Query 017387
Match_columns 372
No_of_seqs 364 out of 2171
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 08:08:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017387.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017387hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02518 pheophorbide a oxygen 100.0 5.4E-64 1.2E-68 516.6 22.4 364 1-370 1-375 (539)
2 PLN02281 chlorophyllide a oxyg 100.0 1.1E-46 2.4E-51 382.9 18.1 244 89-355 216-465 (536)
3 PLN00095 chlorophyllide a oxyg 100.0 9.2E-46 2E-50 362.1 14.5 250 90-354 69-341 (394)
4 COG4638 HcaE Phenylpropionate 100.0 1.8E-41 3.8E-46 337.6 12.8 198 68-273 4-202 (367)
5 TIGR03228 anthran_1_2_A anthra 100.0 8.6E-41 1.9E-45 337.8 3.7 199 65-269 12-219 (438)
6 TIGR03229 benzo_1_2_benA benzo 100.0 2.5E-39 5.5E-44 327.2 4.5 198 65-269 12-221 (433)
7 cd03545 Rieske_RO_Alpha_OHBDO_ 100.0 1.3E-34 2.9E-39 254.5 5.0 142 68-212 1-147 (150)
8 cd04338 Rieske_RO_Alpha_Tic55 100.0 5.5E-32 1.2E-36 233.7 9.3 119 87-212 11-129 (134)
9 cd03480 Rieske_RO_Alpha_PaO Ri 100.0 1.8E-31 3.9E-36 231.5 9.6 122 87-212 11-133 (138)
10 cd03537 Rieske_RO_Alpha_PrnD T 100.0 1.5E-31 3.3E-36 227.4 8.0 117 92-212 2-118 (123)
11 cd03538 Rieske_RO_Alpha_AntDO 100.0 8.8E-32 1.9E-36 235.6 4.9 139 71-212 2-143 (146)
12 cd03531 Rieske_RO_Alpha_KSH Th 100.0 1.8E-30 3.9E-35 218.5 8.0 110 93-212 1-110 (115)
13 cd04337 Rieske_RO_Alpha_Cao Ca 100.0 2.7E-30 5.8E-35 221.7 8.2 111 89-211 13-123 (129)
14 cd03479 Rieske_RO_Alpha_PhDO_l 100.0 5.7E-30 1.2E-34 223.6 9.1 116 89-211 17-133 (144)
15 cd03532 Rieske_RO_Alpha_VanA_D 100.0 8.1E-30 1.8E-34 214.7 8.8 112 90-212 2-113 (116)
16 cd03548 Rieske_RO_Alpha_OMO_CA 100.0 1.1E-29 2.4E-34 219.8 9.2 117 88-212 9-127 (136)
17 cd03539 Rieske_RO_Alpha_S5H Th 100.0 5.4E-30 1.2E-34 219.8 6.8 118 94-212 1-126 (129)
18 cd03541 Rieske_RO_Alpha_CMO Ri 100.0 9.6E-30 2.1E-34 215.0 7.6 113 93-211 1-114 (118)
19 cd03472 Rieske_RO_Alpha_BPDO_l 100.0 1.6E-29 3.5E-34 216.6 7.3 120 90-212 5-125 (128)
20 cd03535 Rieske_RO_Alpha_NDO Ri 99.9 3.4E-28 7.3E-33 207.0 7.4 118 92-212 1-120 (123)
21 cd03536 Rieske_RO_Alpha_DTDO T 99.9 5.7E-28 1.2E-32 205.6 7.3 117 94-212 1-118 (123)
22 cd03469 Rieske_RO_Alpha_N Ries 99.9 5.1E-28 1.1E-32 203.4 6.6 114 94-212 1-115 (118)
23 cd03542 Rieske_RO_Alpha_HBDO R 99.9 1.6E-26 3.5E-31 196.7 7.8 116 94-212 1-120 (123)
24 cd03528 Rieske_RO_ferredoxin R 99.9 8.8E-26 1.9E-30 183.8 7.2 97 94-207 1-98 (98)
25 cd03530 Rieske_NirD_small_Baci 99.9 1.5E-25 3.4E-30 182.7 7.3 97 94-207 1-98 (98)
26 cd03474 Rieske_T4moC Toluene-4 99.9 5.3E-25 1.1E-29 182.8 7.8 101 94-211 1-102 (108)
27 cd03529 Rieske_NirD Assimilato 99.9 6.8E-25 1.5E-29 180.9 6.7 98 94-207 1-103 (103)
28 TIGR02377 MocE_fam_FeS Rieske 99.9 1.6E-24 3.4E-29 178.2 7.3 100 93-208 1-101 (101)
29 TIGR02378 nirD_assim_sml nitri 99.9 2.3E-24 4.9E-29 178.2 6.9 99 93-208 1-105 (105)
30 PRK09965 3-phenylpropionate di 99.9 8.8E-24 1.9E-28 175.2 7.5 102 93-211 2-104 (106)
31 cd03478 Rieske_AIFL_N AIFL (ap 99.9 9.3E-24 2E-28 171.4 6.0 93 96-205 2-95 (95)
32 PF13806 Rieske_2: Rieske-like 99.9 1.8E-22 3.8E-27 167.0 5.0 98 93-207 1-104 (104)
33 PRK09511 nirD nitrite reductas 99.9 3.4E-22 7.5E-27 166.4 6.7 100 93-207 3-107 (108)
34 PF00355 Rieske: Rieske [2Fe-2 99.9 4.9E-22 1.1E-26 161.3 5.0 94 93-202 1-97 (97)
35 COG2146 {NirD} Ferredoxin subu 99.8 7.4E-21 1.6E-25 157.8 7.5 103 92-209 3-106 (106)
36 cd03467 Rieske Rieske domain; 99.8 6.6E-21 1.4E-25 155.2 6.7 95 94-204 1-97 (98)
37 cd03477 Rieske_YhfW_C YhfW fam 99.8 1.5E-20 3.2E-25 151.9 5.3 87 97-200 2-88 (91)
38 cd03476 Rieske_ArOX_small Smal 99.7 1.7E-18 3.7E-23 147.9 6.9 96 95-207 4-114 (126)
39 cd03471 Rieske_cytochrome_b6f 99.7 3.8E-17 8.3E-22 139.1 7.3 89 104-210 21-113 (126)
40 cd03473 Rieske_CMP_Neu5Ac_hydr 99.7 4.1E-17 8.9E-22 134.3 5.3 72 100-174 14-89 (107)
41 TIGR02694 arsenite_ox_S arseni 99.6 2.3E-16 5E-21 135.2 7.2 95 95-205 7-114 (129)
42 cd03470 Rieske_cytochrome_bc1 99.6 2.1E-15 4.6E-20 128.9 6.7 92 99-206 5-125 (126)
43 PRK13474 cytochrome b6-f compl 99.5 1.2E-13 2.5E-18 124.9 7.7 87 104-208 73-163 (178)
44 TIGR01416 Rieske_proteo ubiqui 99.3 3.2E-12 6.9E-17 115.2 6.9 96 93-203 40-169 (174)
45 cd08878 RHO_alpha_C_DMO-like C 99.2 1.3E-11 2.9E-16 110.3 7.0 114 239-355 5-134 (196)
46 cd03475 Rieske_SoxF_SoxL SoxF 98.9 4E-09 8.7E-14 94.2 7.6 66 126-206 74-158 (171)
47 cd00680 RHO_alpha_C C-terminal 98.9 4.4E-09 9.5E-14 93.3 7.3 103 239-354 4-124 (188)
48 cd08885 RHO_alpha_C_1 C-termin 98.6 1.1E-07 2.4E-12 85.9 7.4 32 239-270 5-36 (190)
49 PF08417 PaO: Pheophorbide a o 98.6 2.6E-08 5.6E-13 80.6 2.4 65 302-370 1-67 (92)
50 cd08886 RHO_alpha_C_2 C-termin 98.5 1.8E-07 4E-12 84.6 7.3 98 238-349 4-112 (182)
51 cd08883 RHO_alpha_C_CMO-like C 98.5 3.6E-07 7.7E-12 82.0 7.0 96 239-350 5-110 (175)
52 cd08887 RHO_alpha_C_3 C-termin 98.4 6E-07 1.3E-11 80.4 6.9 32 239-270 5-36 (185)
53 COG0723 QcrA Rieske Fe-S prote 98.3 8.6E-07 1.9E-11 80.0 4.9 67 128-209 100-168 (177)
54 cd08884 RHO_alpha_C_GbcA-like 98.1 6.6E-06 1.4E-10 75.7 6.8 30 239-268 15-44 (205)
55 PF00848 Ring_hydroxyl_A: Ring 98.0 4.6E-07 1E-11 81.2 -2.0 31 239-269 11-41 (209)
56 KOG1671 Ubiquinol cytochrome c 97.9 1.1E-05 2.3E-10 73.0 4.9 75 99-175 91-191 (210)
57 TIGR03171 soxL2 Rieske iron-su 97.8 2.3E-05 4.9E-10 76.2 5.2 69 126-208 175-277 (321)
58 cd08880 RHO_alpha_C_ahdA1c-lik 97.6 9.3E-05 2E-09 69.2 6.3 30 240-269 6-37 (222)
59 cd08879 RHO_alpha_C_AntDO-like 97.0 0.00015 3.2E-09 68.4 0.1 30 239-268 5-34 (237)
60 cd08882 RHO_alpha_C_MupW-like 97.0 0.00027 5.7E-09 67.1 1.1 30 239-268 5-34 (243)
61 cd08881 RHO_alpha_C_NDO-like C 96.9 0.00021 4.6E-09 66.1 0.1 30 239-268 10-40 (206)
62 PF11723 Aromatic_hydrox: Homo 96.8 0.00093 2E-08 62.4 3.0 43 224-267 14-56 (240)
63 KOG1336 Monodehydroascorbate/f 95.7 0.0049 1.1E-07 63.1 1.8 39 138-177 1-40 (478)
64 PF09740 DUF2043: Uncharacteri 69.0 2.5 5.4E-05 35.3 1.2 67 91-166 33-100 (110)
65 PF14920 MTBP_C: MDM2-binding 24.4 26 0.00057 33.1 0.1 16 152-167 15-30 (251)
66 PF11572 DUF3234: Protein of u 21.3 12 0.00027 30.2 -2.3 49 91-144 6-54 (103)
67 PF05265 DUF723: Protein of un 20.0 38 0.00083 25.2 0.2 15 152-166 31-45 (60)
No 1
>PLN02518 pheophorbide a oxygenase
Probab=100.00 E-value=5.4e-64 Score=516.63 Aligned_cols=364 Identities=76% Similarity=1.324 Sum_probs=280.1
Q ss_pred Ccccccccc---ccccCCCcccccccCCCCCceeeccccccccccCCcceeeCCCCCCCCChhhhhhhccccccCCcccc
Q 017387 1 MALLLSTTA---NITTSPRKTLPFLATGTPKRQITVKSLQKRSKNLSPLRVAAPPSDPAASDEETMRKDEKEDYGSLVDD 77 (372)
Q Consensus 1 ~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~Y~d~ 77 (372)
||+++++.. ++|.+..+..+|+.+-+ +++.+....+.+++..++++++++|+.++++..+.+...+.. .++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~ 74 (539)
T PLN02518 1 MAVLLGIACNSLTLTSSTPKSTPFFIPAR-TIPFVSSSRPRRGKIFTPLRVAAPPSVPSEAALQQDEGEEQR-----VEQ 74 (539)
T ss_pred CceeeeccccchhhccCCCCCcceeeecc-eeccccccccccccccccceecCCCCCCccccccCCcccccc-----ccc
Confidence 666655444 66777778888887644 666666665666666788899999887654321111111100 112
Q ss_pred ccCCCCCCCceeecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeee
Q 017387 78 EYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCS 157 (372)
Q Consensus 78 ~~~~~e~~~~f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CP 157 (372)
+....+.+..|.|+++||+||.++||++|+++.++++|++|||||+..+|+++||+|+|||||++|+.|++++++.|+||
T Consensus 75 ~~~~~~~~~~f~~~~~Wy~Va~~~dL~~g~p~~~~llG~~lVl~Rd~~~G~~~A~~d~CPHRgapLS~G~v~~~g~L~Cp 154 (539)
T PLN02518 75 ELGQESSDSKFSWRDHWYPVSLVEDLDPSVPTPFQLLGRDLVLWKDPNQGEWVAFDDKCPHRLAPLSEGRIDENGHLQCS 154 (539)
T ss_pred cccccccchhhhhhhhCEEEEEHHHCCCCCeEEEEECCEEEEEEEECCCCeEEEEcccCcCcCCCcccceecCCCEEEcC
Confidence 33334445678999999999999999889999999999999999962489999999999999999999998656799999
Q ss_pred eeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCCCCCCCCCcceEE
Q 017387 158 YHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKPEFSSVT 237 (372)
Q Consensus 158 yHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~ 237 (372)
||||+||++|+|+.||+....++..++..+++.++++|||+|++|+||||+++++.+.++...+|.+++++++++|..+.
T Consensus 155 YHGW~Fd~~G~c~~IP~~~~~~~~~~~~~~~~a~v~sypv~e~~GlIwV~~~~~~~~~a~~~~~P~~~~~~~~~~~~~~~ 234 (539)
T PLN02518 155 YHGWSFDGCGSCTRIPQAAPEGPEARAVKSPRACAIKFPTMVSQGLLFVWPDENGWERAQATKPPMLPDEFDDPEFSTVT 234 (539)
T ss_pred CCCCEEcCCCCeeecccccccccccccccCcccccceEeEEEECCEEEEEeCCccccccccccCCCCcccccCCCceeEE
Confidence 99999999999999997654333222223567789999999999999999997643334556667776678888888776
Q ss_pred EeeeccchhhhhhccCCCCCcccccccccccCccCCCCCCeeecccCccccccCCCCCCeeEEeeeccceeeeeeeeccc
Q 017387 238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTK 317 (372)
Q Consensus 238 ~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~~~~~~~~~v~~~~~~gf~~~~~~~~~~~~~f~~P~~~~~~~~~~~~ 317 (372)
...+++++|++++||++|++|++|+|++++|+++.+.+.+++++..+.+||.+..........+|.+||++.+.+.+..+
T Consensus 235 ~~~~~~~~~~~l~EN~lD~sH~pfvH~~~~G~~~~~~~~~~~v~~~~~~Gf~g~~~~~~~~~~~F~~P~~~~~~~~~~~~ 314 (539)
T PLN02518 235 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKVESSGPWGFAGANSDNPRITAKFVAPCYYINKIEIDTK 314 (539)
T ss_pred EEEEEecCchhHHHhCCccchhceeccccccCccccccccceEEEcCCCcccccccCCCceEEEEECCeEEEEeeeeecc
Confidence 67789999999999999999999999999999988888788887776778875433444556899999998877666544
Q ss_pred CcccccceEEEEEEeeeccCCCCCceeEEeeccceeeeecC-------CCcee-eeeeccc
Q 017387 318 LPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTMP-------GPAWW-QVRTSQL 370 (372)
Q Consensus 318 ~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~~~~~-------~p~w~-~~~~~~~ 370 (372)
.+..++....+++++++||+++++||+||.++|||+.|..+ .|+|| |+..|++
T Consensus 315 ~~~~~~~~~~~~~~~~~tP~s~g~tr~f~~~~Rnf~~~~~~~~~~~k~~PrW~~h~~~n~V 375 (539)
T PLN02518 315 LPIVGDQKWVIWICSFNVPMAPGKTRSIVCSARNFFQFSMPGPAWWQLVPRWYEHWTSNKV 375 (539)
T ss_pred ccCCCCcceEEEEEEEEEECCCCeEEEEEEecccchhccccchhhhhcCchHHHHhhhccc
Confidence 43334555677888999999999999999999999887643 68888 6665543
No 2
>PLN02281 chlorophyllide a oxygenase
Probab=100.00 E-value=1.1e-46 Score=382.90 Aligned_cols=244 Identities=23% Similarity=0.489 Sum_probs=186.5
Q ss_pred eecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCc
Q 017387 89 SWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGS 168 (372)
Q Consensus 89 ~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~ 168 (372)
.+++.||+||.++||++|+++.++++|++|||||+ .+|+++|++|+|||||++|+.|.++ ++.|+||||||+||.+|+
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~ 293 (536)
T PLN02281 216 HLKNFWYPVAFTADLKHDTMVPIECFEQPWVIFRG-EDGKPGCVRNTCAHRACPLDLGTVN-EGRIQCPYHGWEYSTDGE 293 (536)
T ss_pred hhhcccEEEEEHHHCCCCCeEEEEECCEEEEEEEC-CCCeEEEEeCcCcCCCCccccceee-CCEEEeCCCCCEECCCCC
Confidence 46999999999999988999999999999999998 8999999999999999999999996 689999999999999999
Q ss_pred ccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCCCCCCCC-CcceEE-Eeeeccchh
Q 017387 169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDAFDKP-EFSSVT-IQRDLFYGY 246 (372)
Q Consensus 169 c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p~~~~~~-~~~~~~-~~~~~~~nw 246 (372)
|+.+|+.+ +.+.++++|||+|++|+||||+++++ ..|.++ +++++ +|.... ...++++||
T Consensus 294 cv~iP~~~----------~~~~~l~sYPV~e~~GlVwV~lgd~~-------~aP~~p-~ld~p~~~~~~~~~~~~~~~nw 355 (536)
T PLN02281 294 CKKMPSTK----------LLKVKIKSLPCLEQEGMIWIWPGDEP-------PAPILP-SLQPPSGFLIHAELVMDLPVEH 355 (536)
T ss_pred EeeCCCCc----------cccCCcceEeEEEECCEEEEEeCCCC-------CCCCCc-cccCcccceEEEEEEEEecCCH
Confidence 99999753 23568999999999999999998653 124455 56655 554433 357899999
Q ss_pred hhhhccCCCCCcccccccccccCccCCCCCCeeecccCccccccCCCCCCeeEEeeeccceeeeeeeecccCccc--cc-
Q 017387 247 DTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCYYMNKIEIDTKLPVV--GD- 323 (372)
Q Consensus 247 k~~~EN~lD~~H~~~vH~~~~g~~~~~~~~~~~v~~~~~~gf~~~~~~~~~~~~~f~~P~~~~~~~~~~~~~p~~--g~- 323 (372)
++++||++|+||++|+|++++|..... +...+.... ..++....... ...++|++||++...+.+....... ++
T Consensus 356 kllvENllD~~H~~fvH~~t~g~~~~~-p~~v~~~~~-~~~~~p~~~~~-pv~~~f~aP~~v~l~i~~~~~G~~~~~~~~ 432 (536)
T PLN02281 356 GLLLDNLLDLAHAPFTHTSTFAKGWSV-PSLVKFLTP-TSGLQGYWDPY-PIDMEFKPPCIVLSTIGISKPGKLEGKSTQ 432 (536)
T ss_pred HHHHHhccccccccccCcccccCcccC-CceeEEecc-cCCCCcccccC-CceEEEECcEEEEEeeccccCCcccccccc
Confidence 999999999999999999999974333 222222211 11121111111 2368999999988766553211100 11
Q ss_pred -ceEEEEEEeeeccCCCCCceeEEeeccceeee
Q 017387 324 -QKWIIWICSFNVPMAPGKTRSIVCSARNFFQF 355 (372)
Q Consensus 324 -~~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~~ 355 (372)
....++.++++||+++++||+||.+.|||...
