Query 036146
Match_columns 38
No_of_seqs 36 out of 38
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 09:53:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036146.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036146hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13301 DUF4079: Protein of u 98.5 1.5E-07 3.4E-12 59.3 4.2 36 3-38 139-175 (175)
2 PF03188 Cytochrom_B561: Eukar 92.9 0.098 2.1E-06 29.5 2.1 28 6-33 65-92 (137)
3 PF14358 DUF4405: Domain of un 91.9 0.38 8.3E-06 25.0 3.5 25 6-30 38-62 (64)
4 smart00665 B561 Cytochrome b-5 90.7 0.41 8.9E-06 27.3 3.1 27 6-32 64-90 (129)
5 cd08554 Cyt_b561 Eukaryotic cy 90.0 0.64 1.4E-05 26.4 3.5 27 6-32 66-92 (131)
6 PF13172 PepSY_TM_1: PepSY-ass 90.0 1.1 2.3E-05 21.3 3.8 29 7-35 3-31 (34)
7 cd08761 Cyt_b561_CYB561D2_like 89.6 0.46 9.9E-06 28.7 2.8 28 5-32 87-114 (183)
8 cd08766 Cyt_b561_ACYB-1_like P 89.5 0.5 1.1E-05 29.0 3.0 27 6-32 71-97 (144)
9 cd08760 Cyt_b561_FRRS1_like Eu 88.3 0.41 8.9E-06 28.9 2.0 28 5-32 97-124 (191)
10 cd08765 Cyt_b561_CYBRD1 Verteb 87.8 0.8 1.7E-05 28.6 3.1 28 5-32 77-104 (153)
11 TIGR02125 CytB-hydogenase Ni/F 87.2 1.4 3.1E-05 26.2 3.8 29 5-33 161-189 (211)
12 cd08763 Cyt_b561_CYB561 Verteb 86.8 0.95 2.1E-05 27.7 3.0 27 6-32 71-97 (143)
13 PF00033 Cytochrom_B_N: Cytoch 85.8 2.1 4.6E-05 24.3 3.9 29 5-33 42-70 (188)
14 PF13706 PepSY_TM_3: PepSY-ass 83.9 3.6 7.7E-05 20.0 3.8 27 6-32 1-27 (37)
15 KOG4783 Uncharacterized conser 82.7 1.2 2.6E-05 27.4 2.1 31 3-33 54-84 (102)
16 PLN02680 carbon-monoxide oxyge 82.4 1.9 4E-05 28.8 3.1 28 5-32 109-136 (232)
17 PF01292 Ni_hydr_CYTB: Prokary 81.9 2.6 5.6E-05 24.1 3.2 27 6-32 140-166 (182)
18 PF10348 DUF2427: Domain of un 81.7 2.3 4.9E-05 24.8 3.0 23 10-32 78-100 (105)
19 PF01794 Ferric_reduct: Ferric 81.0 3.7 8.1E-05 21.9 3.5 20 11-30 35-54 (125)
20 COG4117 Thiosulfate reductase 80.6 2.8 6.2E-05 28.5 3.5 35 1-35 172-206 (221)
21 cd08764 Cyt_b561_CG1275_like N 80.5 2.4 5.2E-05 27.7 3.1 28 5-32 89-116 (214)
22 PF00033 Cytochrom_B_N: Cytoch 77.2 4.4 9.5E-05 23.0 3.1 27 6-32 146-172 (188)
23 cd08760 Cyt_b561_FRRS1_like Eu 76.2 6.5 0.00014 23.6 3.9 29 6-34 134-162 (191)
24 cd08762 Cyt_b561_CYBASC3 Verte 74.1 6.4 0.00014 25.4 3.6 27 6-32 101-127 (179)
25 PRK11513 cytochrome b561; Prov 67.5 13 0.00028 22.8 3.8 27 7-33 131-157 (176)
26 PLN02351 cytochromes b561 fami 67.0 11 0.00024 25.5 3.7 27 6-32 113-139 (242)
27 PF03188 Cytochrom_B561: Eukar 65.3 15 0.00033 20.5 3.6 27 6-32 104-130 (137)
28 cd08761 Cyt_b561_CYB561D2_like 64.6 12 0.00026 22.5 3.2 29 6-34 129-157 (183)
29 cd08766 Cyt_b561_ACYB-1_like P 64.3 13 0.00029 22.7 3.5 29 6-34 110-138 (144)
30 CHL00070 petB cytochrome b6 61.5 17 0.00037 23.7 3.7 27 7-33 80-106 (215)
31 TIGR02125 CytB-hydogenase Ni/F 61.4 14 0.00031 21.9 3.1 26 7-32 46-71 (211)
32 COG3295 Uncharacterized protei 59.5 13 0.00029 25.2 3.0 28 7-34 23-50 (213)
33 PLN02810 carbon-monoxide oxyge 59.3 13 0.00028 25.1 2.9 28 5-32 109-136 (231)
34 TIGR01583 formate-DH-gamm form 58.5 23 0.00049 21.8 3.7 25 8-32 146-170 (204)
35 COG1290 QcrB Cytochrome b subu 57.5 18 0.00039 25.5 3.5 28 8-35 86-113 (381)
36 PRK03735 cytochrome b6; Provis 56.3 19 0.00042 23.5 3.3 26 7-32 88-113 (223)
37 COG3038 CybB Cytochrome B561 [ 55.9 22 0.00049 22.8 3.5 28 6-33 136-163 (181)
38 COG4323 Predicted membrane pro 53.5 19 0.00041 22.2 2.8 25 6-31 25-49 (105)
39 KOG1619 Cytochrome b [Energy p 51.7 23 0.0005 24.3 3.2 28 6-33 158-185 (245)
40 cd08763 Cyt_b561_CYB561 Verteb 51.4 29 0.00064 21.2 3.4 28 6-33 110-137 (143)
41 PRK10171 hydrogenase 1 b-type 50.0 38 0.00083 21.4 3.8 26 7-32 178-203 (235)
42 PF09446 VMA21: VMA21-like dom 49.3 21 0.00046 19.2 2.3 21 12-32 40-60 (66)
43 PRK10639 formate dehydrogenase 48.9 29 0.00064 21.5 3.2 27 3-29 47-73 (211)
44 PRK10639 formate dehydrogenase 48.8 38 0.00083 21.0 3.7 26 7-32 147-172 (211)
45 cd00284 Cytochrome_b_N Cytochr 47.2 41 0.0009 21.4 3.7 30 6-35 68-97 (200)
46 PF08586 Rsc14: RSC complex, R 46.7 2.4 5.2E-05 26.0 -1.9 12 7-18 52-64 (101)
47 cd08765 Cyt_b561_CYBRD1 Verteb 46.1 40 0.00086 21.1 3.4 28 6-33 117-144 (153)
48 PF14363 AAA_assoc: Domain ass 45.4 19 0.00041 20.2 1.8 15 6-20 39-53 (98)
49 cd08762 Cyt_b561_CYBASC3 Verte 43.8 45 0.00097 21.6 3.5 28 6-33 140-167 (179)
50 MTH00086 CYTB cytochrome b; Pr 42.9 47 0.001 23.1 3.7 29 7-35 66-94 (355)
51 PF14698 ASL_C2: Argininosucci 41.9 26 0.00057 18.8 1.9 16 6-21 15-30 (70)
52 PRK03427 cell division protein 41.8 37 0.0008 24.0 3.1 24 7-30 3-26 (333)
53 PF03929 PepSY_TM: PepSY-assoc 39.6 45 0.00097 15.6 3.4 24 10-33 2-25 (27)
54 PRK13554 fumarate reductase cy 39.4 76 0.0016 21.0 4.1 31 3-33 16-48 (241)
55 cd08764 Cyt_b561_CG1275_like N 38.7 60 0.0013 21.2 3.6 27 7-33 130-156 (214)
56 PLN02351 cytochromes b561 fami 35.3 73 0.0016 21.6 3.6 28 6-33 152-179 (242)
57 PRK15006 thiosulfate reductase 34.5 81 0.0018 20.6 3.7 26 7-32 217-242 (261)
58 cd03495 SQR_TypeC_SdhD_like Su 34.2 78 0.0017 17.9 3.2 16 18-33 49-64 (100)
59 MTH00016 CYTB cytochrome b; Va 33.8 85 0.0018 21.9 3.9 27 7-33 78-104 (378)
60 cd03497 SQR_TypeB_1_TM Succina 33.6 98 0.0021 19.6 3.9 25 9-33 6-31 (207)
61 COG3115 ZipA Cell division pro 31.4 62 0.0013 23.2 2.9 22 8-29 3-24 (324)
62 MTH00224 CYTB cytochrome b; Pr 31.1 1E+02 0.0022 21.6 3.9 28 6-33 77-104 (379)
63 PF12911 OppC_N: N-terminal TM 30.7 74 0.0016 15.5 2.9 23 9-31 13-35 (56)
64 PF13997 YqjK: YqjK-like prote 30.5 54 0.0012 18.0 2.1 15 12-26 38-52 (73)
65 KOG0367 Protein geranylgeranyl 29.7 44 0.00095 24.2 2.0 16 9-24 304-319 (347)
66 PF13703 PepSY_TM_2: PepSY-ass 29.4 1E+02 0.0022 16.6 3.8 26 9-34 60-85 (88)
67 PRK01741 cell division protein 29.4 53 0.0011 23.4 2.3 20 11-30 5-24 (332)
68 MTH00145 CYTB cytochrome b; Pr 29.2 1.1E+02 0.0023 21.4 3.7 27 7-33 78-104 (379)
69 PRK13553 fumarate reductase cy 28.6 54 0.0012 22.4 2.2 16 18-33 82-97 (258)
70 PLN02810 carbon-monoxide oxyge 28.2 1.1E+02 0.0023 20.8 3.5 28 6-33 149-176 (231)
71 MTH00046 CYTB cytochrome b; Va 27.8 1.1E+02 0.0025 21.4 3.7 26 7-32 68-93 (355)
72 PLN02680 carbon-monoxide oxyge 26.9 1.2E+02 0.0026 20.3 3.6 27 7-33 150-176 (232)
73 TIGR02205 septum_zipA cell div 26.6 35 0.00077 23.2 1.0 21 9-29 2-22 (284)
74 cd03494 SQR_TypeC_SdhD Succina 26.5 1.3E+02 0.0028 17.0 3.3 16 18-33 48-63 (99)
75 PRK11878 psaM photosystem I re 25.8 59 0.0013 16.3 1.5 19 19-37 12-30 (34)
76 PF15562 Imm10: Immunity prote 25.6 66 0.0014 17.0 1.8 20 5-24 38-57 (61)
77 MTH00191 CYTB cytochrome b; Pr 25.5 1.4E+02 0.0031 20.5 3.8 28 6-33 73-100 (365)
78 PRK09488 sdhD succinate dehydr 25.5 1.2E+02 0.0025 18.0 3.0 15 19-33 63-77 (115)
79 CHL00190 psaM photosystem I su 25.0 72 0.0016 15.6 1.7 19 19-37 9-27 (30)
80 cd03500 SQR_TypeA_SdhD_like Su 24.5 1.3E+02 0.0029 16.4 3.0 16 19-34 55-70 (106)
81 PRK10179 formate dehydrogenase 24.5 1.6E+02 0.0035 18.5 3.7 26 7-32 146-174 (217)
82 cd03498 SQR_TypeB_2_TM Succina 24.0 85 0.0018 19.6 2.3 16 19-34 53-68 (209)
83 PF01627 Hpt: Hpt domain; Int 23.7 90 0.0019 15.3 2.0 16 7-22 31-46 (90)
84 TIGR03053 PS_I_psaM photosyste 23.5 81 0.0018 15.2 1.7 18 20-37 9-26 (29)
85 MTH00022 CYTB cytochrome b; Va 23.3 1.6E+02 0.0035 20.6 3.7 26 7-32 76-101 (379)
86 MTH00033 CYTB cytochrome b; Pr 22.9 1.6E+02 0.0036 20.7 3.8 28 7-34 74-101 (383)
87 MTH00034 CYTB cytochrome b; Va 22.8 1.8E+02 0.0038 20.3 3.9 27 7-33 77-103 (379)
88 MTH00119 CYTB cytochrome b; Pr 21.4 1.9E+02 0.0042 20.0 3.8 27 6-32 77-103 (380)
89 PF01127 Sdh_cyt: Succinate de 21.1 1.2E+02 0.0027 16.3 2.4 13 21-33 76-88 (121)
90 PRK04335 cell division protein 21.1 65 0.0014 22.5 1.5 22 8-29 3-24 (313)
91 PF10215 Ost4: Oligosaccaryltr 20.5 1.3E+02 0.0029 14.9 2.5 19 9-27 7-25 (35)
92 MTH00131 CYTB cytochrome b; Pr 20.4 2E+02 0.0042 20.0 3.7 27 6-32 76-102 (380)
No 1
>PF13301 DUF4079: Protein of unknown function (DUF4079)
Probab=98.52 E-value=1.5e-07 Score=59.30 Aligned_cols=36 Identities=28% Similarity=0.284 Sum_probs=33.1
Q ss_pred ccC-CchhHHHHHHHHHHHHHHHHHHHHHhhhhcccC
Q 036146 3 SLG-NPGLRNVHGILGSGIMTSFLIHAALGLQLGLSY 38 (38)
Q Consensus 3 F~g-~~~lR~~HayLGs~i~~lllvH~~lGLqLGLS~ 38 (38)
|.| ++..|++|+|+++.++++|+.|++.|.++++||
