+.+.-+.|++....+++-+ +|+...+|+++.+.+.+|
T Consensus 31 ~~~GW~f~~~s~~fl~tgd~~~~L~gn~p-vvV~~~~g~~~~~~~~~p 77 (88)
T PF15567_consen 31 FPYGWVFPYQSVEFLETGDPRDMLAGNAP-VVVDKDGGEIHFLGTAPP 77 (88)
T ss_pred ecceeEEEeehHHHHhcCCHHHhccCCcc-EEeeCCCCcEEecCCCCc
Confidence 67899999999997778986554444444 555666899998877665
No 69
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=38.81 E-value=22 Score=24.48 Aligned_cols=25 Identities=24% Similarity=0.446 Sum_probs=20.3
Q ss_pred CcceEEcc-----CCCceecCCCceeeccc
Q 039874 111 KKSWFVCP-----YHGWTYGLDGTLLKATR 135 (382)
Q Consensus 111 ~~~~i~Cp-----yHgw~f~~~G~~~~~p~ 135 (382)
.++.++|| ||.|.|+..|.|+..+.
T Consensus 18 ~dDiVvCp~CgapyHR~C~~~~g~C~~~~c 47 (54)
T PF14446_consen 18 GDDIVVCPECGAPYHRDCWEKAGGCINYSC 47 (54)
T ss_pred CCCEEECCCCCCcccHHHHhhCCceEeccC
Confidence 34568885 99999999999997653
No 70
>PF01221 Dynein_light: Dynein light chain type 1 ; InterPro: IPR001372 Dynein is a multisubunit microtubule-dependent motor enzyme that acts as the force generating protein of eukaryotic cilia and flagella. The cytoplasmic isoform of dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein is composed of a number of ATP-binding large subunits (see IPR004273 from INTERPRO), intermediate size subunits and small subunits. Among the small subunits, there is a family of highly conserved proteins which make up this family [, ]. Both type 1 (DLC1) and 2 (DLC2) dynein light chains have a similar two-layer alpha-beta core structure consisting of beta-alpha(2)-beta-X-beta(2) [, ].; GO: 0007017 microtubule-based process, 0005875 microtubule associated complex; PDB: 1F95_A 1F96_A 1F3C_A 3P8M_B 2XQQ_C 1RE6_A 1CMI_A 1PWK_A 1PWJ_A 4DS1_C ....
Probab=38.33 E-value=77 Score=23.98 Aligned_cols=45 Identities=20% Similarity=0.547 Sum_probs=32.2
Q ss_pred HHHHHHHHHhccccCCeeeeecCCcC-----CCCCeEEEEECCeeEEEEEc
Q 039874 41 PSFLALELHRVFYRSWQVVGYTDQLK-----DPQDFFSGRIGEVEFVVCRD 86 (382)
Q Consensus 41 ~~~~~~E~~~if~~~W~~v~~~~~l~-----~~g~~~~~~~~~~~~vv~r~ 86 (382)
.+....++++-|.+.|++|--. .+. ++|.++-+.+++..++|||.
T Consensus 39 A~~iK~~lD~~yG~~Wh~IVG~-~Fg~~~th~~~~~~~f~~~~~~~li~kt 88 (89)
T PF01221_consen 39 AEFIKQELDKKYGPTWHCIVGK-SFGSSVTHEPGTFLYFKIGNIAFLIFKT 88 (89)
T ss_dssp HHHHHHHHHHHHSS-EEEEEES-EEEEEEEEETTEEEEEEETTEEEEEEEE
T ss_pred HHHHHHHHhcccCCceEEEECC-cEEEEEEEcCCcEEEEEECCEEEEEEec
Confidence 3555688888899999987432 121 14678888999999999985
No 71
>PF05265 DUF723: Protein of unknown function (DUF723); InterPro: IPR007929 This family contains several uncharacterised proteins from Neisseria meningitidis. These proteins may have a role in DNA binding.
Probab=36.45 E-value=19 Score=25.37 Aligned_cols=16 Identities=25% Similarity=0.246 Sum_probs=12.7
Q ss_pred cceEEccCCCceecCC
Q 039874 112 KSWFVCPYHGWTYGLD 127 (382)
Q Consensus 112 ~~~i~CpyHgw~f~~~ 127 (382)
--.|+||-||-.....
T Consensus 30 PvtI~CP~HG~~~~s~ 45 (60)
T PF05265_consen 30 PVTIRCPKHGNFTCST 45 (60)
T ss_pred ceEEECCCCCcEEecc
Confidence 3579999999887764
No 72
>TIGR02697 WPE_wolbac Wolbachia palindromic element (WPE) domain. This domain conceptually resembles TIGR01045, the Rickettsial palindromic element (RPE) domain. In both cases, a protein-coding palindromic element spreads through a genome, inserting usually in protein-coding regions. The additional protein coding sequence is thought to allow function of the host protein because of location in surface-exposed regions of the protein structure. Note that this model appears to work better in fragment mode.
Probab=31.43 E-value=51 Score=20.42 Aligned_cols=30 Identities=27% Similarity=0.453 Sum_probs=21.1
Q ss_pred CCCCccCCHHHHHH-H-HHhccccCCeeeeec
Q 039874 33 PPSSWYTDPSFLAL-E-LHRVFYRSWQVVGYT 62 (382)
Q Consensus 33 lp~~~Y~~~~~~~~-E-~~~if~~~W~~v~~~ 62 (382)
+|...|.||+.... | ...+..+.|++|...