T Consensus 433 ~~~~~~~~~h~~TPeT~~sTryF~~~~Rnf~~~ 465 (536)
T PLN02281 433 QCATHLHQLHVCLPSSKNKTRLLYRMSLDFAPI 465 (536)
T ss_pred ccccceEEEEEEEECCCCeEEEEEEecccCccc
Confidence 12234566777999999999999999999765
No 3
>PLN00095 chlorophyllide a oxygenase; Provisional
Probab=100.00 E-value=9.2e-46 Score=362.11 Aligned_cols=250 Identities=25% Similarity=0.453 Sum_probs=191.2
Q ss_pred ecccceeeeeeccC-CCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCc
Q 017387 90 WRDHWYPVSLVEDL-DPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGS 168 (372)
Q Consensus 90 ~~~~W~~V~~~~eL-~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~ 168 (372)
.+++||+|+.++|| ++|+++.++++|++|+|||+ .+|+++|++|.|||||++|+.|+++ ++.|+||||||+||.+|+
T Consensus 69 ~r~~WypVa~ssdL~~~g~~~~f~L~GepIVL~Rd-~dGqv~Af~N~CPHRGapLSeG~v~-~g~L~CPYHGW~FD~~G~ 146 (394)
T PLN00095 69 ARAHWFPVAFAAGLRDEDALIAFDLFNVPWVLFRD-ADGEAGCIKDECAHRACPLSLGKLV-DGKAQCPYHGWEYETGGE 146 (394)
T ss_pred hhcCeEEEEEHHHCCCCCceEEEEECCEEEEEEEC-CCCCEEEEeccCCCCCCccccCccc-CCEEEecCCCcEECCCCC
Confidence 37899999999999 57999999999999999999 8999999999999999999999996 789999999999999999
Q ss_pred ccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhh----------h-c----cCCCCCCCCCCCCCCc
Q 017387 169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQER----------A-N----ATKPPMLPDAFDKPEF 233 (372)
Q Consensus 169 c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~----------~-~----~~~~p~~p~~~~~~~~ 233 (372)
|+.+|+.... .++.++++|||++++|+||||+++..... . + ...++.++ +. .+|
T Consensus 147 C~~iP~~~~~--------~~~~~v~tYPV~e~dGlVwVw~G~~~p~dflg~~~~~e~~~~~~~~~~~P~~~~-~~--~gf 215 (394)
T PLN00095 147 CAKMPSCKKF--------LKGVFADAAPVIERDGFIFLWAGESDPADFVGPEAACESIDDDVLAANEPGMFA-PG--EGF 215 (394)
T ss_pred EeeCCCcccc--------ccccccceEEEEEECCEEEEEeCCcchhhhccccccccccccchhhccCCcccC-CC--CCc
Confidence 9999975432 23467999999999999999998643210 0 0 11222333 22 256
Q ss_pred ceEEE-eeeccchhhhhhccCCCCCc-ccccccccc----cCccCCCCCCeeecccCccccccCCCCCCeeEEeeeccce
Q 017387 234 SSVTI-QRDLFYGYDTLMENVSDPSH-IDFAHHKVT----GRRDRAKPLPFKLESSGHWGFAGANDGNPRISAKFVAPCY 307 (372)
Q Consensus 234 ~~~~~-~~~~~~nwk~~~EN~lD~~H-~~~vH~~~~----g~~~~~~~~~~~v~~~~~~gf~~~~~~~~~~~~~f~~P~~ 307 (372)
..... .+|++++|.+++||+||++| .+|+|+.++ +++.++.+.++++......++.+..+. ..+.++|.+||+
T Consensus 216 ~~~aev~~Dlp~d~~~L~ENllD~aH~a~~~~t~tf~~~~~~r~~~~~~~~~~~~~~~~~l~g~~~~-~p~~~~F~ppc~ 294 (394)
T PLN00095 216 TPMAEVIADIKLDADEVLERLLAIGERARREATVSFDVSDAKRGRDALFPVDGTKIIAKVLRGGRDA-VPQSATFKPACV 294 (394)
T ss_pred eEEEEEEEeccccHHHHHHhhcCccccCCccCceeeecccccccccCccchhhhhhhhhhheeeccc-CCcceeEcCcee
Confidence 55433 57999999999999999999 488887666 455555555544443434455544333 567799999999
Q ss_pred eeeeeeecccCcccccc-eEEEEEEeeeccCCCCCceeEEeeccceee
Q 017387 308 YMNKIEIDTKLPVVGDQ-KWIIWICSFNVPMAPGKTRSIVCSARNFFQ 354 (372)
Q Consensus 308 ~~~~~~~~~~~p~~g~~-~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~ 354 (372)
+.++|.+..+ |-.+++ ..+++..++++|.++++||+++++++||..
T Consensus 295 ~~s~i~l~~~-~g~~~~~~~~l~qlhvclP~~~G~tRll~R~~~dF~~ 341 (394)
T PLN00095 295 IASTIALEDG-PGGGDGTDMNVEQLHVCLPAKPGLCRLLFRLAFDFVA 341 (394)
T ss_pred eeeeeccccc-CCCCccccceeeeEEEEEecCCCceEEEEeecccccc
Confidence 9998887432 111111 245556667799999999999999999965
No 4
>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=1.8e-41 Score=337.55 Aligned_cols=198 Identities=27% Similarity=0.459 Sum_probs=160.6
Q ss_pred ccccCCccccccCCCCCCCceeecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCc
Q 017387 68 KEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGR 147 (372)
Q Consensus 68 ~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~ 147 (372)
+++...|+|++.+++|.+.+| .++||+||+++||+++++++++++|++|||+|+ .+|+++||.|.|||||++||.|+
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~--~~~Wy~v~~~~el~~~~~~~~~i~g~~lvi~R~-~dg~~~al~d~C~HRga~Ls~g~ 80 (367)
T COG4638 4 RLPPPFYTDPELFQLELERIF--YKHWYVVAHSSELPKPDPLTVRIGGEPLVVVRD-KDGQVHALADVCPHRGARLSEGR 80 (367)
T ss_pred cCCCccccCHHHHHHHHHHhh--hhCEEEEccHHHCCCCCceeEEEcCeEEEEEEC-CCCCEEEEeccCCCCCchhcccc
Confidence 567889999999999998877 669999999999998899999999999999999 89999999999999999999999
Q ss_pred cCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCCCCCC
Q 017387 148 IDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPMLPDA 227 (372)
Q Consensus 148 v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~~p~~ 227 (372)
+++.+.|+||||||+||++|+|+.+|+...... ..+++.++++|||++++|+||||+++++.+ .+..++|..+.+
T Consensus 81 ~~~~~~l~CpyHgW~y~~~G~~~~ip~~~~~~~----~~~~~~~l~~~~~~~~~G~Iwi~~~~~~~~-~~~~~~p~~~~~ 155 (367)
T COG4638 81 VGGKGRLTCPYHGWTYDLDGRLRGVPARGYPLD----FDKSEHGLKRYPVEERYGFIWIWLGDPPPA-AEAFLPPAEPYE 155 (367)
T ss_pred CCCCceEecCCCceEECCCCcEecCCccccCCC----CCHhhCCccccceEEEccEEEEecCCCccC-hhHhcccccccc
Confidence 975489999999999999999999995321111 123456899999999999999999987643 334444444312
Q ss_pred CCCCCcceEEEeeeccchhhhhhccCCC-CCcccccccccccCccCC
Q 017387 228 FDKPEFSSVTIQRDLFYGYDTLMENVSD-PSHIDFAHHKVTGRRDRA 273 (372)
Q Consensus 228 ~~~~~~~~~~~~~~~~~nwk~~~EN~lD-~~H~~~vH~~~~g~~~~~ 273 (372)
.++...........+++|||.++||++| +||++++|+++++.....
T Consensus 156 ~~~~~~~~~~~~~~~~~nwk~~vEn~~d~~~H~~~vH~~~~~~~~~~ 202 (367)
T COG4638 156 DDRSRLGGGSFTINVPGNWKLAVENNLDDPYHVPFVHPGLLGTEPHT 202 (367)
T ss_pred cccccccCceEEEEecccceEEeeccCCccccccccCHHHhcccccc
Confidence 2222222223346788999999998887 999999999998865443
No 5
>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=8.6e-41 Score=337.75 Aligned_cols=199 Identities=13% Similarity=0.151 Sum_probs=159.4
Q ss_pred hccccccCCccccccCCCCCCCceeecccceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCC
Q 017387 65 KDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPL 143 (372)
Q Consensus 65 ~~~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~L 143 (372)
...+|+.+.|+|+++|++|++++| .+.|+.||+++||++ |+++++.+++++|+|+|+ ++|+++||.|+|||||++|
T Consensus 12 ~~~~v~~~~ytd~~if~~E~~~IF--~~~W~~v~h~selp~~GDy~t~~ig~~pviv~R~-~dG~i~a~~N~C~HRGa~L 88 (438)
T TIGR03228 12 GVFRIARDMFTEPELFDLEMELIF--EKNWIYACHESELPNNHDFVTVRAGRQPMIVTRD-GKGELHALVNACQHRGATL 88 (438)
T ss_pred CceecChheECCHHHHHHHHHHHH--hhCCEEEEEHHHCCCCCCeEEEEECCeEEEEEEC-CCCCEEEEcccCCCCCCcc
Confidence 345799999999999999999988 899999999999985 999999999999999999 8999999999999999999
Q ss_pred CCCccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcchhhhccCCCCC
Q 017387 144 SEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYGQERANATKPPM 223 (372)
Q Consensus 144 s~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~~~~~~~~~~p~ 223 (372)
+....++.+.|+||||||+||.||+|+.+|......+. +++...+|+.++|++++|+|||++++++.+++++++.+.
T Consensus 89 ~~~~~Gn~~~~~CPYHgW~y~~dG~L~~vp~~~~y~~~---fd~~~~~L~~~rv~~y~GfIFv~l~~~a~~~l~e~lg~~ 165 (438)
T TIGR03228 89 TRVGKGNQSTFTCPFHAWCYKSDGRLVKVKAPGEYCEG---FDKATRGLKKARIASYRGFVFVSLDVAATDSLEDFLGDA 165 (438)
T ss_pred ccCCccccCEEEcCCCCCcccCCCceeecCcccccCCC---CChhhCCCcceeEEEECCEEEEEeCCCCCCCHHHHhhhH
Confidence 97433346789999999999999999999965332221 234567788899999999999999987532344555432
Q ss_pred CC--CCCC----CCCcceEE--EeeeccchhhhhhccCCCCCcccccccccccC
Q 017387 224 LP--DAFD----KPEFSSVT--IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGR 269 (372)
Q Consensus 224 ~p--~~~~----~~~~~~~~--~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~ 269 (372)
.. +.+. ..+++.+. ..+.+++|||+++||++|.||++++|.++++.
T Consensus 166 ~~~ld~~~~~~~~g~le~~~~~~~~~~~~NWKl~~EN~~D~YH~~~vH~~~~~~ 219 (438)
T TIGR03228 166 RVFLDMMVAQSPTGELEVLPGKSAYTYAGNWKLQNENGLDGYHVSTVHYNYVAT 219 (438)
T ss_pred HHHHHHHhhccCcCceEEecceEEEEeCCchHHHHHhccccccchhhChhhHhh
Confidence 11 0111 11233332 24688999999999999999999999987643
No 6
>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=2.5e-39 Score=327.16 Aligned_cols=198 Identities=15% Similarity=0.180 Sum_probs=158.3
Q ss_pred hccccccCCccccccCCCCCCCceeecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCC
Q 017387 65 KDEKEDYGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPL 143 (372)
Q Consensus 65 ~~~~v~~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~L 143 (372)
...++|.++|+|++++++|++++| .+.|+.||+++||+ +|+++++.++|++|+|+|+ ++|+++||.|+|||||++|
T Consensus 12 ~~~~~~~~~Ytd~~~f~~E~~~IF--~~~W~~v~~~selp~~gd~~t~~~~~~~vvv~R~-~dG~i~af~N~C~HRga~L 88 (433)
T TIGR03229 12 GIFRCKREMFTDPELFDLEMKHIF--EGNWIYLAHESQIPNNNDYYTTYMGRQPIFIARN-KDGELNAFINACSHRGAML 88 (433)
T ss_pred CCccCChhhcCCHHHHHHHHHHHh--hhCCEEEEEHHHCCCCCCeEEEEECCeEEEEEEC-CCCcEEEEeCcCCCCCCCc
Confidence 345799999999999999999988 89999999999998 4899999999999999999 8999999999999999999
Q ss_pred CCCccCCCCceeeeeeceeecCCCcccccCccccC-CcccccccC-cccccccCC-ceeecceEEEecCCcchhhhccCC
Q 017387 144 SEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASE-GPEARAIQS-PRACATRFP-TMVSQGLLFVWPDEYGQERANATK 220 (372)
Q Consensus 144 s~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~-~~~~~~~~~-~~~~l~~~p-v~e~~G~I~V~~~~~~~~~~~~~~ 220 (372)
+.|..++.+.|+||||||+||.+|+|+.+|..... .+. .++. ...+|+.++ ++.++|+|||++++++. ++++++
T Consensus 89 ~~~~~g~~~~~~CPyHgW~f~~~G~l~~vP~~~~~~~~~--~fd~~~~~~L~~v~rve~y~GfIFv~l~~~~~-~l~e~L 165 (433)
T TIGR03229 89 CRHKRGNKTTYTCPFHGWTFNNSGKLLKVKDPEDAGYPE--CFNKDGSHDLKKVARFESYRGFLFGSLNPDVL-PLEEHL 165 (433)
T ss_pred ccccccCCCEEEcCCCCCEecCCcceEeCCCcccccCcc--ccCcHhhcCCccceEEEEECCEEEEEcCCCCC-CHHHHh
Confidence 99877656789999999999999999999974321 111 1112 356799995 77779999999998764 344555
Q ss_pred CCCCCCCCC---C---CCcceEE--EeeeccchhhhhhccCCCCCcccccccccccC
Q 017387 221 PPMLPDAFD---K---PEFSSVT--IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGR 269 (372)
Q Consensus 221 ~p~~p~~~~---~---~~~~~~~--~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~ 269 (372)
.+... .++ + .++..+. ..+.++||||+++||++|+||++++|.+++..