T Consensus 139 ~~g~~~~~R~lHi~lN~~~l~Lf~~q~itG~~ill~i 175 (175)
T PF13301_consen 139 QKGNRPWARRLHIYLNSLALLLFAWQAITGWRILLKI 175 (175)
T ss_pred ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 456 469999999999999999999999999999986
No 2
>PF03188 Cytochrom_B561: Eukaryotic cytochrome b561; InterPro: IPR004877 Cytochrome b561 is a secretory vesicle-specific electron transport protein []. It is an integral membrane protein, that binds two haem groups non-covalently. This entry represents the eukaryotic family. Members of the 'bacterial cytochrome b561' family can be found in IPR011577 from INTERPRO.; GO: 0016021 integral to membrane
Probab=92.86 E-value=0.098 Score=29.50 Aligned_cols=28 Identities=29% Similarity=0.514 Sum_probs=24.0
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
++...+.|+++|-++++++++-.++|+-
T Consensus 65 ~~h~~s~H~~lG~~~~~l~~~Q~~~G~~ 92 (137)
T PF03188_consen 65 KPHFKSWHSILGLATFVLALLQPLLGFF 92 (137)
T ss_pred CCCCCCchhhhhHHHHHHHHHHHHHHHH
Confidence 5677889999999999999999888863
No 3
>PF14358 DUF4405: Domain of unknown function (DUF4405)
Probab=91.88 E-value=0.38 Score=24.98 Aligned_cols=25 Identities=24% Similarity=0.286 Sum_probs=22.7
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHH
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAAL 30 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~l 30 (38)
++..|..|-+.|-..+++..+|..+
T Consensus 38 ~~~~~~iH~~~g~~~~~l~~~Hl~l 62 (64)
T PF14358_consen 38 KHFWRNIHLWAGYLFLILIILHLGL 62 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999999999999754
No 4
>smart00665 B561 Cytochrome b-561 / ferric reductase transmembrane domain. Cytochrome b-561 recycles ascorbate for the generation of norepinephrine by dopamine-beta-hydroxylase in the chromaffin vesicles of the adrenal gland. It is a transmembrane heme protein with the two heme groups being bound to conserved histidine residues. A cytochrome b-561 homologue, termed Dcytb, is an iron-regulated ferric reductase in the duodenal mucosa. Other homologues of these are also likely to be ferric reductases. SDR2 is proposed to be important in regulating the metabolism of iron in the onset of neurodegenerative disorders.
Probab=90.73 E-value=0.41 Score=27.30 Aligned_cols=27 Identities=15% Similarity=0.151 Sum_probs=23.9
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
++...+.|+++|-+..++.++-.++|+
T Consensus 64 ~~~~~s~H~~lGl~~~~l~~~Q~~~G~ 90 (129)
T smart00665 64 IANFYSLHSWLGLAAFVLAGLQWLSGF 90 (129)
T ss_pred CCCccchhHHHHHHHHHHHHHHHHHHH
Confidence 466889999999999999999998886
No 5
>cd08554 Cyt_b561 Eukaryotic cytochrome b(561). Cytochrome b(561) is a family of endosomal or secretory vesicle-specific electron transport proteins. They are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments. This is an exclusively eukaryotic family. Members of the prokaryotic cytochrome b561 family are not deemed homologous.
Probab=90.03 E-value=0.64 Score=26.39 Aligned_cols=27 Identities=26% Similarity=0.396 Sum_probs=23.8
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
++...+.|+++|-++++++++-.++|+
T Consensus 66 ~~h~~s~Hs~lGl~~~~l~~~q~~~G~ 92 (131)
T cd08554 66 IANLYSLHSWLGLATVLLFLLQFLSGF 92 (131)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHHHH
Confidence 556889999999999999999988885
No 6
>PF13172 PepSY_TM_1: PepSY-associated TM helix
Probab=89.96 E-value=1.1 Score=21.30 Aligned_cols=29 Identities=28% Similarity=0.225 Sum_probs=24.8
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGLQLG 35 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGLqLG 35 (38)
.-+|..|-|+|-.+...+++=++.|.-+.
T Consensus 3 ~~~~~~H~~~g~~~~~~ll~~~lTG~~l~ 31 (34)
T PF13172_consen 3 KFWRKIHRWLGLIAAIFLLLLALTGALLN 31 (34)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45899999999999999999888887553
No 7
>cd08761 Cyt_b561_CYB561D2_like Eukaryotic cytochrome b(561), including the CYB561D2 gene product. Cytochrome b(561), as found in eukaryotes, similar to and including the human CYB561D2 gene product. CYB561D2 is a candidate tumor suppressor. The protein might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=89.61 E-value=0.46 Score=28.72 Aligned_cols=28 Identities=36% Similarity=0.572 Sum_probs=25.2
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 5 GNPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 5 g~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
+++.+.+.|+++|-++++++++-.++|+
T Consensus 87 ~~~hf~s~H~~lGl~~~~l~~~Q~~~G~ 114 (183)
T cd08761 87 GKPHFTSWHGILGLVTVILIVLQALGGL 114 (183)
T ss_pred CCCCccchhHHHHHHHHHHHHHHHHHhH
Confidence 3667889999999999999999999987
No 8
>cd08766 Cyt_b561_ACYB-1_like Plant cytochrome b(561), including the carbon monoxide oxygenase ACYB-1. Cytochrome b(561), as found in plants, similar to the Arabidopsis thaliana ACYB-1 gene product, a cytochrome b561 isoform localized to the tonoplast. This protein might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), and might be capable of trans-membrane electron transport from intracellular ascorbate to extracellular ferric chelates. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=89.51 E-value=0.5 Score=29.00 Aligned_cols=27 Identities=30% Similarity=0.541 Sum_probs=23.5
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
.|-+.+.|+++|-+.++++.+..+.|+
T Consensus 71 ~~~~~SlHSwlGl~t~~L~~lQ~~~G~ 97 (144)
T cd08766 71 IPNLYSLHSWLGIGTISLFGLQWLFGF 97 (144)
T ss_pred ccccccHHHHHHHHHHHHHHHHHHHHH
Confidence 566788899999999999999998885
No 9
>cd08760 Cyt_b561_FRRS1_like Eukaryotic cytochrome b(561), including the FRRS1 gene product. Cytochrome b(561), as found in eukaryotes, similar to and including the human FRRS1 gene product (ferric-chelate reductase 1), also called SDR-2 (stromal cell-derived receptor 2). This family comprises a variety of domain architectures, many of which contain dopamine beta-monooxygenase (DOMON) domains. The protein might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=88.29 E-value=0.41 Score=28.85 Aligned_cols=28 Identities=36% Similarity=0.612 Sum_probs=18.7
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 5 GNPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 5 g~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
+++..++.|+++|-++++++++-.++|+
T Consensus 97 ~~~~~~~~H~~lGl~~~~l~~lQ~~~G~ 124 (191)
T cd08760 97 GGGSLNNAHAILGIIVLALAILQPLLGL 124 (191)
T ss_pred CCCCCcCcchhhhHHHHHHHHHHHHHHH
Confidence 3555667777777777777776666664
No 10
>cd08765 Cyt_b561_CYBRD1 Vertebrate cytochrome b(561), CYBRD1 gene product. Duodenal cytochrome b or ferric-chelate reductase 3, a cytochrome b(561), as found in vertebrates, which might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. This protein is expressed at the brush border of duodenal enterocytes and may play a role in the uptake of dietary Fe(3+), facilitating its transport into the mucosal cells. It may also be involved in the recycling of extracellular ascorbate in erythrocyte membranes, and act as a ferrireductase in epithelial cells of the respiratory system. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-me
Probab=87.78 E-value=0.8 Score=28.65 Aligned_cols=28 Identities=18% Similarity=0.452 Sum_probs=24.8
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 5 GNPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 5 g~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
+.|-+.+.|+|+|-+.++++.+..+.|+
T Consensus 77 ~~~~fySlHSwlGl~t~~l~~lQ~~~Gf 104 (153)
T cd08765 77 NIPNMYSLHSWVGLAAVILYPLQLVLGI 104 (153)
T ss_pred CCCccccHHHHHHHHHHHHHHHHHHHHH
Confidence 3677889999999999999999999886
No 11
>TIGR02125 CytB-hydogenase Ni/Fe-hydrogenase, b-type cytochrome subunit. This model describes a family of cytochrome b proteins which appear to be specific for nickel-iron hydrogenase complexes. Every genome which contains a member of this family posesses a Ni/Fe hydrogenase according to Genome Properties (GenProp0177), and most are gene clustered with other hydrogenase components. Some Ni/Fe hydrogenase-containing species lack a member of this family but contain other CytB homologs (pfam01292) which may substitute for it.