T Consensus 2 IPV~~hwDp~~li~n~~~~~l~nk~WIPVSat 33 (36)
T TIGR02697 2 IPVPRHWDPENLIANERIRQLYNKNWIPVSAT 33 (36)
T ss_pred cccccccCcchhhhhHHHHHHhccCceeeeee
Confidence 57778888876553 2 355678999998754
No 73
>PHA02102 hypothetical protein
Probab=28.66 E-value=21 Score=25.20 Aligned_cols=8 Identities=75% Similarity=1.261 Sum_probs=6.1
Q ss_pred CCcccccc
Q 039874 3 SSSCYSEN 10 (382)
Q Consensus 3 ~~~~~~~~ 10 (382)
|||||.|.
T Consensus 47 sSSCYGEg 54 (72)
T PHA02102 47 SSSCYGEG 54 (72)
T ss_pred cccccccc
Confidence 68888864
No 74
>PF14920 MTBP_C: MDM2-binding
Probab=27.57 E-value=24 Score=31.93 Aligned_cols=16 Identities=50% Similarity=0.846 Sum_probs=14.3
Q ss_pred ceEEccCCCceecCCC
Q 039874 113 SWFVCPYHGWTYGLDG 128 (382)
Q Consensus 113 ~~i~CpyHgw~f~~~G 128 (382)
+..+|-|||-.|.+|.
T Consensus 15 ka~~chYHgieycLD~ 30 (251)
T PF14920_consen 15 KASVCHYHGIEYCLDD 30 (251)
T ss_pred hhhccccCCceeeccc
Confidence 4679999999999987
No 75
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=25.84 E-value=41 Score=27.73 Aligned_cols=31 Identities=19% Similarity=0.357 Sum_probs=24.6
Q ss_pred EEeccCcCCCCccccCCCCcceEEccCCCceecC
Q 039874 93 AFHNVCRHHASILATGSGKKSWFVCPYHGWTYGL 126 (382)
Q Consensus 93 a~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~ 126 (382)
-+...||-=|+||-. ..|.+.||-||-++-.
T Consensus 26 ML~~hCp~Cg~PLF~---KdG~v~CPvC~~~~~~ 56 (131)
T COG1645 26 MLAKHCPKCGTPLFR---KDGEVFCPVCGYREVV 56 (131)
T ss_pred HHHhhCcccCCccee---eCCeEECCCCCceEEE
Confidence 355679999999987 4567999999986654
No 76
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.02 E-value=56 Score=23.07 Aligned_cols=18 Identities=39% Similarity=0.800 Sum_probs=15.0
Q ss_pred CCcceEEccCCCceecCC
Q 039874 110 GKKSWFVCPYHGWTYGLD 127 (382)
Q Consensus 110 ~~~~~i~CpyHgw~f~~~ 127 (382)
+..+.++|||=|-+|.++
T Consensus 44 g~~gev~CPYC~t~y~l~ 61 (62)
T COG4391 44 GDEGEVVCPYCSTRYRLN 61 (62)
T ss_pred CCCCcEecCccccEEEec
Confidence 456789999999999874
No 77
>PF11572 DUF3234: Protein of unknown function (DUF3234); InterPro: IPR021628 This bacterial family of proteins has no known function. Some members in this family of proteins are annotated as TTHA0547 however this cannot be confirmed. ; PDB: 2Z0R_J.
Probab=23.92 E-value=22 Score=27.25 Aligned_cols=50 Identities=10% Similarity=0.075 Sum_probs=39.7
Q ss_pred cccCCeeeeecCCcCCCCCeEEEEECCeeEEEEEcCCCcEEEEeccCcCCCCccc
Q 039874 52 FYRSWQVVGYTDQLKDPQDFFSGRIGEVEFVVCRDDNGKIHAFHNVCRHHASILA 106 (382)
Q Consensus 52 f~~~W~~v~~~~~l~~~g~~~~~~~~~~~~vv~r~~~g~~~a~~n~C~Hrg~~L~ 106 (382)
|...||.+-. ++|.-.+++..|+.+..+-.+.....+|...-|++|.+++
T Consensus 5 l~g~WYVLe~-----~pGEHLvlealgqrls~iWtS~~~A~~F~~~~p~~GM~V~ 54 (103)
T PF11572_consen 5 LSGTWYVLED-----EPGEHLVLEALGQRLSGIWTSRELAQAFLARHPELGMRVS 54 (103)
T ss_dssp TSSSEEEEES-----STT-BEEEEETTEEEEEEBSSHHHHHHHHHTSTSS--EEE
T ss_pred cccceEEecC-----CCCceeeHHHHhhhHHhheecHHHHHHHHHhCcccCcEee
Confidence 5678998755 3799999999999999998887778899999999988775
No 78
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=20.62 E-value=84 Score=22.30 Aligned_cols=33 Identities=18% Similarity=0.342 Sum_probs=26.2
Q ss_pred EeccCcCCCCccccCCCCcceEEccCCCceecCC
Q 039874 94 FHNVCRHHASILATGSGKKSWFVCPYHGWTYGLD 127 (382)
Q Consensus 94 ~~n~C~Hrg~~L~~g~~~~~~i~CpyHgw~f~~~ 127 (382)
.+-.||.=|..... ......+.||--|..+|.|
T Consensus 27 TSq~C~~CG~~~~~-~~~~r~~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 27 TSQTCPRCGHRNKK-RRSGRVFTCPNCGFEMDRD 59 (69)
T ss_pred CccCccCccccccc-ccccceEEcCCCCCEECcH
Confidence 57779888887776 4556789999999998875
Done!