T Consensus 166 g~~~~-~ld~~~~~~~~~~~~~~~~~~~~~~~NWKl~~EN~~D~YH~~~vH~~~~~~ 221 (433)
T TIGR03229 166 GETAK-IIDMIVDQSPDGLEVLRGSSTYTYEGNWKLQAENGADGYHVSAVHWNYAAT 221 (433)
T ss_pred hhHHH-HHHHHhhcCcCCCeEEeeeEEEEecCchhhhHHhccCcccchhhcccHHHh
Confidence 44211 121 1 2233332 24678999999999999999999999887643
No 7
>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=1.3e-34 Score=254.46 Aligned_cols=142 Identities=19% Similarity=0.321 Sum_probs=123.5
Q ss_pred ccccCCccccccCCCCCCCceeec-ccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCC
Q 017387 68 KEDYGSLVDDEYGKESSDSKFSWR-DHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSE 145 (372)
Q Consensus 68 ~v~~~~Y~d~~~~~~e~~~~f~~~-~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~ 145 (372)
+||.+.|+|+++++.|++.+| + +.|+.|+++++|+ +|+++.+.++|++|+|+|+ .+|+++|+.|+|||||++|+.
T Consensus 1 ~~~~~~y~d~~~~~~E~~~if--~~~~W~~v~~~~el~~~g~~~~~~i~g~~iiv~r~-~~g~v~A~~n~CpHrg~~L~~ 77 (150)
T cd03545 1 RVPYKVFTDRAYFDREQERIF--RGKTWSYVGLEAEIPNAGDFKSTFVGDTPVVVTRA-EDGSLHAWVNRCAHRGALVCR 77 (150)
T ss_pred CCChhhccCHHHHHHHHHhhh--CCCceEEEEEHHHCCCCCCEEEEEECCceEEEEEC-CCCCEEEEcccCcCCCCEecc
Confidence 478899999999999998877 7 9999999999998 5999999999999999998 799999999999999999999
Q ss_pred CccCCCCceeeeeeceeecCCCcccccCccccCCcc---cccccCcccccccCCceeecceEEEecCCcc
Q 017387 146 GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPE---ARAIQSPRACATRFPTMVSQGLLFVWPDEYG 212 (372)
Q Consensus 146 G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~---~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~ 212 (372)
|..+.++.|+||||||+||++|+|+.+|......+. .....+.+.+|++|+|++++|+|||++++++
T Consensus 78 g~~g~~~~i~CP~Hgw~Fdl~G~~~~ip~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~ifv~l~~~~ 147 (150)
T cd03545 78 ERRGNDGSLTCVYHQWAYDLKGNLKGVPFRRGLKGQGGMPKDFDMKQHGLEKLRVETVGGLVFASFSDEV 147 (150)
T ss_pred cccCCCCEEECCCCCCEECCCCCEEECccccccccccccccCcCHHHCCCcceeEeEECCEEEEEeCCCC
Confidence 876546789999999999999999999986543211 1112355678999999999999999999764
No 8
>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=99.97 E-value=5.5e-32 Score=233.66 Aligned_cols=119 Identities=36% Similarity=0.885 Sum_probs=105.7
Q ss_pred ceeecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCC
Q 017387 87 KFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC 166 (372)
Q Consensus 87 ~f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~d 166 (372)
.++|++.|++|+.++||++|..+.++++|++|+|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+
T Consensus 11 ~~~~~~~W~~v~~~~el~~~~~~~~~v~g~~ivl~r~-~~G~v~A~~n~CpHrga~L~~G~~~-~~~i~CP~Hgw~Fd~~ 88 (134)
T cd04338 11 EYDWREEWYPLYLLKDVPTDAPLGLSVYDEPFVLFRD-QNGQLRCLEDRCPHRLAKLSEGQLI-DGKLECLYHGWQFGGE 88 (134)
T ss_pred ccccccCcEEEEEHHHCCCCCCEEEEECCceEEEEEc-CCCCEEEEcCcCCCCcCcccCCeec-CCEEEccCCCCEECCC
Confidence 4577999999999999998888999999999999998 7999999999999999999999986 6799999999999999
Q ss_pred CcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387 167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG 212 (372)
Q Consensus 167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~ 212 (372)
|+|+.+|....... .+.+.+|++|+|++++|+|||++++.+
T Consensus 89 G~~~~~P~~~~~~~-----~~~~~~l~~y~v~~~~G~V~V~~~~~~ 129 (134)
T cd04338 89 GKCVKIPQLPADAK-----IPKNACVKSYEVRDSQGVVWMWMSEAT 129 (134)
T ss_pred CCEEECCCCCccCC-----CCcccCcceEeEEEECCEEEEEcCCCC
Confidence 99999997643211 134567999999999999999998653
No 9
>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=1.8e-31 Score=231.51 Aligned_cols=122 Identities=70% Similarity=1.360 Sum_probs=107.3
Q ss_pred ceeecccceeeeeeccCCCCCCcchhhcccceEEEEeCC-CCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC
Q 017387 87 KFSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNN-SNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG 165 (372)
Q Consensus 87 ~f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~-~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~ 165 (372)
.+.|++.|++|+.++||++|+++.++++|++|+|+|+ . +|+++|++|+|||||++|+.|.+..++.|+||||||+||.
T Consensus 11 ~~~~~~~W~~v~~~~el~~g~~~~~~~~g~~i~v~r~-~~dG~~~A~~n~CpHrga~L~~G~~~~~~~i~CP~Hgw~Fd~ 89 (138)
T cd03480 11 KFDWREVWYPVAYVEDLDPSRPTPFTLLGRDLVIWWD-RNSQQWRAFDDQCPHRLAPLSEGRIDEEGCLECPYHGWSFDG 89 (138)
T ss_pred cCCCccceEEEEEHHHCCCCCcEEEEECCeeEEEEEE-CCCCEEEEEcCCCcCCcCccccceEcCCCEEEeCCCCCEECC
Confidence 4567999999999999999999999999999999998 6 9999999999999999999998754579999999999999
Q ss_pred CCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387 166 CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG 212 (372)
Q Consensus 166 dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~ 212 (372)
+|+|+.+|.....+.. ..+...+|++|||++++|+|||+++++.
T Consensus 90 tG~~~~~P~~~~~g~~---~~~~~~~l~~ypv~v~~g~V~V~~~~~~ 133 (138)
T cd03480 90 SGSCQRIPQAAEGGKA---HTSPRACVASLPTAVRQGLLFVWPGEPE 133 (138)
T ss_pred CCCEEECCCCcccccc---CCCcccccceEeEEEECCEEEEecCChH
Confidence 9999999976543321 1234578999999999999999998754
No 10
>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=1.5e-31 Score=227.38 Aligned_cols=117 Identities=29% Similarity=0.602 Sum_probs=101.4
Q ss_pred ccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccc
Q 017387 92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTR 171 (372)
Q Consensus 92 ~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~ 171 (372)
+.||+|+.++||+ ++++.++++|++|||||+ .+|+++|++|+|||||++|+.|.++ ++.|+||||||+||.+|+|+.
T Consensus 2 ~~W~~v~~~~~l~-~~~~~~~~~g~~ivl~r~-~~g~v~a~~n~CpHrg~~Ls~G~v~-~~~l~CpyHGw~Fd~~G~~~~ 78 (123)
T cd03537 2 ASWYVAMRSDDLK-DKPTELTLFGRPCVAWRG-ATGRAVVMDRHCSHLGANLADGRVK-DGCIQCPFHHWRYDEQGQCVH 78 (123)
T ss_pred CcEEEEEEHHHcC-CCcEEEEECCeEEEEEEc-cCCEEEEEcCCCCCCCCCccCCEEe-CCEEECCCCCCEECCCCCEEE
Confidence 5799999999996 788999999999999998 7999999999999999999999996 689999999999999999999
Q ss_pred cCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387 172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG 212 (372)
Q Consensus 172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~ 212 (372)
+|+.....+... ..+++.++++|||+|++|+||||++++.
T Consensus 79 iP~~~~~~~~~~-~~p~~~~~~~~pv~e~~G~Vwv~~g~~~ 118 (123)
T cd03537 79 IPGHSTAVRRLE-PVPRGARQPTLVTAERYGYVWVWYGSPQ 118 (123)
T ss_pred CCCCcccccccc-cCCcccccccEeEEEECCEEEEEcCCCC
Confidence 997643211110 0245678999999999999999998753
No 11
>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=99.97 E-value=8.8e-32 Score=235.58 Aligned_cols=139 Identities=17% Similarity=0.275 Sum_probs=117.6
Q ss_pred cCCccccccCCCCCCCceeecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccC
Q 017387 71 YGSLVDDEYGKESSDSKFSWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRID 149 (372)
Q Consensus 71 ~~~Y~d~~~~~~e~~~~f~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~ 149 (372)
.++|+|+++++.|++.+| .+.|+.|+++++|+ +|+++.++++|++|+|+|+ .+|+++|+.|+|||||++|+.+..+
T Consensus 2 ~~~y~~~~~~~~e~~~i~--~~~W~~v~~~~elp~~G~~~~~~i~g~~i~v~r~-~~g~v~A~~n~CpHrg~~L~~~~~g 78 (146)
T cd03538 2 KDVYTDPEIFALEMERLF--GNAWIYVGHESQVPNPGDYITTRIGDQPVVMVRH-TDGSVHVLYNRCPHKGTKIVSDGCG 78 (146)
T ss_pred CceEcCHHHHHHHHHHHh--hcCCEEEEEHHHCCCCCCEEEEEECCeeEEEEEC-CCCCEEEEeccCcCCCCEeeccccc
Confidence 468999999999998877 99999999999998 6999999999999999998 7999999999999999999765432
Q ss_pred -CCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccC-CceeecceEEEecCCcc
Q 017387 150 -ENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRF-PTMVSQGLLFVWPDEYG 212 (372)
Q Consensus 150 -~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~-pv~e~~G~I~V~~~~~~ 212 (372)
.++.|+||||||+||.+|+|+.+|..+.+.+..........+|+++ .|++++|+|||++++++
T Consensus 79 ~~~~~i~CP~Hgw~Fd~~G~~~~~p~~~~~~~~~~~~~~~~~~L~~~~~v~~~~g~ifv~~~~~~ 143 (146)
T cd03538 79 NTGKFFRCPYHAWSFKTDGSLLAIPLKKGYEGTGFDPSHADKGMQRVGAVDIYRGFVFARLSPSG 143 (146)
T ss_pred ccCCEEECCCCCCEECCCCCEEECCchhcCCcccCCcchhhCCCCcceeEEEECCEEEEEcCCCC
Confidence 2457999999999999999999998765431100001246789999 79999999999999764
No 12
>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=99.96 E-value=1.8e-30 Score=218.48 Aligned_cols=110 Identities=31% Similarity=0.661 Sum_probs=101.1
Q ss_pred cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccccc
Q 017387 93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI 172 (372)
Q Consensus 93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~i 172 (372)
.|+.|+.++||++|+++.++++|++|+|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+|+|+.+
T Consensus 1 gW~~v~~~~dl~~g~~~~~~~~g~~i~l~r~-~~g~~~a~~n~CpH~ga~L~~G~~~-~~~i~CP~Hg~~fd~~G~~~~~ 78 (115)
T cd03531 1 GWHCLGLARDFRDGKPHGVEAFGTKLVVFAD-SDGALNVLDAYCRHMGGDLSQGTVK-GDEIACPFHDWRWGGDGRCKAI 78 (115)
T ss_pred CcEEEEEHHHCCCCCeEEEEECCeEEEEEEC-CCCCEEEEcCcCCCCCCCCccCccc-CCEEECCCCCCEECCCCCEEEC
Confidence 5999999999999999999999999999998 7999999999999999999999986 6799999999999999999999
Q ss_pred CccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387 173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG 212 (372)
Q Consensus 173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~ 212 (372)
|..... +...++++|+|++++|+|||++++++
T Consensus 79 p~~~~~--------p~~~~l~~ypv~~~~g~v~v~~~~~~ 110 (115)
T cd03531 79 PYARRV--------PPLARTRAWPTLERNGQLFVWHDPEG 110 (115)
T ss_pred CcccCC--------CcccccceEeEEEECCEEEEECCCCC
Confidence 975432 34567999999999999999999875
No 13
>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=99.96 E-value=2.7e-30 Score=221.73 Aligned_cols=111 Identities=36% Similarity=0.841 Sum_probs=101.5
Q ss_pred eecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCc
Q 017387 89 SWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGS 168 (372)
Q Consensus 89 ~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~ 168 (372)
.+++.|++|+.++||++|+++.++++|++++|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+|+
T Consensus 13 ~~~~~W~~v~~~~el~~g~~~~~~v~g~~l~l~r~-~~g~v~A~~n~CpH~g~~L~~G~~~-~~~i~CP~Hgw~Fd~tG~ 90 (129)
T cd04337 13 GLRNFWYPVEFSKDLKMDTMVPFELFGQPWVLFRD-EDGTPGCIRDECAHRACPLSLGKVI-EGRIQCPYHGWEYDGDGE 90 (129)
T ss_pred hhhCccEEEEEHHHCCCCCeEEEEECCcEEEEEEC-CCCcEEEEeCcCCCCcCCcccCcEe-CCEEEeCCCCCEECCCCC
Confidence 45999999999999999999999999999999998 7999999999999999999999885 689999999999999999
Q ss_pred ccccCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387 169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY 211 (372)
Q Consensus 169 c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~ 211 (372)
|+.+|..+ +...+|++|++++++|+||||++++
T Consensus 91 ~~~~P~~~----------~~~~~l~~y~v~v~~g~V~V~~~~~ 123 (129)
T cd04337 91 CTKMPSTK----------CLNVGIAALPCMEQDGMIWVWPGDD 123 (129)
T ss_pred EEeCCcCC----------CccCCcceEeEEEECCEEEEEcCCC
Confidence 99988642 1245799999999999999999865
No 14
>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=99.96 E-value=5.7e-30 Score=223.65 Aligned_cols=116 Identities=33% Similarity=0.666 Sum_probs=103.5
Q ss_pred eecccceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCC
Q 017387 89 SWRDHWYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCG 167 (372)
Q Consensus 89 ~~~~~W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG 167 (372)
++++.|++|+.+++|+ +|+++.++++|++|+|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+|
T Consensus 17 ~~~~~W~~v~~~~eL~~~g~~~~~~~~g~~i~v~r~-~~G~v~A~~n~CpHrG~~L~~G~~~-~~~i~CP~Hgw~F~~~G 94 (144)
T cd03479 17 LLRRYWQPVALSSELTEDGQPVRVRLLGEDLVAFRD-TSGRVGLLDEHCPHRGASLVFGRVE-ECGLRCCYHGWKFDVDG 94 (144)
T ss_pred HhhCceEEEEEHHHCCCCCCEEEEEECCcEEEEEEe-CCCCEEEEcCcCCCCCCcccCCccc-CCEEEccCCCcEECCCC
Confidence 3489999999999999 6999999999999999998 7999999999999999999999986 68999999999999999
Q ss_pred cccccCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387 168 SCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY 211 (372)
Q Consensus 168 ~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~ 211 (372)
+|+.+|..+.... .+.+.+|++|+|++++|+|||++++.
