Query psy6642
Match_columns 292
No_of_seqs 369 out of 2452
Neff 6.4
Searched_HMMs 46136
Date Fri Aug 16 23:26:39 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6642.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6642hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1671|consensus 100.0 1.2E-43 2.6E-48 307.2 6.5 188 3-190 18-206 (210)
2 TIGR01416 Rieske_proteo ubiqui 100.0 7.8E-35 1.7E-39 253.3 16.0 160 29-191 1-171 (174)
3 cd03470 Rieske_cytochrome_bc1 100.0 7.3E-30 1.6E-34 211.3 12.4 119 72-190 2-122 (126)
4 COG0723 QcrA Rieske Fe-S prote 100.0 2.1E-28 4.6E-33 213.1 10.0 155 27-192 8-164 (177)
5 PRK13474 cytochrome b6-f compl 99.9 3.6E-27 7.8E-32 205.9 14.4 146 27-202 11-171 (178)
6 KOG1671|consensus 99.9 1.7E-23 3.6E-28 181.9 2.3 97 196-292 18-115 (210)
7 TIGR03171 soxL2 Rieske iron-su 99.9 1.2E-21 2.6E-26 182.3 10.1 175 27-206 60-288 (321)
8 TIGR02377 MocE_fam_FeS Rieske 99.8 2.3E-21 5E-26 154.3 8.4 95 74-194 6-101 (101)
9 cd03528 Rieske_RO_ferredoxin R 99.8 3.9E-21 8.4E-26 151.0 8.7 91 75-192 6-97 (98)
10 cd03478 Rieske_AIFL_N AIFL (ap 99.8 4.6E-21 9.9E-26 150.3 8.2 89 75-190 5-94 (95)
11 cd03476 Rieske_ArOX_small Smal 99.8 9.2E-21 2E-25 156.9 10.0 101 75-193 8-114 (126)
12 PRK09965 3-phenylpropionate di 99.8 2.3E-20 5E-25 149.7 8.4 92 75-194 8-101 (106)
13 cd03530 Rieske_NirD_small_Baci 99.8 3.3E-20 7.2E-25 146.1 8.4 91 75-192 6-97 (98)
14 PF00355 Rieske: Rieske [2Fe-2 99.8 3.5E-20 7.6E-25 145.2 8.3 87 75-188 7-97 (97)
15 cd03469 Rieske_RO_Alpha_N Ries 99.8 8.2E-20 1.8E-24 148.0 9.7 94 75-194 6-111 (118)
16 cd03477 Rieske_YhfW_C YhfW fam 99.8 7.6E-20 1.6E-24 143.3 9.0 87 75-188 4-90 (91)
17 cd04337 Rieske_RO_Alpha_Cao Ca 99.8 1.2E-19 2.7E-24 150.6 10.7 96 74-195 22-121 (129)
18 cd03471 Rieske_cytochrome_b6f 99.8 1.4E-19 2.9E-24 149.7 10.8 79 126-205 42-122 (126)
19 cd03474 Rieske_T4moC Toluene-4 99.8 1.5E-19 3.3E-24 144.9 9.9 93 75-194 6-99 (108)
20 cd03479 Rieske_RO_Alpha_PhDO_l 99.8 3.1E-19 6.8E-24 150.8 11.7 108 74-209 26-143 (144)
21 cd03531 Rieske_RO_Alpha_KSH Th 99.8 3E-19 6.4E-24 145.4 9.9 101 75-203 7-113 (115)
22 TIGR02694 arsenite_ox_S arseni 99.8 1.5E-18 3.4E-23 144.2 10.0 103 74-195 10-117 (129)
23 cd04338 Rieske_RO_Alpha_Tic55 99.8 1.9E-18 4.2E-23 144.3 10.5 98 71-194 19-125 (134)
24 cd03532 Rieske_RO_Alpha_VanA_D 99.8 1.9E-18 4.1E-23 140.7 10.0 93 75-194 11-109 (116)
25 COG2146 {NirD} Ferredoxin subu 99.8 3.4E-18 7.3E-23 137.6 9.2 94 74-194 9-105 (106)
26 cd03548 Rieske_RO_Alpha_OMO_CA 99.7 7.3E-18 1.6E-22 141.1 10.7 106 74-206 19-135 (136)
27 cd03467 Rieske Rieske domain; 99.7 1E-17 2.2E-22 131.6 9.8 87 75-187 6-93 (98)
28 cd03529 Rieske_NirD Assimilato 99.7 4.7E-18 1E-22 135.4 7.6 91 75-192 6-102 (103)
29 TIGR02378 nirD_assim_sml nitri 99.7 5.2E-18 1.1E-22 135.4 7.5 92 75-193 7-104 (105)
30 PRK09511 nirD nitrite reductas 99.7 7E-18 1.5E-22 136.1 8.2 94 74-193 8-107 (108)
31 cd03480 Rieske_RO_Alpha_PaO Ri 99.7 1.8E-17 3.8E-22 139.2 9.2 96 74-195 22-130 (138)
32 cd03536 Rieske_RO_Alpha_DTDO T 99.7 5.2E-17 1.1E-21 133.7 10.7 102 75-206 6-122 (123)
33 cd03475 Rieske_SoxF_SoxL SoxF 99.7 1.1E-16 2.4E-21 138.3 9.9 61 127-187 74-151 (171)
34 cd03472 Rieske_RO_Alpha_BPDO_l 99.7 1.6E-16 3.5E-21 131.8 10.4 75 75-175 14-90 (128)
35 cd03537 Rieske_RO_Alpha_PrnD T 99.7 3E-16 6.6E-21 129.4 9.4 92 76-194 10-114 (123)
36 PF13806 Rieske_2: Rieske-like 99.7 2.6E-16 5.6E-21 126.2 8.1 93 74-193 6-104 (104)
37 cd03473 Rieske_CMP_Neu5Ac_hydr 99.7 2.3E-16 5.1E-21 126.4 7.8 84 76-186 14-101 (107)
38 PLN02281 chlorophyllide a oxyg 99.6 6.3E-16 1.4E-20 153.6 11.5 88 120-209 245-336 (536)
39 cd03545 Rieske_RO_Alpha_OHBDO_ 99.6 7.7E-16 1.7E-20 131.1 10.0 96 73-194 29-143 (150)
40 cd03539 Rieske_RO_Alpha_S5H Th 99.6 1.6E-15 3.5E-20 126.0 9.7 92 76-193 7-121 (129)
41 PLN00095 chlorophyllide a oxyg 99.6 1.2E-15 2.6E-20 146.1 10.0 95 75-195 78-179 (394)
42 cd03535 Rieske_RO_Alpha_NDO Ri 99.6 2.7E-15 5.9E-20 123.5 10.4 75 75-175 8-84 (123)
43 cd03541 Rieske_RO_Alpha_CMO Ri 99.6 2E-15 4.4E-20 123.7 9.4 78 76-179 8-86 (118)
44 cd03538 Rieske_RO_Alpha_AntDO 99.6 6.6E-15 1.4E-19 124.8 11.3 76 75-176 28-106 (146)
45 cd03542 Rieske_RO_Alpha_HBDO R 99.6 1.8E-15 4E-20 124.7 7.4 86 75-187 6-93 (123)
46 TIGR01416 Rieske_proteo ubiqui 99.5 7.9E-15 1.7E-19 127.8 5.1 68 222-292 1-69 (174)
47 PLN02518 pheophorbide a oxygen 99.5 3.3E-14 7.2E-19 142.7 9.8 76 120-195 115-206 (539)
48 PF02921 UCR_TM: Ubiquinol cyt 99.4 2.1E-14 4.5E-19 105.4 1.4 63 196-258 1-64 (64)
49 TIGR03228 anthran_1_2_A anthra 99.4 4.6E-13 1E-17 131.7 9.0 106 76-211 45-164 (438)
50 TIGR03229 benzo_1_2_benA benzo 99.4 4.8E-13 1E-17 131.5 9.0 107 75-211 44-167 (433)
51 COG4638 HcaE Phenylpropionate 99.3 2.8E-12 6.2E-17 123.0 9.0 93 76-194 34-137 (367)
52 PF02921 UCR_TM: Ubiquinol cyt 99.3 1.1E-12 2.3E-17 96.3 3.2 62 3-65 1-64 (64)
53 PF10399 UCR_Fe-S_N: Ubiquitin 98.9 2.9E-10 6.2E-15 76.1 1.1 36 218-256 6-41 (41)
54 COG0723 QcrA Rieske Fe-S prote 98.6 1.4E-08 3E-13 88.6 1.1 71 219-292 7-78 (177)
55 PF10399 UCR_Fe-S_N: Ubiquitin 98.1 2.5E-06 5.5E-11 57.1 3.2 35 26-63 7-41 (41)
56 PRK13474 cytochrome b6-f compl 98.0 1.1E-05 2.4E-10 70.7 5.9 67 221-290 12-92 (178)
57 TIGR03171 soxL2 Rieske iron-su 95.6 0.0062 1.3E-07 57.7 2.0 57 219-279 59-125 (321)
58 KOG1336|consensus 95.4 0.013 2.8E-07 58.4 3.4 47 139-187 1-48 (478)
59 PF08802 CytB6-F_Fe-S: Cytochr 91.1 0.07 1.5E-06 35.3 0.2 34 220-256 5-38 (39)
60 PF08802 CytB6-F_Fe-S: Cytochr 89.5 0.48 1.1E-05 31.4 3.1 20 27-46 5-24 (39)
61 PF10518 TAT_signal: TAT (twin 85.4 0.76 1.7E-05 27.6 2.1 16 28-43 2-17 (26)
62 TIGR02811 formate_TAT formate 85.4 1.1 2.3E-05 33.1 3.3 15 27-41 8-22 (66)
63 TIGR02811 formate_TAT formate 78.1 1.1 2.4E-05 33.1 1.0 16 218-233 6-21 (66)
64 TIGR01409 TAT_signal_seq Tat ( 74.7 2.8 6.1E-05 25.6 2.1 15 28-42 1-15 (29)
65 PF08141 SspH: Small acid-solu 64.3 7.7 0.00017 27.9 2.8 16 276-291 14-29 (58)
66 TIGR02861 SASP_H small acid-so 59.1 10 0.00023 27.2 2.7 17 275-291 13-29 (58)
67 PRK01625 sspH acid-soluble spo 57.9 11 0.00025 27.2 2.7 17 275-291 13-29 (59)
68 PRK03174 sspH acid-soluble spo 56.9 12 0.00026 27.1 2.7 17 275-291 13-29 (59)
69 TIGR02228 sigpep_I_arch signal 52.1 12 0.00025 32.2 2.4 42 251-292 39-81 (158)
70 COG5649 Uncharacterized conser 50.0 6.7 0.00015 32.1 0.6 16 273-288 44-59 (132)
71 PF10080 DUF2318: Predicted me 46.6 1.5E+02 0.0032 23.7 8.8 64 126-194 27-92 (102)
72 PF14693 Ribosomal_TL5_C: Ribo 42.9 14 0.00031 28.4 1.4 35 246-280 24-59 (88)
73 PF07076 DUF1344: Protein of u 40.7 23 0.0005 25.8 2.1 35 249-283 8-49 (61)
74 cd03473 Rieske_CMP_Neu5Ac_hydr 39.5 29 0.00062 28.1 2.7 23 269-291 14-37 (107)
75 PRK13747 putative mercury resi 39.2 9.3 0.0002 28.9 -0.2 9 152-160 24-32 (78)
76 PRK02888 nitrous-oxide reducta 37.3 19 0.00041 37.6 1.7 10 218-227 6-15 (635)
77 PF05265 DUF723: Protein of un 36.4 23 0.0005 25.7 1.5 15 152-166 31-45 (60)
78 PRK00420 hypothetical protein; 35.7 26 0.00056 28.6 1.9 34 133-168 22-56 (112)
79 PF10907 DUF2749: Protein of u 34.8 8.3 0.00018 28.4 -1.0 41 242-282 17-66 (66)
80 PF08669 GCV_T_C: Glycine clea 34.0 40 0.00088 25.6 2.7 25 264-288 65-89 (95)
81 PF04194 PDCD2_C: Programmed c 33.8 28 0.0006 29.9 1.9 19 272-290 69-87 (164)
82 TIGR00731 ctc_TL5 ribosomal pr 33.7 37 0.0008 29.6 2.7 37 245-281 116-153 (176)
83 PF05052 MerE: MerE protein; 33.2 13 0.00029 27.9 -0.2 13 152-164 24-36 (75)
84 COG0473 LeuB Isocitrate/isopro 31.0 33 0.00073 33.2 2.1 34 141-174 253-288 (348)
85 PRK05618 50S ribosomal protein 31.0 41 0.00088 29.8 2.6 37 245-281 124-161 (197)
86 PF07897 DUF1675: Protein of u 29.9 18 0.0004 34.1 0.2 18 149-166 248-265 (284)
87 cd04470 S1_EF-P_repeat_1 S1_EF 29.1 81 0.0017 22.5 3.4 19 272-290 40-59 (61)
88 TIGR01375 soxG sarcosine oxida 28.2 73 0.0016 26.6 3.5 39 253-291 84-124 (152)
89 cd04337 Rieske_RO_Alpha_Cao Ca 27.6 52 0.0011 26.9 2.5 25 267-291 22-46 (129)
90 COG1645 Uncharacterized Zn-fin 27.4 44 0.00096 28.0 2.0 30 133-165 27-56 (131)
91 PRK09476 napG quinol dehydroge 26.5 79 0.0017 29.2 3.7 17 25-41 6-22 (254)
92 PF00717 Peptidase_S24: Peptid 25.8 84 0.0018 22.0 3.0 38 252-291 6-45 (70)
93 PF11998 DUF3493: Protein of u 25.0 87 0.0019 23.7 3.0 18 30-47 20-37 (75)
94 cd03480 Rieske_RO_Alpha_PaO Ri 24.1 73 0.0016 26.4 2.8 24 268-291 23-46 (138)
95 PF09740 DUF2043: Uncharacteri 23.3 34 0.00074 27.8 0.6 19 152-170 86-106 (110)
96 PRK09898 hypothetical protein; 23.1 44 0.00096 29.6 1.3 12 27-38 12-23 (208)
97 cd04463 S1_EF_like S1_EF_like: 21.9 96 0.0021 21.2 2.6 21 269-289 34-55 (55)
98 COG3765 WzzB Chain length dete 21.2 1.7E+02 0.0037 28.5 4.9 37 7-43 291-328 (347)
99 cd04338 Rieske_RO_Alpha_Tic55 20.6 90 0.0019 25.6 2.6 25 267-291 22-46 (134)
100 PF13811 DUF4186: Domain of un 20.3 41 0.00088 27.4 0.4 15 275-289 54-68 (111)
No 1
>KOG1671|consensus
Probab=100.00 E-value=1.2e-43 Score=307.23 Aligned_cols=188 Identities=63% Similarity=1.116 Sum_probs=176.1
Q ss_pred CCCCCCCCCccccccCCCCC-CCCCCcCchhhHHHHHHhHHHHHHHHHHHHHHHhhcCCCcchhhhccccceeecCCCCC
Q psy6642 3 AHSDIRTPDFSKYRRDRNPD-KGQEETQRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSASADVLAMATIEVDLNLIPE 81 (292)
Q Consensus 3 ~~~~~~~pd~~~yr~~~~~~-~~~~~~~RR~fl~~atG~~~~~g~~aA~~~~~~~i~~~~p~a~~~a~~~~~v~~s~l~~ 81 (292)
.|||+.+|||..||++.+++ ....+.+||-|.|..+|+.+++.+.+|+.++..|+.+|..++++++.+.+++++++|||
T Consensus 18 ~~t~~~~p~~~~~~~~~~~~~~~~~~~~k~~~sy~~~g~~~~~~a~~ak~~v~~fi~smsAsadvlA~akiei~l~~IPe 97 (210)
T KOG1671|consen 18 SHTDLMVPDFSDYRRESVKDHQDTGEERKGFRSYLMVGAGAAGRAYAAKNLVTTFISSMSASADVLAMAKIEIKLSDIPE 97 (210)
T ss_pred ccccccCCCchhhhchhhhccccchhhhhceeeEEEecccceeehhhhhhhHHHHHHHhhhhhhhhhheeeeeeeecCCC
Confidence 49999999999999999888 22335555666999999999998999999999999999999999999999999999999
Q ss_pred CCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCeEEcCCCCc
Q psy6642 82 GQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGGYYCPCHGS 161 (292)
Q Consensus 82 g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~~~CPcHGs 161 (292)
|..++++|+|+|+|+.|+++.+|+.+..|..+.++|||.++.|..+.+|+++.++||||||.+.++.+++++|+||||||
T Consensus 98 Gk~~~~kwrGkpvfirhrt~~ei~~~r~V~~s~lrDPq~d~~rvk~~ewl~~igVCThLGCVp~~~AGd~gg~~CPCHGS 177 (210)
T KOG1671|consen 98 GKTVAFKWRGKPVFIRHRTKAEIEGERNVPQSTLRDPQDDVDRVKKPEWLVVIGVCTHLGCVPIANAGDYGGYYCPCHGS 177 (210)
T ss_pred CCCcceeccCCceEEeeccccccccccccchhhccCchhhhhhccCcceEEEEeeeccccccccccccccCceecccccc
Confidence 99999999999999999999999999999999999999888899999999999999999999999999999999999999
Q ss_pred EEcCCCceecCCCCCCCCCCceEeecCce
Q psy6642 162 HYDASGRIRKGPAPTNMEVPPYQFGDEGI 190 (292)
Q Consensus 162 ~FD~~G~v~~gPa~~~L~~~p~~~~~d~i 190 (292)
+||..|++.+||||.||+++.|.|.+++.
T Consensus 178 HYdasGRIrkGPAPlnlevP~y~F~~~d~ 206 (210)
T KOG1671|consen 178 HYDASGRIRKGPAPLNLEVPTYEFTSEDK 206 (210)
T ss_pred cccccCceecCCCCCccCCCceecccCce
Confidence 99999999999999999999999998443
No 2
>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=100.00 E-value=7.8e-35 Score=253.28 Aligned_cols=160 Identities=49% Similarity=0.979 Sum_probs=138.7
Q ss_pred CchhhHHHHHHhHHHHHHHHHHHHHHHhhcCCCcchhhhcc-ccceeecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhc
Q psy6642 29 QRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSASADVLAM-ATIEVDLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTE 107 (292)
Q Consensus 29 ~RR~fl~~atG~~~~~g~~aA~~~~~~~i~~~~p~a~~~a~-~~~~v~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~ 107 (292)
+||+||++++++.+.+++ ..++.|++.++.|.++..+. +.++|++++|++|+.+.+.|+|++++|.++|++||...
T Consensus 1 ~RR~fl~~~~~~~~~~~~---~~~~~p~v~~~~P~~~~~a~~~~~~v~l~eL~pG~~~~v~~~GkpI~I~~~t~~~~~~~ 77 (174)
T TIGR01416 1 TRRDFLYAATGAVGAVGA---AAAAVPFIDSMNPSASVKAAGAPTEVDVSKIQPGQQLTVEWRGKPVFIRRRTKKEIDAL 77 (174)
T ss_pred ChHHHHHHHHHHHHHHHH---HHHHHHHHheeCcchhccccCCcEEEEHHHCCCCCeEEEEECCeEEEEEeCCHHHhhhh
Confidence 599999999986554443 35678999999999988877 68899999999999999999999999999999999999
Q ss_pred ccccccccCCCCcc--------cccccCCCeEEEEecccCCCcccCCcCC-C-CCeEEcCCCCcEEcCCCceecCCCCCC
Q psy6642 108 QNTNISQLRDPQAD--------SDRVKDPSWLVIIGICTHLGCVPIANAG-D-WGGYYCPCHGSHYDASGRIRKGPAPTN 177 (292)
Q Consensus 108 ~~v~~~~l~dp~~~--------~~R~~~g~~~a~~~~CtHlGc~l~~~~~-~-~~~~~CPcHGs~FD~~G~v~~gPa~~~ 177 (292)
+++....++||+.. .+|+.+++|+|++++|||+||.+.|... + ++.|+||||||+||++|+++.|||+++
T Consensus 78 ~~~~~~~l~Dp~~~~~~~~~~~~~r~~~~~~~a~~~~CtH~Gc~~~~~~~~~~~~~~~CPcHgs~Fd~~G~~~~gpa~~~ 157 (174)
T TIGR01416 78 KALDLGALKDPNSEAQQPDYARVKRSGKPEWLVVIGICTHLGCIPTYGPEEGDKGGFFCPCHGSHYDTAGRVRKGPAPLN 157 (174)
T ss_pred hccchhhcCCCcccccCcchhhhhhccCCcEEEEEeccCCCCCccccccCCCCCCEEEeCCCCCEECCCCcEecCCCCCC
Confidence 88888888888433 4466689999999999999999987632 2 468999999999999999999999999
Q ss_pred CCCCceEeecCceE
Q psy6642 178 MEVPPYQFGDEGIL 191 (292)
Q Consensus 178 L~~~p~~~~~d~i~ 191 (292)
|++||+++++|..+
T Consensus 158 L~~~~~~~~~~~~~ 171 (174)
T TIGR01416 158 LPVPPYKFLSDTTI 171 (174)
T ss_pred CCCCCEEEcCCCEE
Confidence 99999999988654
No 3
>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=99.96 E-value=7.3e-30 Score=211.29 Aligned_cols=119 Identities=61% Similarity=1.204 Sum_probs=106.9
Q ss_pred ceeecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCc--ccccccCCCeEEEEecccCCCcccCCcCC
Q psy6642 72 IEVDLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQA--DSDRVKDPSWLVIIGICTHLGCVPIANAG 149 (292)
Q Consensus 72 ~~v~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~--~~~R~~~g~~~a~~~~CtHlGc~l~~~~~ 149 (292)
+++++++|++|+.++++|+|+|++|++++++||+...+.....+.||+. ..+|..+++|+|++++|||+||.+.++..
