Query 042592
Match_columns 310
No_of_seqs 217 out of 718
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 07:40:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042592.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042592hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3052 Cytochrome c1 [Energy 100.0 1E-109 3E-114 766.8 22.8 310 1-310 1-310 (311)
2 PF02167 Cytochrom_C1: Cytochr 100.0 2.6E-92 5.6E-97 644.8 14.5 218 81-299 1-219 (219)
3 COG2857 CYT1 Cytochrome c1 [En 100.0 3.6E-55 7.7E-60 406.7 8.2 220 80-300 28-250 (250)
4 CHL00133 psbV photosystem II c 98.0 1.7E-05 3.7E-10 70.7 7.4 49 64-112 21-69 (163)
5 TIGR03045 PS_II_C550 cytochrom 98.0 2.8E-05 6.1E-10 69.0 8.1 48 65-112 21-68 (159)
6 PTZ00405 cytochrome c; Provisi 97.9 8.8E-06 1.9E-10 68.1 4.2 22 92-113 11-32 (114)
7 PTZ00048 cytochrome c; Provisi 97.9 1.7E-05 3.7E-10 66.3 4.7 22 93-114 13-34 (115)
8 PRK13617 psbV cytochrome c-550 97.7 5.3E-05 1.1E-09 68.0 5.6 49 64-112 28-76 (170)
9 PRK13622 psbV cytochrome c-550 97.7 0.00032 6.9E-09 63.5 10.2 26 87-112 54-79 (180)
10 PRK13618 psbV cytochrome c-550 97.7 0.00026 5.7E-09 63.1 9.5 43 69-111 26-68 (163)
11 PRK13619 psbV cytochrome c-550 97.7 0.0002 4.3E-09 63.7 8.2 48 65-112 21-68 (160)
12 TIGR03874 4cys_cytochr c-type 97.4 0.00028 6E-09 61.8 5.7 26 88-114 27-52 (143)
13 PRK13620 psbV cytochrome c-550 97.4 0.00034 7.3E-09 64.6 6.1 47 65-111 74-120 (215)
14 CHL00183 petJ cytochrome c553; 97.3 0.00059 1.3E-08 55.4 6.1 20 93-112 24-43 (108)
15 PRK14486 putative bifunctional 97.1 0.0053 1.2E-07 59.2 11.5 70 176-264 101-188 (294)
16 TIGR02603 CxxCH_TIGR02603 puta 97.1 0.00067 1.4E-08 57.6 4.6 21 94-114 2-22 (133)
17 PF00034 Cytochrom_C: Cytochro 97.0 0.00033 7.2E-09 52.0 2.0 20 95-114 1-20 (91)
18 PRK14486 putative bifunctional 97.0 0.0013 2.9E-08 63.3 6.0 24 91-114 211-234 (294)
19 PF13442 Cytochrome_CBB3: Cyto 96.9 0.00036 7.8E-09 51.6 1.2 19 93-111 1-19 (67)
20 PRK13621 psbV cytochrome c-550 96.9 0.0013 2.9E-08 59.1 4.7 39 74-112 45-83 (170)
21 TIGR03872 cytochrome_MoxG cyto 96.8 0.00063 1.4E-08 58.5 2.2 24 91-114 40-63 (133)
22 COG3474 Cytochrome c2 [Energy 96.7 0.0024 5.1E-08 55.5 4.9 21 93-114 29-49 (135)
23 TIGR03046 PS_II_psbV2 photosys 96.7 0.00089 1.9E-08 59.4 1.8 38 75-112 35-72 (155)
24 TIGR00782 ccoP cytochrome c ox 96.6 0.011 2.4E-07 56.1 9.0 23 92-114 104-126 (285)
25 TIGR00781 ccoO cytochrome c ox 96.3 0.029 6.4E-07 52.7 9.5 45 176-239 100-146 (232)
26 PRK14487 cbb3-type cytochrome 96.3 0.061 1.3E-06 50.2 11.5 45 176-239 101-147 (217)
27 PRK13697 cytochrome c6; Provis 96.1 0.005 1.1E-07 49.8 3.1 18 95-112 28-45 (111)
28 TIGR00782 ccoP cytochrome c ox 95.7 0.033 7.1E-07 52.9 7.1 24 91-114 199-222 (285)
29 PF14495 Cytochrom_C550: Cytoc 95.3 0.0059 1.3E-07 53.0 0.5 38 75-112 5-42 (135)
30 COG2010 CccA Cytochrome c, mon 95.2 0.0094 2E-07 49.8 1.5 24 90-113 46-69 (150)
31 COG2863 Cytochrome c553 [Energ 95.1 0.012 2.6E-07 50.3 2.1 23 92-114 21-43 (121)
32 COG2857 CYT1 Cytochrome c1 [En 95.0 0.024 5.2E-07 53.5 3.9 88 136-236 70-162 (250)
33 PF09098 Dehyd-heme_bind: Quin 94.8 0.0095 2.1E-07 53.4 0.4 25 96-120 1-26 (167)
34 PF02433 FixO: Cytochrome C ox 92.4 0.63 1.4E-05 43.8 8.0 22 93-114 48-70 (226)
35 COG4654 Cytochrome c551/c552 [ 92.1 0.43 9.4E-06 40.1 5.9 60 179-259 47-106 (110)
36 COG3258 Cytochrome c [Energy p 92.0 0.26 5.6E-06 47.6 5.0 27 93-119 160-186 (293)
37 PRK14485 putative bifunctional 91.1 0.88 1.9E-05 49.1 8.5 20 95-114 537-557 (712)
38 PF06537 DUF1111: Protein of u 82.3 0.88 1.9E-05 47.3 2.4 27 90-116 358-385 (499)
39 TIGR03791 TTQ_mauG tryptophan 80.0 1 2.2E-05 43.5 1.8 23 92-114 156-180 (291)
40 PF01322 Cytochrom_C_2: Cytoch 73.1 1.8 3.9E-05 35.8 1.2 21 91-111 99-119 (122)
41 PF09086 DUF1924: Domain of un 66.1 2.6 5.7E-05 35.0 0.8 23 92-114 8-39 (98)
42 PF03492 Methyltransf_7: SAM d 64.8 8 0.00017 37.9 4.0 48 214-261 95-168 (334)
43 COG3488 Predicted thiol oxidor 63.8 3.8 8.2E-05 41.2 1.5 29 92-120 348-377 (481)
44 COG3245 CycB Cytochrome c5 [En 60.9 3 6.5E-05 36.0 0.2 19 96-114 48-66 (126)
45 TIGR02162 torC trimethylamine- 60.7 4.8 0.0001 40.7 1.6 22 93-114 319-340 (386)
46 PF10577 UPF0560: Uncharacteri 59.3 17 0.00037 40.1 5.5 67 224-306 246-313 (807)
47 PRK15032 trimethylamine N-oxid 58.7 4.7 0.0001 40.8 1.2 21 94-114 317-337 (390)
48 PRK13454 F0F1 ATP synthase sub 58.2 8.1 0.00018 34.6 2.5 23 277-299 34-56 (181)
49 PRK10617 cytochrome c-type pro 55.1 16 0.00034 33.9 3.9 26 183-210 99-124 (200)
50 TIGR02161 napC_nirT periplasmi 54.3 18 0.00039 32.9 4.1 23 184-208 91-113 (185)
51 PF03264 Cytochrom_NNT: NapC/N 53.6 6.3 0.00014 34.7 1.0 29 178-208 72-102 (173)
52 COG1858 MauG Cytochrome c pero 53.1 7.1 0.00015 39.3 1.4 26 93-118 218-245 (364)
53 PF03150 CCP_MauG: Di-haem cyt 52.8 7.4 0.00016 34.3 1.3 23 92-114 2-33 (159)
54 PRK06231 F0F1 ATP synthase sub 51.0 20 0.00044 32.8 3.9 46 255-300 21-74 (205)
55 PRK09400 secE preprotein trans 49.7 1E+02 0.0022 23.4 6.9 46 247-292 9-54 (61)
56 TIGR02162 torC trimethylamine- 49.3 24 0.00053 35.7 4.5 9 105-113 75-83 (386)
57 PRK12750 cpxP periplasmic repr 49.2 35 0.00077 30.6 5.1 12 121-132 49-60 (170)
58 PF09626 DHC: Dihaem cytochrom 49.1 7.5 0.00016 33.2 0.8 25 102-134 1-26 (120)
59 PF12669 P12: Virus attachment 47.4 12 0.00027 27.9 1.6 24 278-301 3-26 (58)
60 PHA02650 hypothetical protein; 46.6 41 0.00088 27.2 4.5 35 269-303 43-81 (81)
61 PRK13453 F0F1 ATP synthase sub 45.0 16 0.00034 32.3 2.2 30 273-302 21-50 (173)
62 TIGR03597 GTPase_YqeH ribosome 44.9 13 0.00029 36.5 1.8 33 103-137 28-60 (360)
63 PF00672 HAMP: HAMP domain; I 44.6 21 0.00045 25.7 2.4 28 273-300 1-28 (70)
64 PF10643 Cytochrome-c551: Phot 43.4 10 0.00022 35.8 0.8 16 100-115 174-189 (233)
65 PRK13796 GTPase YqeH; Provisio 43.1 15 0.00032 36.3 1.9 32 104-137 35-66 (365)
66 PRK15032 trimethylamine N-oxid 42.9 35 0.00077 34.6 4.5 9 105-113 76-84 (390)
67 CHL00118 atpG ATP synthase CF0 42.7 20 0.00044 31.1 2.5 23 277-299 25-47 (156)
68 TIGR00327 secE_euk_arch protei 42.6 1.4E+02 0.0031 22.7 6.7 46 247-292 5-50 (61)
69 PF10661 EssA: WXG100 protein 42.1 37 0.0008 29.8 4.0 26 272-297 120-145 (145)
70 KOG3453 Cytochrome c [Energy p 41.8 6.3 0.00014 33.5 -0.8 27 94-120 8-34 (110)
71 PF09098 Dehyd-heme_bind: Quin 39.5 15 0.00033 33.2 1.2 32 97-133 91-122 (167)
72 PF07635 PSCyt1: Planctomycete 37.7 13 0.00027 27.5 0.3 9 106-114 1-9 (59)
73 PRK09174 F0F1 ATP synthase sub 37.6 26 0.00055 32.3 2.4 22 278-299 57-78 (204)
74 PF12271 Chs3p: Chitin synthas 37.0 37 0.0008 33.4 3.5 43 240-284 143-197 (293)
75 cd08864 SRPBCC_DUF3074 DUF3074 36.6 22 0.00047 32.7 1.8 18 246-263 190-207 (208)
76 KOG3498 Preprotein translocase 36.0 1.9E+02 0.004 22.7 6.5 46 247-292 10-55 (67)
77 TIGR02611 conserved hypothetic 35.2 1.2E+02 0.0027 26.2 6.0 44 249-292 72-115 (121)
78 COG0690 SecE Preprotein transl 35.1 75 0.0016 24.7 4.3 42 251-292 23-64 (73)
79 PF07208 DUF1414: Protein of u 34.7 10 0.00022 27.4 -0.5 19 178-201 3-21 (44)
80 PF00558 Vpu: Vpu protein; In 34.5 46 0.001 26.9 3.1 36 270-305 4-40 (81)
81 PLN02595 cytochrome c oxidase 33.2 2.2E+02 0.0048 24.0 7.0 14 77-90 84-97 (102)
82 PF03908 Sec20: Sec20; InterP 32.9 66 0.0014 25.5 3.8 18 278-295 75-92 (92)
83 COG3748 Predicted membrane pro 32.2 48 0.001 33.4 3.5 42 100-142 329-375 (407)
84 PF00584 SecE: SecE/Sec61-gamm 32.0 1.4E+02 0.003 21.5 5.1 42 251-292 5-46 (57)
85 PRK09174 F0F1 ATP synthase sub 32.0 35 0.00076 31.4 2.3 32 272-303 55-86 (204)
86 PRK13689 hypothetical protein; 30.0 25 0.00054 28.0 0.9 21 177-202 27-47 (75)
87 COG3183 Predicted restriction 30.0 21 0.00046 34.6 0.6 30 100-133 238-267 (272)
88 PF11274 DUF3074: Protein of u 29.5 31 0.00068 31.2 1.6 17 246-262 168-184 (184)
89 KOG1094 Discoidin domain recep 29.4 42 0.0009 36.6 2.6 30 270-301 391-420 (807)
90 PF03967 PRCH: Photosynthetic 29.3 65 0.0014 28.4 3.4 21 277-297 17-37 (136)
91 PF11845 DUF3365: Protein of u 28.7 19 0.00042 31.3 0.1 9 103-111 146-154 (188)
92 PLN02668 indole-3-acetate carb 26.8 87 0.0019 31.8 4.3 49 213-261 149-222 (386)
93 TIGR00964 secE_bact preprotein 26.7 2.5E+02 0.0054 20.3 5.7 41 252-292 5-45 (55)
94 COG1858 MauG Cytochrome c pero 26.2 33 0.00073 34.6 1.2 25 90-114 57-90 (364)
95 PRK11586 napB nitrate reductas 25.9 1.1E+02 0.0024 27.4 4.3 18 97-114 72-91 (149)
96 COG3082 Uncharacterized protei 24.7 38 0.00081 26.8 1.0 21 176-201 26-46 (74)
97 PF12459 DUF3687: D-Ala-teicho 24.6 91 0.002 22.3 2.9 17 276-292 13-29 (42)
98 PF10669 Phage_Gp23: Protein g 24.4 63 0.0014 27.3 2.3 19 279-298 22-40 (121)
99 PRK07597 secE preprotein trans 24.3 3E+02 0.0065 20.4 6.0 44 249-292 11-54 (64)
100 CHL00019 atpF ATP synthase CF0 24.0 54 0.0012 29.1 2.1 26 277-302 31-56 (184)
101 PF11688 DUF3285: Protein of u 23.6 94 0.002 22.5 2.8 21 271-291 24-44 (45)
102 PF14376 Haem_bd: Haem-binding 23.1 36 0.00078 29.3 0.7 27 96-122 34-62 (137)
103 PTZ00478 Sec superfamily; Prov 23.1 4E+02 0.0086 21.6 6.6 46 247-292 22-67 (81)
104 PF14316 DUF4381: Domain of un 23.1 74 0.0016 27.3 2.6 26 273-298 21-48 (146)
105 PF06716 DUF1201: Protein of u 23.0 1.4E+02 0.0031 22.0 3.6 24 273-296 13-36 (54)
106 TIGR03791 TTQ_mauG tryptophan 22.9 46 0.001 32.2 1.5 18 248-265 264-281 (291)
107 PF08361 TetR_C_2: MAATS-type 22.8 89 0.0019 25.7 3.0 27 172-203 65-91 (121)
108 COG3005 TorC Nitrate/TMAO redu 22.8 26 0.00055 32.5 -0.3 16 104-120 46-61 (190)
109 cd03033 ArsC_15kD Arsenate Red 22.0 30 0.00065 28.8 0.0 37 110-147 23-59 (113)
110 PF08456 Vmethyltransf_C: Vira 21.4 55 0.0012 30.8 1.6 26 95-120 34-59 (212)
111 cd03035 ArsC_Yffb Arsenate Red 21.3 41 0.00089 27.4 0.7 42 105-147 8-58 (105)
112 PF13447 Multi-haem_cyto: Seve 21.3 29 0.00062 33.4 -0.3 17 100-116 210-226 (267)
113 TIGR00014 arsC arsenate reduct 21.0 72 0.0016 26.2 2.1 29 110-139 22-50 (114)
114 PRK09546 zntB zinc transporter 20.6 78 0.0017 30.4 2.5 31 264-296 291-323 (324)
115 PF09331 DUF1985: Domain of un 20.6 1.5E+02 0.0032 25.5 4.0 26 251-276 70-95 (142)
116 TIGR03806 chp_HNE_0200 conserv 20.5 55 0.0012 32.3 1.5 18 96-113 214-231 (317)
117 PRK07352 F0F1 ATP synthase sub 20.2 75 0.0016 27.9 2.1 27 276-302 25-51 (174)
118 PRK10853 putative reductase; P 20.1 50 0.0011 27.6 1.0 37 110-147 23-59 (118)
No 1
>KOG3052 consensus Cytochrome c1 [Energy production and conversion]
Probab=100.00 E-value=1.3e-109 Score=766.79 Aligned_cols=310 Identities=65% Similarity=1.043 Sum_probs=277.9
Q ss_pred CCchhhhHHHHHhhhhcCCCCCCccchhhcccccccCCchhhHHHHHHHHHHHHHHHHHHhhhhhhhhhhccCCCCCCCC
Q 042592 1 MVGGGVIHQLLRKRLQSQSTGLPVLSFFTSKKIHEDAGSVGMKSLRAFALLGAGVSGFLSFATIASADEAEHGLACPSYP 80 (310)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~a~~~~~~~~~~~ 80 (310)
|.++....+.+++++....++..+....+...+.....+++++.+.++++++++.++++..+...++.|+++++|+|.+|
T Consensus 1 m~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~a~~~a~~~g~~~~L~al~~~~ag~~~ll~yal~~svsAs~~~lh~~~~~ 80 (311)
T KOG3052|consen 1 MAGGGRMFQGLRKRLLLLHAQRLSLPVRTSFASKGASKSGNKKGLVALGLLTAGIGGLLVYALETSVSASEHGLHPPAYP 80 (311)
T ss_pred CCcccchhhhHHHHhhhhccccccccccccccccccccccchhHHHHHHHhhhhhhHHHHHHhhcccccccCCcCCccCC
Confidence 44544455556555333322223333333333322355566888888888877766656655567778899999999999
Q ss_pred CCCCCCCCCcchHHHHhHHHHHHHhhcccccccccchhhcccCCCCHHHHHHHHHhhcccCCCCCCCCCcCCCCCCCCCC
Q 042592 81 WPHKGILSSYDHASIRRGHQVYQQVCASCHSMSLISYRDLVGVAYTEDETKAMAAEIEVVDGPNDEGEMFTRPGKLSDRF 160 (310)
Q Consensus 81 w~~~g~~~~~D~aslqRG~qvy~~vCaaCHSlk~v~yr~L~~~g~te~evka~Aae~~v~d~p~~~g~~f~rp~~~~D~~ 160 (310)
|+|.|+|++||++|+|||+|||+|||++||||++++||+|+++.+||||+|++|+|++|.|||||+|+||+||||++|+|
T Consensus 81 W~h~g~lss~DhaSiRRGyqVYkqVCaaCHSm~~iayR~lVgv~~Te~EaKa~A~eiev~Dgpdd~G~~~~RPGkLsD~~ 160 (311)
T KOG3052|consen 81 WPHSGLLSSFDHASIRRGYQVYKQVCAACHSMDLIAYRHLVGVCYTEEEAKAMAAEIEVVDGPDDEGEMFTRPGKLSDYF 160 (311)
T ss_pred CCCCCccccccHHHHhhhHHHHHHHHHHhhhhHHHHHHhhhhhhccHHHHHHhhhheeeccCCCCCCCcccCCccccccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCChHHHHHHHcCCCCCCCchhHHhhhcCChHHHHHHHhcCCCCCCCcccCCCCcCCCCCCCCcccCccccccCcccc
Q 042592 161 PQPYSNEQAARFANGGAYPPDLSLITKARHDGQNYVFALLTGYRDPPAGVSIREGLHYNPYFPGGAIAMPKMLIDGALEY 240 (310)
Q Consensus 161 ~sp~~n~~Aa~~An~Ga~PPDLSliakaR~~G~dYIyslL~gy~dpP~g~~~~~g~~yN~~fpg~~iaMP~~L~d~~v~y 240 (310)
|+||||++|||+||||++|||||+|++|||||+||||||||||+|||+||.+++|+|||||||||+|+||++|.|+.|||
T Consensus 161 P~PYpNeeAAraANnGA~PPDLS~iv~aRhgG~DYvfSLLTGY~epPAGv~l~~G~~fNPyFpGgaIaMa~~l~de~vEy 240 (311)
T KOG3052|consen 161 PSPYPNEEAARAANNGAYPPDLSLIVKARHGGEDYVFSLLTGYCEPPAGVSLREGLYFNPYFPGGAIAMAKVLFDEVVEY 240 (311)
T ss_pred CCCCCCHHHHHHhcCCCCCCCchhhhhhhcCCcceeeehhhCCCCCCCCcccCCCcccCCCCCCcccccchhhcccceee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCChhhHhhhHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccceeeeccCC
Q 042592 241 EDGTPATEAQMGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYRRLRWSVLKSRKLVLDVVN 310 (310)
Q Consensus 241 ~DGtpat~~Q~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~Kr~~W~~vk~rk~~~~~~~ 310 (310)
|||||+|.+||||||++||.|++||++|+||+||+||++.|.++++++|+.||.+|+.+|+|||+|+|++
T Consensus 241 eDgtPAT~sQ~aKDV~~FL~WasEPehD~RK~~g~K~i~il~~l~~~s~y~KR~kWs~lKsrK~~f~~~~ 310 (311)
T KOG3052|consen 241 EDGTPATMSQMAKDVVTFLHWASEPEHDERKLMGLKVIFILSFLTLLSYYIKRHKWSVLKSRKLVFDPPK 310 (311)
T ss_pred cCCCchhHHHHHHHHHHHHHhccCcchhHHHHhhhHHHHHHHHHHHHHHHHHHhhccccccceEEecCCC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999875
No 2
>PF02167 Cytochrom_C1: Cytochrome C1 family; InterPro: IPR002326 Cytochrome bc1 complex (ubiquinol:ferricytochrome c oxidoreductase) is found in mitochondria, photosynthetic bacteria and other prokaryotes. It is minimally composed of three subunits: cytochrome b, carrying a low- and a high-potential haem group; cytochrome c1 (cyt c1); and a high-potential Rieske iron-sulphur protein. The general function of the complex is electron transfer between two mobile redox carriers, ubiquinol and cytochrome c; the electron transfer is coupled with proton translocation across the membrane, thus generating proton-motive force in the form of an electrochemical potential that can drive ATP synthesis. In its structure and functions, the cytochrome bc1 complex bears extensive analogy to the cytochrome b6f complex of chloroplasts and cyanobacteria; cyt c1 plays an analogous role to cytochrome f, in spite of their different structures [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding; PDB: 1P84_D 2IBZ_D 1EZV_D 3CX5_O 3CXH_O 1KB9_D 1KYO_D 1ZRT_Q 2CA4_B 2C9X_B ....