T Consensus 95 ~~~~~P~~~~~~~-----~~~~~~l~~~~v~~~~G~I~V~~~~~ 133 (144)
T cd03479 95 QCLEMPSEPPDSQ-----LKQKVRQPAYPVRERGGLVWAYMGPA 133 (144)
T ss_pred CEEECCCCccccC-----CccccCcceEeEEEECCEEEEECCCC
Confidence 9999997554221 13566899999999999999999864
No 15
>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=8.1e-30 Score=214.73 Aligned_cols=112 Identities=34% Similarity=0.792 Sum_probs=101.9
Q ss_pred ecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcc
Q 017387 90 WRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSC 169 (372)
Q Consensus 90 ~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c 169 (372)
+++.|++|+.++||+ |+++.++++|++++|+|+ .+|+++|++|+|||||++|+.|.+. ++.|+||||||+||.+|+|
T Consensus 2 ~~~~W~~v~~~~el~-~~~~~~~~~g~~i~l~r~-~~g~~~a~~n~CpH~g~~L~~G~~~-~~~i~Cp~Hg~~fd~~G~~ 78 (116)
T cd03532 2 PRNAWYVAAWADELG-DKPLARTLLGEPVVLYRT-QDGRVAALEDRCPHRSAPLSKGSVE-GGGLVCGYHGLEFDSDGRC 78 (116)
T ss_pred cCCcEEEEEEHHHcC-CCcEEEEECCceEEEEEC-CCCCEEEeCCcCCCCCCCccCCccc-CCEEEeCCCCcEEcCCCCE
Confidence 478999999999998 999999999999999998 7999999999999999999999996 6899999999999999999
Q ss_pred cccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387 170 TRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG 212 (372)
Q Consensus 170 ~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~ 212 (372)
+.+|..... +...+|++|+|++++|+|||++++++
T Consensus 79 ~~~p~~~~~--------~~~~~l~~~~v~~~~g~v~v~~~~~~ 113 (116)
T cd03532 79 VHMPGQERV--------PAKACVRSYPVVERDALIWIWMGDAA 113 (116)
T ss_pred EeCCCCCCC--------CCccccccCCEEEECCEEEEEcCCcc
Confidence 999975431 34568999999999999999998754
No 16
>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=219.79 Aligned_cols=117 Identities=28% Similarity=0.578 Sum_probs=101.2
Q ss_pred eeecccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCcc-CCCCceeeeeeceeecC-
Q 017387 88 FSWRDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRI-DENGHLQCSYHGWSFDG- 165 (372)
Q Consensus 88 f~~~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v-~~~~~i~CPyHGw~Fd~- 165 (372)
+.|++.|++|+.++||++|+++.++++|++|+|+|. +|+++|++|+|||||++|+.|.. ..++.|+||||||+||+
T Consensus 9 ~~~~~~W~~v~~~~el~~g~~~~~~~~g~~i~l~r~--~g~v~A~~n~CpHrg~~L~~g~~~~~~~~i~Cp~Hgw~Fdl~ 86 (136)
T cd03548 9 WGFRNHWYPALFSHELEEGEPKGIQLCGEPILLRRV--DGKVYALKDRCLHRGVPLSKKPECFTKGTITCWYHGWTYRLD 86 (136)
T ss_pred cCcccCcEEEEEHHHCCCCCeEEEEECCcEEEEEec--CCEEEEEeCcCcCCCCccccCcccccCCEEEecCCccEEeCC
Confidence 356999999999999999999999999999999995 89999999999999999999863 23679999999999998
Q ss_pred CCcccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387 166 CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG 212 (372)
Q Consensus 166 dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~ 212 (372)
+|+|+.+|..+... .+...+|++|+|++++|+|||++++..
T Consensus 87 tG~~~~~~~~p~~~------~~~~~~L~~ypv~~~~g~V~v~~~~~~ 127 (136)
T cd03548 87 DGKLVTILANPDDP------LIGRTGLKTYPVEEAKGMIFVFVGDGD 127 (136)
T ss_pred CccEEEcccCCCcc------ccccCCCceEeEEEECCEEEEEeCCcc
Confidence 89999988643211 123567999999999999999998754
No 17
>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=99.96 E-value=5.4e-30 Score=219.83 Aligned_cols=118 Identities=17% Similarity=0.298 Sum_probs=101.3
Q ss_pred ceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccccc
Q 017387 94 WYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI 172 (372)
Q Consensus 94 W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~i 172 (372)
|++||+++||+ +|+++.+.+++++|+|+|+ .+|+++||.|+|||||++|+.|..++.+.|+||||||+||++|+|+.+
T Consensus 1 W~~v~~~~~l~~~g~~~~~~~~~~~v~v~r~-~dg~v~A~~n~C~Hrg~~L~~g~~~~~~~l~CPyHgw~fdl~G~l~~~ 79 (129)
T cd03539 1 WCYVGLEAEIPNPGDFKRTLIGERSVIMTRD-PDGGINVVENVCAHRGMRFCRERNGNAKDFVCPYHQWNYSLKGDLQGV 79 (129)
T ss_pred CEEEEEHHHCCCCCCEEEEEECCcEEEEEEC-CCCCEEEEeccCcCCCCEeeeeccCccCEEECCCCCCEECCCCCEeec
Confidence 99999999998 4999999999999999998 899999999999999999999887545689999999999999999999
Q ss_pred CccccCCc-------ccccccCcccccccCCceeecceEEEecCCcc
Q 017387 173 PQAASEGP-------EARAIQSPRACATRFPTMVSQGLLFVWPDEYG 212 (372)
Q Consensus 173 P~~~~~~~-------~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~ 212 (372)
|+...... ....+++.+.+|++++|++++|+|||++++++
T Consensus 80 p~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~Ifv~~~~~~ 126 (129)
T cd03539 80 PFRRGVKKDGKVNGGMPKDFKTKDHGLTKLKVATRGGVVFASFDHDV 126 (129)
T ss_pred cccccccccccccccccCCcChHHCCCceeeEeEECCEEEEEeCCCC
Confidence 98644210 00112345678999999999999999999765
No 18
>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=99.96 E-value=9.6e-30 Score=214.98 Aligned_cols=113 Identities=21% Similarity=0.295 Sum_probs=102.4
Q ss_pred cceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccc
Q 017387 93 HWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTR 171 (372)
Q Consensus 93 ~W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~ 171 (372)
.|++|++++||++ |++++++++|++|+|+|+ .+|+++|+.|+|||||++|+.|.++ ++.|+||||||+||++|+|+.
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~~ 78 (118)
T cd03541 1 GWQVAGYSDQVKEKNQYFTGRLGNVEYVVCRD-GNGKLHAFHNVCTHRASILACGSGK-KSCFVCPYHGWVYGLDGSLTK 78 (118)
T ss_pred CCEEEEEHHHCCCCCCeEEEEECCeEEEEEEC-CCCCEEEEeCCCCCCcCCccCCccc-cCEEEeCCCCCEEcCCCeEEe
Confidence 5999999999984 889999999999999998 8999999999999999999999886 679999999999999999999
Q ss_pred cCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387 172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY 211 (372)
Q Consensus 172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~ 211 (372)
+|........ +....+|++++|++++|||||+++++
T Consensus 79 ~P~~~~~~~~----~~~~~~L~~~~~~~~~g~vfv~~~~~ 114 (118)
T cd03541 79 ATQATGIQNF----NPKELGLVPLKVAEWGPFVLISVDRS 114 (118)
T ss_pred CCCcccccCC----CHHHCCCceEeEEEECCEEEEEeCCC
Confidence 9987665332 35678899999999999999999875
No 19
>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=99.96 E-value=1.6e-29 Score=216.63 Aligned_cols=120 Identities=14% Similarity=0.279 Sum_probs=102.7
Q ss_pred ecccceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCc
Q 017387 90 WRDHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGS 168 (372)
Q Consensus 90 ~~~~W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~ 168 (372)
|.+.|+.|+.++||++ |++..++++|++|+|+|+ .+|+++|+.|+|||||++|+.|..++++.|+||||||+||.+|+
T Consensus 5 ~~~~W~~v~~~~el~~~g~~~~~~~~~~~i~l~r~-~~g~i~A~~n~C~Hrg~~L~~g~~g~~~~i~CP~Hgw~fd~~G~ 83 (128)
T cd03472 5 FARSWLLLGHETHIPKAGDYLTTYMGEDPVIVVRQ-KDGSIRVFLNQCRHRGMRICRSDAGNAKAFTCTYHGWAYDTAGN 83 (128)
T ss_pred hhCCCeEeEEHHHCCCCCCEEEEEECCceEEEEEC-CCCCEEEEhhhCcCCCCeeeccCCCCcCEEECCcCCeEECCCcC
Confidence 4899999999999985 777788899999999998 79999999999999999999998754568999999999999999
Q ss_pred ccccCccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387 169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG 212 (372)
Q Consensus 169 c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~ 212 (372)
|+.+|..+...+. ........|+.++|.+++|+|||++++++
T Consensus 84 ~~~~P~~~~~~~~--~~~~~~~~l~~~~v~~~~g~vfv~~~~~~ 125 (128)
T cd03472 84 LVNVPFEKEAFCD--GLDKADWGPLQARVETYKGLIFANWDAEA 125 (128)
T ss_pred EEeccCccccccc--CCCHHHCCCcceeEeEECCEEEEEcCCCC
Confidence 9999986542111 12245567999999999999999999864
No 20
>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=99.95 E-value=3.4e-28 Score=207.02 Aligned_cols=118 Identities=16% Similarity=0.315 Sum_probs=99.8
Q ss_pred ccceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccc
Q 017387 92 DHWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCT 170 (372)
Q Consensus 92 ~~W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~ 170 (372)
+.|+.|++++||++ |+...+.++|++|+|+|+ .+|+++|++|+|||||++|+.|..++++.|+||||||+||.+|+|+
T Consensus 1 ~~w~~v~~~~el~~~g~~~~~~~~~~~iiv~r~-~~g~~~A~~n~CpHrg~~L~~g~~~~~~~i~Cp~Hgw~Fd~tG~~~ 79 (123)
T cd03535 1 RAWVFLGHESEIPNAGDYVVRYIGDDSFIVCRD-EDGEIRAMFNSCRHRGMQVCRAEMGNTSHFRCPYHGWTYRNTGRLV 79 (123)
T ss_pred CCCEEEEEHHHCCCCCCEEEEEECCeEEEEEEC-CCCCEEEEcccCccCCCEeeccccCCCCEEECCcCCCEECCCcCEe
Confidence 47999999999986 778888899999999998 7999999999999999999999886446899999999999999999
Q ss_pred ccCccccCCcccccccCcccccccCCc-eeecceEEEecCCcc
Q 017387 171 RIPQAASEGPEARAIQSPRACATRFPT-MVSQGLLFVWPDEYG 212 (372)
Q Consensus 171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv-~e~~G~I~V~~~~~~ 212 (372)
.+|......+. ...+...+|++|++ ++++|+|||+|++++
T Consensus 80 ~~p~~~~~~~~--~~~~~~~~L~~~~~~e~~~g~vfv~l~~~~ 120 (123)
T cd03535 80 GVPAQQEAYGG--GFDKSQWGLRPAPNLDSYNGLIFGSLDPKA 120 (123)
T ss_pred eCCCccccccc--CcCHHHCCCccceeEEEECCEEEEEeCCCC
Confidence 99976543221 12345678999985 558999999999764
No 21
>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=99.95 E-value=5.7e-28 Score=205.64 Aligned_cols=117 Identities=16% Similarity=0.219 Sum_probs=99.8
Q ss_pred ceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccccc
Q 017387 94 WYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI 172 (372)
Q Consensus 94 W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~i 172 (372)
|+.||.++||++ |++..+.++|++|+|+|+ .+|+++|+.|+|||||++|+.|..++...|+||||||+||.+|+|+.+
T Consensus 1 w~~v~~~~el~~~g~~~~~~~~~~~i~v~r~-~~g~v~A~~n~CpH~g~~L~~~~~~~~~~i~Cp~Hgw~fd~~G~~~~~ 79 (123)
T cd03536 1 WVLLGHESEIPNKGDFMVRDMGSDSVIVARD-KDGEIHVSLNVCPHRGMRISTTDGGNTQIHVCIYHGWAFRPNGDFIGA 79 (123)
T ss_pred CEEeEEHHHCCCCCCEEEEEECCceEEEEEC-CCCCEEEEeeeCCCCCCCcccccCCCcCEEECCcCCCEECCCCcEEEC
Confidence 999999999986 778888899999999998 799999999999999999999877544579999999999999999999
Q ss_pred CccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387 173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG 212 (372)
Q Consensus 173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~ 212 (372)
|..+..... +...+...+|++|+|++++|+|||++++++
T Consensus 80 p~~~~~~~~-~~~~~~~~~L~~~~v~~~~g~Ifv~~~~~~ 118 (123)
T cd03536 80 PVEKECMHG-KMRTKAELGLHKARVTLYGGLIFATWNIDG 118 (123)
T ss_pred Ccccccccc-CCCCHHHCCCcceeEEEECCEEEEEeCCCC
Confidence 986542111 112345678999999999999999999764
No 22
>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=99.94 E-value=5.1e-28 Score=203.37 Aligned_cols=114 Identities=33% Similarity=0.548 Sum_probs=100.9
Q ss_pred ceeeeeeccCC-CCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccccc
Q 017387 94 WYPVSLVEDLD-PNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI 172 (372)
Q Consensus 94 W~~V~~~~eL~-~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~i 172 (372)
|++||.++||+ +|+.+.++++|++|+|+|+ .+|+++|+.|+|||||++|+.|.+..++.|+||||||+||++|+|+.+
T Consensus 1 w~~v~~~~el~~~g~~~~~~~~~~~i~v~r~-~~g~~~a~~n~CpH~g~~L~~g~~~~~~~i~Cp~Hg~~Fd~~G~~~~~ 79 (118)
T cd03469 1 WYFVGHSSELPEPGDYVTLELGGEPLVLVRD-RDGEVRAFHNVCPHRGARLCEGRGGNAGRLVCPYHGWTYDLDGKLVGV 79 (118)
T ss_pred CEEeEEHHHCCCCCCEEEEEECCccEEEEEC-CCCCEEEEEEeCCCCCCEeeeccCCCCCEEECCCCCCEECCCCcEEeC
Confidence 99999999999 8999999999999999998 799999999999999999999988336899999999999999999999
Q ss_pred CccccCCcccccccCcccccccCCceeecceEEEecCCcc
Q 017387 173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEYG 212 (372)
Q Consensus 173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~~ 212 (372)
|...... ...+...+|++|+|++++|+|||+++++.
T Consensus 80 P~~~~~~----~~~~~~~~L~~~~v~~~~g~v~v~~~~~~ 115 (118)
T cd03469 80 PREEGFP----GFDKEKLGLRTVPVEEWGGLIFVNLDPDA 115 (118)
T ss_pred CcccccC----CCCHHHCCCeEEEEEEECCEEEEEcCCCC
Confidence 9754421 11245678999999999999999998754
No 23
>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=99.93 E-value=1.6e-26 Score=196.68 Aligned_cols=116 Identities=21% Similarity=0.354 Sum_probs=97.1
Q ss_pred ceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCccccc
Q 017387 94 WYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRI 172 (372)
Q Consensus 94 W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~i 172 (372)
|+.||+.+||++ |+++.+++.|++|+|+|+ .+|+++|+.|.|||||++|+.|..+.++.|+||||||+||.||+|+.+
T Consensus 1 w~~v~~~~elp~~g~~~~~~~~~~~i~l~r~-~~g~v~A~~n~C~Hrg~~L~~g~~~~~~~i~CP~Hg~~Fd~~G~~~~~ 79 (123)
T cd03542 1 WVYLAHESQIPNNNDYFTTTIGRQPVVITRD-KDGELNAFINACSHRGAMLCRRKQGNKGTFTCPFHGWTFSNTGKLLKV 79 (123)
T ss_pred CEEeEEHHHCCCCCCEEEEEECCcEEEEEEC-CCCCEEEEcccCcCCCCccccccccCCCEEECcCCCCEecCCccEEEC
Confidence 899999999986 888999999999999998 799999999999999999999987545689999999999999999999
Q ss_pred CccccC-CcccccccCc-ccccccCC-ceeecceEEEecCCcc
Q 017387 173 PQAASE-GPEARAIQSP-RACATRFP-TMVSQGLLFVWPDEYG 212 (372)
Q Consensus 173 P~~~~~-~~~~~~~~~~-~~~l~~~p-v~e~~G~I~V~~~~~~ 212 (372)
|..... .+. .+++. ..+|+.++ +++++|||||++++++
T Consensus 80 p~~~~~~y~~--~~~~~~~~~L~~~~~~~~~~g~v~~~~~~~~ 120 (123)
T cd03542 80 KDPKTAGYPE--GFNCDGSHDLTKVARFESYRGFLFGSLNADV 120 (123)
T ss_pred CcccccCcCc--ccChhhcCCCccceeEEEECCEEEEEcCCCC
Confidence 964321 111 12233 46799985 6677999999999764
No 24
>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=99.92 E-value=8.8e-26 Score=183.82 Aligned_cols=97 Identities=30% Similarity=0.559 Sum_probs=89.0
Q ss_pred ceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCccccc
Q 017387 94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRI 172 (372)
Q Consensus 94 W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~i 172 (372)
|++|+.++||++|+++.++++|++++|+|+ +|+++|++|+|||||++|+.|.+. ++.|+||||||+||+ +|+|+..
T Consensus 1 w~~v~~~~~l~~g~~~~~~~~g~~~~v~r~--~~~~~a~~~~CpH~g~~L~~g~~~-~~~i~Cp~Hg~~fd~~~G~~~~~ 77 (98)
T cd03528 1 WVRVCAVDELPEGEPKRVDVGGRPIAVYRV--DGEFYATDDLCTHGDASLSEGYVE-GGVIECPLHGGRFDLRTGKALSL 77 (98)
T ss_pred CeEEEEhhhcCCCCEEEEEECCeEEEEEEE--CCEEEEECCcCCCCCCCCCCCeEe-CCEEEeCCcCCEEECCCCcccCC
Confidence 999999999999999999999999999998 679999999999999999999875 679999999999999 9999987
Q ss_pred CccccCCcccccccCcccccccCCceeecceEEEe
Q 017387 173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW 207 (372)
Q Consensus 173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~ 207 (372)
|.. ..|++|++++++|.|||.