T Consensus 2 ~~vdl~~l~~G~~~~v~w~Gkpv~I~~rt~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~CtH~gc~~~~~~~ 81 (126)
T cd03470 2 VEVDLSKIEEGQLITVEWRGKPVFIRRRTPEEIAEAKAVDLSLLDDPDPAANRVRSGKPEWLVVIGICTHLGCVPTYRAG 81 (126)
T ss_pred EEEEhhhCCCCCEEEEEECCeEEEEEECCHHHHhhhhhcchhhcCCccccccccccCCCcEEEEeCcCCCCCCeeccccC
Confidence 6889999999999999999999999999999999988776666666543 36788899999999999999999988865
Q ss_pred CCCeEEcCCCCcEEcCCCceecCCCCCCCCCCceEeecCce
Q psy6642 150 DWGGYYCPCHGSHYDASGRIRKGPAPTNMEVPPYQFGDEGI 190 (292)
Q Consensus 150 ~~~~~~CPcHGs~FD~~G~v~~gPa~~~L~~~p~~~~~d~i 190 (292)
+++.|+||||||+||++|+++.|||+++|++||++++++..
T Consensus 82 ~~~~~~CPcHgs~Fdl~G~~~~gPa~~~L~~~p~~~~~~~~ 122 (126)
T cd03470 82 DYGGFFCPCHGSHYDASGRIRKGPAPLNLEVPPYKFLSDTT 122 (126)
T ss_pred CCCEEEecCcCCEECCCCeEecCCCCCCCCeeeEEEecCCE
Confidence 66899999999999999999999999999999999998643
No 4
>COG0723 QcrA Rieske Fe-S protein [Energy production and conversion]
Probab=99.95 E-value=2.1e-28 Score=213.13 Aligned_cols=155 Identities=36% Similarity=0.636 Sum_probs=125.2
Q ss_pred CcCchhhHHHHHHhHHHHHHHHHHHHHHHhhcCCCcchhh-hccccceeecCCCCCCCeEEEEEcCeeEEEEeCChhhhh
Q psy6642 27 ETQRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSASADV-LAMATIEVDLNLIPEGQSVTFKWRGKPLFIRHRTQKEID 105 (292)
Q Consensus 27 ~~~RR~fl~~atG~~~~~g~~aA~~~~~~~i~~~~p~a~~-~a~~~~~v~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~ 105 (292)
..+||+|+..+++..+..+ +..++.|+...++|.++. .+.+.++++...+.+++...+.|+++|+++.++++.++.
T Consensus 8 ~~~~~~~l~~~~~~~~~~~---~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~ 84 (177)
T COG0723 8 GLSRRDFLVLLTTGVGAVG---AGAALYPAVESVDPPAGGGLAGAPIEVDDSGIGPGPLVTVPWRGKPVFLLRRTEYAGP 84 (177)
T ss_pred cccHHHhhhhhhccccccc---eeeeeeehhhcccCcccccccCCceeeeccCCccceEEEEecCCCCeeeEeecccccc
Confidence 6689999988877554333 335677888888887665 677888999998999999999999999998877665555
Q ss_pred hcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCc-CCCCCeEEcCCCCcEEcCCCceecCCCCCCCCCCceE
Q psy6642 106 TEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIAN-AGDWGGYYCPCHGSHYDASGRIRKGPAPTNMEVPPYQ 184 (292)
Q Consensus 106 ~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~-~~~~~~~~CPcHGs~FD~~G~v~~gPa~~~L~~~p~~ 184 (292)
.........+.++ ..+|+|++.+||||||.+.|+ ..+.++|+||||||+||.+|++++|||+++|++++++
T Consensus 85 ~~~~~~~~~~~~~--------~~~~~a~~~iCtHlGC~~~~~~~~~~~~~~CPCHGS~yd~~g~vv~GPA~~~L~~~~~~ 156 (177)
T COG0723 85 KGGVTRDGDGGVG--------NKEIVAYSAICTHLGCTVPWNNAGAEGGFFCPCHGSRYDPDGGVVKGPAPRPLPIPPLE 156 (177)
T ss_pred cccceecccCCCC--------CccEEEEeeeccCCCCccCcccCCCCCeEEccCCCCeEcCCCCeeCCCCCCCcCCceEE
Confidence 5444444444442 268999999999999999994 4455999999999999999999999999999999999
Q ss_pred eecCceEE
Q psy6642 185 FGDEGILI 192 (292)
Q Consensus 185 ~~~d~i~V 192 (292)
+++|++++
T Consensus 157 ~~~d~~~~ 164 (177)
T COG0723 157 YDSDKLYL 164 (177)
T ss_pred EeCCceEE
Confidence 99986543
No 5
>PRK13474 cytochrome b6-f complex iron-sulfur subunit; Provisional
Probab=99.95 E-value=3.6e-27 Score=205.89 Aligned_cols=146 Identities=27% Similarity=0.521 Sum_probs=112.9
Q ss_pred CcCchhhHHHHHHhHHHHHHHHHHHHHHHhhcCCCcchhhhccccc--------eeecCCC----CCCCeEEEE-EcCee
Q psy6642 27 ETQRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSASADVLAMATI--------EVDLNLI----PEGQSVTFK-WRGKP 93 (292)
Q Consensus 27 ~~~RR~fl~~atG~~~~~g~~aA~~~~~~~i~~~~p~a~~~a~~~~--------~v~~s~l----~~g~~~~~~-~~g~p 93 (292)
+++||+||..++++.+.++ |..++.|++.++.|.+...+.... .|+++++ ++|+...+. ..|++
T Consensus 11 d~~RR~FL~~~~~~~gg~~---a~~~~~P~v~~~~Pp~~~~~~g~~~a~d~~G~~I~~s~~~~~~~~g~~~~v~~~~g~~ 87 (178)
T PRK13474 11 SMGRRQFMNLLTFGTVTGV---ALGALYPVVKYFIPPSAGGAGGGTTAKDELGNDIPASQFLATHPAGDRSLVQGLKGDP 87 (178)
T ss_pred CccHHHHHHHHHHHHHHHH---HHHHHHHhhheeCChhHccCCCcceeecccCCeeehhhccccCCCCCcEEEEEcCCCe
Confidence 6799999998886544333 335678999999887765443221 2345565 567666655 45655
Q ss_pred EEEEeCChhhhhhcccccccccCCCCcccccccCCCe--EEEEecccCCCcccCCcCCCCCeEEcCCCCcEEcCCCceec
Q psy6642 94 LFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSW--LVIIGICTHLGCVPIANAGDWGGYYCPCHGSHYDASGRIRK 171 (292)
Q Consensus 94 v~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~--~a~~~~CtHlGc~l~~~~~~~~~~~CPcHGs~FD~~G~v~~ 171 (292)
.+++. ..+|++ +|++++|||+||++.++..+ +.|.||||||+||.+|+++.
T Consensus 88 ~~lv~--------------------------~~~g~~~~~a~~~~CtH~gc~l~~~~~~-~~~~CP~Hgs~Fd~tG~~~~ 140 (178)
T PRK13474 88 TYLVV--------------------------EEDGTIASYGINAVCTHLGCVVPWNSGE-NKFQCPCHGSQYDATGKVVR 140 (178)
T ss_pred EEEEE--------------------------eCCCEEEEEEecCCCCCCCCccccccCC-CEEEecCcCCEECCCCCCcc
Confidence 33321 247888 67799999999999998765 69999999999999999999
Q ss_pred CCCCCCCCCCceEeecCceEEEeecccCCCC
Q psy6642 172 GPAPTNMEVPPYQFGDEGILIRMLAHSDIRT 202 (292)
Q Consensus 172 gPa~~~L~~~p~~~~~d~i~V~I~ahtD~~~ 202 (292)
||++++|+.|++++++|.|+|.+|..+|++.
T Consensus 141 gPa~~~L~~y~v~v~~g~v~v~~~~e~~~~~ 171 (178)
T PRK13474 141 GPAPLSLALVHVTVEDDKVLFSPWTETDFRT 171 (178)
T ss_pred CCCCCCCCeEeEEEECCEEEEEEeeecCCcC
Confidence 9999999999999999999999999988774
No 6
>KOG1671|consensus
Probab=99.87 E-value=1.7e-23 Score=181.92 Aligned_cols=97 Identities=53% Similarity=0.869 Sum_probs=89.9
Q ss_pred cccCCCCCCccccccCCCCCCCcccccc-ceeeehhHHHHHHHHHHhhhHhhhhhhhccCCCHHhhhccceEEecCCCCC
Q psy6642 196 AHSDIRTPDFSKYRRDRNPDKGQEETQR-KAFTYMIAGGSSVVGMVCAKSVVNQFISSMSASADVLAMATIEVDLNLIPE 274 (292)
Q Consensus 196 ahtD~~~P~F~~yr~~~~~~~~~~~~~r-r~f~~~~~~~~~~~g~~~~~~~~~~~v~~~~p~~~~~a~~~~evdls~i~~ 274 (292)
.|+|+.+|+|++|++++++|.+....+| +.|.|++++++++.++++++..+..||.||..|++++|+|++||+|+.|||
T Consensus 18 ~~t~~~~p~~~~~~~~~~~~~~~~~~~~k~~~sy~~~g~~~~~~a~~ak~~v~~fi~smsAsadvlA~akiei~l~~IPe 97 (210)
T KOG1671|consen 18 SHTDLMVPDFSDYRRESVKDHQDTGEERKGFRSYLMVGAGAAGRAYAAKNLVTTFISSMSASADVLAMAKIEIKLSDIPE 97 (210)
T ss_pred ccccccCCCchhhhchhhhccccchhhhhceeeEEEecccceeehhhhhhhHHHHHHHhhhhhhhhhheeeeeeeecCCC
Confidence 4999999999999999998855444455 555999999999999999999999999999999999999999999999999
Q ss_pred CceEEEEECCeeeEEEcC
Q psy6642 275 GQSVTFKWRGKPLFIRHR 292 (292)
Q Consensus 275 G~~~~~~WrgkPvfv~~R 292 (292)
|++++|+|||||||||||
T Consensus 98 Gk~~~~kwrGkpvfirhr 115 (210)
T KOG1671|consen 98 GKTVAFKWRGKPVFIRHR 115 (210)
T ss_pred CCCcceeccCCceEEeec
Confidence 999999999999999998
No 7
>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=99.86 E-value=1.2e-21 Score=182.28 Aligned_cols=175 Identities=19% Similarity=0.269 Sum_probs=105.8
Q ss_pred CcCchhhHHHHHHhHHHHHHHHHHHHHHHhhcCCCcchhhhccc----------cceeecCCCCCCCeEEE--EE--cCe
Q psy6642 27 ETQRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSASADVLAMA----------TIEVDLNLIPEGQSVTF--KW--RGK 92 (292)
Q Consensus 27 ~~~RR~fl~~atG~~~~~g~~aA~~~~~~~i~~~~p~a~~~a~~----------~~~v~~s~l~~g~~~~~--~~--~g~ 92 (292)
+++||+||..+++.++.+ ++ +.+.|++..+.|.++..+.+ ...|++++|+.|+...+ ++ .+.
T Consensus 60 D~~RR~fL~~al~gAga~-a~---~~avPlv~~l~PP~~a~atG~pk~La~D~~GnPIKASdL~vnSp~~~lfeyPl~gd 135 (321)
T TIGR03171 60 DEGRRKFLKGLIFGIAAA-AV---VGIIPGLRVLVPPTVAAASGFPKSLLVDSSGNPIKASSIPVNSPIITIFEYPMTGE 135 (321)
T ss_pred CccHHHHHHHHHHHHHHH-Hh---hhhhhheecccCchhhhccCCCceEEecCCCCeeeHHHccCCCcccccccCcCCCC
Confidence 789999999888766543 22 22459999999876655431 12356678888877743 32 233
Q ss_pred eEEEEeCChhhhhhcccccccccCCCCcc-cccc-----cCCCeEEEEecccCCCcccCCc-------------------
Q psy6642 93 PLFIRHRTQKEIDTEQNTNISQLRDPQAD-SDRV-----KDPSWLVIIGICTHLGCVPIAN------------------- 147 (292)
Q Consensus 93 pv~i~~~t~~~i~~~~~v~~~~l~dp~~~-~~R~-----~~g~~~a~~~~CtHlGc~l~~~------------------- 147 (292)
|-++.+...+..... .+....++-|+.. .|+. +++.++|||.+|||+||++.+-
T Consensus 136 P~fLIklgka~~~~v-~i~p~~v~~~~~g~~y~~pgGVGp~~~IVAyS~IC~H~GC~~~~~~~Ypp~~~~~~~~~~~~~~ 214 (321)
T TIGR03171 136 PNFLLNLGDSSGKPV-EIPPTKVVVPQTGKTYTFPGGVGPNKSIVAYSAICQHLGCTPPYIHFYPPNYVNPSQLTAPEPD 214 (321)
T ss_pred cHHHHHhhhhcCCce-ecCccccccCCCCcceeccCCcCCCCCEEEEecccCcCCCCcchhhccCccccccccccccccc
Confidence 433322111000000 1111112222111 1222 4689999999999999988331
Q ss_pred ---------CCC---CCeEEcCCCCcEEcC-C-CceecCCCCCCCCCCceEeecC-ceEEEeecccCCCCCCcc
Q psy6642 148 ---------AGD---WGGYYCPCHGSHYDA-S-GRIRKGPAPTNMEVPPYQFGDE-GILIRMLAHSDIRTPDFS 206 (292)
Q Consensus 148 ---------~~~---~~~~~CPcHGs~FD~-~-G~v~~gPa~~~L~~~p~~~~~d-~i~V~I~ahtD~~~P~F~ 206 (292)
..+ .+.|.||||||+||+ + |+++.|||+++|+.++++++++ +-++.+....-..+|+|.
T Consensus 215 ~~~~~~~~~~~~~~~~~~~~CPCHgS~FD~~~gg~Vv~GPA~rpLp~i~l~~d~~~~~l~AvG~~g~~~~~~~~ 288 (321)
T TIGR03171 215 QLTAQALLAAKQANVPALIHCDCHGSTYDPYHGAAVLTGPTVRPLPAVILEWDSSTDYLYAIGSIGVAVYPEGS 288 (321)
T ss_pred ccchhhhhhhhccCCCCeEECCCCCCEECCCCCCceeCCCCCCCCCcceEEEeCCCCeEEEEecCCcccccccc
Confidence 011 148999999999999 4 5899999999999999999864 334444433223344443
No 8
>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=99.85 E-value=2.3e-21 Score=154.25 Aligned_cols=95 Identities=20% Similarity=0.300 Sum_probs=84.1
Q ss_pred eecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCe
Q psy6642 74 VDLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGG 153 (292)
Q Consensus 74 v~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~ 153 (292)
.++++|++|+...+...|.++.+.+ ..+|+++|+++.|||+|++|..+..+++.
T Consensus 6 ~~~~dl~~g~~~~~~~~g~~i~l~r--------------------------~~~g~~~A~~~~CpH~g~~L~~G~~~~~~ 59 (101)
T TIGR02377 6 CDADDIGREDVARFDHGGRTFAIYR--------------------------TPDDQYYATDGLCTHEYAHLADGLVMDTT 59 (101)
T ss_pred EEHHHcCCCCEEEEEECCeEEEEEE--------------------------eCCCEEEEEcCcCCCCCCCCCCCEEcCCE
Confidence 3678899999999999998887753 24789999999999999999988766689
Q ss_pred EEcCCCCcEEcC-CCceecCCCCCCCCCCceEeecCceEEEe
Q psy6642 154 YYCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGDEGILIRM 194 (292)
Q Consensus 154 ~~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~d~i~V~I 194 (292)
+.||||||+||+ +|+++.+|+..+|+.||+++++|.++|.+
T Consensus 60 i~CP~Hg~~Fdl~tG~~~~~p~~~~l~~y~v~v~~g~v~V~~ 101 (101)
T TIGR02377 60 VECPKHAGCFDYRTGEALNPPVCVNLKTYPVKVVDGAVYVDI 101 (101)
T ss_pred EECCccCCEEECCCCcccCCCccCCcceEeEEEECCEEEEeC
Confidence 999999999998 99999999988999999999999988763
No 9
>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=99.85 E-value=3.9e-21 Score=151.03 Aligned_cols=91 Identities=22% Similarity=0.430 Sum_probs=81.8
Q ss_pred ecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCeE
Q psy6642 75 DLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGGY 154 (292)
Q Consensus 75 ~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~~ 154 (292)
.+++|++|+.+.+.+.|.++++.+ .+++++|+++.|||+||+|..+..+++.+
T Consensus 6 ~~~~l~~g~~~~~~~~g~~~~v~r---------------------------~~~~~~a~~~~CpH~g~~L~~g~~~~~~i 58 (98)
T cd03528 6 AVDELPEGEPKRVDVGGRPIAVYR---------------------------VDGEFYATDDLCTHGDASLSEGYVEGGVI 58 (98)
T ss_pred EhhhcCCCCEEEEEECCeEEEEEE---------------------------ECCEEEEECCcCCCCCCCCCCCeEeCCEE
Confidence 578899999999999999988754 24699999999999999999876666899
Q ss_pred EcCCCCcEEcC-CCceecCCCCCCCCCCceEeecCceEE
Q psy6642 155 YCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGDEGILI 192 (292)
Q Consensus 155 ~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~d~i~V 192 (292)
.||||||+||+ +|+++.+|+..+|+.|++++++|.++|
T Consensus 59 ~Cp~Hg~~fd~~~G~~~~~p~~~~L~~~~v~~~~g~v~v 97 (98)
T cd03528 59 ECPLHGGRFDLRTGKALSLPATEPLKTYPVKVEDGDVYV 97 (98)
T ss_pred EeCCcCCEEECCCCcccCCCCCCCcceEeEEEECCEEEE
Confidence 99999999999 999999999999999999999998876
No 10
>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=99.84 E-value=4.6e-21 Score=150.33 Aligned_cols=89 Identities=18% Similarity=0.302 Sum_probs=80.3
Q ss_pred ecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCeE
Q psy6642 75 DLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGGY 154 (292)
Q Consensus 75 ~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~~ 154 (292)
.+++|++|+.+.+.+.|.++++.+ .+|+++|++++|||+||+|.++..+++.+
T Consensus 5 ~~~~l~~g~~~~~~~~~~~v~v~r---------------------------~~g~~~A~~~~CpH~g~~L~~g~~~~~~i 57 (95)
T cd03478 5 RLSDLGDGEMKEVDVGDGKVLLVR---------------------------QGGEVHAIGAKCPHYGAPLAKGVLTDGRI 57 (95)
T ss_pred ehhhCCCCCEEEEEeCCcEEEEEE---------------------------ECCEEEEEcCcCcCCCCccCCCeEeCCEE
Confidence 578899999999999999887753 26899999999999999999887666899
Q ss_pred EcCCCCcEEcC-CCceecCCCCCCCCCCceEeecCce
Q psy6642 155 YCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGDEGI 190 (292)
Q Consensus 155 ~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~d~i 190 (292)
.||||||+||+ +|+++.+|+..+|+.|++++++|.|
T Consensus 58 ~CP~Hg~~Fdl~tG~~~~~p~~~~l~~~~v~~~~g~i 94 (95)
T cd03478 58 RCPWHGACFNLRTGDIEDAPALDSLPCYEVEVEDGRV 94 (95)
T ss_pred EcCCCCCEEECCCCcCcCCCccCCcceEEEEEECCEE
Confidence 99999999999 9999999998899999999999865
No 11
>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=99.84 E-value=9.2e-21 Score=156.95 Aligned_cols=101 Identities=24% Similarity=0.464 Sum_probs=82.8
Q ss_pred ecCCCCCCCeEEEEEcC--eeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCC
Q psy6642 75 DLNLIPEGQSVTFKWRG--KPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWG 152 (292)
Q Consensus 75 ~~s~l~~g~~~~~~~~g--~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~ 152 (292)
++++|++|+.+.+.+.+ .++++++..+... -.+..+++++|++++|||+||+|.++. +++
T Consensus 8 ~~~~l~~g~~~~~~~~~~~~~i~v~r~~~~~~-----------------~~~~~~g~~~A~~~~CpH~g~~L~~g~-~~~ 69 (126)
T cd03476 8 NLSQLSPGQPVTFNYPDESSPCVLVKLGVPVP-----------------GGVGPDNDIVAFSALCTHMGCPLTYDP-SNK 69 (126)
T ss_pred eHHHCCCCCeEEEEcCCCCCcEEEEECCcccc-----------------CccccCCEEEEEeCcCCCCCccccccc-cCC
Confidence 67999999999999987 6787765321110 011247899999999999999999876 558
Q ss_pred eEEcCCCCcEEcC--CCceecCCCCCCCCCCceEee--cCceEEE
Q psy6642 153 GYYCPCHGSHYDA--SGRIRKGPAPTNMEVPPYQFG--DEGILIR 193 (292)
Q Consensus 153 ~~~CPcHGs~FD~--~G~v~~gPa~~~L~~~p~~~~--~d~i~V~ 193 (292)
.|.||||||+||+ +|+++.+|+..+|++||++++ +|.|+|.
T Consensus 70 ~v~CP~Hg~~Fdl~tgG~~~~gPa~~~L~~ypv~ve~~~g~V~~~ 114 (126)
T cd03476 70 TFVCPCHFSQFDPARGGQMVSGQATQNLPQIVLEYDEASGDIYAV 114 (126)
T ss_pred EEEccCcCCEEeCCCCCeEEcCCCCCCCCeEEEEEECCCCEEEEE
Confidence 9999999999999 479999999999999999999 8877664
No 12
>PRK09965 3-phenylpropionate dioxygenase ferredoxin subunit; Provisional
Probab=99.82 E-value=2.3e-20 Score=149.65 Aligned_cols=92 Identities=16% Similarity=0.248 Sum_probs=79.1
Q ss_pred ecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCC-Ce
Q psy6642 75 DLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDW-GG 153 (292)
Q Consensus 75 ~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~-~~ 153 (292)
.+++|++|+.+.+... .++++.+ .+|+++|+++.|||+||+|+.+..++ +.