Probab=100.00 E-value=2.6e-92 Score=644.79 Aligned_cols=218 Identities=59% Similarity=0.996 Sum_probs=198.6
Q ss_pred CCCCCCCCCcchHHHHhHHHHHHHhhcccccccccchhhccc-CCCCHHHHHHHHHhhcccCCCCCCCCCcCCCCCCCCC
Q 042592 81 WPHKGILSSYDHASIRRGHQVYQQVCASCHSMSLISYRDLVG-VAYTEDETKAMAAEIEVVDGPNDEGEMFTRPGKLSDR 159 (310)
Q Consensus 81 w~~~g~~~~~D~aslqRG~qvy~~vCaaCHSlk~v~yr~L~~-~g~te~evka~Aae~~v~d~p~~~g~~f~rp~~~~D~ 159 (310)
|+|+|+|+++|++|||||+|||+|||++||||+|++||+|.+ +++||+|||++|++++|+| |||+|+||+||++++|+
T Consensus 1 w~~~g~~~~~D~aslqRG~qvy~~~C~~CHsl~~~~y~~L~~d~~~~e~~vk~~a~~~~v~d-~~d~g~~~~r~~~~~D~ 79 (219)
T PF02167_consen 1 WSFAGPFGSFDKASLQRGAQVYMEVCASCHSLKYVRYRRLADDLGLTEDEVKAIAAEYQVPD-PDDEGEMFERPAKPSDY 79 (219)
T ss_dssp -TTSSTT----HHHHHHHHHHHHHTGGGTSBCTTCBGGGGTTSTSSHHHHHHHHHHTSEEEE-TTTTSSTEEEEHHTTSB
T ss_pred CCCCCCCCcccHHHHHHHHHHHHHHHhhccccccccHHHHhhccCCCHHHHHHHHHhcccCC-cccCCccccccchhhcc
Confidence 999999999999999999999999999999999999999976 9999999999999999999 99999999999999999
Q ss_pred CCCCCChHHHHHHHcCCCCCCCchhHHhhhcCChHHHHHHHhcCCCCCCCcccCCCCcCCCCCCCCcccCccccccCccc
Q 042592 160 FPQPYSNEQAARFANGGAYPPDLSLITKARHDGQNYVFALLTGYRDPPAGVSIREGLHYNPYFPGGAIAMPKMLIDGALE 239 (310)
Q Consensus 160 ~~sp~~n~~Aa~~An~Ga~PPDLSliakaR~~G~dYIyslL~gy~dpP~g~~~~~g~~yN~~fpg~~iaMP~~L~d~~v~ 239 (310)
|++||+|++||+|+|+|++|||||||+|+|++|+||||||||||.+||.|+++++|+|||+||||+.|+||+||++++|+
T Consensus 80 ~~~p~~~~~aa~~~n~Ga~PPDLSli~raR~~G~dyiys~L~gy~~~p~~~~~~~~~~~N~~fpg~~iaMP~~L~~~~v~ 159 (219)
T PF02167_consen 80 FPSPYPNEDAARAANNGAVPPDLSLIARARHGGADYIYSLLTGYYEDPAGVSVRPGGYYNPYFPGGAIAMPPPLSDGQVE 159 (219)
T ss_dssp E--SSSSHHHHHHTTTTTTS-BCTTTTTSSTTHHHHHHHHHCTBSS--TTGTTSTTSEEETTSTTSEESS--TSSTTSS-
T ss_pred cCCCCCCHHHHHHHhCCCCCCchHHHHHHhcCchHHHHHHHhccCCCcccccCCCCCccccccCCCcccchhhhhhhccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCChhhHhhhHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Q 042592 240 YEDGTPATEAQMGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYRRLRWSVL 299 (310)
Q Consensus 240 y~DGtpat~~Q~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~Kr~~W~~v 299 (310)
|+||||+|++|||+||||||+|+|||++++||+||+|||+||+||++|+|++||++||+|
T Consensus 160 y~dGt~at~~q~a~DVv~FL~w~aeP~~~~R~~~G~~vl~fL~il~~l~y~~kk~~W~dV 219 (219)
T PF02167_consen 160 YDDGTPATVDQMAKDVVNFLAWAAEPEKDERKRMGLKVLGFLLILTVLAYLLKKEYWSDV 219 (219)
T ss_dssp BTTTB---HHHHHHHHHHHHHHHH-TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-
T ss_pred ccCCCcchHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCC
Confidence 999999999999999999999999999999999999999999999999999999999986
No 3
>COG2857 CYT1 Cytochrome c1 [Energy production and conversion]
Probab=100.00 E-value=3.6e-55 Score=406.73 Aligned_cols=220 Identities=42% Similarity=0.697 Sum_probs=216.5
Q ss_pred CCCCCCCCCCcchHHHHhHHHHHHHhhcccccccccchhhcccCCCCHHHHHHHHHhhcccCCCCCCCCCcCCCCCCCCC
Q 042592 80 PWPHKGILSSYDHASIRRGHQVYQQVCASCHSMSLISYRDLVGVAYTEDETKAMAAEIEVVDGPNDEGEMFTRPGKLSDR 159 (310)
Q Consensus 80 ~w~~~g~~~~~D~aslqRG~qvy~~vCaaCHSlk~v~yr~L~~~g~te~evka~Aae~~v~d~p~~~g~~f~rp~~~~D~ 159 (310)
.|.+.++++.+|+.++|||+|+|.+||.+|||+++++|+++.+++++++| +.+|.++.+.|++++.+.||+|++..+|.
T Consensus 28 ~~~~~~~~~~~d~~~lq~g~~~~~~~c~~chs~~~~~~~~~~d~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~~~~ 106 (250)
T COG2857 28 VWLFKGPFDLFDKGSLQRGAQLYKEYCSACHSLKLQRYRRLKDLGLPDDE-KFLALEFTVEDKPGDTGHMFMRPADAADW 106 (250)
T ss_pred cccccccchhhhhHHhhhceeeeecCChhhcccccccccccccccCCchh-ccccccccccCCCccccccccCccchhhh
Confidence 89999999999999999999999999999999999999999999999999 88999999999999999999999999999
Q ss_pred CCCCCChHHHHHHHcCCCCCCCchhHHhhh-cCChHHHHHHHhcCCC-CCCCcccCCCCcCCCCCCC-CcccCccccccC
Q 042592 160 FPQPYSNEQAARFANGGAYPPDLSLITKAR-HDGQNYVFALLTGYRD-PPAGVSIREGLHYNPYFPG-GAIAMPKMLIDG 236 (310)
Q Consensus 160 ~~sp~~n~~Aa~~An~Ga~PPDLSliakaR-~~G~dYIyslL~gy~d-pP~g~~~~~g~~yN~~fpg-~~iaMP~~L~d~ 236 (310)
|+.|+|++++++.+|+|+.|||++...++| |++++|+++.++||.| +|.|..+++|.++|+||+| ..+.|++|+.+.
T Consensus 107 ~~a~~pd~~~~a~a~~~a~~~~~~~~~~~~ch~~~~~~~~~~t~~~~l~p~g~~~~~g~~~~~~~~~~~~~~i~~p~~~k 186 (250)
T COG2857 107 FGAPPPDLTLAARANGGAAPYDLLRQFYARCHGVPDYINSLLTGYVDLPPAGLRTPQGTSYNPYFEGELGIFIADPLKDK 186 (250)
T ss_pred cCCCCCchhhhhhhhcccchHHHHHHHHhhcccCCCCcCeeecCCCCCCCcccccCCcccccccchhhHhhhccCccccC
Confidence 999999999999999999999999999999 9999999999999987 9999999999999999999 789999999999
Q ss_pred cccccCCChhhHhhhHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccc
Q 042592 237 ALEYEDGTPATEAQMGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYRRLRWSVLK 300 (310)
Q Consensus 237 ~v~y~DGtpat~~Q~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~Kr~~W~~vk 300 (310)
++++.+|+|+++||+++|||+||+|++||++++||+||++||+||+||++|+|++||++|++||
T Consensus 187 ~~~~m~~~~~~tdq~~~dlvaYL~~~~ep~~~~rk~~g~~v~~fl~~~~~l~~~~k~~~w~~~~ 250 (250)
T COG2857 187 PGTYMPGNPALTDQEVKDLVAYLKWAAEPEKEERKRLGFKVMIFLVVFTILAYLLKKEYWSDVH 250 (250)
T ss_pred CcCCCCCChhhHHHHHHHHHHHHHHccCccHHHhhcCCeeehhHHHHHHHHHHHHHHHHhhcCC
Confidence 9999999999999999999999999999999999999999999999999999999999999987
No 4
>CHL00133 psbV photosystem II cytochrome c550; Validated
Probab=98.01 E-value=1.7e-05 Score=70.65 Aligned_cols=49 Identities=20% Similarity=0.363 Sum_probs=42.7
Q ss_pred hhhhhhhccCCCCCCCCCCCCCCCCCcchHHHHhHHHHHHHhhcccccc
Q 042592 64 IASADEAEHGLACPSYPWPHKGILSSYDHASIRRGHQVYQQVCASCHSM 112 (310)
Q Consensus 64 ~~~a~a~~~~~~~~~~~w~~~g~~~~~D~aslqRG~qvy~~vCaaCHSl 112 (310)
..+|.|.+........|++..|-.-.+..+++.+|.++|.+.|++||..
T Consensus 21 ~~~~~a~~~~~~~~~v~~~~~g~~~~~t~~~~~~Gk~lF~~~CaaCH~~ 69 (163)
T CHL00133 21 VSSALAIELDEATRTVVLDSSGKTVVLTPEQVKRGKRLFNASCGACHVG 69 (163)
T ss_pred ccchhHhhccccceeeeeCCCCCeEeeCHHHHHHHHHHHHhhHHHhCCC
Confidence 3455577777788999999999888999999999999999999999974
No 5
>TIGR03045 PS_II_C550 cytochrome c-550. Members of this protein family are cytochrome c-550, the PsbV extrinsic protein of photosystem II, from both Cyanobacteria and chloroplasts. A paralog to this protein, PsbV2, is found in some species in addition to PsbV itself.
Probab=97.98 E-value=2.8e-05 Score=68.96 Aligned_cols=48 Identities=21% Similarity=0.470 Sum_probs=41.9
Q ss_pred hhhhhhccCCCCCCCCCCCCCCCCCcchHHHHhHHHHHHHhhcccccc
Q 042592 65 ASADEAEHGLACPSYPWPHKGILSSYDHASIRRGHQVYQQVCASCHSM 112 (310)
Q Consensus 65 ~~a~a~~~~~~~~~~~w~~~g~~~~~D~aslqRG~qvy~~vCaaCHSl 112 (310)
.+|.|.+....+...|++..|-.-+|..+++.+|.|+|.+.|++||..
T Consensus 21 ~~~~a~~~~~~~~t~~~~~~g~~~~~~~~~~~~Gk~lF~~~Ca~CH~~ 68 (159)
T TIGR03045 21 GPAQAAELDEETRTVPLNSTGETVTLTEEQVKRGKRLFNTACGTCHVG 68 (159)
T ss_pred chHHHHhcccccceeeecCCCCeEEeChHhHHHHHHHHHHHHHHhCCC
Confidence 445566666788999999999889999999999999999999999964
No 6
>PTZ00405 cytochrome c; Provisional
Probab=97.95 E-value=8.8e-06 Score=68.15 Aligned_cols=22 Identities=23% Similarity=0.622 Sum_probs=18.8
Q ss_pred hHHHHhHHHHHHHhhccccccc
Q 042592 92 HASIRRGHQVYQQVCASCHSMS 113 (310)
Q Consensus 92 ~aslqRG~qvy~~vCaaCHSlk 113 (310)
.+...||.++|++.|.+||++.
T Consensus 11 ~gd~~~G~~lF~~~C~aCH~~~ 32 (114)
T PTZ00405 11 PGDAERGEKLFKGRAAQCHTAT 32 (114)
T ss_pred ccCHHHHHHHHHhhhHhhCCCC
Confidence 4567899999998999999964
No 7
>PTZ00048 cytochrome c; Provisional
Probab=97.87 E-value=1.7e-05 Score=66.28 Aligned_cols=22 Identities=23% Similarity=0.815 Sum_probs=18.9
Q ss_pred HHHHhHHHHHHHhhcccccccc
Q 042592 93 ASIRRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 93 aslqRG~qvy~~vCaaCHSlk~ 114 (310)
+.+++|.++|++.|.+||++.-
T Consensus 13 ~~~~~G~~~f~~~C~~CH~~~~ 34 (115)
T PTZ00048 13 GDAKKGAKLFKAKCAQCHTINK 34 (115)
T ss_pred ccHHHHHHHHHhhhhhcCCCcC
Confidence 3578999999999999999754
No 8
>PRK13617 psbV cytochrome c-550; Provisional
Probab=97.72 E-value=5.3e-05 Score=67.97 Aligned_cols=49 Identities=20% Similarity=0.462 Sum_probs=42.5
Q ss_pred hhhhhhhccCCCCCCCCCCCCCCCCCcchHHHHhHHHHHHHhhcccccc
Q 042592 64 IASADEAEHGLACPSYPWPHKGILSSYDHASIRRGHQVYQQVCASCHSM 112 (310)
Q Consensus 64 ~~~a~a~~~~~~~~~~~w~~~g~~~~~D~aslqRG~qvy~~vCaaCHSl 112 (310)
..+|.|.+....+...|++..|-.-+|..+++.+|.++|.+.|.+||-.