T Consensus 78 p~~--------------~~L~~~~v~~~~g~v~v~ 98 (98)
T cd03528 78 PAT--------------EPLKTYPVKVEDGDVYVD 98 (98)
T ss_pred CCC--------------CCcceEeEEEECCEEEEC
Confidence 642 358999999999999983
No 25
>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=1.5e-25 Score=182.72 Aligned_cols=97 Identities=27% Similarity=0.642 Sum_probs=87.3
Q ss_pred ceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCccccc
Q 017387 94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRI 172 (372)
Q Consensus 94 W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~i 172 (372)
|+.|+.++||++|+.+.+++.|++|+|+|+ .+|+++|++|+|||||++|+.|.++ ++.|+||||||+||+ +|.+..
T Consensus 1 w~~v~~~~~l~~~~~~~~~~~g~~i~l~r~-~~g~~~A~~~~CpH~g~~L~~g~~~-~~~i~Cp~Hg~~Fdl~~G~~~~- 77 (98)
T cd03530 1 WIDIGALEDIPPRGARKVQTGGGEIAVFRT-ADDEVFALENRCPHKGGPLSEGIVH-GEYVTCPLHNWVIDLETGEAQG- 77 (98)
T ss_pred CEEEEEHHHCCCCCcEEEEECCEEEEEEEe-CCCCEEEEcCcCCCCCCCccCCEEc-CCEEECCCCCCEEECCCCCCCC-
Confidence 999999999999999999999999999998 6799999999999999999999986 689999999999999 777642
Q ss_pred CccccCCcccccccCcccccccCCceeecceEEEe
Q 017387 173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW 207 (372)
Q Consensus 173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~ 207 (372)
| +..+|++|||++++|.|||.
T Consensus 78 p--------------~~~~l~~y~v~v~~g~v~v~ 98 (98)
T cd03530 78 P--------------DEGCVRTFPVKVEDGRVYLG 98 (98)
T ss_pred C--------------CCCccceEeEEEECCEEEEC
Confidence 2 12469999999999999984
No 26
>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=99.91 E-value=5.3e-25 Score=182.78 Aligned_cols=101 Identities=28% Similarity=0.502 Sum_probs=89.3
Q ss_pred ceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCC-Cccccc
Q 017387 94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGC-GSCTRI 172 (372)
Q Consensus 94 W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~d-G~c~~i 172 (372)
|+.|+.++||++|+++.+++.|++++|+|. .+|+++|+.|+|||||++|+.|.++ ++.|+||||||+||++ |.|+.
T Consensus 1 w~~v~~~~~l~~g~~~~~~~~~~~~~~~~~-~~g~~~A~~n~CpH~g~~L~~g~~~-g~~i~CP~Hg~~Fdl~~G~~~~- 77 (108)
T cd03474 1 FTKVCSLDDVWEGEMELVDVDGEEVLLVAP-EGGEFRAFQGICPHQEIPLAEGGFD-GGVLTCRAHLWQFDADTGEGLN- 77 (108)
T ss_pred CeEeeehhccCCCceEEEEECCeEEEEEEc-cCCeEEEEcCcCCCCCCCcccCccc-CCEEEeCCcCCEEECCCccccC-
Confidence 899999999999999999999998989888 7999999999999999999999975 5799999999999995 55542
Q ss_pred CccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387 173 PQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY 211 (372)
Q Consensus 173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~ 211 (372)
| +..+|++|+|++++|.|||+++++
T Consensus 78 ~--------------~~~~L~~~~v~v~~g~v~v~~~~~ 102 (108)
T cd03474 78 P--------------RDCRLARYPVKVEGGDILVDTEGV 102 (108)
T ss_pred C--------------CCCccceEeEEEECCEEEEeCCCc
Confidence 2 234699999999999999999754
No 27
>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=6.8e-25 Score=180.87 Aligned_cols=98 Identities=21% Similarity=0.317 Sum_probs=87.3
Q ss_pred ceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccC-CCCCccC---CCCceeeeeeceeecC-CCc
Q 017387 94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAP-LSEGRID---ENGHLQCSYHGWSFDG-CGS 168 (372)
Q Consensus 94 W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~-Ls~G~v~---~~~~i~CPyHGw~Fd~-dG~ 168 (372)
|++|+.++||++|+.+.++++|++|+|+|. .+|+++|++|+|||+|++ |+.|.+. +++.|+||||||+||+ +|+
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 WQTVCALDDLPPGSGVAALVGDTQIAIFRL-PGREVYAVQNMDPHSRANVLSRGIVGDIGGEPVVASPLYKQHFSLKTGR 79 (103)
T ss_pred CEEEeEHHHCCCCCcEEEEECCEEEEEEEe-CCCeEEEEeCcCCCCCCcccCCceEcccCCCeEEECCCCCCEEEcCCCC
Confidence 999999999999999999999999999998 667999999999999997 8888764 2348999999999997 999
Q ss_pred ccccCccccCCcccccccCcccccccCCceeecceEEEe
Q 017387 169 CTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW 207 (372)
Q Consensus 169 c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~ 207 (372)
|+..|. .+|++|+|++++|.|||.
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 987552 358999999999999984
No 28
>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=1.6e-24 Score=178.22 Aligned_cols=100 Identities=22% Similarity=0.427 Sum_probs=91.1
Q ss_pred cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCcccc
Q 017387 93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTR 171 (372)
Q Consensus 93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~ 171 (372)
.|+.|+..+||++|..+.++++|++|+|+|. .+|+++|++|+|||+|++|+.|.+. ++.|+||+|||+||+ +|+|+.
T Consensus 1 ~w~~v~~~~dl~~g~~~~~~~~g~~i~l~r~-~~g~~~A~~~~CpH~g~~L~~G~~~-~~~i~CP~Hg~~Fdl~tG~~~~ 78 (101)
T TIGR02377 1 NWVKACDADDIGREDVARFDHGGRTFAIYRT-PDDQYYATDGLCTHEYAHLADGLVM-DTTVECPKHAGCFDYRTGEALN 78 (101)
T ss_pred CcEEEEEHHHcCCCCEEEEEECCeEEEEEEe-CCCEEEEEcCcCCCCCCCCCCCEEc-CCEEECCccCCEEECCCCcccC
Confidence 4999999999999999999999999999997 6899999999999999999999996 689999999999998 899997
Q ss_pred cCccccCCcccccccCcccccccCCceeecceEEEec
Q 017387 172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWP 208 (372)
Q Consensus 172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~ 208 (372)
.|.. ..|++|||++++|.|||.+
T Consensus 79 ~p~~--------------~~l~~y~v~v~~g~v~V~~ 101 (101)
T TIGR02377 79 PPVC--------------VNLKTYPVKVVDGAVYVDI 101 (101)
T ss_pred CCcc--------------CCcceEeEEEECCEEEEeC
Confidence 6642 2589999999999999964
No 29
>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=99.90 E-value=2.3e-24 Score=178.17 Aligned_cols=99 Identities=18% Similarity=0.398 Sum_probs=88.4
Q ss_pred cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCcc-ccCCCCCccCCCCc----eeeeeeceeecC-C
Q 017387 93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHR-LAPLSEGRIDENGH----LQCSYHGWSFDG-C 166 (372)
Q Consensus 93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHR-ga~Ls~G~v~~~~~----i~CPyHGw~Fd~-d 166 (372)
.|++|+.++||++|..+.+.+.|++|+|+|+ .+|+++|++|+|||+ +.+|+.|.+. ++. |+||||||+||+ +
T Consensus 1 ~w~~v~~~~el~~g~~~~~~v~g~~l~v~r~-~~~~~~a~~~~CpH~g~~~L~~g~~~-~~~~~~~i~Cp~Hg~~Fdl~t 78 (105)
T TIGR02378 1 TWQDICAIDDIPEETGVCVLLGDTQIAIFRV-PGDQVFAIQNMCPHKRAFVLSRGIVG-DAQGELWVACPLHKRNFRLED 78 (105)
T ss_pred CcEEEEEHHHCCCCCcEEEEECCEEEEEEEe-CCCcEEEEeCcCCCCCCccccceEEc-cCCCcEEEECCcCCCEEEcCC
Confidence 5999999999999999999999999999998 688999999999999 8999999875 344 999999999999 8
Q ss_pred CcccccCccccCCcccccccCcccccccCCceeecceEEEec
Q 017387 167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWP 208 (372)
Q Consensus 167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~ 208 (372)
|+|+..| ..+|++|||++++|.|||.+
T Consensus 79 G~~~~~~---------------~~~L~~y~v~v~~g~v~v~~ 105 (105)
T TIGR02378 79 GRCLEDD---------------SGSVRTYEVRVEDGRVYVAL 105 (105)
T ss_pred ccccCCC---------------CccEeeEeEEEECCEEEEeC
Confidence 9988533 23699999999999999964
No 30
>PRK09965 3-phenylpropionate dioxygenase ferredoxin subunit; Provisional
Probab=99.89 E-value=8.8e-24 Score=175.22 Aligned_cols=102 Identities=25% Similarity=0.366 Sum_probs=90.3
Q ss_pred cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCcccc
Q 017387 93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTR 171 (372)
Q Consensus 93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~ 171 (372)
.|+.|+..+||++|..+.+.++ ++|+|+|. +|+++|++|+|||+|++|+.|.+.+++.|+||+|||+||+ +|+|+.
T Consensus 2 ~~~~v~~~~~l~~g~~~~~~~~-~~i~v~~~--~g~~~A~~~~CpH~g~~L~~G~~~~~~~i~Cp~Hg~~Fd~~tG~~~~ 78 (106)
T PRK09965 2 NRIYACPVADLPEGEALRVDTS-PVIALFNV--GGEFYAIDDRCSHGNASLSEGYLEDDATVECPLHAASFCLRTGKALC 78 (106)
T ss_pred CcEEeeeHHHcCCCCeEEEeCC-CeEEEEEE--CCEEEEEeCcCCCCCCCCCceEECCCCEEEcCCCCCEEEcCCCCeeC
Confidence 4999999999999988888877 89999996 8999999999999999999999864378999999999998 899986
Q ss_pred cCccccCCcccccccCcccccccCCceeecceEEEecCCc
Q 017387 172 IPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPDEY 211 (372)
Q Consensus 172 iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~~ 211 (372)
.|. ..+|++|+|++++|.|||.+.++
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 553 23699999999999999988653
No 31
>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=9.3e-24 Score=171.36 Aligned_cols=93 Identities=24% Similarity=0.435 Sum_probs=85.1
Q ss_pred eeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCcccccCc
Q 017387 96 PVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRIPQ 174 (372)
Q Consensus 96 ~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~iP~ 174 (372)
.|+.++||++|+++.++++|++|+|+|. +|+++|++|+|||+|++|+.|.+. ++.|+||||||+||+ +|+|+..|.
T Consensus 2 ~v~~~~~l~~g~~~~~~~~~~~v~v~r~--~g~~~A~~~~CpH~g~~L~~g~~~-~~~i~CP~Hg~~Fdl~tG~~~~~p~ 78 (95)
T cd03478 2 VVCRLSDLGDGEMKEVDVGDGKVLLVRQ--GGEVHAIGAKCPHYGAPLAKGVLT-DGRIRCPWHGACFNLRTGDIEDAPA 78 (95)
T ss_pred ceeehhhCCCCCEEEEEeCCcEEEEEEE--CCEEEEEcCcCcCCCCccCCCeEe-CCEEEcCCCCCEEECCCCcCcCCCc
Confidence 3789999999999999999999999997 899999999999999999999986 689999999999998 999998774
Q ss_pred cccCCcccccccCcccccccCCceeecceEE
Q 017387 175 AASEGPEARAIQSPRACATRFPTMVSQGLLF 205 (372)
Q Consensus 175 ~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~ 205 (372)
. ..|++|++++++|.||
T Consensus 79 ~--------------~~l~~~~v~~~~g~i~ 95 (95)
T cd03478 79 L--------------DSLPCYEVEVEDGRVY 95 (95)
T ss_pred c--------------CCcceEEEEEECCEEC
Confidence 2 2489999999999997
No 32
>PF13806 Rieske_2: Rieske-like [2Fe-2S] domain; PDB: 2JO6_A 3C0D_A 3D89_A 2JZA_A.
Probab=99.86 E-value=1.8e-22 Score=167.02 Aligned_cols=98 Identities=34% Similarity=0.720 Sum_probs=89.8
Q ss_pred cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCc-cccCCCCCccCCCC----ceeeeeeceeecC-C
Q 017387 93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPH-RLAPLSEGRIDENG----HLQCSYHGWSFDG-C 166 (372)
Q Consensus 93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpH-Rga~Ls~G~v~~~~----~i~CPyHGw~Fd~-d 166 (372)
.|+.||..+||++|..+.+.+.|++|+|||. .+|+++|++|+||| ++++|+.|.++ +. .|.||+|+|.||+ +
T Consensus 1 ~W~~v~~~~~L~~~~~~~~~v~g~~Ialf~~-~~~~vyAi~n~Cph~~~~~Ls~G~i~-~~~g~~~V~CPlH~~~f~L~t 78 (104)
T PF13806_consen 1 SWVPVCPLDDLPPGEGRAVEVDGRQIALFRV-RDGEVYAIDNRCPHSQAGPLSDGLIG-DGNGEPCVACPLHKWRFDLRT 78 (104)
T ss_dssp SEEEEEETTTSCTTSEEEEEETTEEEEEEEE-STTEEEEEESBETTTTSSCGCGSEEE-ECTTEEEEEETTTTEEEETTT
T ss_pred CeeEeccHHHCCCCCcEEEEECCeEEEEEEe-CCCCEEEEeccCCccCCcccceeEEc-cCCCCEEEECCCCCCeEECCC
Confidence 5999999999999999999999999999998 79999999999999 89999999986 34 8999999999999 8
Q ss_pred CcccccCccccCCcccccccCcccccccCCceeecceEEEe
Q 017387 167 GSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW 207 (372)
Q Consensus 167 G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~ 207 (372)
|+|+..| ..+|++|||++++|.|||.
T Consensus 79 G~~~~~~---------------~~~l~~ypvrv~~g~V~V~ 104 (104)
T PF13806_consen 79 GECLEDP---------------DVSLRTYPVRVEDGQVYVE 104 (104)
T ss_dssp TEESSEC---------------SEBSBEEEEEECTTEEEEE
T ss_pred cCcCCCC---------------CCcEEeEEEEEECCEEEEC
Confidence 9998633 2469999999999999984
No 33
>PRK09511 nirD nitrite reductase small subunit; Provisional
Probab=99.86 E-value=3.4e-22 Score=166.39 Aligned_cols=100 Identities=17% Similarity=0.282 Sum_probs=86.8
Q ss_pred cceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccC-CCCCccCC-CC--ceeeeeeceeecC-CC
Q 017387 93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAP-LSEGRIDE-NG--HLQCSYHGWSFDG-CG 167 (372)
Q Consensus 93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~-Ls~G~v~~-~~--~i~CPyHGw~Fd~-dG 167 (372)
.|..||..+||++|..+.+.++|++|+|+|...+|+++|++|+|||.|++ |+.|.+++ ++ .|+||+|||+||+ +|
T Consensus 3 ~~~~v~~~~dl~~g~~~~v~v~g~~i~l~~~~~~g~~~A~~n~CpH~~~~~L~~G~~~~~~g~~~V~CP~H~~~Fdl~TG 82 (108)
T PRK09511 3 QWKDICKIDDILPGTGVCALVGDEQVAIFRPYHDEQVFAISNIDPFFQASVLSRGLIAEHQGELWVASPLKKQRFRLSDG 82 (108)
T ss_pred cceEeeEHhHcCCCceEEEEECCEEEEEEEECCCCEEEEEeCcCCCCCCcccCCceEccCCCeEEEECCCCCCEEECCCc
Confidence 49999999999999999999999999999941379999999999999985 99998842 22 4999999999999 89
Q ss_pred cccccCccccCCcccccccCcccccccCCceeecceEEEe
Q 017387 168 SCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVW 207 (372)
Q Consensus 168 ~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~ 207 (372)
+|+..| ..+|++|||++++|.|||.
