Query 015937
Match_columns 398
No_of_seqs 267 out of 2104
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 02:18:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015937.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015937hhsearch_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 3.6E-58 7.9E-63 477.1 31.2 302 73-395 75-390 (539)
2 PLN02281 chlorophyllide a oxyg 100.0 2.1E-49 4.5E-54 405.5 30.6 280 82-396 214-499 (536)
3 PLN00095 chlorophyllide a oxyg 100.0 1.1E-46 2.4E-51 370.9 26.1 286 81-390 65-371 (394)
4 COG4638 HcaE Phenylpropionate 100.0 9.4E-43 2E-47 350.2 21.6 298 71-396 10-328 (367)
5 TIGR03229 benzo_1_2_benA benzo 100.0 4E-39 8.7E-44 328.3 17.8 187 72-262 22-220 (433)
6 TIGR03228 anthran_1_2_A anthra 100.0 1.1E-38 2.5E-43 324.8 18.4 188 72-262 22-218 (438)
7 cd04338 Rieske_RO_Alpha_Tic55 100.0 2.7E-31 5.8E-36 231.1 13.2 122 80-206 9-130 (134)
8 cd03480 Rieske_RO_Alpha_PaO Ri 100.0 5E-31 1.1E-35 230.5 13.1 130 75-206 4-134 (138)
9 cd03545 Rieske_RO_Alpha_OHBDO_ 100.0 6.7E-31 1.5E-35 232.7 10.9 134 72-206 8-148 (150)
10 cd03537 Rieske_RO_Alpha_PrnD T 100.0 1.8E-30 3.9E-35 222.3 12.6 115 87-204 2-117 (123)
11 cd04337 Rieske_RO_Alpha_Cao Ca 100.0 7.9E-30 1.7E-34 220.4 12.0 117 79-205 8-124 (129)
12 cd03472 Rieske_RO_Alpha_BPDO_l 100.0 1.6E-29 3.6E-34 218.1 11.4 124 82-206 2-126 (128)
13 cd03479 Rieske_RO_Alpha_PhDO_l 100.0 3.2E-29 7E-34 220.6 13.0 120 80-204 13-133 (144)
14 cd03531 Rieske_RO_Alpha_KSH Th 100.0 5E-29 1.1E-33 211.3 12.3 111 88-206 1-111 (115)
15 cd03538 Rieske_RO_Alpha_AntDO 100.0 3.1E-29 6.7E-34 221.1 11.0 132 73-205 7-143 (146)
16 cd03539 Rieske_RO_Alpha_S5H Th 100.0 6.1E-29 1.3E-33 214.9 11.2 117 89-206 1-127 (129)
17 cd03548 Rieske_RO_Alpha_OMO_CA 100.0 2.3E-28 5.1E-33 213.1 13.3 118 81-204 7-126 (136)
18 cd03532 Rieske_RO_Alpha_VanA_D 100.0 1.7E-28 3.7E-33 208.2 11.6 112 85-205 2-113 (116)
19 cd03541 Rieske_RO_Alpha_CMO Ri 100.0 6.5E-28 1.4E-32 205.2 11.8 114 88-205 1-115 (118)
20 cd03535 Rieske_RO_Alpha_NDO Ri 99.9 9.4E-28 2E-32 205.8 11.6 118 87-205 1-120 (123)
21 cd03536 Rieske_RO_Alpha_DTDO T 99.9 3.9E-27 8.4E-32 202.0 11.4 118 89-207 1-120 (123)
22 cd03469 Rieske_RO_Alpha_N Ries 99.9 4.3E-27 9.2E-32 199.5 11.1 114 89-205 1-115 (118)
23 cd03542 Rieske_RO_Alpha_HBDO R 99.9 1.5E-25 3.2E-30 192.2 11.7 117 89-206 1-121 (123)
24 cd03528 Rieske_RO_ferredoxin R 99.9 1.8E-24 3.8E-29 177.6 11.5 96 89-199 1-97 (98)
25 cd03530 Rieske_NirD_small_Baci 99.9 1.8E-24 3.9E-29 177.8 11.3 97 89-200 1-98 (98)
26 cd03529 Rieske_NirD Assimilato 99.9 4.3E-24 9.3E-29 177.4 11.5 98 89-200 1-103 (103)
27 cd03474 Rieske_T4moC Toluene-4 99.9 5.8E-24 1.3E-28 177.9 12.2 102 89-205 1-103 (108)
28 TIGR02377 MocE_fam_FeS Rieske 99.9 1.6E-23 3.6E-28 173.5 11.5 99 88-200 1-100 (101)
29 TIGR02378 nirD_assim_sml nitri 99.9 1.6E-23 3.4E-28 174.5 11.2 100 88-201 1-105 (105)
30 PRK09965 3-phenylpropionate di 99.9 4.6E-23 1E-27 172.2 10.9 101 88-203 2-103 (106)
31 cd03478 Rieske_AIFL_N AIFL (ap 99.9 1E-22 2.2E-27 166.6 10.1 93 91-198 2-95 (95)
32 PF13806 Rieske_2: Rieske-like 99.9 1.5E-21 3.3E-26 162.5 10.9 99 88-200 1-104 (104)
33 PRK09511 nirD nitrite reductas 99.9 2.2E-21 4.7E-26 162.7 11.5 99 88-200 3-107 (108)
34 PF00355 Rieske: Rieske [2Fe-2 99.8 4.5E-21 9.8E-26 156.9 9.2 94 88-195 1-97 (97)
35 COG2146 {NirD} Ferredoxin subu 99.8 1.5E-20 3.2E-25 157.0 11.6 102 87-201 3-105 (106)
36 cd03467 Rieske Rieske domain; 99.8 4.4E-20 9.5E-25 151.6 11.0 95 89-197 1-97 (98)
37 cd03477 Rieske_YhfW_C YhfW fam 99.8 7.4E-20 1.6E-24 148.8 9.5 88 92-194 2-89 (91)
38 cd03476 Rieske_ArOX_small Smal 99.8 4.4E-18 9.5E-23 146.4 10.2 96 90-200 4-114 (126)
39 cd03471 Rieske_cytochrome_b6f 99.7 4.9E-17 1.1E-21 139.2 11.3 90 99-203 21-113 (126)
40 cd00680 RHO_alpha_C C-terminal 99.7 1.4E-16 3.1E-21 143.2 12.4 141 232-397 3-161 (188)
41 cd08878 RHO_alpha_C_DMO-like C 99.7 3.1E-16 6.8E-21 141.9 10.0 152 233-397 5-171 (196)
42 TIGR02694 arsenite_ox_S arseni 99.7 5E-16 1.1E-20 134.0 10.2 95 90-199 7-115 (129)
43 cd08885 RHO_alpha_C_1 C-termin 99.7 1.5E-15 3.3E-20 138.8 13.8 144 232-397 4-163 (190)
44 cd03473 Rieske_CMP_Neu5Ac_hydr 99.6 4.1E-16 8.9E-21 129.0 8.3 72 95-169 14-89 (107)
45 cd08883 RHO_alpha_C_CMO-like C 99.6 3.8E-15 8.1E-20 135.0 12.4 140 232-397 4-147 (175)
46 cd08887 RHO_alpha_C_3 C-termin 99.6 9.2E-15 2E-19 132.6 12.3 144 232-397 4-158 (185)
47 cd08886 RHO_alpha_C_2 C-termin 99.6 1.4E-14 3E-19 132.3 12.8 140 232-397 4-150 (182)
48 cd03470 Rieske_cytochrome_bc1 99.6 1.1E-14 2.4E-19 125.3 10.2 92 94-199 5-125 (126)
49 PF08417 PaO: Pheophorbide a o 99.5 1.1E-14 2.3E-19 118.7 7.3 84 301-397 1-84 (92)
50 cd08884 RHO_alpha_C_GbcA-like 99.5 7.2E-14 1.6E-18 129.8 13.4 143 232-397 14-178 (205)
51 PRK13474 cytochrome b6-f compl 99.5 1.4E-13 3E-18 125.3 10.9 88 99-202 73-164 (178)
52 PF00848 Ring_hydroxyl_A: Ring 99.4 4.6E-13 1E-17 121.8 6.0 142 233-397 11-180 (209)
53 TIGR01416 Rieske_proteo ubiqui 99.3 6.6E-12 1.4E-16 113.9 9.7 95 88-196 40-169 (174)
54 cd08880 RHO_alpha_C_ahdA1c-lik 99.2 1.2E-10 2.5E-15 109.8 10.3 141 233-397 5-183 (222)
55 cd08882 RHO_alpha_C_MupW-like 99.0 5.2E-10 1.1E-14 106.8 8.7 32 231-262 3-34 (243)
56 cd08879 RHO_alpha_C_AntDO-like 98.9 5.2E-09 1.1E-13 99.5 8.3 140 233-397 5-192 (237)
57 cd08881 RHO_alpha_C_NDO-like C 98.9 7.6E-09 1.7E-13 96.5 9.1 137 232-397 9-156 (206)
58 cd03475 Rieske_SoxF_SoxL SoxF 98.9 1.3E-08 2.9E-13 91.3 9.6 66 120-199 74-158 (171)
59 COG0723 QcrA Rieske Fe-S prote 98.3 1.8E-06 3.8E-11 78.6 7.4 64 123-199 100-164 (177)
60 KOG1671 Ubiquinol cytochrome c 98.0 1.2E-05 2.5E-10 73.2 5.4 72 96-169 93-190 (210)
61 TIGR03171 soxL2 Rieske iron-su 97.8 5.5E-05 1.2E-09 73.9 6.9 66 123-200 177-276 (321)
62 PF11723 Aromatic_hydrox: Homo 97.5 0.00096 2.1E-08 62.7 10.5 40 221-261 17-56 (240)
63 KOG1336 Monodehydroascorbate/f 96.1 0.003 6.5E-08 65.1 2.4 39 133-172 1-40 (478)
64 PF09740 DUF2043: Uncharacteri 58.3 6.1 0.00013 33.2 1.6 35 123-160 64-99 (110)
65 PF11572 DUF3234: Protein of u 30.8 12 0.00026 30.4 -0.8 52 83-139 3-54 (103)
66 PF05265 DUF723: Protein of un 28.9 30 0.00064 25.9 1.1 14 148-161 32-45 (60)
67 PF14446 Prok-RING_1: Prokaryo 26.3 15 0.00033 26.9 -0.9 24 146-169 19-47 (54)
68 PF10080 DUF2318: Predicted me 25.9 3E+02 0.0065 22.8 6.6 60 97-160 1-64 (102)
69 COG1645 Uncharacterized Zn-fin 23.7 46 0.001 28.9 1.5 31 125-159 25-55 (131)
No 1
>PLN02518 pheophorbide a oxygenase
Probab=100.00 E-value=3.6e-58 Score=477.10 Aligned_cols=302 Identities=39% Similarity=0.778 Sum_probs=238.4
Q ss_pred CchhccccccccccCCcEEeeecCCCCCCCcEEEEECCEEEEEEEe-CCCCeEEEEecCCCCCCCCCCCCccCCCceEEc
Q 015937 73 ELETNSQEEKFDWFSQWYPLMPVCDLDKRVPHAKKVLGLDVVVWWD-RNENEWRVFADACPHRLAPLSEGRIDQWGRLQC 151 (398)
Q Consensus 73 ~~~~~~~E~~~~~~~~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~-~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~C 151 (398)
+.+....+.+++|++.||+||.++||++|+++.++++|++|||||+ .+| +++||+|+||||+++|+.|++++++.|+|
T Consensus 75 ~~~~~~~~~~f~~~~~Wy~Va~~~dL~~g~p~~~~llG~~lVl~Rd~~~G-~~~A~~d~CPHRgapLS~G~v~~~g~L~C 153 (539)
T PLN02518 75 ELGQESSDSKFSWRDHWYPVSLVEDLDPSVPTPFQLLGRDLVLWKDPNQG-EWVAFDDKCPHRLAPLSEGRIDENGHLQC 153 (539)
T ss_pred cccccccchhhhhhhhCEEEEEHHHCCCCCeEEEEECCEEEEEEEECCCC-eEEEEcccCcCcCCCcccceecCCCEEEc
Confidence 4444567888999999999999999988999999999999999998 777 99999999999999999999965568999
Q ss_pred cCCCeEEcCCCccccCCCCCCCCCC--CCccccccceeeccEEecCeEEEccCCCCccccccccCCCCCCC-CCCCCCCe
Q 015937 152 VYHGWCFSGSGDCKFIPQAPPDGPP--VHTFEKACAAVYPSTVQHDIVWFWPNIAPRYKDIIKTKKPPHIP-ELDDPSFT 228 (398)
Q Consensus 152 pyHGw~Fd~~G~c~~iP~~~~~~~~--~~~~~~~~l~~y~v~e~~G~V~v~~~~~~~~~~~~~~~~~p~~p-~~~~~~~~ 228 (398)
|||||+||.+|+|+.||+.+..++. ...+.++|+++|||+|++|+||||+++++... +....+|.++ ++++++|.
T Consensus 154 pYHGW~Fd~~G~c~~IP~~~~~~~~~~~~~~~~a~v~sypv~e~~GlIwV~~~~~~~~~--a~~~~~P~~~~~~~~~~~~ 231 (539)
T PLN02518 154 SYHGWSFDGCGSCTRIPQAAPEGPEARAVKSPRACAIKFPTMVSQGLLFVWPDENGWER--AQATKPPMLPDEFDDPEFS 231 (539)
T ss_pred CCCCCEEcCCCCeeecccccccccccccccCcccccceEeEEEECCEEEEEeCCccccc--cccccCCCCcccccCCCce
Confidence 9999999999999999976543221 12345778999999999999999998653211 1234567775 78888887
Q ss_pred eeeeEEEEecChhhhhhhcCCCCccccccccccccCCCceeeccCCCcceEEEeccccCCCccc---ccccceEEEeCee
Q 015937 229 KLFGNRDIPYGYEVLLENLMDPAHVPYAHYGLMRTRKPKVKLDREGGRPVEMSVNKIDINGFIG---KQEWGSSKFLAPC 305 (398)
Q Consensus 229 ~~~~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~g~~~---~~~~~~~~f~~P~ 305 (398)
.....++++++|+.++||++|++|++|+|+++++ +++...+..+++......||.+ ...+....|.+||
T Consensus 232 ~~~~~~~~~~~~~~l~EN~lD~sH~pfvH~~~~G--------~~~~~~~~~~~v~~~~~~Gf~g~~~~~~~~~~~F~~P~ 303 (539)
T PLN02518 232 TVTIQRDLFYGYDTLMENVSDPSHIDFAHHKVTG--------RRDRAKPLPFKVESSGPWGFAGANSDNPRITAKFVAPC 303 (539)
T ss_pred eEEEEEEEecCchhHHHhCCccchhceecccccc--------CccccccccceEEEcCCCcccccccCCCceEEEEECCe
Confidence 7666789999999999999999999999999994 4444555555555444466654 2345567899999
Q ss_pred EEEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCcc-------cchhccchHHHHHHhhh
Q 015937 306 IFFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQ-------TWIDKVVPRWIFHIGQN 378 (398)
Q Consensus 306 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~-------~~~~~~~~~~~~h~~~~ 378 (398)
+++...... .+. + . ........+++++++|+++++||+||.+.|||. .++ +++|+|+.|..++
T Consensus 304 ~~~~~~~~~-~~~--~-----~-~~~~~~~~~~~~~~tP~s~g~tr~f~~~~Rnf~~~~~~~~~~~-k~~PrW~~h~~~n 373 (539)
T PLN02518 304 YYINKIEID-TKL--P-----I-VGDQKWVIWICSFNVPMAPGKTRSIVCSARNFFQFSMPGPAWW-QLVPRWYEHWTSN 373 (539)
T ss_pred EEEEeeeee-ccc--c-----C-CCCcceEEEEEEEEEECCCCeEEEEEEecccchhccccchhhh-hcCchHHHHhhhc
Confidence 877654321 000 0 0 001122345667889999999999999999983 234 7899999999999
Q ss_pred hHHHHHHHHHHHHhhhh
Q 015937 379 LILDSDLYLLHVEVIPV 395 (398)
Q Consensus 379 ~V~~ED~~ile~qqr~l 395 (398)
+|++||+.+||.||+.+
T Consensus 374 ~Vl~~D~~~lh~Qe~~~ 390 (539)
T PLN02518 374 KVYDGDMIVLQGQEKIF 390 (539)
T ss_pred cchHhHHHHHHHHHHHH
Confidence 99999999999999986
No 2
>PLN02281 chlorophyllide a oxygenase
Probab=100.00 E-value=2.1e-49 Score=405.50 Aligned_cols=280 Identities=23% Similarity=0.443 Sum_probs=212.2
Q ss_pred cccccCCcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCC
Q 015937 82 KFDWFSQWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGS 161 (398)
Q Consensus 82 ~~~~~~~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~ 161 (398)
...|++.||+||.++||++|+++.++++|++|||||+.+| +++|+.|+|||||++|+.|++++ +.|+||||||+||.+
T Consensus 214 ~~~lrn~Wy~Va~s~EL~~g~~~~v~llG~~IVL~R~~dG-~v~A~~D~CPHRgaPLs~G~v~g-~~L~CPYHGW~FD~d 291 (536)
T PLN02281 214 SPHLKNFWYPVAFTADLKHDTMVPIECFEQPWVIFRGEDG-KPGCVRNTCAHRACPLDLGTVNE-GRIQCPYHGWEYSTD 291 (536)
T ss_pred chhhhcccEEEEEHHHCCCCCeEEEEECCEEEEEEECCCC-eEEEEeCcCcCCCCccccceeeC-CEEEeCCCCCEECCC
Confidence 3478999999999999988999999999999999999887 99999999999999999999986 589999999999999
Q ss_pred CccccCCCCCCCCCCCCccccccceeeccEEecCeEEEccCCCCccccccccCCCCCCCCCCCC-CCeeee-eEEEEecC
Q 015937 162 GDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAPRYKDIIKTKKPPHIPELDDP-SFTKLF-GNRDIPYG 239 (398)
Q Consensus 162 G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~~~~~~~~~~~~p~~p~~~~~-~~~~~~-~~~~~~~n 239 (398)
|+|+.+|+.+ +.+.++++|||+|++|+||||+++++ .+|.+|+++++ +|.... ...++++|
T Consensus 292 G~cv~iP~~~--------~~~~~l~sYPV~e~~GlVwV~lgd~~---------~aP~~p~ld~p~~~~~~~~~~~~~~~n 354 (536)
T PLN02281 292 GECKKMPSTK--------LLKVKIKSLPCLEQEGMIWIWPGDEP---------PAPILPSLQPPSGFLIHAELVMDLPVE 354 (536)
T ss_pred CCEeeCCCCc--------cccCCcceEeEEEECCEEEEEeCCCC---------CCCCCccccCcccceEEEEEEEEecCC
Confidence 9999999753 24578999999999999999998643 23567777765 554433 37889999
Q ss_pred hhhhhhhcCCCCccccccccccccCCCceeeccCCCcceEEEe--ccccCCCcccccccceEEEeCeeEEEEEeeccccc
Q 015937 240 YEVLLENLMDPAHVPYAHYGLMRTRKPKVKLDREGGRPVEMSV--NKIDINGFIGKQEWGSSKFLAPCIFFAYTDLMKDQ 317 (398)
Q Consensus 240 wk~~~EN~lD~~H~~~vH~~~~~~~~~~~~~~~e~~~~~~~~~--~~~~~~g~~~~~~~~~~~f~~P~~~~~~~~~~~~~ 317 (398)
|++++||++|+||++|+|+++++... . .+...+. ......++.... ...+.|.+||++....+..+.|
T Consensus 355 wkllvENllD~~H~~fvH~~t~g~~~--------~-~p~~v~~~~~~~~~~p~~~~~-pv~~~f~aP~~v~l~i~~~~~G 424 (536)
T PLN02281 355 HGLLLDNLLDLAHAPFTHTSTFAKGW--------S-VPSLVKFLTPTSGLQGYWDPY-PIDMEFKPPCIVLSTIGISKPG 424 (536)
T ss_pred HHHHHHhccccccccccCcccccCcc--------c-CCceeEEecccCCCCcccccC-CceEEEECcEEEEEeeccccCC
Confidence 99999999999999999999996421 1 1111111 111112221111 2257899999998876654332
Q ss_pred ccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCcccc--hhccchHHHHHHhhhhHHHHHHHHHHHHhhhh
Q 015937 318 ENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQTW--IDKVVPRWIFHIGQNLILDSDLYLLHVEVIPV 395 (398)
Q Consensus 318 ~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~~--~~~~~~~~~~h~~~~~V~~ED~~ile~qqr~l 395 (398)
... .+ .....+-..+.++.|+|+++++||+||.+.|||..+ ...+.+.|+ +.+.++||+||+.++|.||+.+
T Consensus 425 ~~~----~~-~~~~~~~~~~~~h~~TPeT~~sTryF~~~~Rnf~~~~~d~~~~~~~l-~~~~~~vF~ED~~iLEaQQ~~i 498 (536)
T PLN02281 425 KLE----GK-STQQCATHLHQLHVCLPSSKNKTRLLYRMSLDFAPILKNLPFMEHLW-RHFAEQVLNEDLRLVLGQQERM 498 (536)
T ss_pred ccc----cc-cccccccceEEEEEEEECCCCeEEEEEEecccCccccccccchHHHH-HHHhhHhhHhHHHHHHHHHHHh
Confidence 100 00 011122345678889999999999999999999776 223334433 3567899999999999999876
Q ss_pred c
Q 015937 396 S 396 (398)
Q Consensus 396 ~ 396 (398)
.