T Consensus 28 ~~~A~A~~ld~~~~tv~~~~~g~~~~~s~~~~~~G~~~F~~~C~~CH~~ 76 (170)
T PRK13617 28 SSPAQAAQWDAETLTVPADPSGSQVTFSESEIKAGRKVFNTSCGTCHAG 76 (170)
T ss_pred cchhhhhhccccceeeecCCCCCeEEeCHHHHHHHHHHHHcchhhhccC
Confidence 3445566677788899999999999999999999999999999999964
No 9
>PRK13622 psbV cytochrome c-550; Provisional
Probab=97.70 E-value=0.00032 Score=63.53 Aligned_cols=26 Identities=23% Similarity=0.713 Sum_probs=23.1
Q ss_pred CCCcchHHHHhHHHHHHHhhcccccc
Q 042592 87 LSSYDHASIRRGHQVYQQVCASCHSM 112 (310)
Q Consensus 87 ~~~~D~aslqRG~qvy~~vCaaCHSl 112 (310)
+..+-.+++++|.|+|.+.|++||+.
T Consensus 54 ~~~~s~~~~~~G~~lF~~~Ca~CH~~ 79 (180)
T PRK13622 54 SITFTEAQLAKGKKLFNRACAQCHVG 79 (180)
T ss_pred cccCCHHHHHHHHHHHHhhhHHhccC
Confidence 46777889999999999999999975
No 10
>PRK13618 psbV cytochrome c-550; Provisional
Probab=97.69 E-value=0.00026 Score=63.11 Aligned_cols=43 Identities=23% Similarity=0.506 Sum_probs=35.9
Q ss_pred hhccCCCCCCCCCCCCCCCCCcchHHHHhHHHHHHHhhccccc
Q 042592 69 EAEHGLACPSYPWPHKGILSSYDHASIRRGHQVYQQVCASCHS 111 (310)
Q Consensus 69 a~~~~~~~~~~~w~~~g~~~~~D~aslqRG~qvy~~vCaaCHS 111 (310)
|.+........+.+..|-.-++..+++++|.|+|.+.|++||.
T Consensus 26 A~~~d~~t~Tv~~~~~g~tv~~s~~~~~~G~~lF~~~Ca~CH~ 68 (163)
T PRK13618 26 AAELDEATRTVPLNAQGKTVTLSLKQVKEGKRLFNYACAQCHA 68 (163)
T ss_pred HhhcccccceeccCCCCCeeecChhhHHHHHHHHHHHHHHhcC
Confidence 4444445578888888877889999999999999999999995
No 11
>PRK13619 psbV cytochrome c-550; Provisional
Probab=97.66 E-value=0.0002 Score=63.67 Aligned_cols=48 Identities=25% Similarity=0.443 Sum_probs=43.3
Q ss_pred hhhhhhccCCCCCCCCCCCCCCCCCcchHHHHhHHHHHHHhhcccccc
Q 042592 65 ASADEAEHGLACPSYPWPHKGILSSYDHASIRRGHQVYQQVCASCHSM 112 (310)
Q Consensus 65 ~~a~a~~~~~~~~~~~w~~~g~~~~~D~aslqRG~qvy~~vCaaCHSl 112 (310)
.+|.|.+....+...|++..|-.-+|..+++.+|.|+|...|+.||..
T Consensus 21 ~~a~a~eld~~~~tv~~~~~G~t~~~s~~d~~~GkklF~~~Ca~CH~g 68 (160)
T PRK13619 21 NSANALELDEATRTIPLNEAGETTTLTSKQITNGQRLFVQECTQCHLQ 68 (160)
T ss_pred cchhHhhccccceeeeeCCCCCeEEeCHHHHHHHHHHHHHHHHHcccC
Confidence 455577777889999999999889999999999999999999999997
No 12
>TIGR03874 4cys_cytochr c-type cytochrome, methanol metabolism-related. This family represents a c-type cytochrome related to (but excluding) cytochrome c-555 of Methylococcus capsulatus. Members contain four invariant Cys residues, including two from a heme-binding motif shared with c-555, and two others.
Probab=97.41 E-value=0.00028 Score=61.78 Aligned_cols=26 Identities=23% Similarity=0.456 Sum_probs=21.8
Q ss_pred CCcchHHHHhHHHHHHHhhcccccccc
Q 042592 88 SSYDHASIRRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 88 ~~~D~aslqRG~qvy~~vCaaCHSlk~ 114 (310)
+..|..++. |+++|...|++||+..-
T Consensus 27 ~~~d~~~~~-G~~lY~~~CAaCHG~dG 52 (143)
T TIGR03874 27 GTVDWFTYS-GYRRYHSECHVCHGPDG 52 (143)
T ss_pred Ccccccccc-HHHHHHHHHHHhCCCCC
Confidence 456777776 99999999999999755
No 13
>PRK13620 psbV cytochrome c-550; Provisional
Probab=97.38 E-value=0.00034 Score=64.65 Aligned_cols=47 Identities=19% Similarity=0.350 Sum_probs=41.2
Q ss_pred hhhhhhccCCCCCCCCCCCCCCCCCcchHHHHhHHHHHHHhhccccc
Q 042592 65 ASADEAEHGLACPSYPWPHKGILSSYDHASIRRGHQVYQQVCASCHS 111 (310)
Q Consensus 65 ~~a~a~~~~~~~~~~~w~~~g~~~~~D~aslqRG~qvy~~vCaaCHS 111 (310)
..|.|.+....+...|.+..|-.-.+...++.+|.++|++.|++||.
T Consensus 74 ~~a~A~~ld~~trtv~ln~~G~tvtfS~eq~~~GkqLF~~~Ca~CHV 120 (215)
T PRK13620 74 GAAQAAELTAETRTVKLNPQGDNVTLSLKQVAEGKQLFAYACGQCHV 120 (215)
T ss_pred chhhHHHhhccceeeeeCCCCCeecCCHHHHHHHHHHHHhhhhhccC
Confidence 44556677778899999999988899999999999999999999993
No 14
>CHL00183 petJ cytochrome c553; Provisional
Probab=97.31 E-value=0.00059 Score=55.42 Aligned_cols=20 Identities=35% Similarity=0.858 Sum_probs=17.4
Q ss_pred HHHHhHHHHHHHhhcccccc
Q 042592 93 ASIRRGHQVYQQVCASCHSM 112 (310)
Q Consensus 93 aslqRG~qvy~~vCaaCHSl 112 (310)
+.+.+|.++|.++|++||+.
T Consensus 24 a~~~~G~~ly~~~Ca~CHg~ 43 (108)
T CHL00183 24 ADLDNGEQIFSANCAACHAG 43 (108)
T ss_pred ccHHHHHHHHHHHHHHHCCC
Confidence 34689999999999999983
No 15
>PRK14486 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional
Probab=97.12 E-value=0.0053 Score=59.20 Aligned_cols=70 Identities=21% Similarity=0.279 Sum_probs=41.8
Q ss_pred CCCCCCchhHHhhhcCChHHHHHHHhcCCCCCCCcccCCCCcCCCCCCCCcccCccccc--cCcccccC--------C--
Q 042592 176 GAYPPDLSLITKARHDGQNYVFALLTGYRDPPAGVSIREGLHYNPYFPGGAIAMPKMLI--DGALEYED--------G-- 243 (310)
Q Consensus 176 Ga~PPDLSliakaR~~G~dYIyslL~gy~dpP~g~~~~~g~~yN~~fpg~~iaMP~~L~--d~~v~y~D--------G-- 243 (310)
+-.=|||+.+..-| -.+|++..|. | |. .+.|| --||..-| +..+...+ |
T Consensus 101 ~r~GPDL~~vG~r~--~~~w~~~~l~---~-P~-----------~~~p~--s~MP~~~~l~~~~~~~~~~~~~~~~~~~p 161 (294)
T PRK14486 101 KRTGPDLARIGGKY--PDAWHYAHFE---D-PQ-----------AVVPR--SNMPAYAFLKGKPLDAALTQRKMRALGFP 161 (294)
T ss_pred CCCCCchhhhcccC--CHHHHHHHHh---C-cc-----------cCCCC--CCCCCCHHHhhccCcHHHHHHhhhhcCCC
Confidence 34569999998544 5899998886 4 32 23455 45666533 22111100 1
Q ss_pred -ChhhH-----hhhHHHHHHHHhhhcC
Q 042592 244 -TPATE-----AQMGKDVVTFLSWAAE 264 (310)
Q Consensus 244 -tpat~-----~Q~akDVvaFL~waAE 264 (310)
+++.. .+..++|++||.|.+.
T Consensus 162 y~~~~~~~~~~~~e~~AlvAYl~~L~~ 188 (294)
T PRK14486 162 YTDADLAALAGKTEMDAMVAYMQSLGK 188 (294)
T ss_pred CCHHHHHHhcccHHHHHHHHHHHHhcc
Confidence 23332 3457899999999884
No 16
>TIGR02603 CxxCH_TIGR02603 putative heme-binding domain, Pirellula/Verrucomicrobium type. This model represents a domain limited to very few species but expanded into large paralogous families in some species that conain it. We find it in over 20 copies each in Pirellula sp. strain 1 (phylum Planctomycetes) and Verrucomicrobium spinosum DSM 4136 (phylum Verrucomicrobia), and no matches above trusted cutoff an any other species so far. This domain, about 140 amino acids long, contains an absolutely conserved motif CxxCH, the cytochrome c family heme-binding site signature (PS00190).
Probab=97.10 E-value=0.00067 Score=57.58 Aligned_cols=21 Identities=33% Similarity=0.724 Sum_probs=18.2
Q ss_pred HHHhHHHHHHHhhcccccccc
Q 042592 94 SIRRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 94 slqRG~qvy~~vCaaCHSlk~ 114 (310)
..++|.++|.+.|++||+...
T Consensus 2 d~~~G~~~f~~~C~~CH~~~g 22 (133)
T TIGR02603 2 DAEKGKAVYAQRCYVCHRIGG 22 (133)
T ss_pred CHHHHHHHHHhHHHHhCCCCC
Confidence 368999999999999999754
No 17
>PF00034 Cytochrom_C: Cytochrome c; InterPro: IPR003088 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class I includes the low-spin soluble cytC of mitochondria and bacteria, with the haem-attachment site towards the N terminus, and the sixth ligand provided by a methionine residue about 40 residues further on towards the C terminus. On the basis of sequence similarity, class I cytC were further subdivided into five classes, IA to IE. Class IB includes the eukaryotic mitochondrial cytC and prokaryotic 'short' cyt c2 exemplified by Rhodopila globiformis cyt c2; class IA includes 'long' cyt c2, such as Rhodospirillum rubrum cyt c2 and Aquaspirillum itersonii cyt c-550, which have several extra loops by comparison with class IB cytC.; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding; PDB: 1YNR_B 2AI5_A 1AYG_A 3O5C_C 1YEA_A 3CXH_W 1YTC_A 1YEB_A 2YBB_Y 2B4Z_A ....
Probab=97.05 E-value=0.00033 Score=51.98 Aligned_cols=20 Identities=35% Similarity=0.795 Sum_probs=17.9
Q ss_pred HHhHHHHHHHhhcccccccc
Q 042592 95 IRRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 95 lqRG~qvy~~vCaaCHSlk~ 114 (310)
.+||.+||++.|++||++..
T Consensus 1 a~~G~~l~~~~C~~CH~~~~ 20 (91)
T PF00034_consen 1 AARGKELFQANCAACHGADG 20 (91)
T ss_dssp HHHHHHHHHHHTTTTHBTST
T ss_pred ChhHHHHHhCcChhcCCCCC
Confidence 37999999999999999866
No 18
>PRK14486 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional
Probab=96.98 E-value=0.0013 Score=63.33 Aligned_cols=24 Identities=38% Similarity=0.782 Sum_probs=21.4
Q ss_pred chHHHHhHHHHHHHhhcccccccc
Q 042592 91 DHASIRRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 91 D~aslqRG~qvy~~vCaaCHSlk~ 114 (310)
|.+++.||.++|.+.|++||+...
T Consensus 211 ~~~~~~~G~~ly~~~Ca~CHg~~g 234 (294)
T PRK14486 211 DVAAIAKGKALYDANCAACHGDEA 234 (294)
T ss_pred CHHHHHHHHHHHHHHHHHhcCCCC
Confidence 678899999999999999999654
No 19
>PF13442 Cytochrome_CBB3: Cytochrome C oxidase, cbb3-type, subunit III ; PDB: 1KB0_A 2DGE_D 2CE1_A 2CE0_A 2V07_A 1W2L_A 2ZOO_A 2ZBO_G 1DVV_A 2EXV_A ....
Probab=96.92 E-value=0.00036 Score=51.64 Aligned_cols=19 Identities=47% Similarity=0.999 Sum_probs=17.4
Q ss_pred HHHHhHHHHHHHhhccccc
Q 042592 93 ASIRRGHQVYQQVCASCHS 111 (310)
Q Consensus 93 aslqRG~qvy~~vCaaCHS 111 (310)
|++++|.++|.++|++||+
T Consensus 1 a~~~~G~~ly~~~C~~CH~ 19 (67)
T PF13442_consen 1 ADAAKGKALYEQNCASCHG 19 (67)
T ss_dssp -HHHHHHHHHHHHTHHHHG
T ss_pred CcHHHHHHHHHhHhHHhcC
Confidence 5789999999999999999
No 20
>PRK13621 psbV cytochrome c-550; Provisional
Probab=96.89 E-value=0.0013 Score=59.06 Aligned_cols=39 Identities=18% Similarity=0.430 Sum_probs=35.5
Q ss_pred CCCCCCCCCCCCCCCCcchHHHHhHHHHHHHhhcccccc
Q 042592 74 LACPSYPWPHKGILSSYDHASIRRGHQVYQQVCASCHSM 112 (310)
Q Consensus 74 ~~~~~~~w~~~g~~~~~D~aslqRG~qvy~~vCaaCHSl 112 (310)
-.+...|++..|-.-+|..+++.+|.|+|.++|++||--
T Consensus 45 ~~~~~v~~~~~g~~~~~s~~d~~~G~~lF~~~Ca~CH~g 83 (170)
T PRK13621 45 TEPVELPLDAAGETQTFSPEQLTDGKQLFDSNCLNCHVG 83 (170)
T ss_pred CCceEeeeCCCCCeEEeCHHHHHhHHHHHHHHHHHhccC
Confidence 467889999999889999999999999999999999953
No 21
>TIGR03872 cytochrome_MoxG cytochrome c(L), periplasmic. This model describes a periplasmic c-type cytochrome that serves as the primary electron acceptor for the quinoprotein methanol dehydrogenase, a PQQ enzyme. The member from Paracoccus denitrificans is also characterized as an electron acceptor for methylamine dehydrogenase, a tryptophan tryptophylquinone enzyme. This protein is called cytochrome c(L) in methylotrophic bacteria such Methylobacterium extorquens, but c551i in Paracoccus denitrificans.
Probab=96.84 E-value=0.00063 Score=58.52 Aligned_cols=24 Identities=21% Similarity=0.743 Sum_probs=22.1
Q ss_pred chHHHHhHHHHHHHhhcccccccc
Q 042592 91 DHASIRRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 91 D~aslqRG~qvy~~vCaaCHSlk~ 114 (310)
|...+++|.++|.++|++||+.+.
T Consensus 40 ~~~~~a~G~~ly~~~CAaCHG~~g 63 (133)
T TIGR03872 40 DAEALKKGESLFATACSGCHGHLA 63 (133)
T ss_pred CHHHHHHHHHHHHHhhHHhCCCCC
Confidence 788999999999999999999765
No 22
>COG3474 Cytochrome c2 [Energy production and conversion]
Probab=96.74 E-value=0.0024 Score=55.49 Aligned_cols=21 Identities=29% Similarity=0.820 Sum_probs=18.6
Q ss_pred HHHHhHHHHHHHhhcccccccc
Q 042592 93 ASIRRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 93 aslqRG~qvy~~vCaaCHSlk~ 114 (310)
+....|.+||+. |.+||++.-
T Consensus 29 ~da~~G~~vFkk-C~~CH~i~~ 49 (135)
T COG3474 29 GDAAAGEKVFKK-CQACHSIEK 49 (135)
T ss_pred ccHHHhHHHHHH-HHHhhcccc
Confidence 567899999999 999999866
No 23
>TIGR03046 PS_II_psbV2 photosystem II cytochrome PsbV2. Members of this protein family are PsbV2, a protein closely related cytochrome c-550 (PsbV), a protein important to the water-splitting and oxygen-evolving activity of photosystem II. Mutant studies in Thermosynechococcus elongatus showed PsbV2 can partially replace PsbV, from which it appears to have arisen first by duplication, then by intergenic recombination with a different gene.
Probab=96.65 E-value=0.00089 Score=59.36 Aligned_cols=38 Identities=18% Similarity=0.504 Sum_probs=34.9
Q ss_pred CCCCCCCCCCCCCCCcchHHHHhHHHHHHHhhcccccc
Q 042592 75 ACPSYPWPHKGILSSYDHASIRRGHQVYQQVCASCHSM 112 (310)
Q Consensus 75 ~~~~~~w~~~g~~~~~D~aslqRG~qvy~~vCaaCHSl 112 (310)
.|-..|++..|-.-+|..+++.+|.++|.++|++||..
T Consensus 35 ~~~~~~~~~~g~~~~~s~~d~~~G~~lF~~~Ca~CH~g 72 (155)
T TIGR03046 35 GPVELPLDAQGELKTFTPEQLTDGKNLFESNCLNCHVG 72 (155)
T ss_pred CceEeecCCCCCeEEeCHHHHHhHHHHHHHHHHHhccC
Confidence 56778999999889999999999999999999999964
No 24
>TIGR00782 ccoP cytochrome c oxidase, cbb3-type, subunit III. This model describes a di-heme subunit of approximately 26 kDa of the cbb3 type copper and heme-containing cytochrome oxidase.