T Consensus 83 ~~~~~~---------------~~~l~typV~ve~g~V~v~ 107 (108)
T PRK09511 83 LCMEDE---------------QFSVKHYDARVKDGVVQLR 107 (108)
T ss_pred ccCCCC---------------CccEeeEeEEEECCEEEEe
Confidence 998533 2369999999999999984
No 34
>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=99.85 E-value=4.9e-22 Score=161.33 Aligned_cols=94 Identities=32% Similarity=0.626 Sum_probs=78.5
Q ss_pred cceeeeeeccCCC-CCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCc-cCCCCceeeeeeceeecCC-Ccc
Q 017387 93 HWYPVSLVEDLDP-NLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGR-IDENGHLQCSYHGWSFDGC-GSC 169 (372)
Q Consensus 93 ~W~~V~~~~eL~~-g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~-v~~~~~i~CPyHGw~Fd~d-G~c 169 (372)
+|++|+.++||++ |+...+.+ |...++++. .+|+++|++|+|||+|++|+.|. ...++.|+||||||+||++ |+|
T Consensus 1 ~W~~v~~~~el~~~~~~~~~~~-~~~~v~~~~-~~g~~~A~~~~CpH~g~~l~~~~~~~~~~~i~Cp~Hg~~Fd~~tG~~ 78 (97)
T PF00355_consen 1 QWVPVCRSSELPEPGDVKRVDV-GGKLVLVRR-SDGEIYAFSNRCPHQGCPLSEGPFSEDGGVIVCPCHGWRFDLDTGEC 78 (97)
T ss_dssp SEEEEEEGGGSHSTTEEEEEEE-TTEEEEEEE-TTTEEEEEESB-TTTSBBGGCSSEETTTTEEEETTTTEEEETTTSBE
T ss_pred CEEEeeEHHHCCCCCCEEEEEc-CCcEEEEEe-CCCCEEEEEccCCccceeEcceecccccCEEEeCCcCCEEeCCCceE
Confidence 5999999999998 88888888 666666666 79999999999999999999994 3235799999999999996 999
Q ss_pred cccCccccCCcccccccCcccccccCCceeecc
Q 017387 170 TRIPQAASEGPEARAIQSPRACATRFPTMVSQG 202 (372)
Q Consensus 170 ~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G 202 (372)
+..|... +++.|||+++++
T Consensus 79 ~~~p~~~--------------~l~~~~v~ve~~ 97 (97)
T PF00355_consen 79 VGGPAPR--------------PLPLYPVKVEGD 97 (97)
T ss_dssp EESTTCS--------------BSTEEEEEEETT
T ss_pred ecCCCCC--------------CcCCCCeEEeCC
Confidence 9987532 588999998864
No 35
>COG2146 {NirD} Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]
Probab=99.83 E-value=7.4e-21 Score=157.84 Aligned_cols=103 Identities=29% Similarity=0.515 Sum_probs=88.2
Q ss_pred ccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCccc
Q 017387 92 DHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCT 170 (372)
Q Consensus 92 ~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~ 170 (372)
..|+.+|..+||+++..+.+.+.+..+++++. .+|+++|++|+|||.|++|+.|.+.++..|+||.|+|.||+ +|+|+
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 MNWIRICKVDDLPEGGGVRVLVGGGRFALVVR-ADGEVFAIDNRCPHAGAPLSRGLVEGDETVVCPLHGARFDLRTGECL 81 (106)
T ss_pred CceEEEEehHhcCCCCceEEEecCCEEEEEEe-cCCEEEEEeCcCCCCCCcccccEeCCCCEEECCccCCEEEcCCCcee
Confidence 57999999999999888888884435666666 69999999999999999999999974346999999999999 89999
Q ss_pred ccCccccCCcccccccCcccccccCCceeecceEEEecC
Q 017387 171 RIPQAASEGPEARAIQSPRACATRFPTMVSQGLLFVWPD 209 (372)
Q Consensus 171 ~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~ 209 (372)
.-|... .|++||+++.+|.|||.++
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 866421 1999999999999999863
No 36
>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=99.83 E-value=6.6e-21 Score=155.17 Aligned_cols=95 Identities=26% Similarity=0.489 Sum_probs=85.2
Q ss_pred ceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecC-CCccccc
Q 017387 94 WYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRI 172 (372)
Q Consensus 94 W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~i 172 (372)
|++++..++|++|+.+.+.+.|.+++|+|+ .+|+++|++|+|||+|++|..|... ++.|+||+|||+||+ +|+|+..
T Consensus 1 w~~~~~~~~~~~~~~~~~~~~~~~~~v~~~-~~~~~~a~~~~CpH~g~~l~~~~~~-~~~i~Cp~H~~~f~~~~G~~~~~ 78 (98)
T cd03467 1 WVVVGALSELPPGGGRVVVVGGGPVVVVRR-EGGEVYALSNRCTHQGCPLSEGEGE-DGCIVCPCHGSRFDLRTGEVVSG 78 (98)
T ss_pred CEEeeeccccCCCceEEEEECCeEEEEEEe-CCCEEEEEcCcCCCCCccCCcCccC-CCEEEeCCCCCEEeCCCccCcCC
Confidence 899999999998999999999999999998 7889999999999999999999864 689999999999999 9999987
Q ss_pred CccccCCcccccccCcccccccCCceeec-ceE
Q 017387 173 PQAASEGPEARAIQSPRACATRFPTMVSQ-GLL 204 (372)
Q Consensus 173 P~~~~~~~~~~~~~~~~~~l~~~pv~e~~-G~I 204 (372)
|. ...|++|++++.+ +.|
T Consensus 79 p~--------------~~~l~~~~v~~~~~~~~ 97 (98)
T cd03467 79 PA--------------PRPLPKYPVKVEGDGVV 97 (98)
T ss_pred CC--------------CCCcCEEEEEEeCCceE
Confidence 64 2458899999994 444
No 37
>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=99.81 E-value=1.5e-20 Score=151.89 Aligned_cols=87 Identities=17% Similarity=0.239 Sum_probs=76.5
Q ss_pred eeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccccCccc
Q 017387 97 VSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAA 176 (372)
Q Consensus 97 V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~ 176 (372)
++.++||++|+.+.+.+.|++|+|+|+ .+|+++|+.|+|||+|++|+.|.. ++.|+||||||+||.+|+|+..|..
T Consensus 2 ~~~~~dl~~g~~~~~~~~g~~v~v~r~-~~g~~~A~~~~CpH~g~~l~~g~~--~~~i~CP~Hg~~Fd~~G~~~~~Pa~- 77 (91)
T cd03477 2 ITDIEDLAPGEGGVVNIGGKRLAVYRD-EDGVLHTVSATCTHLGCIVHWNDA--EKSWDCPCHGSRFSYDGEVIEGPAV- 77 (91)
T ss_pred ccchhhcCCCCeEEEEECCEEEEEEEC-CCCCEEEEcCcCCCCCCCCcccCC--CCEEECCCCCCEECCCCcEeeCCCC-
Confidence 578899999999999999999999998 799999999999999999998865 4699999999999999999987743
Q ss_pred cCCcccccccCcccccccCCceee
Q 017387 177 SEGPEARAIQSPRACATRFPTMVS 200 (372)
Q Consensus 177 ~~~~~~~~~~~~~~~l~~~pv~e~ 200 (372)
..|++|+|.-.
T Consensus 78 -------------~~l~~y~v~~~ 88 (91)
T cd03477 78 -------------SGLKPADDAPI 88 (91)
T ss_pred -------------CCCCeeEeecc
Confidence 24778877643
No 38
>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=99.75 E-value=1.7e-18 Score=147.91 Aligned_cols=96 Identities=23% Similarity=0.283 Sum_probs=83.0
Q ss_pred eeeeeeccCCCCCCcchhhcc--cceEEEEeCC---------CCceEEcccCCCccccCCCCCccCCCCceeeeeeceee
Q 017387 95 YPVSLVEDLDPNLPTAFQLLG--RDLVLWFDNN---------SNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSF 163 (372)
Q Consensus 95 ~~V~~~~eL~~g~~~~~~~~g--~~lvl~R~~~---------~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~F 163 (372)
+.||..++|++|+.+.+++.+ ++++|+|. . +|+++|++|+|||+|++|+.|. +++.|+||+|||+|
T Consensus 4 ~~v~~~~~l~~g~~~~~~~~~~~~~i~v~r~-~~~~~~~~~~~g~~~A~~~~CpH~g~~L~~g~--~~~~v~CP~Hg~~F 80 (126)
T cd03476 4 VKVANLSQLSPGQPVTFNYPDESSPCVLVKL-GVPVPGGVGPDNDIVAFSALCTHMGCPLTYDP--SNKTFVCPCHFSQF 80 (126)
T ss_pred eEEeeHHHCCCCCeEEEEcCCCCCcEEEEEC-CccccCccccCCEEEEEeCcCCCCCccccccc--cCCEEEccCcCCEE
Confidence 357899999999999999887 89999996 3 6899999999999999999986 36789999999999
Q ss_pred cC--CCcccccCccccCCcccccccCcccccccCCceee--cceEEEe
Q 017387 164 DG--CGSCTRIPQAASEGPEARAIQSPRACATRFPTMVS--QGLLFVW 207 (372)
Q Consensus 164 d~--dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~--~G~I~V~ 207 (372)
|+ +|+|+..|. ...|++|+++++ +|.|||-
T Consensus 81 dl~tgG~~~~gPa--------------~~~L~~ypv~ve~~~g~V~~~ 114 (126)
T cd03476 81 DPARGGQMVSGQA--------------TQNLPQIVLEYDEASGDIYAV 114 (126)
T ss_pred eCCCCCeEEcCCC--------------CCCCCeEEEEEECCCCEEEEE
Confidence 99 378887553 246999999999 9999984
No 39
>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=99.69 E-value=3.8e-17 Score=139.08 Aligned_cols=89 Identities=15% Similarity=0.215 Sum_probs=71.3
Q ss_pred CCCCCcchh--hcccceEEEEeCCCCce--EEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccccCccccCC
Q 017387 104 DPNLPTAFQ--LLGRDLVLWFDNNSNKW--VAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEG 179 (372)
Q Consensus 104 ~~g~~~~~~--~~g~~lvl~R~~~~G~v--~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~ 179 (372)
.+|++..++ ..+..|+|++ .+|++ +|++|+|||+|++|+.+.. ++.|+||+|||+||.+|+++..|.
T Consensus 21 ~~~~~~~~~~~~~~~~Ilv~~--~dg~i~~~A~~~~CpH~G~~l~~~~~--~~~i~CP~Hg~~Fd~tG~~~~gPa----- 91 (126)
T cd03471 21 NPGDRSLVQGLKGDPTYLIVE--EDKTIANYGINAVCTHLGCVVPWNAA--ENKFKCPCHGSQYDATGKVVRGPA----- 91 (126)
T ss_pred CCCCeEEEEEecCCeEEEEEe--CCCeEEEEEecCCCcCCCCCcCccCC--CCEEEcCCCCCEECCCCCEecCCC-----
Confidence 357776665 3455556655 48877 8999999999999998754 469999999999999999987653
Q ss_pred cccccccCcccccccCCceeecceEEEecCC
Q 017387 180 PEARAIQSPRACATRFPTMVSQGLLFVWPDE 210 (372)
Q Consensus 180 ~~~~~~~~~~~~l~~~pv~e~~G~I~V~~~~ 210 (372)
...|++|+|++++|.|||.+..
T Consensus 92 ---------~~~L~~y~V~vedg~I~V~~~~ 113 (126)
T cd03471 92 ---------PLSLALVHATVDDDKVVLSPWT 113 (126)
T ss_pred ---------CCCCceEeEEEECCEEEEEECc
Confidence 2458999999999999997654
No 40
>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=99.67 E-value=4.1e-17 Score=134.29 Aligned_cols=72 Identities=17% Similarity=0.379 Sum_probs=64.7
Q ss_pred eccCCCCCCcchhh-cccceEEEEeCCCCceEEcccCCCccccCCCCC--ccCCCCceeeeeeceeecC-CCcccccCc
Q 017387 100 VEDLDPNLPTAFQL-LGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEG--RIDENGHLQCSYHGWSFDG-CGSCTRIPQ 174 (372)
Q Consensus 100 ~~eL~~g~~~~~~~-~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G--~v~~~~~i~CPyHGw~Fd~-dG~c~~iP~ 174 (372)
..+|++|..+.+.+ .|.+|+|+|. +|+++|++|+|||+|++|+.| .++ ++.|+||+|||+||+ +|+++.-|.
T Consensus 14 l~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 14 VANLKEGINFFRNKEDGKKYIIYKS--KSELKACKNQCKHQGGLFIKDIEDLD-GRTVRCTKHNWKLDVSTMKYVNPPD 89 (107)
T ss_pred HhcCCCCceEEEEecCCcEEEEEEE--CCEEEEEcCCCCCCCccccCCcceEe-CCEEEeCCCCCEEEcCCCCCccCCc
Confidence 47899999999999 9999999996 899999999999999999995 474 678999999999999 899987553
No 41
>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=99.65 E-value=2.3e-16 Score=135.20 Aligned_cols=95 Identities=24% Similarity=0.274 Sum_probs=79.0
Q ss_pred eeeeeeccCCCCCCcchhhcc--cceEEEEeC--------CCCceEEcccCCCccccCCCCCccCCCCceeeeeeceeec
Q 017387 95 YPVSLVEDLDPNLPTAFQLLG--RDLVLWFDN--------NSNKWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFD 164 (372)
Q Consensus 95 ~~V~~~~eL~~g~~~~~~~~g--~~lvl~R~~--------~~G~v~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd 164 (372)
+.||..+||++|+++.+.+.+ .+++|+|.. .+|+++|++|+|||.|++|+.+. +++.|.||.|||+||
T Consensus 7 ~~v~~~~dl~~g~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~G~~~A~~~~CpH~g~~L~~~~--~~~~i~CP~Hga~Fd 84 (129)
T TIGR02694 7 NRVANISELKLNEPLDFNYPDASSPGVLLKLGTPVEGGVGPDGDIVAFSTLCTHMGCPVSYSA--DNKTFNCPCHFSVFD 84 (129)
T ss_pred eEEEeHHHCCCCCCEEEecCCCCCCEEEEecCCcccCccccCCEEEEEeCcCCCCCccccccc--CCCEEEcCCCCCEEC
Confidence 358999999999999998765 478888720 37999999999999999999875 357999999999999
Q ss_pred CC--CcccccCccccCCcccccccCcccccccCCceee-cceEE
Q 017387 165 GC--GSCTRIPQAASEGPEARAIQSPRACATRFPTMVS-QGLLF 205 (372)
Q Consensus 165 ~d--G~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~-~G~I~ 205 (372)
.+ |+|+..|. ..+|++|++++. +|.||
T Consensus 85 l~tgG~~~~gP~--------------~~~L~~y~v~v~~~G~V~ 114 (129)
T TIGR02694 85 PEKGGQQVWGQA--------------TQNLPQIVLRVADNGDIF 114 (129)
T ss_pred CCCCCcEECCCC--------------CCCCCeeEEEEECCCeEE
Confidence 96 68886552 246999999997 58998
No 42
>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=99.59 E-value=2.1e-15 Score=128.88 Aligned_cols=92 Identities=14% Similarity=0.230 Sum_probs=78.0
Q ss_pred eeccCCCCCCcchhhcccceEEEEeCC----------------------------CCceEEcccCCCccccCCCCCccCC
Q 017387 99 LVEDLDPNLPTAFQLLGRDLVLWFDNN----------------------------SNKWVAFDDKCPHRLAPLSEGRIDE 150 (372)
Q Consensus 99 ~~~eL~~g~~~~~~~~g~~lvl~R~~~----------------------------~G~v~A~~n~CpHRga~Ls~G~v~~ 150 (372)
..++|++|+.+.+.+.|++|+|+|. . +|+++|+.++|||.|+.+..+...
T Consensus 5 dl~~l~~G~~~~v~w~Gkpv~I~~r-t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~CtH~gc~~~~~~~~- 82 (126)
T cd03470 5 DLSKIEEGQLITVEWRGKPVFIRRR-TPEEIAEAKAVDLSLLDDPDPAANRVRSGKPEWLVVIGICTHLGCVPTYRAGD- 82 (126)
T ss_pred EhhhCCCCCEEEEEECCeEEEEEEC-CHHHHhhhhhcchhhcCCccccccccccCCCcEEEEeCcCCCCCCeeccccCC-
Confidence 4688999999999999999999994 2 579999999999999998877653
Q ss_pred CCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeec-ceEEE
Q 017387 151 NGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQ-GLLFV 206 (372)
Q Consensus 151 ~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~-G~I~V 206 (372)
++.+.||+|||+||++|+.+..|. ...|+.|+++..+ +.|+|
T Consensus 83 ~~~~~CPcHgs~Fdl~G~~~~gPa--------------~~~L~~~p~~~~~~~~l~i 125 (126)
T cd03470 83 YGGFFCPCHGSHYDASGRIRKGPA--------------PLNLEVPPYKFLSDTTIVI 125 (126)
T ss_pred CCEEEecCcCCEECCCCeEecCCC--------------CCCCCeeeEEEecCCEEEe
Confidence 579999999999999999887653 2368999999877 67665
No 43
>PRK13474 cytochrome b6-f complex iron-sulfur subunit; Provisional
Probab=99.46 E-value=1.2e-13 Score=124.90 Aligned_cols=87 Identities=17% Similarity=0.242 Sum_probs=71.4
Q ss_pred CCCCCcchh-hcccc-eEEEEeCCCCce--EEcccCCCccccCCCCCccCCCCceeeeeeceeecCCCcccccCccccCC
Q 017387 104 DPNLPTAFQ-LLGRD-LVLWFDNNSNKW--VAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEG 179 (372)
Q Consensus 104 ~~g~~~~~~-~~g~~-lvl~R~~~~G~v--~A~~n~CpHRga~Ls~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~ 179 (372)
++|++..+. +.|.+ +++.+ .+|++ +|+++.|||.|++|+.+.. ++.|.||+||++||.+|+.+..|.