T Consensus 8 ~~~~l~~g~~~~~~~~-~~i~v~~---------------------------~~g~~~A~~~~CpH~g~~L~~G~~~~~~~ 59 (106)
T PRK09965 8 PVADLPEGEALRVDTS-PVIALFN---------------------------VGGEFYAIDDRCSHGNASLSEGYLEDDAT 59 (106)
T ss_pred eHHHcCCCCeEEEeCC-CeEEEEE---------------------------ECCEEEEEeCcCCCCCCCCCceEECCCCE
Confidence 6788999988888765 5555543 37899999999999999998766555 68
Q ss_pred EEcCCCCcEEcC-CCceecCCCCCCCCCCceEeecCceEEEe
Q psy6642 154 YYCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGDEGILIRM 194 (292)
Q Consensus 154 ~~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~d~i~V~I 194 (292)
+.||||||+||+ +|+++.+|+..+|+.|++++++|.++|.+
T Consensus 60 i~Cp~Hg~~Fd~~tG~~~~~p~~~~l~~y~v~v~~g~v~v~~ 101 (106)
T PRK09965 60 VECPLHAASFCLRTGKALCLPATDPLRTYPVHVEGGDIFIDL 101 (106)
T ss_pred EEcCCCCCEEEcCCCCeeCCCCCCCcceEeEEEECCEEEEEc
Confidence 999999999999 99999989889999999999999998875
No 13
>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=99.82 E-value=3.3e-20 Score=146.09 Aligned_cols=91 Identities=19% Similarity=0.251 Sum_probs=80.0
Q ss_pred ecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCeE
Q psy6642 75 DLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGGY 154 (292)
Q Consensus 75 ~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~~ 154 (292)
.+++|++|+.+.+...|.++++.+ ..+|+++|+++.|||+||+|.++..+++.+
T Consensus 6 ~~~~l~~~~~~~~~~~g~~i~l~r--------------------------~~~g~~~A~~~~CpH~g~~L~~g~~~~~~i 59 (98)
T cd03530 6 ALEDIPPRGARKVQTGGGEIAVFR--------------------------TADDEVFALENRCPHKGGPLSEGIVHGEYV 59 (98)
T ss_pred EHHHCCCCCcEEEEECCEEEEEEE--------------------------eCCCCEEEEcCcCCCCCCCccCCEEcCCEE
Confidence 568899999999999999887754 346899999999999999999987767899
Q ss_pred EcCCCCcEEcC-CCceecCCCCCCCCCCceEeecCceEE
Q psy6642 155 YCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGDEGILI 192 (292)
Q Consensus 155 ~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~d~i~V 192 (292)
.||||||+||+ +|++. +|+..+|+.||+++++|.++|
T Consensus 60 ~Cp~Hg~~Fdl~~G~~~-~p~~~~l~~y~v~v~~g~v~v 97 (98)
T cd03530 60 TCPLHNWVIDLETGEAQ-GPDEGCVRTFPVKVEDGRVYL 97 (98)
T ss_pred ECCCCCCEEECCCCCCC-CCCCCccceEeEEEECCEEEE
Confidence 99999999999 89875 677788999999999998876
No 14
>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=99.82 E-value=3.5e-20 Score=145.17 Aligned_cols=87 Identities=29% Similarity=0.567 Sum_probs=73.5
Q ss_pred ecCCCCC-CCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcC--CCC
Q psy6642 75 DLNLIPE-GQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANA--GDW 151 (292)
Q Consensus 75 ~~s~l~~-g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~--~~~ 151 (292)
..++|++ |....+...+..+++.+ .+|+++|++++|||+||+|.++. .++
T Consensus 7 ~~~el~~~~~~~~~~~~~~~v~~~~---------------------------~~g~~~A~~~~CpH~g~~l~~~~~~~~~ 59 (97)
T PF00355_consen 7 RSSELPEPGDVKRVDVGGKLVLVRR---------------------------SDGEIYAFSNRCPHQGCPLSEGPFSEDG 59 (97)
T ss_dssp EGGGSHSTTEEEEEEETTEEEEEEE---------------------------TTTEEEEEESB-TTTSBBGGCSSEETTT
T ss_pred EHHHCCCCCCEEEEEcCCcEEEEEe---------------------------CCCCEEEEEccCCccceeEcceeccccc
Confidence 5678888 77888888655665532 58999999999999999999983 445
Q ss_pred CeEEcCCCCcEEcC-CCceecCCCCCCCCCCceEeecC
Q psy6642 152 GGYYCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGDE 188 (292)
Q Consensus 152 ~~~~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~d 188 (292)
+.+.||||||+||+ +|+++.+|+..+|+.||+++++|
T Consensus 60 ~~i~Cp~Hg~~Fd~~tG~~~~~p~~~~l~~~~v~ve~~ 97 (97)
T PF00355_consen 60 GVIVCPCHGWRFDLDTGECVGGPAPRPLPLYPVKVEGD 97 (97)
T ss_dssp TEEEETTTTEEEETTTSBEEESTTCSBSTEEEEEEETT
T ss_pred CEEEeCCcCCEEeCCCceEecCCCCCCcCCCCeEEeCC
Confidence 79999999999999 69999999999999999999886
No 15
>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=99.81 E-value=8.2e-20 Score=147.98 Aligned_cols=94 Identities=24% Similarity=0.456 Sum_probs=82.5
Q ss_pred ecCCCC-CCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCC-CCC
Q psy6642 75 DLNLIP-EGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAG-DWG 152 (292)
Q Consensus 75 ~~s~l~-~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~-~~~ 152 (292)
.+++|+ +|+.+.+.+.+.++++.+ ..+|+++|+.+.|||+||+|.++.. +++
T Consensus 6 ~~~el~~~g~~~~~~~~~~~i~v~r--------------------------~~~g~~~a~~n~CpH~g~~L~~g~~~~~~ 59 (118)
T cd03469 6 HSSELPEPGDYVTLELGGEPLVLVR--------------------------DRDGEVRAFHNVCPHRGARLCEGRGGNAG 59 (118)
T ss_pred EHHHCCCCCCEEEEEECCccEEEEE--------------------------CCCCCEEEEEEeCCCCCCEeeeccCCCCC
Confidence 467888 999999999998887754 3578999999999999999999876 678
Q ss_pred eEEcCCCCcEEcCCCceecCCCCC----------CCCCCceEeecCceEEEe
Q psy6642 153 GYYCPCHGSHYDASGRIRKGPAPT----------NMEVPPYQFGDEGILIRM 194 (292)
Q Consensus 153 ~~~CPcHGs~FD~~G~v~~gPa~~----------~L~~~p~~~~~d~i~V~I 194 (292)
.+.||||||+||++|+++.+|+.. .|+.|++++++|.|+|.+
T Consensus 60 ~i~Cp~Hg~~Fd~~G~~~~~P~~~~~~~~~~~~~~L~~~~v~~~~g~v~v~~ 111 (118)
T cd03469 60 RLVCPYHGWTYDLDGKLVGVPREEGFPGFDKEKLGLRTVPVEEWGGLIFVNL 111 (118)
T ss_pred EEECCCCCCEECCCCcEEeCCcccccCCCCHHHCCCeEEEEEEECCEEEEEc
Confidence 999999999999999999998764 489999999999888765
No 16
>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=7.6e-20 Score=143.26 Aligned_cols=87 Identities=28% Similarity=0.531 Sum_probs=76.0
Q ss_pred ecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCeE
Q psy6642 75 DLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGGY 154 (292)
Q Consensus 75 ~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~~ 154 (292)
.+++|++|+.+.+.+.|.+++|.+ ..+|+++|+++.|||+||+|.++..+ +.|
T Consensus 4 ~~~dl~~g~~~~~~~~g~~v~v~r--------------------------~~~g~~~A~~~~CpH~g~~l~~g~~~-~~i 56 (91)
T cd03477 4 DIEDLAPGEGGVVNIGGKRLAVYR--------------------------DEDGVLHTVSATCTHLGCIVHWNDAE-KSW 56 (91)
T ss_pred chhhcCCCCeEEEEECCEEEEEEE--------------------------CCCCCEEEEcCcCCCCCCCCcccCCC-CEE
Confidence 357889999999999999987754 35799999999999999999987653 799
Q ss_pred EcCCCCcEEcCCCceecCCCCCCCCCCceEeecC
Q psy6642 155 YCPCHGSHYDASGRIRKGPAPTNMEVPPYQFGDE 188 (292)
Q Consensus 155 ~CPcHGs~FD~~G~v~~gPa~~~L~~~p~~~~~d 188 (292)
.||||||+||.+|+++++|+..+|+.|+++-.++
T Consensus 57 ~CP~Hg~~Fd~~G~~~~~Pa~~~l~~y~v~~~~~ 90 (91)
T cd03477 57 DCPCHGSRFSYDGEVIEGPAVSGLKPADDAPIDN 90 (91)
T ss_pred ECCCCCCEECCCCcEeeCCCCCCCCeeEeecccC
Confidence 9999999999999999999999999999875543
No 17
>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=99.81 E-value=1.2e-19 Score=150.62 Aligned_cols=96 Identities=23% Similarity=0.251 Sum_probs=84.5
Q ss_pred eecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCe
Q psy6642 74 VDLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGG 153 (292)
Q Consensus 74 v~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~ 153 (292)
..+++|++|+.+.+++.|.++++.+ +.+|+++|+++.|||+||+|+.+..+.+.
T Consensus 22 ~~~~el~~g~~~~~~v~g~~l~l~r--------------------------~~~g~v~A~~n~CpH~g~~L~~G~~~~~~ 75 (129)
T cd04337 22 EFSKDLKMDTMVPFELFGQPWVLFR--------------------------DEDGTPGCIRDECAHRACPLSLGKVIEGR 75 (129)
T ss_pred EEHHHCCCCCeEEEEECCcEEEEEE--------------------------CCCCcEEEEeCcCCCCcCCcccCcEeCCE
Confidence 3678899999999999998887653 35799999999999999999998877789
Q ss_pred EEcCCCCcEEcCCCceecCCCCC----CCCCCceEeecCceEEEee
Q psy6642 154 YYCPCHGSHYDASGRIRKGPAPT----NMEVPPYQFGDEGILIRML 195 (292)
Q Consensus 154 ~~CPcHGs~FD~~G~v~~gPa~~----~L~~~p~~~~~d~i~V~I~ 195 (292)
+.||||||+||.+|+++..|... +|+.|++++++|.|+|.+.
T Consensus 76 i~CP~Hgw~Fd~tG~~~~~P~~~~~~~~l~~y~v~v~~g~V~V~~~ 121 (129)
T cd04337 76 IQCPYHGWEYDGDGECTKMPSTKCLNVGIAALPCMEQDGMIWVWPG 121 (129)
T ss_pred EEeCCCCCEECCCCCEEeCCcCCCccCCcceEeEEEECCEEEEEcC
Confidence 99999999999999999988653 7999999999998888764
No 18
>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=99.81 E-value=1.4e-19 Score=149.67 Aligned_cols=79 Identities=37% Similarity=0.756 Sum_probs=68.0
Q ss_pred cCCCe--EEEEecccCCCcccCCcCCCCCeEEcCCCCcEEcCCCceecCCCCCCCCCCceEeecCceEEEeecccCCCCC
Q psy6642 126 KDPSW--LVIIGICTHLGCVPIANAGDWGGYYCPCHGSHYDASGRIRKGPAPTNMEVPPYQFGDEGILIRMLAHSDIRTP 203 (292)
Q Consensus 126 ~~g~~--~a~~~~CtHlGc~l~~~~~~~~~~~CPcHGs~FD~~G~v~~gPa~~~L~~~p~~~~~d~i~V~I~ahtD~~~P 203 (292)
.+|++ +|++++|||+||++.++..+ +.+.||||||+||.+|+++.+|++.+|++|++++++|.|+|.++-.+|...-
T Consensus 42 ~dg~i~~~A~~~~CpH~G~~l~~~~~~-~~i~CP~Hg~~Fd~tG~~~~gPa~~~L~~y~V~vedg~I~V~~~~~~~~~~~ 120 (126)
T cd03471 42 EDKTIANYGINAVCTHLGCVVPWNAAE-NKFKCPCHGSQYDATGKVVRGPAPLSLALVHATVDDDKVVLSPWTETDFRTG 120 (126)
T ss_pred CCCeEEEEEecCCCcCCCCCcCccCCC-CEEEcCCCCCEECCCCCEecCCCCCCCceEeEEEECCEEEEEECcccCcccC
Confidence 46766 89999999999999887653 7999999999999999999999999999999999999999998765554433
Q ss_pred Cc
Q psy6642 204 DF 205 (292)
Q Consensus 204 ~F 205 (292)
+|
T Consensus 121 ~~ 122 (126)
T cd03471 121 EK 122 (126)
T ss_pred CC
Confidence 33
No 19
>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=99.81 E-value=1.5e-19 Score=144.88 Aligned_cols=93 Identities=20% Similarity=0.284 Sum_probs=80.6
Q ss_pred ecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCeE
Q psy6642 75 DLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGGY 154 (292)
Q Consensus 75 ~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~~ 154 (292)
.+++|++|+.+.+.+.++++++++ ..+|+++|++++|||+||+|..+..+++.+
T Consensus 6 ~~~~l~~g~~~~~~~~~~~~~~~~--------------------------~~~g~~~A~~n~CpH~g~~L~~g~~~g~~i 59 (108)
T cd03474 6 SLDDVWEGEMELVDVDGEEVLLVA--------------------------PEGGEFRAFQGICPHQEIPLAEGGFDGGVL 59 (108)
T ss_pred ehhccCCCceEEEEECCeEEEEEE--------------------------ccCCeEEEEcCcCCCCCCCcccCcccCCEE
Confidence 578899999999999887766543 247899999999999999999887776799
Q ss_pred EcCCCCcEEcC-CCceecCCCCCCCCCCceEeecCceEEEe
Q psy6642 155 YCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGDEGILIRM 194 (292)
Q Consensus 155 ~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~d~i~V~I 194 (292)
.||||||+||+ +|++. +|+..+|+.|+++++++.|+|.+
T Consensus 60 ~CP~Hg~~Fdl~~G~~~-~~~~~~L~~~~v~v~~g~v~v~~ 99 (108)
T cd03474 60 TCRAHLWQFDADTGEGL-NPRDCRLARYPVKVEGGDILVDT 99 (108)
T ss_pred EeCCcCCEEECCCcccc-CCCCCccceEeEEEECCEEEEeC
Confidence 99999999999 77776 58888999999999999888775
No 20
>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=99.80 E-value=3.1e-19 Score=150.77 Aligned_cols=108 Identities=19% Similarity=0.266 Sum_probs=88.3
Q ss_pred eecCCCC-CCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCC
Q psy6642 74 VDLNLIP-EGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWG 152 (292)
Q Consensus 74 v~~s~l~-~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~ 152 (292)
..+++|+ +|+.+.+.+.|.+++|. |..+|+++|++++|||+||+|+++..+.+
T Consensus 26 ~~~~eL~~~g~~~~~~~~g~~i~v~--------------------------r~~~G~v~A~~n~CpHrG~~L~~G~~~~~ 79 (144)
T cd03479 26 ALSSELTEDGQPVRVRLLGEDLVAF--------------------------RDTSGRVGLLDEHCPHRGASLVFGRVEEC 79 (144)
T ss_pred EEHHHCCCCCCEEEEEECCcEEEEE--------------------------EeCCCCEEEEcCcCCCCCCcccCCcccCC
Confidence 3678888 68888888888887664 33588999999999999999999887778
Q ss_pred eEEcCCCCcEEcCCCceecCCCCC---------CCCCCceEeecCceEEEeecccCCCCCCccccc
Q psy6642 153 GYYCPCHGSHYDASGRIRKGPAPT---------NMEVPPYQFGDEGILIRMLAHSDIRTPDFSKYR 209 (292)
Q Consensus 153 ~~~CPcHGs~FD~~G~v~~gPa~~---------~L~~~p~~~~~d~i~V~I~ahtD~~~P~F~~yr 209 (292)
.|.||||||+||.+|+++..|+.. .|+.|+++++++.|+|.+. .....|.+++|.
T Consensus 80 ~i~CP~Hgw~F~~~G~~~~~P~~~~~~~~~~~~~l~~~~v~~~~G~I~V~~~--~~~~~p~~~~~~ 143 (144)
T cd03479 80 GLRCCYHGWKFDVDGQCLEMPSEPPDSQLKQKVRQPAYPVRERGGLVWAYMG--PAEEAPEFPRYD 143 (144)
T ss_pred EEEccCCCcEECCCCCEEECCCCccccCCccccCcceEeEEEECCEEEEECC--CCCCCCCCCCCC
Confidence 999999999999999999988643 5899999999998887753 334566666653
No 21
>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=99.80 E-value=3e-19 Score=145.42 Aligned_cols=101 Identities=16% Similarity=0.190 Sum_probs=84.7
Q ss_pred ecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCeE
Q psy6642 75 DLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGGY 154 (292)
Q Consensus 75 ~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~~ 154 (292)
.+++|++|+.+.++..|.+++|.+ +.+|+++|++++|||+|++|..+..+++.+
T Consensus 7 ~~~dl~~g~~~~~~~~g~~i~l~r--------------------------~~~g~~~a~~n~CpH~ga~L~~G~~~~~~i 60 (115)
T cd03531 7 LARDFRDGKPHGVEAFGTKLVVFA--------------------------DSDGALNVLDAYCRHMGGDLSQGTVKGDEI 60 (115)
T ss_pred EHHHCCCCCeEEEEECCeEEEEEE--------------------------CCCCCEEEEcCcCCCCCCCCccCcccCCEE
Confidence 467889999999999998887643 458999999999999999999998887899
Q ss_pred EcCCCCcEEcCCCceecCCC------CCCCCCCceEeecCceEEEeecccCCCCC
Q psy6642 155 YCPCHGSHYDASGRIRKGPA------PTNMEVPPYQFGDEGILIRMLAHSDIRTP 203 (292)
Q Consensus 155 ~CPcHGs~FD~~G~v~~gPa------~~~L~~~p~~~~~d~i~V~I~ahtD~~~P 203 (292)
.||||||+||.+|+++..|+ ...|+.||++++++.|+|. .+.|.+.|
T Consensus 61 ~CP~Hg~~fd~~G~~~~~p~~~~~p~~~~l~~ypv~~~~g~v~v~--~~~~~~~p 113 (115)
T cd03531 61 ACPFHDWRWGGDGRCKAIPYARRVPPLARTRAWPTLERNGQLFVW--HDPEGNPP 113 (115)
T ss_pred ECCCCCCEECCCCCEEECCcccCCCcccccceEeEEEECCEEEEE--CCCCCCCC
Confidence 99999999999999998764 3468899999999877655 45555444
No 22
>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=99.77 E-value=1.5e-18 Score=144.16 Aligned_cols=103 Identities=21% Similarity=0.362 Sum_probs=80.1
Q ss_pred eecCCCCCCCeEEEEEcC--eeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCC
Q psy6642 74 VDLNLIPEGQSVTFKWRG--KPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDW 151 (292)
Q Consensus 74 v~~s~l~~g~~~~~~~~g--~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~ 151 (292)
.++++|++|+.+.+.+.+ .++++++.... ..... ..+|+++|++++|||+||+|.++. ++
T Consensus 10 ~~~~dl~~g~~~~~~~~~~~~~~~v~~~~~~----------------~~~~~-~~~G~~~A~~~~CpH~g~~L~~~~-~~ 71 (129)
T TIGR02694 10 ANISELKLNEPLDFNYPDASSPGVLLKLGTP----------------VEGGV-GPDGDIVAFSTLCTHMGCPVSYSA-DN 71 (129)
T ss_pred EeHHHCCCCCCEEEecCCCCCCEEEEecCCc----------------ccCcc-ccCCEEEEEeCcCCCCCccccccc-CC
Confidence 378999999999999865 36666542110 01111 147999999999999999999875 45
Q ss_pred CeEEcCCCCcEEcC-C-CceecCCCCCCCCCCceEeec-CceEEEee
Q psy6642 152 GGYYCPCHGSHYDA-S-GRIRKGPAPTNMEVPPYQFGD-EGILIRML 195 (292)
Q Consensus 152 ~~~~CPcHGs~FD~-~-G~v~~gPa~~~L~~~p~~~~~-d~i~V~I~ 195 (292)
+.|.||||||+||+ + |+++.+|+..+|+.|++++++ +.++ .+.