Probab=96.60 E-value=0.011 Score=56.13 Aligned_cols=23 Identities=22% Similarity=0.579 Sum_probs=19.4
Q ss_pred hHHHHhHHHHHHHhhcccccccc
Q 042592 92 HASIRRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 92 ~aslqRG~qvy~~vCaaCHSlk~ 114 (310)
+..++.|.++|..+|++||+..-
T Consensus 104 ~~a~~~G~~lf~~~Ca~CHG~~g 126 (285)
T TIGR00782 104 QYARNAGAAIFRTWCAQCHGSGA 126 (285)
T ss_pred HHHHHHHHHHHHHHhHHhCCCCC
Confidence 34578999999999999999654
No 25
>TIGR00781 ccoO cytochrome c oxidase, cbb3-type, subunit II. This model describes the monoheme subunit of the cbb3-type cytochrome oxidase, found in a subset of Proteobacterial species. Species having this protein also have CcoN (subunit I, containing copper and two heme groups), CcoP (subunit III, containing two hemes), and CcoQ (essential for incorporation of the prosthetic groups).
Probab=96.28 E-value=0.029 Score=52.73 Aligned_cols=45 Identities=24% Similarity=0.372 Sum_probs=29.3
Q ss_pred CCCCCCchhHHhhhcCChHHHHHHHhcCCCCCCCcccCCCCcCCCCCCCCcccCccc--cccCccc
Q 042592 176 GAYPPDLSLITKARHDGQNYVFALLTGYRDPPAGVSIREGLHYNPYFPGGAIAMPKM--LIDGALE 239 (310)
Q Consensus 176 Ga~PPDLSliakaR~~G~dYIyslL~gy~dpP~g~~~~~g~~yN~~fpg~~iaMP~~--L~d~~v~ 239 (310)
+..-|||+.+.. |. ..+|.+..|. | |. .+.|| .-||.. |.+..+.
T Consensus 100 ~RtGPDLt~vG~-R~-s~~wh~~hl~---n-Pr-----------~v~Pg--SiMP~y~~L~~~~ld 146 (232)
T TIGR00781 100 KRTGPDLARVGG-RY-SDEWHVKHLF---D-PR-----------SVVPE--SIMPAYKHLATKKVD 146 (232)
T ss_pred CCcCcCcccccc-cC-CHHHHHHHHh---C-cc-----------ccCCC--CCCCCCcccccccCC
Confidence 467799999974 32 4789988776 4 32 24576 668876 4444443
No 26
>PRK14487 cbb3-type cytochrome c oxidase subunit II; Provisional
Probab=96.27 E-value=0.061 Score=50.20 Aligned_cols=45 Identities=24% Similarity=0.394 Sum_probs=29.4
Q ss_pred CCCCCCchhHHhhhcCChHHHHHHHhcCCCCCCCcccCCCCcCCCCCCCCcccCccc--cccCccc
Q 042592 176 GAYPPDLSLITKARHDGQNYVFALLTGYRDPPAGVSIREGLHYNPYFPGGAIAMPKM--LIDGALE 239 (310)
Q Consensus 176 Ga~PPDLSliakaR~~G~dYIyslL~gy~dpP~g~~~~~g~~yN~~fpg~~iaMP~~--L~d~~v~ 239 (310)
+..-|||+.+.. |. ..+|++..|. | |. .+.|| .-||.. |.+..++
T Consensus 101 ~RtGPDLt~vG~-R~-s~~w~~~hl~---n-P~-----------~v~Pg--S~MPay~~L~~~~ld 147 (217)
T PRK14487 101 KRTGPDLARVGG-RY-SDEWHRNHLI---N-PR-----------SVVPE--SNMPAYPWLAENDLD 147 (217)
T ss_pred CCCCcchhhhhc-cC-CHHHHHHHHh---C-cc-----------cCCCC--CCCCCCcccccccCC
Confidence 356699999974 43 6789988876 4 42 24577 668876 4444433
No 27
>PRK13697 cytochrome c6; Provisional
Probab=96.10 E-value=0.005 Score=49.76 Aligned_cols=18 Identities=44% Similarity=0.853 Sum_probs=16.0
Q ss_pred HHhHHHHHHHhhcccccc
Q 042592 95 IRRGHQVYQQVCASCHSM 112 (310)
Q Consensus 95 lqRG~qvy~~vCaaCHSl 112 (310)
..+|.++|.++|++||+.
T Consensus 28 ~~~G~~ly~~~C~~CHg~ 45 (111)
T PRK13697 28 AANGEQVFSANCASCHAG 45 (111)
T ss_pred HHHHHHHHHHHHHHhCCC
Confidence 468999999999999983
No 28
>TIGR00782 ccoP cytochrome c oxidase, cbb3-type, subunit III. This model describes a di-heme subunit of approximately 26 kDa of the cbb3 type copper and heme-containing cytochrome oxidase.
Probab=95.66 E-value=0.033 Score=52.94 Aligned_cols=24 Identities=25% Similarity=0.656 Sum_probs=20.7
Q ss_pred chHHHHhHHHHHHHhhcccccccc
Q 042592 91 DHASIRRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 91 D~aslqRG~qvy~~vCaaCHSlk~ 114 (310)
|.+.+.||.++|.+.|++||+...
T Consensus 199 ~~~~~~~G~~lf~~~Ca~CHG~~G 222 (285)
T TIGR00782 199 DEALAAKGQELFADNCTTCHGEDG 222 (285)
T ss_pred chhHHHHHHHHHhccchhhCCCCC
Confidence 456789999999999999999654
No 29
>PF14495 Cytochrom_C550: Cytochrome c-550 domain; PDB: 3ARC_V 1IZL 3A0H_V 3A0B_v 1E29_A 1F1C_B 1S5L_V 4FBY_i 3PRR_V 3PRQ_V ....
Probab=95.27 E-value=0.0059 Score=52.99 Aligned_cols=38 Identities=21% Similarity=0.589 Sum_probs=29.8
Q ss_pred CCCCCCCCCCCCCCCcchHHHHhHHHHHHHhhcccccc
Q 042592 75 ACPSYPWPHKGILSSYDHASIRRGHQVYQQVCASCHSM 112 (310)
Q Consensus 75 ~~~~~~w~~~g~~~~~D~aslqRG~qvy~~vCaaCHSl 112 (310)
.+-..|++..|-.-.|...+|.||.++|...|+.||--
T Consensus 5 ~~rtv~ln~~G~t~~~s~~q~~~GkrLF~~~C~~CH~G 42 (135)
T PF14495_consen 5 ETRTVPLNEQGETVTFSPEQLKRGKRLFNASCAQCHVG 42 (135)
T ss_dssp TTTEEESSTTS-EEE--HHHHHHHHHHHHHHTHHHHGG
T ss_pred cceeeeeCCCCCEEEECHHHHHHHHHHHHHHHHhhccC
Confidence 34556777778778899999999999999999999964
No 30
>COG2010 CccA Cytochrome c, mono- and diheme variants [Energy production and conversion]
Probab=95.17 E-value=0.0094 Score=49.80 Aligned_cols=24 Identities=25% Similarity=0.470 Sum_probs=21.3
Q ss_pred cchHHHHhHHHHHHHhhccccccc
Q 042592 90 YDHASIRRGHQVYQQVCASCHSMS 113 (310)
Q Consensus 90 ~D~aslqRG~qvy~~vCaaCHSlk 113 (310)
-+.....+|.++|.+.|++||+..
T Consensus 46 ~~~~~~~~G~~~f~~~C~~CHg~~ 69 (150)
T COG2010 46 APAAARGAGLALFLGNCAACHGPN 69 (150)
T ss_pred cHHHHHHHHHHHhcccchhccCCC
Confidence 356689999999999999999987
No 31
>COG2863 Cytochrome c553 [Energy production and conversion]
Probab=95.15 E-value=0.012 Score=50.32 Aligned_cols=23 Identities=30% Similarity=0.507 Sum_probs=20.0
Q ss_pred hHHHHhHHHHHHHhhcccccccc
Q 042592 92 HASIRRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 92 ~aslqRG~qvy~~vCaaCHSlk~ 114 (310)
.+++++|.+.|.+.|++||+...
T Consensus 21 ~~~a~~G~~~~~~~Ca~CHG~~g 43 (121)
T COG2863 21 AADAALGKALAAQSCAACHGADG 43 (121)
T ss_pred hhhHHHHHHhhcchhhhccCCCC
Confidence 45689999999999999999765
No 32
>COG2857 CYT1 Cytochrome c1 [Energy production and conversion]
Probab=95.05 E-value=0.024 Score=53.49 Aligned_cols=88 Identities=24% Similarity=0.225 Sum_probs=60.5
Q ss_pred hhcccCCCCCCCCCcCCCCCCCCCCCCCCChHHHHHHHcCCCCCCCchhHHhhhcCChHHHHHHHhcC-CC-C--CCCcc
Q 042592 136 EIEVVDGPNDEGEMFTRPGKLSDRFPQPYSNEQAARFANGGAYPPDLSLITKARHDGQNYVFALLTGY-RD-P--PAGVS 211 (310)
Q Consensus 136 e~~v~d~p~~~g~~f~rp~~~~D~~~sp~~n~~Aa~~An~Ga~PPDLSliakaR~~G~dYIyslL~gy-~d-p--P~g~~ 211 (310)
++.+.+........++-..+++|.+-.-++.+..+.| +++.|||+++++++| |.++.|.||..+ .+ + |.++
T Consensus 70 d~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~--~~a~~pd~~~~a~a~--~~a~~~~~~~~~~~~ch~~~~~~- 144 (250)
T COG2857 70 DLGLPDDEKFLALEFTVEDKPGDTGHMFMRPADAADW--FGAPPPDLTLAARAN--GGAAPYDLLRQFYARCHGVPDYI- 144 (250)
T ss_pred cccCCchhccccccccccCCCccccccccCccchhhh--cCCCCCchhhhhhhh--cccchHHHHHHHHhhcccCCCCc-
Confidence 4444433322344455457888988888888888888 999999999999998 888999888776 44 2 3333
Q ss_pred cCCCCcCCCCCCCCccc-CccccccC
Q 042592 212 IREGLHYNPYFPGGAIA-MPKMLIDG 236 (310)
Q Consensus 212 ~~~g~~yN~~fpg~~ia-MP~~L~d~ 236 (310)
||..+.. .. ||..+...
T Consensus 145 ------~~~~t~~--~~l~p~g~~~~ 162 (250)
T COG2857 145 ------NSLLTGY--VDLPPAGLRTP 162 (250)
T ss_pred ------CeeecCC--CCCCCcccccC
Confidence 3555554 45 77776643
No 33
>PF09098 Dehyd-heme_bind: Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; InterPro: IPR015182 Quinohemoprotein amine dehydrogenases (QHNDH) 1.4.99 from EC) are enzymes produced in the periplasmic space of certain Gram-negative bacteria, such as Paracoccus denitrificans and Pseudomonas putida, in response to primary amines, including n-butylamine and benzylamine. QHNDH catalyses the oxidative deamination of a wide range of aliphatic and aromatic amines through formation of a Schiff-base intermediate involving one of the quinone O atoms []. Catalysis requires the presence of a novel redox cofactor, cysteine tryptophylquinone (CTQ). CTQ is derived from the post-translational modification of specific residues, which involves the oxidation of the indole ring of a tryptophan residue to form tryptophylquinone, followed by covalent cross-linking with a cysteine residue []. There is one CTQ per subunit in QHNDH. In addition to CTQ, two haem c cofactors are present in QHNDH that mediate the transfer of the substrate-derived electrons from CTQ to an external electron acceptor, cytochrome c-550 [, ]. QHNDH is a heterotrimer of alpha, beta and gamma subunits. The alpha and beta subunits contain signal peptides necessary for the translocation of QHNDH to the periplasm. The alpha subunit is composed of four domains - domain 1 forming a dihaem cytochrome, and domains 2-4 forming antiparallel beta-barrel structures; the beta subunit is a 7-bladed beta-propeller that provides part of the active site; and the small, catalytic gamma subunit contains the novel cross-linked CTQ cofactor, in addition to additional thioester cross-links between Cys and Asp/Glu residues that encage CTQ. The gamma subunit assumes a globular secondary structure with two short alpha-helices having many turns and bends []. This entry represents the dihaem cytochrome c domain of the QHNDH alpha subunit. The domain contain two cysteine residues that are involved in thioether linkages to haem []. ; PDB: 1PBY_A 1JJU_A 1JMZ_A 1JMX_A.
Probab=94.76 E-value=0.0095 Score=53.44 Aligned_cols=25 Identities=32% Similarity=0.627 Sum_probs=17.5
Q ss_pred HhHHHHHHHhhcccccccc-cchhhc
Q 042592 96 RRGHQVYQQVCASCHSMSL-ISYRDL 120 (310)
Q Consensus 96 qRG~qvy~~vCaaCHSlk~-v~yr~L 120 (310)
|.|.++..+.|++|||..+ ..|.|+
T Consensus 1 q~G~~Lv~~kC~~CHs~~~~g~~sRI 26 (167)
T PF09098_consen 1 QDGEQLVQEKCAGCHSADYDGALSRI 26 (167)
T ss_dssp --HHHHHHHCHCCTC-EECTTEETTG
T ss_pred CcHHHHHHHHHHHhcCccccCccccc
Confidence 6799999999999999866 244443
No 34
>PF02433 FixO: Cytochrome C oxidase, mono-heme subunit/FixO; InterPro: IPR003468 Cytochrome cbb3 oxidases are found almost exclusively in Proteobacteria, and represent a distinctive class of proton-pumping respiratory haem-copper oxidases (HCO) that lack many of the key structural features that contribute to the reaction cycle of the intensely studied mitochondrial cytochrome c oxidase (CcO) []. Cytochrome cbb3 oxidases are required both to support symbiotic nitrogen fixation, whilst ensuring that the oxygen-labile nitrogenase is not compromised. Cytochrome cbb3 oxidases consist of four subunits: FixN (or CcoN), FixO (or CcoO), FixP (or CcoP) and FixQ (or CcoQ). The catalytic core is comprised of subunits FixN, FixO and FixP, where FixN acts as the catalytic subunit, and Fix O and FixP are membrane-bound mono- and di-haem cytochromes c, respectively. The FixQ subunit protects the core complex in the presence of oxygen from proteolytic degradation []. This entry represents the mono-haem FixO subunit.
Probab=92.37 E-value=0.63 Score=43.84 Aligned_cols=22 Identities=27% Similarity=0.526 Sum_probs=17.7
Q ss_pred HHHHhHHHHHH-Hhhcccccccc
Q 042592 93 ASIRRGHQVYQ-QVCASCHSMSL 114 (310)
Q Consensus 93 aslqRG~qvy~-~vCaaCHSlk~ 114 (310)
+...+|.+||. |-|..|||-.-
T Consensus 48 ~lel~GR~iYi~eGC~~CHSQ~V 70 (226)
T PF02433_consen 48 PLELAGRDIYIREGCYYCHSQMV 70 (226)
T ss_pred HHHHhHHHHHHHcCchhcccccC
Confidence 45578999995 57999999764
No 35
>COG4654 Cytochrome c551/c552 [Energy production and conversion]
Probab=92.12 E-value=0.43 Score=40.11 Aligned_cols=60 Identities=25% Similarity=0.325 Sum_probs=41.0
Q ss_pred CCCchhHHhhhcCChHHHHHHHhcCCCCCCCcccCCCCcCCCCCCCCcccCccccccCcccccCCChhhHhhhHHHHHHH
Q 042592 179 PPDLSLITKARHDGQNYVFALLTGYRDPPAGVSIREGLHYNPYFPGGAIAMPKMLIDGALEYEDGTPATEAQMGKDVVTF 258 (310)
Q Consensus 179 PPDLSliakaR~~G~dYIyslL~gy~dpP~g~~~~~g~~yN~~fpg~~iaMP~~L~d~~v~y~DGtpat~~Q~akDVvaF 258 (310)
-|-++-|+....|+++=.-.|+.|-. |.|+- |-+-|-||+.+.- ..+..++.+++|.+|
T Consensus 47 GPS~kdIAakYag~~~~~~kl~q~i~--~g~~g-----------~wg~ipMppqp~~--------sd~~a~~~~kwvl~~ 105 (110)
T COG4654 47 GPSYKDIAAKYAGKAGALAKLAQGIK--PGGVG-----------VWGPIPMPPQPAI--------SDADAKTLAKWVLAF 105 (110)
T ss_pred CccHHHHHHHHccchhHHHHHHHhcc--ccCcC-----------ccccCCCCCcccc--------cchHHHHHHHHHHhc
Confidence 46777777777778888888888633 55543 2234889998652 334566788888887
Q ss_pred H
Q 042592 259 L 259 (310)
Q Consensus 259 L 259 (310)
.
T Consensus 106 ~ 106 (110)
T COG4654 106 I 106 (110)
T ss_pred c
Confidence 5
No 36
>COG3258 Cytochrome c [Energy production and conversion]
Probab=91.98 E-value=0.26 Score=47.55 Aligned_cols=27 Identities=30% Similarity=0.655 Sum_probs=21.9
Q ss_pred HHHHhHHHHHHHhhcccccccccchhh
Q 042592 93 ASIRRGHQVYQQVCASCHSMSLISYRD 119 (310)
Q Consensus 93 aslqRG~qvy~~vCaaCHSlk~v~yr~ 119 (310)
++..||.++|++.|+.||+..-+--++
T Consensus 160 adp~rG~kly~eqCa~CHg~~G~G~k~ 186 (293)
T COG3258 160 ADPVRGKKLYAEQCAACHGADGQGLKN 186 (293)
T ss_pred CCchhHHHHHHHHHHHhcCCCCCcccc
Confidence 567999999999999999876554443
No 37
>PRK14485 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional
Probab=91.09 E-value=0.88 Score=49.15 Aligned_cols=20 Identities=30% Similarity=0.667 Sum_probs=16.5
Q ss_pred HHhHHHHHH-Hhhcccccccc
Q 042592 95 IRRGHQVYQ-QVCASCHSMSL 114 (310)
Q Consensus 95 lqRG~qvy~-~vCaaCHSlk~ 114 (310)
-.+|.++|. |=|..|||..-
T Consensus 537 ~~~Gr~iyi~egC~~CHsq~v 557 (712)
T PRK14485 537 ELEGRDLYIREGCYNCHSQMI 557 (712)
T ss_pred HHhhHHHHHHcCccccccccC
Confidence 469999995 57999999765
No 38
>PF06537 DUF1111: Protein of unknown function (DUF1111); InterPro: IPR010538 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=82.31 E-value=0.88 Score=47.28 Aligned_cols=27 Identities=44% Similarity=0.808 Sum_probs=23.6
Q ss_pred cchHHHHhHHHHHHH-hhcccccccccc
Q 042592 90 YDHASIRRGHQVYQQ-VCASCHSMSLIS 116 (310)
Q Consensus 90 ~D~aslqRG~qvy~~-vCaaCHSlk~v~ 116 (310)
.|..+++||.++|.+ -|++||.-++..