T Consensus 73 ~~g~~~~v~~~~g~~~~lv~~--~~g~~~~~a~~~~CtH~gc~l~~~~~--~~~~~CP~Hgs~Fd~tG~~~~gPa----- 143 (178)
T PRK13474 73 PAGDRSLVQGLKGDPTYLVVE--EDGTIASYGINAVCTHLGCVVPWNSG--ENKFQCPCHGSQYDATGKVVRGPA----- 143 (178)
T ss_pred CCCCcEEEEEcCCCeEEEEEe--CCCEEEEEEecCCCCCCCCccccccC--CCEEEecCcCCEECCCCCCccCCC-----
Confidence 567777665 66777 56665 48999 6789999999999998875 359999999999999999886553
Q ss_pred cccccccCcccccccCCceeecceEEEec
Q 017387 180 PEARAIQSPRACATRFPTMVSQGLLFVWP 208 (372)
Q Consensus 180 ~~~~~~~~~~~~l~~~pv~e~~G~I~V~~ 208 (372)
...|++|+|++++|.|+|.+
T Consensus 144 ---------~~~L~~y~v~v~~g~v~v~~ 163 (178)
T PRK13474 144 ---------PLSLALVHVTVEDDKVLFSP 163 (178)
T ss_pred ---------CCCCCeEeEEEECCEEEEEE
Confidence 34689999999999999977
No 44
>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=99.31 E-value=3.2e-12 Score=115.16 Aligned_cols=96 Identities=16% Similarity=0.224 Sum_probs=76.0
Q ss_pred cceeeeeeccCCCCCCcchhhcccceEEEEeCC---------------------------------CCceEEcccCCCcc
Q 017387 93 HWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNN---------------------------------SNKWVAFDDKCPHR 139 (372)
Q Consensus 93 ~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~---------------------------------~G~v~A~~n~CpHR 139 (372)
.|+.| ..++|++|+.+.+.+.|++|+|+|... +++++|+.+.|||.
T Consensus 40 ~~~~v-~l~eL~pG~~~~v~~~GkpI~I~~~t~~~~~~~~~~~~~~l~Dp~~~~~~~~~~~~~r~~~~~~~a~~~~CtH~ 118 (174)
T TIGR01416 40 APTEV-DVSKIQPGQQLTVEWRGKPVFIRRRTKKEIDALKALDLGALKDPNSEAQQPDYARVKRSGKPEWLVVIGICTHL 118 (174)
T ss_pred CcEEE-EHHHCCCCCeEEEEECCeEEEEEeCCHHHhhhhhccchhhcCCCcccccCcchhhhhhccCCcEEEEEeccCCC
Confidence 57777 789999999999999999999988411 48999999999999
Q ss_pred ccCC-CCCccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecce
Q 017387 140 LAPL-SEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQGL 203 (372)
Q Consensus 140 ga~L-s~G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G~ 203 (372)
|+.+ ..+..+..+.+.||+||++||.+|+.+..|. ...|..|+++..++.
T Consensus 119 Gc~~~~~~~~~~~~~~~CPcHgs~Fd~~G~~~~gpa--------------~~~L~~~~~~~~~~~ 169 (174)
T TIGR01416 119 GCIPTYGPEEGDKGGFFCPCHGSHYDTAGRVRKGPA--------------PLNLPVPPYKFLSDT 169 (174)
T ss_pred CCccccccCCCCCCEEEeCCCCCEECCCCcEecCCC--------------CCCCCCCCEEEcCCC
Confidence 9755 4444432468999999999999998886553 345889998876653
No 45
>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=99.24 E-value=1.3e-11 Score=110.26 Aligned_cols=114 Identities=19% Similarity=0.247 Sum_probs=74.0
Q ss_pred eeeccchhhhhhccCCCCCcccccccccccCccCC--CCCCeeecccCcccccc----CCC---------CC-CeeEEee
Q 017387 239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRA--KPLPFKLESSGHWGFAG----AND---------GN-PRISAKF 302 (372)
Q Consensus 239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~~~--~~~~~~v~~~~~~gf~~----~~~---------~~-~~~~~~f 302 (372)
.++++|||++++||++|++|++|||.+++|..+.. ....++++..+ .|+.. ... .. ......|
T Consensus 5 ~~~~~~n~~~~~EN~~D~~H~~fvH~~~~g~~~~~~~~~~~~~~~~~~-~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (196)
T cd08878 5 YRHIDCNWLQVVENLMDPSHVSFVHRSSIGRDAADLPSGPPKEVEEVP-RGVTYRRWREDEDPPPFGFEGPVDRWRVIEF 83 (196)
T ss_pred cEEecCCcEEEehhCccccchhhhChhhhCccccccccCCCceEEEeC-CEEEEEEEecCCCCCCCCCCCCccEEEEEEE
Confidence 35789999999999999999999999999987654 33445554332 23211 000 11 1234789
Q ss_pred eccceeeeeeeecccCcccccceEEEEEEeeeccCCCCCceeEEeeccceeee
Q 017387 303 VAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQF 355 (372)
Q Consensus 303 ~~P~~~~~~~~~~~~~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~~ 355 (372)
++|++....+...... ..+....+.++++++|+++++||++|...||+...
T Consensus 84 ~~P~~~~~~~~~~~~~--~~~~~~~~~~~~~~tPid~~~~~~~~~~~~~~~~~ 134 (196)
T cd08878 84 LLPNVLLIDPGVAPAG--TREQGVRMRVTHWITPIDETTTHYFWFFVRNFAPD 134 (196)
T ss_pred ECCEEEEEecccccCC--cCCCcceEEEEEEEccCCCCeEEEEEEeccCCCCC
Confidence 9998866433221000 01112234556778999999999999999998553
No 46
>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=98.89 E-value=4e-09 Score=94.15 Aligned_cols=66 Identities=18% Similarity=0.229 Sum_probs=49.9
Q ss_pred CCceEEcccCCCccccCCCC---------------CccCCCCceeeeeeceeecC-CCc-ccccCccccCCcccccccCc
Q 017387 126 SNKWVAFDDKCPHRLAPLSE---------------GRIDENGHLQCSYHGWSFDG-CGS-CTRIPQAASEGPEARAIQSP 188 (372)
Q Consensus 126 ~G~v~A~~n~CpHRga~Ls~---------------G~v~~~~~i~CPyHGw~Fd~-dG~-c~~iP~~~~~~~~~~~~~~~ 188 (372)
+|+++|++++|+|+|++|.. |... ++.|.||+|||+||+ +|. .+..| +
T Consensus 74 ~g~IvA~S~iCpHlGc~l~~~~~y~~~~~~~~~~~g~~~-~~~i~CPcHgS~FD~~tGg~v~~GP--------------A 138 (171)
T cd03475 74 NKSIVAFSAICQHLGCQPPPIVSYPSYYPPDKAPGLASK-GAVIHCCCHGSTYDPYKGGVVLTGP--------------A 138 (171)
T ss_pred CCEEEEEeCcCCCCCCccccccccccccccccccccccc-CCEEEcCCCCCEEeCCCCCeEcCCC--------------C
Confidence 68999999999999998763 4343 578999999999999 454 43323 2
Q ss_pred ccccccCCceeec--ceEEE
Q 017387 189 RACATRFPTMVSQ--GLLFV 206 (372)
Q Consensus 189 ~~~l~~~pv~e~~--G~I~V 206 (372)
...|..|.+++++ |.||+
T Consensus 139 ~~pLp~~~L~~d~~~d~iyA 158 (171)
T cd03475 139 PRPLPAVILEYDSSTDDLYA 158 (171)
T ss_pred CCCcCEeEEEEeCCCCcEEE
Confidence 3458899888884 77775
No 47
>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=98.88 E-value=4.4e-09 Score=93.27 Aligned_cols=103 Identities=14% Similarity=0.075 Sum_probs=61.8
Q ss_pred eeeccchhhhhhccCCCCCcccccccccccCcc---CCCCCCeeeccc---Ccccc----ccCC--------CCCCeeEE
Q 017387 239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRD---RAKPLPFKLESS---GHWGF----AGAN--------DGNPRISA 300 (372)
Q Consensus 239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~---~~~~~~~~v~~~---~~~gf----~~~~--------~~~~~~~~ 300 (372)
..+++||||+++||++|+||++++|+++++... ......+.+... ...++ .... ........
T Consensus 4 ~~~~~~NWK~~~En~~E~YH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (188)
T cd00680 4 EYEVDCNWKLAVENFLECYHVPTVHPDTLATGLPLPLLFGDHYRVDDTGEGPGEGLSRHWGDGKGPQSALPGLKPGGYLY 83 (188)
T ss_pred EEEeccCceEehhhccccccccccChhhhccccccCcccCCceEEEeccCCCCChhhcccchhhhcccccccccccCeEE
Confidence 467899999999999999999999999987531 001111222110 00011 0000 01112346
Q ss_pred eeeccceeeeeeeecccCcccccceEEEEEEeeeccCCCCCceeEEeeccceee
Q 017387 301 KFVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQ 354 (372)
Q Consensus 301 ~f~~P~~~~~~~~~~~~~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~ 354 (372)
.++.|++++... . . .+++..++|+++++|++++.++++...
T Consensus 84 ~~~fPn~~~~~~---------~-~---~~~~~~~~P~~~~~t~~~~~~~~~~~~ 124 (188)
T cd00680 84 LYLFPNLMIGLY---------P-D---SLQVQQFVPIGPNKTRLEVRLYRPKDE 124 (188)
T ss_pred EEECCcEeeeec---------C-C---EEEEEEEEecCCCcEEEEEEEEEeccc
Confidence 778898875421 1 1 233445689999999999987766543
No 48
>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=98.59 E-value=1.1e-07 Score=85.88 Aligned_cols=32 Identities=16% Similarity=0.048 Sum_probs=28.9
Q ss_pred eeeccchhhhhhccCCCCCcccccccccccCc
Q 017387 239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRR 270 (372)
Q Consensus 239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~ 270 (372)
.++++||||+++||++|+||++.+|+++++..
T Consensus 5 ~~~~~~NWK~~~en~~E~YH~~~~H~~t~~~~ 36 (190)
T cd08885 5 EEVWDTNWKVLAENFMEGYHLPGLHPGTLHPF 36 (190)
T ss_pred eeeccCCchhhHhhcCccccccccccchhhcc
Confidence 46789999999999999999999999988643
No 49
>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=98.58 E-value=2.6e-08 Score=80.56 Aligned_cols=65 Identities=23% Similarity=0.388 Sum_probs=47.4
Q ss_pred eeccceeeeeeeecccCcccccceEEEEEEeeeccCCCCCceeEEeeccceeeeec-CCCcee-eeeeccc
Q 017387 302 FVAPCYYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSARNFFQFTM-PGPAWW-QVRTSQL 370 (372)
Q Consensus 302 f~~P~~~~~~~~~~~~~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~rnf~~~~~-~~p~w~-~~~~~~~ 370 (372)
|.+||++.++.... ...+.+..++.+++++|++||+||+++.+++||..+.. ..|+|| |+.+|++
T Consensus 1 F~pPc~v~~~~~~~----~~~~~~~~~~~~~~~vP~~pG~~Rli~r~~~~f~~~~~k~~P~wl~H~~~n~V 67 (92)
T PF08417_consen 1 FIPPCLVRSTEEGP----KKKSCGKRLHQVFYCVPTGPGRCRLIWRFPRNFPAWIFKLIPRWLSHLTSNKV 67 (92)
T ss_pred CCCCEEEEEecccc----ccCCCCCEEEEEEEEEECCCCeEEEEEEehhhhhhHHhhcCCHHHHHHhhCcc
Confidence 78999988651111 11223345666778899999999999999999955544 699999 7766765
No 50
>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=98.54 E-value=1.8e-07 Score=84.58 Aligned_cols=98 Identities=14% Similarity=0.160 Sum_probs=56.5
Q ss_pred EeeeccchhhhhhccCCCCCcccccccccccCccCCCCCCeeecccCcc-------ccccCC--C-C-CCeeEEeeeccc
Q 017387 238 IQRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHW-------GFAGAN--D-G-NPRISAKFVAPC 306 (372)
Q Consensus 238 ~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~~~~~~~~~v~~~~~~-------gf~~~~--~-~-~~~~~~~f~~P~ 306 (372)
..++++||||+++||++|+||++++|+++++..... .+.++..+.+ ++.... . . ......-++.|+
T Consensus 4 ~~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lFPN 80 (182)
T cd08886 4 LTSEIKANWKNVVDNYLECYHCHTAHPDFVDSLDMD---TYKHTTHGNYSSQMANYGSAENSEYSVKPDADFAFYWLWPN 80 (182)
T ss_pred EEEEeecccEEEEecCCccccCcccChhHHhccccc---ccEEEecCcEEEEEeccccccccccccccCcceeEEEEeCC
Confidence 356789999999999999999999999998653221 1212111111 111000 0 0 111234567798
Q ss_pred eeeeeeeecccCcccccceEEEEEEeeeccCCCCCceeEEeec
Q 017387 307 YYMNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSA 349 (372)
Q Consensus 307 ~~~~~~~~~~~~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~ 349 (372)
++++. .. +.. .+.+..+.|+++++|++.+.++
T Consensus 81 ~~i~~---~~-----~~~---~~~~~~~~P~~p~~t~~~~~~~ 112 (182)
T cd08886 81 TMLNV---YP-----GAG---NMGVINIIPVDAETTLQHYDFY 112 (182)
T ss_pred EEEEe---eC-----CCC---eEEEEEEEeCCCCeEEEEEEEE
Confidence 87642 10 111 1223345899999999876543
No 51
>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=98.46 E-value=3.6e-07 Score=81.96 Aligned_cols=96 Identities=13% Similarity=0.160 Sum_probs=56.0
Q ss_pred eeeccchhhhhhccCCCCCcccccccccccCccCCCCCCeeecccCcc---cc--ccC-C----CCCCeeEEeeecccee
Q 017387 239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRRDRAKPLPFKLESSGHW---GF--AGA-N----DGNPRISAKFVAPCYY 308 (372)
Q Consensus 239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~~~~~~~~~~v~~~~~~---gf--~~~-~----~~~~~~~~~f~~P~~~ 308 (372)
..++++|||+++||++|+||++++|+++++..... .+.++..+.. +. ... . ........-++.|+++
T Consensus 5 ~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lFPN~~ 81 (175)
T cd08883 5 EYVIECNWKVYVDNYLEGYHVPFAHPGLAAVLDYA---TYRTELFEYVSLQSAPARAEEGSFFYRLGNAALYAWIYPNLM 81 (175)
T ss_pred EeeeecCceEEehhcCCcccCcccchhHHhhcccC---ceEEEEcCcEEEEEecccCCCCccccccCcCeEEEEECCCEe
Confidence 45789999999999999999999999998542221 2222211110 00 000 0 0011122456789987
Q ss_pred eeeeeecccCcccccceEEEEEEeeeccCCCCCceeEEeecc
Q 017387 309 MNKIEIDTKLPVVGDQKWIIWICSFNVPMAPGKTRSIVCSAR 350 (372)
Q Consensus 309 ~~~~~~~~~~p~~g~~~~~~~~~~~~tP~~~~~tr~~~~~~r 350 (372)
++.. ++ . +. +..+.|+++++|++.+.++.
T Consensus 82 i~~~---------~~-~--~~-~~~~~P~~p~~t~~~~~~~~ 110 (175)
T cd08883 82 LNRY---------PP-G--MD-VNVVLPLGPERCKVVFDYFV 110 (175)
T ss_pred eeec---------CC-e--EE-EEEEEeCCCCcEEEEEEEEE
Confidence 6421 11 1 22 22347999999999776543
No 52
>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=98.40 E-value=6e-07 Score=80.42 Aligned_cols=32 Identities=9% Similarity=0.178 Sum_probs=28.9
Q ss_pred eeeccchhhhhhccCCCCCcccccccccccCc
Q 017387 239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGRR 270 (372)
Q Consensus 239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~~ 270 (372)
..+++||||+++||++|+||++++|+++++..