T Consensus 72 ~~i~CP~Hga~Fdl~tgG~~~~gP~~~~L~~y~v~v~~~G~V~-~~~ 117 (129)
T TIGR02694 72 KTFNCPCHFSVFDPEKGGQQVWGQATQNLPQIVLRVADNGDIF-AEG 117 (129)
T ss_pred CEEEcCCCCCEECCCCCCcEECCCCCCCCCeeEEEEECCCeEE-EEe
Confidence 89999999999999 4 699999999999999999975 5555 444
No 23
>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=99.77 E-value=1.9e-18 Score=144.30 Aligned_cols=98 Identities=13% Similarity=0.113 Sum_probs=83.3
Q ss_pred cceeecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCC
Q psy6642 71 TIEVDLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGD 150 (292)
Q Consensus 71 ~~~v~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~ 150 (292)
.....+++|++|+.+.+.+.|++++|.+ ..+|+++|+.|.|||+|++|+.+..+
T Consensus 19 ~~v~~~~el~~~~~~~~~v~g~~ivl~r--------------------------~~~G~v~A~~n~CpHrga~L~~G~~~ 72 (134)
T cd04338 19 YPLYLLKDVPTDAPLGLSVYDEPFVLFR--------------------------DQNGQLRCLEDRCPHRLAKLSEGQLI 72 (134)
T ss_pred EEEEEHHHCCCCCCEEEEECCceEEEEE--------------------------cCCCCEEEEcCcCCCCcCcccCCeec
Confidence 3345678899998888888888887643 35899999999999999999998877
Q ss_pred CCeEEcCCCCcEEcCCCceecCCC---------CCCCCCCceEeecCceEEEe
Q psy6642 151 WGGYYCPCHGSHYDASGRIRKGPA---------PTNMEVPPYQFGDEGILIRM 194 (292)
Q Consensus 151 ~~~~~CPcHGs~FD~~G~v~~gPa---------~~~L~~~p~~~~~d~i~V~I 194 (292)
++.+.||+|||+||.+|+++..|. ...|+.|++++++|.|+|.+
T Consensus 73 ~~~i~CP~Hgw~Fd~~G~~~~~P~~~~~~~~~~~~~l~~y~v~~~~G~V~V~~ 125 (134)
T cd04338 73 DGKLECLYHGWQFGGEGKCVKIPQLPADAKIPKNACVKSYEVRDSQGVVWMWM 125 (134)
T ss_pred CCEEEccCCCCEECCCCCEEECCCCCccCCCCcccCcceEeEEEECCEEEEEc
Confidence 789999999999999999998763 24589999999999888775
No 24
>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=99.77 E-value=1.9e-18 Score=140.68 Aligned_cols=93 Identities=20% Similarity=0.292 Sum_probs=80.2
Q ss_pred ecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCeE
Q psy6642 75 DLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGGY 154 (292)
Q Consensus 75 ~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~~ 154 (292)
..++|+ |+.+.+...|.+++|.+ ..+|+++|++++|||+|++|+.+..+++.+
T Consensus 11 ~~~el~-~~~~~~~~~g~~i~l~r--------------------------~~~g~~~a~~n~CpH~g~~L~~G~~~~~~i 63 (116)
T cd03532 11 WADELG-DKPLARTLLGEPVVLYR--------------------------TQDGRVAALEDRCPHRSAPLSKGSVEGGGL 63 (116)
T ss_pred EHHHcC-CCcEEEEECCceEEEEE--------------------------CCCCCEEEeCCcCCCCCCCccCCcccCCEE
Confidence 467777 88888888888877643 358999999999999999999988777899
Q ss_pred EcCCCCcEEcCCCceecCCCC------CCCCCCceEeecCceEEEe
Q psy6642 155 YCPCHGSHYDASGRIRKGPAP------TNMEVPPYQFGDEGILIRM 194 (292)
Q Consensus 155 ~CPcHGs~FD~~G~v~~gPa~------~~L~~~p~~~~~d~i~V~I 194 (292)
.||+|||+||.+|+++..|.. .+|+.|+++++++.|+|.+
T Consensus 64 ~Cp~Hg~~fd~~G~~~~~p~~~~~~~~~~l~~~~v~~~~g~v~v~~ 109 (116)
T cd03532 64 VCGYHGLEFDSDGRCVHMPGQERVPAKACVRSYPVVERDALIWIWM 109 (116)
T ss_pred EeCCCCcEEcCCCCEEeCCCCCCCCCccccccCCEEEECCEEEEEc
Confidence 999999999999999988764 3799999999999888876
No 25
>COG2146 {NirD} Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]
Probab=99.75 E-value=3.4e-18 Score=137.61 Aligned_cols=94 Identities=20% Similarity=0.370 Sum_probs=78.9
Q ss_pred eecCCCCCCCeEEEEEcC-eeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCC
Q psy6642 74 VDLNLIPEGQSVTFKWRG-KPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWG 152 (292)
Q Consensus 74 v~~s~l~~g~~~~~~~~g-~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~ 152 (292)
..+++|+++..+.+...+ ..++++ ..+|++||+.|.|||.||+++.+..+++
T Consensus 9 c~~~dl~~~~~~~v~~~~~~~~~~~---------------------------~~~g~v~A~~n~CpH~~~~l~~g~v~~~ 61 (106)
T COG2146 9 CKVDDLPEGGGVRVLVGGGRFALVV---------------------------RADGEVFAIDNRCPHAGAPLSRGLVEGD 61 (106)
T ss_pred EehHhcCCCCceEEEecCCEEEEEE---------------------------ecCCEEEEEeCcCCCCCCcccccEeCCC
Confidence 467899999988888844 444443 2589999999999999999998887765
Q ss_pred -eEEcCCCCcEEcC-CCceecCCCCCCCCCCceEeecCceEEEe
Q psy6642 153 -GYYCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGDEGILIRM 194 (292)
Q Consensus 153 -~~~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~d~i~V~I 194 (292)
.+.||||+++||+ ||+++.+|+...|++||++++++.++|.+
T Consensus 62 ~~i~Cp~H~a~Fdl~tG~~~~~p~~~~l~~y~vrve~g~v~v~~ 105 (106)
T COG2146 62 ETVVCPLHGARFDLRTGECLEPPAGKTLKTYPVRVEGGRVFVDL 105 (106)
T ss_pred CEEECCccCCEEEcCCCceecCCCCCceeEEeEEEECCEEEEec
Confidence 5999999999999 99999998754499999999999888763
No 26
>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=99.75 E-value=7.3e-18 Score=141.08 Aligned_cols=106 Identities=19% Similarity=0.275 Sum_probs=86.8
Q ss_pred eecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcC--CCC
Q psy6642 74 VDLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANA--GDW 151 (292)
Q Consensus 74 v~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~--~~~ 151 (292)
...++|++|+.+.+.+.|++++|.+ .+|+++|+.|.|||+|++|..+. .++
T Consensus 19 ~~~~el~~g~~~~~~~~g~~i~l~r---------------------------~~g~v~A~~n~CpHrg~~L~~g~~~~~~ 71 (136)
T cd03548 19 LFSHELEEGEPKGIQLCGEPILLRR---------------------------VDGKVYALKDRCLHRGVPLSKKPECFTK 71 (136)
T ss_pred EEHHHCCCCCeEEEEECCcEEEEEe---------------------------cCCEEEEEeCcCcCCCCccccCcccccC
Confidence 3578899999999999999887743 37899999999999999999764 345
Q ss_pred CeEEcCCCCcEEcC-CCceecC---CC-----CCCCCCCceEeecCceEEEeecccCCCCCCcc
Q psy6642 152 GGYYCPCHGSHYDA-SGRIRKG---PA-----PTNMEVPPYQFGDEGILIRMLAHSDIRTPDFS 206 (292)
Q Consensus 152 ~~~~CPcHGs~FD~-~G~v~~g---Pa-----~~~L~~~p~~~~~d~i~V~I~ahtD~~~P~F~ 206 (292)
+.|.||+|||+||+ +|+++.. |. ...|+.||+++.+|.|+|.+.....-..|.|+
T Consensus 72 ~~i~Cp~Hgw~Fdl~tG~~~~~~~~p~~~~~~~~~L~~ypv~~~~g~V~v~~~~~~~~~~~~~~ 135 (136)
T cd03548 72 GTITCWYHGWTYRLDDGKLVTILANPDDPLIGRTGLKTYPVEEAKGMIFVFVGDGDYADPPPLA 135 (136)
T ss_pred CEEEecCCccEEeCCCccEEEcccCCCccccccCCCceEeEEEECCEEEEEeCCcccCCCCCCC
Confidence 79999999999998 9999863 32 34699999999999999887655555666654
No 27
>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=99.74 E-value=1e-17 Score=131.62 Aligned_cols=87 Identities=29% Similarity=0.582 Sum_probs=76.8
Q ss_pred ecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCeE
Q psy6642 75 DLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGGY 154 (292)
Q Consensus 75 ~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~~ 154 (292)
..++|++|..+.+...++.++|.+ ..+++++|+++.|||+||+|..+..+++.+
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~v~~--------------------------~~~~~~~a~~~~CpH~g~~l~~~~~~~~~i 59 (98)
T cd03467 6 ALSELPPGGGRVVVVGGGPVVVVR--------------------------REGGEVYALSNRCTHQGCPLSEGEGEDGCI 59 (98)
T ss_pred eccccCCCceEEEEECCeEEEEEE--------------------------eCCCEEEEEcCcCCCCCccCCcCccCCCEE
Confidence 456788999998888888887654 246899999999999999999887666899
Q ss_pred EcCCCCcEEcC-CCceecCCCCCCCCCCceEeec
Q psy6642 155 YCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGD 187 (292)
Q Consensus 155 ~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~ 187 (292)
.||||||+||+ +|+++.+|+..+|+.|++++++
T Consensus 60 ~Cp~H~~~f~~~~G~~~~~p~~~~l~~~~v~~~~ 93 (98)
T cd03467 60 VCPCHGSRFDLRTGEVVSGPAPRPLPKYPVKVEG 93 (98)
T ss_pred EeCCCCCEEeCCCccCcCCCCCCCcCEEEEEEeC
Confidence 99999999999 9999999999999999999986
No 28
>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=99.74 E-value=4.7e-18 Score=135.40 Aligned_cols=91 Identities=13% Similarity=0.131 Sum_probs=76.3
Q ss_pred ecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcc-cCCcCC----
Q psy6642 75 DLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCV-PIANAG---- 149 (292)
Q Consensus 75 ~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~-l~~~~~---- 149 (292)
.+++|++|+.+.+...|+++++.+ ..+|+++|+.+.|||+|++ ++.+..
T Consensus 6 ~~~~l~~g~~~~~~~~g~~i~l~r--------------------------~~~g~~~A~~~~CpH~g~~ll~~G~~~~~~ 59 (103)
T cd03529 6 ALDDLPPGSGVAALVGDTQIAIFR--------------------------LPGREVYAVQNMDPHSRANVLSRGIVGDIG 59 (103)
T ss_pred EHHHCCCCCcEEEEECCEEEEEEE--------------------------eCCCeEEEEeCcCCCCCCcccCCceEcccC
Confidence 578899999999999999987754 2356999999999999997 555432
Q ss_pred CCCeEEcCCCCcEEcC-CCceecCCCCCCCCCCceEeecCceEE
Q psy6642 150 DWGGYYCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGDEGILI 192 (292)
Q Consensus 150 ~~~~~~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~d~i~V 192 (292)
+.+.+.||+|||+||+ +|+++.+|. .+|+.||+++++|.++|
T Consensus 60 ~~~~i~Cp~Hg~~Fdl~tG~~~~~p~-~~l~~y~v~~~~g~v~v 102 (103)
T cd03529 60 GEPVVASPLYKQHFSLKTGRCLEDED-VSVATFPVRVEDGEVYV 102 (103)
T ss_pred CCeEEECCCCCCEEEcCCCCccCCCC-ccEeeEeEEEECCEEEE
Confidence 1247999999999998 999999886 58999999999998876
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=99.74 E-value=5.2e-18 Score=135.43 Aligned_cols=92 Identities=17% Similarity=0.250 Sum_probs=77.5
Q ss_pred ecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCC-CcccCCcCCCCCe
Q psy6642 75 DLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHL-GCVPIANAGDWGG 153 (292)
Q Consensus 75 ~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHl-Gc~l~~~~~~~~~ 153 (292)
.+++|++|+...+...|.+++|.+ ..+++++|+.+.|||+ +++|+.+..+.+.
T Consensus 7 ~~~el~~g~~~~~~v~g~~l~v~r--------------------------~~~~~~~a~~~~CpH~g~~~L~~g~~~~~~ 60 (105)
T TIGR02378 7 AIDDIPEETGVCVLLGDTQIAIFR--------------------------VPGDQVFAIQNMCPHKRAFVLSRGIVGDAQ 60 (105)
T ss_pred EHHHCCCCCcEEEEECCEEEEEEE--------------------------eCCCcEEEEeCcCCCCCCccccceEEccCC
Confidence 578899999999999999987754 2367899999999999 7788876433333
Q ss_pred ----EEcCCCCcEEcC-CCceecCCCCCCCCCCceEeecCceEEE
Q psy6642 154 ----YYCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGDEGILIR 193 (292)
Q Consensus 154 ----~~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~d~i~V~ 193 (292)
+.||+|||+||+ +|+++.+|. .+|+.||+++++|.++|.
T Consensus 61 ~~~~i~Cp~Hg~~Fdl~tG~~~~~~~-~~L~~y~v~v~~g~v~v~ 104 (105)
T TIGR02378 61 GELWVACPLHKRNFRLEDGRCLEDDS-GSVRTYEVRVEDGRVYVA 104 (105)
T ss_pred CcEEEECCcCCCEEEcCCccccCCCC-ccEeeEeEEEECCEEEEe
Confidence 999999999999 999998765 689999999999988875
No 30
>PRK09511 nirD nitrite reductase small subunit; Provisional
Probab=99.73 E-value=7e-18 Score=136.08 Aligned_cols=94 Identities=13% Similarity=0.058 Sum_probs=78.2
Q ss_pred eecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcc-cCCcCCC--
Q psy6642 74 VDLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCV-PIANAGD-- 150 (292)
Q Consensus 74 v~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~-l~~~~~~-- 150 (292)
..+++|++|+...+...|+.+.|.+. ..+|++||++|.|||.|++ |+.+...
T Consensus 8 ~~~~dl~~g~~~~v~v~g~~i~l~~~-------------------------~~~g~~~A~~n~CpH~~~~~L~~G~~~~~ 62 (108)
T PRK09511 8 CKIDDILPGTGVCALVGDEQVAIFRP-------------------------YHDEQVFAISNIDPFFQASVLSRGLIAEH 62 (108)
T ss_pred eEHhHcCCCceEEEEECCEEEEEEEE-------------------------CCCCEEEEEeCcCCCCCCcccCCceEccC
Confidence 36799999999999999988877531 1378999999999999996 8777542
Q ss_pred CC--eEEcCCCCcEEcC-CCceecCCCCCCCCCCceEeecCceEEE
Q psy6642 151 WG--GYYCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGDEGILIR 193 (292)
Q Consensus 151 ~~--~~~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~d~i~V~ 193 (292)
.+ .+.||+|||+||+ ||+++..|. .+|++||+++++|.|+|.
T Consensus 63 ~g~~~V~CP~H~~~Fdl~TG~~~~~~~-~~l~typV~ve~g~V~v~ 107 (108)
T PRK09511 63 QGELWVASPLKKQRFRLSDGLCMEDEQ-FSVKHYDARVKDGVVQLR 107 (108)
T ss_pred CCeEEEECCCCCCEEECCCcccCCCCC-ccEeeEeEEEECCEEEEe
Confidence 12 4999999999999 999997664 699999999999998874
No 31
>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=99.72 E-value=1.8e-17 Score=139.24 Aligned_cols=96 Identities=19% Similarity=0.273 Sum_probs=80.9
Q ss_pred eecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCccccccc-CCCeEEEEecccCCCcccCCcCCC-C
Q psy6642 74 VDLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVK-DPSWLVIIGICTHLGCVPIANAGD-W 151 (292)
Q Consensus 74 v~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~-~g~~~a~~~~CtHlGc~l~~~~~~-~ 151 (292)
..+++|++|+.+.+++.|.+++|.+ .. +|+++|+.|+|||+|++|+.+... .
T Consensus 22 ~~~~el~~g~~~~~~~~g~~i~v~r--------------------------~~~dG~~~A~~n~CpHrga~L~~G~~~~~ 75 (138)
T cd03480 22 AYVEDLDPSRPTPFTLLGRDLVIWW--------------------------DRNSQQWRAFDDQCPHRLAPLSEGRIDEE 75 (138)
T ss_pred EEHHHCCCCCcEEEEECCeeEEEEE--------------------------ECCCCEEEEEcCCCcCCcCccccceEcCC
Confidence 3678899999999999999887753 33 899999999999999999988653 3
Q ss_pred CeEEcCCCCcEEcCCCceecCCC-----------CCCCCCCceEeecCceEEEee
Q psy6642 152 GGYYCPCHGSHYDASGRIRKGPA-----------PTNMEVPPYQFGDEGILIRML 195 (292)
Q Consensus 152 ~~~~CPcHGs~FD~~G~v~~gPa-----------~~~L~~~p~~~~~d~i~V~I~ 195 (292)
+.+.||+|||+||.+|+++..|. ...|+.||++++++.|+|.+.
T Consensus 76 ~~i~CP~Hgw~Fd~tG~~~~~P~~~~~g~~~~~~~~~l~~ypv~v~~g~V~V~~~ 130 (138)
T cd03480 76 GCLECPYHGWSFDGSGSCQRIPQAAEGGKAHTSPRACVASLPTAVRQGLLFVWPG 130 (138)
T ss_pred CEEEeCCCCCEECCCCCEEECCCCccccccCCCcccccceEeEEEECCEEEEecC
Confidence 68999999999999999998763 256889999999998887753
No 32
>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=99.71 E-value=5.2e-17 Score=133.71 Aligned_cols=102 Identities=19% Similarity=0.279 Sum_probs=78.4
Q ss_pred ecCCCCC-CCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCC-CC
Q psy6642 75 DLNLIPE-GQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGD-WG 152 (292)
Q Consensus 75 ~~s~l~~-g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~-~~ 152 (292)
.+++|++ |..+++...+.++++.+ ..+|+++|+.|+|||+|++|.++... ..
T Consensus 6 ~~~el~~~g~~~~~~~~~~~i~v~r--------------------------~~~g~v~A~~n~CpH~g~~L~~~~~~~~~ 59 (123)
T cd03536 6 HESEIPNKGDFMVRDMGSDSVIVAR--------------------------DKDGEIHVSLNVCPHRGMRISTTDGGNTQ 59 (123)
T ss_pred EHHHCCCCCCEEEEEECCceEEEEE--------------------------CCCCCEEEEeeeCCCCCCCcccccCCCcC
Confidence 4677887 55566677888877643 35799999999999999999876543 25
Q ss_pred eEEcCCCCcEEcCCCceecCCCC-------------CCCCCCceEeecCceEEEeecccCCCCCCcc
Q psy6642 153 GYYCPCHGSHYDASGRIRKGPAP-------------TNMEVPPYQFGDEGILIRMLAHSDIRTPDFS 206 (292)
Q Consensus 153 ~~~CPcHGs~FD~~G~v~~gPa~-------------~~L~~~p~~~~~d~i~V~I~ahtD~~~P~F~ 206 (292)
.+.||||||+||.+|+++..|.. .+|..+++++.++-|+|.+ +...|.|.
T Consensus 60 ~i~Cp~Hgw~fd~~G~~~~~p~~~~~~~~~~~~~~~~~L~~~~v~~~~g~Ifv~~----~~~~~~~~ 122 (123)
T cd03536 60 IHVCIYHGWAFRPNGDFIGAPVEKECMHGKMRTKAELGLHKARVTLYGGLIFATW----NIDGPSFE 122 (123)
T ss_pred EEECCcCCCEECCCCcEEECCccccccccCCCCHHHCCCcceeEEEECCEEEEEe----CCCCCCCC
Confidence 78999999999999999988863 4588889999888776653 33455554
No 33
>cd03475 Rieske_SoxF_SoxL SoxF and SoxL family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. SoxF is a subunit of the terminal oxidase supercomplex SoxM in the plasma membrane of Sulfolobus acidocaldarius that combines features of a cytochrome bc(1) complex and a cytochrome. The Rieske domain of SoxF has a 12 residue insertion which is not found in eukaryotic and bacterial Rieske proteins and is thought to influence the redox properties of the iron-sulfur cluster. SoxL is a Rieske protein which may be part of an archaeal bc-complex homologue whose physiological function is still unknown. SoxL has two features not seen in other Rieske proteins; (i) a significantly greater distance between the two cluster-binding sites and (ii) an unexpected Pro - Asp substitution at one of the cluster binding sites. SoxF and SoxL are found in archaea and in bacteria.
Probab=99.69 E-value=1.1e-16 Score=138.30 Aligned_cols=61 Identities=34% Similarity=0.673 Sum_probs=53.2
Q ss_pred CCCeEEEEecccCCCcccCCc---------------CCCCCeEEcCCCCcEEcC-CC-ceecCCCCCCCCCCceEeec
Q psy6642 127 DPSWLVIIGICTHLGCVPIAN---------------AGDWGGYYCPCHGSHYDA-SG-RIRKGPAPTNMEVPPYQFGD 187 (292)
Q Consensus 127 ~g~~~a~~~~CtHlGc~l~~~---------------~~~~~~~~CPcHGs~FD~-~G-~v~~gPa~~~L~~~p~~~~~ 187 (292)
+++++|++++|||+||++.+. ..+.+.|.||||||+||+ +| .++.|||+++|+++++++++
T Consensus 74 ~g~IvA~S~iCpHlGc~l~~~~~y~~~~~~~~~~~g~~~~~~i~CPcHgS~FD~~tGg~v~~GPA~~pLp~~~L~~d~ 151 (171)
T cd03475 74 NKSIVAFSAICQHLGCQPPPIVSYPSYYPPDKAPGLASKGAVIHCCCHGSTYDPYKGGVVLTGPAPRPLPAVILEYDS 151 (171)
T ss_pred CCEEEEEeCcCCCCCCcccccccccccccccccccccccCCEEEcCCCCCEEeCCCCCeEcCCCCCCCcCEeEEEEeC
Confidence 789999999999999988641 123579999999999999 55 78889999999999999996
No 34
>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=99.69 E-value=1.6e-16 Score=131.79 Aligned_cols=75 Identities=25% Similarity=0.418 Sum_probs=61.1
Q ss_pred ecCCCCC-CCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCC-CCC
Q psy6642 75 DLNLIPE-GQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAG-DWG 152 (292)
Q Consensus 75 ~~s~l~~-g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~-~~~ 152 (292)
.+++|++ |...++.+.++++++.+ +.+|+++|+.|+|||+|++|+.+.. +.+
T Consensus 14 ~~~el~~~g~~~~~~~~~~~i~l~r--------------------------~~~g~i~A~~n~C~Hrg~~L~~g~~g~~~ 67 (128)
T cd03472 14 HETHIPKAGDYLTTYMGEDPVIVVR--------------------------QKDGSIRVFLNQCRHRGMRICRSDAGNAK 67 (128)
T ss_pred EHHHCCCCCCEEEEEECCceEEEEE--------------------------CCCCCEEEEhhhCcCCCCeeeccCCCCcC
Confidence 5677876 44456777888877643 3589999999999999999988653 335
Q ss_pred eEEcCCCCcEEcCCCceecCCCC
Q psy6642 153 GYYCPCHGSHYDASGRIRKGPAP 175 (292)
Q Consensus 153 ~~~CPcHGs~FD~~G~v~~gPa~ 175 (292)
.+.||||||+||.+|++++.|+.
T Consensus 68 ~i~CP~Hgw~fd~~G~~~~~P~~ 90 (128)
T cd03472 68 AFTCTYHGWAYDTAGNLVNVPFE 90 (128)
T ss_pred EEECCcCCeEECCCcCEEeccCc
Confidence 89999999999999999999884
No 35
>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=99.66 E-value=3e-16 Score=129.44 Aligned_cols=92 Identities=17% Similarity=0.187 Sum_probs=73.5
Q ss_pred cCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCeEE
Q psy6642 76 LNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGGYY 155 (292)
Q Consensus 76 ~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~~~ 155 (292)
.++|+ ++.+.+++.|.++++. |..+|+++|+.|.|||+|++|+.+..+++.+.