T Consensus 358 ~~~~~v~~G~~lF~~~GCa~CH~p~~~T 385 (499)
T PF06537_consen 358 LDDPQVLRGKQLFYQIGCASCHTPSLTT 385 (499)
T ss_pred CCcHHHHHHHHHHHhcCCcccCCCccCC
Confidence 467899999999988 599999999865
No 39
>TIGR03791 TTQ_mauG tryptophan tryptophylquinone biosynthesis enzyme MauG. Members of this protein family are the tryptophan tryptophylquinone biosynthesis (TTQ) enzyme MauG, as found in Methylobacterium extorquens and related species. This protein is required to complete the maturation of the TTQ cofactor in the methylamine dehydrogenase light (beta) chain.
Probab=79.98 E-value=1 Score=43.55 Aligned_cols=23 Identities=35% Similarity=0.683 Sum_probs=18.9
Q ss_pred hHHHHhHHHHHH--Hhhcccccccc
Q 042592 92 HASIRRGHQVYQ--QVCASCHSMSL 114 (310)
Q Consensus 92 ~aslqRG~qvy~--~vCaaCHSlk~ 114 (310)
.++-+||+++|. ..|++||+-..
T Consensus 156 s~~e~~G~~LF~~k~~C~~CH~g~~ 180 (291)
T TIGR03791 156 GADAKRGFALFKGKAGCAACHSSWR 180 (291)
T ss_pred CHHHHHHHHHhcCCCCCCCCCCCCC
Confidence 457899999997 46999998654
No 40
>PF01322 Cytochrom_C_2: Cytochrome C'; InterPro: IPR002321 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class II includes the high-spin cytC' and a number of low-spin cytochromes, e.g. cyt c-556. The haem-attachment site is close to the C terminus. The cytC' are capable of binding such ligands as CO, NO or CN(-), albeit with rate and equilibrium constants 100 to 1,000,000-fold smaller than other high-spin haemoproteins []. This, coupled with its relatively low redox potential, makes it unlikely that cytC' is a terminal oxidase. Thus cytC' probably functions as an electron transfer protein []. The 3D structures of a number of cytC' have been determined. The molecule usually exists as a dimer, each monomer folding as a four-alpha-helix bundle incorporating a covalently-bound haem group at the core []. The Chromatium vinosum cytC' exhibits dimer dissociation upon ligand binding [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0005746 mitochondrial respiratory chain; PDB: 1BBH_A 2J9B_B 2J8W_A 1JAF_B 3ZTM_A 2XLD_A 2XL6_A 1E86_A 2YLD_A 2YKZ_A ....
Probab=73.07 E-value=1.8 Score=35.77 Aligned_cols=21 Identities=29% Similarity=0.612 Sum_probs=19.7
Q ss_pred chHHHHhHHHHHHHhhccccc
Q 042592 91 DHASIRRGHQVYQQVCASCHS 111 (310)
Q Consensus 91 D~aslqRG~qvy~~vCaaCHS 111 (310)
|..++++.+.-....|.+||.
T Consensus 99 d~~~~~~a~~~v~~~C~aCH~ 119 (122)
T PF01322_consen 99 DLAAIKAAFGEVGKSCKACHD 119 (122)
T ss_dssp SHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHH
Confidence 788999999999999999996
No 41
>PF09086 DUF1924: Domain of unknown function (DUF1924); InterPro: IPR015170 This entry is found in a set of bacterial proteins, including Cytochrome c-type protein. It is functionally uncharacterised. ; PDB: 1DW2_C 1DW1_A 1DW3_C 1DW0_A 1OAE_A 1GU2_B 1E8E_A.
Probab=66.06 E-value=2.6 Score=35.04 Aligned_cols=23 Identities=35% Similarity=0.647 Sum_probs=16.0
Q ss_pred hHHHHhHHHHHHH-h--------hcccccccc
Q 042592 92 HASIRRGHQVYQQ-V--------CASCHSMSL 114 (310)
Q Consensus 92 ~aslqRG~qvy~~-v--------CaaCHSlk~ 114 (310)
..+..||.++|.. . |++||+...
T Consensus 8 ~~sa~rG~~~f~~~~~~~g~~~sCasCH~~~p 39 (98)
T PF09086_consen 8 GFSAARGEAFFTSKHTGNGKEWSCASCHTADP 39 (98)
T ss_dssp S--HHHHHHHHH--ECCTTCECSCHHHH-SST
T ss_pred CCCHHHHHHHHHccCCCCCCCCCcccccCCCc
Confidence 4567999999965 3 999999766
No 42
>PF03492 Methyltransf_7: SAM dependent carboxyl methyltransferase; InterPro: IPR005299 This family of plant methyltransferases contains enzymes that act on a variety of substrates including salicylic acid, jasmonic acid and 7-Methylxanthine. Caffeine is synthesized through sequential three-step methylation of xanthine derivatives at positions 7-N, 3-N, and 1-N. The protein 7-methylxanthine methyltransferase (designated as CaMXMT) catalyses the second step to produce theobromine [].; GO: 0008168 methyltransferase activity; PDB: 2EFJ_A 1M6E_X 2EG5_C 3B5I_B.
Probab=64.82 E-value=8 Score=37.89 Aligned_cols=48 Identities=29% Similarity=0.580 Sum_probs=28.4
Q ss_pred CCCcCCCCCCCCcc-------------cCcccccc--------CcccccCCChhh-----HhhhHHHHHHHHhh
Q 042592 214 EGLHYNPYFPGGAI-------------AMPKMLID--------GALEYEDGTPAT-----EAQMGKDVVTFLSW 261 (310)
Q Consensus 214 ~g~~yN~~fpg~~i-------------aMP~~L~d--------~~v~y~DGtpat-----~~Q~akDVvaFL~w 261 (310)
+|.|||..||.+.+ -.|..|.+ |-|-+..++|.. .+|..+|..+||.-
T Consensus 95 pgSFy~rLfP~~Svh~~~Ss~alHWLS~vP~~l~~~~~~~~Nkg~i~~~~~~~~~v~~ay~~Qf~~D~~~FL~~ 168 (334)
T PF03492_consen 95 PGSFYGRLFPSNSVHFGHSSYALHWLSQVPEELVDKSSPAWNKGNIYISRTSPPEVAKAYAKQFQKDFSSFLKA 168 (334)
T ss_dssp ES-TTS--S-TT-EEEEEEES-TTB-SSS-CCCCTTTSTTTSTTTSSSSTTS-HHHHHHHHHHHHHHHHHHHHH
T ss_pred CchhhhccCCCCceEEEEEechhhhcccCCcccccccccccccCcEEEecCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 68999999998752 23777766 234444455544 48999999999986
No 43
>COG3488 Predicted thiol oxidoreductase [Energy production and conversion]
Probab=63.81 E-value=3.8 Score=41.24 Aligned_cols=29 Identities=24% Similarity=0.671 Sum_probs=24.3
Q ss_pred hHHHHhHHHHHHH-hhcccccccccchhhc
Q 042592 92 HASIRRGHQVYQQ-VCASCHSMSLISYRDL 120 (310)
Q Consensus 92 ~aslqRG~qvy~~-vCaaCHSlk~v~yr~L 120 (310)
-.++++|.++|.+ -|.+||.-+++.=|+-
T Consensus 348 dp~vl~GkkLF~~agC~aCH~pkfvTrrdA 377 (481)
T COG3488 348 DPQVLAGKKLFAQAGCVACHTPKFVTRRDA 377 (481)
T ss_pred ChhhhhhhHHHHhcCchhccCCceeccccC
Confidence 4689999999977 7999999999775553
No 44
>COG3245 CycB Cytochrome c5 [Energy production and conversion]
Probab=60.92 E-value=3 Score=36.00 Aligned_cols=19 Identities=37% Similarity=0.927 Sum_probs=16.4
Q ss_pred HhHHHHHHHhhcccccccc
Q 042592 96 RRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 96 qRG~qvy~~vCaaCHSlk~ 114 (310)
-+|.+||...|..||+...
T Consensus 48 ~~Gk~vy~~tC~~CHa~~~ 66 (126)
T COG3245 48 PEGKKVYGATCQACHAAGL 66 (126)
T ss_pred CccchhHhhhhhHhccCCC
Confidence 3588999999999999755
No 45
>TIGR02162 torC trimethylamine-N-oxide reductase c-type cytochrome TorC. This family includes consists of TorC, a pentahemic c-type cytochrome subunit of periplasmic reductases for trimethylamine-N-oxide (TMAO). The N-terminal half is closely related to tetrahemic NapC (or NirT) subunits of periplasmic nitrate (or nitrite) reductases; some species have both TMAO and nitrate reductase complexes.
Probab=60.66 E-value=4.8 Score=40.66 Aligned_cols=22 Identities=18% Similarity=0.454 Sum_probs=19.1
Q ss_pred HHHHhHHHHHHHhhcccccccc
Q 042592 93 ASIRRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 93 aslqRG~qvy~~vCaaCHSlk~ 114 (310)
.-.+.|.++|.+.|+.||++.-
T Consensus 319 ~lw~~a~~ly~~~Cs~CH~~~~ 340 (386)
T TIGR02162 319 PVWAYAKSMYNGACSMCHVQPE 340 (386)
T ss_pred HHHHHHHHHHhcchhhhcCCCC
Confidence 4468999999999999999865
No 46
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=59.31 E-value=17 Score=40.07 Aligned_cols=67 Identities=25% Similarity=0.203 Sum_probs=43.9
Q ss_pred CCcccCccccccCcccccCCChhhHhhhHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc-ccc
Q 042592 224 GGAIAMPKMLIDGALEYEDGTPATEAQMGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYRRLRWSVL-KSR 302 (310)
Q Consensus 224 g~~iaMP~~L~d~~v~y~DGtpat~~Q~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~Kr~~W~~v-k~r 302 (310)
|-+||.|.|-..|.+... -. ||++|=... ----+|-.+++.|++|++|+|+.+|+-|+.- |+|
T Consensus 246 GYWiAA~~P~~~G~~~~~---------~~-Di~~YHT~f------Ll~ILG~~~livl~lL~vLl~yCrrkc~~~r~~~~ 309 (807)
T PF10577_consen 246 GYWIAAMSPSSSGPVVST---------GS-DITTYHTVF------LLAILGGTALIVLILLCVLLCYCRRKCLKPRQRHR 309 (807)
T ss_pred chhhhccCccccCccccc---------CC-CchhHHHHH------HHHHHHHHHHHHHHHHHHHHHhhhcccCCcccccc
Confidence 556776666555444321 11 666642211 1134777788888999999999999999988 577
Q ss_pred eeee
Q 042592 303 KLVL 306 (310)
Q Consensus 303 k~~~ 306 (310)
|+..
T Consensus 310 ~~~l 313 (807)
T PF10577_consen 310 KLTL 313 (807)
T ss_pred cccc
Confidence 8764
No 47
>PRK15032 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional
Probab=58.72 E-value=4.7 Score=40.79 Aligned_cols=21 Identities=19% Similarity=0.487 Sum_probs=18.5
Q ss_pred HHHhHHHHHHHhhcccccccc
Q 042592 94 SIRRGHQVYQQVCASCHSMSL 114 (310)
Q Consensus 94 slqRG~qvy~~vCaaCHSlk~ 114 (310)
--+.|.++|...|+.||++--
T Consensus 317 lw~ya~~ly~~~Cs~CHa~~~ 337 (390)
T PRK15032 317 IWAYADSLYNGTCNQCHGAPE 337 (390)
T ss_pred HHHHHHHHHhccchhhcCCCC
Confidence 458899999999999999865
No 48
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=58.22 E-value=8.1 Score=34.59 Aligned_cols=23 Identities=9% Similarity=0.024 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHhcccc
Q 042592 277 WIFVLSLALLQAGYYRRLRWSVL 299 (310)
Q Consensus 277 Vl~fL~il~~l~y~~Kr~~W~~v 299 (310)
++.+++.|++|.|+++|.+|+.|
T Consensus 34 ~~~~lI~F~iL~~ll~k~l~~PI 56 (181)
T PRK13454 34 IFWLLVTLVAIYFVLTRVALPRI 56 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45567778888888999999877
No 49
>PRK10617 cytochrome c-type protein NapC; Provisional
Probab=55.13 E-value=16 Score=33.87 Aligned_cols=26 Identities=19% Similarity=0.396 Sum_probs=18.6
Q ss_pred hhHHhhhcCChHHHHHHHhcCCCCCCCc
Q 042592 183 SLITKARHDGQNYVFALLTGYRDPPAGV 210 (310)
Q Consensus 183 SliakaR~~G~dYIyslL~gy~dpP~g~ 210 (310)
.+++|++ +...+|.+++|..|.|..+
T Consensus 99 k~~~K~~--a~~dv~~~~~~~idt~ekf 124 (200)
T PRK10617 99 KMIRKIK--ASKELYGKIFGVIDTPQKF 124 (200)
T ss_pred HHHHHHH--HHhHHHHHhhcCCCChHHH
Confidence 4778887 5778898888865656543
No 50
>TIGR02161 napC_nirT periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family. Nearly every member of this subfamily is NapC, a predicted membrane-anchored four-heme c-type cytochrome that forms one component of the periplasmic nitrate reductase along with NapA, NapB, NapD, NapE, and NapF subunits. A single known exception at this time is NirT, which is instead a component of a nitrite reductase. This family excludes TorC subunits of trimethylamine N-oxide (TMAO) reductases.
Probab=54.29 E-value=18 Score=32.92 Aligned_cols=23 Identities=22% Similarity=0.277 Sum_probs=16.6
Q ss_pred hHHhhhcCChHHHHHHHhcCCCCCC
Q 042592 184 LITKARHDGQNYVFALLTGYRDPPA 208 (310)
Q Consensus 184 liakaR~~G~dYIyslL~gy~dpP~ 208 (310)
+++|++ |...+|..++|-.|.|.
T Consensus 91 ~~~K~~--~~kdv~~~~~g~~~~~~ 113 (185)
T TIGR02161 91 MARKVQ--ASKEVWGHLFGTIDTRE 113 (185)
T ss_pred HHHHHH--HHHHHHHhHccCCCCHH
Confidence 577777 77888888887555553
No 51
>PF03264 Cytochrom_NNT: NapC/NirT cytochrome c family, N-terminal region; InterPro: IPR005126 Within the NapC/NirT family of cytochrome c proteins, some members, such as NapC P33932 from SWISSPROT and NirT P24038 from SWISSPROT, bind four haem groups, while others, such as TorC P33226 from SWISSPROT, bind five haems. This family aligns the common N-terminal region that contains four haem-binding C-X(2)-CH motifs.; PDB: 2VR0_F 2J7A_C.
Probab=53.64 E-value=6.3 Score=34.66 Aligned_cols=29 Identities=38% Similarity=0.528 Sum_probs=16.9
Q ss_pred CCCCch--hHHhhhcCChHHHHHHHhcCCCCCC
Q 042592 178 YPPDLS--LITKARHDGQNYVFALLTGYRDPPA 208 (310)
Q Consensus 178 ~PPDLS--liakaR~~G~dYIyslL~gy~dpP~ 208 (310)
+||+.. +.+|++ |...+|..++|..++|.
T Consensus 72 ~p~~~~~~~~~K~~--G~~~v~~~~~g~~~~p~ 102 (173)
T PF03264_consen 72 LPHGFFGYLKAKAQ--GLKDVYGHLTGTFDTPE 102 (173)
T ss_dssp S-SSHHHHHHHHHH--HHHHHHHHH---TS---
T ss_pred CCcchHHHHHHHHH--HHHHHHHhhhhccCCcc
Confidence 488765 666776 99999999988655554
No 52
>COG1858 MauG Cytochrome c peroxidase [Inorganic ion transport and metabolism]
Probab=53.12 E-value=7.1 Score=39.26 Aligned_cols=26 Identities=23% Similarity=0.514 Sum_probs=20.7
Q ss_pred HHHHhHHHHHH--Hhhcccccccccchh
Q 042592 93 ASIRRGHQVYQ--QVCASCHSMSLISYR 118 (310)
Q Consensus 93 aslqRG~qvy~--~vCaaCHSlk~v~yr 118 (310)
.+=+||+++|. ..|++||...-+..+
T Consensus 218 ~~e~rGl~LF~~k~~C~aCH~g~~~gg~ 245 (364)
T COG1858 218 EQEKRGLALFKGKANCAACHNGINLGGN 245 (364)
T ss_pred HHHHHHHHHHccCCCchhhccCccCCCC
Confidence 45689999998 589999998775443
No 53
>PF03150 CCP_MauG: Di-haem cytochrome c peroxidase; InterPro: IPR004852 This is a group of distinct cytochrome c peroxidases (CCPs) that contain two haem groups. Similar to other cytochrome c peroxidases, they reduce hydrogen peroxide to water using c-type haem as an oxidizable substrate. However, since they possess two, instead of one, haem prosthetic groups, bacterial CCPs reduce hydrogen peroxide without the need to generate semi-stable free radicals. The two haem groups have significantly different redox potentials. The high potential (+320 mV) haem feeds electrons from electron shuttle proteins to the low potential (-330 mV) haem, where peroxide is reduced (indeed, the low potential site is known as the peroxidatic site) []. The CCP protein itself is structured into two domains, each containing one c-type haem group, with a calcium-binding site at the domain interface. This family also includes MauG proteins, whose similarity to di-haem CCP was previously recognised [].; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1IQC_A 2VHD_B 1EB7_A 3RN0_A 3SVW_B 3RMZ_A 3SJL_B 3PXW_A 3SLE_B 3PXS_A ....