Probab=87.17 E-value=1.4 Score=26.23 Aligned_cols=29 Identities=14% Similarity=0.210 Sum_probs=24.6
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 5 GNPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 5 g~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
+.+..|.+|.+..-.+++++++|....+.
T Consensus 161 ~~~~~~~iH~~~a~~l~~~i~~Hi~~a~~ 189 (211)
T TIGR02125 161 GLANVRFIHHLGMWAFVIFVPVHVYMAVR 189 (211)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44558999999999999999999987653
No 12
>cd08763 Cyt_b561_CYB561 Vertebrate cytochrome b(561), CYB561 gene product. Cytochrome b(561), as found in vertebrates, which might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=86.77 E-value=0.95 Score=27.72 Aligned_cols=27 Identities=15% Similarity=0.373 Sum_probs=23.7
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
.|-+.+.|+++|-+.++++....+.|+
T Consensus 71 ~~hf~SlHswlGl~t~~L~~lQ~~~G~ 97 (143)
T cd08763 71 YPDMYSLHSWCGILTFVLYFLQWLIGF 97 (143)
T ss_pred CCccccHHHHHHHHHHHHHHHHHHHHH
Confidence 567889999999999999999998886
No 13
>PF00033 Cytochrom_B_N: Cytochrome b(N-terminal)/b6/petB; InterPro: IPR016174 This entry represents a haem-binding domain with a 4-helical bundle structure that is found in transmembrane di-haem cytochromes. The domain contains four transmembrane helices in an up-and-down bundle, and binds two haem groups in between the helices; three of the four haem-binding residues is conserved between family members. Proteins containing this domain include: N-terminal domain of mitochondrial cytochrome b subunit, in which the domain contains an extra transmembrane linker helix that is absent in plant and cyanobacteria subunits []. Cytochrome b6 subunit of the cytochrome b6f complex, which provides the electronic connection between the photosystems I and II reaction centres of oxygenic photosynthesis, and generates a transmembrane electrochemical proton gradient for adenosine triphosphate synthesis []. Cytochrome gamma subunit of formate dehydrogenase-N (Fdn-N), which acts as a major component of Escherichia coli nitrate respiration []. ; GO: 0022904 respiratory electron transport chain, 0016020 membrane; PDB: 1KQG_C 1KQF_C.
Probab=85.80 E-value=2.1 Score=24.27 Aligned_cols=29 Identities=31% Similarity=0.324 Sum_probs=25.4
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 5 GNPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 5 g~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
.++..|..|.++|.+.++++++..+.++.
T Consensus 42 ~~~~~~~~H~~~G~~~~~~~~~~~~~~~~ 70 (188)
T PF00033_consen 42 GRQLLRWLHFSLGIVFLALFLLRILWRLF 70 (188)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHGG
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 36779999999999999999999887764
No 14
>PF13706 PepSY_TM_3: PepSY-associated TM helix
Probab=83.93 E-value=3.6 Score=20.02 Aligned_cols=27 Identities=22% Similarity=0.185 Sum_probs=21.9
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
++.++.+|.++|-++-.++++=.+.|.
T Consensus 1 rr~~~~~H~W~Gl~~g~~l~~~~~tG~ 27 (37)
T PF13706_consen 1 RRILRKLHRWLGLILGLLLFVIFLTGA 27 (37)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 456889999999999888888776663
No 15
>KOG4783 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.66 E-value=1.2 Score=27.35 Aligned_cols=31 Identities=32% Similarity=0.390 Sum_probs=23.1
Q ss_pred ccCCchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 3 SLGNPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 3 F~g~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
|+|--+.-+.-++.=|+|.++..||.++|+=
T Consensus 54 leg~lgis~~da~iySaI~aVVavHvalgly 84 (102)
T KOG4783|consen 54 LEGYLGISEVDADIYSAICAVVAVHVALGLY 84 (102)
T ss_pred HHHhcCcchhhhHHHHHHHHHHHHHHHHHHH
Confidence 3443333455678889999999999999974
No 16
>PLN02680 carbon-monoxide oxygenase
Probab=82.41 E-value=1.9 Score=28.81 Aligned_cols=28 Identities=25% Similarity=0.388 Sum_probs=24.5
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 5 GNPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 5 g~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
+.+-+.+.|+++|-+.++++.+..++|+
T Consensus 109 ~~~nfySlHSWlGl~t~iL~~lQ~~~Gf 136 (232)
T PLN02680 109 GIDNFYSLHSWLGLACLFLFSLQWAAGF 136 (232)
T ss_pred CccccccHHHHHHHHHHHHHHHHHHHHH
Confidence 3567888999999999999999999986
No 17
>PF01292 Ni_hydr_CYTB: Prokaryotic cytochrome b561; InterPro: IPR011577 Cytochrome b561 is an integral membrane and electron transport protein, that binds two haem groups non-covalently. This domain is also found in a number of nickel-dependent hydrogenase subunits which are also B-type cytochromes that interact with quinones and anchor the hydrogenase to the membrane. Members of the 'eukaryotic cytochrome b561' family can be found in IPR004877 from INTERPRO.; GO: 0009055 electron carrier activity, 0016021 integral to membrane
Probab=81.92 E-value=2.6 Score=24.14 Aligned_cols=27 Identities=22% Similarity=0.228 Sum_probs=24.1
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
....|.+|.+++..+++...+|....+
T Consensus 140 ~~~~~~vH~~~a~~~i~~i~~Hv~~a~ 166 (182)
T PF01292_consen 140 AQIARSVHFFLAWLLIAFIILHVYAAL 166 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567899999999999999999988765
No 18
>PF10348 DUF2427: Domain of unknown function (DUF2427); InterPro: IPR018825 This entry represents the N-terminal region of a family of proteins conserved in fungi. Several of these proteins are annotated as being Ftp1 but this could not be confirmed. Their function is not known.
Probab=81.68 E-value=2.3 Score=24.76 Aligned_cols=23 Identities=26% Similarity=0.566 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 036146 10 RNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 10 R~~HayLGs~i~~lllvH~~lGL 32 (38)
-|+|+-+|-+++.++++|.++|+
T Consensus 78 ~n~H~k~g~il~~l~~~q~~~gv 100 (105)
T PF10348_consen 78 NNAHGKMGWILFVLMIVQVILGV 100 (105)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999986
No 19
>PF01794 Ferric_reduct: Ferric reductase like transmembrane component; InterPro: IPR013130 This family includes a common region in the transmembrane proteins mammalian cytochrome b-245 heavy chain (gp91-phox), ferric reductase transmembrane component in yeast and respiratory burst oxidase from Arabidopsis thaliana. This may be a family of flavocytochromes capable of moving electrons across the plasma membrane [] that include a potential FAD binding domain. Mutations in the sequence of cytochrome b-245 heavy chain (gp91-phox) lead to the X-linked chronic granulomatous disease. The bacteriocidal ability of phagocytic cells is reduced and is characterised by the absence of a functional plasma membrane associated NADPH oxidase [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0016021 integral to membrane
Probab=81.05 E-value=3.7 Score=21.93 Aligned_cols=20 Identities=30% Similarity=0.355 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 036146 11 NVHGILGSGIMTSFLIHAAL 30 (38)
Q Consensus 11 ~~HayLGs~i~~lllvH~~l 30 (38)
..|-++|-.++...++|++.
T Consensus 35 ~~Hr~lg~~~~~~~~~H~~~ 54 (125)
T PF01794_consen 35 RFHRWLGRLAFFLALLHGVL 54 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 49999999999999999875
No 20
>COG4117 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]
Probab=80.57 E-value=2.8 Score=28.49 Aligned_cols=35 Identities=29% Similarity=0.210 Sum_probs=30.1
Q ss_pred CCccCCchhHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 036146 1 MLSLGNPGLRNVHGILGSGIMTSFLIHAALGLQLG 35 (38)
Q Consensus 1 ~lF~g~~~lR~~HayLGs~i~~lllvH~~lGLqLG 35 (38)
++|+|.+.+|.+|-.+=+..+..+++|..+.+.-|
T Consensus 172 ~~~Ggrq~ar~vHFa~m~~~v~FiivHl~l~~~~~ 206 (221)
T COG4117 172 ELPGGRQTARWVHFALMLIVVGFIIVHLLLCLLAG 206 (221)
T ss_pred hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 36788999999999999999999999999887543
No 21
>cd08764 Cyt_b561_CG1275_like Non-vertebrate eumetazoan cytochrome b(561). Cytochrome b(561), as found in non-vertebrate eumetazoans, similar to the Drosophila melanogaster CG1275 gene product. This protein might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=80.55 E-value=2.4 Score=27.74 Aligned_cols=28 Identities=21% Similarity=0.323 Sum_probs=23.7
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 5 GNPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 5 g~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
+++-+.+.|+++|-+.++++.+..+.|+
T Consensus 89 ~~~hfySlHSwlGl~t~~L~~lQ~~~Gf 116 (214)
T cd08764 89 PIPNMYSLHSWLGLTAVILFSLQWVGGF 116 (214)
T ss_pred CCCcccchHHHHHHHHHHHHHHHHHHHH
Confidence 3556788899999999999999998886
No 22
>PF00033 Cytochrom_B_N: Cytochrome b(N-terminal)/b6/petB; InterPro: IPR016174 This entry represents a haem-binding domain with a 4-helical bundle structure that is found in transmembrane di-haem cytochromes. The domain contains four transmembrane helices in an up-and-down bundle, and binds two haem groups in between the helices; three of the four haem-binding residues is conserved between family members. Proteins containing this domain include: N-terminal domain of mitochondrial cytochrome b subunit, in which the domain contains an extra transmembrane linker helix that is absent in plant and cyanobacteria subunits []. Cytochrome b6 subunit of the cytochrome b6f complex, which provides the electronic connection between the photosystems I and II reaction centres of oxygenic photosynthesis, and generates a transmembrane electrochemical proton gradient for adenosine triphosphate synthesis []. Cytochrome gamma subunit of formate dehydrogenase-N (Fdn-N), which acts as a major component of Escherichia coli nitrate respiration []. ; GO: 0022904 respiratory electron transport chain, 0016020 membrane; PDB: 1KQG_C 1KQF_C.