T Consensus 10 ~~~l~-~~~~~~~~~g~~ivl~--------------------------r~~~g~v~a~~n~CpHrg~~Ls~G~v~~~~l~ 62 (123)
T cd03537 10 SDDLK-DKPTELTLFGRPCVAW--------------------------RGATGRAVVMDRHCSHLGANLADGRVKDGCIQ 62 (123)
T ss_pred HHHcC-CCcEEEEECCeEEEEE--------------------------EccCCEEEEEcCCCCCCCCCccCCEEeCCEEE
Confidence 45554 5566777778877664 44588999999999999999999887778999
Q ss_pred cCCCCcEEcCCCceecCCC-------------CCCCCCCceEeecCceEEEe
Q psy6642 156 CPCHGSHYDASGRIRKGPA-------------PTNMEVPPYQFGDEGILIRM 194 (292)
Q Consensus 156 CPcHGs~FD~~G~v~~gPa-------------~~~L~~~p~~~~~d~i~V~I 194 (292)
||+|||+||.+|+++..|. ...+..||++..+|-|+|.+
T Consensus 63 CpyHGw~Fd~~G~~~~iP~~~~~~~~~~~~p~~~~~~~~pv~e~~G~Vwv~~ 114 (123)
T cd03537 63 CPFHHWRYDEQGQCVHIPGHSTAVRRLEPVPRGARQPTLVTAERYGYVWVWY 114 (123)
T ss_pred CCCCCCEECCCCCEEECCCCcccccccccCCcccccccEeEEEECCEEEEEc
Confidence 9999999999999997764 13577888888888666654
No 36
>PF13806 Rieske_2: Rieske-like [2Fe-2S] domain; PDB: 2JO6_A 3C0D_A 3D89_A 2JZA_A.
Probab=99.66 E-value=2.6e-16 Score=126.22 Aligned_cols=93 Identities=18% Similarity=0.299 Sum_probs=81.3
Q ss_pred eecCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccC-CCcccCCcCCCC-
Q psy6642 74 VDLNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTH-LGCVPIANAGDW- 151 (292)
Q Consensus 74 v~~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtH-lGc~l~~~~~~~- 151 (292)
..+++|++|+.+.+...|+.+.|.+ ..++++||++|.||| .+.+|+.|..+.
T Consensus 6 ~~~~~L~~~~~~~~~v~g~~Ialf~--------------------------~~~~~vyAi~n~Cph~~~~~Ls~G~i~~~ 59 (104)
T PF13806_consen 6 CPLDDLPPGEGRAVEVDGRQIALFR--------------------------VRDGEVYAIDNRCPHSQAGPLSDGLIGDG 59 (104)
T ss_dssp EETTTSCTTSEEEEEETTEEEEEEE--------------------------ESTTEEEEEESBETTTTSSCGCGSEEEEC
T ss_pred ccHHHCCCCCcEEEEECCeEEEEEE--------------------------eCCCCEEEEeccCCccCCcccceeEEccC
Confidence 3789999999999999999998865 247899999999999 799999875433
Q ss_pred ---CeEEcCCCCcEEcC-CCceecCCCCCCCCCCceEeecCceEEE
Q psy6642 152 ---GGYYCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGDEGILIR 193 (292)
Q Consensus 152 ---~~~~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~d~i~V~ 193 (292)
..+.||+|+++||+ +|+++..|. .+|++||++++++.|+|.
T Consensus 60 ~g~~~V~CPlH~~~f~L~tG~~~~~~~-~~l~~ypvrv~~g~V~V~ 104 (104)
T PF13806_consen 60 NGEPCVACPLHKWRFDLRTGECLEDPD-VSLRTYPVRVEDGQVYVE 104 (104)
T ss_dssp TTEEEEEETTTTEEEETTTTEESSECS-EBSBEEEEEECTTEEEEE
T ss_pred CCCEEEECCCCCCeEECCCcCcCCCCC-CcEEeEEEEEECCEEEEC
Confidence 38999999999999 999998776 899999999999988874
No 37
>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=99.66 E-value=2.3e-16 Score=126.42 Aligned_cols=84 Identities=17% Similarity=0.175 Sum_probs=69.4
Q ss_pred cCCCCCCCeEEEEE-cCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCc--CCCCC
Q psy6642 76 LNLIPEGQSVTFKW-RGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIAN--AGDWG 152 (292)
Q Consensus 76 ~s~l~~g~~~~~~~-~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~--~~~~~ 152 (292)
+.+|++|..+.+++ .|+.+.|.+ .+|+++|+.+.|||+|++|..+ ..+++
T Consensus 14 l~eL~~G~~~~v~v~~g~~I~V~~---------------------------~~G~~~A~~n~CpH~g~pL~~g~g~~~g~ 66 (107)
T cd03473 14 VANLKEGINFFRNKEDGKKYIIYK---------------------------SKSELKACKNQCKHQGGLFIKDIEDLDGR 66 (107)
T ss_pred HhcCCCCceEEEEecCCcEEEEEE---------------------------ECCEEEEEcCCCCCCCccccCCcceEeCC
Confidence 47899999999999 898887754 3789999999999999999874 35668
Q ss_pred eEEcCCCCcEEcC-CCceecCCCCCCCCCCceEee
Q psy6642 153 GYYCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFG 186 (292)
Q Consensus 153 ~~~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~ 186 (292)
.+.||+|||+||+ +|+++..|+..+-+..-+++.
T Consensus 67 ~V~CP~Hg~~FDLrTG~~~~~p~~~~~~~~~~~~~ 101 (107)
T cd03473 67 TVRCTKHNWKLDVSTMKYVNPPDSFCQDELVVEYD 101 (107)
T ss_pred EEEeCCCCCEEEcCCCCCccCCcccccceeEEEEc
Confidence 8999999999999 999999887665544444443
No 38
>PLN02281 chlorophyllide a oxygenase
Probab=99.65 E-value=6.3e-16 Score=153.57 Aligned_cols=88 Identities=20% Similarity=0.254 Sum_probs=72.5
Q ss_pred cccccccCCCeEEEEecccCCCcccCCcCCCCCeEEcCCCCcEEcCCCceecCCCC----CCCCCCceEeecCceEEEee
Q psy6642 120 ADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGGYYCPCHGSHYDASGRIRKGPAP----TNMEVPPYQFGDEGILIRML 195 (292)
Q Consensus 120 ~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~~~CPcHGs~FD~~G~v~~gPa~----~~L~~~p~~~~~d~i~V~I~ 195 (292)
..++|..+|+++|+.|.|||+|++|+.|..+++.+.||||||+||.+|+|+..|.. ..+..||+++.+|.|+|.+
T Consensus 245 IVL~R~~dG~v~A~~D~CPHRgaPLs~G~v~g~~L~CPYHGW~FD~dG~cv~iP~~~~~~~~l~sYPV~e~~GlVwV~l- 323 (536)
T PLN02281 245 WVIFRGEDGKPGCVRNTCAHRACPLDLGTVNEGRIQCPYHGWEYSTDGECKKMPSTKLLKVKIKSLPCLEQEGMIWIWP- 323 (536)
T ss_pred EEEEECCCCeEEEEeCcCcCCCCccccceeeCCEEEeCCCCCEECCCCCEeeCCCCccccCCcceEeEEEECCEEEEEe-
Confidence 45677789999999999999999999998888999999999999999999998864 3578999999888777665
Q ss_pred cccCCCCCCccccc
Q psy6642 196 AHSDIRTPDFSKYR 209 (292)
Q Consensus 196 ahtD~~~P~F~~yr 209 (292)
..+...|.++++.
T Consensus 324 -gd~~~aP~~p~ld 336 (536)
T PLN02281 324 -GDEPPAPILPSLQ 336 (536)
T ss_pred -CCCCCCCCCcccc
Confidence 3333446666554
No 39
>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=99.65 E-value=7.7e-16 Score=131.07 Aligned_cols=96 Identities=19% Similarity=0.245 Sum_probs=77.3
Q ss_pred eeecCCCC-CCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcC-CC
Q psy6642 73 EVDLNLIP-EGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANA-GD 150 (292)
Q Consensus 73 ~v~~s~l~-~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~-~~ 150 (292)
....++|+ +|..+++.+.|+++++.+ ..+|+++|+.|+|||+|++|+.+. ++
T Consensus 29 v~~~~el~~~g~~~~~~i~g~~iiv~r--------------------------~~~g~v~A~~n~CpHrg~~L~~g~~g~ 82 (150)
T cd03545 29 VGLEAEIPNAGDFKSTFVGDTPVVVTR--------------------------AEDGSLHAWVNRCAHRGALVCRERRGN 82 (150)
T ss_pred EEEHHHCCCCCCEEEEEECCceEEEEE--------------------------CCCCCEEEEcccCcCCCCEecccccCC
Confidence 34678888 588888989888887753 357899999999999999998763 44
Q ss_pred CCeEEcCCCCcEEcCCCceecCCCC-----------------CCCCCCceEeecCceEEEe
Q psy6642 151 WGGYYCPCHGSHYDASGRIRKGPAP-----------------TNMEVPPYQFGDEGILIRM 194 (292)
Q Consensus 151 ~~~~~CPcHGs~FD~~G~v~~gPa~-----------------~~L~~~p~~~~~d~i~V~I 194 (292)
.+.+.||||||+||++|+++..|+. ..|..+++++.++-|+|.+
T Consensus 83 ~~~i~CP~Hgw~Fdl~G~~~~ip~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~ifv~l 143 (150)
T cd03545 83 DGSLTCVYHQWAYDLKGNLKGVPFRRGLKGQGGMPKDFDMKQHGLEKLRVETVGGLVFASF 143 (150)
T ss_pred CCEEECCCCCCEECCCCCEEECccccccccccccccCcCHHHCCCcceeEeEECCEEEEEe
Confidence 5789999999999999999998753 3577777887778776654
No 40
>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=99.63 E-value=1.6e-15 Score=126.00 Aligned_cols=92 Identities=16% Similarity=0.245 Sum_probs=71.9
Q ss_pred cCCCC-CCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcC-CCCCe
Q psy6642 76 LNLIP-EGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANA-GDWGG 153 (292)
Q Consensus 76 ~s~l~-~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~-~~~~~ 153 (292)
.++|+ +|...++.+.+.++++.+ ..+|+++|+.|+|||+|++|..+. ++.+.
T Consensus 7 ~~~l~~~g~~~~~~~~~~~v~v~r--------------------------~~dg~v~A~~n~C~Hrg~~L~~g~~~~~~~ 60 (129)
T cd03539 7 EAEIPNPGDFKRTLIGERSVIMTR--------------------------DPDGGINVVENVCAHRGMRFCRERNGNAKD 60 (129)
T ss_pred HHHCCCCCCEEEEEECCcEEEEEE--------------------------CCCCCEEEEeccCcCCCCEeeeeccCccCE
Confidence 56777 478888888888877643 357899999999999999998764 34468
Q ss_pred EEcCCCCcEEcCCCceecCCCC---------------------CCCCCCceEeecCceEEE
Q psy6642 154 YYCPCHGSHYDASGRIRKGPAP---------------------TNMEVPPYQFGDEGILIR 193 (292)
Q Consensus 154 ~~CPcHGs~FD~~G~v~~gPa~---------------------~~L~~~p~~~~~d~i~V~ 193 (292)
|.||||||+||++|+++..|.. ..|..++++..++-|+|.
T Consensus 61 l~CPyHgw~fdl~G~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~v~~~~g~Ifv~ 121 (129)
T cd03539 61 FVCPYHQWNYSLKGDLQGVPFRRGVKKDGKVNGGMPKDFKTKDHGLTKLKVATRGGVVFAS 121 (129)
T ss_pred EECCCCCCEECCCCCEeeccccccccccccccccccCCcChHHCCCceeeEeEECCEEEEE
Confidence 9999999999999999987642 346666777777755554
No 41
>PLN00095 chlorophyllide a oxygenase; Provisional
Probab=99.62 E-value=1.2e-15 Score=146.07 Aligned_cols=95 Identities=22% Similarity=0.233 Sum_probs=78.9
Q ss_pred ecCCC-CCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCe
Q psy6642 75 DLNLI-PEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGG 153 (292)
Q Consensus 75 ~~s~l-~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~ 153 (292)
.+++| ++|+.+.+.+.|.+++|. |+.+|+++|+.|.|||+||+|+.|..+++.
T Consensus 78 ~ssdL~~~g~~~~f~L~GepIVL~--------------------------Rd~dGqv~Af~N~CPHRGapLSeG~v~~g~ 131 (394)
T PLN00095 78 FAAGLRDEDALIAFDLFNVPWVLF--------------------------RDADGEAGCIKDECAHRACPLSLGKLVDGK 131 (394)
T ss_pred EHHHCCCCCceEEEEECCEEEEEE--------------------------ECCCCCEEEEeccCCCCCCccccCcccCCE
Confidence 46677 567777777777777664 446899999999999999999999887799
Q ss_pred EEcCCCCcEEcCCCceecCCCCCC------CCCCceEeecCceEEEee
Q psy6642 154 YYCPCHGSHYDASGRIRKGPAPTN------MEVPPYQFGDEGILIRML 195 (292)
Q Consensus 154 ~~CPcHGs~FD~~G~v~~gPa~~~------L~~~p~~~~~d~i~V~I~ 195 (292)
+.||||||+||.+|+|+..|.... +..||+++.+|.|+|...
T Consensus 132 L~CPYHGW~FD~~G~C~~iP~~~~~~~~~~v~tYPV~e~dGlVwVw~G 179 (394)
T PLN00095 132 AQCPYHGWEYETGGECAKMPSCKKFLKGVFADAAPVIERDGFIFLWAG 179 (394)
T ss_pred EEecCCCcEECCCCCEeeCCCccccccccccceEEEEEECCEEEEEeC
Confidence 999999999999999999886432 468999999998877654
No 42
>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=99.62 E-value=2.7e-15 Score=123.49 Aligned_cols=75 Identities=23% Similarity=0.352 Sum_probs=61.1
Q ss_pred ecCCCCC-CCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCC-C
Q psy6642 75 DLNLIPE-GQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDW-G 152 (292)
Q Consensus 75 ~~s~l~~-g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~-~ 152 (292)
.+++|++ |..+.+.+.+.+++|.+ ..+|+++|+.|+|||+|++|..+..+. +
T Consensus 8 ~~~el~~~g~~~~~~~~~~~iiv~r--------------------------~~~g~~~A~~n~CpHrg~~L~~g~~~~~~ 61 (123)
T cd03535 8 HESEIPNAGDYVVRYIGDDSFIVCR--------------------------DEDGEIRAMFNSCRHRGMQVCRAEMGNTS 61 (123)
T ss_pred EHHHCCCCCCEEEEEECCeEEEEEE--------------------------CCCCCEEEEcccCccCCCEeeccccCCCC
Confidence 5678887 55555667777877653 357999999999999999999876543 5
Q ss_pred eEEcCCCCcEEcCCCceecCCCC
Q psy6642 153 GYYCPCHGSHYDASGRIRKGPAP 175 (292)
Q Consensus 153 ~~~CPcHGs~FD~~G~v~~gPa~ 175 (292)
.+.||||||+||.+|+++..|+.
T Consensus 62 ~i~Cp~Hgw~Fd~tG~~~~~p~~ 84 (123)
T cd03535 62 HFRCPYHGWTYRNTGRLVGVPAQ 84 (123)
T ss_pred EEECCcCCCEECCCcCEeeCCCc
Confidence 89999999999999999998863
No 43
>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=99.62 E-value=2e-15 Score=123.66 Aligned_cols=78 Identities=19% Similarity=0.343 Sum_probs=64.8
Q ss_pred cCCCCC-CCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCCCeE
Q psy6642 76 LNLIPE-GQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDWGGY 154 (292)
Q Consensus 76 ~s~l~~-g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~~~~ 154 (292)
.++|++ |..+++.+.|.++++.+ ..+|+++|+.|+|||+|++|..+.++.+.|
T Consensus 8 ~~el~~~g~~~~~~~~g~~i~v~r--------------------------~~dg~v~A~~n~C~Hrg~~L~~g~~~~~~i 61 (118)
T cd03541 8 SDQVKEKNQYFTGRLGNVEYVVCR--------------------------DGNGKLHAFHNVCTHRASILACGSGKKSCF 61 (118)
T ss_pred HHHCCCCCCeEEEEECCeEEEEEE--------------------------CCCCCEEEEeCCCCCCcCCccCCccccCEE
Confidence 466775 44568888888887753 357899999999999999999888777899
Q ss_pred EcCCCCcEEcCCCceecCCCCCCCC
Q psy6642 155 YCPCHGSHYDASGRIRKGPAPTNME 179 (292)
Q Consensus 155 ~CPcHGs~FD~~G~v~~gPa~~~L~ 179 (292)
.||||||+||.+|+++..|....++
T Consensus 62 ~CP~Hgw~f~l~G~l~~~P~~~~~~ 86 (118)
T cd03541 62 VCPYHGWVYGLDGSLTKATQATGIQ 86 (118)
T ss_pred EeCCCCCEEcCCCeEEeCCCccccc
Confidence 9999999999999999988765443
No 44
>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=99.60 E-value=6.6e-15 Score=124.77 Aligned_cols=76 Identities=21% Similarity=0.409 Sum_probs=63.6
Q ss_pred ecCCCC-CCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcC-CC-C
Q psy6642 75 DLNLIP-EGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANA-GD-W 151 (292)
Q Consensus 75 ~~s~l~-~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~-~~-~ 151 (292)
.+++|+ +|..+++++.|.+++|.+ ..+|+++|+.|+|||+|++|..+. +. +
T Consensus 28 ~~~elp~~G~~~~~~i~g~~i~v~r--------------------------~~~g~v~A~~n~CpHrg~~L~~~~~g~~~ 81 (146)
T cd03538 28 HESQVPNPGDYITTRIGDQPVVMVR--------------------------HTDGSVHVLYNRCPHKGTKIVSDGCGNTG 81 (146)
T ss_pred EHHHCCCCCCEEEEEECCeeEEEEE--------------------------CCCCCEEEEeccCcCCCCEeecccccccC
Confidence 568888 688999999999987754 357999999999999999997543 32 3
Q ss_pred CeEEcCCCCcEEcCCCceecCCCCC
Q psy6642 152 GGYYCPCHGSHYDASGRIRKGPAPT 176 (292)
Q Consensus 152 ~~~~CPcHGs~FD~~G~v~~gPa~~ 176 (292)
+.+.||+|||+||.+|++++.|+.+
T Consensus 82 ~~i~CP~Hgw~Fd~~G~~~~~p~~~ 106 (146)
T cd03538 82 KFFRCPYHAWSFKTDGSLLAIPLKK 106 (146)
T ss_pred CEEECCCCCCEECCCCCEEECCchh
Confidence 5799999999999999999988643
No 45
>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=99.60 E-value=1.8e-15 Score=124.71 Aligned_cols=86 Identities=24% Similarity=0.410 Sum_probs=66.8
Q ss_pred ecCCCCCC-CeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcC-CCCC
Q psy6642 75 DLNLIPEG-QSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANA-GDWG 152 (292)
Q Consensus 75 ~~s~l~~g-~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~-~~~~ 152 (292)
.+++|+++ ..+.++..+.++++.+ ..+|+++|+.|+|||+|++|..+. ++.+
T Consensus 6 ~~~elp~~g~~~~~~~~~~~i~l~r--------------------------~~~g~v~A~~n~C~Hrg~~L~~g~~~~~~ 59 (123)
T cd03542 6 HESQIPNNNDYFTTTIGRQPVVITR--------------------------DKDGELNAFINACSHRGAMLCRRKQGNKG 59 (123)
T ss_pred EHHHCCCCCCEEEEEECCcEEEEEE--------------------------CCCCCEEEEcccCcCCCCccccccccCCC
Confidence 46788874 5677788888887654 358999999999999999998764 3446
Q ss_pred eEEcCCCCcEEcCCCceecCCCCCCCCCCceEeec
Q psy6642 153 GYYCPCHGSHYDASGRIRKGPAPTNMEVPPYQFGD 187 (292)
Q Consensus 153 ~~~CPcHGs~FD~~G~v~~gPa~~~L~~~p~~~~~ 187 (292)
.|.||||||+||.+|+++..| ..++..|+..++.