T Consensus 499 ~ 499 (536)
T PLN02281 499 L 499 (536)
T ss_pred h
Confidence 4
No 3
>PLN00095 chlorophyllide a oxygenase; Provisional
Probab=100.00 E-value=1.1e-46 Score=370.87 Aligned_cols=286 Identities=20% Similarity=0.355 Sum_probs=214.1
Q ss_pred ccccccCCcEEeeecCCC-CCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEc
Q 015937 81 EKFDWFSQWYPLMPVCDL-DKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFS 159 (398)
Q Consensus 81 ~~~~~~~~W~~v~~~~dL-~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd 159 (398)
.....++.||+|+.+++| ++|+++.++++|++|||||+.+| +++|++|.||||+++|+.|++++ +.|+||||||+||
T Consensus 65 ~~~~~r~~WypVa~ssdL~~~g~~~~f~L~GepIVL~Rd~dG-qv~Af~N~CPHRGapLSeG~v~~-g~L~CPYHGW~FD 142 (394)
T PLN00095 65 ATADARAHWFPVAFAAGLRDEDALIAFDLFNVPWVLFRDADG-EAGCIKDECAHRACPLSLGKLVD-GKAQCPYHGWEYE 142 (394)
T ss_pred CCCchhcCeEEEEEHHHCCCCCceEEEEECCEEEEEEECCCC-CEEEEeccCCCCCCccccCcccC-CEEEecCCCcEEC
Confidence 345557899999999999 78999999999999999999887 99999999999999999999975 6899999999999
Q ss_pred CCCccccCCCCCCCCCCCCccccccceeeccEEecCeEEEccCCCCcccc--------------ccccCCCCCCCCCCCC
Q 015937 160 GSGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAPRYKD--------------IIKTKKPPHIPELDDP 225 (398)
Q Consensus 160 ~~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~~~~~--------------~~~~~~~p~~p~~~~~ 225 (398)
.+|+|+.+|+.... ..+.++.+|||++++|+||||+++... .+ +++...++.+++.+
T Consensus 143 ~~G~C~~iP~~~~~------~~~~~v~tYPV~e~dGlVwVw~G~~~p-~dflg~~~~~e~~~~~~~~~~~P~~~~~~~-- 213 (394)
T PLN00095 143 TGGECAKMPSCKKF------LKGVFADAAPVIERDGFIFLWAGESDP-ADFVGPEAACESIDDDVLAANEPGMFAPGE-- 213 (394)
T ss_pred CCCCEeeCCCcccc------ccccccceEEEEEECCEEEEEeCCcch-hhhccccccccccccchhhccCCcccCCCC--
Confidence 99999999975431 245689999999999999999986432 11 11123344566553
Q ss_pred CCeeeee-EEEEecChhhhhhhcCCCCc-cccccccccccCCCceeeccCCCcceEEEeccccCCCccccc--ccceEEE
Q 015937 226 SFTKLFG-NRDIPYGYEVLLENLMDPAH-VPYAHYGLMRTRKPKVKLDREGGRPVEMSVNKIDINGFIGKQ--EWGSSKF 301 (398)
Q Consensus 226 ~~~~~~~-~~~~~~nwk~~~EN~lD~~H-~~~vH~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~g~~~~~--~~~~~~f 301 (398)
+|..... .+|++|.|.+++||+||++| .+|+|+.++.... +++..+.++.+.+.+....++.+.. .+..+.|
T Consensus 214 gf~~~aev~~Dlp~d~~~L~ENllD~aH~a~~~~t~tf~~~~----~~r~~~~~~~~~~~~~~~~~l~g~~~~~p~~~~F 289 (394)
T PLN00095 214 GFTPMAEVIADIKLDADEVLERLLAIGERARREATVSFDVSD----AKRGRDALFPVDGTKIIAKVLRGGRDAVPQSATF 289 (394)
T ss_pred CceEEEEEEEeccccHHHHHHhhcCccccCCccCceeeeccc----ccccccCccchhhhhhhhhhheeecccCCcceeE
Confidence 5766433 58999999999999999999 5999998885222 3444444555444433344554322 4567889
Q ss_pred eCeeEEEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCccc--chhccchHHHHHHhhhh
Q 015937 302 LAPCIFFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQT--WIDKVVPRWIFHIGQNL 379 (398)
Q Consensus 302 ~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~--~~~~~~~~~~~h~~~~~ 379 (398)
.+||++....+..+. | ++......+..++++|+|.++|+||+++++++||.. +..+.++-.+-..+.++
T Consensus 290 ~ppc~~~s~i~l~~~----~-----g~~~~~~~~l~qlhvclP~~~G~tRll~R~~~dF~~~~~~~~~~~~~~w~~~a~~ 360 (394)
T PLN00095 290 KPACVIASTIALEDG----P-----GGGDGTDMNVEQLHVCLPAKPGLCRLLFRLAFDFVAVPEGAQAAAGDVWANLAMM 360 (394)
T ss_pred cCceeeeeeeccccc----C-----CCCccccceeeeEEEEEecCCCceEEEEeecccccccHHHhHhchHHHHHHHHHH
Confidence 999999888765321 0 000011335678999999999999999999999975 12223332222367899
Q ss_pred HHHHHHHHHHH
Q 015937 380 ILDSDLYLLHV 390 (398)
Q Consensus 380 V~~ED~~ile~ 390 (398)
|+.||+.++.+
T Consensus 361 vl~e~l~~v~~ 371 (394)
T PLN00095 361 VLKEELEDVRA 371 (394)
T ss_pred HHHHHHHHHhc
Confidence 99999998753
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=9.4e-43 Score=350.22 Aligned_cols=298 Identities=24% Similarity=0.362 Sum_probs=208.7
Q ss_pred CCCchhccccccccccCCcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEE
Q 015937 71 ERELETNSQEEKFDWFSQWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQ 150 (398)
Q Consensus 71 ~~~~~~~~~E~~~~~~~~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~ 150 (398)
-.+++.+++|++.+|.+.||+||++++|+++++++++++|+++||+|+.+| +|+||.|.|||||++||.|++++.+.|+
T Consensus 10 ~~~~~~~~~~~~~~~~~~Wy~v~~~~el~~~~~~~~~i~g~~lvi~R~~dg-~~~al~d~C~HRga~Ls~g~~~~~~~l~ 88 (367)
T COG4638 10 YTDPELFQLELERIFYKHWYVVAHSSELPKPDPLTVRIGGEPLVVVRDKDG-QVHALADVCPHRGARLSEGRVGGKGRLT 88 (367)
T ss_pred ccCHHHHHHHHHHhhhhCEEEEccHHHCCCCCceeEEEcCeEEEEEECCCC-CEEEEeccCCCCCchhccccCCCCceEe
Confidence 357899999999999999999999999977799999999999999999998 9999999999999999999998756899
Q ss_pred ccCCCeEEcCCCccccCCCCCCCCCCCCccccccceeeccEEecCeEEEccCCCCccccccccCCCCCCC-CCCCCCCee
Q 015937 151 CVYHGWCFSGSGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAPRYKDIIKTKKPPHIP-ELDDPSFTK 229 (398)
Q Consensus 151 CpyHGw~Fd~~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~~~~~~~~~~~~p~~p-~~~~~~~~~ 229 (398)
||||||+||.+|+|+.+|.... ...+...+.++.+|++++++|+||+|+++++.+. +..++|..+ +.++.....
T Consensus 89 CpyHgW~y~~~G~~~~ip~~~~--~~~~~~~~~~l~~~~~~~~~G~Iwi~~~~~~~~~---~~~~~p~~~~~~~~~~~~~ 163 (367)
T COG4638 89 CPYHGWTYDLDGRLRGVPARGY--PLDFDKSEHGLKRYPVEERYGFIWIWLGDPPPAA---EAFLPPAEPYEDDRSRLGG 163 (367)
T ss_pred cCCCceEECCCCcEecCCcccc--CCCCCHhhCCccccceEEEccEEEEecCCCccCh---hHhcccccccccccccccC
Confidence 9999999999999999995311 1112235578999999999999999999887542 234555666 444433332
Q ss_pred eeeEEEEecChhhhhhhcCC-CCccccccccccccCCCce--eeccCCCcceE--EEeccc--c-------CCCcccc--
Q 015937 230 LFGNRDIPYGYEVLLENLMD-PAHVPYAHYGLMRTRKPKV--KLDREGGRPVE--MSVNKI--D-------INGFIGK-- 293 (398)
Q Consensus 230 ~~~~~~~~~nwk~~~EN~lD-~~H~~~vH~~~~~~~~~~~--~~~~e~~~~~~--~~~~~~--~-------~~g~~~~-- 293 (398)
......+++|||.++||++| +||++++|+++++...... .+......... +..... . ..++.+.
T Consensus 164 ~~~~~~~~~nwk~~vEn~~d~~~H~~~vH~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~ 243 (367)
T COG4638 164 GSFTINVPGNWKLAVENNLDDPYHVPFVHPGLLGTEPHTEVGAYDVTAGGHWDVILATGNPFFQPLGSEASSYGFDGNYE 243 (367)
T ss_pred ceEEEEecccceEEeeccCCccccccccCHHHhcccccccccccccccCCceeeeeccCCCccCCcchhhhccccccccc
Confidence 34567889999999998888 9999999999987433110 01111110000 111100 0 1111111
Q ss_pred --cccceEEEeCeeE-EEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCcccc-hhccch
Q 015937 294 --QEWGSSKFLAPCI-FFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQTW-IDKVVP 369 (398)
Q Consensus 294 --~~~~~~~f~~P~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~~-~~~~~~ 369 (398)
.......+++|+. .... ..........++|+++++|.+........... ..+...
T Consensus 244 ~~~~~~~~~~~~p~~~~~~~---------------------~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~ 302 (367)
T COG4638 244 VHVPGAYLLFLYPNSTVWNH---------------------VTVDDVIVFFVQPIDEDETMVTLVWLVLPDLVEGVDYFD 302 (367)
T ss_pred cccCceeEEEEcCCchheee---------------------ecccceeEEEEEecCCceeEEEeeeeeccchhhHHHHHH
Confidence 1123455666763 2222 23346777888999999999986543322211 111111
Q ss_pred HHHHHHhhhhHHHHHHHHHHHHhhhhc
Q 015937 370 RWIFHIGQNLILDSDLYLLHVEVIPVS 396 (398)
Q Consensus 370 ~~~~h~~~~~V~~ED~~ile~qqr~l~ 396 (398)
. ....+.+.+++||+.|||.||+++.
T Consensus 303 ~-~~~~~~~~~~~qD~~i~e~~~~~~~ 328 (367)
T COG4638 303 K-LIRRFRQEILDQDREILENQQPGRL 328 (367)
T ss_pred H-HHHHHhccCcHHHHHHHHHHhcccc
Confidence 1 2334567799999999999998554
No 5
>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=4e-39 Score=328.28 Aligned_cols=187 Identities=16% Similarity=0.154 Sum_probs=149.9
Q ss_pred CCchhccccccccccCCcEEeeecCCC-CCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEE
Q 015937 72 RELETNSQEEKFDWFSQWYPLMPVCDL-DKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQ 150 (398)
Q Consensus 72 ~~~~~~~~E~~~~~~~~W~~v~~~~dL-~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~ 150 (398)
.++++|++|++.||.+.|+.||+.++| ++|+++++.++|++|||+|+++| +++||.|+|||||++|+.|..++.+.|+
T Consensus 22 td~~~f~~E~~~IF~~~W~~v~~~selp~~gd~~t~~~~~~~vvv~R~~dG-~i~af~N~C~HRga~L~~~~~g~~~~~~ 100 (433)
T TIGR03229 22 TDPELFDLEMKHIFEGNWIYLAHESQIPNNNDYYTTYMGRQPIFIARNKDG-ELNAFINACSHRGAMLCRHKRGNKTTYT 100 (433)
T ss_pred CCHHHHHHHHHHHhhhCCEEEEEHHHCCCCCCeEEEEECCeEEEEEECCCC-cEEEEeCcCCCCCCCcccccccCCCEEE
Confidence 589999999999999999999999999 67899999999999999999888 9999999999999999998766556899
Q ss_pred ccCCCeEEcCCCccccCCCCCCC-CCCCCcc-ccccceeec-cEEecCeEEEccCCCCccccccccCCCCC---CCCCC-
Q 015937 151 CVYHGWCFSGSGDCKFIPQAPPD-GPPVHTF-EKACAAVYP-STVQHDIVWFWPNIAPRYKDIIKTKKPPH---IPELD- 223 (398)
Q Consensus 151 CpyHGw~Fd~~G~c~~iP~~~~~-~~~~~~~-~~~~l~~y~-v~e~~G~V~v~~~~~~~~~~~~~~~~~p~---~p~~~- 223 (398)
||||||+||.+|+|+.+|..... .+..+.. ...+|..++ ++.++|+||+++++++.+++. .+.+. +..+.
T Consensus 101 CPyHgW~f~~~G~l~~vP~~~~~~~~~~fd~~~~~~L~~v~rve~y~GfIFv~l~~~~~~l~e---~Lg~~~~~ld~~~~ 177 (433)
T TIGR03229 101 CPFHGWTFNNSGKLLKVKDPEDAGYPECFNKDGSHDLKKVARFESYRGFLFGSLNPDVLPLEE---HLGETAKIIDMIVD 177 (433)
T ss_pred cCCCCCEecCCcceEeCCCcccccCccccCcHhhcCCccceEEEEECCEEEEEcCCCCCCHHH---HhhhHHHHHHHHhh
Confidence 99999999999999999974322 1222322 356799995 667799999999987665532 22221 11111
Q ss_pred --CCCCeee--eeEEEEecChhhhhhhcCCCCccccccccccc
Q 015937 224 --DPSFTKL--FGNRDIPYGYEVLLENLMDPAHVPYAHYGLMR 262 (398)
Q Consensus 224 --~~~~~~~--~~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~ 262 (398)
..++... ...++++||||+++||++|+||++++|.+++.
T Consensus 178 ~~~~~~~~~~~~~~~~~~~NWKl~~EN~~D~YH~~~vH~~~~~ 220 (433)
T TIGR03229 178 QSPDGLEVLRGSSTYTYEGNWKLQAENGADGYHVSAVHWNYAA 220 (433)
T ss_pred cCcCCCeEEeeeEEEEecCchhhhHHhccCcccchhhcccHHH
Confidence 1233333 23678899999999999999999999988864
No 6
>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=1.1e-38 Score=324.80 Aligned_cols=188 Identities=16% Similarity=0.201 Sum_probs=149.8
Q ss_pred CCchhccccccccccCCcEEeeecCCC-CCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCC-CccCCCceE
Q 015937 72 RELETNSQEEKFDWFSQWYPLMPVCDL-DKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSE-GRIDQWGRL 149 (398)
Q Consensus 72 ~~~~~~~~E~~~~~~~~W~~v~~~~dL-~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~-G~~~~~~~l 149 (398)
.++++|++|++.||.+.|+.||+.++| ++|+++++.+++++|||+|+++| +++||.|+|||||++|+. +.... ..|
T Consensus 22 td~~if~~E~~~IF~~~W~~v~h~selp~~GDy~t~~ig~~pviv~R~~dG-~i~a~~N~C~HRGa~L~~~~~Gn~-~~~ 99 (438)
T TIGR03228 22 TEPELFDLEMELIFEKNWIYACHESELPNNHDFVTVRAGRQPMIVTRDGKG-ELHALVNACQHRGATLTRVGKGNQ-STF 99 (438)
T ss_pred CCHHHHHHHHHHHHhhCCEEEEEHHHCCCCCCeEEEEECCeEEEEEECCCC-CEEEEcccCCCCCCccccCCcccc-CEE
Confidence 489999999999999999999999999 57999999999999999999998 999999999999999997 55543 579
Q ss_pred EccCCCeEEcCCCccccCCCCCCCCCCCCccccccceeeccEEecCeEEEccCCCC-ccccccccCCCCCCCCC----CC
Q 015937 150 QCVYHGWCFSGSGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAP-RYKDIIKTKKPPHIPEL----DD 224 (398)
Q Consensus 150 ~CpyHGw~Fd~~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~-~~~~~~~~~~~p~~p~~----~~ 224 (398)
+||||||+|+.+|+|+.+|.... .+..++..+..|..++|++.+|+||+++++++ .++++........+..+ ..
T Consensus 100 ~CPYHgW~y~~dG~L~~vp~~~~-y~~~fd~~~~~L~~~rv~~y~GfIFv~l~~~a~~~l~e~lg~~~~~ld~~~~~~~~ 178 (438)
T TIGR03228 100 TCPFHAWCYKSDGRLVKVKAPGE-YCEGFDKATRGLKKARIASYRGFVFVSLDVAATDSLEDFLGDARVFLDMMVAQSPT 178 (438)
T ss_pred EcCCCCCcccCCCceeecCcccc-cCCCCChhhCCCcceeEEEECCEEEEEeCCCCCCCHHHHhhhHHHHHHHHhhccCc
Confidence 99999999999999999996432 22234456778889999999999999999874 33322111111112211 11
Q ss_pred CCCeee--eeEEEEecChhhhhhhcCCCCccccccccccc
Q 015937 225 PSFTKL--FGNRDIPYGYEVLLENLMDPAHVPYAHYGLMR 262 (398)
Q Consensus 225 ~~~~~~--~~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~ 262 (398)
.++... ...+.++||||+.+||++|+||++++|..++.
T Consensus 179 g~le~~~~~~~~~~~~NWKl~~EN~~D~YH~~~vH~~~~~ 218 (438)
T TIGR03228 179 GELEVLPGKSAYTYAGNWKLQNENGLDGYHVSTVHYNYVA 218 (438)
T ss_pred CceEEecceEEEEeCCchHHHHHhccccccchhhChhhHh
Confidence 124333 23578999999999999999999999998764
No 7
>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=2.7e-31 Score=231.08 Aligned_cols=122 Identities=39% Similarity=0.840 Sum_probs=107.7
Q ss_pred cccccccCCcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEc
Q 015937 80 EEKFDWFSQWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFS 159 (398)
Q Consensus 80 E~~~~~~~~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd 159 (398)
-.+++|++.|++|+.+++|++|..+.++++|++|+|+|+.+| +++|++|+|||||++|+.|.+.+ +.|+||||||+||
T Consensus 9 ~~~~~~~~~W~~v~~~~el~~~~~~~~~v~g~~ivl~r~~~G-~v~A~~n~CpHrga~L~~G~~~~-~~i~CP~Hgw~Fd 86 (134)
T cd04338 9 VAEYDWREEWYPLYLLKDVPTDAPLGLSVYDEPFVLFRDQNG-QLRCLEDRCPHRLAKLSEGQLID-GKLECLYHGWQFG 86 (134)
T ss_pred ccccccccCcEEEEEHHHCCCCCCEEEEECCceEEEEEcCCC-CEEEEcCcCCCCcCcccCCeecC-CEEEccCCCCEEC
Confidence 346899999999999999988889999999999999998887 99999999999999999999875 5899999999999
Q ss_pred CCCccccCCCCCCCCCCCCccccccceeeccEEecCeEEEccCCCCc
Q 015937 160 GSGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAPR 206 (398)
Q Consensus 160 ~~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~~ 206 (398)
.+|+|+.+|..+... ..+.+.+|++|+|++++|+|||++++.+.