Probab=77.16 E-value=4.4 Score=22.96 Aligned_cols=27 Identities=22% Similarity=0.225 Sum_probs=22.9
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
.+..|.+|.+.+-..++.+++|....+
T Consensus 146 ~~~~~~iH~~~~~ll~~~i~~Hi~~a~ 172 (188)
T PF00033_consen 146 AEWARLIHFILAYLLLAFIIIHIYAAI 172 (188)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567899999999999999999987654
No 23
>cd08760 Cyt_b561_FRRS1_like Eukaryotic cytochrome b(561), including the FRRS1 gene product. Cytochrome b(561), as found in eukaryotes, similar to and including the human FRRS1 gene product (ferric-chelate reductase 1), also called SDR-2 (stromal cell-derived receptor 2). This family comprises a variety of domain architectures, many of which contain dopamine beta-monooxygenase (DOMON) domains. The protein might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=76.18 E-value=6.5 Score=23.63 Aligned_cols=29 Identities=24% Similarity=0.311 Sum_probs=25.8
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQL 34 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLqL 34 (38)
++-.+..|.++|-++.++-.+-..+|+++
T Consensus 134 R~~~~~~H~~~G~~~~~l~~v~i~~G~~~ 162 (191)
T cd08760 134 RSIWNWAHRWLGRAALILAIVNIFLGLDL 162 (191)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45568899999999999999999999875
No 24
>cd08762 Cyt_b561_CYBASC3 Vertebrate cytochrome b(561), CYBASC3 gene product. Cytochrome b ascorbate-dependent 3, as found in vertebrates, which might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=74.12 E-value=6.4 Score=25.44 Aligned_cols=27 Identities=19% Similarity=0.353 Sum_probs=22.3
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
.|.+-+.|.++|-+.++++.+..++|.
T Consensus 101 ~~nlySlHSWlGl~t~~Lf~lQ~~~Gf 127 (179)
T cd08762 101 TANLYSLHSWVGICTVALFTCQWVMGF 127 (179)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHH
Confidence 566778899999999998888888876
No 25
>PRK11513 cytochrome b561; Provisional
Probab=67.48 E-value=13 Score=22.76 Aligned_cols=27 Identities=26% Similarity=0.196 Sum_probs=22.7
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
+..+++|.+++.+.+++..+|.+-.++
T Consensus 131 ~~~~~~H~~~a~~l~~li~lHvaaAL~ 157 (176)
T PRK11513 131 DSLKSWHETLANLGYFVIGLHAAAALA 157 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346889999999999999999986553
No 26
>PLN02351 cytochromes b561 family protein
Probab=66.99 E-value=11 Score=25.53 Aligned_cols=27 Identities=15% Similarity=0.177 Sum_probs=23.8
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
.|.+-+.|.++|-+.++++.+..++|.
T Consensus 113 i~nlySLHSWlGl~tv~Lf~lQwv~Gf 139 (242)
T PLN02351 113 VANFYSLHSWMGLICVSLFGAQWLTGF 139 (242)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 366889999999999999999988886
No 27
>PF03188 Cytochrom_B561: Eukaryotic cytochrome b561; InterPro: IPR004877 Cytochrome b561 is a secretory vesicle-specific electron transport protein []. It is an integral membrane protein, that binds two haem groups non-covalently. This entry represents the eukaryotic family. Members of the 'bacterial cytochrome b561' family can be found in IPR011577 from INTERPRO.; GO: 0016021 integral to membrane
Probab=65.33 E-value=15 Score=20.47 Aligned_cols=27 Identities=30% Similarity=0.265 Sum_probs=23.4
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
++..+..|.++|-++..+..+=..+|+
T Consensus 104 r~~~~~~H~~~G~~~~~l~~~~i~~G~ 130 (137)
T PF03188_consen 104 RPIWNKWHRWLGYLIYVLAIATIFLGL 130 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445677899999999999999998887
No 28
>cd08761 Cyt_b561_CYB561D2_like Eukaryotic cytochrome b(561), including the CYB561D2 gene product. Cytochrome b(561), as found in eukaryotes, similar to and including the human CYB561D2 gene product. CYB561D2 is a candidate tumor suppressor. The protein might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=64.63 E-value=12 Score=22.54 Aligned_cols=29 Identities=24% Similarity=0.217 Sum_probs=24.8
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQL 34 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLqL 34 (38)
.+..+..|.++|-.+.++..+=..+|++-
T Consensus 129 r~~~~~~H~~~G~~~~~l~~~t~~lGl~~ 157 (183)
T cd08761 129 AKKLKKYHRLSGYVAYLLGLATLVLGLET 157 (183)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 34578899999999999999999998863
No 29
>cd08766 Cyt_b561_ACYB-1_like Plant cytochrome b(561), including the carbon monoxide oxygenase ACYB-1. Cytochrome b(561), as found in plants, similar to the Arabidopsis thaliana ACYB-1 gene product, a cytochrome b561 isoform localized to the tonoplast. This protein might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), and might be capable of trans-membrane electron transport from intracellular ascorbate to extracellular ferric chelates. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=64.30 E-value=13 Score=22.69 Aligned_cols=29 Identities=28% Similarity=0.216 Sum_probs=25.2
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQL 34 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLqL 34 (38)
++..+..|.+.|-++..+-++=+.+|++-
T Consensus 110 r~~~~p~H~~~G~~~~~la~~t~~lGl~e 138 (144)
T cd08766 110 RAALLPWHVFLGLAIYYLAIATAETGLLE 138 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678899999999999999999999863
No 30
>CHL00070 petB cytochrome b6
Probab=61.48 E-value=17 Score=23.71 Aligned_cols=27 Identities=19% Similarity=0.101 Sum_probs=23.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
--+|..|++=.|..+.++++|..=|+=
T Consensus 80 wl~R~~H~~gas~~~~~~~lH~~r~~~ 106 (215)
T CHL00070 80 WLIRSVHRWSASMMVLMMILHVFRVYL 106 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 358999999999999999999987653
No 31
>TIGR02125 CytB-hydogenase Ni/Fe-hydrogenase, b-type cytochrome subunit. This model describes a family of cytochrome b proteins which appear to be specific for nickel-iron hydrogenase complexes. Every genome which contains a member of this family posesses a Ni/Fe hydrogenase according to Genome Properties (GenProp0177), and most are gene clustered with other hydrogenase components. Some Ni/Fe hydrogenase-containing species lack a member of this family but contain other CytB homologs (pfam01292) which may substitute for it.
Probab=61.39 E-value=14 Score=21.94 Aligned_cols=26 Identities=23% Similarity=0.238 Sum_probs=21.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
...|+.|-++|-.+++++++..+.++
T Consensus 46 ~~~~~~H~~~G~~~~~l~l~rl~~~~ 71 (211)
T TIGR02125 46 GYIRFVHFAAGFVLIAVLLFRVYLAF 71 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35789999999999999988776554
No 32
>COG3295 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.48 E-value=13 Score=25.22 Aligned_cols=28 Identities=29% Similarity=0.412 Sum_probs=23.1
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGLQL 34 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGLqL 34 (38)
.=+|..|+|-|-.-+..+++-++.|+-|
T Consensus 23 kWLR~lH~W~~~~slv~~LlFaltGitL 50 (213)
T COG3295 23 KWLRKLHQWSGAWSLVGMLLFALTGITL 50 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhceee
Confidence 4589999998888888888888888755
No 33
>PLN02810 carbon-monoxide oxygenase
Probab=59.33 E-value=13 Score=25.07 Aligned_cols=28 Identities=32% Similarity=0.541 Sum_probs=22.5
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 5 GNPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 5 g~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
+.|.+-+.|.++|-+.++++.+..++|+
T Consensus 109 ~i~nlySLHSWlGl~tv~Lf~lQw~~Gf 136 (231)
T PLN02810 109 GIANLYSLHSWLGIGIISLYGIQWIYGF 136 (231)
T ss_pred CCCceeeHHHHHHHHHHHHHHHHHHHHH
Confidence 3566778888888888888888888776
No 34
>TIGR01583 formate-DH-gamm formate dehydrogenase, gamma subunit. NiFe-hydrogenase and thiosulfate reductase contain homologous gamma subunits, and these can be found scoring in the noise of this model.
Probab=58.54 E-value=23 Score=21.77 Aligned_cols=25 Identities=12% Similarity=0.214 Sum_probs=22.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 8 GLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 8 ~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
..|.+|.+.+-.+++..++|..+.+
T Consensus 146 ~~~~~H~~~a~l~~~~vi~Hiy~a~ 170 (204)
T TIGR01583 146 ISALIHNFSAIILAVGFIVHIYMAV 170 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578999999999999999998865
No 35
>COG1290 QcrB Cytochrome b subunit of the bc complex [Energy production and conversion]
Probab=57.47 E-value=18 Score=25.49 Aligned_cols=28 Identities=25% Similarity=0.205 Sum_probs=23.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 036146 8 GLRNVHGILGSGIMTSFLIHAALGLQLG 35 (38)
Q Consensus 8 ~lR~~HayLGs~i~~lllvH~~lGLqLG 35 (38)
-+|..|.+.+|...+++.+|+.=+.=.|
T Consensus 86 ~lr~~H~~~A~~m~~~~~iHm~r~~~~G 113 (381)
T COG1290 86 LLRYMHLWGASLMFALVYLHMFRGFFYG 113 (381)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccc
Confidence 4899999999999999999998665433
No 36
>PRK03735 cytochrome b6; Provisional
Probab=56.32 E-value=19 Score=23.52 Aligned_cols=26 Identities=15% Similarity=0.107 Sum_probs=23.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
--.|..|.+=.|..+.++.+|..=|+
T Consensus 88 wliR~~H~~gas~~~~~~~lH~~r~~ 113 (223)
T PRK03735 88 WIVRGMHHWGASLVIVMMFLHTLRVF 113 (223)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence 45899999999999999999997665
No 37
>COG3038 CybB Cytochrome B561 [Energy production and conversion]
Probab=55.87 E-value=22 Score=22.78 Aligned_cols=28 Identities=21% Similarity=0.197 Sum_probs=24.3
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
++..+++|.+++-...++..+|++.-++
T Consensus 136 ~~~~~~~H~~la~~~~~lv~lHa~AAl~ 163 (181)
T COG3038 136 ADLAKAIHETLAWLLYALIGLHAAAALK 163 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667899999999999999999987653
No 38
>COG4323 Predicted membrane protein [Function unknown]
Probab=53.47 E-value=19 Score=22.23 Aligned_cols=25 Identities=28% Similarity=0.555 Sum_probs=21.5
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALG 31 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lG 31 (38)
|+--|..| +.||.....-++|+++-
T Consensus 25 N~vcRRLH-~vGs~LvlvcL~~~Vf~ 49 (105)
T COG4323 25 NPVCRRLH-VVGSSLVLVCLVLGVFR 49 (105)
T ss_pred chhHhhhh-hhhhHHHHHHHHHHHHh
Confidence 67788888 78999999999999875
No 39
>KOG1619 consensus Cytochrome b [Energy production and conversion]
Probab=51.73 E-value=23 Score=24.32 Aligned_cols=28 Identities=29% Similarity=0.315 Sum_probs=23.5
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
+..++..|.++|-.+..+-.+-+.+|+.