T Consensus 60 ~i~CP~Hg~~Fd~~G~~~~~p-~~~~~~y~~~~~~ 93 (123)
T cd03542 60 TFTCPFHGWTFSNTGKLLKVK-DPKTAGYPEGFNC 93 (123)
T ss_pred EEECcCCCCEecCCccEEECC-cccccCcCcccCh
Confidence 899999999999999999655 3456666655543
No 46
>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=99.53 E-value=7.9e-15 Score=127.79 Aligned_cols=68 Identities=46% Similarity=0.750 Sum_probs=61.5
Q ss_pred ccceeeehhHHHHHHHHHHhhhHhhhhhhhccCCCHHhhhc-cceEEecCCCCCCceEEEEECCeeeEEEcC
Q psy6642 222 QRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSASADVLAM-ATIEVDLNLIPEGQSVTFKWRGKPLFIRHR 292 (292)
Q Consensus 222 ~rr~f~~~~~~~~~~~g~~~~~~~~~~~v~~~~p~~~~~a~-~~~evdls~i~~G~~~~~~WrgkPvfv~~R 292 (292)
+||+||++++++++++++ +++++||+++|+|+++++|. +++||++++|+||+.++|+|+||||||+||
T Consensus 1 ~RR~fl~~~~~~~~~~~~---~~~~~p~v~~~~P~~~~~a~~~~~~v~l~eL~pG~~~~v~~~GkpI~I~~~ 69 (174)
T TIGR01416 1 TRRDFLYAATGAVGAVGA---AAAAVPFIDSMNPSASVKAAGAPTEVDVSKIQPGQQLTVEWRGKPVFIRRR 69 (174)
T ss_pred ChHHHHHHHHHHHHHHHH---HHHHHHHHheeCcchhccccCCcEEEEHHHCCCCCeEEEEECCeEEEEEeC
Confidence 499999888877666665 46789999999999999998 899999999999999999999999999986
No 47
>PLN02518 pheophorbide a oxygenase
Probab=99.52 E-value=3.3e-14 Score=142.74 Aligned_cols=76 Identities=16% Similarity=0.169 Sum_probs=63.1
Q ss_pred cccccc-cCCCeEEEEecccCCCcccCCcCCC-CCeEEcCCCCcEEcCCCceecCCCC--------------CCCCCCce
Q psy6642 120 ADSDRV-KDPSWLVIIGICTHLGCVPIANAGD-WGGYYCPCHGSHYDASGRIRKGPAP--------------TNMEVPPY 183 (292)
Q Consensus 120 ~~~~R~-~~g~~~a~~~~CtHlGc~l~~~~~~-~~~~~CPcHGs~FD~~G~v~~gPa~--------------~~L~~~p~ 183 (292)
..++|+ .+|+++|+.|.|||+|++|+.|..+ ++.+.||||||+||.+|+|+..|.. ..+..||+
T Consensus 115 lVl~Rd~~~G~~~A~~d~CPHRgapLS~G~v~~~g~L~CpYHGW~Fd~~G~c~~IP~~~~~~~~~~~~~~~~a~v~sypv 194 (539)
T PLN02518 115 LVLWKDPNQGEWVAFDDKCPHRLAPLSEGRIDENGHLQCSYHGWSFDGCGSCTRIPQAAPEGPEARAVKSPRACAIKFPT 194 (539)
T ss_pred EEEEEECCCCeEEEEcccCcCcCCCcccceecCCCEEEcCCCCCEEcCCCCeeecccccccccccccccCcccccceEeE
Confidence 445676 7899999999999999999998764 5799999999999999999876531 24778999
Q ss_pred EeecCceEEEee
Q psy6642 184 QFGDEGILIRML 195 (292)
Q Consensus 184 ~~~~d~i~V~I~ 195 (292)
++.+|-|+|.+.
T Consensus 195 ~e~~GlIwV~~~ 206 (539)
T PLN02518 195 MVSQGLLFVWPD 206 (539)
T ss_pred EEECCEEEEEeC
Confidence 999987777654
No 48
>PF02921 UCR_TM: Ubiquinol cytochrome reductase transmembrane region; InterPro: IPR004192 The ubiquinol cytochrome c reductase (cytochrome bc1) complex is a respiratory chain that generates an electrochemical potential coupled to ATP synthesis. The bc1 complex contains 11 subunits, 3 respiratory subunits (cytochrome B, cytochrome C1, Rieske protein), 2 core proteins and 6 low-molecular weight proteins. Each subunit of the cytochrome bc1 complex provides a single helix (this domain) to make up the transmembrane region of the complex.; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1NU1_E 1L0L_E 1BCC_E 1SQB_E 1SQQ_E 1SQP_E 1PPJ_E 2A06_R 1BE3_E 1BGY_E ....
Probab=99.45 E-value=2.1e-14 Score=105.36 Aligned_cols=63 Identities=49% Similarity=0.831 Sum_probs=51.6
Q ss_pred cccCCCCCCccccccCC-CCCCCccccccceeeehhHHHHHHHHHHhhhHhhhhhhhccCCCHH
Q psy6642 196 AHSDIRTPDFSKYRRDR-NPDKGQEETQRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSASAD 258 (292)
Q Consensus 196 ahtD~~~P~F~~yr~~~-~~~~~~~~~~rr~f~~~~~~~~~~~g~~~~~~~~~~~v~~~~p~~~ 258 (292)
+|||+++|||++||+++ .+...+++.+||.|.|+++|+++++++++|+.+|..||.+|+||+|
T Consensus 1 Ahtdi~~PdF~~Yr~~~~~~~~~~~~~~rr~fsY~~~g~~~~~~a~~AK~~V~~fv~~mSaSAD 64 (64)
T PF02921_consen 1 AHTDIKVPDFSDYRRKSPSKRSRESDDSRRAFSYFMVGGGGVASAYAAKSTVQDFVSSMSASAD 64 (64)
T ss_dssp -GGGTS----TTTBSGGTTS-SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSSHH
T ss_pred CCCCCCCCCchhhcccccccccCCCCcccceeeehhhhhHHHHHHHHHHHHHHHHHHhcCccCC
Confidence 69999999999999997 2222356678999999999999999999999999999999999997
No 49
>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=99.42 E-value=4.6e-13 Score=131.68 Aligned_cols=106 Identities=20% Similarity=0.368 Sum_probs=77.4
Q ss_pred cCCCCC-CCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCC-cCCCCCe
Q psy6642 76 LNLIPE-GQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIA-NAGDWGG 153 (292)
Q Consensus 76 ~s~l~~-g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~-~~~~~~~ 153 (292)
.++|++ |.-+++.+.++||+|. |+.+|+++|+.|.|+|+|+.|+. +.++.+.
T Consensus 45 ~selp~~GDy~t~~ig~~pviv~--------------------------R~~dG~i~a~~N~C~HRGa~L~~~~~Gn~~~ 98 (438)
T TIGR03228 45 ESELPNNHDFVTVRAGRQPMIVT--------------------------RDGKGELHALVNACQHRGATLTRVGKGNQST 98 (438)
T ss_pred HHHCCCCCCeEEEEECCeEEEEE--------------------------ECCCCCEEEEcccCCCCCCccccCCccccCE
Confidence 467774 7778888888888764 44689999999999999999986 5666678
Q ss_pred EEcCCCCcEEcCCCceecCCCC-----------CCCCCCceEeecCceEEEeecccCCC-CCCccccccC
Q psy6642 154 YYCPCHGSHYDASGRIRKGPAP-----------TNMEVPPYQFGDEGILIRMLAHSDIR-TPDFSKYRRD 211 (292)
Q Consensus 154 ~~CPcHGs~FD~~G~v~~gPa~-----------~~L~~~p~~~~~d~i~V~I~ahtD~~-~P~F~~yr~~ 211 (292)
|.||||||+||.+|+++..|.+ ..|...+++.-.+-|++. .|.. .|++.+|..+
T Consensus 99 ~~CPYHgW~y~~dG~L~~vp~~~~y~~~fd~~~~~L~~~rv~~y~GfIFv~----l~~~a~~~l~e~lg~ 164 (438)
T TIGR03228 99 FTCPFHAWCYKSDGRLVKVKAPGEYCEGFDKATRGLKKARIASYRGFVFVS----LDVAATDSLEDFLGD 164 (438)
T ss_pred EEcCCCCCcccCCCceeecCcccccCCCCChhhCCCcceeEEEECCEEEEE----eCCCCCCCHHHHhhh
Confidence 9999999999999999987643 224444455555544433 2333 2567777643
No 50
>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=99.41 E-value=4.8e-13 Score=131.51 Aligned_cols=107 Identities=21% Similarity=0.370 Sum_probs=77.6
Q ss_pred ecCCCCC-CCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcC-CCCC
Q psy6642 75 DLNLIPE-GQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANA-GDWG 152 (292)
Q Consensus 75 ~~s~l~~-g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~-~~~~ 152 (292)
..++|++ |.-+++.+.++||+|.+ +.+|+++|+.|+|+|.|+.|+.+. ++.+
T Consensus 44 ~~selp~~gd~~t~~~~~~~vvv~R--------------------------~~dG~i~af~N~C~HRga~L~~~~~g~~~ 97 (433)
T TIGR03229 44 HESQIPNNNDYYTTYMGRQPIFIAR--------------------------NKDGELNAFINACSHRGAMLCRHKRGNKT 97 (433)
T ss_pred EHHHCCCCCCeEEEEECCeEEEEEE--------------------------CCCCcEEEEeCcCCCCCCCcccccccCCC
Confidence 5678885 45567888888887753 468999999999999999998764 4557
Q ss_pred eEEcCCCCcEEcCCCceecCCCCC------------CCCCCce-Eee--cCceEEEeecccCCCCCCccccccC
Q psy6642 153 GYYCPCHGSHYDASGRIRKGPAPT------------NMEVPPY-QFG--DEGILIRMLAHSDIRTPDFSKYRRD 211 (292)
Q Consensus 153 ~~~CPcHGs~FD~~G~v~~gPa~~------------~L~~~p~-~~~--~d~i~V~I~ahtD~~~P~F~~yr~~ 211 (292)
.|.||||||+||.+|+++..|.+. .+...++ +++ .+-| |...|...|++++|..+
T Consensus 98 ~~~CPyHgW~f~~~G~l~~vP~~~~~~~~~~fd~~~~~~L~~v~rve~y~GfI----Fv~l~~~~~~l~e~Lg~ 167 (433)
T TIGR03229 98 TYTCPFHGWTFNNSGKLLKVKDPEDAGYPECFNKDGSHDLKKVARFESYRGFL----FGSLNPDVLPLEEHLGE 167 (433)
T ss_pred EEEcCCCCCEecCCcceEeCCCcccccCccccCcHhhcCCccceEEEEECCEE----EEEcCCCCCCHHHHhhh
Confidence 899999999999999999887631 1223344 233 3433 34455566778888654
No 51
>COG4638 HcaE Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]
Probab=99.34 E-value=2.8e-12 Score=122.96 Aligned_cols=93 Identities=28% Similarity=0.428 Sum_probs=75.2
Q ss_pred cCCCCCCCeEEEEEcCeeEEEEeCChhhhhhcccccccccCCCCcccccccCCCeEEEEecccCCCcccCCcCCCC-CeE
Q psy6642 76 LNLIPEGQSVTFKWRGKPLFIRHRTQKEIDTEQNTNISQLRDPQADSDRVKDPSWLVIIGICTHLGCVPIANAGDW-GGY 154 (292)
Q Consensus 76 ~s~l~~g~~~~~~~~g~pv~i~~~t~~~i~~~~~v~~~~l~dp~~~~~R~~~g~~~a~~~~CtHlGc~l~~~~~~~-~~~ 154 (292)
.++|+.+..+++...|+++.|. |+.+|+++|+.|.|+|.|..|+.+...+ +.|
T Consensus 34 ~~el~~~~~~~~~i~g~~lvi~--------------------------R~~dg~~~al~d~C~HRga~Ls~g~~~~~~~l 87 (367)
T COG4638 34 SSELPKPDPLTVRIGGEPLVVV--------------------------RDKDGQVHALADVCPHRGARLSEGRVGGKGRL 87 (367)
T ss_pred HHHCCCCCceeEEEcCeEEEEE--------------------------ECCCCCEEEEeccCCCCCchhccccCCCCceE
Confidence 5677777778888888887663 5679999999999999999999998776 799
Q ss_pred EcCCCCcEEcCCCceecCCC-----C-----CCCCCCceEeecCceEEEe
Q psy6642 155 YCPCHGSHYDASGRIRKGPA-----P-----TNMEVPPYQFGDEGILIRM 194 (292)
Q Consensus 155 ~CPcHGs~FD~~G~v~~gPa-----~-----~~L~~~p~~~~~d~i~V~I 194 (292)
.||+|||+||.+|+|+.-|. . ..|..+|++...|-|+|..
T Consensus 88 ~CpyHgW~y~~~G~~~~ip~~~~~~~~~~~~~~l~~~~~~~~~G~Iwi~~ 137 (367)
T COG4638 88 TCPYHGWTYDLDGRLRGVPARGYPLDFDKSEHGLKRYPVEERYGFIWIWL 137 (367)
T ss_pred ecCCCceEECCCCcEecCCccccCCCCCHhhCCccccceEEEccEEEEec
Confidence 99999999999999998772 1 2466777777777555543
No 52
>PF02921 UCR_TM: Ubiquinol cytochrome reductase transmembrane region; InterPro: IPR004192 The ubiquinol cytochrome c reductase (cytochrome bc1) complex is a respiratory chain that generates an electrochemical potential coupled to ATP synthesis. The bc1 complex contains 11 subunits, 3 respiratory subunits (cytochrome B, cytochrome C1, Rieske protein), 2 core proteins and 6 low-molecular weight proteins. Each subunit of the cytochrome bc1 complex provides a single helix (this domain) to make up the transmembrane region of the complex.; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1NU1_E 1L0L_E 1BCC_E 1SQB_E 1SQQ_E 1SQP_E 1PPJ_E 2A06_R 1BE3_E 1BGY_E ....
Probab=99.31 E-value=1.1e-12 Score=96.30 Aligned_cols=62 Identities=53% Similarity=0.897 Sum_probs=50.6
Q ss_pred CCCCCCCCCccccccCCCCCCCCC--CcCchhhHHHHHHhHHHHHHHHHHHHHHHhhcCCCcchh
Q psy6642 3 AHSDIRTPDFSKYRRDRNPDKGQE--ETQRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSASAD 65 (292)
Q Consensus 3 ~~~~~~~pd~~~yr~~~~~~~~~~--~~~RR~fl~~atG~~~~~g~~aA~~~~~~~i~~~~p~a~ 65 (292)
|||||.+|||++||+++ ..++++ +.+||.|.|+++|.++++++.+|+.++..|+..|.+++|
T Consensus 1 Ahtdi~~PdF~~Yr~~~-~~~~~~~~~~~rr~fsY~~~g~~~~~~a~~AK~~V~~fv~~mSaSAD 64 (64)
T PF02921_consen 1 AHTDIKVPDFSDYRRKS-PSKRSRESDDSRRAFSYFMVGGGGVASAYAAKSTVQDFVSSMSASAD 64 (64)
T ss_dssp -GGGTS----TTTBSGG-TTS-SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSSHH
T ss_pred CCCCCCCCCchhhcccc-cccccCCCCcccceeeehhhhhHHHHHHHHHHHHHHHHHHhcCccCC
Confidence 79999999999999998 444443 779999999999999999999999999999999998875
No 53
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=98.93 E-value=2.9e-10 Score=76.13 Aligned_cols=36 Identities=25% Similarity=0.398 Sum_probs=26.7
Q ss_pred ccccccceeeehhHHHHHHHHHHhhhHhhhhhhhccCCC
Q psy6642 218 QEETQRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSAS 256 (292)
Q Consensus 218 ~~~~~rr~f~~~~~~~~~~~g~~~~~~~~~~~v~~~~p~ 256 (292)
..+.+||+||++++++++++|+ ++++||||+||+||
T Consensus 6 ~~~~~RRdFL~~at~~~gavG~---~~~a~Pfv~s~~Ps 41 (41)
T PF10399_consen 6 PVDPTRRDFLTIATSAVGAVGA---AAAAWPFVSSMNPS 41 (41)
T ss_dssp ----HHHHHHHHHHHHHHHHHH---HHHHHHHHHTTSS-
T ss_pred CCCchHHHHHHHHHHHHHHHHH---HHHHHHHHhccCCC
Confidence 3456799999888777776665 58899999999997
No 54
>COG0723 QcrA Rieske Fe-S protein [Energy production and conversion]
Probab=98.59 E-value=1.4e-08 Score=88.55 Aligned_cols=71 Identities=35% Similarity=0.526 Sum_probs=61.2
Q ss_pred cccccceeeehhHHHHHHHHHHhhhHhhhhhhhccCCCHHh-hhccceEEecCCCCCCceEEEEECCeeeEEEcC
Q psy6642 219 EETQRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSASADV-LAMATIEVDLNLIPEGQSVTFKWRGKPLFIRHR 292 (292)
Q Consensus 219 ~~~~rr~f~~~~~~~~~~~g~~~~~~~~~~~v~~~~p~~~~-~a~~~~evdls~i~~G~~~~~~WrgkPvfv~~R 292 (292)
....||+|+.++++..+++++ ..+++|++.+++|+++. .+.+++|+|++.+.+++..+++|||+|+|+++|
T Consensus 7 ~~~~~~~~l~~~~~~~~~~~~---~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~ 78 (177)
T COG0723 7 TGLSRRDFLVLLTTGVGAVGA---GAALYPAVESVDPPAGGGLAGAPIEVDDSGIGPGPLVTVPWRGKPVFLLRR 78 (177)
T ss_pred ccccHHHhhhhhhccccccce---eeeeeehhhcccCcccccccCCceeeeccCCccceEEEEecCCCCeeeEee
Confidence 345699999877777666654 47889999999999988 566999999999999999999999999999865
No 55
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=98.11 E-value=2.5e-06 Score=57.13 Aligned_cols=35 Identities=26% Similarity=0.416 Sum_probs=26.7
Q ss_pred CCcCchhhHHHHHHhHHHHHHHHHHHHHHHhhcCCCcc
Q psy6642 26 EETQRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSAS 63 (292)
Q Consensus 26 ~~~~RR~fl~~atG~~~~~g~~aA~~~~~~~i~~~~p~ 63 (292)
.+.+||+||+++|++.+.+|++ .+++||+.+++|+
T Consensus 7 ~~~~RRdFL~~at~~~gavG~~---~~a~Pfv~s~~Ps 41 (41)
T PF10399_consen 7 VDPTRRDFLTIATSAVGAVGAA---AAAWPFVSSMNPS 41 (41)
T ss_dssp ---HHHHHHHHHHHHHHHHHHH---HHHHHHHHTTSS-
T ss_pred CCchHHHHHHHHHHHHHHHHHH---HHHHHHHhccCCC
Confidence 4789999999999987766654 5789999999985
No 56
>PRK13474 cytochrome b6-f complex iron-sulfur subunit; Provisional
Probab=98.00 E-value=1.1e-05 Score=70.75 Aligned_cols=67 Identities=15% Similarity=0.239 Sum_probs=49.3
Q ss_pred cccceeeehhHHHHHHHHHHhhhHhhhhhhhccCCCHHhhhcc-ce-------EEecCCC----CCCceEEEE-ECCee-
Q psy6642 221 TQRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSASADVLAMA-TI-------EVDLNLI----PEGQSVTFK-WRGKP- 286 (292)
Q Consensus 221 ~~rr~f~~~~~~~~~~~g~~~~~~~~~~~v~~~~p~~~~~a~~-~~-------evdls~i----~~G~~~~~~-WrgkP- 286 (292)
.+||.||..+++++++++ ++++++|||++|.|+++..+.. ++ +|.++++ ++|+...+. -.|++
T Consensus 12 ~~RR~FL~~~~~~~gg~~---a~~~~~P~v~~~~Pp~~~~~~g~~~a~d~~G~~I~~s~~~~~~~~g~~~~v~~~~g~~~ 88 (178)
T PRK13474 12 MGRRQFMNLLTFGTVTGV---ALGALYPVVKYFIPPSAGGAGGGTTAKDELGNDIPASQFLATHPAGDRSLVQGLKGDPT 88 (178)
T ss_pred ccHHHHHHHHHHHHHHHH---HHHHHHHhhheeCChhHccCCCcceeecccCCeeehhhccccCCCCCcEEEEEcCCCeE
Confidence 479999977665554444 4578899999999999887652 21 4577788 899888877 57888
Q ss_pred eEEE
Q psy6642 287 LFIR 290 (292)
Q Consensus 287 vfv~ 290 (292)
++|+
T Consensus 89 ~lv~ 92 (178)
T PRK13474 89 YLVV 92 (178)
T ss_pred EEEE
Confidence 4444
No 57
>TIGR03171 soxL2 Rieske iron-sulfur protein SoxL2. This iron-sulfur protein is found in a contiguous genomic region with subunits of cytochrome b558/566 in several archaeal species, and appears to be part of a cytochrome bc1-analogous system.
Probab=95.62 E-value=0.0062 Score=57.74 Aligned_cols=57 Identities=12% Similarity=0.111 Sum_probs=39.9
Q ss_pred cccccceeeehhHHHHHHHHHHhhhHhhhhhhhccCCCHHhhhc-c--c-e------EEecCCCCCCceEE
Q psy6642 219 EETQRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSASADVLAM-A--T-I------EVDLNLIPEGQSVT 279 (292)
Q Consensus 219 ~~~~rr~f~~~~~~~~~~~g~~~~~~~~~~~v~~~~p~~~~~a~-~--~-~------evdls~i~~G~~~~ 279 (292)
-+..||.||..++++++++ +.+.++||+++|.|++++++. + . + .|..|+|++|+...
T Consensus 59 vD~~RR~fL~~al~gAga~----a~~~avPlv~~l~PP~~a~atG~pk~La~D~~GnPIKASdL~vnSp~~ 125 (321)
T TIGR03171 59 VDEGRRKFLKGLIFGIAAA----AVVGIIPGLRVLVPPTVAAASGFPKSLLVDSSGNPIKASSIPVNSPII 125 (321)
T ss_pred CCccHHHHHHHHHHHHHHH----HhhhhhhheecccCchhhhccCCCceEEecCCCCeeeHHHccCCCccc
Confidence 3557999998766665552 234478999999999888755 2 1 2 26678888887664
No 58
>KOG1336|consensus
Probab=95.40 E-value=0.013 Score=58.35 Aligned_cols=47 Identities=21% Similarity=0.415 Sum_probs=38.6
Q ss_pred CCCcccCCcCCCCCeEEcCCCCcEEcC-CCceecCCCCCCCCCCceEeec
Q psy6642 139 HLGCVPIANAGDWGGYYCPCHGSHYDA-SGRIRKGPAPTNMEVPPYQFGD 187 (292)
Q Consensus 139 HlGc~l~~~~~~~~~~~CPcHGs~FD~-~G~v~~gPa~~~L~~~p~~~~~ 187 (292)
|.|.+|..+....+.+.|||||..|+. +|.+..-|+...| ..+..++
T Consensus 1 hygapl~~g~~s~g~v~cpwhgacfn~~~gdiedfP~~~sl--~~v~~~~ 48 (478)
T KOG1336|consen 1 HYGAPLAKGVLSRGRVRCPWHGACFNLSTGDIEDFPGLDSL--SRVVVDN 48 (478)
T ss_pred CCCcchhhccccCCcccccccceeecCCcCchhhCcCccce--eeEEecC
Confidence 889999888655589999999999999 9999999998888 3444433
No 59
>PF08802 CytB6-F_Fe-S: Cytochrome B6-F complex Fe-S subunit ; InterPro: IPR014909 The cytochrome b6-f complex mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions. The cytochrome b6-f complex has 4 large subunits, these are: cytochrome b6, subunit IV (17 kDa polypeptide, PetD), cytochrome f and the Rieske protein, while the 4 small subunits are: PetG, PetL, PetM and PetN. The complex functions as a dimer. This protein corresponds to the alpha helical transmembrane domain of the cytochrome b6-f complex Rieske iron-sulphur subunit. ; GO: 0009496 plastoquinol-plastocyanin reductase activity, 0051537 2 iron, 2 sulfur cluster binding, 0055114 oxidation-reduction process, 0042651 thylakoid membrane; PDB: 1Q90_R 1VF5_D 2E75_D 2E74_D 2E76_D 2D2C_Q 2ZT9_D.