T Consensus 87 ~~G~~~~~P~~~~~~---~~~~~~~l~~y~v~~~~G~V~V~~~~~~~ 130 (134)
T cd04338 87 GEGKCVKIPQLPADA---KIPKNACVKSYEVRDSQGVVWMWMSEATP 130 (134)
T ss_pred CCCCEEECCCCCccC---CCCcccCcceEeEEEECCEEEEEcCCCCC
Confidence 999999999765322 12345679999999999999999986543
No 8
>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=5e-31 Score=230.45 Aligned_cols=130 Identities=50% Similarity=1.068 Sum_probs=111.7
Q ss_pred hhccccccccccCCcEEeeecCCCCCCCcEEEEECCEEEEEEEeC-CCCeEEEEecCCCCCCCCCCCCccCCCceEEccC
Q 015937 75 ETNSQEEKFDWFSQWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDR-NENEWRVFADACPHRLAPLSEGRIDQWGRLQCVY 153 (398)
Q Consensus 75 ~~~~~E~~~~~~~~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~-~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~Cpy 153 (398)
+--..-.++.|++.|++|+.++||++|+++.++++|++|+|+|+. +| +++|+.|+|||||++|+.|.+..++.|+|||
T Consensus 4 ~~~~~~~~~~~~~~W~~v~~~~el~~g~~~~~~~~g~~i~v~r~~~dG-~~~A~~n~CpHrga~L~~G~~~~~~~i~CP~ 82 (138)
T cd03480 4 AGGSDSDKFDWREVWYPVAYVEDLDPSRPTPFTLLGRDLVIWWDRNSQ-QWRAFDDQCPHRLAPLSEGRIDEEGCLECPY 82 (138)
T ss_pred CCCcccccCCCccceEEEEEHHHCCCCCcEEEEECCeeEEEEEECCCC-EEEEEcCCCcCCcCccccceEcCCCEEEeCC
Confidence 333445678899999999999999889999999999999999986 77 9999999999999999999886556899999
Q ss_pred CCeEEcCCCccccCCCCCCCCCCCCccccccceeeccEEecCeEEEccCCCCc
Q 015937 154 HGWCFSGSGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAPR 206 (398)
Q Consensus 154 HGw~Fd~~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~~ 206 (398)
|||+||.+|+|+.+|.....+. ...+.+.+|++|+|++++|+|||++++..+
T Consensus 83 Hgw~Fd~tG~~~~~P~~~~~g~-~~~~~~~~l~~ypv~v~~g~V~V~~~~~~~ 134 (138)
T cd03480 83 HGWSFDGSGSCQRIPQAAEGGK-AHTSPRACVASLPTAVRQGLLFVWPGEPEN 134 (138)
T ss_pred CCCEECCCCCEEECCCCccccc-cCCCcccccceEeEEEECCEEEEecCChHh
Confidence 9999999999999998654331 122456789999999999999999986543
No 9
>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=99.97 E-value=6.7e-31 Score=232.66 Aligned_cols=134 Identities=16% Similarity=0.169 Sum_probs=117.3
Q ss_pred CCchhcccccccccc-CCcEEeeecCCCC-CCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceE
Q 015937 72 RELETNSQEEKFDWF-SQWYPLMPVCDLD-KRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRL 149 (398)
Q Consensus 72 ~~~~~~~~E~~~~~~-~~W~~v~~~~dL~-~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l 149 (398)
.++++|+.|++.+|+ +.|++|+++++|+ +|+++.++++|++|+|+|+.+| +++|+.|+|||||++|+.|..+.++.|
T Consensus 8 ~d~~~~~~E~~~if~~~~W~~v~~~~el~~~g~~~~~~i~g~~iiv~r~~~g-~v~A~~n~CpHrg~~L~~g~~g~~~~i 86 (150)
T cd03545 8 TDRAYFDREQERIFRGKTWSYVGLEAEIPNAGDFKSTFVGDTPVVVTRAEDG-SLHAWVNRCAHRGALVCRERRGNDGSL 86 (150)
T ss_pred cCHHHHHHHHHhhhCCCceEEEEEHHHCCCCCCEEEEEECCceEEEEECCCC-CEEEEcccCcCCCCEecccccCCCCEE
Confidence 479999999999998 9999999999996 6899999999999999998787 999999999999999998865445689
Q ss_pred EccCCCeEEcCCCccccCCCCCCCCC-----CCCccccccceeeccEEecCeEEEccCCCCc
Q 015937 150 QCVYHGWCFSGSGDCKFIPQAPPDGP-----PVHTFEKACAAVYPSTVQHDIVWFWPNIAPR 206 (398)
Q Consensus 150 ~CpyHGw~Fd~~G~c~~iP~~~~~~~-----~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~~ 206 (398)
+||||||+||.+|+|+.+|......+ ..+.+.+.+|.+|+|++++|+|||++++++.
T Consensus 87 ~CP~Hgw~Fdl~G~~~~ip~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~ifv~l~~~~~ 148 (150)
T cd03545 87 TCVYHQWAYDLKGNLKGVPFRRGLKGQGGMPKDFDMKQHGLEKLRVETVGGLVFASFSDEVE 148 (150)
T ss_pred ECCCCCCEECCCCCEEECccccccccccccccCcCHHHCCCcceeEeEECCEEEEEeCCCCC
Confidence 99999999999999999998654321 1234567789999999999999999997653
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=1.8e-30 Score=222.33 Aligned_cols=115 Identities=25% Similarity=0.510 Sum_probs=100.5
Q ss_pred CCcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCCCcccc
Q 015937 87 SQWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGSGDCKF 166 (398)
Q Consensus 87 ~~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~G~c~~ 166 (398)
+.||+|+.+++|+ ++++.++++|+++||||+.+| +++|++|+|||||++|+.|++++ +.|+||||||+||.+|+|+.
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-DKPTELTLFGRPCVAWRGATG-RAVVMDRHCSHLGANLADGRVKD-GCIQCPFHHWRYDEQGQCVH 78 (123)
T ss_pred CcEEEEEEHHHcC-CCcEEEEECCeEEEEEEccCC-EEEEEcCCCCCCCCCccCCEEeC-CEEECCCCCCEECCCCCEEE
Confidence 5799999999995 789999999999999998887 99999999999999999999986 57999999999999999999
Q ss_pred CCCCCCCCCC-CCccccccceeeccEEecCeEEEccCCC
Q 015937 167 IPQAPPDGPP-VHTFEKACAAVYPSTVQHDIVWFWPNIA 204 (398)
Q Consensus 167 iP~~~~~~~~-~~~~~~~~l~~y~v~e~~G~V~v~~~~~ 204 (398)
+|..+..... ...+.+.++++|+|+|++|+||+|++++
T Consensus 79 iP~~~~~~~~~~~~p~~~~~~~~pv~e~~G~Vwv~~g~~ 117 (123)
T cd03537 79 IPGHSTAVRRLEPVPRGARQPTLVTAERYGYVWVWYGSP 117 (123)
T ss_pred CCCCcccccccccCCcccccccEeEEEECCEEEEEcCCC
Confidence 9986542110 1124567899999999999999999864
No 11
>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=7.9e-30 Score=220.42 Aligned_cols=117 Identities=31% Similarity=0.642 Sum_probs=105.9
Q ss_pred ccccccccCCcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEE
Q 015937 79 QEEKFDWFSQWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCF 158 (398)
Q Consensus 79 ~E~~~~~~~~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~F 158 (398)
.+.+.+|++.|++|+.+++|++|+++.++++|++++|+|+.+| +++|++|+|||||++|+.|.+.+ +.|+||||||+|
T Consensus 8 ~~~~~~~~~~W~~v~~~~el~~g~~~~~~v~g~~l~l~r~~~g-~v~A~~n~CpH~g~~L~~G~~~~-~~i~CP~Hgw~F 85 (129)
T cd04337 8 LELEPGLRNFWYPVEFSKDLKMDTMVPFELFGQPWVLFRDEDG-TPGCIRDECAHRACPLSLGKVIE-GRIQCPYHGWEY 85 (129)
T ss_pred ccccchhhCccEEEEEHHHCCCCCeEEEEECCcEEEEEECCCC-cEEEEeCcCCCCcCCcccCcEeC-CEEEeCCCCCEE
Confidence 4667889999999999999998999999999999999998887 99999999999999999999875 589999999999
Q ss_pred cCCCccccCCCCCCCCCCCCccccccceeeccEEecCeEEEccCCCC
Q 015937 159 SGSGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAP 205 (398)
Q Consensus 159 d~~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~ 205 (398)
|.+|+|+.+|..+ ....+|++|++++++|+||||++++.
T Consensus 86 d~tG~~~~~P~~~--------~~~~~l~~y~v~v~~g~V~V~~~~~~ 124 (129)
T cd04337 86 DGDGECTKMPSTK--------CLNVGIAALPCMEQDGMIWVWPGDDP 124 (129)
T ss_pred CCCCCEEeCCcCC--------CccCCcceEeEEEECCEEEEEcCCCC
Confidence 9999999998643 23468999999999999999998653
No 12
>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=218.11 Aligned_cols=124 Identities=14% Similarity=0.163 Sum_probs=106.3
Q ss_pred cccccCCcEEeeecCCCC-CCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcC
Q 015937 82 KFDWFSQWYPLMPVCDLD-KRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSG 160 (398)
Q Consensus 82 ~~~~~~~W~~v~~~~dL~-~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~ 160 (398)
+.+|.+.|+.|+.++||+ +|....++++|++|+|+|+.+| +++|+.|+|||||++|+.|..++.+.|+||||||+||.
T Consensus 2 ~~i~~~~W~~v~~~~el~~~g~~~~~~~~~~~i~l~r~~~g-~i~A~~n~C~Hrg~~L~~g~~g~~~~i~CP~Hgw~fd~ 80 (128)
T cd03472 2 ERVFARSWLLLGHETHIPKAGDYLTTYMGEDPVIVVRQKDG-SIRVFLNQCRHRGMRICRSDAGNAKAFTCTYHGWAYDT 80 (128)
T ss_pred cchhhCCCeEeEEHHHCCCCCCEEEEEECCceEEEEECCCC-CEEEEhhhCcCCCCeeeccCCCCcCEEECCcCCeEECC
Confidence 568999999999999995 5777788899999999998887 99999999999999999988655457999999999999
Q ss_pred CCccccCCCCCCCCCCCCccccccceeeccEEecCeEEEccCCCCc
Q 015937 161 SGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAPR 206 (398)
Q Consensus 161 ~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~~ 206 (398)
+|+|+.+|..+...+..+...+..|..++|.+++|+|||++++++.
T Consensus 81 ~G~~~~~P~~~~~~~~~~~~~~~~l~~~~v~~~~g~vfv~~~~~~~ 126 (128)
T cd03472 81 AGNLVNVPFEKEAFCDGLDKADWGPLQARVETYKGLIFANWDAEAP 126 (128)
T ss_pred CcCEEeccCcccccccCCCHHHCCCcceeEeEECCEEEEEcCCCCC
Confidence 9999999986543222344556679999999999999999997653
No 13
>cd03479 Rieske_RO_Alpha_PhDO_like Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3,4-dioxygenase (CBDO), phenoxybenzoate dioxygenase (POB-dioxygenase) and 3-nitrobenzoate oxygenase (MnbA). ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. PhDO and CBDO are two-component RO systems, containing oxygenase and reductase components. PhDO catalyzes the dihydroxylation of phthalate to form th
Probab=99.96 E-value=3.2e-29 Score=220.58 Aligned_cols=120 Identities=30% Similarity=0.586 Sum_probs=106.3
Q ss_pred cccccccCCcEEeeecCCCC-CCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEE
Q 015937 80 EEKFDWFSQWYPLMPVCDLD-KRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCF 158 (398)
Q Consensus 80 E~~~~~~~~W~~v~~~~dL~-~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~F 158 (398)
.+..+|++.|++|+.+++|+ +|+++.++++|++|+|+|+.+| +++|++|+|||||++|+.|.+.+ +.|+||||||+|
T Consensus 13 ~~~~~~~~~W~~v~~~~eL~~~g~~~~~~~~g~~i~v~r~~~G-~v~A~~n~CpHrG~~L~~G~~~~-~~i~CP~Hgw~F 90 (144)
T cd03479 13 PMGELLRRYWQPVALSSELTEDGQPVRVRLLGEDLVAFRDTSG-RVGLLDEHCPHRGASLVFGRVEE-CGLRCCYHGWKF 90 (144)
T ss_pred chhhHhhCceEEEEEHHHCCCCCCEEEEEECCcEEEEEEeCCC-CEEEEcCcCCCCCCcccCCcccC-CEEEccCCCcEE
Confidence 34678999999999999997 6999999999999999999887 99999999999999999999875 579999999999
Q ss_pred cCCCccccCCCCCCCCCCCCccccccceeeccEEecCeEEEccCCC
Q 015937 159 SGSGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIA 204 (398)
Q Consensus 159 d~~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~ 204 (398)
|.+|+|+.+|..+.... ...+.+|++|+|++++|+|||++++.
T Consensus 91 ~~~G~~~~~P~~~~~~~---~~~~~~l~~~~v~~~~G~I~V~~~~~ 133 (144)
T cd03479 91 DVDGQCLEMPSEPPDSQ---LKQKVRQPAYPVRERGGLVWAYMGPA 133 (144)
T ss_pred CCCCCEEECCCCccccC---CccccCcceEeEEEECCEEEEECCCC
Confidence 99999999997654221 13567899999999999999999853
No 14
>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=5e-29 Score=211.28 Aligned_cols=111 Identities=25% Similarity=0.507 Sum_probs=100.9
Q ss_pred CcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCCCccccC
Q 015937 88 QWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGSGDCKFI 167 (398)
Q Consensus 88 ~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~G~c~~i 167 (398)
.|++|+.++||++|+++.++++|++|+|+|+.+| +++|++|+|||||++|+.|.+.+ +.|+||||||+||.+|+|+.+
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 GWHCLGLARDFRDGKPHGVEAFGTKLVVFADSDG-ALNVLDAYCRHMGGDLSQGTVKG-DEIACPFHDWRWGGDGRCKAI 78 (115)
T ss_pred CcEEEEEHHHCCCCCeEEEEECCeEEEEEECCCC-CEEEEcCcCCCCCCCCccCcccC-CEEECCCCCCEECCCCCEEEC
Confidence 5999999999988999999999999999999887 99999999999999999999986 579999999999999999999
Q ss_pred CCCCCCCCCCCccccccceeeccEEecCeEEEccCCCCc
Q 015937 168 PQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAPR 206 (398)
Q Consensus 168 P~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~~ 206 (398)
|..... +...++++|+|++++|+|||+++++..
T Consensus 79 p~~~~~------p~~~~l~~ypv~~~~g~v~v~~~~~~~ 111 (115)
T cd03531 79 PYARRV------PPLARTRAWPTLERNGQLFVWHDPEGN 111 (115)
T ss_pred CcccCC------CcccccceEeEEEECCEEEEECCCCCC
Confidence 975421 345789999999999999999997764
No 15
>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=99.96 E-value=3.1e-29 Score=221.13 Aligned_cols=132 Identities=14% Similarity=0.150 Sum_probs=113.2
Q ss_pred CchhccccccccccCCcEEeeecCCCC-CCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCc-cCCCceEE
Q 015937 73 ELETNSQEEKFDWFSQWYPLMPVCDLD-KRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGR-IDQWGRLQ 150 (398)
Q Consensus 73 ~~~~~~~E~~~~~~~~W~~v~~~~dL~-~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~-~~~~~~l~ 150 (398)
++++++.|++.+|.+.|++|+++++|+ +|+++.++++|++|+|+|+.+| +++|+.|+|||||++|+.+. ...++.|+
T Consensus 7 ~~~~~~~e~~~i~~~~W~~v~~~~elp~~G~~~~~~i~g~~i~v~r~~~g-~v~A~~n~CpHrg~~L~~~~~g~~~~~i~ 85 (146)
T cd03538 7 DPEIFALEMERLFGNAWIYVGHESQVPNPGDYITTRIGDQPVVMVRHTDG-SVHVLYNRCPHKGTKIVSDGCGNTGKFFR 85 (146)
T ss_pred CHHHHHHHHHHHhhcCCEEEEEHHHCCCCCCEEEEEECCeeEEEEECCCC-CEEEEeccCcCCCCEeecccccccCCEEE
Confidence 689999999999999999999999995 7999999999999999998887 99999999999999997544 33234799
Q ss_pred ccCCCeEEcCCCccccCCCCCCCCCCCCc--cccccceee-ccEEecCeEEEccCCCC
Q 015937 151 CVYHGWCFSGSGDCKFIPQAPPDGPPVHT--FEKACAAVY-PSTVQHDIVWFWPNIAP 205 (398)
Q Consensus 151 CpyHGw~Fd~~G~c~~iP~~~~~~~~~~~--~~~~~l~~y-~v~e~~G~V~v~~~~~~ 205 (398)
||||||+||.||+|+.+|...+..+..+. ....+|..+ .|++++|+|||++++++
T Consensus 86 CP~Hgw~Fd~~G~~~~~p~~~~~~~~~~~~~~~~~~L~~~~~v~~~~g~ifv~~~~~~ 143 (146)
T cd03538 86 CPYHAWSFKTDGSLLAIPLKKGYEGTGFDPSHADKGMQRVGAVDIYRGFVFARLSPSG 143 (146)
T ss_pred CCCCCCEECCCCCEEECCchhcCCcccCCcchhhCCCCcceeEEEECCEEEEEcCCCC
Confidence 99999999999999999987654321122 246789999 79999999999999764
No 16
>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=6.1e-29 Score=214.85 Aligned_cols=117 Identities=15% Similarity=0.189 Sum_probs=101.7
Q ss_pred cEEeeecCCCC-CCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCCCccccC
Q 015937 89 WYPLMPVCDLD-KRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGSGDCKFI 167 (398)
Q Consensus 89 W~~v~~~~dL~-~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~G~c~~i 167 (398)
|++||+++||+ +|+++++.+++.+|+|+|+.+| +++||.|+|||||++|+.|..++.+.|+||||||+||.+|+|+.+
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 WCYVGLEAEIPNPGDFKRTLIGERSVIMTRDPDG-GINVVENVCAHRGMRFCRERNGNAKDFVCPYHQWNYSLKGDLQGV 79 (129)
T ss_pred CEEEEEHHHCCCCCCEEEEEECCcEEEEEECCCC-CEEEEeccCcCCCCEeeeeccCccCEEECCCCCCEECCCCCEeec
Confidence 99999999995 6899999999999999999887 999999999999999999876554589999999999999999999
Q ss_pred CCCCCCC---------CCCCccccccceeeccEEecCeEEEccCCCCc
Q 015937 168 PQAPPDG---------PPVHTFEKACAAVYPSTVQHDIVWFWPNIAPR 206 (398)
Q Consensus 168 P~~~~~~---------~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~~ 206 (398)
|...... +..+...+.+|..++|++++|+|||++++++.
T Consensus 80 p~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~Ifv~~~~~~~ 127 (129)
T cd03539 80 PFRRGVKKDGKVNGGMPKDFKTKDHGLTKLKVATRGGVVFASFDHDVE 127 (129)
T ss_pred cccccccccccccccccCCcChHHCCCceeeEeEECCEEEEEeCCCCC
Confidence 9864421 12244567789999999999999999997653
No 17
>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=2.3e-28 Score=213.12 Aligned_cols=118 Identities=22% Similarity=0.460 Sum_probs=101.6
Q ss_pred ccccccCCcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCcc-CCCceEEccCCCeEEc
Q 015937 81 EKFDWFSQWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRI-DQWGRLQCVYHGWCFS 159 (398)
Q Consensus 81 ~~~~~~~~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~-~~~~~l~CpyHGw~Fd 159 (398)
.++.|++.|++|+.+++|++|+++.++++|++|+|+|. +| +++|+.|+|||||++|+.|.. ..++.|+||||||+||
T Consensus 7 ~~~~~~~~W~~v~~~~el~~g~~~~~~~~g~~i~l~r~-~g-~v~A~~n~CpHrg~~L~~g~~~~~~~~i~Cp~Hgw~Fd 84 (136)
T cd03548 7 AKWGFRNHWYPALFSHELEEGEPKGIQLCGEPILLRRV-DG-KVYALKDRCLHRGVPLSKKPECFTKGTITCWYHGWTYR 84 (136)
T ss_pred cccCcccCcEEEEEHHHCCCCCeEEEEECCcEEEEEec-CC-EEEEEeCcCcCCCCccccCcccccCCEEEecCCccEEe
Confidence 45689999999999999988999999999999999994 77 999999999999999999863 2345899999999999
Q ss_pred C-CCccccCCCCCCCCCCCCccccccceeeccEEecCeEEEccCCC
Q 015937 160 G-SGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIA 204 (398)
Q Consensus 160 ~-~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~ 204 (398)
. +|+|+.+|..+.. ......+|++|+|++++|+|||++++.