T Consensus 158 Rs~lmP~H~~~Gl~~f~lai~ta~~Gl~ 185 (245)
T KOG1619|consen 158 RSRLMPWHVFLGLAIFILAIVTALTGLL 185 (245)
T ss_pred HhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445678999999999999999999984
No 40
>cd08763 Cyt_b561_CYB561 Vertebrate cytochrome b(561), CYB561 gene product. Cytochrome b(561), as found in vertebrates, which might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=51.45 E-value=29 Score=21.18 Aligned_cols=28 Identities=21% Similarity=0.387 Sum_probs=24.4
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
+..++-.|.+.|-.+..+..+=+.+|++
T Consensus 110 r~~~~p~H~~~G~~~f~la~~t~~lG~~ 137 (143)
T cd08763 110 RSQYKPLHEFFGRALFLSSVGTSLLGLT 137 (143)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667779999999999999999998874
No 41
>PRK10171 hydrogenase 1 b-type cytochrome subunit; Provisional
Probab=49.97 E-value=38 Score=21.40 Aligned_cols=26 Identities=15% Similarity=-0.004 Sum_probs=22.8
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
...|.+|.+..-.++++..+|...-+
T Consensus 178 ~~~~~~H~~~~~~l~~~v~~Hi~~~~ 203 (235)
T PRK10171 178 MDIHSWHRLGMWLIGAFVIGHVYMAL 203 (235)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35899999999999999999987754
No 42
>PF09446 VMA21: VMA21-like domain; InterPro: IPR019013 The vacuolar ATPase assembly integral membrane protein VMA21 is required for the assembly of the integral membrane sector (V0 component) of the vacuolar ATPase (V-ATPase) in the endoplasmic reticulum []. This entry represents a putative short domain found in VMA21-like proteins, and which appears to contain two potential transmembrane helices.
Probab=49.30 E-value=21 Score=19.20 Aligned_cols=21 Identities=19% Similarity=0.309 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 036146 12 VHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 12 ~HayLGs~i~~lllvH~~lGL 32 (38)
..+.+.|++.+...+|.+++.
T Consensus 40 ~~~~~~sgi~Avi~vnvVl~~ 60 (66)
T PF09446_consen 40 SDNTIYSGIAAVIVVNVVLAS 60 (66)
T ss_pred chhhHHHHHHHHHHHHHHHHH
Confidence 356789999999999999874
No 43
>PRK10639 formate dehydrogenase-O subunit gamma; Provisional
Probab=48.92 E-value=29 Score=21.50 Aligned_cols=27 Identities=22% Similarity=0.171 Sum_probs=21.9
Q ss_pred ccCCchhHHHHHHHHHHHHHHHHHHHH
Q 036146 3 SLGNPGLRNVHGILGSGIMTSFLIHAA 29 (38)
Q Consensus 3 F~g~~~lR~~HayLGs~i~~lllvH~~ 29 (38)
|+|.+..|.+|-+.|-...+.++++..
T Consensus 47 ~g~~~~~r~iH~~~g~i~~~~~~~~~~ 73 (211)
T PRK10639 47 LGTPQLARILHPFVGVVMFASFIIMFF 73 (211)
T ss_pred hcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466678999999999988888887744
No 44
>PRK10639 formate dehydrogenase-O subunit gamma; Provisional
Probab=48.82 E-value=38 Score=20.99 Aligned_cols=26 Identities=12% Similarity=0.179 Sum_probs=22.8
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
+..|.+|.+..-.+++.+++|..+.+
T Consensus 147 ~~~~~~H~~~a~~~i~~iivHiy~a~ 172 (211)
T PRK10639 147 RFALMLHSFAAVALIVVIMVHIYAAL 172 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46899999999999999999997764
No 45
>cd00284 Cytochrome_b_N Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria, cytochrome b6 is analogous to eukaryote cytochrome b, containing two chains: helices A-D are encoded by the petB gene and helices E-H are encoded by the petD gene in these organisms. Cytochrome b/b6 contains two bound hemes and two ubiquinol/ubiquinone binding sites. The C-terminal portion of cytochrome b is described in a separate CD.
Probab=47.16 E-value=41 Score=21.37 Aligned_cols=30 Identities=23% Similarity=0.231 Sum_probs=25.2
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQLG 35 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLqLG 35 (38)
..-.|..|.+=-|....++.+|..=++-.|
T Consensus 68 G~liR~~H~~gas~~~~~~~lH~~r~~~~g 97 (200)
T cd00284 68 GWLIRSLHANGASMFFLMLYLHIFRGLYYG 97 (200)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346899999999999999999998776554
No 46
>PF08586 Rsc14: RSC complex, Rsc14/Ldb7 subunit; InterPro: IPR013895 RSC is an ATP-dependent chromatin remodelling complex found in yeast. The RSC components Rsc7/Npl6 and Rsc14/Ldb7 interact physically and/or functionally with Rsc3, Rsc30, and Htl1 to form a module important for a broad range of RSC functions [].
Probab=46.72 E-value=2.4 Score=25.95 Aligned_cols=12 Identities=50% Similarity=0.736 Sum_probs=8.5
Q ss_pred chhHH-HHHHHHH
Q 036146 7 PGLRN-VHGILGS 18 (38)
Q Consensus 7 ~~lR~-~HayLGs 18 (38)
+.-|. +|+|||+
T Consensus 52 ~~kRv~VHgYLGG 64 (101)
T PF08586_consen 52 KSKRVPVHGYLGG 64 (101)
T ss_pred ccceeeeeeecCC
Confidence 34465 9999964
No 47
>cd08765 Cyt_b561_CYBRD1 Vertebrate cytochrome b(561), CYBRD1 gene product. Duodenal cytochrome b or ferric-chelate reductase 3, a cytochrome b(561), as found in vertebrates, which might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. This protein is expressed at the brush border of duodenal enterocytes and may play a role in the uptake of dietary Fe(3+), facilitating its transport into the mucosal cells. It may also be involved in the recycling of extracellular ascorbate in erythrocyte membranes, and act as a ferrireductase in epithelial cells of the respiratory system. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-me
Probab=46.14 E-value=40 Score=21.07 Aligned_cols=28 Identities=21% Similarity=0.296 Sum_probs=24.1
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
++.++..|.+.|-.+..+-.+=+.+|++
T Consensus 117 r~~~~p~H~~~G~~i~~Lai~t~~lG~~ 144 (153)
T cd08765 117 RAALMPLHVYSGLFIFGTVIATALMGIT 144 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4557789999999999999999998875
No 48
>PF14363 AAA_assoc: Domain associated at C-terminal with AAA
Probab=45.35 E-value=19 Score=20.19 Aligned_cols=15 Identities=27% Similarity=0.200 Sum_probs=13.4
Q ss_pred CchhHHHHHHHHHHH
Q 036146 6 NPGLRNVHGILGSGI 20 (38)
Q Consensus 6 ~~~lR~~HayLGs~i 20 (38)
|+..|++.+||+|-+
T Consensus 39 N~ly~a~~~YL~s~~ 53 (98)
T PF14363_consen 39 NELYDAAQAYLSSKI 53 (98)
T ss_pred cHHHHHHHHHHhhcc
Confidence 788999999999865
No 49
>cd08762 Cyt_b561_CYBASC3 Vertebrate cytochrome b(561), CYBASC3 gene product. Cytochrome b ascorbate-dependent 3, as found in vertebrates, which might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=43.81 E-value=45 Score=21.57 Aligned_cols=28 Identities=14% Similarity=0.290 Sum_probs=23.7
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
+..++..|.+.|-.+..+-.+=+.+|+.
T Consensus 140 ra~~~p~H~~~G~~if~Laiat~~lGl~ 167 (179)
T cd08762 140 RALVKPIHVFFGAMILVLSIASCISGIN 167 (179)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3446678999999999999999999875
No 50
>MTH00086 CYTB cytochrome b; Provisional
Probab=42.92 E-value=47 Score=23.10 Aligned_cols=29 Identities=21% Similarity=-0.014 Sum_probs=24.8
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGLQLG 35 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGLqLG 35 (38)
--+|..|++=-|....++.+|..=|+--|
T Consensus 66 wliR~~H~~gas~~f~~~ylHi~R~~~yg 94 (355)
T MTH00086 66 WLFRIFHFNGASLFFIFLYLHIFKGLFMM 94 (355)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHc
Confidence 35899999999999999999998877544
No 51
>PF14698 ASL_C2: Argininosuccinate lyase C-terminal; PDB: 1XWO_A 2E9F_A 1TJW_C 1TJU_A 1DCN_B 1K7W_B 1HY1_C 1TJV_B 1AUW_A 1U15_B ....