Probab=91.15 E-value=0.07 Score=35.35 Aligned_cols=34 Identities=12% Similarity=0.357 Sum_probs=24.8
Q ss_pred ccccceeeehhHHHHHHHHHHhhhHhhhhhhhccCCC
Q psy6642 220 ETQRKAFTYMIAGGSSVVGMVCAKSVVNQFISSMSAS 256 (292)
Q Consensus 220 ~~~rr~f~~~~~~~~~~~g~~~~~~~~~~~v~~~~p~ 256 (292)
+.+||.|+.+++++++++-+ ...++|+++.+-|.
T Consensus 5 dm~RR~lmN~ll~Gava~~a---~~~lyP~~~ffvPP 38 (39)
T PF08802_consen 5 DMSRRQLMNLLLGGAVAVPA---GGMLYPYVKFFVPP 38 (39)
T ss_dssp -HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHS--
T ss_pred ChhHHHHHHHHHHhhHHHHH---HHHhhhheeEecCC
Confidence 35799999998887766654 46789999988775
No 60
>PF08802 CytB6-F_Fe-S: Cytochrome B6-F complex Fe-S subunit ; InterPro: IPR014909 The cytochrome b6-f complex mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions. The cytochrome b6-f complex has 4 large subunits, these are: cytochrome b6, subunit IV (17 kDa polypeptide, PetD), cytochrome f and the Rieske protein, while the 4 small subunits are: PetG, PetL, PetM and PetN. The complex functions as a dimer. This protein corresponds to the alpha helical transmembrane domain of the cytochrome b6-f complex Rieske iron-sulphur subunit. ; GO: 0009496 plastoquinol-plastocyanin reductase activity, 0051537 2 iron, 2 sulfur cluster binding, 0055114 oxidation-reduction process, 0042651 thylakoid membrane; PDB: 1Q90_R 1VF5_D 2E75_D 2E74_D 2E76_D 2D2C_Q 2ZT9_D.
Probab=89.50 E-value=0.48 Score=31.38 Aligned_cols=20 Identities=20% Similarity=0.474 Sum_probs=15.2
Q ss_pred CcCchhhHHHHHHhHHHHHH
Q psy6642 27 ETQRKAFTYMIAGGSSVVGM 46 (292)
Q Consensus 27 ~~~RR~fl~~atG~~~~~g~ 46 (292)
+++||+|+...+++++.+.+
T Consensus 5 dm~RR~lmN~ll~Gava~~a 24 (39)
T PF08802_consen 5 DMSRRQLMNLLLGGAVAVPA 24 (39)
T ss_dssp -HHHHHHHHHHHHHHHHHHH
T ss_pred ChhHHHHHHHHHHhhHHHHH
Confidence 67899999999987765543
No 61
>PF10518 TAT_signal: TAT (twin-arginine translocation) pathway signal sequence; InterPro: IPR019546 The twin-arginine translocation (Tat) pathway serves the role of transporting folded proteins across energy-transducing membranes []. Homologues of the genes that encode the transport apparatus occur in archaea, bacteria, chloroplasts, and plant mitochondria []. In bacteria, the Tat pathway catalyses the export of proteins from the cytoplasm across the inner/cytoplasmic membrane. In chloroplasts, the Tat components are found in the thylakoid membrane and direct the import of proteins from the stroma. The Tat pathway acts separately from the general secretory (Sec) pathway, which transports proteins in an unfolded state []. It is generally accepted that the primary role of the Tat system is to translocate fully folded proteins across membranes. An example of proteins that need to be exported in their 3D conformation are redox proteins that have acquired complex multi-atom cofactors in the bacterial cytoplasm (or the chloroplast stroma or mitochondrial matrix). They include hydrogenases, formate dehydrogenases, nitrate reductases, trimethylamine N-oxide (TMAO) reductases and dimethyl sulphoxide (DMSO) reductases [, ]. The Tat system can also export whole heteroligomeric complexes in which some proteins have no Tat signal. This is the case of the DMSO reductase or formate dehydrogenase complexes. But there are also other cases where the physiological rationale for targeting a protein to the Tat signal is less obvious. Indeed, there are examples of homologous proteins that are in some cases targeted to the Tat pathway and in other cases to the Sec apparatus. Some examples are: copper nitrite reductases, flavin domains of flavocytochrome c and N-acetylmuramoyl-L-alanine amidases []. In halophilic archaea such as Halobacterium almost all secreted proteins appear to be Tat targeted. It has been proposed to be a response to the difficulties these organisms would otherwise face in successfully folding proteins extracellularly at high ionic strength []. The Tat signal peptide consists of three motifs: the positively charged N-terminal motif, the hydrophobic region and the C-terminal region that generally ends with a consensus short motif (A-x-A) specifying cleavage by signal peptidase. Sequence analysis revealed that signal peptides capable of targeting the Tat protein contain the consensus sequence [ST]-R-R-x-F-L-K. The nearly invariant twin-arginine gave rise to the pathway's name. In addition the h-region of Tat signal peptides is typically less hydrophobic than that of Sec-specific signal peptides [, ].
Probab=85.41 E-value=0.76 Score=27.61 Aligned_cols=16 Identities=19% Similarity=0.156 Sum_probs=11.8
Q ss_pred cCchhhHHHHHHhHHH
Q psy6642 28 TQRKAFTYMIAGGSSV 43 (292)
Q Consensus 28 ~~RR~fl~~atG~~~~ 43 (292)
.+||+||+...+.++.
T Consensus 2 ~sRR~fLk~~~a~~a~ 17 (26)
T PF10518_consen 2 LSRRQFLKGGAAAAAA 17 (26)
T ss_pred CcHHHHHHHHHHHHHH
Confidence 6899999877665543
No 62
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=85.36 E-value=1.1 Score=33.12 Aligned_cols=15 Identities=13% Similarity=0.288 Sum_probs=11.2
Q ss_pred CcCchhhHHHHHHhH
Q psy6642 27 ETQRKAFTYMIAGGS 41 (292)
Q Consensus 27 ~~~RR~fl~~atG~~ 41 (292)
+.+||+||..+.+++
T Consensus 8 ~~sRR~Flk~lg~~a 22 (66)
T TIGR02811 8 DPSRRDLLKGLGVGA 22 (66)
T ss_pred CccHHHHHHHHHHHH
Confidence 679999998655433
No 63
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=78.08 E-value=1.1 Score=33.08 Aligned_cols=16 Identities=13% Similarity=0.279 Sum_probs=10.6
Q ss_pred ccccccceeeehhHHH
Q psy6642 218 QEETQRKAFTYMIAGG 233 (292)
Q Consensus 218 ~~~~~rr~f~~~~~~~ 233 (292)
....+||+||-.+.++
T Consensus 6 ~~~~sRR~Flk~lg~~ 21 (66)
T TIGR02811 6 KADPSRRDLLKGLGVG 21 (66)
T ss_pred cCCccHHHHHHHHHHH
Confidence 3456799999654443
No 64
>TIGR01409 TAT_signal_seq Tat (twin-arginine translocation) pathway signal sequence. Members with small amino acid side chains at the -1 and -3 positions from the C-terminus of the model should be predicted to be cleaved as are Sec pathway signal sequences. Members are almost exclusively bacterial, although archaeal sequences are also found. A large fraction of the members of this family may have bound redox-active cofactors.
Probab=74.74 E-value=2.8 Score=25.64 Aligned_cols=15 Identities=20% Similarity=0.228 Sum_probs=10.7
Q ss_pred cCchhhHHHHHHhHH
Q psy6642 28 TQRKAFTYMIAGGSS 42 (292)
Q Consensus 28 ~~RR~fl~~atG~~~ 42 (292)
.+||+|++.++..++
T Consensus 1 ~sRR~Flk~~~~~~a 15 (29)
T TIGR01409 1 LSRRDFLKGAAAAGA 15 (29)
T ss_pred CchhhhHHHHHHHHH
Confidence 379999987754443
No 65
>PF08141 SspH: Small acid-soluble spore protein H family; InterPro: IPR012610 This family consists of the small acid-soluble spore proteins (SASP) of the H type (sspH). SspH are unique to spores of Bacillus subtilis and are expressed only in the forespore compartment during sporulation of this organism. The sspH genes are monocistronic and are recognised by the forespore-specific sigma factor for RNA polymerase - sigma-G. The specific role of this protein is unclear but is thought to play a role in sporulation under conditions different from that of the common laboratory tests of spore properties [].; GO: 0030436 asexual sporulation, 0042601 endospore-forming forespore
Probab=64.33 E-value=7.7 Score=27.91 Aligned_cols=16 Identities=25% Similarity=0.738 Sum_probs=14.0
Q ss_pred ceEEEEECCeeeEEEc
Q psy6642 276 QSVTFKWRGKPLFIRH 291 (292)
Q Consensus 276 ~~~~~~WrgkPvfv~~ 291 (292)
.++.|..+|+||||.|
T Consensus 14 ~~i~V~y~G~pV~Ie~ 29 (58)
T PF08141_consen 14 DMIEVTYNGVPVWIEH 29 (58)
T ss_pred ceEEEEECCEEEEEEE
Confidence 5678999999999976
No 66
>TIGR02861 SASP_H small acid-soluble spore protein, H-type. This model is derived from pfam08141 but has been expanded to include in the seed corresponding proteins from three species of Clostridium. Members of this family should occur only in endospore-forming bacteria, typically with two members per genome, but may be absent from the genomes of some endospore-forming bacteria. SspH (previously designated YfjU) was shown to be expressed specifically in spores of Bacillus subtilis.
Probab=59.09 E-value=10 Score=27.23 Aligned_cols=17 Identities=24% Similarity=0.767 Sum_probs=14.4
Q ss_pred CceEEEEECCeeeEEEc
Q psy6642 275 GQSVTFKWRGKPLFIRH 291 (292)
Q Consensus 275 G~~~~~~WrgkPvfv~~ 291 (292)
..++.|..+|+||||.|
T Consensus 13 ~~~i~V~Y~G~pV~Ie~ 29 (58)
T TIGR02861 13 PEMINVTYKGVPVYIEH 29 (58)
T ss_pred ccceEEEECCEEEEEEE
Confidence 35678999999999976
No 67
>PRK01625 sspH acid-soluble spore protein H; Provisional
Probab=57.86 E-value=11 Score=27.18 Aligned_cols=17 Identities=18% Similarity=0.595 Sum_probs=14.7
Q ss_pred CceEEEEECCeeeEEEc
Q psy6642 275 GQSVTFKWRGKPLFIRH 291 (292)
Q Consensus 275 G~~~~~~WrgkPvfv~~ 291 (292)
..++.|..+|.||||-|
T Consensus 13 ~~~i~V~Y~G~pV~Iq~ 29 (59)
T PRK01625 13 SSRIDVTYEGVPVWIES 29 (59)
T ss_pred CcceEEEECCEEEEEEE
Confidence 46788999999999976
No 68
>PRK03174 sspH acid-soluble spore protein H; Provisional
Probab=56.92 E-value=12 Score=27.07 Aligned_cols=17 Identities=24% Similarity=0.686 Sum_probs=14.5
Q ss_pred CceEEEEECCeeeEEEc
Q psy6642 275 GQSVTFKWRGKPLFIRH 291 (292)
Q Consensus 275 G~~~~~~WrgkPvfv~~ 291 (292)
..++.|..+|.||||-|
T Consensus 13 p~~i~VtY~G~pV~Ie~ 29 (59)
T PRK03174 13 PDMANVTYNGVPIYIQH 29 (59)
T ss_pred ccceEEEECCEEEEEEE
Confidence 35788999999999976
No 69
>TIGR02228 sigpep_I_arch signal peptidase I, archaeal type. This model represents signal peptidase I from most archaea, a subunit of the eukaryotic endoplasmic reticulum signal peptidase I complex, and an apparent signal peptidase I from a small number of bacteria. It is related to but does not overlap in hits with TIGR02227, the bacterial and mitochondrial signal peptidase I.
Probab=52.10 E-value=12 Score=32.21 Aligned_cols=42 Identities=26% Similarity=0.312 Sum_probs=29.5
Q ss_pred hccCCCHHhhhccceE-EecCCCCCCceEEEEECCeeeEEEcC
Q psy6642 251 SSMSASADVLAMATIE-VDLNLIPEGQSVTFKWRGKPLFIRHR 292 (292)
Q Consensus 251 ~~~~p~~~~~a~~~~e-vdls~i~~G~~~~~~WrgkPvfv~~R 292 (292)
.||.|.-..-...-++ ++.++++.|+.++++..+++-.+.||
T Consensus 39 ~SM~Ptl~~GD~vlv~~~~~~~~~~GDIVvf~~~~~~~~iihR 81 (158)
T TIGR02228 39 GSMEPTFNTGDLILVTGADPNDIQVGDVITYKSPGFNTPVTHR 81 (158)
T ss_pred CCCcCCccCCCEEEEEecccCCCCCCCEEEEEECCCCccEEEE
Confidence 3688865443332222 55689999999999999876667776
No 70
>COG5649 Uncharacterized conserved protein [Function unknown]
Probab=50.03 E-value=6.7 Score=32.12 Aligned_cols=16 Identities=38% Similarity=0.900 Sum_probs=14.1
Q ss_pred CCCceEEEEECCeeeE
Q psy6642 273 PEGQSVTFKWRGKPLF 288 (292)
Q Consensus 273 ~~G~~~~~~WrgkPvf 288 (292)
-||-.-.+||||-|||
T Consensus 44 ~P~v~e~vKWrg~Pvw 59 (132)
T COG5649 44 VPGVHEAVKWRGSPVW 59 (132)
T ss_pred CcChhheeeecCcccc
Confidence 4788889999999998
No 71
>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=46.61 E-value=1.5e+02 Score=23.67 Aligned_cols=64 Identities=22% Similarity=0.434 Sum_probs=41.1
Q ss_pred cCCCeEEEEecccCCCcccCCcCCCCCeEEcCCCCcEEcC--CCceecCCCCCCCCCCceEeecCceEEEe
Q psy6642 126 KDPSWLVIIGICTHLGCVPIANAGDWGGYYCPCHGSHYDA--SGRIRKGPAPTNMEVPPYQFGDEGILIRM 194 (292)
Q Consensus 126 ~~g~~~a~~~~CtHlGc~l~~~~~~~~~~~CPcHGs~FD~--~G~v~~gPa~~~L~~~p~~~~~d~i~V~I 194 (292)
.+|.+.+..+.|- =|-...-..+++.++|---|-+|.+ =|. ..|=+ .|.++ +++++++.++|..
T Consensus 27 ~dg~~~va~daCe--iC~~~GY~q~g~~lvC~~C~~~~~~~~ig~-~~GGC-NP~P~-~~~~~~~~I~I~~ 92 (102)
T PF10080_consen 27 PDGSYRVAFDACE--ICGPKGYYQEGDQLVCKNCGVRFNLPTIGG-KSGGC-NPIPL-PYTVDGGNIIIDQ 92 (102)
T ss_pred CCCCEEEEEEecc--ccCCCceEEECCEEEEecCCCEEehhhccc-ccCCC-CccCC-ceEecCCeEEEeH
Confidence 4688888888774 2322111235589999999999999 353 33321 12222 8999999888763
No 72
>PF14693 Ribosomal_TL5_C: Ribosomal protein TL5, C-terminal domain; PDB: 1FEU_D 2HGQ_Y 2HGJ_Y 2Y19_Z 2WRL_Z 3KIT_Z 2WH2_Z 2WDN_Z 3V25_Z 3HUZ_Z ....
Probab=42.88 E-value=14 Score=28.41 Aligned_cols=35 Identities=20% Similarity=0.321 Sum_probs=22.5
Q ss_pred hhhhhhccCCCHHhhhc-cceEEecCCCCCCceEEE
Q psy6642 246 VNQFISSMSASADVLAM-ATIEVDLNLIPEGQSVTF 280 (292)
Q Consensus 246 ~~~~v~~~~p~~~~~a~-~~~evdls~i~~G~~~~~ 280 (292)
+......+.=....... ..++||+|++..|+.+++
T Consensus 24 l~~~~~~v~V~~~p~~iPe~I~vDvs~l~~g~~i~v 59 (88)
T PF14693_consen 24 LQQVLREVEVECLPADIPESIEVDVSGLEIGDSIHV 59 (88)
T ss_dssp EEESTSEEEEEE-TTS--SSEEEETTTSSTTCEEEG
T ss_pred EEEEEeEEEEEEcHHHCCccEEEECccCcCCCEEEE
Confidence 33444444433333333 699999999999999875
No 73
>PF07076 DUF1344: Protein of unknown function (DUF1344); InterPro: IPR009780 This family consists of several short, hypothetical bacterial proteins of around 80 residues in length. Members of this family are found in Rhizobium, Agrobacterium and Brucella species. The function of this family is unknown.
Probab=40.72 E-value=23 Score=25.77 Aligned_cols=35 Identities=17% Similarity=0.261 Sum_probs=26.6
Q ss_pred hhhccCCCHHhhhc-------cceEEecCCCCCCceEEEEEC
Q psy6642 249 FISSMSASADVLAM-------ATIEVDLNLIPEGQSVTFKWR 283 (292)
Q Consensus 249 ~v~~~~p~~~~~a~-------~~~evdls~i~~G~~~~~~Wr 283 (292)
-|++.+|......+ .+-|+|+.+|+||+-+.|.|.
T Consensus 8 ~I~~id~~~~titLdDGksy~lp~ef~~~~L~~G~kV~V~yd 49 (61)
T PF07076_consen 8 TIKSIDPETMTITLDDGKSYKLPEEFDFDGLKPGMKVVVFYD 49 (61)
T ss_pred EEEEEcCCceEEEecCCCEEECCCcccccccCCCCEEEEEEE
Confidence 35566666555443 477999999999999999984
No 74
>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=39.46 E-value=29 Score=28.06 Aligned_cols=23 Identities=22% Similarity=0.213 Sum_probs=20.7
Q ss_pred cCCCCCCceEEEEE-CCeeeEEEc
Q psy6642 269 LNLIPEGQSVTFKW-RGKPLFIRH 291 (292)
Q Consensus 269 ls~i~~G~~~~~~W-rgkPvfv~~ 291 (292)
+..|+||++..|.+ .|+.|.|.+
T Consensus 14 l~eL~~G~~~~v~v~~g~~I~V~~ 37 (107)
T cd03473 14 VANLKEGINFFRNKEDGKKYIIYK 37 (107)
T ss_pred HhcCCCCceEEEEecCCcEEEEEE
Confidence 37899999999999 999998875
No 75
>PRK13747 putative mercury resistance protein; Provisional
Probab=39.20 E-value=9.3 Score=28.86 Aligned_cols=9 Identities=44% Similarity=1.017 Sum_probs=7.4
Q ss_pred CeEEcCCCC
Q psy6642 152 GGYYCPCHG 160 (292)
Q Consensus 152 ~~~~CPcHG 160 (292)
.-+.||||=
T Consensus 24 AvLTCPCHL 32 (78)
T PRK13747 24 AVLTCPCHL 32 (78)
T ss_pred HHhcCcchH
Confidence 478999995
No 76
>PRK02888 nitrous-oxide reductase; Validated
Probab=37.30 E-value=19 Score=37.63 Aligned_cols=10 Identities=20% Similarity=0.368 Sum_probs=7.6
Q ss_pred ccccccceee
Q psy6642 218 QEETQRKAFT 227 (292)
Q Consensus 218 ~~~~~rr~f~ 227 (292)
....+||.||
T Consensus 6 ~~~~~rr~~~ 15 (635)
T PRK02888 6 PSGLSRRQFL 15 (635)
T ss_pred cCCccHHHhh
Confidence 3456799999
No 77
>PF05265 DUF723: Protein of unknown function (DUF723); InterPro: IPR007929 This family contains several uncharacterised proteins from Neisseria meningitidis. These proteins may have a role in DNA binding.
Probab=36.43 E-value=23 Score=25.68 Aligned_cols=15 Identities=27% Similarity=0.452 Sum_probs=12.6
Q ss_pred CeEEcCCCCcEEcCC
Q psy6642 152 GGYYCPCHGSHYDAS 166 (292)
Q Consensus 152 ~~~~CPcHGs~FD~~ 166 (292)
-.+.||-||......
T Consensus 31 vtI~CP~HG~~~~s~ 45 (60)
T PF05265_consen 31 VTIRCPKHGNFTCST 45 (60)
T ss_pred eEEECCCCCcEEecc
Confidence 589999999887764
No 78
>PRK00420 hypothetical protein; Validated
Probab=35.71 E-value=26 Score=28.56 Aligned_cols=34 Identities=26% Similarity=0.396 Sum_probs=25.8
Q ss_pred EEecccCCCcccCCcCCCCCeEEcCCCCcEEcC-CCc
Q psy6642 133 IIGICTHLGCVPIANAGDWGGYYCPCHGSHYDA-SGR 168 (292)
Q Consensus 133 ~~~~CtHlGc~l~~~~~~~~~~~CPcHGs~FD~-~G~ 168 (292)
++..||-=|.++-.. ..+..+||-||..+.. +++
T Consensus 22 l~~~CP~Cg~pLf~l--k~g~~~Cp~Cg~~~~v~~~e 56 (112)
T PRK00420 22 LSKHCPVCGLPLFEL--KDGEVVCPVHGKVYIVKSDE 56 (112)
T ss_pred ccCCCCCCCCcceec--CCCceECCCCCCeeeeccHH
Confidence 568899988777442 2378999999998887 554
No 79
>PF10907 DUF2749: Protein of unknown function (DUF2749); InterPro: IPR024475 This bacterial family of proteins represent the TrbJ and TrbK genes of the Ti plasmid conjugative transfer operon [].