T Consensus 85 l~tG~~~~~~~~p~~----~~~~~~~L~~ypv~~~~g~V~v~~~~~ 126 (136)
T cd03548 85 LDDGKLVTILANPDD----PLIGRTGLKTYPVEEAKGMIFVFVGDG 126 (136)
T ss_pred CCCccEEEcccCCCc----cccccCCCceEeEEEECCEEEEEeCCc
Confidence 5 8999998864431 123456899999999999999999864
No 18
>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=99.95 E-value=1.7e-28 Score=208.24 Aligned_cols=112 Identities=33% Similarity=0.667 Sum_probs=101.3
Q ss_pred ccCCcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCCCcc
Q 015937 85 WFSQWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGSGDC 164 (398)
Q Consensus 85 ~~~~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~G~c 164 (398)
+++.|++|+.+++|+ |+++.+++.|++++|+|+.+| +++|++|+|||||++|+.|.+.+ +.|+||||||+||.+|+|
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-DKPLARTLLGEPVVLYRTQDG-RVAALEDRCPHRSAPLSKGSVEG-GGLVCGYHGLEFDSDGRC 78 (116)
T ss_pred cCCcEEEEEEHHHcC-CCcEEEEECCceEEEEECCCC-CEEEeCCcCCCCCCCccCCcccC-CEEEeCCCCcEEcCCCCE
Confidence 578999999999997 999999999999999998787 99999999999999999999975 589999999999999999
Q ss_pred ccCCCCCCCCCCCCccccccceeeccEEecCeEEEccCCCC
Q 015937 165 KFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAP 205 (398)
Q Consensus 165 ~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~ 205 (398)
+.+|.... .+...+|++|+|++++|+|||++++++
T Consensus 79 ~~~p~~~~------~~~~~~l~~~~v~~~~g~v~v~~~~~~ 113 (116)
T cd03532 79 VHMPGQER------VPAKACVRSYPVVERDALIWIWMGDAA 113 (116)
T ss_pred EeCCCCCC------CCCccccccCCEEEECCEEEEEcCCcc
Confidence 99997543 134678999999999999999998654
No 19
>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=99.95 E-value=6.5e-28 Score=205.19 Aligned_cols=114 Identities=18% Similarity=0.229 Sum_probs=102.4
Q ss_pred CcEEeeecCCC-CCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCCCcccc
Q 015937 88 QWYPLMPVCDL-DKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGSGDCKF 166 (398)
Q Consensus 88 ~W~~v~~~~dL-~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~G~c~~ 166 (398)
.|++|+++++| ++|++++++++|++|+|+|+.+| +++|+.|+|||||++|+.|.+++ +.|+||||||+||.+|+|+.
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 GWQVAGYSDQVKEKNQYFTGRLGNVEYVVCRDGNG-KLHAFHNVCTHRASILACGSGKK-SCFVCPYHGWVYGLDGSLTK 78 (118)
T ss_pred CCEEEEEHHHCCCCCCeEEEEECCeEEEEEECCCC-CEEEEeCCCCCCcCCccCCcccc-CEEEeCCCCCEEcCCCeEEe
Confidence 59999999999 56788999999999999999887 99999999999999999998875 47999999999999999999
Q ss_pred CCCCCCCCCCCCccccccceeeccEEecCeEEEccCCCC
Q 015937 167 IPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAP 205 (398)
Q Consensus 167 iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~ 205 (398)
+|...... .+.....+|..++|++++|+|||+++++.
T Consensus 79 ~P~~~~~~--~~~~~~~~L~~~~~~~~~g~vfv~~~~~~ 115 (118)
T cd03541 79 ATQATGIQ--NFNPKELGLVPLKVAEWGPFVLISVDRSL 115 (118)
T ss_pred CCCccccc--CCCHHHCCCceEeEEEECCEEEEEeCCCc
Confidence 99876543 35567788999999999999999998653
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=9.4e-28 Score=205.84 Aligned_cols=118 Identities=14% Similarity=0.233 Sum_probs=100.2
Q ss_pred CCcEEeeecCCCCC-CCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCCCccc
Q 015937 87 SQWYPLMPVCDLDK-RVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGSGDCK 165 (398)
Q Consensus 87 ~~W~~v~~~~dL~~-g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~G~c~ 165 (398)
+.|++|++++||++ |+...++++|++++|+|+.+| +++|+.|+|||||++|+.|..++.+.|+||||||+||.||+|+
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 RAWVFLGHESEIPNAGDYVVRYIGDDSFIVCRDEDG-EIRAMFNSCRHRGMQVCRAEMGNTSHFRCPYHGWTYRNTGRLV 79 (123)
T ss_pred CCCEEEEEHHHCCCCCCEEEEEECCeEEEEEECCCC-CEEEEcccCccCCCEeeccccCCCCEEECCcCCCEECCCcCEe
Confidence 47999999999954 777778899999999998887 9999999999999999999887545799999999999999999
Q ss_pred cCCCCCCCCCCCCccccccceeecc-EEecCeEEEccCCCC
Q 015937 166 FIPQAPPDGPPVHTFEKACAAVYPS-TVQHDIVWFWPNIAP 205 (398)
Q Consensus 166 ~iP~~~~~~~~~~~~~~~~l~~y~v-~e~~G~V~v~~~~~~ 205 (398)
.+|......+..+.....+|++|++ ++++|+|||++++++
T Consensus 80 ~~p~~~~~~~~~~~~~~~~L~~~~~~e~~~g~vfv~l~~~~ 120 (123)
T cd03535 80 GVPAQQEAYGGGFDKSQWGLRPAPNLDSYNGLIFGSLDPKA 120 (123)
T ss_pred eCCCcccccccCcCHHHCCCccceeEEEECCEEEEEeCCCC
Confidence 9997655332223456678999985 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=99.94 E-value=3.9e-27 Score=202.03 Aligned_cols=118 Identities=21% Similarity=0.234 Sum_probs=100.7
Q ss_pred cEEeeecCCCCC-CCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCCCccccC
Q 015937 89 WYPLMPVCDLDK-RVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGSGDCKFI 167 (398)
Q Consensus 89 W~~v~~~~dL~~-g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~G~c~~i 167 (398)
|+.||.++||++ |+...+.++|.+|+|+|+.+| +++|+.|+|||||++|+.|..++...|+||||||+||.+|+|+.+
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 WVLLGHESEIPNKGDFMVRDMGSDSVIVARDKDG-EIHVSLNVCPHRGMRISTTDGGNTQIHVCIYHGWAFRPNGDFIGA 79 (123)
T ss_pred CEEeEEHHHCCCCCCEEEEEECCceEEEEECCCC-CEEEEeeeCCCCCCCcccccCCCcCEEECCcCCCEECCCCcEEEC
Confidence 999999999954 778888899999999998787 999999999999999999887654579999999999999999999
Q ss_pred CCCCCCC-CCCCccccccceeeccEEecCeEEEccCCCCcc
Q 015937 168 PQAPPDG-PPVHTFEKACAAVYPSTVQHDIVWFWPNIAPRY 207 (398)
Q Consensus 168 P~~~~~~-~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~~~ 207 (398)
|...... .....+...+|++|+|++++|+||+++++++.+
T Consensus 80 p~~~~~~~~~~~~~~~~~L~~~~v~~~~g~Ifv~~~~~~~~ 120 (123)
T cd03536 80 PVEKECMHGKMRTKAELGLHKARVTLYGGLIFATWNIDGPS 120 (123)
T ss_pred CccccccccCCCCHHHCCCcceeEEEECCEEEEEeCCCCCC
Confidence 9864422 112335667899999999999999999976544
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=4.3e-27 Score=199.52 Aligned_cols=114 Identities=28% Similarity=0.403 Sum_probs=100.1
Q ss_pred cEEeeecCCCC-CCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCCCccccC
Q 015937 89 WYPLMPVCDLD-KRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGSGDCKFI 167 (398)
Q Consensus 89 W~~v~~~~dL~-~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~G~c~~i 167 (398)
|++||.+++|+ +|+.+.++++|++++|+|+.+| +++|+.|+|||+|++|+.|.+..++.|+||||||+||.+|+|+.+
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 WYFVGHSSELPEPGDYVTLELGGEPLVLVRDRDG-EVRAFHNVCPHRGARLCEGRGGNAGRLVCPYHGWTYDLDGKLVGV 79 (118)
T ss_pred CEEeEEHHHCCCCCCEEEEEECCccEEEEECCCC-CEEEEEEeCCCCCCEeeeccCCCCCEEECCCCCCEECCCCcEEeC
Confidence 99999999997 9999999999999999998777 999999999999999999988334689999999999988999999
Q ss_pred CCCCCCCCCCCccccccceeeccEEecCeEEEccCCCC
Q 015937 168 PQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAP 205 (398)
Q Consensus 168 P~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~ 205 (398)
|...... ...+...+|++|+|++++|+|||++++++
T Consensus 80 P~~~~~~--~~~~~~~~L~~~~v~~~~g~v~v~~~~~~ 115 (118)
T cd03469 80 PREEGFP--GFDKEKLGLRTVPVEEWGGLIFVNLDPDA 115 (118)
T ss_pred CcccccC--CCCHHHCCCeEEEEEEECCEEEEEcCCCC
Confidence 9765421 12345678999999999999999998654
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=1.5e-25 Score=192.19 Aligned_cols=117 Identities=20% Similarity=0.292 Sum_probs=96.9
Q ss_pred cEEeeecCCCC-CCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCCCccccC
Q 015937 89 WYPLMPVCDLD-KRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGSGDCKFI 167 (398)
Q Consensus 89 W~~v~~~~dL~-~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~G~c~~i 167 (398)
|+.|+++++|+ +|+.+.+++.|++|+|+|+.+| +++|+.|.|||||++|+.|..++.+.|+||||||+||.||+|+.+
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 WVYLAHESQIPNNNDYFTTTIGRQPVVITRDKDG-ELNAFINACSHRGAMLCRRKQGNKGTFTCPFHGWTFSNTGKLLKV 79 (123)
T ss_pred CEEeEEHHHCCCCCCEEEEEECCcEEEEEECCCC-CEEEEcccCcCCCCccccccccCCCEEECcCCCCEecCCccEEEC
Confidence 99999999995 5788899999999999998887 999999999999999999877555689999999999999999999
Q ss_pred CCCCCC-CCCCCccc-cccceeec-cEEecCeEEEccCCCCc
Q 015937 168 PQAPPD-GPPVHTFE-KACAAVYP-STVQHDIVWFWPNIAPR 206 (398)
Q Consensus 168 P~~~~~-~~~~~~~~-~~~l~~y~-v~e~~G~V~v~~~~~~~ 206 (398)
|..... .+..+... +.+|..++ +++++|+||+++++++.
T Consensus 80 p~~~~~~y~~~~~~~~~~~L~~~~~~~~~~g~v~~~~~~~~~ 121 (123)
T cd03542 80 KDPKTAGYPEGFNCDGSHDLTKVARFESYRGFLFGSLNADVA 121 (123)
T ss_pred CcccccCcCcccChhhcCCCccceeEEEECCEEEEEcCCCCC
Confidence 964321 22222233 46788885 66779999999997653
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=99.91 E-value=1.8e-24 Score=177.64 Aligned_cols=96 Identities=28% Similarity=0.481 Sum_probs=88.2
Q ss_pred cEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcC-CCccccC
Q 015937 89 WYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSG-SGDCKFI 167 (398)
Q Consensus 89 W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~-~G~c~~i 167 (398)
|++|+.++||++|+.+.++++|++++|+|+ +| +++|++|+|||+|++|+.|.+.+ +.|+||||||+||. +|+|+..
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-DG-EFYATDDLCTHGDASLSEGYVEG-GVIECPLHGGRFDLRTGKALSL 77 (98)
T ss_pred CeEEEEhhhcCCCCEEEEEECCeEEEEEEE-CC-EEEEECCcCCCCCCCCCCCeEeC-CEEEeCCcCCEEECCCCcccCC
Confidence 999999999999999999999999999998 56 99999999999999999998764 58999999999996 9999988
Q ss_pred CCCCCCCCCCCccccccceeeccEEecCeEEE
Q 015937 168 PQAPPDGPPVHTFEKACAAVYPSTVQHDIVWF 199 (398)
Q Consensus 168 P~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v 199 (398)
|.. ..|++|++++++|.|||
T Consensus 78 p~~------------~~L~~~~v~~~~g~v~v 97 (98)
T cd03528 78 PAT------------EPLKTYPVKVEDGDVYV 97 (98)
T ss_pred CCC------------CCcceEeEEEECCEEEE
Confidence 742 36999999999999998
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=99.91 E-value=1.8e-24 Score=177.83 Aligned_cols=97 Identities=24% Similarity=0.543 Sum_probs=87.3
Q ss_pred cEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcC-CCccccC
Q 015937 89 WYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSG-SGDCKFI 167 (398)
Q Consensus 89 W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~-~G~c~~i 167 (398)
|++|+.++||++|+.+.+++.|++++|+|+.+| +++||+|+|||+|++|+.|.+++ +.|+||||||+||. +|.|..
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 WIDIGALEDIPPRGARKVQTGGGEIAVFRTADD-EVFALENRCPHKGGPLSEGIVHG-EYVTCPLHNWVIDLETGEAQG- 77 (98)
T ss_pred CEEEEEHHHCCCCCcEEEEECCEEEEEEEeCCC-CEEEEcCcCCCCCCCccCCEEcC-CEEECCCCCCEEECCCCCCCC-
Confidence 999999999999999999999999999999777 99999999999999999999875 58999999999995 888753
Q ss_pred CCCCCCCCCCCccccccceeeccEEecCeEEEc
Q 015937 168 PQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFW 200 (398)
Q Consensus 168 P~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~ 200 (398)
|. ..+|++|++++++|.|||.
T Consensus 78 p~------------~~~l~~y~v~v~~g~v~v~ 98 (98)
T cd03530 78 PD------------EGCVRTFPVKVEDGRVYLG 98 (98)
T ss_pred CC------------CCccceEeEEEECCEEEEC
Confidence 31 2469999999999999984
No 26
>cd03529 Rieske_NirD Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while fungal proteins have a C-terminal Rieske domain in addition to several other domains. The fungal NirD is involved in nutrient acquisition, functioning at the soil/fungus interface to control nutrient exchange between the fungus and the host plant. The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The Rieske [2Fe-2S] cluster is liganded to two histidine and two cysteine residues present in conserved sequences called Rieske motifs. In this family, only a few members contain these residues. Other members may have lost the ability to bind the Rieske [2Fe-2S] cluster.
Probab=99.91 E-value=4.3e-24 Score=177.44 Aligned_cols=98 Identities=20% Similarity=0.220 Sum_probs=88.1
Q ss_pred cEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCC-CCCCccC---CCceEEccCCCeEEc-CCCc
Q 015937 89 WYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAP-LSEGRID---QWGRLQCVYHGWCFS-GSGD 163 (398)
Q Consensus 89 W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~-Ls~G~~~---~~~~l~CpyHGw~Fd-~~G~ 163 (398)
|++|+.+++|++|+.+.++++|++|+|+|..+| +++|++|+|||++++ |+.|.+. +++.|+||||||+|| .+|+
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 WQTVCALDDLPPGSGVAALVGDTQIAIFRLPGR-EVYAVQNMDPHSRANVLSRGIVGDIGGEPVVASPLYKQHFSLKTGR 79 (103)
T ss_pred CEEEeEHHHCCCCCcEEEEECCEEEEEEEeCCC-eEEEEeCcCCCCCCcccCCceEcccCCCeEEECCCCCCEEEcCCCC
Confidence 999999999999999999999999999999776 999999999999997 8888764 234799999999999 7999
Q ss_pred cccCCCCCCCCCCCCccccccceeeccEEecCeEEEc
Q 015937 164 CKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFW 200 (398)
Q Consensus 164 c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~ 200 (398)
|+..|. .+|++|+|++++|.|||.
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 998762 369999999999999983
No 27
>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=5.8e-24 Score=177.94 Aligned_cols=102 Identities=26% Similarity=0.403 Sum_probs=89.7
Q ss_pred cEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcC-CCccccC
Q 015937 89 WYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSG-SGDCKFI 167 (398)
Q Consensus 89 W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~-~G~c~~i 167 (398)
|++|+.+++|++|+.+.+++.|.+++|+|+.+| +++|+.|+|||+|++|+.|.+++ +.|+||||||+||. +|.|..
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 FTKVCSLDDVWEGEMELVDVDGEEVLLVAPEGG-EFRAFQGICPHQEIPLAEGGFDG-GVLTCRAHLWQFDADTGEGLN- 77 (108)
T ss_pred CeEeeehhccCCCceEEEEECCeEEEEEEccCC-eEEEEcCcCCCCCCCcccCcccC-CEEEeCCcCCEEECCCccccC-
Confidence 899999999988999999999999999998887 99999999999999999998765 48999999999994 676653
Q ss_pred CCCCCCCCCCCccccccceeeccEEecCeEEEccCCCC
Q 015937 168 PQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNIAP 205 (398)
Q Consensus 168 P~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~~~ 205 (398)
| ...+|++|+|++++|.|||+++..+
T Consensus 78 ~------------~~~~L~~~~v~v~~g~v~v~~~~~~ 103 (108)
T cd03474 78 P------------RDCRLARYPVKVEGGDILVDTEGVL 103 (108)
T ss_pred C------------CCCccceEeEEEECCEEEEeCCCcC
Confidence 2 2347999999999999999987543
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=99.90 E-value=1.6e-23 Score=173.45 Aligned_cols=99 Identities=18% Similarity=0.357 Sum_probs=90.4
Q ss_pred CcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEc-CCCcccc
Q 015937 88 QWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFS-GSGDCKF 166 (398)
Q Consensus 88 ~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd-~~G~c~~ 166 (398)
.|+.++..+||++|....+++.|.+|+|+|..+| +++|++|+|||++++|+.|.+++ +.|+||+|||+|| .||+|+.
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 NWVKACDADDIGREDVARFDHGGRTFAIYRTPDD-QYYATDGLCTHEYAHLADGLVMD-TTVECPKHAGCFDYRTGEALN 78 (101)
T ss_pred CcEEEEEHHHcCCCCEEEEEECCeEEEEEEeCCC-EEEEEcCcCCCCCCCCCCCEEcC-CEEECCccCCEEECCCCcccC
Confidence 4999999999998999999999999999998666 99999999999999999999975 5899999999999 6999998
Q ss_pred CCCCCCCCCCCCccccccceeeccEEecCeEEEc
Q 015937 167 IPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFW 200 (398)
Q Consensus 167 iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~ 200 (398)
.|.. ..|++|+|++++|.|||.
T Consensus 79 ~p~~------------~~l~~y~v~v~~g~v~V~ 100 (101)
T TIGR02377 79 PPVC------------VNLKTYPVKVVDGAVYVD 100 (101)
T ss_pred CCcc------------CCcceEeEEEECCEEEEe
Confidence 7742 359999999999999985
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=1.6e-23 Score=174.52 Aligned_cols=100 Identities=16% Similarity=0.293 Sum_probs=88.7
Q ss_pred CcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCC-CCCCCCCccCCCc---eEEccCCCeEEc-CCC
Q 015937 88 QWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHR-LAPLSEGRIDQWG---RLQCVYHGWCFS-GSG 162 (398)
Q Consensus 88 ~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHR-ga~Ls~G~~~~~~---~l~CpyHGw~Fd-~~G 162 (398)
.|++|+.+++|++|..+.+++.|++++|+|..+| +++|++|+|||+ +.+|+.|.+.+.. .|+||||||+|| .+|
T Consensus 1 ~w~~v~~~~el~~g~~~~~~v~g~~l~v~r~~~~-~~~a~~~~CpH~g~~~L~~g~~~~~~~~~~i~Cp~Hg~~Fdl~tG 79 (105)
T TIGR02378 1 TWQDICAIDDIPEETGVCVLLGDTQIAIFRVPGD-QVFAIQNMCPHKRAFVLSRGIVGDAQGELWVACPLHKRNFRLEDG 79 (105)
T ss_pred CcEEEEEHHHCCCCCcEEEEECCEEEEEEEeCCC-cEEEEeCcCCCCCCccccceEEccCCCcEEEECCcCCCEEEcCCc
Confidence 5999999999998999999999999999998766 899999999999 8999999876431 399999999999 589
Q ss_pred ccccCCCCCCCCCCCCccccccceeeccEEecCeEEEcc
Q 015937 163 DCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWP 201 (398)
Q Consensus 163 ~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~ 201 (398)
+|+..| ..+|++|++++++|.|||.+
T Consensus 80 ~~~~~~-------------~~~L~~y~v~v~~g~v~v~~ 105 (105)
T TIGR02378 80 RCLEDD-------------SGSVRTYEVRVEDGRVYVAL 105 (105)
T ss_pred cccCCC-------------CccEeeEeEEEECCEEEEeC
Confidence 998754 23699999999999999954
No 30
>PRK09965 3-phenylpropionate dioxygenase ferredoxin subunit; Provisional
Probab=99.89 E-value=4.6e-23 Score=172.19 Aligned_cols=101 Identities=21% Similarity=0.297 Sum_probs=89.7
Q ss_pred CcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEc-CCCcccc
Q 015937 88 QWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFS-GSGDCKF 166 (398)
Q Consensus 88 ~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd-~~G~c~~ 166 (398)
.|+.|+..+||++|..+.+.+. .+|+|+|. +| +++|++|+|||+|++|+.|.+++++.|+||+|||+|| .+|+|+.