Probab=52.85 E-value=7.4 Score=34.33 Aligned_cols=23 Identities=30% Similarity=0.590 Sum_probs=16.0
Q ss_pred hHHHHhHHHHHHH---------hhcccccccc
Q 042592 92 HASIRRGHQVYQQ---------VCASCHSMSL 114 (310)
Q Consensus 92 ~aslqRG~qvy~~---------vCaaCHSlk~ 114 (310)
.+.++-|.++|-. -|++||....
T Consensus 2 ~~~~~LGk~LF~D~~LS~~~~~SCasCH~~~~ 33 (159)
T PF03150_consen 2 PAKAALGKKLFFDPRLSGDGTVSCASCHDPEH 33 (159)
T ss_dssp HHHHHHHHHHHT-GGGSTTSS--HHHHS-TTT
T ss_pred HHHHHHHHHHhCCCccCCCcCcCchhhCCCcc
Confidence 3567788888876 7999999764
No 54
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=50.96 E-value=20 Score=32.83 Aligned_cols=46 Identities=20% Similarity=0.085 Sum_probs=27.5
Q ss_pred HHHHHhhhcCCcHH-H-----HHHHH-HHHH-HHHHHHHHHHHHHHHHhccccc
Q 042592 255 VVTFLSWAAEPEME-E-----RKLMG-FKWI-FVLSLALLQAGYYRRLRWSVLK 300 (310)
Q Consensus 255 VvaFL~waAEP~~~-~-----Rk~~G-~~Vl-~fL~il~~l~y~~Kr~~W~~vk 300 (310)
|+.||..+.+|..+ . ...+. ++.+ .-++-|.+|++++++.+|+.++
T Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~qlInFlIlv~lL~k~l~kPi~ 74 (205)
T PRK06231 21 ISLFLVSCTENVEELKSKSIINELFPNFWVFIAHLIAFSILLLLGIFLFWKPTQ 74 (205)
T ss_pred HHHHHHHccCChhhcCHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67788888887321 1 12222 2222 2356677778888888887763
No 55
>PRK09400 secE preprotein translocase subunit SecE; Reviewed
Probab=49.73 E-value=1e+02 Score=23.43 Aligned_cols=46 Identities=20% Similarity=-0.021 Sum_probs=39.0
Q ss_pred hHhhhHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042592 247 TEAQMGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYR 292 (310)
Q Consensus 247 t~~Q~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~K 292 (310)
...+..+|-..+|.=+.-|..+|=+++-.-+.+-++++.++.|+.|
T Consensus 9 ~~~~f~~d~~rvl~~~~KPd~~Ef~~ia~~~~iG~~i~G~iGf~Ik 54 (61)
T PRK09400 9 NVKNFLEDYKRVLKVARKPTREEFLLVAKVTGLGILLIGLIGFIIY 54 (61)
T ss_pred hHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677889999999999999999999988888877777777777655
No 56
>TIGR02162 torC trimethylamine-N-oxide reductase c-type cytochrome TorC. This family includes consists of TorC, a pentahemic c-type cytochrome subunit of periplasmic reductases for trimethylamine-N-oxide (TMAO). The N-terminal half is closely related to tetrahemic NapC (or NirT) subunits of periplasmic nitrate (or nitrite) reductases; some species have both TMAO and nitrate reductase complexes.
Probab=49.31 E-value=24 Score=35.72 Aligned_cols=9 Identities=44% Similarity=0.977 Sum_probs=6.6
Q ss_pred hhccccccc
Q 042592 105 VCASCHSMS 113 (310)
Q Consensus 105 vCaaCHSlk 113 (310)
.|..||-..
T Consensus 75 ~C~DCHvP~ 83 (386)
T TIGR02162 75 ECADCHVPH 83 (386)
T ss_pred cCcccCCCC
Confidence 588888765
No 57
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=49.15 E-value=35 Score=30.58 Aligned_cols=12 Identities=8% Similarity=0.174 Sum_probs=8.8
Q ss_pred ccCCCCHHHHHH
Q 042592 121 VGVAYTEDETKA 132 (310)
Q Consensus 121 ~~~g~te~evka 132 (310)
.++.+|++|-.+
T Consensus 49 ~~L~LTdeQk~q 60 (170)
T PRK12750 49 RQLDLTDAQKEQ 60 (170)
T ss_pred hhCCCCHHHHHH
Confidence 578899988444
No 58
>PF09626 DHC: Dihaem cytochrome c; InterPro: IPR018588 Dihaem cytochrome c (DHC) is a soluble c-type cytochrome that folds into two distinct domains, each binding a single haem group and connected by a small linker region. Despite little sequence similarity, the N-terminal domain (residues 12-75) is a class I type cytochrome c, that binds one of the haems, but the domain surrounding the other haem is structurally unique. DHC binds electrostatically to an oxygen-binding protein, sphaeroides haem protein (SHP), as a component of a conserved electron transfer pathway. DHC acts as the physiological electron donor for SHP during phototrophic growth []. In certain species DHC is found upstream of IPR011577 from INTERPRO. ; PDB: 2FWT_A 2FW5_A.
Probab=49.10 E-value=7.5 Score=33.19 Aligned_cols=25 Identities=20% Similarity=0.476 Sum_probs=14.4
Q ss_pred HHHhhcccccccccchhhcccCC-CCHHHHHHHH
Q 042592 102 YQQVCASCHSMSLISYRDLVGVA-YTEDETKAMA 134 (310)
Q Consensus 102 y~~vCaaCHSlk~v~yr~L~~~g-~te~evka~A 134 (310)
|.+.|++||-.-. .+ |+.+.++.|-
T Consensus 1 Y~~eCgsCH~ayp--------P~~Lpa~sW~~im 26 (120)
T PF09626_consen 1 YKEECGSCHMAYP--------PGLLPAESWQKIM 26 (120)
T ss_dssp -HHHTTSSS------------GGGS-HHHHHHHH
T ss_pred CccchhhccCcCC--------cccCCHHHHHHHH
Confidence 7899999996522 22 6777777663
No 59
>PF12669 P12: Virus attachment protein p12 family
Probab=47.42 E-value=12 Score=27.94 Aligned_cols=24 Identities=17% Similarity=-0.148 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHhcccccc
Q 042592 278 IFVLSLALLQAGYYRRLRWSVLKS 301 (310)
Q Consensus 278 l~fL~il~~l~y~~Kr~~W~~vk~ 301 (310)
|+.++|+++++|.+-|++||+-|+
T Consensus 3 II~~Ii~~~~~~v~~r~~~k~~K~ 26 (58)
T PF12669_consen 3 IIGIIILAAVAYVAIRKFIKDKKK 26 (58)
T ss_pred eHHHHHHHHHHHHHHHHHHHHhhc
Confidence 455666776777777888887553
No 60
>PHA02650 hypothetical protein; Provisional
Probab=46.57 E-value=41 Score=27.19 Aligned_cols=35 Identities=17% Similarity=0.050 Sum_probs=23.6
Q ss_pred HHHHHHHHHH----HHHHHHHHHHHHHHHHhccccccce
Q 042592 269 ERKLMGFKWI----FVLSLALLQAGYYRRLRWSVLKSRK 303 (310)
Q Consensus 269 ~Rk~~G~~Vl----~fL~il~~l~y~~Kr~~W~~vk~rk 303 (310)
.++..+++.+ ++.+++.++.+++-|-+|+++..||
T Consensus 43 ~~~~~~~~~~ii~i~~v~i~~l~~flYLK~~~r~~~~~~ 81 (81)
T PHA02650 43 SVSWFNGQNFIFLIFSLIIVALFSFFVFKGYTRNLNGRK 81 (81)
T ss_pred ccCCchHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCC
Confidence 3555554443 3344556677888899999998876
No 61
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=44.96 E-value=16 Score=32.34 Aligned_cols=30 Identities=13% Similarity=0.047 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccccccc
Q 042592 273 MGFKWIFVLSLALLQAGYYRRLRWSVLKSR 302 (310)
Q Consensus 273 ~G~~Vl~fL~il~~l~y~~Kr~~W~~vk~r 302 (310)
+.+.++.|++++.+|.+++++.+.+-+..|
T Consensus 21 ~~~~iInFliL~~lL~~~l~~pi~~~l~~R 50 (173)
T PRK13453 21 VIVTVLTFIVLLALLKKFAWGPLKDVMDKR 50 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455555555555555555555444444
No 62
>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH. This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.
Probab=44.89 E-value=13 Score=36.50 Aligned_cols=33 Identities=15% Similarity=0.489 Sum_probs=27.8
Q ss_pred HHhhcccccccccchhhcccCCCCHHHHHHHHHhh
Q 042592 103 QQVCASCHSMSLISYRDLVGVAYTEDETKAMAAEI 137 (310)
Q Consensus 103 ~~vCaaCHSlk~v~yr~L~~~g~te~evka~Aae~ 137 (310)
..+|..||.|++ |+.+.+..+++++..++...+
T Consensus 28 ~~~C~RC~~l~h--y~~~~~~~~~~e~f~~~l~~~ 60 (360)
T TIGR03597 28 EVYCQRCFRLKH--YNEIQDVELNDDDFLNLLNSL 60 (360)
T ss_pred Ceeecchhhhhc--cCccccCCCCHHHHHHHHhhc
Confidence 458999999988 999888889999888877665
No 63
>PF00672 HAMP: HAMP domain; InterPro: IPR003660 The HAMP linker domain (present in Histidine kinases, Adenyl cyclases, Methyl-accepting proteins and Phosphatases) is an approximately 50-amino acid alpha-helical region. It is found in bacterial sensor and chemotaxis proteins and in eukaryotic histidine kinases. The bacterial proteins are usually integral membrane proteins and part of a two-component signal transduction pathway. One or several copies of the HAMP domain can be found in association with other domains, such as the histidine kinase domain, the bacterial chemotaxis sensory transducer domain, the PAS repeat, the EAL domain, the GGDEF domain, the protein phosphatase 2C-like domain, the guanylate cyclase domain, or the response regulatory domain. It has been suggested that the HAMP domain possesses a role of regulating the phosphorylation or methylation of homodimeric receptors by transmitting the conformational changes in periplasmic ligand-binding domains to cytoplasmic signalling kinase and methyl-acceptor domains.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016021 integral to membrane; PDB: 3PJX_A 3PJW_A 3ZX6_B 2Y20_B 2Y0Q_D 2Y21_H 3ZRW_C 2L7H_B 2LFS_B 2L7I_B ....
Probab=44.63 E-value=21 Score=25.74 Aligned_cols=28 Identities=25% Similarity=0.233 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccccc
Q 042592 273 MGFKWIFVLSLALLQAGYYRRLRWSVLK 300 (310)
Q Consensus 273 ~G~~Vl~fL~il~~l~y~~Kr~~W~~vk 300 (310)
+.+.+++.+++..++.|++.|.+.+.++
T Consensus 1 L~~~~~~~~~~~~~~~~~~~~~i~~pl~ 28 (70)
T PF00672_consen 1 LLVLFLIILLLSLLLAWLLARRITRPLR 28 (70)
T ss_dssp -HHHHHHHHHHHHHHHHH--HTTCCCHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677788888899999999999885
No 64
>PF10643 Cytochrome-c551: Photosystem P840 reaction-centre cytochrome c-551; InterPro: IPR019604 A photosynthetic reaction-centre complex is found in certain green sulphur bacteria such as Chlorobium vibrioforme, which are anaerobic photo-auto-trophic organisms. The primary electron donor is P840, a probable B-Chl a dimer, and the primary electron acceptor is a B-Chl monomer. Also on the donor side c-type cytochromes are known to function as electron donors to photo-oxidised P840. This family is thus the secondary endogenous donor of the photosynthetic reaction-centre complex and is a membrane-bound cytochrome containing a single haem group. ; PDB: 3A9F_A.
Probab=43.45 E-value=10 Score=35.75 Aligned_cols=16 Identities=19% Similarity=0.866 Sum_probs=13.9
Q ss_pred HHHHHhhccccccccc
Q 042592 100 QVYQQVCASCHSMSLI 115 (310)
Q Consensus 100 qvy~~vCaaCHSlk~v 115 (310)
++|..-|-.||+++++
T Consensus 174 ~L~~~KCNkCHTl~SV 189 (233)
T PF10643_consen 174 ALFDRKCNKCHTLKSV 189 (233)
T ss_dssp HHHHHHTTSSS-SHHH
T ss_pred HHHHhhccccccHHHH
Confidence 7999999999999985
No 65
>PRK13796 GTPase YqeH; Provisional
Probab=43.10 E-value=15 Score=36.25 Aligned_cols=32 Identities=22% Similarity=0.520 Sum_probs=26.0
Q ss_pred HhhcccccccccchhhcccCCCCHHHHHHHHHhh
Q 042592 104 QVCASCHSMSLISYRDLVGVAYTEDETKAMAAEI 137 (310)
Q Consensus 104 ~vCaaCHSlk~v~yr~L~~~g~te~evka~Aae~ 137 (310)
-+|..||.+++ |+.+.+..+++++.+++-+++
T Consensus 35 ~~C~RC~~l~h--y~~~~~~~~~~~~~~~~l~~i 66 (365)
T PRK13796 35 VYCQRCFRLKH--YNEIQDVSLTDDDFLKLLNGI 66 (365)
T ss_pred eEchhhhhhhc--cCcccCCCCCHHHHHHHHHhh
Confidence 47999999988 999988889998876655543
No 66
>PRK15032 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional
Probab=42.95 E-value=35 Score=34.61 Aligned_cols=9 Identities=33% Similarity=0.851 Sum_probs=5.8
Q ss_pred hhccccccc
Q 042592 105 VCASCHSMS 113 (310)
Q Consensus 105 vCaaCHSlk 113 (310)
.|..||...
T Consensus 76 ~C~DCH~P~ 84 (390)
T PRK15032 76 ECHDCHIPP 84 (390)
T ss_pred cCcccCCCC
Confidence 477777654
No 67
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=42.74 E-value=20 Score=31.08 Aligned_cols=23 Identities=13% Similarity=0.008 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHhcccc
Q 042592 277 WIFVLSLALLQAGYYRRLRWSVL 299 (310)
Q Consensus 277 Vl~fL~il~~l~y~~Kr~~W~~v 299 (310)
++++++.|.+|+|+++|.+|+.|
T Consensus 25 ~~~~~inFliL~~lL~k~l~~Pi 47 (156)
T CHL00118 25 LPLMALQFLLLMVLLNIILYKPL 47 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44667788888999999999887
No 68
>TIGR00327 secE_euk_arch protein translocase SEC61 complex gamma subunit, archaeal and eukaryotic. This model describes archaeal SEC61-like and eukaryotic SEC61 but not bacterial secE proteins, for which a Pfam pfam00584 (SecE) has been created.
Probab=42.58 E-value=1.4e+02 Score=22.71 Aligned_cols=46 Identities=11% Similarity=0.036 Sum_probs=38.1
Q ss_pred hHhhhHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042592 247 TEAQMGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYR 292 (310)
Q Consensus 247 t~~Q~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~K 292 (310)
...+..+|=..+|.=+--|..+|=+++-.-+.+-++++.++.|+.|
T Consensus 5 ~~~~f~k~~~r~lk~~~KPd~~Ef~~iak~t~iG~~i~G~IGf~Ik 50 (61)
T TIGR00327 5 APVEFIKEGTRVLAVCKKPDLEEYLKVAKVTGIGIIIVGIIGYIIK 50 (61)
T ss_pred hHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567889999999999999999998888777777777777777654
No 69
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=42.15 E-value=37 Score=29.82 Aligned_cols=26 Identities=12% Similarity=-0.134 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc
Q 042592 272 LMGFKWIFVLSLALLQAGYYRRLRWS 297 (310)
Q Consensus 272 ~~G~~Vl~fL~il~~l~y~~Kr~~W~ 297 (310)
-++.-++++++++++.+|..-|.+|.
T Consensus 120 ~i~~~i~g~ll~i~~giy~~~r~~~~ 145 (145)
T PF10661_consen 120 TILLSIGGILLAICGGIYVVLRKVWE 145 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 46666777889999999999999994
No 70
>KOG3453 consensus Cytochrome c [Energy production and conversion]
Probab=41.80 E-value=6.3 Score=33.49 Aligned_cols=27 Identities=22% Similarity=0.712 Sum_probs=22.3
Q ss_pred HHHhHHHHHHHhhcccccccccchhhc
Q 042592 94 SIRRGHQVYQQVCASCHSMSLISYRDL 120 (310)
Q Consensus 94 slqRG~qvy~~vCaaCHSlk~v~yr~L 120 (310)
..++|.++|.+-|..||+.+-.-++..
T Consensus 8 d~~~g~~~f~~rc~qch~~~~~~~~k~ 34 (110)
T KOG3453|consen 8 DVEKGKKIFPQRCAQCHTVEKGGFHKT 34 (110)
T ss_pred ccccccccceeeccccccccCCccccc
Confidence 458899999999999999988655543
No 71
>PF09098 Dehyd-heme_bind: Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; InterPro: IPR015182 Quinohemoprotein amine dehydrogenases (QHNDH) 1.4.99 from EC) are enzymes produced in the periplasmic space of certain Gram-negative bacteria, such as Paracoccus denitrificans and Pseudomonas putida, in response to primary amines, including n-butylamine and benzylamine. QHNDH catalyses the oxidative deamination of a wide range of aliphatic and aromatic amines through formation of a Schiff-base intermediate involving one of the quinone O atoms []. Catalysis requires the presence of a novel redox cofactor, cysteine tryptophylquinone (CTQ). CTQ is derived from the post-translational modification of specific residues, which involves the oxidation of the indole ring of a tryptophan residue to form tryptophylquinone, followed by covalent cross-linking with a cysteine residue []. There is one CTQ per subunit in QHNDH. In addition to CTQ, two haem c cofactors are present in QHNDH that mediate the transfer of the substrate-derived electrons from CTQ to an external electron acceptor, cytochrome c-550 [, ]. QHNDH is a heterotrimer of alpha, beta and gamma subunits. The alpha and beta subunits contain signal peptides necessary for the translocation of QHNDH to the periplasm. The alpha subunit is composed of four domains - domain 1 forming a dihaem cytochrome, and domains 2-4 forming antiparallel beta-barrel structures; the beta subunit is a 7-bladed beta-propeller that provides part of the active site; and the small, catalytic gamma subunit contains the novel cross-linked CTQ cofactor, in addition to additional thioester cross-links between Cys and Asp/Glu residues that encage CTQ. The gamma subunit assumes a globular secondary structure with two short alpha-helices having many turns and bends []. This entry represents the dihaem cytochrome c domain of the QHNDH alpha subunit. The domain contain two cysteine residues that are involved in thioether linkages to haem []. ; PDB: 1PBY_A 1JJU_A 1JMZ_A 1JMX_A.