Probab=34.81 E-value=8.3 Score=28.35 Aligned_cols=41 Identities=17% Similarity=0.170 Sum_probs=24.9
Q ss_pred hhHhhhhhhhc---cCCCHHhhhc------cceEEecCCCCCCceEEEEE
Q psy6642 242 AKSVVNQFISS---MSASADVLAM------ATIEVDLNLIPEGQSVTFKW 282 (292)
Q Consensus 242 ~~~~~~~~v~~---~~p~~~~~a~------~~~evdls~i~~G~~~~~~W 282 (292)
+..+.|=+|.+ .+|+.+..-. =.-+-||-+|..||.|.=.|
T Consensus 17 a~~atwviVq~~~a~~p~s~eeQr~~re~ff~~~~~l~~i~~gqem~prw 66 (66)
T PF10907_consen 17 AGAATWVIVQPRPAGNPASSEEQRAHREKFFGGDKDLRDIRGGQEMKPRW 66 (66)
T ss_pred hceeEEEEECCCCCCCCCChHHHHHHHHHHcCCCCCCCCCCCCcccCCCC
Confidence 44455555554 4554433211 14567889999999997666
No 80
>PF08669 GCV_T_C: Glycine cleavage T-protein C-terminal barrel domain; InterPro: IPR013977 This entry shows glycine cleavage T-proteins, part of the glycine cleavage multienzyme complex (GCV) found in bacteria and the mitochondria of eukaryotes. GCV catalyses the catabolism of glycine in eukaryotes. The T-protein is an aminomethyl transferase. ; PDB: 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 3GIR_A 1WOO_A 1WOS_A 1WOR_A ....
Probab=33.97 E-value=40 Score=25.57 Aligned_cols=25 Identities=24% Similarity=0.266 Sum_probs=19.9
Q ss_pred ceEEecCCCCCCceEEEEECCeeeE
Q psy6642 264 TIEVDLNLIPEGQSVTFKWRGKPLF 288 (292)
Q Consensus 264 ~~evdls~i~~G~~~~~~WrgkPvf 288 (292)
---|+-....+|+.++|.|+|+++=
T Consensus 65 la~v~~~~~~~g~~l~v~~~g~~~~ 89 (95)
T PF08669_consen 65 LAYVDREYAEPGTELEVEIRGKRVP 89 (95)
T ss_dssp EEEEEGGGGSTTSEEEEEETTEEEE
T ss_pred EEEECHHHcCCCCEEEEEECCEEEE
Confidence 3345577888999999999999874
No 81
>PF04194 PDCD2_C: Programmed cell death protein 2, C-terminal putative domain ; InterPro: IPR007320 PDCD2 is localized predominantly in the cytosol of cells situated at the opposite pole of the germinal centre from the centroblasts as well as in cells in the mantle zone. It has been shown to interact with BCL6, an evolutionarily conserved Kruppel-type zinc finger protein that functions as a strong transcriptional repressor and is required for germinal centre development. The rat homologue, Rp8, is associated with programmed cell death in thymocytes.; GO: 0005737 cytoplasm
Probab=33.80 E-value=28 Score=29.90 Aligned_cols=19 Identities=32% Similarity=0.478 Sum_probs=17.1
Q ss_pred CCCCceEEEEECCeeeEEE
Q psy6642 272 IPEGQSVTFKWRGKPLFIR 290 (292)
Q Consensus 272 i~~G~~~~~~WrgkPvfv~ 290 (292)
..|.|.+...|.|+|+|+.
T Consensus 69 ~~P~QvlRY~~gG~PLw~s 87 (164)
T PF04194_consen 69 RNPEQVLRYCRGGKPLWIS 87 (164)
T ss_pred cCCCeEEEECCCCeEEEec
Confidence 3599999999999999985
No 82
>TIGR00731 ctc_TL5 ribosomal protein L25, Ctc-form. The C-terminal domain of sll1824, an apparent L25 of Synechocystis PCC6803, matches the N-terminal domain of this family. Examples of L25 and Ctc are not separated by a UPGMA tree built on the region of shared homology.
Probab=33.66 E-value=37 Score=29.60 Aligned_cols=37 Identities=14% Similarity=0.297 Sum_probs=26.1
Q ss_pred hhhhhhhccCCCHHhhhc-cceEEecCCCCCCceEEEE
Q psy6642 245 VVNQFISSMSASADVLAM-ATIEVDLNLIPEGQSVTFK 281 (292)
Q Consensus 245 ~~~~~v~~~~p~~~~~a~-~~~evdls~i~~G~~~~~~ 281 (292)
.+..+..++.=.+..... ..++||+|.++.|+++++.
T Consensus 116 ~l~~~~~~v~v~~~p~~IPe~I~VDvs~L~iGd~i~v~ 153 (176)
T TIGR00731 116 ILTQVKRRIEVECKPKDIPDFLELDVSSLGVGESLKLS 153 (176)
T ss_pred EEEEEEEEEEEEECHHHCCccEEEECccCCCCCEEEEe
Confidence 445555555544444434 7999999999999998874
No 83
>PF05052 MerE: MerE protein; InterPro: IPR007746 The prokaryotic MerE (or URF-1) protein is part of the mercury resistance operon often located on plasmids or transposons [, ]. It has been suggested that MerE is a broad mercury transporter mediating transport across the bacterial membrane [].
Probab=33.21 E-value=13 Score=27.94 Aligned_cols=13 Identities=31% Similarity=0.623 Sum_probs=8.7
Q ss_pred CeEEcCCCCcEEc
Q psy6642 152 GGYYCPCHGSHYD 164 (292)
Q Consensus 152 ~~~~CPcHGs~FD 164 (292)
--+.||||=-.-.
T Consensus 24 A~lTCPCHLpil~ 36 (75)
T PF05052_consen 24 ALLTCPCHLPILA 36 (75)
T ss_pred HHhhCcchHHHHH
Confidence 4678999954433
No 84
>COG0473 LeuB Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]
Probab=31.02 E-value=33 Score=33.24 Aligned_cols=34 Identities=38% Similarity=0.557 Sum_probs=25.0
Q ss_pred CcccCCcCCCC--CeEEcCCCCcEEcCCCceecCCC
Q psy6642 141 GCVPIANAGDW--GGYYCPCHGSHYDASGRIRKGPA 174 (292)
Q Consensus 141 Gc~l~~~~~~~--~~~~CPcHGs~FD~~G~v~~gPa 174 (292)
|-.++.+-++. ..++=|+|||..|..|+-+..|-
T Consensus 253 Gl~PSAnig~~~~~~lfEPvHGSAPDIAGkgiANPi 288 (348)
T COG0473 253 GLAPSANLGDERGPALFEPVHGSAPDIAGKGIANPI 288 (348)
T ss_pred ccCccCccCCCCCCceeecCCCCcccccCCCccChH
Confidence 33444444443 67899999999999999887774
No 85
>PRK05618 50S ribosomal protein L25/general stress protein Ctc; Reviewed
Probab=30.98 E-value=41 Score=29.81 Aligned_cols=37 Identities=24% Similarity=0.327 Sum_probs=25.8
Q ss_pred hhhhhhhccCCCHHhhhc-cceEEecCCCCCCceEEEE
Q psy6642 245 VVNQFISSMSASADVLAM-ATIEVDLNLIPEGQSVTFK 281 (292)
Q Consensus 245 ~~~~~v~~~~p~~~~~a~-~~~evdls~i~~G~~~~~~ 281 (292)
.+..+..++.=....... ..++||+|++..|++++++
T Consensus 124 ~l~~~~~~v~v~~~p~~IP~~I~VDVs~L~~Gd~i~v~ 161 (197)
T PRK05618 124 VLNQVLHELEVECLPEDIPEFIEVDVSGLEIGDSIHVS 161 (197)
T ss_pred EEEEEEEEEEEEEcHHHCCccEEEEcccCCCCCEEEee
Confidence 344555555444443333 6999999999999999875
No 86
>PF07897 DUF1675: Protein of unknown function (DUF1675); InterPro: IPR012463 The members of this family are sequences derived from hypothetical plant proteins of unknown function. One member of this family (Q9SFV5 from SWISSPROT) is annotated as a putative RNA-binding protein, but no evidence was found to support this.
Probab=29.93 E-value=18 Score=34.10 Aligned_cols=18 Identities=33% Similarity=0.680 Sum_probs=14.4
Q ss_pred CCCCeEEcCCCCcEEcCC
Q psy6642 149 GDWGGYYCPCHGSHYDAS 166 (292)
Q Consensus 149 ~~~~~~~CPcHGs~FD~~ 166 (292)
++.-.|+|-|||+.|.+.
T Consensus 248 ~~~v~i~c~chg~~~~~~ 265 (284)
T PF07897_consen 248 GEEVRIVCVCHGSFLSPA 265 (284)
T ss_pred CCeEEEEEEecCCCCCHH
Confidence 333589999999999874
No 87
>cd04470 S1_EF-P_repeat_1 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-tRNA and puromycine in vitro. EF-P binds to both the 30S and 50S ribosomal subunits. EF-P binds near the streptomycine binding site of the 16S rRNA in the 30S subunit. EF-P interacts with domains 2 and 5 of the 23S rRNA. The L16 ribosomal protein of the 50S or its N-terminal fragment are required for EF-P mediated peptide bond synthesis, whereas L11, L15, and L7/L12 are not required in this reaction, suggesting that EF-P may function at a different ribosomal site than most other translation factors. EF-P is essential for cell viability and is required for protein synthesis. EF-P is mainly present in bacteria. The EF-P homologs in archaea and eukaryotes are the initiation factors aIF5A and eIF5A, respectively. EF-P
Probab=29.14 E-value=81 Score=22.50 Aligned_cols=19 Identities=26% Similarity=0.597 Sum_probs=14.7
Q ss_pred CCCCceEE-EEECCeeeEEE
Q psy6642 272 IPEGQSVT-FKWRGKPLFIR 290 (292)
Q Consensus 272 i~~G~~~~-~~WrgkPvfv~ 290 (292)
|.+|..++ +.|.|+||-|.
T Consensus 40 L~e~~~v~v~~~~~~~i~v~ 59 (61)
T cd04470 40 LKEGMEVIVLFYNGEPIGVE 59 (61)
T ss_pred CcCCCEEEEEEECCEEEEEE
Confidence 66787776 45999999874
No 88
>TIGR01375 soxG sarcosine oxidase, gamma subunit family, heterotetrameric form. Sarcosine oxidase catalyzes the oxidative demethylation of sarcosine to glycine. The reaction converts tetrahydrofolate to 5,10-methylene-tetrahydrofolate. The enzyme is known in monomeric and heterotetrameric (alpha,beta,gamma,delta) forms.
Probab=28.18 E-value=73 Score=26.60 Aligned_cols=39 Identities=21% Similarity=0.207 Sum_probs=29.2
Q ss_pred cCCCHHhhhccceEEecCC--CCCCceEEEEECCeeeEEEc
Q psy6642 253 MSASADVLAMATIEVDLNL--IPEGQSVTFKWRGKPLFIRH 291 (292)
Q Consensus 253 ~~p~~~~~a~~~~evdls~--i~~G~~~~~~WrgkPvfv~~ 291 (292)
..|.+......-..+|++. +++|........|.|++|.|
T Consensus 84 qGP~A~~vL~~l~~~dl~~~~~~~~~~~~~~i~~~~v~i~R 124 (152)
T TIGR01375 84 SGPMAEEVLAKGCAVDLSLSAFPVGAGRRTIFGKIAAVIWR 124 (152)
T ss_pred EChhHHHHHHhcCCCCCCcccCCCCcEEEEEEcCeEEEEEE
Confidence 3466644433323578887 99999999999999999976
No 89
>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=27.65 E-value=52 Score=26.94 Aligned_cols=25 Identities=16% Similarity=0.139 Sum_probs=21.3
Q ss_pred EecCCCCCCceEEEEECCeeeEEEc
Q psy6642 267 VDLNLIPEGQSVTFKWRGKPLFIRH 291 (292)
Q Consensus 267 vdls~i~~G~~~~~~WrgkPvfv~~ 291 (292)
..++.|++|+.++++.-|++++|.|
T Consensus 22 ~~~~el~~g~~~~~~v~g~~l~l~r 46 (129)
T cd04337 22 EFSKDLKMDTMVPFELFGQPWVLFR 46 (129)
T ss_pred EEHHHCCCCCeEEEEECCcEEEEEE
Confidence 4457789999999999999998875
No 90
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=27.39 E-value=44 Score=27.98 Aligned_cols=30 Identities=20% Similarity=0.385 Sum_probs=23.6
Q ss_pred EEecccCCCcccCCcCCCCCeEEcCCCCcEEcC
Q psy6642 133 IIGICTHLGCVPIANAGDWGGYYCPCHGSHYDA 165 (292)
Q Consensus 133 ~~~~CtHlGc~l~~~~~~~~~~~CPcHGs~FD~ 165 (292)
+.-.||-=|+||-. ..|.++||-||-++-.
T Consensus 27 L~~hCp~Cg~PLF~---KdG~v~CPvC~~~~~~ 56 (131)
T COG1645 27 LAKHCPKCGTPLFR---KDGEVFCPVCGYREVV 56 (131)
T ss_pred HHhhCcccCCccee---eCCeEECCCCCceEEE
Confidence 45679999998854 3489999999987655
No 91
>PRK09476 napG quinol dehydrogenase periplasmic component; Provisional
Probab=26.48 E-value=79 Score=29.18 Aligned_cols=17 Identities=12% Similarity=0.239 Sum_probs=12.2
Q ss_pred CCCcCchhhHHHHHHhH
Q psy6642 25 QEETQRKAFTYMIAGGS 41 (292)
Q Consensus 25 ~~~~~RR~fl~~atG~~ 41 (292)
....+||+||..+.+..
T Consensus 6 ~~~~~rr~f~~~~~~~~ 22 (254)
T PRK09476 6 KPQNGRRRFLRDVVRTA 22 (254)
T ss_pred cCCccHHHHHHHHHHHH
Confidence 34789999997665533
No 92
>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification. ; InterPro: IPR019759 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ].; PDB: 1KCA_H 3BDN_A 1F39_A 1JHH_A 1JHE_B 3JSP_A 1JHF_B 1JHC_A 3JSO_B 1B12_D ....
Probab=25.82 E-value=84 Score=21.98 Aligned_cols=38 Identities=26% Similarity=0.358 Sum_probs=23.5
Q ss_pred ccCCCHHhhhccceEEe-cCCCCCCceEEEEECCee-eEEEc
Q psy6642 252 SMSASADVLAMATIEVD-LNLIPEGQSVTFKWRGKP-LFIRH 291 (292)
Q Consensus 252 ~~~p~~~~~a~~~~evd-ls~i~~G~~~~~~WrgkP-vfv~~ 291 (292)
||.|.-. ....+-|| ...+..|+.+.+.+.|.+ .+|+|
T Consensus 6 SM~P~i~--~Gd~v~v~~~~~~~~gdivv~~~~~~~~~~iKr 45 (70)
T PF00717_consen 6 SMEPTIK--DGDIVLVDPSSEPKDGDIVVVKIDGDEELYIKR 45 (70)
T ss_dssp TTGGTSS--TTEEEEEEETS---TTSEEEEEETTEESEEEEE
T ss_pred CcccCee--CCCEEEEEEcCCCccCeEEEEEECCceeeEEEE
Confidence 5665433 22344444 458899999999999998 77765
No 93
>PF11998 DUF3493: Protein of unknown function (DUF3493); InterPro: IPR021883 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 79 to 331 amino acids in length.
Probab=25.03 E-value=87 Score=23.72 Aligned_cols=18 Identities=28% Similarity=0.475 Sum_probs=14.3
Q ss_pred chhhHHHHHHhHHHHHHH
Q psy6642 30 RKAFTYMIAGGSSVVGMV 47 (292)
Q Consensus 30 RR~fl~~atG~~~~~g~~ 47 (292)
=|.|+|++.|+++..|+.
T Consensus 20 lR~f~y~a~~aSa~iG~~ 37 (75)
T PF11998_consen 20 LRRFFYGAFGASAGIGLF 37 (75)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 388999999988877643
No 94
>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=24.10 E-value=73 Score=26.37 Aligned_cols=24 Identities=17% Similarity=0.257 Sum_probs=20.3
Q ss_pred ecCCCCCCceEEEEECCeeeEEEc
Q psy6642 268 DLNLIPEGQSVTFKWRGKPLFIRH 291 (292)
Q Consensus 268 dls~i~~G~~~~~~WrgkPvfv~~ 291 (292)
.++.|++|+.+.++-.|++|+|.|
T Consensus 23 ~~~el~~g~~~~~~~~g~~i~v~r 46 (138)
T cd03480 23 YVEDLDPSRPTPFTLLGRDLVIWW 46 (138)
T ss_pred EHHHCCCCCcEEEEECCeeEEEEE
Confidence 446788999999999999998875
No 95
>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=23.32 E-value=34 Score=27.81 Aligned_cols=19 Identities=26% Similarity=0.419 Sum_probs=13.6
Q ss_pred CeEEcCCCCcEEcC--CCcee
Q psy6642 152 GGYYCPCHGSHYDA--SGRIR 170 (292)
Q Consensus 152 ~~~~CPcHGs~FD~--~G~v~ 170 (292)
+.+.||+||=--+- .|..+
T Consensus 86 D~~kCPfHG~IIpRD~~G~Pi 106 (110)
T PF09740_consen 86 DRKKCPFHGKIIPRDDEGNPI 106 (110)
T ss_pred CcccCCCCCcccCCCCCCCCC
Confidence 57899999977665 45443
No 96
>PRK09898 hypothetical protein; Provisional
Probab=23.13 E-value=44 Score=29.61 Aligned_cols=12 Identities=17% Similarity=0.158 Sum_probs=9.6
Q ss_pred CcCchhhHHHHH
Q psy6642 27 ETQRKAFTYMIA 38 (292)
Q Consensus 27 ~~~RR~fl~~at 38 (292)
-.+||+||..+.
T Consensus 12 ~~~RR~flk~~~ 23 (208)
T PRK09898 12 GLTRLEFLRISG 23 (208)
T ss_pred chhHHHHHHhhc
Confidence 378999998764
No 97
>cd04463 S1_EF_like S1_EF_like: EF-like, S1-like RNA-binding domain. The EF-like superfamily contains the bacterial translation elongation factor P and its archeal and eukaryotic homologs, aIF5A and eIF5A. All proteins in this superfamily contain an S1 domain, which binds RNA or single-stranded DNA and often interacts with the ribosome. Hex-1, the SI-like domain of which is also found in this group, is structurally homologous to eIF5A and might have evolved from an ancestral eIF5A through gene duplication.
Probab=21.86 E-value=96 Score=21.19 Aligned_cols=21 Identities=14% Similarity=0.140 Sum_probs=15.7
Q ss_pred cCCCCCCceEE-EEECCeeeEE
Q psy6642 269 LNLIPEGQSVT-FKWRGKPLFI 289 (292)
Q Consensus 269 ls~i~~G~~~~-~~WrgkPvfv 289 (292)
..-|.+|+.+. +.|.|+|+.|
T Consensus 34 ~~~l~eg~~v~v~~~~g~~i~~ 55 (55)
T cd04463 34 FESFEPGEVVLVDTRTGQYVGV 55 (55)
T ss_pred HhhCCCCCEEEEEEECCEEEeC
Confidence 34478898887 4699999864
No 98
>COG3765 WzzB Chain length determinant protein [Cell envelope biogenesis, outer membrane]
Probab=21.19 E-value=1.7e+02 Score=28.48 Aligned_cols=37 Identities=19% Similarity=0.320 Sum_probs=26.8
Q ss_pred CCCCCccccccCCCCC-CCCCCcCchhhHHHHHHhHHH
Q psy6642 7 IRTPDFSKYRRDRNPD-KGQEETQRKAFTYMIAGGSSV 43 (292)
Q Consensus 7 ~~~pd~~~yr~~~~~~-~~~~~~~RR~fl~~atG~~~~ 43 (292)
+...+|..||.-.++. +-.++.-||.++-+..+.-|.
T Consensus 291 v~d~~~~~yRYl~~P~~Pvkrd~PrrA~ilil~~LiGg 328 (347)
T COG3765 291 VLDERFSTYRYLQKPTLPVKRDSPRRAIILILGALIGG 328 (347)
T ss_pred CcccceeEEEecCCCCCCCcCCCcchHHHHHHHHHHHH
Confidence 3457899999998877 666677799987766554433
No 99
>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=20.61 E-value=90 Score=25.64 Aligned_cols=25 Identities=12% Similarity=0.218 Sum_probs=20.6
Q ss_pred EecCCCCCCceEEEEECCeeeEEEc
Q psy6642 267 VDLNLIPEGQSVTFKWRGKPLFIRH 291 (292)
Q Consensus 267 vdls~i~~G~~~~~~WrgkPvfv~~ 291 (292)
..++.|++|+.+.++..|++|+|.|
T Consensus 22 ~~~~el~~~~~~~~~v~g~~ivl~r 46 (134)
T cd04338 22 YLLKDVPTDAPLGLSVYDEPFVLFR 46 (134)
T ss_pred EEHHHCCCCCCEEEEECCceEEEEE
Confidence 4567788888888999999998875
No 100
>PF13811 DUF4186: Domain of unknown function (DUF4186)
Probab=20.27 E-value=41 Score=27.37 Aligned_cols=15 Identities=33% Similarity=0.634 Sum_probs=11.2
Q ss_pred CceEEEEECCeeeEE
Q psy6642 275 GQSVTFKWRGKPLFI 289 (292)
Q Consensus 275 G~~~~~~WrgkPvfv 289 (292)
..-.+.-|||-||||
T Consensus 54 nDGkQTPmrGHPVFi 68 (111)
T PF13811_consen 54 NDGKQTPMRGHPVFI 68 (111)
T ss_pred CCCCCCCCCCCCeee
Confidence 334456799999998
Done!