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-GG-EFYAIDDRCSHGNASLSEGYLEDDATVECPLHAASFCLRTGKALC 78 (106)
T ss_pred CcEEeeeHHHcCCCCeEEEeCC-CeEEEEEE-CC-EEEEEeCcCCCCCCCCCceEECCCCEEEcCCCCCEEEcCCCCeeC
Confidence 4999999999998999988877 88999997 66 9999999999999999999997646899999999999 5999997
Q ss_pred CCCCCCCCCCCCccccccceeeccEEecCeEEEccCC
Q 015937 167 IPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWPNI 203 (398)
Q Consensus 167 iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~~~ 203 (398)
.|. ..+|++|++++++|.|||.+.+
T Consensus 79 ~p~------------~~~l~~y~v~v~~g~v~v~~~~ 103 (106)
T PRK09965 79 LPA------------TDPLRTYPVHVEGGDIFIDLPE 103 (106)
T ss_pred CCC------------CCCcceEeEEEECCEEEEEccC
Confidence 663 2469999999999999998764
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=99.88 E-value=1e-22 Score=166.57 Aligned_cols=93 Identities=27% Similarity=0.470 Sum_probs=84.6
Q ss_pred EeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcC-CCccccCCC
Q 015937 91 PLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSG-SGDCKFIPQ 169 (398)
Q Consensus 91 ~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~-~G~c~~iP~ 169 (398)
.|+.+++|++|+.+.++++|.+|+|+|. +| +++|++|+|||++++|+.|.+.+ +.|+||||||+||. +|+|+..|.
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-GG-EVHAIGAKCPHYGAPLAKGVLTD-GRIRCPWHGACFNLRTGDIEDAPA 78 (95)
T ss_pred ceeehhhCCCCCEEEEEeCCcEEEEEEE-CC-EEEEEcCcCcCCCCccCCCeEeC-CEEEcCCCCCEEECCCCcCcCCCc
Confidence 3789999999999999999999999998 66 99999999999999999999875 58999999999995 999999874
Q ss_pred CCCCCCCCCccccccceeeccEEecCeEE
Q 015937 170 APPDGPPVHTFEKACAAVYPSTVQHDIVW 198 (398)
Q Consensus 170 ~~~~~~~~~~~~~~~l~~y~v~e~~G~V~ 198 (398)
. ..|++|++++++|.||
T Consensus 79 ~------------~~l~~~~v~~~~g~i~ 95 (95)
T cd03478 79 L------------DSLPCYEVEVEDGRVY 95 (95)
T ss_pred c------------CCcceEEEEEECCEEC
Confidence 2 3589999999999997
No 32
>PF13806 Rieske_2: Rieske-like [2Fe-2S] domain; PDB: 2JO6_A 3C0D_A 3D89_A 2JZA_A.
Probab=99.86 E-value=1.5e-21 Score=162.50 Aligned_cols=99 Identities=29% Similarity=0.568 Sum_probs=90.0
Q ss_pred CcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCC-CCCCCCCCccCC---CceEEccCCCeEEc-CCC
Q 015937 88 QWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPH-RLAPLSEGRIDQ---WGRLQCVYHGWCFS-GSG 162 (398)
Q Consensus 88 ~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpH-Rga~Ls~G~~~~---~~~l~CpyHGw~Fd-~~G 162 (398)
+|..||.++||++|..+.+.+.|++|+|||..+| +++|++|+||| ++++|+.|.+++ +..|.||+|+|.|| .+|
T Consensus 1 ~W~~v~~~~~L~~~~~~~~~v~g~~Ialf~~~~~-~vyAi~n~Cph~~~~~Ls~G~i~~~~g~~~V~CPlH~~~f~L~tG 79 (104)
T PF13806_consen 1 SWVPVCPLDDLPPGEGRAVEVDGRQIALFRVRDG-EVYAIDNRCPHSQAGPLSDGLIGDGNGEPCVACPLHKWRFDLRTG 79 (104)
T ss_dssp SEEEEEETTTSCTTSEEEEEETTEEEEEEEESTT-EEEEEESBETTTTSSCGCGSEEEECTTEEEEEETTTTEEEETTTT
T ss_pred CeeEeccHHHCCCCCcEEEEECCeEEEEEEeCCC-CEEEEeccCCccCCcccceeEEccCCCCEEEECCCCCCeEECCCc
Confidence 5999999999999999999999999999999666 99999999999 899999999874 24899999999999 699
Q ss_pred ccccCCCCCCCCCCCCccccccceeeccEEecCeEEEc
Q 015937 163 DCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFW 200 (398)
Q Consensus 163 ~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~ 200 (398)
+|+..| ..+|++|||++++|.|||.
T Consensus 80 ~~~~~~-------------~~~l~~ypvrv~~g~V~V~ 104 (104)
T PF13806_consen 80 ECLEDP-------------DVSLRTYPVRVEDGQVYVE 104 (104)
T ss_dssp EESSEC-------------SEBSBEEEEEECTTEEEEE
T ss_pred CcCCCC-------------CCcEEeEEEEEECCEEEEC
Confidence 999844 3579999999999999984
No 33
>PRK09511 nirD nitrite reductase small subunit; Provisional
Probab=99.86 E-value=2.2e-21 Score=162.72 Aligned_cols=99 Identities=18% Similarity=0.178 Sum_probs=87.1
Q ss_pred CcEEeeecCCCCCCCcEEEEECCEEEEEEEe-CCCCeEEEEecCCCCCCCC-CCCCccCC---CceEEccCCCeEEc-CC
Q 015937 88 QWYPLMPVCDLDKRVPHAKKVLGLDVVVWWD-RNENEWRVFADACPHRLAP-LSEGRIDQ---WGRLQCVYHGWCFS-GS 161 (398)
Q Consensus 88 ~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~-~~Gg~v~A~~n~CpHRga~-Ls~G~~~~---~~~l~CpyHGw~Fd-~~ 161 (398)
.|..||..+||++|....+.+.|++|+|+|. .+| +++|++|.|||.+++ |+.|.+++ ...|+||+|||+|| .|
T Consensus 3 ~~~~v~~~~dl~~g~~~~v~v~g~~i~l~~~~~~g-~~~A~~n~CpH~~~~~L~~G~~~~~~g~~~V~CP~H~~~Fdl~T 81 (108)
T PRK09511 3 QWKDICKIDDILPGTGVCALVGDEQVAIFRPYHDE-QVFAISNIDPFFQASVLSRGLIAEHQGELWVASPLKKQRFRLSD 81 (108)
T ss_pred cceEeeEHhHcCCCceEEEEECCEEEEEEEECCCC-EEEEEeCcCCCCCCcccCCceEccCCCeEEEECCCCCCEEECCC
Confidence 5999999999999999999999999999995 466 999999999999985 99998842 22499999999999 79
Q ss_pred CccccCCCCCCCCCCCCccccccceeeccEEecCeEEEc
Q 015937 162 GDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFW 200 (398)
Q Consensus 162 G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~ 200 (398)
|+|+..| ..+|++|||++++|.|||.
T Consensus 82 G~~~~~~-------------~~~l~typV~ve~g~V~v~ 107 (108)
T PRK09511 82 GLCMEDE-------------QFSVKHYDARVKDGVVQLR 107 (108)
T ss_pred cccCCCC-------------CccEeeEeEEEECCEEEEe
Confidence 9998744 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=99.84 E-value=4.5e-21 Score=156.94 Aligned_cols=94 Identities=32% Similarity=0.591 Sum_probs=77.2
Q ss_pred CcEEeeecCCCCC-CCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCc-cCCCceEEccCCCeEEcCC-Ccc
Q 015937 88 QWYPLMPVCDLDK-RVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGR-IDQWGRLQCVYHGWCFSGS-GDC 164 (398)
Q Consensus 88 ~W~~v~~~~dL~~-g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~-~~~~~~l~CpyHGw~Fd~~-G~c 164 (398)
+|++|+.++||++ |....+.+ |...++++..+| +++|++|+|||+|++|+.|. ...++.|+||||||+||.+ |+|
T Consensus 1 ~W~~v~~~~el~~~~~~~~~~~-~~~~v~~~~~~g-~~~A~~~~CpH~g~~l~~~~~~~~~~~i~Cp~Hg~~Fd~~tG~~ 78 (97)
T PF00355_consen 1 QWVPVCRSSELPEPGDVKRVDV-GGKLVLVRRSDG-EIYAFSNRCPHQGCPLSEGPFSEDGGVIVCPCHGWRFDLDTGEC 78 (97)
T ss_dssp SEEEEEEGGGSHSTTEEEEEEE-TTEEEEEEETTT-EEEEEESB-TTTSBBGGCSSEETTTTEEEETTTTEEEETTTSBE
T ss_pred CEEEeeEHHHCCCCCCEEEEEc-CCcEEEEEeCCC-CEEEEEccCCccceeEcceecccccCEEEeCCcCCEEeCCCceE
Confidence 5999999999966 88888888 555555566777 99999999999999999995 3333589999999999965 999
Q ss_pred ccCCCCCCCCCCCCccccccceeeccEEecC
Q 015937 165 KFIPQAPPDGPPVHTFEKACAAVYPSTVQHD 195 (398)
Q Consensus 165 ~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G 195 (398)
+.+|.. .+++.|+|+++++
T Consensus 79 ~~~p~~------------~~l~~~~v~ve~~ 97 (97)
T PF00355_consen 79 VGGPAP------------RPLPLYPVKVEGD 97 (97)
T ss_dssp EESTTC------------SBSTEEEEEEETT
T ss_pred ecCCCC------------CCcCCCCeEEeCC
Confidence 999853 2689999999864
No 35
>COG2146 {NirD} Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]
Probab=99.84 E-value=1.5e-20 Score=157.03 Aligned_cols=102 Identities=25% Similarity=0.347 Sum_probs=89.7
Q ss_pred CCcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEc-CCCccc
Q 015937 87 SQWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFS-GSGDCK 165 (398)
Q Consensus 87 ~~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd-~~G~c~ 165 (398)
..|+.+|.+++|+++..+.+.+.+..+++++..+| +++|++|+|||.+++|+.|.+.++..|+||.|+|.|| .||+|+
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 MNWIRICKVDDLPEGGGVRVLVGGGRFALVVRADG-EVFAIDNRCPHAGAPLSRGLVEGDETVVCPLHGARFDLRTGECL 81 (106)
T ss_pred CceEEEEehHhcCCCCceEEEecCCEEEEEEecCC-EEEEEeCcCCCCCCcccccEeCCCCEEECCccCCEEEcCCCcee
Confidence 57999999999999999999995436777777787 9999999999999999999998755799999999999 799999
Q ss_pred cCCCCCCCCCCCCccccccceeeccEEecCeEEEcc
Q 015937 166 FIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWFWP 201 (398)
Q Consensus 166 ~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v~~ 201 (398)
..|... .|++|++++.+|.|||.+
T Consensus 82 ~~p~~~------------~l~~y~vrve~g~v~v~~ 105 (106)
T COG2146 82 EPPAGK------------TLKTYPVRVEGGRVFVDL 105 (106)
T ss_pred cCCCCC------------ceeEEeEEEECCEEEEec
Confidence 988521 199999999999999975
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=4.4e-20 Score=151.58 Aligned_cols=95 Identities=27% Similarity=0.386 Sum_probs=85.1
Q ss_pred cEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcC-CCccccC
Q 015937 89 WYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSG-SGDCKFI 167 (398)
Q Consensus 89 W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~-~G~c~~i 167 (398)
|++++..++|++|+...+.+.|..++|+|..+| +++|++|.|||++++|..|...+ +.|+||+|||+||. ||+|+..
T Consensus 1 w~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~-~~~a~~~~CpH~g~~l~~~~~~~-~~i~Cp~H~~~f~~~~G~~~~~ 78 (98)
T cd03467 1 WVVVGALSELPPGGGRVVVVGGGPVVVVRREGG-EVYALSNRCTHQGCPLSEGEGED-GCIVCPCHGSRFDLRTGEVVSG 78 (98)
T ss_pred CEEeeeccccCCCceEEEEECCeEEEEEEeCCC-EEEEEcCcCCCCCccCCcCccCC-CEEEeCCCCCEEeCCCccCcCC
Confidence 899999999999999999999999999998777 99999999999999999988654 58999999999996 9999998
Q ss_pred CCCCCCCCCCCccccccceeeccEEec-CeE
Q 015937 168 PQAPPDGPPVHTFEKACAAVYPSTVQH-DIV 197 (398)
Q Consensus 168 P~~~~~~~~~~~~~~~~l~~y~v~e~~-G~V 197 (398)
|. ...|.+|++++.+ +.|
T Consensus 79 p~------------~~~l~~~~v~~~~~~~~ 97 (98)
T cd03467 79 PA------------PRPLPKYPVKVEGDGVV 97 (98)
T ss_pred CC------------CCCcCEEEEEEeCCceE
Confidence 74 3469999999994 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=7.4e-20 Score=148.77 Aligned_cols=88 Identities=16% Similarity=0.174 Sum_probs=77.4
Q ss_pred eeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCCCccccCCCCC
Q 015937 92 LMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGSGDCKFIPQAP 171 (398)
Q Consensus 92 v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~G~c~~iP~~~ 171 (398)
++.++||++|+...+.+.|++|+|+|+.+| +++|++|+|||+|++|+.|..+ +.|+||||||+||.+|+|+..|..
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 ITDIEDLAPGEGGVVNIGGKRLAVYRDEDG-VLHTVSATCTHLGCIVHWNDAE--KSWDCPCHGSRFSYDGEVIEGPAV- 77 (91)
T ss_pred ccchhhcCCCCeEEEEECCEEEEEEECCCC-CEEEEcCcCCCCCCCCcccCCC--CEEECCCCCCEECCCCcEeeCCCC-
Confidence 578899999999999999999999999787 9999999999999999988753 479999999999999999998743
Q ss_pred CCCCCCCccccccceeeccEEec
Q 015937 172 PDGPPVHTFEKACAAVYPSTVQH 194 (398)
Q Consensus 172 ~~~~~~~~~~~~~l~~y~v~e~~ 194 (398)
..|.+|++.-.+
T Consensus 78 -----------~~l~~y~v~~~~ 89 (91)
T cd03477 78 -----------SGLKPADDAPID 89 (91)
T ss_pred -----------CCCCeeEeeccc
Confidence 358888887543
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=4.4e-18 Score=146.36 Aligned_cols=96 Identities=13% Similarity=0.064 Sum_probs=83.2
Q ss_pred EEeeecCCCCCCCcEEEEECC--EEEEEEEeC---------CCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEE
Q 015937 90 YPLMPVCDLDKRVPHAKKVLG--LDVVVWWDR---------NENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCF 158 (398)
Q Consensus 90 ~~v~~~~dL~~g~~~~~~l~g--~~ivv~R~~---------~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~F 158 (398)
+.||.+++|.+|+.+.+++.+ .+++|+|.. +| +++|++|+|||++++|+.|. + ++.|+||+|||+|
T Consensus 4 ~~v~~~~~l~~g~~~~~~~~~~~~~i~v~r~~~~~~~~~~~~g-~~~A~~~~CpH~g~~L~~g~-~-~~~v~CP~Hg~~F 80 (126)
T cd03476 4 VKVANLSQLSPGQPVTFNYPDESSPCVLVKLGVPVPGGVGPDN-DIVAFSALCTHMGCPLTYDP-S-NKTFVCPCHFSQF 80 (126)
T ss_pred eEEeeHHHCCCCCeEEEEcCCCCCcEEEEECCccccCccccCC-EEEEEeCcCCCCCccccccc-c-CCEEEccCcCCEE
Confidence 458899999999999999988 899999974 56 99999999999999999877 3 4589999999999
Q ss_pred cC--CCccccCCCCCCCCCCCCccccccceeeccEEe--cCeEEEc
Q 015937 159 SG--SGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQ--HDIVWFW 200 (398)
Q Consensus 159 d~--~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~--~G~V~v~ 200 (398)
|. +|+|+..|. ...|..|+++++ +|.|||-
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 95 579998763 346999999999 9999983
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=99.72 E-value=4.9e-17 Score=139.23 Aligned_cols=90 Identities=16% Similarity=0.190 Sum_probs=71.9
Q ss_pred CCCCcEEEE-ECCEEEEEEEeCCCCeE--EEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCCCccccCCCCCCCCC
Q 015937 99 DKRVPHAKK-VLGLDVVVWWDRNENEW--RVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGSGDCKFIPQAPPDGP 175 (398)
Q Consensus 99 ~~g~~~~~~-l~g~~ivv~R~~~Gg~v--~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~G~c~~iP~~~~~~~ 175 (398)
++|+...++ +.+.+.++.+..+| ++ +|++|+|||+|++|+.|..+ +.|+||+|||+||.+|+++..|.
T Consensus 21 ~~~~~~~~~~~~~~~~Ilv~~~dg-~i~~~A~~~~CpH~G~~l~~~~~~--~~i~CP~Hg~~Fd~tG~~~~gPa------ 91 (126)
T cd03471 21 NPGDRSLVQGLKGDPTYLIVEEDK-TIANYGINAVCTHLGCVVPWNAAE--NKFKCPCHGSQYDATGKVVRGPA------ 91 (126)
T ss_pred CCCCeEEEEEecCCeEEEEEeCCC-eEEEEEecCCCcCCCCCcCccCCC--CEEEcCCCCCEECCCCCEecCCC------
Confidence 578877776 44444444454576 77 79999999999999987553 47999999999999999998763
Q ss_pred CCCccccccceeeccEEecCeEEEccCC
Q 015937 176 PVHTFEKACAAVYPSTVQHDIVWFWPNI 203 (398)
Q Consensus 176 ~~~~~~~~~l~~y~v~e~~G~V~v~~~~ 203 (398)
...|..|+|++++|.|||.+..
T Consensus 92 ------~~~L~~y~V~vedg~I~V~~~~ 113 (126)
T cd03471 92 ------PLSLALVHATVDDDKVVLSPWT 113 (126)
T ss_pred ------CCCCceEeEEEECCEEEEEECc
Confidence 2469999999999999997654
No 40
>cd00680 RHO_alpha_C C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC), and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and have an N-terminal domain, which binds a Rieske-like 2Fe-2S cluster, and a C-te
Probab=99.70 E-value=1.4e-16 Score=143.16 Aligned_cols=141 Identities=16% Similarity=0.080 Sum_probs=90.4
Q ss_pred eEEEEecChhhhhhhcCCCCccccccccccccCCCceeeccCCCcceEEEec------ccc------CCCc----ccccc
Q 015937 232 GNRDIPYGYEVLLENLMDPAHVPYAHYGLMRTRKPKVKLDREGGRPVEMSVN------KID------INGF----IGKQE 295 (398)
Q Consensus 232 ~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~~~~~~~~~~~e~~~~~~~~~~------~~~------~~g~----~~~~~ 295 (398)
..++++||||+++||++|+||++++|+++++...+. .... +........ ... .... .....
T Consensus 3 ~~~~~~~NWK~~~En~~E~YH~~~~H~~~~~~~~~~--~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (188)
T cd00680 3 YEYEVDCNWKLAVENFLECYHVPTVHPDTLATGLPL--PLLF-GDHYRVDDTGEGPGEGLSRHWGDGKGPQSALPGLKPG 79 (188)
T ss_pred eEEEeccCceEehhhccccccccccChhhhcccccc--Cccc-CCceEEEeccCCCCChhhcccchhhhccccccccccc
Confidence 357899999999999999999999999998742100 0000 000111100 000 0000 01112
Q ss_pred cceEEEeCeeEEEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCcccchhccchHHHHH-
Q 015937 296 WGSSKFLAPCIFFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQTWIDKVVPRWIFH- 374 (398)
Q Consensus 296 ~~~~~f~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~~~~~~~~~~~~h- 374 (398)
.....+++||+++..+ +..+.++.++|+++++|++.+.++........+...++...
T Consensus 80 ~~~~~~~fPn~~~~~~----------------------~~~~~~~~~~P~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~ 137 (188)
T cd00680 80 GYLYLYLFPNLMIGLY----------------------PDSLQVQQFVPIGPNKTRLEVRLYRPKDEDAREEFDAELESL 137 (188)
T ss_pred CeEEEEECCcEeeeec----------------------CCEEEEEEEEecCCCcEEEEEEEEEecccccchhhHHHHHHh
Confidence 3456789999987642 25778888999999999999887765443211122233322
Q ss_pred -HhhhhHHHHHHHHHHHHhhhhcc
Q 015937 375 -IGQNLILDSDLYLLHVEVIPVSV 397 (398)
Q Consensus 375 -~~~~~V~~ED~~ile~qqr~l~~ 397 (398)
.+...|++||..++|+||+|++|
T Consensus 138 ~~~~~~v~~ED~~~~e~~Q~gl~s 161 (188)
T cd00680 138 AGILRQVLDEDIELCERIQRGLRS 161 (188)
T ss_pred HHHHHHHHHHHHHHHHHHhccccC
Confidence 24689999999999999999986
No 41
>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=99.66 E-value=3.1e-16 Score=141.87 Aligned_cols=152 Identities=18% Similarity=0.295 Sum_probs=95.7
Q ss_pred EEEEecChhhhhhhcCCCCccccccccccccCCC------ceeecc-CCCcceEEEeccc--cCCCcc-cccccceEEEe
Q 015937 233 NRDIPYGYEVLLENLMDPAHVPYAHYGLMRTRKP------KVKLDR-EGGRPVEMSVNKI--DINGFI-GKQEWGSSKFL 302 (398)
Q Consensus 233 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~~~~~------~~~~~~-e~~~~~~~~~~~~--~~~g~~-~~~~~~~~~f~ 302 (398)
.++++|||+.++||++|++|++|||.++++.... ..+... +.+..+....... ...++. ....+....|+
T Consensus 5 ~~~~~~n~~~~~EN~~D~~H~~fvH~~~~g~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (196)
T cd08878 5 YRHIDCNWLQVVENLMDPSHVSFVHRSSIGRDAADLPSGPPKEVEEVPRGVTYRRWREDEDPPPFGFEGPVDRWRVIEFL 84 (196)
T ss_pred cEEecCCcEEEehhCccccchhhhChhhhCccccccccCCCceEEEeCCEEEEEEEecCCCCCCCCCCCCccEEEEEEEE
Confidence 5678999999999999999999999999875421 000000 0011011111110 001111 11234566899
Q ss_pred CeeEEEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCcccc-----hhccchHHHHHHhh
Q 015937 303 APCIFFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQTW-----IDKVVPRWIFHIGQ 377 (398)
Q Consensus 303 ~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~~-----~~~~~~~~~~h~~~ 377 (398)
+||+.+..+.....+ . ...+.....++.++|+++++|+++|.+.+++... ..++.+. ...+.