Probab=39.45 E-value=15 Score=33.24 Aligned_cols=32 Identities=25% Similarity=0.429 Sum_probs=20.3
Q ss_pred hHHHHHHHhhcccccccccchhhcccCCCCHHHHHHH
Q 042592 97 RGHQVYQQVCASCHSMSLISYRDLVGVAYTEDETKAM 133 (310)
Q Consensus 97 RG~qvy~~vCaaCHSlk~v~yr~L~~~g~te~evka~ 133 (310)
-+-+.+.+-|+.|||.-.+.-.+ =|++|.+.+
T Consensus 91 ~~~e~~~~~C~rCHs~aR~~lQr-----Rt~~eW~~l 122 (167)
T PF09098_consen 91 FPNEEITQMCARCHSGARVALQR-----RTAEEWEKL 122 (167)
T ss_dssp -SCHHHHHHHSSSS-THHHHTEE-----E-HHHHHHH
T ss_pred ccchHHHHHHHHhhhhhHHHHhh-----CCHHHHHHH
Confidence 34488999999999976543222 277887655
No 72
>PF07635 PSCyt1: Planctomycete cytochrome C; InterPro: IPR011429 These proteins share a region of homology at their N terminus that contains the C-{CPWHF}-{CPWR}-C-H-{CFYW} motif typical of cytochrome c.
Probab=37.74 E-value=13 Score=27.47 Aligned_cols=9 Identities=44% Similarity=0.936 Sum_probs=8.0
Q ss_pred hcccccccc
Q 042592 106 CASCHSMSL 114 (310)
Q Consensus 106 CaaCHSlk~ 114 (310)
|..||+-+-
T Consensus 1 C~~CHg~~~ 9 (59)
T PF07635_consen 1 CFSCHGPDK 9 (59)
T ss_pred CcCCCCCCC
Confidence 999999776
No 73
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=37.64 E-value=26 Score=32.26 Aligned_cols=22 Identities=9% Similarity=0.022 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHhcccc
Q 042592 278 IFVLSLALLQAGYYRRLRWSVL 299 (310)
Q Consensus 278 l~fL~il~~l~y~~Kr~~W~~v 299 (310)
+..++.|++|.|+++|.+|+.|
T Consensus 57 ~w~~I~FliL~~lL~k~~~~pI 78 (204)
T PRK09174 57 LWLAITFGLFYLFMSRVILPRI 78 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555666666666555
No 74
>PF12271 Chs3p: Chitin synthase III catalytic subunit; InterPro: IPR022057 This family of proteins is found in eukaryotes. Proteins in this family are typically between 288 and 332 amino acids in length. This family is the catalytic domain of chitin synthase III. Chitin is a major component of fungal cell walls and this enzyme is responsible for its formation.
Probab=37.02 E-value=37 Score=33.36 Aligned_cols=43 Identities=26% Similarity=0.389 Sum_probs=30.7
Q ss_pred ccCCChhhHh-----h-------hHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHH
Q 042592 240 YEDGTPATEA-----Q-------MGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLA 284 (310)
Q Consensus 240 y~DGtpat~~-----Q-------~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il 284 (310)
+||||+.++- - .---+.+|..|++. .+.++.+|++|+.|++=+
T Consensus 143 ~eDGT~~Sl~ll~~ss~~~f~~t~~isl~Tf~~w~~~--~~~~~~~~Lfvl~~l~p~ 197 (293)
T PF12271_consen 143 WEDGTPLSLWLLRGSSLILFIGTFYISLDTFKSWTGY--LSPTNTIALFVLYYLLPA 197 (293)
T ss_pred ccCChHHHHHHHHHHHHHHHHHHHHHHHHHHhccccC--CCCCCcchhHHHHHHHHH
Confidence 5799987651 1 22345577899997 677889999998876544
No 75
>cd08864 SRPBCC_DUF3074 DUF3074, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily. Uncharacterized family of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins
Probab=36.64 E-value=22 Score=32.75 Aligned_cols=18 Identities=33% Similarity=0.643 Sum_probs=15.2
Q ss_pred hhHhhhHHHHHHHHhhhc
Q 042592 246 ATEAQMGKDVVTFLSWAA 263 (310)
Q Consensus 246 at~~Q~akDVvaFL~waA 263 (310)
.+-.+.++||..||.|++
T Consensus 190 ~~p~aI~~Dv~~fl~W~~ 207 (208)
T cd08864 190 TIPKAIAKDVPLFLDWID 207 (208)
T ss_pred cCchHHHHhHHHHHHHhc
Confidence 344679999999999986
No 76
>KOG3498 consensus Preprotein translocase, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.02 E-value=1.9e+02 Score=22.70 Aligned_cols=46 Identities=11% Similarity=0.153 Sum_probs=34.4
Q ss_pred hHhhhHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042592 247 TEAQMGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYR 292 (310)
Q Consensus 247 t~~Q~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~K 292 (310)
-..+.+||-.-|+.-+--|..-|=.++-..+-+-++++.++-|+.|
T Consensus 10 ~~~~f~k~s~rf~krC~KPdrKEf~ki~~~~aiGf~~mG~iGf~vK 55 (67)
T KOG3498|consen 10 PLRDFAKDSIRFVKRCTKPDRKEFTKIAKATAIGFVIMGFIGFFVK 55 (67)
T ss_pred hHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467999999999999999987766666666555666666666654
No 77
>TIGR02611 conserved hypothetical protein TIGR02611. Members of this family are Actinobacterial putative proteins of about 150 amino acids in length with three apparent transmembrane helix and an unusual motif with consensus sequence PGPGW.
Probab=35.25 E-value=1.2e+02 Score=26.22 Aligned_cols=44 Identities=18% Similarity=0.193 Sum_probs=34.3
Q ss_pred hhhHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042592 249 AQMGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYR 292 (310)
Q Consensus 249 ~Q~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~K 292 (310)
+-..+.+.+|.+|..+++.--|..++.-..++......++|+++
T Consensus 72 ~~~~r~~~~~~~W~~~q~~~~r~~~~~~~~~~v~~vl~~~~~~~ 115 (121)
T TIGR02611 72 RWGVRKYDEFFAWYADQHVRVRNLLLGSLIVVIWAVLAGTYLWM 115 (121)
T ss_pred HHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567899999999999999998888777766666666666654
No 78
>COG0690 SecE Preprotein translocase subunit SecE [Intracellular trafficking and secretion]
Probab=35.14 E-value=75 Score=24.71 Aligned_cols=42 Identities=17% Similarity=-0.045 Sum_probs=32.2
Q ss_pred hHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042592 251 MGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYR 292 (310)
Q Consensus 251 ~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~K 292 (310)
..+|+..=+.=+-=|.+.|-.+.-+.|+.+.++++++.|.+-
T Consensus 23 f~~~~~~E~~KV~WPsrke~~~~t~~Vl~~v~~~s~~~~~~D 64 (73)
T COG0690 23 FFKEVRKELKKVVWPTRKELIRSTLIVLVVVAFFSLFLYGLD 64 (73)
T ss_pred HHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444445559999999999999999999999988764
No 79
>PF07208 DUF1414: Protein of unknown function (DUF1414); InterPro: IPR009857 This family consists of several hypothetical bacterial proteins of around 70 residues in length. Members of this family are often referred to as YejL. The function of this family is unknown.; PDB: 2JPQ_A 2JUZ_B 2JUW_B 2QTI_A 2OTA_A 2JR2_A 2JRX_A.
Probab=34.74 E-value=10 Score=27.37 Aligned_cols=19 Identities=42% Similarity=0.581 Sum_probs=12.0
Q ss_pred CCCCchhHHhhhcCChHHHHHHHh
Q 042592 178 YPPDLSLITKARHDGQNYVFALLT 201 (310)
Q Consensus 178 ~PPDLSliakaR~~G~dYIyslL~ 201 (310)
.|+|||||+.. |-+-.+|.
T Consensus 3 Ap~DLsLMvLG-----N~vTniln 21 (44)
T PF07208_consen 3 APTDLSLMVLG-----NMVTNILN 21 (44)
T ss_dssp --HHHHHHHHH-----HHHHHHHH
T ss_pred CCchhHHHHHH-----HHHHHHHh
Confidence 59999999863 45555554
No 80
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=34.49 E-value=46 Score=26.87 Aligned_cols=36 Identities=8% Similarity=0.014 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHhccccccceee
Q 042592 270 RKLMGFKWIFVLSLALLQAGYY-RRLRWSVLKSRKLV 305 (310)
Q Consensus 270 Rk~~G~~Vl~fL~il~~l~y~~-Kr~~W~~vk~rk~~ 305 (310)
+..+++.+++.++++++++|.. .++|-+..+.|||.
T Consensus 4 l~i~~iialiv~~iiaIvvW~iv~ieYrk~~rqrkId 40 (81)
T PF00558_consen 4 LEILAIIALIVALIIAIVVWTIVYIEYRKIKRQRKID 40 (81)
T ss_dssp ----HHHHHHHHHHHHHHHHHHH------------CH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 4456777777788888888866 55555555566653
No 81
>PLN02595 cytochrome c oxidase subunit VI protein
Probab=33.16 E-value=2.2e+02 Score=24.02 Aligned_cols=14 Identities=21% Similarity=0.781 Sum_probs=9.6
Q ss_pred CCCCCCCCCCCCCc
Q 042592 77 PSYPWPHKGILSSY 90 (310)
Q Consensus 77 ~~~~w~~~g~~~~~ 90 (310)
..+||-.+|.|..+
T Consensus 84 K~FPWG~DG~~e~~ 97 (102)
T PLN02595 84 KEFPWGPDGLFEVK 97 (102)
T ss_pred CCCCCCCCcccccc
Confidence 45678878876644
No 82
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=32.93 E-value=66 Score=25.54 Aligned_cols=18 Identities=17% Similarity=-0.036 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 042592 278 IFVLSLALLQAGYYRRLR 295 (310)
Q Consensus 278 l~fL~il~~l~y~~Kr~~ 295 (310)
++|++++++.+|.++|++
T Consensus 75 ~~~~~f~~~v~yI~~rRl 92 (92)
T PF03908_consen 75 FAFLFFLLVVLYILWRRL 92 (92)
T ss_pred HHHHHHHHHHHHHhhhcC
Confidence 566777778888888864
No 83
>COG3748 Predicted membrane protein [Function unknown]
Probab=32.24 E-value=48 Score=33.45 Aligned_cols=42 Identities=26% Similarity=0.423 Sum_probs=30.2
Q ss_pred HHHHHhhcccccccccchhhcc--cCC---CCHHHHHHHHHhhcccCC
Q 042592 100 QVYQQVCASCHSMSLISYRDLV--GVA---YTEDETKAMAAEIEVVDG 142 (310)
Q Consensus 100 qvy~~vCaaCHSlk~v~yr~L~--~~g---~te~evka~Aae~~v~d~ 142 (310)
.+.+.-|+-||+.+-. |..+. ..| -|++|+++.|.|+...-+
T Consensus 329 ~~v~~rCs~CHaa~P~-~e~~~~~p~gv~ldt~~~iaa~A~~Iy~qA~ 375 (407)
T COG3748 329 DVVQGRCSMCHAAEPT-WEGISAPPKGVMLDTDEQIAAHAREIYLQAG 375 (407)
T ss_pred HHHHhhhhhhhcCCCc-ccccccCCCceeecCHHHHHHHHHHHHHHHH
Confidence 5778899999999873 33442 223 289999999999865543
No 84
>PF00584 SecE: SecE/Sec61-gamma subunits of protein translocation complex; InterPro: IPR001901 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. The chaperone protein SecB [] is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion []. SecE, part of the main SecYEG translocase complex, is ~106 residues in length, and spans the inner membrane of the Gram-negative bacterial envelope. Together with SecY and SecG, SecE forms a multimeric channel through which preproteins are translocated, using both proton motive forces and ATP-driven secretion. The latter is mediated by SecA. In eukaryotes, the evolutionary related protein sec61-gamma plays a role in protein translocation through the endoplasmic reticulum; it is part of a trimeric complex that also consist of sec61-alpha and beta []. Both secE and sec61-gamma are small proteins of about 60 to 90 amino acids that contain a single transmembrane region at their C-terminal extremity (Escherichia coli secE is an exception, in that it possess an extra N-terminal segment of 60 residues that contains two additional transmembrane domains) [].; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0016020 membrane; PDB: 3J01_B 2WW9_B 2WWA_B 3DL8_C 2WWB_B 3DIN_G 2ZJS_E 2ZQP_E.
Probab=32.00 E-value=1.4e+02 Score=21.55 Aligned_cols=42 Identities=12% Similarity=-0.103 Sum_probs=35.3
Q ss_pred hHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042592 251 MGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYR 292 (310)
Q Consensus 251 ~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~K 292 (310)
..+|+..-|.=+.=|...|-.+.-..|+++.++++++.+...
T Consensus 5 f~~~~~~Elkkv~WP~~~e~~~~t~~Vl~~~~i~~~~~~~vD 46 (57)
T PF00584_consen 5 FFREVKKELKKVTWPSRKELLKSTIIVLVFVIIFGLFFFLVD 46 (57)
T ss_dssp HHHCHHHHHHHHHCCCTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556777777778889999999999999999999998888653
No 85
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=31.97 E-value=35 Score=31.37 Aligned_cols=32 Identities=9% Similarity=-0.019 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccccccce
Q 042592 272 LMGFKWIFVLSLALLQAGYYRRLRWSVLKSRK 303 (310)
Q Consensus 272 ~~G~~Vl~fL~il~~l~y~~Kr~~W~~vk~rk 303 (310)
++-+.+|.|++++.+|..++.+.|.+-+..|+
T Consensus 55 ~l~w~~I~FliL~~lL~k~~~~pI~~vLe~R~ 86 (204)
T PRK09174 55 QLLWLAITFGLFYLFMSRVILPRIGGIIETRR 86 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566788999999998888888998887664
No 86
>PRK13689 hypothetical protein; Provisional
Probab=29.98 E-value=25 Score=28.04 Aligned_cols=21 Identities=43% Similarity=0.521 Sum_probs=15.0
Q ss_pred CCCCCchhHHhhhcCChHHHHHHHhc
Q 042592 177 AYPPDLSLITKARHDGQNYVFALLTG 202 (310)
Q Consensus 177 a~PPDLSliakaR~~G~dYIyslL~g 202 (310)
..|+|||||+.. |-+-.+|..
T Consensus 27 ~Ap~DLSLMvLG-----N~vTnlln~ 47 (75)
T PRK13689 27 KAPTDLSLMVLG-----NMVTNLLNT 47 (75)
T ss_pred CCCccHHHHHHH-----HHHHHHHhh
Confidence 569999999862 456666653
No 87
>COG3183 Predicted restriction endonuclease [Defense mechanisms]
Probab=29.98 E-value=21 Score=34.64 Aligned_cols=30 Identities=20% Similarity=0.387 Sum_probs=20.7
Q ss_pred HHHHHhhcccccccccchhhcccCCCCHHHHHHH
Q 042592 100 QVYQQVCASCHSMSLISYRDLVGVAYTEDETKAM 133 (310)
Q Consensus 100 qvy~~vCaaCHSlk~v~yr~L~~~g~te~evka~ 133 (310)
.-+.-+|++||.|=+.+=++ .+|-+|.|.+
T Consensus 238 tDL~plCpNCH~mvHrr~~~----~lS~~elk~l 267 (272)
T COG3183 238 TDLAPLCPNCHKMVHRRRDR----NLSVEELKIL 267 (272)
T ss_pred hhhhhcCccHHHHHhccCCc----CCCHHHHHHH
Confidence 34667999999997733222 4788888754
No 88
>PF11274 DUF3074: Protein of unknown function (DUF3074)
Probab=29.48 E-value=31 Score=31.15 Aligned_cols=17 Identities=41% Similarity=0.790 Sum_probs=14.2
Q ss_pred hhHhhhHHHHHHHHhhh
Q 042592 246 ATEAQMGKDVVTFLSWA 262 (310)
Q Consensus 246 at~~Q~akDVvaFL~wa 262 (310)
.+-.+.++||..||.|+
T Consensus 168 ~~p~~Ia~DV~~fl~W~ 184 (184)
T PF11274_consen 168 GTPGAIAKDVPKFLDWI 184 (184)
T ss_pred cCcHHHHHHHHHHhccC
Confidence 34468999999999996
No 89
>KOG1094 consensus Discoidin domain receptor DDR1 [Signal transduction mechanisms]
Probab=29.41 E-value=42 Score=36.57 Aligned_cols=30 Identities=30% Similarity=0.257 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccccc
Q 042592 270 RKLMGFKWIFVLSLALLQAGYYRRLRWSVLKS 301 (310)
Q Consensus 270 Rk~~G~~Vl~fL~il~~l~y~~Kr~~W~~vk~ 301 (310)
|-.+|+.|.+||+++.+++..|+| |+..++
T Consensus 391 ~~~~~~f~~if~iva~ii~~~L~R--~rr~~~ 420 (807)
T KOG1094|consen 391 AILIIIFVAIFLIVALIIALMLWR--WRRLLS 420 (807)
T ss_pred eehHHHHHHHHHHHHHHHHHHHHH--HHHHHh
Confidence 556889999999999999999998 777643
No 90
>PF03967 PRCH: Photosynthetic reaction centre, H-chain N-terminal region; InterPro: IPR015810 The photosynthetic apparatus in non-oxygenic bacteria consists of light-harvesting (LH) protein-pigment complexes LH1 and LH2, which use carotenoid and bacteriochlorophyll as primary donors []. LH1 acts as the energy collection hub, temporarily storing it before its transfer to the photosynthetic reaction centre (RC) []. Electrons are transferred from the primary donor via an intermediate acceptor (bacteriopheophytin) to the primary acceptor (quinine Qa), and finally to the secondary acceptor (quinone Qb), resulting in the formation of ubiquinol QbH2. RC uses the excitation energy to shuffle electrons across the membrane, transferring them via ubiquinol to the cytochrome bc1 complex in order to establish a proton gradient across the membrane, which is used by ATP synthetase to form ATP [, , ]. The core complex is anchored in the cell membrane, consisting of one unit of RC surrounded by LH1; in some species there may be additional subunits []. RC consists of three subunits: L (light), M (medium), and H (heavy). Subunits L and M provide the scaffolding for the chromophore, while subunit H contains a cytoplasmic domain []. In Rhodopseudomonas viridis, there is also a non-membranous tetrahaem cytochrome (4Hcyt) subunit on the periplasmic surface. This entry represents the N-terminal domain of the photosynthetic reaction centre H subunit, which includes the transmembrane domain and part of the cytoplasmic domain [].; GO: 0045156 electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity, 0019684 photosynthesis, light reaction, 0030077 plasma membrane light-harvesting complex; PDB: 1RZZ_H 1PST_H 2J8D_H 3DUQ_H 1FNP_H 1KBY_H 1E14_H 2HG3_H 1UMX_H 1YST_H ....