Probab=41.89 E-value=26 Score=18.81 Aligned_cols=16 Identities=25% Similarity=0.370 Sum_probs=12.3
Q ss_pred CchhHHHHHHHHHHHH
Q 036146 6 NPGLRNVHGILGSGIM 21 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~ 21 (38)
+-+.|.+|.+.|...-
T Consensus 15 GipFR~AH~iVg~~V~ 30 (70)
T PF14698_consen 15 GIPFREAHHIVGRLVR 30 (70)
T ss_dssp TS-HHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHH
Confidence 4468999999998764
No 52
>PRK03427 cell division protein ZipA; Provisional
Probab=41.79 E-value=37 Score=24.04 Aligned_cols=24 Identities=25% Similarity=0.364 Sum_probs=20.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHH
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAAL 30 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~l 30 (38)
..||-+=-.+|.++++.+|+|++-
T Consensus 3 qdLrLiLivvGAIAIiAlL~HGlW 26 (333)
T PRK03427 3 QDLRLILIIVGAIAIIALLVHGFW 26 (333)
T ss_pred hhhhhHHHHHHHHHHHHHHHHhhh
Confidence 358888899999999999999864
No 53
>PF03929 PepSY_TM: PepSY-associated TM helix; InterPro: IPR005625 This domain represents a conserved transmembrane (TM) helix that is found in bacterial proteins. Coil residues are significantly more conserved than other residues and are frequently found within channels and transporters, where they introduce the flexibility and polarity required for transport across the membrane []. This TM helix associates with PepSY (peptidase (M4) and YpeB of subtilis). PepSY is a repeated region first identified in Thermoanaerobacter tengcongensis. The PepSY domain functions in the control of M4 peptidases through their propeptide and in the germination of spores. It may also play a part in regulating protease activity [].
Probab=39.62 E-value=45 Score=15.61 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 10 RNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 10 R~~HayLGs~i~~lllvH~~lGLq 33 (38)
|..|-|++-.....+++=++.|+=
T Consensus 2 ~~LH~w~~~i~al~~lv~~iTGl~ 25 (27)
T PF03929_consen 2 NDLHKWFGDIFALFMLVFAITGLI 25 (27)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578999999999999988888863
No 54
>PRK13554 fumarate reductase cytochrome b-556 subunit; Provisional
Probab=39.45 E-value=76 Score=21.04 Aligned_cols=31 Identities=10% Similarity=0.024 Sum_probs=24.4
Q ss_pred ccC--CchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 3 SLG--NPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 3 F~g--~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
|+. +.-+|.+|+..|-....-+++|+..=++
T Consensus 16 ~~~~~~a~~d~lmslTGl~L~lFL~~Hm~~N~s 48 (241)
T PRK13554 16 FGHPWSAKADKLQSATGIMLGCFLLLHMHFESS 48 (241)
T ss_pred cCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555 4458999999999988888899887554
No 55
>cd08764 Cyt_b561_CG1275_like Non-vertebrate eumetazoan cytochrome b(561). Cytochrome b(561), as found in non-vertebrate eumetazoans, similar to the Drosophila melanogaster CG1275 gene product. This protein might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=38.69 E-value=60 Score=21.24 Aligned_cols=27 Identities=22% Similarity=0.261 Sum_probs=23.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
+.+...|.+.|-.+..+-++=+.+|++
T Consensus 130 ~~~~p~H~~~Gl~~fvLaiaT~~lGl~ 156 (214)
T cd08764 130 AAYLPLHVFFGLFIFVLAVATALLGIT 156 (214)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445589999999999999999999983
No 56
>PLN02351 cytochromes b561 family protein
Probab=35.27 E-value=73 Score=21.61 Aligned_cols=28 Identities=21% Similarity=0.099 Sum_probs=23.7
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
+..++-.|++.|-.+..+-++=+.+|+.
T Consensus 152 Ra~~~P~Hv~~Gl~if~LaiaTa~lGl~ 179 (242)
T PLN02351 152 RTTVLPWHVFLGLYTYGLAVATAETGLL 179 (242)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456678999999999999999999874
No 57
>PRK15006 thiosulfate reductase cytochrome B subunit; Provisional
Probab=34.45 E-value=81 Score=20.63 Aligned_cols=26 Identities=19% Similarity=-0.097 Sum_probs=22.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
+-.|.+|..+.-.+++.+++|..++.
T Consensus 217 ~~~~~iH~~~a~lli~fiivHIYl~~ 242 (261)
T PRK15006 217 YWLLQLHFALAFISLFFIFGHLYLCT 242 (261)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45889999999999999999998753
No 58
>cd03495 SQR_TypeC_SdhD_like Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory Complex II SdhD subunit of the only eukaryotic member, Reclinomonas americana. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. It is also called succinate dehydrogenase or Complex II, and is part of the citric acid cycle and the aerobic respiratory chain. SQR is composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. E. coli SQR is classified as Type C SQRs because it contains two transmembrane subunits and one heme group. The SdhD and SdhC subunits are membrane anchor subunits containing heme and quinone binding sites. The two-electron oxidation of succinate in the flavoprotein active site is
Probab=34.25 E-value=78 Score=17.87 Aligned_cols=16 Identities=38% Similarity=0.441 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHhhh
Q 036146 18 SGIMTSFLIHAALGLQ 33 (38)
Q Consensus 18 s~i~~lllvH~~lGLq 33 (38)
...+...+.|+..|+|
T Consensus 49 ~l~l~~~~~H~~~Gm~ 64 (100)
T cd03495 49 ILTLVSAFYHARLGMQ 64 (100)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3446677889999987
No 59
>MTH00016 CYTB cytochrome b; Validated
Probab=33.84 E-value=85 Score=21.93 Aligned_cols=27 Identities=26% Similarity=0.246 Sum_probs=23.1
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
--.|..|++=-|....++.+|..=|+=
T Consensus 78 w~iR~~H~~gas~~f~~~ylHi~R~~~ 104 (378)
T MTH00016 78 WLLRNLHANGASFFFICLYLHIGRGIY 104 (378)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 458999999999999999999887653
No 60
>cd03497 SQR_TypeB_1_TM Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis SQR reduces low potential quinones such as menaquinone. SQR is also called succinate dehydrogenase (Sdh) or Complex II and is part of the citric acid cycle and the aerobic respiratory chain. SQR is composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. Members of this subfamily are classified as Type B as they contain one transmembrane subunit and two heme groups. The heme and quinone binding sites reside on the transmembrane subunit. The transmembrane subunit of Bacillus subtilis SQR is also called Sdh cytochrome b558 subunit. The structural arrangement allows efficient electron transfer between the catalytic subunit, through iron-sulfur centers,
Probab=33.65 E-value=98 Score=19.55 Aligned_cols=25 Identities=24% Similarity=0.327 Sum_probs=21.4
Q ss_pred hHHHHHHHHHH-HHHHHHHHHHHhhh
Q 036146 9 LRNVHGILGSG-IMTSFLIHAALGLQ 33 (38)
Q Consensus 9 lR~~HayLGs~-i~~lllvH~~lGLq 33 (38)
+|.+|+.-|-. ...-+++|+..=+|
T Consensus 6 ~~~~~slTGl~pL~lFl~~Hl~gN~~ 31 (207)
T cd03497 6 IRRLHSLLGVVPIGLFLIEHLLTNSS 31 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 69999999999 88888999876555
No 61
>COG3115 ZipA Cell division protein [Cell division and chromosome partitioning]
Probab=31.37 E-value=62 Score=23.24 Aligned_cols=22 Identities=27% Similarity=0.427 Sum_probs=20.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q 036146 8 GLRNVHGILGSGIMTSFLIHAA 29 (38)
Q Consensus 8 ~lR~~HayLGs~i~~lllvH~~ 29 (38)
.+|.+=-++|.++++.+++|+.
T Consensus 3 dLr~ILIIvG~IAIiaLLvhGl 24 (324)
T COG3115 3 DLRLILIIVGAIAIIALLVHGL 24 (324)
T ss_pred chhhHHHHHHHHHHHHHHHhhh
Confidence 5889999999999999999984
No 62
>MTH00224 CYTB cytochrome b; Provisional
Probab=31.08 E-value=1e+02 Score=21.57 Aligned_cols=28 Identities=25% Similarity=0.214 Sum_probs=23.5
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
.-..|..|++=.|....++.+|..=|+=
T Consensus 77 Gw~iR~~H~~gas~~f~~~~lH~~R~~~ 104 (379)
T MTH00224 77 GWLLRSIHANGASMFFLFIYLHVGRGLY 104 (379)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3458999999999999999999876653
No 63
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=30.75 E-value=74 Score=15.50 Aligned_cols=23 Identities=22% Similarity=0.314 Sum_probs=18.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHh
Q 036146 9 LRNVHGILGSGIMTSFLIHAALG 31 (38)
Q Consensus 9 lR~~HayLGs~i~~lllvH~~lG 31 (38)
.|+==|.+|.++++++++=+++|
T Consensus 13 ~~nk~a~~gl~il~~~vl~ai~~ 35 (56)
T PF12911_consen 13 RRNKLAVIGLIILLILVLLAIFA 35 (56)
T ss_pred HhCchHHHHHHHHHHHHHHHHHH
Confidence 45555889999999888887776
No 64
>PF13997 YqjK: YqjK-like protein
Probab=30.53 E-value=54 Score=18.00 Aligned_cols=15 Identities=47% Similarity=0.775 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHH
Q 036146 12 VHGILGSGIMTSFLI 26 (38)
Q Consensus 12 ~HayLGs~i~~lllv 26 (38)
-|.++||+++++..+
T Consensus 38 ~~~~l~~g~~a~~~i 52 (73)
T PF13997_consen 38 RHPILGSGVLALYGI 52 (73)
T ss_pred HhHHHHHHHHHHHHH
Confidence 378899999887643
No 65
>KOG0367 consensus Protein geranylgeranyltransferase Type I, beta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=29.67 E-value=44 Score=24.21 Aligned_cols=16 Identities=19% Similarity=0.281 Sum_probs=13.5
Q ss_pred hHHHHHHHHHHHHHHH
Q 036146 9 LRNVHGILGSGIMTSF 24 (38)
Q Consensus 9 lR~~HayLGs~i~~ll 24 (38)
.-..|.|+|+.+++++
T Consensus 304 pD~~HsylG~~alal~ 319 (347)
T KOG0367|consen 304 PDLLHSYLGLAALALL 319 (347)
T ss_pred chHHHHHHHHHHHHHh
Confidence 4568999999999875
No 66
>PF13703 PepSY_TM_2: PepSY-associated TM helix
Probab=29.45 E-value=1e+02 Score=16.60 Aligned_cols=26 Identities=27% Similarity=0.393 Sum_probs=22.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhh
Q 036146 9 LRNVHGILGSGIMTSFLIHAALGLQL 34 (38)
Q Consensus 9 lR~~HayLGs~i~~lllvH~~lGLqL 34 (38)
.++.|..+|-.....+++=++.|.-.