T Consensus 85 ~P~~~~~~~~~~~~~----------~-~~~~~~~~~~~~~tPid~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~ 151 (196)
T cd08878 85 LPNVLLIDPGVAPAG----------T-REQGVRMRVTHWITPIDETTTHYFWFFVRNFAPDEEKKDDEELTET--LRSGL 151 (196)
T ss_pred CCEEEEEecccccCC----------c-CCCcceEEEEEEEccCCCCeEEEEEEeccCCCCCccccCCHHHHHH--HHHHh
Confidence 999988765432111 0 1123456778888999999999999999887653 1223232 23467
Q ss_pred hhHHHHHHHHHHHHhhhhcc
Q 015937 378 NLILDSDLYLLHVEVIPVSV 397 (398)
Q Consensus 378 ~~V~~ED~~ile~qqr~l~~ 397 (398)
.+|++||+.|+|+||+++..
T Consensus 152 ~~v~~eD~~i~e~q~~~~~~ 171 (196)
T cd08878 152 SGAFNEDKEAVEAQQRIIDR 171 (196)
T ss_pred hhhchhHHHHHHHHHHHHhc
Confidence 89999999999999998653
No 42
>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=99.66 E-value=5e-16 Score=133.96 Aligned_cols=95 Identities=15% Similarity=0.127 Sum_probs=79.2
Q ss_pred EEeeecCCCCCCCcEEEEECC--EEEEEEEe---------CCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEE
Q 015937 90 YPLMPVCDLDKRVPHAKKVLG--LDVVVWWD---------RNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCF 158 (398)
Q Consensus 90 ~~v~~~~dL~~g~~~~~~l~g--~~ivv~R~---------~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~F 158 (398)
..||.++||++|+++.+.+.+ .+++|+|. .+| +++|++|.|||.+++|+.|. + ++.|.||+|||+|
T Consensus 7 ~~v~~~~dl~~g~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~G-~~~A~~~~CpH~g~~L~~~~-~-~~~i~CP~Hga~F 83 (129)
T TIGR02694 7 NRVANISELKLNEPLDFNYPDASSPGVLLKLGTPVEGGVGPDG-DIVAFSTLCTHMGCPVSYSA-D-NKTFNCPCHFSVF 83 (129)
T ss_pred eEEEeHHHCCCCCCEEEecCCCCCCEEEEecCCcccCccccCC-EEEEEeCcCCCCCccccccc-C-CCEEEcCCCCCEE
Confidence 458999999999999999875 47888884 466 99999999999999999875 3 3589999999999
Q ss_pred cCC--CccccCCCCCCCCCCCCccccccceeeccEEe-cCeEEE
Q 015937 159 SGS--GDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQ-HDIVWF 199 (398)
Q Consensus 159 d~~--G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~-~G~V~v 199 (398)
|.+ |+|+..|. ..+|.+|++++. +|.||.
T Consensus 84 dl~tgG~~~~gP~------------~~~L~~y~v~v~~~G~V~~ 115 (129)
T TIGR02694 84 DPEKGGQQVWGQA------------TQNLPQIVLRVADNGDIFA 115 (129)
T ss_pred CCCCCCcEECCCC------------CCCCCeeEEEEECCCeEEE
Confidence 954 69998663 346999999997 599994
No 43
>cd08885 RHO_alpha_C_1 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of a functionally uncharacterized subgroup of the Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and
Probab=99.65 E-value=1.5e-15 Score=138.76 Aligned_cols=144 Identities=19% Similarity=0.185 Sum_probs=88.9
Q ss_pred eEEEEecChhhhhhhcCCCCccccccccccccCCC-ceeec-cCCCc-ceEEEeccc---c-------CCCcccc-cccc
Q 015937 232 GNRDIPYGYEVLLENLMDPAHVPYAHYGLMRTRKP-KVKLD-REGGR-PVEMSVNKI---D-------INGFIGK-QEWG 297 (398)
Q Consensus 232 ~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~~~~~-~~~~~-~e~~~-~~~~~~~~~---~-------~~g~~~~-~~~~ 297 (398)
..++++||||+++||++|+||++++|++|+..... ....- ...+. ......... . ..+.... ....
T Consensus 4 ~~~~~~~NWK~~~en~~E~YH~~~~H~~t~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (190)
T cd08885 4 EEEVWDTNWKVLAENFMEGYHLPGLHPGTLHPFMPAELSYFRPEDGRGFTRHKGTKHFNETIEPAHPPNPGLTEEWRRRL 83 (190)
T ss_pred eeeeccCCchhhHhhcCccccccccccchhhccCchhhcccccCCCcceeeeecccccccCccccCCCCCCCChhhhcce
Confidence 46788999999999999999999999999864332 00000 11111 111111110 0 0111111 1234
Q ss_pred eEEEeCeeEEEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCcccchhccchHHH--HHH
Q 015937 298 SSKFLAPCIFFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQTWIDKVVPRWI--FHI 375 (398)
Q Consensus 298 ~~~f~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~~~~~~~~~~~--~h~ 375 (398)
...+++||+++..+ +..+.++.+.|+++++|++.+.++.......+.....+. ...
T Consensus 84 ~~~~iFPN~~i~~~----------------------~~~~~~~~~~P~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~ 141 (190)
T cd08885 84 VLFAIFPTHLLALT----------------------PDYVWWLSLLPEGAGRVRVRWGVLVAPEAADDPEAAEYIAELKA 141 (190)
T ss_pred EEEEECCcEEEEec----------------------CCeEEEEEEEecCCCeEEEEEEEEEcchhcccchhHHHHHHHHH
Confidence 56679999998752 245777888999999999988766543221111111222 112
Q ss_pred hhhhHHHHHHHHHHHHhhhhcc
Q 015937 376 GQNLILDSDLYLLHVEVIPVSV 397 (398)
Q Consensus 376 ~~~~V~~ED~~ile~qqr~l~~ 397 (398)
....|++||..++|++|+||+|
T Consensus 142 ~~~~v~~ED~~~~e~~Q~Gl~S 163 (190)
T cd08885 142 LLDAINDEDRLVVEGVQRGLGS 163 (190)
T ss_pred HHHHHHHHHHHHHHHhcccccC
Confidence 4568999999999999999987
No 44
>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=99.65 E-value=4.1e-16 Score=129.01 Aligned_cols=72 Identities=15% Similarity=0.364 Sum_probs=64.1
Q ss_pred cCCCCCCCcEEEEE-CCEEEEEEEeCCCCeEEEEecCCCCCCCCCCCC--ccCCCceEEccCCCeEEc-CCCccccCCC
Q 015937 95 VCDLDKRVPHAKKV-LGLDVVVWWDRNENEWRVFADACPHRLAPLSEG--RIDQWGRLQCVYHGWCFS-GSGDCKFIPQ 169 (398)
Q Consensus 95 ~~dL~~g~~~~~~l-~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G--~~~~~~~l~CpyHGw~Fd-~~G~c~~iP~ 169 (398)
+.+|.+|..+.+.+ .|.+|+|+|. +| +++|++|+|||++++|+.| .+++ +.|+||+|||+|| .+|+++.-|.
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-KS-ELKACKNQCKHQGGLFIKDIEDLDG-RTVRCTKHNWKLDVSTMKYVNPPD 89 (107)
T ss_pred HhcCCCCceEEEEecCCcEEEEEEE-CC-EEEEEcCCCCCCCccccCCcceEeC-CEEEeCCCCCEEEcCCCCCccCCc
Confidence 37888999999999 9999999997 66 9999999999999999984 5754 5899999999999 7999998664
No 45
>cd08883 RHO_alpha_C_CMO-like C-terminal catalytic domain of plant choline monooxygenase (CMO) and related aromatic ring hydroxylating dioxygenases. C-terminal catalytic domain of plant choline monooxygenase and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and have an N-terminal domain, which binds a Rieske-like 2Fe-2S cluster, and a C-
Probab=99.62 E-value=3.8e-15 Score=134.97 Aligned_cols=140 Identities=11% Similarity=0.145 Sum_probs=87.2
Q ss_pred eEEEEecChhhhhhhcCCCCccccccccccccCCC-ceeeccCCCcceEEEecccc-CCCccc-ccccceEEEeCeeEEE
Q 015937 232 GNRDIPYGYEVLLENLMDPAHVPYAHYGLMRTRKP-KVKLDREGGRPVEMSVNKID-INGFIG-KQEWGSSKFLAPCIFF 308 (398)
Q Consensus 232 ~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~~~~~-~~~~~~e~~~~~~~~~~~~~-~~g~~~-~~~~~~~~f~~P~~~~ 308 (398)
...+++||||+++||++|+||++++|++++..... ...... .+..........+ ..+... ........+++||+++
T Consensus 4 ~~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lFPN~~i 82 (175)
T cd08883 4 REYVIECNWKVYVDNYLEGYHVPFAHPGLAAVLDYATYRTEL-FEYVSLQSAPARAEEGSFFYRLGNAALYAWIYPNLML 82 (175)
T ss_pred EEeeeecCceEEehhcCCcccCcccchhHHhhcccCceEEEE-cCcEEEEEecccCCCCccccccCcCeEEEEECCCEee
Confidence 35788999999999999999999999999864321 110110 0111111111000 011111 1123445779999998
Q ss_pred EEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCcccc-hhccchHHHHHHhhhhHHHHHHHH
Q 015937 309 AYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQTW-IDKVVPRWIFHIGQNLILDSDLYL 387 (398)
Q Consensus 309 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~~-~~~~~~~~~~h~~~~~V~~ED~~i 387 (398)
..+ +..+.++.+.|+++++|++.+.++...... ....... .. . ...|++||..+
T Consensus 83 ~~~----------------------~~~~~~~~~~P~~p~~t~~~~~~~~~~~~~~~~~~~~~-~~-~-~~~v~~ED~~i 137 (175)
T cd08883 83 NRY----------------------PPGMDVNVVLPLGPERCKVVFDYFVDDSDGSDEAFIAE-SI-E-SDRVQKEDIEI 137 (175)
T ss_pred eec----------------------CCeEEEEEEEeCCCCcEEEEEEEEEeccccchhHHHHH-HH-H-HHHHHHHHHHH
Confidence 742 246777788999999999987765433221 1111111 11 2 57899999999
Q ss_pred HHHHhhhhcc
Q 015937 388 LHVEVIPVSV 397 (398)
Q Consensus 388 le~qqr~l~~ 397 (398)
+|.+|+||+|
T Consensus 138 ~e~vQ~Gl~S 147 (175)
T cd08883 138 CESVQRGLES 147 (175)
T ss_pred HHHHhhhhcC
Confidence 9999999987
No 46
>cd08887 RHO_alpha_C_3 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of a functionally uncharacterized subgroup of the Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and
Probab=99.59 E-value=9.2e-15 Score=132.61 Aligned_cols=144 Identities=11% Similarity=0.061 Sum_probs=87.6
Q ss_pred eEEEEecChhhhhhhcCCCCccccccccccccCCC-ceeeccCCCcceEEEec--------cccCCCcccccccceEEEe
Q 015937 232 GNRDIPYGYEVLLENLMDPAHVPYAHYGLMRTRKP-KVKLDREGGRPVEMSVN--------KIDINGFIGKQEWGSSKFL 302 (398)
Q Consensus 232 ~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~~~~~-~~~~~~e~~~~~~~~~~--------~~~~~g~~~~~~~~~~~f~ 302 (398)
...+++||||+++||++|+||++++|+++++.... ........+........ +.....+..........++
T Consensus 4 ~~~~~~~NWK~~~en~~E~YH~~~~H~~t~~~~~~~~~~~~~~~g~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 83 (185)
T cd08887 4 RRFDVAANWKLALDGFLEGYHFKVLHKNTIAPYFYDNLSVYDAFGPHSRIVFPRKSIESLRDLPEDEWDLRRHLTVIYTL 83 (185)
T ss_pred eeeecCCCceEehhhcccccccchhchhhhcccccCCceEEeccCCeeeeecchhhHHHHhcCChhHCCccCCeeEEEEE
Confidence 35788999999999999999999999999864321 10000010111111110 0000001101112234578
Q ss_pred CeeEEEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCcccchhccchHHH-HHHhh-hhH
Q 015937 303 APCIFFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQTWIDKVVPRWI-FHIGQ-NLI 380 (398)
Q Consensus 303 ~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~~~~~~~~~~~-~h~~~-~~V 380 (398)
+||+++..+ +..+.+..+.|+++++|.+.+.++.......++....+. ..... ..|
T Consensus 84 FPN~~i~~~----------------------~~~~~~~~~~P~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v 141 (185)
T cd08887 84 FPNVSLLVQ----------------------PDHLEIIQIEPGSPDRTRVTVYLLIPPPPDTEEARAYWDKNWDFLMAVV 141 (185)
T ss_pred CCceEEEec----------------------CCeEEEEEEEcCCCCceEEEEEEEecCCCCcHHHHHHHHHHHHHHHhhh
Confidence 999998642 246788888999999999987766543332111112222 11233 689
Q ss_pred HHHHHHHHHHHhhhhcc
Q 015937 381 LDSDLYLLHVEVIPVSV 397 (398)
Q Consensus 381 ~~ED~~ile~qqr~l~~ 397 (398)
++||..++|++|+|++|
T Consensus 142 ~~ED~~~~e~~Q~Gl~s 158 (185)
T cd08887 142 LDEDFEVAEEIQRGLAS 158 (185)
T ss_pred HHHHHHHHHHHhhhhhc
Confidence 99999999999999986
No 47
>cd08886 RHO_alpha_C_2 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of a functionally uncharacterized subgroup of the Rieske-type non-heme iron aromatic ring-hydroxylating oxygenase (RHO) family. RHOs, also known as aromatic ring hydroxylating dioxygenases, utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and
Probab=99.59 E-value=1.4e-14 Score=132.27 Aligned_cols=140 Identities=13% Similarity=0.068 Sum_probs=86.9
Q ss_pred eEEEEecChhhhhhhcCCCCccccccccccccCCC-ceeeccCCCcceEE----EeccccCCCcccc-cccceEEEeCee
Q 015937 232 GNRDIPYGYEVLLENLMDPAHVPYAHYGLMRTRKP-KVKLDREGGRPVEM----SVNKIDINGFIGK-QEWGSSKFLAPC 305 (398)
Q Consensus 232 ~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~~~~~-~~~~~~e~~~~~~~----~~~~~~~~g~~~~-~~~~~~~f~~P~ 305 (398)
..++++||||+++||++|+||++++|+++++.... ...... .+.-... ..... ...... .......+++||
T Consensus 4 ~~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~lFPN 80 (182)
T cd08886 4 LTSEIKANWKNVVDNYLECYHCHTAHPDFVDSLDMDTYKHTT-HGNYSSQMANYGSAEN--SEYSVKPDADFAFYWLWPN 80 (182)
T ss_pred EEEEeecccEEEEecCCccccCcccChhHHhcccccccEEEe-cCcEEEEEeccccccc--cccccccCcceeEEEEeCC
Confidence 46789999999999999999999999999864321 100000 0100011 00000 000011 122345679999
Q ss_pred EEEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCcccchhccchHHHHHHhhhhHH-HHH
Q 015937 306 IFFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQTWIDKVVPRWIFHIGQNLIL-DSD 384 (398)
Q Consensus 306 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~~~~~~~~~~~~h~~~~~V~-~ED 384 (398)
++++.+. +...+.++.+.|+++++|++.+.++..-....++. + ....+...|+ +||
T Consensus 81 ~~i~~~~--------------------~~~~~~~~~~~P~~p~~t~~~~~~~~~~~~~~~~~--~-~~~~~~~~v~~~ED 137 (182)
T cd08886 81 TMLNVYP--------------------GAGNMGVINIIPVDAETTLQHYDFYFRDEELTDEE--K-ELIEYYRQVLQPED 137 (182)
T ss_pred EEEEeeC--------------------CCCeEEEEEEEeCCCCeEEEEEEEEecCCCccHHH--H-HHHHHHHHhcchhh
Confidence 9987531 12368888899999999999876553211111111 1 1224567788 999
Q ss_pred HHHHHHHhhhhcc
Q 015937 385 LYLLHVEVIPVSV 397 (398)
Q Consensus 385 ~~ile~qqr~l~~ 397 (398)
..++|.+|+||+|
T Consensus 138 ~~l~e~vQ~Gl~S 150 (182)
T cd08886 138 LELVESVQRGLKS 150 (182)
T ss_pred HHHHHHHhccccc
Confidence 9999999999987
No 48
>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=99.57 E-value=1.1e-14 Score=125.25 Aligned_cols=92 Identities=18% Similarity=0.230 Sum_probs=77.8
Q ss_pred ecCCCCCCCcEEEEECCEEEEEEEeC----------------------------CCCeEEEEecCCCCCCCCCCCCccCC
Q 015937 94 PVCDLDKRVPHAKKVLGLDVVVWWDR----------------------------NENEWRVFADACPHRLAPLSEGRIDQ 145 (398)
Q Consensus 94 ~~~dL~~g~~~~~~l~g~~ivv~R~~----------------------------~Gg~v~A~~n~CpHRga~Ls~G~~~~ 145 (398)
..++|++|+.+.+.+.|++|+|+|.. +| +++|+.+.|||.|+.+..+.+.+
T Consensus 5 dl~~l~~G~~~~v~w~Gkpv~I~~rt~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~a~~~~CtH~gc~~~~~~~~~ 83 (126)
T cd03470 5 DLSKIEEGQLITVEWRGKPVFIRRRTPEEIAEAKAVDLSLLDDPDPAANRVRSGKP-EWLVVIGICTHLGCVPTYRAGDY 83 (126)
T ss_pred EhhhCCCCCEEEEEECCeEEEEEECCHHHHhhhhhcchhhcCCccccccccccCCC-cEEEEeCcCCCCCCeeccccCCC
Confidence 46789999999999999999999952 45 89999999999999988776443
Q ss_pred CceEEccCCCeEEcCCCccccCCCCCCCCCCCCccccccceeeccEEec-CeEEE
Q 015937 146 WGRLQCVYHGWCFSGSGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQH-DIVWF 199 (398)
Q Consensus 146 ~~~l~CpyHGw~Fd~~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~-G~V~v 199 (398)
+.+.||+|||+||.+|+.+..|. ...|..|++++.+ +.|+|
T Consensus 84 -~~~~CPcHgs~Fdl~G~~~~gPa------------~~~L~~~p~~~~~~~~l~i 125 (126)
T cd03470 84 -GGFFCPCHGSHYDASGRIRKGPA------------PLNLEVPPYKFLSDTTIVI 125 (126)
T ss_pred -CEEEecCcCCEECCCCeEecCCC------------CCCCCeeeEEEecCCEEEe
Confidence 57999999999999999988763 2469999999877 67765
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=99.55 E-value=1.1e-14 Score=118.68 Aligned_cols=84 Identities=45% Similarity=0.952 Sum_probs=70.7
Q ss_pred EeCeeEEEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCcccchhccchHHHHHHhhhhH
Q 015937 301 FLAPCIFFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQTWIDKVVPRWIFHIGQNLI 380 (398)
Q Consensus 301 f~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~~~~~~~~~~~~h~~~~~V 380 (398)
|++||+++.... .....+.+...+++++|+|++||+||++|+++++|..+..+++|+|+.|..+++|
T Consensus 1 F~pPc~v~~~~~-------------~~~~~~~~~~~~~~~~~vP~~pG~~Rli~r~~~~f~~~~~k~~P~wl~H~~~n~V 67 (92)
T PF08417_consen 1 FIPPCLVRSTEE-------------GPKKKSCGKRLHQVFYCVPTGPGRCRLIWRFPRNFPAWIFKLIPRWLSHLTSNKV 67 (92)
T ss_pred CCCCEEEEEecc-------------ccccCCCCCEEEEEEEEEECCCCeEEEEEEehhhhhhHHhhcCCHHHHHHhhCcc
Confidence 689999987610 0011224567889999999999999999999999977888999999999999999
Q ss_pred HHHHHHHHHHHhhhhcc
Q 015937 381 LDSDLYLLHVEVIPVSV 397 (398)
Q Consensus 381 ~~ED~~ile~qqr~l~~ 397 (398)
+|||+.+||.|||.++.