T Consensus 5 ~~~~~~NWK~~~en~~E~YH~~~~H~~t~~~~ 36 (185)
T cd08887 5 RFDVAANWKLALDGFLEGYHFKVLHKNTIAPY 36 (185)
T ss_pred eeecCCCceEehhhcccccccchhchhhhccc
Confidence 45789999999999999999999999998753
No 53
>COG0723 QcrA Rieske Fe-S protein [Energy production and conversion]
Probab=98.28 E-value=8.6e-07 Score=80.02 Aligned_cols=67 Identities=19% Similarity=0.265 Sum_probs=50.9
Q ss_pred ceEEcccCCCccccCCCC-CccCCCCceeeeeeceeecCCCcccccCccccCCcccccccCcccccccCCceeecc-eEE
Q 017387 128 KWVAFDDKCPHRLAPLSE-GRIDENGHLQCSYHGWSFDGCGSCTRIPQAASEGPEARAIQSPRACATRFPTMVSQG-LLF 205 (372)
Q Consensus 128 ~v~A~~n~CpHRga~Ls~-G~v~~~~~i~CPyHGw~Fd~dG~c~~iP~~~~~~~~~~~~~~~~~~l~~~pv~e~~G-~I~ 205 (372)
+|.|+...|.|.|+.... +.. ..+.+.||+||.+||.+|+.+..|.. ..|..++++...+ .+.
T Consensus 100 ~~~a~~~iCtHlGC~~~~~~~~-~~~~~~CPCHGS~yd~~g~vv~GPA~--------------~~L~~~~~~~~~d~~~~ 164 (177)
T COG0723 100 EIVAYSAICTHLGCTVPWNNAG-AEGGFFCPCHGSRYDPDGGVVKGPAP--------------RPLPIPPLEYDSDKLYL 164 (177)
T ss_pred cEEEEeeeccCCCCccCcccCC-CCCeEEccCCCCeEcCCCCeeCCCCC--------------CCcCCceEEEeCCceEE
Confidence 466999999999999998 333 35799999999999999997776543 3477778777766 343
Q ss_pred EecC
Q 017387 206 VWPD 209 (372)
Q Consensus 206 V~~~ 209 (372)
+-.+
T Consensus 165 ~~~~ 168 (177)
T COG0723 165 IGLG 168 (177)
T ss_pred EEec
Confidence 4333
No 54
>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=98.10 E-value=6.6e-06 Score=75.73 Aligned_cols=30 Identities=13% Similarity=0.183 Sum_probs=27.5
Q ss_pred eeeccchhhhhhccCCCCCccccccccccc
Q 017387 239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTG 268 (372)
Q Consensus 239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g 268 (372)
.+.++||||+++||++|+||++++|+++..
T Consensus 15 ~~~~~~NWK~~~en~~e~yH~~~~H~~~~~ 44 (205)
T cd08884 15 SYEVAANWKLVVENYRECYHCAGVHPELAR 44 (205)
T ss_pred EEEEccCceehhHhCcccccCccccHHHHh
Confidence 567899999999999999999999999774
No 55
>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=98.04 E-value=4.6e-07 Score=81.19 Aligned_cols=31 Identities=19% Similarity=0.315 Sum_probs=26.8
Q ss_pred eeeccchhhhhhccCCCCCcccccccccccC
Q 017387 239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTGR 269 (372)
Q Consensus 239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g~ 269 (372)
.++++||||+++||++|+||++++|+++++.
T Consensus 11 ~~~~~~NWK~~~EN~~e~YH~~~~H~~~~~~ 41 (209)
T PF00848_consen 11 RYEVDCNWKLAVENFLEGYHVPFLHPSTLGF 41 (209)
T ss_dssp HHHESS-HHHHHHHHHHCTTHHHHTHHHHHH
T ss_pred EEEecccceEHHHhCcccccccccccchhhh
Confidence 3578999999999999999999999998653
No 56
>KOG1671 consensus Ubiquinol cytochrome c reductase, subunit RIP1 [Energy production and conversion]
Probab=97.94 E-value=1.1e-05 Score=73.04 Aligned_cols=75 Identities=20% Similarity=0.356 Sum_probs=59.8
Q ss_pred eeccCCCCCCcchhhcccceEEE--------------------------EeCCCCceEEcccCCCccccCCCCCccCCCC
Q 017387 99 LVEDLDPNLPTAFQLLGRDLVLW--------------------------FDNNSNKWVAFDDKCPHRLAPLSEGRIDENG 152 (372)
Q Consensus 99 ~~~eL~~g~~~~~~~~g~~lvl~--------------------------R~~~~G~v~A~~n~CpHRga~Ls~G~v~~~~ 152 (372)
..++||+|+-++++..|+++++- |. ++-++.++..+|.|-|+-......+ .|
T Consensus 91 ~l~~IPeGk~~~~kwrGkpvfirhrt~~ei~~~r~V~~s~lrDPq~d~~rv-k~~ewl~~igVCThLGCVp~~~AGd-~g 168 (210)
T KOG1671|consen 91 KLSDIPEGKTVAFKWRGKPVFIRHRTKAEIEGERNVPQSTLRDPQDDVDRV-KKPEWLVVIGVCTHLGCVPIANAGD-YG 168 (210)
T ss_pred eeecCCCCCCcceeccCCceEEeeccccccccccccchhhccCchhhhhhc-cCcceEEEEeeeccccccccccccc-cC
Confidence 35677778888888888888873 44 4556899999999999977654443 56
Q ss_pred ceeeeeeceeecCCCcccccCcc
Q 017387 153 HLQCSYHGWSFDGCGSCTRIPQA 175 (372)
Q Consensus 153 ~i~CPyHGw~Fd~dG~c~~iP~~ 175 (372)
..-||+||..||..|+..+.|+.
T Consensus 169 g~~CPCHGSHYdasGRIrkGPAP 191 (210)
T KOG1671|consen 169 GYYCPCHGSHYDASGRIRKGPAP 191 (210)
T ss_pred ceecccccccccccCceecCCCC
Confidence 89999999999999999998853
No 57
>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=97.82 E-value=2.3e-05 Score=76.16 Aligned_cols=69 Identities=14% Similarity=0.187 Sum_probs=48.2
Q ss_pred CCceEEcccCCCccccCCCCC------c---------------------cCC---CCceeeeeeceeecCC--CcccccC
Q 017387 126 SNKWVAFDDKCPHRLAPLSEG------R---------------------IDE---NGHLQCSYHGWSFDGC--GSCTRIP 173 (372)
Q Consensus 126 ~G~v~A~~n~CpHRga~Ls~G------~---------------------v~~---~~~i~CPyHGw~Fd~d--G~c~~iP 173 (372)
++.|.|++.+|+|.|+++..- . -.+ .+.|.||+||.+||.+ |+.+..|
T Consensus 175 ~~~IVAyS~IC~H~GC~~~~~~~Ypp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CPCHgS~FD~~~gg~Vv~GP 254 (321)
T TIGR03171 175 NKSIVAYSAICQHLGCTPPYIHFYPPNYVNPSQLTAPEPDQLTAQALLAAKQANVPALIHCDCHGSTYDPYHGAAVLTGP 254 (321)
T ss_pred CCCEEEEecccCcCCCCcchhhccCcccccccccccccccccchhhhhhhhccCCCCeEECCCCCCEECCCCCCceeCCC
Confidence 578999999999999988321 0 000 1389999999999994 4677665
Q ss_pred ccccCCcccccccCcccccccCCceee--cceEEEec
Q 017387 174 QAASEGPEARAIQSPRACATRFPTMVS--QGLLFVWP 208 (372)
Q Consensus 174 ~~~~~~~~~~~~~~~~~~l~~~pv~e~--~G~I~V~~ 208 (372)
.. ..|..++++.. .|.|++-=
T Consensus 255 A~--------------rpLp~i~l~~d~~~~~l~AvG 277 (321)
T TIGR03171 255 TV--------------RPLPAVILEWDSSTDYLYAIG 277 (321)
T ss_pred CC--------------CCCCcceEEEeCCCCeEEEEe
Confidence 43 23667777665 46676633
No 58
>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=97.65 E-value=9.3e-05 Score=69.19 Aligned_cols=30 Identities=27% Similarity=0.352 Sum_probs=27.2
Q ss_pred eeccchhhhhhccCCCCCccccccc--ccccC
Q 017387 240 RDLFYGYDTLMENVSDPSHIDFAHH--KVTGR 269 (372)
Q Consensus 240 ~~~~~nwk~~~EN~lD~~H~~~vH~--~~~g~ 269 (372)
..+++|||+.+||++|.||++.+|. .++|.
T Consensus 6 ~~~~~nwk~~~~~~~~~yh~~~~h~~~~t~g~ 37 (222)
T cd08880 6 QRIPGNWKLYAENVKDPYHASLLHLFFVTFGL 37 (222)
T ss_pred eecCCCcHHHHHhccCcchHHHHhhhheeeec
Confidence 4678999999999999999999999 77765
No 59
>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=97.04 E-value=0.00015 Score=68.41 Aligned_cols=30 Identities=20% Similarity=0.206 Sum_probs=27.2
Q ss_pred eeeccchhhhhhccCCCCCccccccccccc
Q 017387 239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTG 268 (372)
Q Consensus 239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g 268 (372)
.+.++||||+++||+.|.||++++|.+++.
T Consensus 5 ~~~~~~nWK~~~en~~d~yH~~~~H~~~~~ 34 (237)
T cd08879 5 RYRYRGNWKLQLENGTDGYHPPFVHASYVA 34 (237)
T ss_pred EEEeeceEEEEeeecCccccCccccHHHHH
Confidence 356899999999999999999999999874
No 60
>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=96.98 E-value=0.00027 Score=67.06 Aligned_cols=30 Identities=13% Similarity=0.223 Sum_probs=27.1
Q ss_pred eeeccchhhhhhccCCCCCccccccccccc
Q 017387 239 QRDLFYGYDTLMENVSDPSHIDFAHHKVTG 268 (372)
Q Consensus 239 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~g 268 (372)
...++||||+++|||+|.||+.++|+++..
T Consensus 5 ~~~~~~NWK~~~en~~e~yH~~~~H~~~~~ 34 (243)
T cd08882 5 TKVLPCNWKVAQEAFNESYHVPTTHPQLLP 34 (243)
T ss_pred EEEecCCCeeeHHhcCCcccCcccchhHHH
Confidence 457899999999999999999999999753
No 61
>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=96.94 E-value=0.00021 Score=66.13 Aligned_cols=30 Identities=17% Similarity=0.148 Sum_probs=27.2
Q ss_pred eeeccchhhhhhccCC-CCCccccccccccc
Q 017387 239 QRDLFYGYDTLMENVS-DPSHIDFAHHKVTG 268 (372)
Q Consensus 239 ~~~~~~nwk~~~EN~l-D~~H~~~vH~~~~g 268 (372)
.+.++||||+++|||+ |.||++++|.+++.
T Consensus 10 ~~~~~~NWK~~~en~~~d~yH~~~~H~~~~~ 40 (206)
T cd08881 10 KWVIKANWKLAAENFAGDGYHTGTTHASALE 40 (206)
T ss_pred EEEecCcceehhhccccccccchhhhHHHHH
Confidence 4578999999999999 99999999999874
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=96.78 E-value=0.00093 Score=62.44 Aligned_cols=43 Identities=28% Similarity=0.461 Sum_probs=31.1
Q ss_pred CCCCCCCCCcceEEEeeeccchhhhhhccCCCCCcccccccccc
Q 017387 224 LPDAFDKPEFSSVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVT 267 (372)
Q Consensus 224 ~p~~~~~~~~~~~~~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~ 267 (372)
+|+.|.+.+.........+.+||...+||.+|+.|+ |+|..+.
T Consensus 14 lP~~fld~~~~~~g~~~~~~~NWR~a~ENGfD~~H~-fiHk~s~ 56 (240)
T PF11723_consen 14 LPPGFLDDDIVIFGMHREINANWRLAAENGFDPGHI-FIHKDSI 56 (240)
T ss_dssp S-TTTTSTTEEEEEEEEEESS-HHHHHHHHT-TTGG-GGGTT-H
T ss_pred CCccccCCcceEEeeeeeccccchhhhhhCcCcceE-EEecCcc
Confidence 444555666665566678999999999999999998 9999753
No 63
>KOG1336 consensus Monodehydroascorbate/ferredoxin reductase [General function prediction only]
Probab=95.71 E-value=0.0049 Score=63.12 Aligned_cols=39 Identities=33% Similarity=0.665 Sum_probs=33.8
Q ss_pred ccccCCCCCccCCCCceeeeeeceeecC-CCcccccCcccc
Q 017387 138 HRLAPLSEGRIDENGHLQCSYHGWSFDG-CGSCTRIPQAAS 177 (372)
Q Consensus 138 HRga~Ls~G~v~~~~~i~CPyHGw~Fd~-dG~c~~iP~~~~ 177 (372)
|+|+||..|-. ..++++||+||.+|+. +|..-+-|....
T Consensus 1 hygapl~~g~~-s~g~v~cpwhgacfn~~~gdiedfP~~~s 40 (478)
T KOG1336|consen 1 HYGAPLAKGVL-SRGRVRCPWHGACFNLSTGDIEDFPGLDS 40 (478)
T ss_pred CCCcchhhccc-cCCcccccccceeecCCcCchhhCcCccc
Confidence 99999999965 5899999999999999 798888776543
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=69.00 E-value=2.5 Score=35.32 Aligned_cols=67 Identities=21% Similarity=0.429 Sum_probs=38.7
Q ss_pred cccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCCCCccCC-CCceeeeeeceeecCC
Q 017387 91 RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLSEGRIDE-NGHLQCSYHGWSFDGC 166 (372)
Q Consensus 91 ~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls~G~v~~-~~~i~CPyHGw~Fd~d 166 (372)
.+.|-++-..+++.. ..+.-+-..-.++. .|+.--..-.|. |||-.|.+.. .+.+.||+||=--+-|
T Consensus 33 hrFW~~~d~d~~v~~---~~~~~~~~~r~i~f---~g~~e~v~~~Cr---APL~~G~LC~RrD~~kCPfHG~IIpRD 100 (110)
T PF09740_consen 33 HRFWGPSDVDEEVPS---ADIAELLRSRTITF---EGEFEPVPHACR---APLPNGGLCPRRDRKKCPFHGKIIPRD 100 (110)
T ss_pred ccccCCCCccccccH---HHHHHHhheeeEee---cCccCcCchhhc---CCCCCCCcCCccCcccCCCCCcccCCC
Confidence 445766655454431 12222233334444 355555555675 7888888752 3578999999776653
No 65
>PF14920 MTBP_C: MDM2-binding
Probab=24.40 E-value=26 Score=33.10 Aligned_cols=16 Identities=25% Similarity=0.397 Sum_probs=14.5
Q ss_pred CceeeeeeceeecCCC
Q 017387 152 GHLQCSYHGWSFDGCG 167 (372)
Q Consensus 152 ~~i~CPyHGw~Fd~dG 167 (372)
...+|-|||-.|.+|.
T Consensus 15 ka~~chYHgieycLD~ 30 (251)
T PF14920_consen 15 KASVCHYHGIEYCLDD 30 (251)
T ss_pred hhhccccCCceeeccc
Confidence 5789999999999976
No 66
>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=21.28 E-value=12 Score=30.19 Aligned_cols=49 Identities=20% Similarity=0.293 Sum_probs=38.6
Q ss_pred cccceeeeeeccCCCCCCcchhhcccceEEEEeCCCCceEEcccCCCccccCCC
Q 017387 91 RDHWYPVSLVEDLDPNLPTAFQLLGRDLVLWFDNNSNKWVAFDDKCPHRLAPLS 144 (372)
Q Consensus 91 ~~~W~~V~~~~eL~~g~~~~~~~~g~~lvl~R~~~~G~v~A~~n~CpHRga~Ls 144 (372)
...||.+-. ++|+-..++.+|+.+...+. ....-.+|..+-|++|..++
T Consensus 6 ~g~WYVLe~----~pGEHLvlealgqrls~iWt-S~~~A~~F~~~~p~~GM~V~ 54 (103)
T PF11572_consen 6 SGTWYVLED----EPGEHLVLEALGQRLSGIWT-SRELAQAFLARHPELGMRVS 54 (103)
T ss_dssp SSSEEEEES----STT-BEEEEETTEEEEEEBS-SHHHHHHHHHTSTSS--EEE
T ss_pred ccceEEecC----CCCceeeHHHHhhhHHhhee-cHHHHHHHHHhCcccCcEee
Confidence 678998765 47999999999999999998 56678889999999887554
No 67
>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=20.02 E-value=38 Score=25.21 Aligned_cols=15 Identities=20% Similarity=0.251 Sum_probs=12.4
Q ss_pred CceeeeeeceeecCC
Q 017387 152 GHLQCSYHGWSFDGC 166 (372)
Q Consensus 152 ~~i~CPyHGw~Fd~d 166 (372)
-.|+||-||-.....
T Consensus 31 vtI~CP~HG~~~~s~ 45 (60)
T PF05265_consen 31 VTIRCPKHGNFTCST 45 (60)
T ss_pred eEEECCCCCcEEecc
Confidence 479999999887764
Done!