T Consensus 60 ~~dlH~~~G~~~~~~ll~~a~TG~~~ 85 (88)
T PF13703_consen 60 WFDLHRVLGLWFLPFLLVIALTGLFF 85 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56799999999999999988888754
No 67
>PRK01741 cell division protein ZipA; Provisional
Probab=29.43 E-value=53 Score=23.38 Aligned_cols=20 Identities=20% Similarity=0.280 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 036146 11 NVHGILGSGIMTSFLIHAAL 30 (38)
Q Consensus 11 ~~HayLGs~i~~lllvH~~l 30 (38)
++=-+||..+++.+++|++-
T Consensus 5 ~iliILg~lal~~Lv~hgiW 24 (332)
T PRK01741 5 TILIILGILALVALVAHGIW 24 (332)
T ss_pred ehHHHHHHHHHHHHHHhhhh
Confidence 34458999999999999864
No 68
>MTH00145 CYTB cytochrome b; Provisional
Probab=29.18 E-value=1.1e+02 Score=21.41 Aligned_cols=27 Identities=26% Similarity=0.213 Sum_probs=22.5
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
...|..|++=-|...+++.+|..=|+=
T Consensus 78 w~iR~~H~~gas~~f~~~~lH~~r~~~ 104 (379)
T MTH00145 78 WLLRSLHANGASFFFICIYLHIGRGLY 104 (379)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 458999999888888899999876653
No 69
>PRK13553 fumarate reductase cytochrome b-556 subunit; Provisional
Probab=28.59 E-value=54 Score=22.41 Aligned_cols=16 Identities=31% Similarity=0.771 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHhhh
Q 036146 18 SGIMTSFLIHAALGLQ 33 (38)
Q Consensus 18 s~i~~lllvH~~lGLq 33 (38)
-.|.+++++|+++|+.
T Consensus 82 ~~I~l~~l~Ha~lalr 97 (258)
T PRK13553 82 AGVILIFVVHAFLAMR 97 (258)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 3688899999999974
No 70
>PLN02810 carbon-monoxide oxygenase
Probab=28.24 E-value=1.1e+02 Score=20.76 Aligned_cols=28 Identities=25% Similarity=0.222 Sum_probs=22.9
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
+....-.|.+.|..+..+-.+=+.+|+.
T Consensus 149 R~~~lP~Hv~~Gl~if~LAiata~lGi~ 176 (231)
T PLN02810 149 RSGSLPWHVLFGLFVYILAVGNAALGFL 176 (231)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345568999999999999999988874
No 71
>MTH00046 CYTB cytochrome b; Validated
Probab=27.83 E-value=1.1e+02 Score=21.43 Aligned_cols=26 Identities=19% Similarity=0.040 Sum_probs=22.6
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
--.|..|++=.|....++.+|..=|+
T Consensus 68 wliR~~H~~gAs~~f~~~ylHi~R~~ 93 (355)
T MTH00046 68 WCVRYWHIWGVNVLFILLFIHMGRAL 93 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45899999999999999999987665
No 72
>PLN02680 carbon-monoxide oxygenase
Probab=26.93 E-value=1.2e+02 Score=20.29 Aligned_cols=27 Identities=22% Similarity=0.196 Sum_probs=23.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
+.+...|.+.|-.+..+-++=+.+|+.
T Consensus 150 ~~~~p~H~~~G~~if~LaiaT~~lG~~ 176 (232)
T PLN02680 150 ASLLPWHVFFGIYIYALAVATATTGIL 176 (232)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445668999999999999999999874
No 73
>TIGR02205 septum_zipA cell division protein ZipA. This model represents the full length of bacterial cell division protein ZipA. The N-terminal hydrophobic stretch is an uncleaved signal-anchor sequence. This is followed by an unconserved, variable length, low complexity region, and then a conserved C-terminal region of about 140 amino acids (see pfam04354) that interacts with the tubulin-like cell division protein FtsZ.
Probab=26.64 E-value=35 Score=23.25 Aligned_cols=21 Identities=29% Similarity=0.390 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 036146 9 LRNVHGILGSGIMTSFLIHAA 29 (38)
Q Consensus 9 lR~~HayLGs~i~~lllvH~~ 29 (38)
||.+=-++|.++++.+++|++
T Consensus 2 Lr~iLIIvGaiaI~aLl~hGl 22 (284)
T TIGR02205 2 LRIILIIVGILAIAALLFHGL 22 (284)
T ss_pred ceehHHHHHHHHHHHHHHccc
Confidence 677778999999999999975
No 74
>cd03494 SQR_TypeC_SdhD Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the high potential quinine, ubiquinone. SQR is also called succinate dehydrogenase or Complex II, and is part of the citric acid cycle and the aerobic respiratory chain. SQR is composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. Members of this subfamily are classified as Type C SQRs because they contain two transmembrane subunits and one heme group. SdhD and SdhC are the two transmembrane proteins of bacterial SQRs. They contain heme and quinone binding sites. The two-electron oxidation of succinate in the flavoprotein active site is coupled to the two-electron reduction of quinone in the membrane anchor subunits via electron transport through FAD an
Probab=26.53 E-value=1.3e+02 Score=16.97 Aligned_cols=16 Identities=31% Similarity=0.409 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHhhh
Q 036146 18 SGIMTSFLIHAALGLQ 33 (38)
Q Consensus 18 s~i~~lllvH~~lGLq 33 (38)
.......+.|+..|+|
T Consensus 48 ~l~~~~~~~H~~~Glr 63 (99)
T cd03494 48 LLALLALLLHAWIGLW 63 (99)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3445567889999987
No 75
>PRK11878 psaM photosystem I reaction center subunit XII; Reviewed
Probab=25.83 E-value=59 Score=16.32 Aligned_cols=19 Identities=32% Similarity=0.326 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHhhhhccc
Q 036146 19 GIMTSFLIHAALGLQLGLS 37 (38)
Q Consensus 19 ~i~~lllvH~~lGLqLGLS 37 (38)
.++.+-++=+++.++||-+
T Consensus 12 iaL~~Al~~giLA~RLG~~ 30 (34)
T PRK11878 12 VALVVALHAGVLALRLGTS 30 (34)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3455667778899999865
No 76
>PF15562 Imm10: Immunity protein 10
Probab=25.55 E-value=66 Score=17.03 Aligned_cols=20 Identities=40% Similarity=0.494 Sum_probs=15.5
Q ss_pred CCchhHHHHHHHHHHHHHHH
Q 036146 5 GNPGLRNVHGILGSGIMTSF 24 (38)
Q Consensus 5 g~~~lR~~HayLGs~i~~ll 24 (38)
|.++.|-..+.+|..+++.-
T Consensus 38 Gr~~~Ri~~~ilg~i~I~~~ 57 (61)
T PF15562_consen 38 GRKGARIFYGILGIIIIICS 57 (61)
T ss_pred CCcceeehHHHHHHHHHHHH
Confidence 46788999999888776654
No 77
>MTH00191 CYTB cytochrome b; Provisional
Probab=25.51 E-value=1.4e+02 Score=20.53 Aligned_cols=28 Identities=29% Similarity=0.260 Sum_probs=23.0
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
..-.|..|.+=-|....++.+|..=|+-
T Consensus 73 G~~~R~~H~~gas~~~~~~~~H~~r~~~ 100 (365)
T MTH00191 73 GWLLRNIHANGASFFFICIYLHIGRGLY 100 (365)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4468999999888888899999876653
No 78
>PRK09488 sdhD succinate dehydrogenase cytochrome b556 small membrane subunit; Provisional
Probab=25.48 E-value=1.2e+02 Score=17.95 Aligned_cols=15 Identities=40% Similarity=0.465 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHhhh
Q 036146 19 GIMTSFLIHAALGLQ 33 (38)
Q Consensus 19 ~i~~lllvH~~lGLq 33 (38)
..+...+.|+..|+|
T Consensus 63 l~l~~~~~H~~iGmq 77 (115)
T PRK09488 63 LALFSILIHAWIGMW 77 (115)
T ss_pred HHHHHHHHHHHHcch
Confidence 344556789999987
No 79
>CHL00190 psaM photosystem I subunit XII; Provisional
Probab=24.96 E-value=72 Score=15.64 Aligned_cols=19 Identities=21% Similarity=0.228 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHhhhhccc
Q 036146 19 GIMTSFLIHAALGLQLGLS 37 (38)
Q Consensus 19 ~i~~lllvH~~lGLqLGLS 37 (38)
+++.+-++=+++.++||-+
T Consensus 9 iAL~~Al~~~iLA~rLg~~ 27 (30)
T CHL00190 9 IALFLALTTGILAIRLGTA 27 (30)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3556667788899999864
No 80
>cd03500 SQR_TypeA_SdhD_like Succinate:quinone oxidoreductase (SQR) Type A subfamily, Succinate dehydrogenase D (SdhD)-like subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Members of this subfamily reduce low potential quinones such as menaquinone and thermoplasmaquinone. SQR is also called succinate dehydrogenase or Complex II, and is part of the citric acid cycle and the aerobic respiratory chain. SQR is composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. Members of this subfamily are similar to the Thermoplasma acidophilum SQR and are classified as Type A because they contain two transmembrane subunits as well as two heme groups. Although there are no structures available for this subfamily, the presence of two hemes has been proven spectroscopically for T. acidophilum. The two membrane anchor subunits are similar to the SdhD and SdhC subunits of bacterial
Probab=24.48 E-value=1.3e+02 Score=16.41 Aligned_cols=16 Identities=25% Similarity=0.349 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHhhhh
Q 036146 19 GIMTSFLIHAALGLQL 34 (38)
Q Consensus 19 ~i~~lllvH~~lGLqL 34 (38)
..+...+.|+..|+|-
T Consensus 55 lll~~~~~H~~~Glr~ 70 (106)
T cd03500 55 LLLVLALLHGGNGLRN 70 (106)
T ss_pred HHHHHHHHHHHHhHHH
Confidence 4566678899999873
No 81
>PRK10179 formate dehydrogenase-N subunit gamma; Provisional
Probab=24.47 E-value=1.6e+02 Score=18.49 Aligned_cols=26 Identities=23% Similarity=0.404 Sum_probs=22.2
Q ss_pred chhH---HHHHHHHHHHHHHHHHHHHHhh
Q 036146 7 PGLR---NVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 7 ~~lR---~~HayLGs~i~~lllvH~~lGL 32 (38)
+..| .+|.+..-.+.+.+++|.-++.