T Consensus 68 Ld~Dl~lLh~Qe~~l~~ 84 (92)
T PF08417_consen 68 LDQDLYLLHGQERRLAR 84 (92)
T ss_pred cHHHHHHHHHHHHHHHH
Confidence 99999999999998864
No 50
>cd08884 RHO_alpha_C_GbcA-like C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases. C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components an
Probab=99.54 E-value=7.2e-14 Score=129.83 Aligned_cols=143 Identities=12% Similarity=0.065 Sum_probs=88.2
Q ss_pred eEEEEecChhhhhhhcCCCCccccccccccccCCCceeeccC------CC-----cce-----EEEecccc----CCCcc
Q 015937 232 GNRDIPYGYEVLLENLMDPAHVPYAHYGLMRTRKPKVKLDRE------GG-----RPV-----EMSVNKID----INGFI 291 (398)
Q Consensus 232 ~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~~~~~~~~~~~e------~~-----~~~-----~~~~~~~~----~~g~~ 291 (398)
..+.++||||+++||++|+||++++|+++.....+...+... .+ .+. ........ ..+..
T Consensus 14 ~~~~~~~NWK~~~en~~e~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~ 93 (205)
T cd08884 14 ISYEVAANWKLVVENYRECYHCAGVHPELARSLSEFDDGGNPDPEAGGADFRGRRGPLRGGAESFTMDGKAVAPPLPGLT 93 (205)
T ss_pred eEEEEccCceehhHhCcccccCccccHHHHhhcccccccccccccccccceeeecccccCCceeecCCCCcccCCCCCCC
Confidence 467889999999999999999999999987411110000000 00 000 01110000 01111
Q ss_pred c-ccccceEEEeCeeEEEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCcccch-hccch
Q 015937 292 G-KQEWGSSKFLAPCIFFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQTWI-DKVVP 369 (398)
Q Consensus 292 ~-~~~~~~~~f~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~~~-~~~~~ 369 (398)
. ........+++||+++..+ +..+.++.+.|+++++|++.+.++....... ....
T Consensus 94 ~~~~~~~~~~~lfPN~~~~~~----------------------~d~~~~~~~~P~~p~~t~~~~~~~~~~~~~~~~~~~- 150 (205)
T cd08884 94 EADDRGALYYTLYPNSFLHLH----------------------PDHVVTFRVLPLSPDETLVRCKWLVHPDAVEGVDYD- 150 (205)
T ss_pred ccccCceEEEEeCCcEEEEEc----------------------CCEEEEEEEEeCCCCceEEEEEEEECCchhcccccC-
Confidence 1 1123456779999987642 3578888899999999999877664432210 1110
Q ss_pred HHHHHHhhhhHHHHHHHHHHHHhhhhcc
Q 015937 370 RWIFHIGQNLILDSDLYLLHVEVIPVSV 397 (398)
Q Consensus 370 ~~~~h~~~~~V~~ED~~ile~qqr~l~~ 397 (398)
......+...|++||..|+|.+|||++|
T Consensus 151 ~~~~~~~~~~v~~ED~~i~e~vQ~Gl~S 178 (205)
T cd08884 151 LDDLVEVWDATNRQDWAICERNQRGVNS 178 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccccC
Confidence 1122346679999999999999999987
No 51
>PRK13474 cytochrome b6-f complex iron-sulfur subunit; Provisional
Probab=99.50 E-value=1.4e-13 Score=125.30 Aligned_cols=88 Identities=19% Similarity=0.185 Sum_probs=72.1
Q ss_pred CCCCcEEEE-ECCEE-EEEEEeCCCCeE--EEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcCCCccccCCCCCCCC
Q 015937 99 DKRVPHAKK-VLGLD-VVVWWDRNENEW--RVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSGSGDCKFIPQAPPDG 174 (398)
Q Consensus 99 ~~g~~~~~~-l~g~~-ivv~R~~~Gg~v--~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~~G~c~~iP~~~~~~ 174 (398)
++|++..+. +.|.. +++.+ .+| ++ +|+++.|||.|++|+.+..+ +.|.||+|||+||.+|+.+..|.
T Consensus 73 ~~g~~~~v~~~~g~~~~lv~~-~~g-~~~~~a~~~~CtH~gc~l~~~~~~--~~~~CP~Hgs~Fd~tG~~~~gPa----- 143 (178)
T PRK13474 73 PAGDRSLVQGLKGDPTYLVVE-EDG-TIASYGINAVCTHLGCVVPWNSGE--NKFQCPCHGSQYDATGKVVRGPA----- 143 (178)
T ss_pred CCCCcEEEEEcCCCeEEEEEe-CCC-EEEEEEecCCCCCCCCccccccCC--CEEEecCcCCEECCCCCCccCCC-----
Confidence 567777776 66777 55554 466 89 67799999999999988754 37999999999999999988763
Q ss_pred CCCCccccccceeeccEEecCeEEEccC
Q 015937 175 PPVHTFEKACAAVYPSTVQHDIVWFWPN 202 (398)
Q Consensus 175 ~~~~~~~~~~l~~y~v~e~~G~V~v~~~ 202 (398)
...|+.|++++++|.|+|.+-
T Consensus 144 -------~~~L~~y~v~v~~g~v~v~~~ 164 (178)
T PRK13474 144 -------PLSLALVHVTVEDDKVLFSPW 164 (178)
T ss_pred -------CCCCCeEeEEEECCEEEEEEe
Confidence 346999999999999999763
No 52
>PF00848 Ring_hydroxyl_A: Ring hydroxylating alpha subunit (catalytic domain); InterPro: IPR015879 Aromatic ring hydroxylating dioxygenases are multicomponent 1,2-dioxygenase complexes that convert closed-ring structures to non-aromatic cis-diols []. The complex has both hydroxylase and electron transfer components. The hydroxylase component is itself composed of two subunits: an alpha-subunit of about 50 kDa, and a beta-subunit of about 20 kDa. The electron transfer component is either composed of two subunits: a ferredoxin and a ferredoxin reductase or by a single bifunctional ferredoxin/reductase subunit. Sequence analysis of hydroxylase subunits of ring hydroxylating systems (including toluene, benzene and napthalene 1,2-dioxygenases) suggests they are derived from a common ancestor []. The alpha-subunit binds both a Rieske-like 2Fe-2S cluster and an iron atom: conserved Cys and His residues in the N-terminal region may provide 2Fe-2S ligands, while conserved His and Tyr residues may coordinate the iron. The beta subunit may be responsible for the substrate specificity of the dioxygenase system [].; GO: 0005506 iron ion binding, 0016708 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of two atoms of oxygen into one donor, 0051537 2 iron, 2 sulfur cluster binding, 0019439 aromatic compound catabolic process, 0055114 oxidation-reduction process; PDB: 1WQL_A 3EN1_A 3EQQ_A 2CKF_A 2BMR_A 2BMQ_A 2BMO_A 2GBW_E 2GBX_C 2XRX_A ....
Probab=99.38 E-value=4.6e-13 Score=121.78 Aligned_cols=142 Identities=11% Similarity=0.106 Sum_probs=82.0
Q ss_pred EEEEecChhhhhhhcCCCCccccccccccccCCC-c--------eeeccCCCcce----EEEe-----ccccCCCccc--
Q 015937 233 NRDIPYGYEVLLENLMDPAHVPYAHYGLMRTRKP-K--------VKLDREGGRPV----EMSV-----NKIDINGFIG-- 292 (398)
Q Consensus 233 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~~~~~-~--------~~~~~e~~~~~----~~~~-----~~~~~~g~~~-- 292 (398)
.++++||||+++||++|+||++++|+++++.... . ......++... .... ......+...
T Consensus 11 ~~~~~~NWK~~~EN~~e~YH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (209)
T PF00848_consen 11 RYEVDCNWKLAVENFLEGYHVPFLHPSTLGFFDPSNDEQAEIASVEFFGGHGSVWAGRMREEPQPEPSERRAWKGRPFPP 90 (209)
T ss_dssp HHHESS-HHHHHHHHHHCTTHHHHTHHHHHHHSCTTGGHHEEEEEEEESSTCEEETHHHHHHHHHHHHHHHHSHHHHHHH
T ss_pred EEEecccceEHHHhCcccccccccccchhhhhhccccccccccccccccccccccccccccccccccchhhhhhhhhccc
Confidence 4568999999999999999999999999753331 0 00000111000 0000 0000000000
Q ss_pred -----ccccceEEEeCeeEEEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCccc-chhc
Q 015937 293 -----KQEWGSSKFLAPCIFFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQT-WIDK 366 (398)
Q Consensus 293 -----~~~~~~~~f~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~-~~~~ 366 (398)
........+++||+++... +..+.++.+.|+++++|++.+..+..... ..++
T Consensus 91 ~~~~~~~~~~~~~~iFPn~~i~~~----------------------~~~~~~~~~~P~~p~~t~~~~~~~~~~~~~~~~~ 148 (209)
T PF00848_consen 91 GLPDDQRMGYRNYVIFPNLSIIVY----------------------PDHFTVRTIIPIGPDRTEVWSWWFVPKDEGAPPE 148 (209)
T ss_dssp HHHHHHHTSEEEEEETTTEEEEE-----------------------TTTTEEEEEEEESTTEEEEEEEEEEETT--STHH
T ss_pred cccccccccccceeeCCCEEEEec----------------------ccccEEEEEEECCCCeEEEEEEEEEeCCcccchh
Confidence 0012356789999998742 12344778899999999999776654442 1122
Q ss_pred cchHHHHHHhhhh--HHHHHHHHHHHHhhhhcc
Q 015937 367 VVPRWIFHIGQNL--ILDSDLYLLHVEVIPVSV 397 (398)
Q Consensus 367 ~~~~~~~h~~~~~--V~~ED~~ile~qqr~l~~ 397 (398)
+...+. ...... |+.||..++|+||++++|
T Consensus 149 ~~~~~~-~~~~~~~~~~~ED~~~~e~~Q~gl~s 180 (209)
T PF00848_consen 149 FREARI-RNWDRFFGVFAEDIEIVERQQRGLRS 180 (209)
T ss_dssp HHHHHH-HHHHHHHSTHHHHHHHHHHHHHHTTS
T ss_pred hHHHHH-HHHHhcCcHHHHHHHHHHHHHHHHcC
Confidence 222221 111122 999999999999999976
No 53
>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=99.32 E-value=6.6e-12 Score=113.89 Aligned_cols=95 Identities=18% Similarity=0.191 Sum_probs=76.5
Q ss_pred CcEEeeecCCCCCCCcEEEEECCEEEEEEEeC----------------------------------CCCeEEEEecCCCC
Q 015937 88 QWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDR----------------------------------NENEWRVFADACPH 133 (398)
Q Consensus 88 ~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~----------------------------------~Gg~v~A~~n~CpH 133 (398)
.|..| ..++|++|+.+.+.+.|.+|+|+|.. ++ +++|+.+.|||
T Consensus 40 ~~~~v-~l~eL~pG~~~~v~~~GkpI~I~~~t~~~~~~~~~~~~~~l~Dp~~~~~~~~~~~~~r~~~~-~~~a~~~~CtH 117 (174)
T TIGR01416 40 APTEV-DVSKIQPGQQLTVEWRGKPVFIRRRTKKEIDALKALDLGALKDPNSEAQQPDYARVKRSGKP-EWLVVIGICTH 117 (174)
T ss_pred CcEEE-EHHHCCCCCeEEEEECCeEEEEEeCCHHHhhhhhccchhhcCCCcccccCcchhhhhhccCC-cEEEEEeccCC
Confidence 36777 78999999999999999999999862 35 89999999999
Q ss_pred CCCCC-CCCccCCCceEEccCCCeEEcCCCccccCCCCCCCCCCCCccccccceeeccEEecCe
Q 015937 134 RLAPL-SEGRIDQWGRLQCVYHGWCFSGSGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDI 196 (398)
Q Consensus 134 Rga~L-s~G~~~~~~~l~CpyHGw~Fd~~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~ 196 (398)
.|+.+ ..+..+..+.+.||+||++||.+|+.+..|. ...|..|+++..++.
T Consensus 118 ~Gc~~~~~~~~~~~~~~~CPcHgs~Fd~~G~~~~gpa------------~~~L~~~~~~~~~~~ 169 (174)
T TIGR01416 118 LGCIPTYGPEEGDKGGFFCPCHGSHYDTAGRVRKGPA------------PLNLPVPPYKFLSDT 169 (174)
T ss_pred CCCccccccCCCCCCEEEeCCCCCEECCCCcEecCCC------------CCCCCCCCEEEcCCC
Confidence 99655 4454432356999999999999999988763 346889998876653
No 54
>cd08880 RHO_alpha_C_ahdA1c-like C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins. C-terminal catalytic domain of the large subunit (ahdA1c) of the AhdA3A4A2cA1c salicylate 1-hydroxylase complex from Sphingomonas sp. strain P2, and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). AhdA3A4A2cA1c is one of three known isofunctional salicylate 1-hydroxylase complexes in strain P2, involved in phenanthrene degradation, which catalyze the monooxygenation of salicylate, the metabolite of phenanthene degradation, to produce catechol. This complex prefers salicylate over other substituted salicylates; the other two salicylate 1-hydroxylases have different substrate preferences. RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative deg
Probab=99.18 E-value=1.2e-10 Score=109.83 Aligned_cols=141 Identities=16% Similarity=0.158 Sum_probs=83.2
Q ss_pred EEEEecChhhhhhhcCCCCccccccc--cccccCCC--c--eeeccCCCcceEEEecccc---------------CCCcc
Q 015937 233 NRDIPYGYEVLLENLMDPAHVPYAHY--GLMRTRKP--K--VKLDREGGRPVEMSVNKID---------------INGFI 291 (398)
Q Consensus 233 ~~~~~~nwk~~~EN~lD~~H~~~vH~--~~~~~~~~--~--~~~~~e~~~~~~~~~~~~~---------------~~g~~ 291 (398)
...+++|||+.+||++|.||++.+|. .+++.... . ...+..++ ...+...... ...+.
T Consensus 5 ~~~~~~nwk~~~~~~~~~yh~~~~h~~~~t~g~~~~~~~~~~~~~~~g~-H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (222)
T cd08880 5 RQRIPGNWKLYAENVKDPYHASLLHLFFVTFGLWRADQKSSIIDDEHGR-HSVMTSTKSGDDEAAEKDSEEIRSFRDDFT 83 (222)
T ss_pred eeecCCCcHHHHHhccCcchHHHHhhhheeeecccCCCCCceEEecCCC-ceEEEEecCCCcccccchHHHHHHHhhccc
Confidence 46789999999999999999999999 77753221 1 11111111 1111111000 00111
Q ss_pred c-------------ccccceEEEeCeeEEEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeec
Q 015937 292 G-------------KQEWGSSKFLAPCIFFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPR 358 (398)
Q Consensus 292 ~-------------~~~~~~~~f~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r 358 (398)
. .........++||+.+.. .+..+.+..+.|+++++|++.|.++.
T Consensus 84 l~d~~~~~~~~e~~~~~~~~~~~iFPNl~l~~----------------------~~~~l~v~~~~P~gpd~t~~~~~~~~ 141 (222)
T cd08880 84 LLDPSLLDGRAEFDDDITLVIQSIFPSLVVQQ----------------------IQNTLAVRHIIPKGPDSFELVWTYFG 141 (222)
T ss_pred cCCHHHHhhhHhhcCCCceEEEEECCCEEEec----------------------cCCcEEEEEEEecCCCeEEEEEEEEE
Confidence 0 001124567899998753 22467777889999999998877653
Q ss_pred CcccchhccchHHHHHHh----hhhHHHHHHHHHHHHhhhhcc
Q 015937 359 NFQTWIDKVVPRWIFHIG----QNLILDSDLYLLHVEVIPVSV 397 (398)
Q Consensus 359 ~f~~~~~~~~~~~~~h~~----~~~V~~ED~~ile~qqr~l~~ 397 (398)
... ..++....+..+.. ...|.+||..++|.+|++++|
T Consensus 142 ~~~-~~~e~~~~~~~~~~~~gp~g~v~~ED~ei~e~vQ~Gl~s 183 (222)
T cd08880 142 YED-DDEEMTRLRLRQANLVGPAGFVSMEDGEAIEFVQRGVEG 183 (222)
T ss_pred ecC-CCHHHHHHHHHHhcccCCcCCCccchHHHHHHhCchhcC
Confidence 221 11211122222111 135889999999999999986
No 55
>cd08882 RHO_alpha_C_MupW-like C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases. C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas fluorescens MupW and related Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs, also known as aromatic ring hydroxylating dioxygenases). RHOs utilize non-heme Fe(II) to catalyze the addition of hydroxyl groups to the aromatic ring, an initial step in the oxidative degradation of aromatic compounds. RHOs are composed of either two or three protein components, and are comprised of an electron transport chain (ETC) and an oxygenase. The ETC transfers reducing equivalents from the electron donor to the oxygenase component, which in turn transfers electrons to the oxygen molecules. The oxygenase components are oligomers, either (alpha)n or (alpha)n(beta)n. The alpha subunits are the catalytic components and have an N-terminal domain, which binds a Rieske-l
Probab=99.05 E-value=5.2e-10 Score=106.85 Aligned_cols=32 Identities=25% Similarity=0.424 Sum_probs=28.9
Q ss_pred eeEEEEecChhhhhhhcCCCCccccccccccc
Q 015937 231 FGNRDIPYGYEVLLENLMDPAHVPYAHYGLMR 262 (398)
Q Consensus 231 ~~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~ 262 (398)
+....++||||+++|||+|.||++++|+.+..
T Consensus 3 ~~~~~~~~NWK~~~en~~e~yH~~~~H~~~~~ 34 (243)
T cd08882 3 HVTKVLPCNWKVAQEAFNESYHVPTTHPQLLP 34 (243)
T ss_pred EEEEEecCCCeeeHHhcCCcccCcccchhHHH
Confidence 34678899999999999999999999999875
No 56
>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=98.88 E-value=5.2e-09 Score=99.55 Aligned_cols=140 Identities=18% Similarity=0.167 Sum_probs=79.4
Q ss_pred EEEEecChhhhhhhcCCCCccccccccccccC-----CC---ceee-----------ccCCCcceEEEeccccC------
Q 015937 233 NRDIPYGYEVLLENLMDPAHVPYAHYGLMRTR-----KP---KVKL-----------DREGGRPVEMSVNKIDI------ 287 (398)
Q Consensus 233 ~~~~~~nwk~~~EN~lD~~H~~~vH~~~~~~~-----~~---~~~~-----------~~e~~~~~~~~~~~~~~------ 287 (398)
.+.++||||+++||+.|.||++++|..++... .. .... .-.++..+.........
T Consensus 5 ~~~~~~nWK~~~en~~d~yH~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nGH~~~~~~~~~~~~~~~~~ 84 (237)
T cd08879 5 RYRYRGNWKLQLENGTDGYHPPFVHASYVATTGAAAADATRGGLSSFMTGPQGGGVRDLGNGHSVLDSRPEIPRLDADRP 84 (237)
T ss_pred EEEeeceEEEEeeecCccccCccccHHHHHhhhhhhccccccccccccccccCCceEecCCCcEEEEecccccccccccc
Confidence 56789999999999999999999999988421 00 0000 00011111111000000
Q ss_pred -CCcc----------ccc--cc-----ceEEEeCeeEEEEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCe
Q 015937 288 -NGFI----------GKQ--EW-----GSSKFLAPCIFFAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGH 349 (398)
Q Consensus 288 -~g~~----------~~~--~~-----~~~~f~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~ 349 (398)
..+. +.. +. .....+|||+.+... ...+..+.|++|++
T Consensus 85 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~IFPNl~i~~~------------------------~~~ir~~~P~~pd~ 140 (237)
T cd08879 85 KPPIAEYRAALVAAHGEERARRILRGRGRNLNIFPNLFIIDI------------------------SQQIRVIRPIAVDE 140 (237)
T ss_pred cCccHHHHHHHHHHHhHHHHHHHHcCCCceeEEcCCeeeccC------------------------cceEEEEEcCCCCe
Confidence 0000 000 11 134578999987531 34566678999999
Q ss_pred EEEEEEeecCcccchhccchHHH-HHH----hhhhHHHHHHHHHHHHhhhhcc
Q 015937 350 SRLIWAFPRNFQTWIDKVVPRWI-FHI----GQNLILDSDLYLLHVEVIPVSV 397 (398)
Q Consensus 350 tr~~~~~~r~f~~~~~~~~~~~~-~h~----~~~~V~~ED~~ile~qqr~l~~ 397 (398)
|.+.+.++...... +....++. ... ....|.+||..+++.+|++++|
T Consensus 141 t~v~~~~l~~~~a~-~e~~~~~~~~~~~~~~~~g~v~~ED~e~~e~~Q~Gl~s 192 (237)
T cd08879 141 TEVTSWALRPKGAP-DEVNRRRLRYSEDFFGPSGFATPDDLEAFERCQRGLAA 192 (237)
T ss_pred EEEEEEEEEeCCCC-HHHHHHHHHHhhcccccccCCccchHHHHHHHHHHhcC
Confidence 99986555543321 11122222 111 1236888999999999999976
No 57
>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=98.87 E-value=7.6e-09 Score=96.46 Aligned_cols=137 Identities=12% Similarity=-0.040 Sum_probs=77.7
Q ss_pred eEEEEecChhhhhhhcC-CCCccccccccccccCCCcee---eccCCCcceEEEeccccCCCcccccccceEEEeCeeEE
Q 015937 232 GNRDIPYGYEVLLENLM-DPAHVPYAHYGLMRTRKPKVK---LDREGGRPVEMSVNKIDINGFIGKQEWGSSKFLAPCIF 307 (398)
Q Consensus 232 ~~~~~~~nwk~~~EN~l-D~~H~~~vH~~~~~~~~~~~~---~~~e~~~~~~~~~~~~~~~g~~~~~~~~~~~f~~P~~~ 307 (398)
..+.++||||+++||++ |.||++++|..++........ .....+.. +.... ...|+..........+++||+.
T Consensus 9 ~~~~~~~NWK~~~en~~~d~yH~~~~H~~~~~~~~~~~~~~~~~~~~g~~--~~~~~-~GHg~~~~~~~~~~~~iFPN~~ 85 (206)
T cd08881 9 QKWVIKANWKLAAENFAGDGYHTGTTHASALEAGLPPDAADLPPIDLGLQ--FTAPW-HGHGLGFFLDSPQHGTIFPNLS 85 (206)
T ss_pred EEEEecCcceehhhccccccccchhhhHHHHHhhCCcccccCCCCCCCcE--EEeCC-CCeEEEEeccCcceeeECCcch
Confidence 35788999999999999 999999999999753221000 00000100 00000 0011100000123456889887
Q ss_pred EEEeecccccccCCCccccchhhccCcceEEEEEEEeCCCCeEEEEEEeecCcccchhccchHHHHHHhhhh-------H
Q 015937 308 FAYTDLMKDQENGSASSAGAEKKLEQQRAALIFICVPVSPGHSRLIWAFPRNFQTWIDKVVPRWIFHIGQNL-------I 380 (398)
Q Consensus 308 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~s~~~tr~~~~~~r~f~~~~~~~~~~~~~h~~~~~-------V 380 (398)
+... . .+.+....|+++++|.+.+.+.+..... +.+..++. ..... +
T Consensus 86 ~~~~----------------------~-~~~~r~~~P~gp~~tev~~~~~~~kda~-e~~~~~~~--~~~~~~~gpaG~~ 139 (206)
T cd08881 86 FLPG----------------------Y-FNTLRVWHPRGPDETEVWTWTLVDKDAP-EEVKDRVR--RQYTRTFGPAGTF 139 (206)
T ss_pred hhhc----------------------c-CceEEEEEeCCCCeEEEEEEEEecCCCC-HHHHHHHH--HHHHhccCCcCCC
Confidence 6531 1 3455556899999999876666544332 22222222 11122 3
Q ss_pred HHHHHHHHHHHhhhhcc
Q 015937 381 LDSDLYLLHVEVIPVSV 397 (398)
Q Consensus 381 ~~ED~~ile~qqr~l~~ 397 (398)
-.||..++|.+|++++.
T Consensus 140 ~~DD~e~~e~~Q~g~~~ 156 (206)
T cd08881 140 EQDDGENWEEITRVARG 156 (206)
T ss_pred cCchHHHHHHHHHhhcc
Confidence 35999999999999863
No 58
>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=98.85 E-value=1.3e-08 Score=91.34 Aligned_cols=66 Identities=15% Similarity=0.147 Sum_probs=49.9
Q ss_pred CCCeEEEEecCCCCCCCCCCC---------------CccCCCceEEccCCCeEEcC-CC-ccccCCCCCCCCCCCCcccc
Q 015937 120 NENEWRVFADACPHRLAPLSE---------------GRIDQWGRLQCVYHGWCFSG-SG-DCKFIPQAPPDGPPVHTFEK 182 (398)
Q Consensus 120 ~Gg~v~A~~n~CpHRga~Ls~---------------G~~~~~~~l~CpyHGw~Fd~-~G-~c~~iP~~~~~~~~~~~~~~ 182 (398)
+| +++|+++.|||+|++|.. |... .+.|.||+|||+||. +| ..+..| ..
T Consensus 74 ~g-~IvA~S~iCpHlGc~l~~~~~y~~~~~~~~~~~g~~~-~~~i~CPcHgS~FD~~tGg~v~~GP------------A~ 139 (171)
T cd03475 74 NK-SIVAFSAICQHLGCQPPPIVSYPSYYPPDKAPGLASK-GAVIHCCCHGSTYDPYKGGVVLTGP------------AP 139 (171)
T ss_pred CC-EEEEEeCcCCCCCCccccccccccccccccccccccc-CCEEEcCCCCCEEeCCCCCeEcCCC------------CC
Confidence 45 999999999999998752 3343 358999999999995 56 444434 23
Q ss_pred ccceeeccEEec--CeEEE
Q 015937 183 ACAAVYPSTVQH--DIVWF 199 (398)
Q Consensus 183 ~~l~~y~v~e~~--G~V~v 199 (398)
..|..|.+++.+ |.||+
T Consensus 140 ~pLp~~~L~~d~~~d~iyA 158 (171)
T cd03475 140 RPLPAVILEYDSSTDDLYA 158 (171)
T ss_pred CCcCEeEEEEeCCCCcEEE
Confidence 468999998884 77887
No 59
>COG0723 QcrA Rieske Fe-S protein [Energy production and conversion]
Probab=98.29 E-value=1.8e-06 Score=78.62 Aligned_cols=64 Identities=17% Similarity=0.241 Sum_probs=50.1
Q ss_pred eEEEEecCCCCCCCCCCC-CccCCCceEEccCCCeEEcCCCccccCCCCCCCCCCCCccccccceeeccEEecCeEEE
Q 015937 123 EWRVFADACPHRLAPLSE-GRIDQWGRLQCVYHGWCFSGSGDCKFIPQAPPDGPPVHTFEKACAAVYPSTVQHDIVWF 199 (398)
Q Consensus 123 ~v~A~~n~CpHRga~Ls~-G~~~~~~~l~CpyHGw~Fd~~G~c~~iP~~~~~~~~~~~~~~~~l~~y~v~e~~G~V~v 199 (398)
+|.|+...|.|.|+.... +... .+.+.||+||.+||.+|+.+..|. ...|..++++..++-+++
T Consensus 100 ~~~a~~~iCtHlGC~~~~~~~~~-~~~~~CPCHGS~yd~~g~vv~GPA------------~~~L~~~~~~~~~d~~~~ 164 (177)
T COG0723 100 EIVAYSAICTHLGCTVPWNNAGA-EGGFFCPCHGSRYDPDGGVVKGPA------------PRPLPIPPLEYDSDKLYL 164 (177)
T ss_pred cEEEEeeeccCCCCccCcccCCC-CCeEEccCCCCeEcCCCCeeCCCC------------CCCcCCceEEEeCCceEE
Confidence 466999999999999987 3333 357999999999999999888763 245788888777774444
No 60
>KOG1671 consensus Ubiquinol cytochrome c reductase, subunit RIP1 [Energy production and conversion]
Probab=97.96 E-value=1.2e-05 Score=73.17 Aligned_cols=72 Identities=25% Similarity=0.298 Sum_probs=53.7
Q ss_pred CCCCCCCcEEEEECCEEEEE--------------------------EEeCCCCeEEEEecCCCCCCCCCCCCccCCCceE
Q 015937 96 CDLDKRVPHAKKVLGLDVVV--------------------------WWDRNENEWRVFADACPHRLAPLSEGRIDQWGRL 149 (398)
Q Consensus 96 ~dL~~g~~~~~~l~g~~ivv--------------------------~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l 149 (398)
.+|++|+-.+++..|+++++ -|.++= +|.++..+|.|.|+-.-....+. |..
T Consensus 93 ~~IPeGk~~~~kwrGkpvfirhrt~~ei~~~r~V~~s~lrDPq~d~~rvk~~-ewl~~igVCThLGCVp~~~AGd~-gg~ 170 (210)
T KOG1671|consen 93 SDIPEGKTVAFKWRGKPVFIRHRTKAEIEGERNVPQSTLRDPQDDVDRVKKP-EWLVVIGVCTHLGCVPIANAGDY-GGY 170 (210)
T ss_pred ecCCCCCCcceeccCCceEEeeccccccccccccchhhccCchhhhhhccCc-ceEEEEeeecccccccccccccc-Cce
Confidence 35555666666666666665 244454 68999999999998876544432 349
Q ss_pred EccCCCeEEcCCCccccCCC
Q 015937 150 QCVYHGWCFSGSGDCKFIPQ 169 (398)
Q Consensus 150 ~CpyHGw~Fd~~G~c~~iP~ 169 (398)
-||+||..||..|+....|.
T Consensus 171 ~CPCHGSHYdasGRIrkGPA 190 (210)
T KOG1671|consen 171 YCPCHGSHYDASGRIRKGPA 190 (210)
T ss_pred ecccccccccccCceecCCC
Confidence 99999999999999999984
No 61
>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=97.77 E-value=5.5e-05 Score=73.95 Aligned_cols=66 Identities=11% Similarity=0.085 Sum_probs=47.4
Q ss_pred eEEEEecCCCCCCCCCCCC------cc------------------------CCCceEEccCCCeEEcC-C-CccccCCCC
Q 015937 123 EWRVFADACPHRLAPLSEG------RI------------------------DQWGRLQCVYHGWCFSG-S-GDCKFIPQA 170 (398)
Q Consensus 123 ~v~A~~n~CpHRga~Ls~G------~~------------------------~~~~~l~CpyHGw~Fd~-~-G~c~~iP~~ 170 (398)
.|.||+..|+|.|+++..- .+ ...+.|.||+||.+||. + |+.+..|..
T Consensus 177 ~IVAyS~IC~H~GC~~~~~~~Ypp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CPCHgS~FD~~~gg~Vv~GPA~ 256 (321)
T TIGR03171 177 SIVAYSAICQHLGCTPPYIHFYPPNYVNPSQLTAPEPDQLTAQALLAAKQANVPALIHCDCHGSTYDPYHGAAVLTGPTV 256 (321)
T ss_pred CEEEEecccCcCCCCcchhhccCcccccccccccccccccchhhhhhhhccCCCCeEECCCCCCEECCCCCCceeCCCCC
Confidence 6999999999999988321 00 00137999999999995 3 578887742
Q ss_pred CCCCCCCCccccccceeeccEEe--cCeEEEc
Q 015937 171 PPDGPPVHTFEKACAAVYPSTVQ--HDIVWFW 200 (398)
Q Consensus 171 ~~~~~~~~~~~~~~l~~y~v~e~--~G~V~v~ 200 (398)
..|..+++++. .|.|++-
T Consensus 257 ------------rpLp~i~l~~d~~~~~l~Av 276 (321)
T TIGR03171 257 ------------RPLPAVILEWDSSTDYLYAI 276 (321)
T ss_pred ------------CCCCcceEEEeCCCCeEEEE
Confidence 34777777765 4677763
No 62
>PF11723 Aromatic_hydrox: Homotrimeric ring hydroxylase; InterPro: IPR021028 This entry represents the catalytic domain from a family of homotrimeric enzymes that hydroxylate aromatic compounds, including 2-oxo-1,2-dihydroquinoline 8-monooxygenase from Pseudomonas putida and carbazole 1,9a-dioxygenase from Janthinobacterium. The catalytic domain is found C-termnial to the iron-sulphur-binding Rieske domain and is composed of antiparallel beta sheets and alpha helices []. It is part of a much larger superfamily of lipid binding domains which form a common fold that works as a versatile scaffold for binding bulky ligands [].; PDB: 1Z03_D 1Z01_E 1Z02_F 2DE6_A 2DE7_C 1WW9_A 2DE5_C 3GKQ_F 3GCF_L.
Probab=97.48 E-value=0.00096 Score=62.69 Aligned_cols=40 Identities=23% Similarity=0.359 Sum_probs=29.7
Q ss_pred CCCCCCCeeeeeEEEEecChhhhhhhcCCCCcccccccccc
Q 015937 221 ELDDPSFTKLFGNRDIPYGYEVLLENLMDPAHVPYAHYGLM 261 (398)
Q Consensus 221 ~~~~~~~~~~~~~~~~~~nwk~~~EN~lD~~H~~~vH~~~~ 261 (398)
.|-+.+.......+.+.|||.+.+||.+|+.|+ |+|..+.
T Consensus 17 ~fld~~~~~~g~~~~~~~NWR~a~ENGfD~~H~-fiHk~s~ 56 (240)
T PF11723_consen 17 GFLDDDIVIFGMHREINANWRLAAENGFDPGHI-FIHKDSI 56 (240)
T ss_dssp TTTSTTEEEEEEEEEESS-HHHHHHHHT-TTGG-GGGTT-H
T ss_pred cccCCcceEEeeeeeccccchhhhhhCcCcceE-EEecCcc
Confidence 355556555555788999999999999999997 9999753
No 63
>KOG1336 consensus Monodehydroascorbate/ferredoxin reductase [General function prediction only]
Probab=96.14 E-value=0.003 Score=65.07 Aligned_cols=39 Identities=38% Similarity=0.787 Sum_probs=33.4
Q ss_pred CCCCCCCCCccCCCceEEccCCCeEEc-CCCccccCCCCCC
Q 015937 133 HRLAPLSEGRIDQWGRLQCVYHGWCFS-GSGDCKFIPQAPP 172 (398)
Q Consensus 133 HRga~Ls~G~~~~~~~l~CpyHGw~Fd-~~G~c~~iP~~~~ 172 (398)
|.|+||..| +-.+++++||+||.+|+ .+|..-.-|....
T Consensus 1 hygapl~~g-~~s~g~v~cpwhgacfn~~~gdiedfP~~~s 40 (478)
T KOG1336|consen 1 HYGAPLAKG-VLSRGRVRCPWHGACFNLSTGDIEDFPGLDS 40 (478)
T ss_pred CCCcchhhc-cccCCcccccccceeecCCcCchhhCcCccc
Confidence 899999999 44568999999999999 6899988886543
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=58.27 E-value=6.1 Score=33.18 Aligned_cols=35 Identities=31% Similarity=0.642 Sum_probs=22.2
Q ss_pred eEEEEecCCCCCCCCCCCCccC-CCceEEccCCCeEEcC
Q 015937 123 EWRVFADACPHRLAPLSEGRID-QWGRLQCVYHGWCFSG 160 (398)
Q Consensus 123 ~v~A~~n~CpHRga~Ls~G~~~-~~~~l~CpyHGw~Fd~ 160 (398)
++--..-.|. |||-.|.+- ....+.||+||---+.
T Consensus 64 ~~e~v~~~Cr---APL~~G~LC~RrD~~kCPfHG~IIpR 99 (110)
T PF09740_consen 64 EFEPVPHACR---APLPNGGLCPRRDRKKCPFHGKIIPR 99 (110)
T ss_pred ccCcCchhhc---CCCCCCCcCCccCcccCCCCCcccCC
Confidence 4444444453 677777764 2236899999976653
No 65
>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=30.81 E-value=12 Score=30.35 Aligned_cols=52 Identities=21% Similarity=0.256 Sum_probs=39.4
Q ss_pred ccccCCcEEeeecCCCCCCCcEEEEECCEEEEEEEeCCCCeEEEEecCCCCCCCCCC
Q 015937 83 FDWFSQWYPLMPVCDLDKRVPHAKKVLGLDVVVWWDRNENEWRVFADACPHRLAPLS 139 (398)
Q Consensus 83 ~~~~~~W~~v~~~~dL~~g~~~~~~l~g~~ivv~R~~~Gg~v~A~~n~CpHRga~Ls 139 (398)
.++...||.+-. ++|+-..++.+|+.+..++.... ...+|..+-|++|..++
T Consensus 3 ~dl~g~WYVLe~----~pGEHLvlealgqrls~iWtS~~-~A~~F~~~~p~~GM~V~ 54 (103)
T PF11572_consen 3 PDLSGTWYVLED----EPGEHLVLEALGQRLSGIWTSRE-LAQAFLARHPELGMRVS 54 (103)
T ss_dssp --TSSSEEEEES----STT-BEEEEETTEEEEEEBSSHH-HHHHHHHTSTSS--EEE
T ss_pred CCcccceEEecC----CCCceeeHHHHhhhHHhheecHH-HHHHHHHhCcccCcEee
Confidence 456778998765 58999999999999998888765 68889999998886654
No 66
>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=28.87 E-value=30 Score=25.91 Aligned_cols=14 Identities=21% Similarity=0.470 Sum_probs=11.6
Q ss_pred eEEccCCCeEEcCC
Q 015937 148 RLQCVYHGWCFSGS 161 (398)
Q Consensus 148 ~l~CpyHGw~Fd~~ 161 (398)
.|+||-||-.....
T Consensus 32 tI~CP~HG~~~~s~ 45 (60)
T PF05265_consen 32 TIRCPKHGNFTCST 45 (60)
T ss_pred EEECCCCCcEEecc
Confidence 79999999887643
No 67
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=26.34 E-value=15 Score=26.89 Aligned_cols=24 Identities=25% Similarity=0.497 Sum_probs=19.5
Q ss_pred CceEEc-----cCCCeEEcCCCccccCCC
Q 015937 146 WGRLQC-----VYHGWCFSGSGDCKFIPQ 169 (398)
Q Consensus 146 ~~~l~C-----pyHGw~Fd~~G~c~~iP~ 169 (398)
+..++| |||.|.|+..|.|+..+.
T Consensus 19 dDiVvCp~CgapyHR~C~~~~g~C~~~~c 47 (54)
T PF14446_consen 19 DDIVVCPECGAPYHRDCWEKAGGCINYSC 47 (54)
T ss_pred CCEEECCCCCCcccHHHHhhCCceEeccC
Confidence 346888 699999999999988653
No 68
>PF10080 DUF2318: Predicted membrane protein (DUF2318); InterPro: IPR018758 This domain of unknown function is found in hypothetical bacterial membrane proteins with no known function.
Probab=25.85 E-value=3e+02 Score=22.78 Aligned_cols=60 Identities=22% Similarity=0.215 Sum_probs=39.1
Q ss_pred CCCCCCcEEEEE--CCE--EEEEEEeCCCCeEEEEecCCCCCCCCCCCCccCCCceEEccCCCeEEcC
Q 015937 97 DLDKRVPHAKKV--LGL--DVVVWWDRNENEWRVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFSG 160 (398)
Q Consensus 97 dL~~g~~~~~~l--~g~--~ivv~R~~~Gg~v~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd~ 160 (398)
+|.+|+.+.+.+ .|. ++.+++..+| .+++.-|.|-==+ ..|-...++.|+|-.=|-+|..
T Consensus 1 ~v~Dgklh~y~y~~~G~~vrff~i~~~dg-~~~va~daCeiC~---~~GY~q~g~~lvC~~C~~~~~~ 64 (102)
T PF10080_consen 1 DVKDGKLHRYAYTDDGKEVRFFAIKKPDG-SYRVAFDACEICG---PKGYYQEGDQLVCKNCGVRFNL 64 (102)
T ss_pred CccCCcEEEEEEcCCCEEEEEEEEECCCC-CEEEEEEeccccC---CCceEEECCEEEEecCCCEEeh
Confidence 355555555444 444 6788888887 9999998884321 1233333457999999999983
No 69
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=23.72 E-value=46 Score=28.85 Aligned_cols=31 Identities=26% Similarity=0.482 Sum_probs=24.7
Q ss_pred EEEecCCCCCCCCCCCCccCCCceEEccCCCeEEc
Q 015937 125 RVFADACPHRLAPLSEGRIDQWGRLQCVYHGWCFS 159 (398)
Q Consensus 125 ~A~~n~CpHRga~Ls~G~~~~~~~l~CpyHGw~Fd 159 (398)
.-++..||-=|+||-. -+|.+.||-||.++.
T Consensus 25 kML~~hCp~Cg~PLF~----KdG~v~CPvC~~~~~ 55 (131)
T COG1645 25 KMLAKHCPKCGTPLFR----KDGEVFCPVCGYREV 55 (131)
T ss_pred HHHHhhCcccCCccee----eCCeEECCCCCceEE
Confidence 3456789999999986 246799999997765
Done!