T Consensus 146 ~~~r~a~~iH~~~a~l~~~fiivHiY~a~ 174 (217)
T PRK10179 146 QVVRYSLLIHAAAGIILIHAILIHMYMAF 174 (217)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3567 8999999999999999997764
No 82
>cd03498 SQR_TypeB_2_TM Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. C. glutamicum SQR reduces low potential quinones such as menaquinone. SQR is also called succinate dehydrogenase (Sdh) or Complex II and is part of the citric acid cycle and the aerobic respiratory chain. SQR is composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. Members of this subfamily are classified as Type B as they contain one transmembrane subunit and two heme groups. The heme and quinone binding sites reside in the transmembrane subunit. The transmembrane subunit of members of this subfamily is also called Sdh cytochrome b558 subunit based on the Bacillus subtilis protein. The structural arrangem
Probab=24.04 E-value=85 Score=19.65 Aligned_cols=16 Identities=31% Similarity=0.632 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHhhhh
Q 036146 19 GIMTSFLIHAALGLQL 34 (38)
Q Consensus 19 ~i~~lllvH~~lGLqL 34 (38)
+.++.+++|++.|+++
T Consensus 53 ~ll~~~l~Hv~~a~~l 68 (209)
T cd03498 53 VLLVAAVLHIVFGLQL 68 (209)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4567889999999875
No 83
>PF01627 Hpt: Hpt domain; InterPro: IPR008207 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents a domain present at the N terminus in proteins which undergo autophosphorylation. The group includes, the gliding motility regulatory protein from Myxococcus xanthus and a number of bacterial chemotaxis proteins.; GO: 0004871 signal transducer activity, 0000160 two-component signal transduction system (phosphorelay); PDB: 3KYJ_A 3KYI_A 3IQT_A 1Y6D_A 2LD6_A 1TQG_A 2R25_A 1OXB_A 1QSP_B 1C03_B ....
Probab=23.65 E-value=90 Score=15.30 Aligned_cols=16 Identities=25% Similarity=0.038 Sum_probs=12.6
Q ss_pred chhHHHHHHHHHHHHH
Q 036146 7 PGLRNVHGILGSGIMT 22 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~ 22 (38)
...|.+|.+=||+.+.
T Consensus 31 ~l~~~~H~lkG~a~~~ 46 (90)
T PF01627_consen 31 ELRRLAHRLKGSAGNL 46 (90)
T ss_dssp HHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHhhhHHhc
Confidence 4578999999998653
No 84
>TIGR03053 PS_I_psaM photosystem I reaction center subunit XII. Members of this protein family are PsaM, which is subunit XII of the photosystem I reaction center. This protein is found in both the Cyanobacteria and the chloroplasts of plants, but is absent from non-oxygenic photosynthetic bacteria such as Rhodobacter sphaeroides. Species that contain photosystem I also contain photosystem II, which splits water and releases molecular oxygen. The seed alignment for this model includes sequences from Pfam model pfam07465 and additional sequences, as from Prochlorococcus.
Probab=23.53 E-value=81 Score=15.23 Aligned_cols=18 Identities=33% Similarity=0.436 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHhhhhccc
Q 036146 20 IMTSFLIHAALGLQLGLS 37 (38)
Q Consensus 20 i~~lllvH~~lGLqLGLS 37 (38)
++.+-++=+++.++||-+
T Consensus 9 aL~~Al~~~iLA~rLg~~ 26 (29)
T TIGR03053 9 ALVIALIAGILALRLGKE 26 (29)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455566778888898865
No 85
>MTH00022 CYTB cytochrome b; Validated
Probab=23.26 E-value=1.6e+02 Score=20.56 Aligned_cols=26 Identities=31% Similarity=0.258 Sum_probs=20.6
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
--.|..|++=-|....++.+|..=|+
T Consensus 76 w~iR~~H~~gas~~f~~~~lHi~r~~ 101 (379)
T MTH00022 76 FLLRYLHANGASLFFLCLYIHIGRGL 101 (379)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45899999977777777888987665
No 86
>MTH00033 CYTB cytochrome b; Provisional
Probab=22.89 E-value=1.6e+02 Score=20.72 Aligned_cols=28 Identities=29% Similarity=0.148 Sum_probs=23.6
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGLQL 34 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGLqL 34 (38)
.-.|..|++=-|....++.+|..=|+--
T Consensus 74 w~iR~~H~~gAs~~f~~~ylHi~R~~~~ 101 (383)
T MTH00033 74 WILRYVHANGASLFFICVYCHIGRGLYY 101 (383)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4589999999999999999999876643
No 87
>MTH00034 CYTB cytochrome b; Validated
Probab=22.76 E-value=1.8e+02 Score=20.30 Aligned_cols=27 Identities=30% Similarity=0.264 Sum_probs=22.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhh
Q 036146 7 PGLRNVHGILGSGIMTSFLIHAALGLQ 33 (38)
Q Consensus 7 ~~lR~~HayLGs~i~~lllvH~~lGLq 33 (38)
.-.|..|.+=-|....++.+|..=|+=
T Consensus 77 w~iR~~H~~gas~~f~~~~lH~~r~~~ 103 (379)
T MTH00034 77 WLLRNIHANGASLFFICLYFHIGRGLY 103 (379)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457999999889899999999876643
No 88
>MTH00119 CYTB cytochrome b; Provisional
Probab=21.39 E-value=1.9e+02 Score=20.01 Aligned_cols=27 Identities=26% Similarity=0.281 Sum_probs=22.5
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
...+|..|.+=-|....++.+|..=++
T Consensus 77 G~~iR~~H~~ga~~~~~~~~lH~~r~~ 103 (380)
T MTH00119 77 GWLIRNLHANGASMFFICIYLHIGRGL 103 (380)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345899999988999999999987654
No 89
>PF01127 Sdh_cyt: Succinate dehydrogenase/Fumarate reductase transmembrane subunit; InterPro: IPR000701 This entry includes the transmembrane subunit from both succinate dehydrogenase and fumarate reductase complexes. Fumarate reductase couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, in a reaction opposite to that catalysed by the related complex II of the respiratory chain (succinate dehydrogenase) []. Three protein subunits contain the fumarate reductase complex. Subunit A contains the site of fumarate reduction and a covalently bound flavin adenine dinucleotide prosthetic group. Subunit B contains three iron-sulphur centres. The menaquinol-oxidizing subunit C consists of five membrane-spanning, primarily helical segments and binds two haem b molecules []. Succinate dehydrogenase (SDH) is a membrane-bound complex of two main components: a membrane-extrinsic component composed of an FAD-binding flavoprotein and an iron-sulphur protein, and a hydrophobic component composed of a cytochrome b and a membrane anchor protein. The cytochrome b component is a mono-haem transmembrane protein [, , ] belonging to a family that includes: Cytochrome b-556 from bacterial SDH (gene sdhC). Cytochrome b560 from the mammalian mitochondrial SDH complex, which is encoded in the mitochondrial genome of some algae and in the plant Marchantia polymorpha. Cytochrome b from yeast mitochondrial SDH complex (gene SDH3 or CYB3). Protein cyt-1 from Caenorhabditis elegans. These cytochromes are proteins of about 130 residues that comprise three transmembrane regions. There are two conserved histidines which may be involved in binding the haem group.; GO: 0016627 oxidoreductase activity, acting on the CH-CH group of donors; PDB: 2WDQ_H 1NEN_D 2WP9_L 2WDV_H 2ACZ_D 2WS3_L 2WU2_H 2WDR_D 2WU5_H 1NEK_D ....
Probab=21.08 E-value=1.2e+02 Score=16.28 Aligned_cols=13 Identities=31% Similarity=0.743 Sum_probs=9.1
Q ss_pred HHHHHHHHHHhhh
Q 036146 21 MTSFLIHAALGLQ 33 (38)
Q Consensus 21 ~~lllvH~~lGLq 33 (38)
+..++.|+.-|++
T Consensus 76 ~~~~~~H~~~Gir 88 (121)
T PF01127_consen 76 LVAFFFHALNGIR 88 (121)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhHH
Confidence 3444569999986
No 90
>PRK04335 cell division protein ZipA; Provisional
Probab=21.08 E-value=65 Score=22.55 Aligned_cols=22 Identities=27% Similarity=0.391 Sum_probs=19.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q 036146 8 GLRNVHGILGSGIMTSFLIHAA 29 (38)
Q Consensus 8 ~lR~~HayLGs~i~~lllvH~~ 29 (38)
.||-+=-++|..+++.+|+|++
T Consensus 3 eLRlvLiivGAlAI~ALL~HGl 24 (313)
T PRK04335 3 ELRFVLIVVGALAIAALLFHGL 24 (313)
T ss_pred ceeehHHHHHHHHHHHHHHhcc
Confidence 5777888999999999999985
No 91
>PF10215 Ost4: Oligosaccaryltransferase ; InterPro: IPR018943 Ost4 is a very short, approximately 30 residues, enzyme found from fungi to vertebrates. It is a member of the ER oligosaccaryltansferase complex, 2.4.1.119 from EC, that catalyses the asparagine-linked glycosylation of proteins. It appears to be an integral membrane protein that mediates the en bloc transfer of a pre-assembled high-mannose oligosaccharide onto asparagine residues of nascent polypeptides as they enter the lumen of the rough endoplasmic reticulum. ; PDB: 1RKL_A 2LAT_A.
Probab=20.52 E-value=1.3e+02 Score=14.94 Aligned_cols=19 Identities=21% Similarity=0.352 Sum_probs=13.2
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 036146 9 LRNVHGILGSGIMTSFLIH 27 (38)
Q Consensus 9 lR~~HayLGs~i~~lllvH 27 (38)
+-..=-.+|+.+|++.++.
T Consensus 7 L~~lan~lG~~~~~LIVlY 25 (35)
T PF10215_consen 7 LYTLANFLGVAAMVLIVLY 25 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444457999999887654
No 92
>MTH00131 CYTB cytochrome b; Provisional
Probab=20.41 E-value=2e+02 Score=20.04 Aligned_cols=27 Identities=26% Similarity=0.260 Sum_probs=22.5
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHhh
Q 036146 6 NPGLRNVHGILGSGIMTSFLIHAALGL 32 (38)
Q Consensus 6 ~~~lR~~HayLGs~i~~lllvH~~lGL 32 (38)
..-.|..|.+=-|....++.+|..=|+
T Consensus 76 G~~iR~~H~~gas~~~~~~~lH~~r~~ 102 (380)
T MTH00131 76 GWLIRNLHANGASFFFICIYLHIGRGL 102 (380)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345899999988999999999987664
Done!