Probab=29.29 E-value=65 Score=28.42 Aligned_cols=21 Identities=14% Similarity=-0.124 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHhcc
Q 042592 277 WIFVLSLALLQAGYYRRLRWS 297 (310)
Q Consensus 277 Vl~fL~il~~l~y~~Kr~~W~ 297 (310)
..+|.++|++|+|+|.||==|
T Consensus 17 lyaFwiFFagLi~YLrrEdkR 37 (136)
T PF03967_consen 17 LYAFWIFFAGLIYYLRREDKR 37 (136)
T ss_dssp HHHHHHHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHHHHHhccccc
Confidence 346789999999999998543
No 91
>PF11845 DUF3365: Protein of unknown function (DUF3365); InterPro: IPR021796 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 198 to 657 amino acids in length.
Probab=28.73 E-value=19 Score=31.33 Aligned_cols=9 Identities=44% Similarity=1.213 Sum_probs=8.1
Q ss_pred HHhhccccc
Q 042592 103 QQVCASCHS 111 (310)
Q Consensus 103 ~~vCaaCHS 111 (310)
.+.|..||+
T Consensus 146 ~~~CL~CHg 154 (188)
T PF11845_consen 146 EESCLSCHG 154 (188)
T ss_pred chHHHHccC
Confidence 568999999
No 92
>PLN02668 indole-3-acetate carboxyl methyltransferase
Probab=26.81 E-value=87 Score=31.79 Aligned_cols=49 Identities=22% Similarity=0.388 Sum_probs=31.3
Q ss_pred CCCCcCCCCCCCCcc-------------cCccccccCc-cc-------ccCCChh----hHhhhHHHHHHHHhh
Q 042592 213 REGLHYNPYFPGGAI-------------AMPKMLIDGA-LE-------YEDGTPA----TEAQMGKDVVTFLSW 261 (310)
Q Consensus 213 ~~g~~yN~~fpg~~i-------------aMP~~L~d~~-v~-------y~DGtpa----t~~Q~akDVvaFL~w 261 (310)
-+|.||+..||.+.+ -+|..|.|.. .. +...+|. -.+|..+|...||.-
T Consensus 149 vpGSFY~RLfP~~Slh~~~Ss~slHWLS~vP~~l~d~~s~~~Nkg~iyi~~~s~~v~~aY~~Qf~~D~~~FL~~ 222 (386)
T PLN02668 149 VPGSFYRRLFPARSIDVFHSAFSLHWLSQVPESVTDKRSAAYNKGRVFIHGASESTANAYKRQFQADLAGFLRA 222 (386)
T ss_pred cCccccccccCCCceEEEEeeccceecccCchhhccCCcccccCCceEecCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 369999999998753 2455554322 11 1122222 348999999999986
No 93
>TIGR00964 secE_bact preprotein translocase, SecE subunit, bacterial. This model represents exclusively the bacterial (and some organellar) SecE protein. SecE is part of the core heterotrimer, SecYEG, of the Sec preprotein translocase system. Other components are the ATPase SecA, a cytosolic chaperone SecB, and an accessory complex of SecDF and YajC.
Probab=26.74 E-value=2.5e+02 Score=20.33 Aligned_cols=41 Identities=17% Similarity=-0.097 Sum_probs=31.8
Q ss_pred HHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042592 252 GKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYR 292 (310)
Q Consensus 252 akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~K 292 (310)
-+|+.+=|.=+.=|.+.|..+.-+.|+++.++++++.++.-
T Consensus 5 ~~~~~~ElkkV~WPt~~e~~~~t~~Vi~~~~~~~~~~~~~D 45 (55)
T TIGR00964 5 FKEVKAELKKVVWPSRKELITYTIVVIVFVIFFSLFLFGVD 45 (55)
T ss_pred HHHHHHHHhcCcCcCHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 34455545555569999999999999999999999888653
No 94
>COG1858 MauG Cytochrome c peroxidase [Inorganic ion transport and metabolism]
Probab=26.22 E-value=33 Score=34.58 Aligned_cols=25 Identities=28% Similarity=0.654 Sum_probs=21.6
Q ss_pred cchHHHHhHHHHHHH---------hhcccccccc
Q 042592 90 YDHASIRRGHQVYQQ---------VCASCHSMSL 114 (310)
Q Consensus 90 ~D~aslqRG~qvy~~---------vCaaCHSlk~ 114 (310)
.|++.++=|.++|-. -|++||.+..
T Consensus 57 ~~~~~~aLGk~LffDprLS~sg~~SC~sCH~~~~ 90 (364)
T COG1858 57 TDPAKAALGKKLFFDPRLSASGTISCATCHNLAR 90 (364)
T ss_pred CchHHHHHHHHhhcCcccCCCCCcCchhhcCccc
Confidence 578999999999965 4999999876
No 95
>PRK11586 napB nitrate reductase cytochrome C550 subunit; Provisional
Probab=25.85 E-value=1.1e+02 Score=27.37 Aligned_cols=18 Identities=33% Similarity=0.663 Sum_probs=13.4
Q ss_pred hHHHHHH--Hhhcccccccc
Q 042592 97 RGHQVYQ--QVCASCHSMSL 114 (310)
Q Consensus 97 RG~qvy~--~vCaaCHSlk~ 114 (310)
+|+|+=. |-|.+||+-+.
T Consensus 72 ~gyqIt~n~N~CL~CH~~~~ 91 (149)
T PRK11586 72 EGYQVTTNTNRCLQCHGVES 91 (149)
T ss_pred CCceeccCCCcCccCCCHhH
Confidence 5666654 46999999765
No 96
>COG3082 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.66 E-value=38 Score=26.78 Aligned_cols=21 Identities=38% Similarity=0.498 Sum_probs=14.7
Q ss_pred CCCCCCchhHHhhhcCChHHHHHHHh
Q 042592 176 GAYPPDLSLITKARHDGQNYVFALLT 201 (310)
Q Consensus 176 Ga~PPDLSliakaR~~G~dYIyslL~ 201 (310)
-..|+|||||+.. +-+-.+|+
T Consensus 26 H~ap~dLsLmvlG-----NmvtNlin 46 (74)
T COG3082 26 HKAPTDLSLMVLG-----NMVTNLIN 46 (74)
T ss_pred cCCCcchhHHHHH-----HHHHHHHH
Confidence 3579999999863 35555655
No 97
>PF12459 DUF3687: D-Ala-teichoic acid biosynthesis protein; InterPro: IPR021008 Proteins in this family are bacterial proteins of approximately 50 amino acids in length. There are two completely conserved residues (L and Y) that may be functionally important. A number of entries are annotated as D-Ala-teichoic acid biosynthesis protein; however there is no direct evidence to support this annotation.
Probab=24.59 E-value=91 Score=22.28 Aligned_cols=17 Identities=24% Similarity=0.321 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q 042592 276 KWIFVLSLALLQAGYYR 292 (310)
Q Consensus 276 ~Vl~fL~il~~l~y~~K 292 (310)
+++.|++||.+|.|+.-
T Consensus 13 ~T~fYf~Ill~L~ylYg 29 (42)
T PF12459_consen 13 KTLFYFAILLALIYLYG 29 (42)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 56788999999998864
No 98
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=24.44 E-value=63 Score=27.35 Aligned_cols=19 Identities=5% Similarity=0.245 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHhccc
Q 042592 279 FVLSLALLQAGYYRRLRWSV 298 (310)
Q Consensus 279 ~fL~il~~l~y~~Kr~~W~~ 298 (310)
+|.++|.+|+ ..-++||.+
T Consensus 22 L~i~~FiILL-Ii~~~IW~~ 40 (121)
T PF10669_consen 22 LFIVVFIILL-IITKSIWHD 40 (121)
T ss_pred HHHHHHHHHH-HHHHHHhhh
Confidence 3444444444 445679954
No 99
>PRK07597 secE preprotein translocase subunit SecE; Reviewed
Probab=24.28 E-value=3e+02 Score=20.40 Aligned_cols=44 Identities=16% Similarity=-0.016 Sum_probs=36.1
Q ss_pred hhhHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042592 249 AQMGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYR 292 (310)
Q Consensus 249 ~Q~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~K 292 (310)
.+..+|+..=|.=+.=|.+.|-.+.-+.|++|.++++++.|++-
T Consensus 11 ~~f~~~~~~ElkkV~WPs~~e~~~~t~~Vi~~~~~~~~~i~~vD 54 (64)
T PRK07597 11 KKFFKDVKAELKKVTWPTRKELVRSTIVVLVFVAFFALFFYLVD 54 (64)
T ss_pred HHHHHHHHHHHhhCcCcCHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 44666777767777779999999999999999999999988753
No 100
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=24.01 E-value=54 Score=29.13 Aligned_cols=26 Identities=12% Similarity=0.028 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHhccccccc
Q 042592 277 WIFVLSLALLQAGYYRRLRWSVLKSR 302 (310)
Q Consensus 277 Vl~fL~il~~l~y~~Kr~~W~~vk~r 302 (310)
++-|++++.+|.|+++|-+=+-+..|
T Consensus 31 ~Inflill~lL~~fl~kPI~~~l~~R 56 (184)
T CHL00019 31 LINLSVVLGVLIYFGKGVLSDLLDNR 56 (184)
T ss_pred HHHHHHHHHHHHHHhHhHHHHHHHHH
Confidence 55556665555555555544444444
No 101
>PF11688 DUF3285: Protein of unknown function (DUF3285); InterPro: IPR021702 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=23.57 E-value=94 Score=22.53 Aligned_cols=21 Identities=14% Similarity=-0.018 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 042592 271 KLMGFKWIFVLSLALLQAGYY 291 (310)
Q Consensus 271 k~~G~~Vl~fL~il~~l~y~~ 291 (310)
+..|+..+++|.++.+++|+.
T Consensus 24 ~HF~LT~~gll~~lv~la~l~ 44 (45)
T PF11688_consen 24 FHFGLTAVGLLGFLVGLAYLT 44 (45)
T ss_pred hHHHHHHHHHHHHHHHHHHhc
Confidence 457888999999999999875
No 102
>PF14376 Haem_bd: Haem-binding domain
Probab=23.11 E-value=36 Score=29.28 Aligned_cols=27 Identities=19% Similarity=0.399 Sum_probs=17.5
Q ss_pred HhHHHHHHHhhcccccccc--cchhhccc
Q 042592 96 RRGHQVYQQVCASCHSMSL--ISYRDLVG 122 (310)
Q Consensus 96 qRG~qvy~~vCaaCHSlk~--v~yr~L~~ 122 (310)
+.=..++++-|.-|||-+- =-|.++..
T Consensus 34 ~~v~~il~~~CydCHSn~T~~PwYa~i~p 62 (137)
T PF14376_consen 34 EEVKIILKNSCYDCHSNNTRYPWYANIAP 62 (137)
T ss_pred HHHHHHHHccccccCCCCCCCccceecCc
Confidence 3334678899999999653 33444433
No 103
>PTZ00478 Sec superfamily; Provisional
Probab=23.07 E-value=4e+02 Score=21.60 Aligned_cols=46 Identities=7% Similarity=0.084 Sum_probs=39.4
Q ss_pred hHhhhHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042592 247 TEAQMGKDVVTFLSWAAEPEMEERKLMGFKWIFVLSLALLQAGYYR 292 (310)
Q Consensus 247 t~~Q~akDVvaFL~waAEP~~~~Rk~~G~~Vl~fL~il~~l~y~~K 292 (310)
...+.++|-.-|+.=+--|.+.|=+++-.-+.+-++++.++-|+.|
T Consensus 22 ~~~eF~kds~r~vkrctKPdrkEf~kiakat~iGf~imG~IGy~IK 67 (81)
T PTZ00478 22 GVQEFANDSRRLIRKCTKPDAKEYTNIAYACSVGFFIMGFIGYSIK 67 (81)
T ss_pred HHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4577899999999999999999988888888777888888888765
No 104
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=23.07 E-value=74 Score=27.26 Aligned_cols=26 Identities=23% Similarity=0.104 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHH--HHHHHHHHhccc
Q 042592 273 MGFKWIFVLSLALL--QAGYYRRLRWSV 298 (310)
Q Consensus 273 ~G~~Vl~fL~il~~--l~y~~Kr~~W~~ 298 (310)
.|+|+++.++++++ ++|++.|+.+++
T Consensus 21 ~GWwll~~lll~~~~~~~~~~~r~~~~~ 48 (146)
T PF14316_consen 21 PGWWLLLALLLLLLILLLWRLWRRWRRN 48 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 58888877655543 344545555543
No 105
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=22.97 E-value=1.4e+02 Score=22.05 Aligned_cols=24 Identities=13% Similarity=0.102 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Q 042592 273 MGFKWIFVLSLALLQAGYYRRLRW 296 (310)
Q Consensus 273 ~G~~Vl~fL~il~~l~y~~Kr~~W 296 (310)
.|+-+.+||..+.++.|+..|++-
T Consensus 13 F~~lIC~Fl~~~~~F~~F~~Kqil 36 (54)
T PF06716_consen 13 FGFLICLFLFCLVVFIWFVYKQIL 36 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466667778888877777777653
No 106
>TIGR03791 TTQ_mauG tryptophan tryptophylquinone biosynthesis enzyme MauG. Members of this protein family are the tryptophan tryptophylquinone biosynthesis (TTQ) enzyme MauG, as found in Methylobacterium extorquens and related species. This protein is required to complete the maturation of the TTQ cofactor in the methylamine dehydrogenase light (beta) chain.
Probab=22.92 E-value=46 Score=32.25 Aligned_cols=18 Identities=11% Similarity=0.272 Sum_probs=12.6
Q ss_pred HhhhHHHHHHHHhhhcCC
Q 042592 248 EAQMGKDVVTFLSWAAEP 265 (310)
Q Consensus 248 ~~Q~akDVvaFL~waAEP 265 (310)
.+|...|||+||.-..+.
T Consensus 264 t~~E~~dLvaFL~tLt~~ 281 (291)
T TIGR03791 264 SEREREDLIAFIETLDAE 281 (291)
T ss_pred CHHHHHHHHHHHHhcCCC
Confidence 356778888888866553
No 107
>PF08361 TetR_C_2: MAATS-type transcriptional repressor, C-terminal region; InterPro: IPR013572 This entry is named after the various transcriptional regulatory proteins that it contains, including MtrR (Q6RV06 from SWISSPROT), AcrR (P34000 from SWISSPROT), ArpR (Q9KJC4 from SWISSPROT), TtgR (Q9AIU0 from SWISSPROT) and SmeT (Q8KLP4 from SWISSPROT). These are members of the TetR (tetracycline resistance) family of transcriptional repressors, that are involved in the control of expression of multidrug resistance proteins [, , ]. ; GO: 0003677 DNA binding; PDB: 3BCG_B 2QOP_A 2UXP_B 2XDN_C 2UXH_A 2UXI_B 2UXO_A 2UXU_B 2WUI_A 2W53_A ....
Probab=22.82 E-value=89 Score=25.67 Aligned_cols=27 Identities=33% Similarity=0.412 Sum_probs=20.7
Q ss_pred HHcCCCCCCCchhHHhhhcCChHHHHHHHhcC
Q 042592 172 FANGGAYPPDLSLITKARHDGQNYVFALLTGY 203 (310)
Q Consensus 172 ~An~Ga~PPDLSliakaR~~G~dYIyslL~gy 203 (310)
+..-|.+|+||+.-..|. .+++++.|.
T Consensus 65 A~~~g~L~~~ld~~~AA~-----~l~a~~~Gl 91 (121)
T PF08361_consen 65 AQARGQLPADLDPRLAAI-----MLHALLSGL 91 (121)
T ss_dssp HHHTTSS-TTB-HHHHHH-----HHHHHHHHH
T ss_pred HHHcCCCCCCCCHHHHHH-----HHHHHHHHH
Confidence 334799999999988776 899999986
No 108
>COG3005 TorC Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]
Probab=22.79 E-value=26 Score=32.47 Aligned_cols=16 Identities=38% Similarity=0.962 Sum_probs=11.9
Q ss_pred Hhhcccccccccchhhc
Q 042592 104 QVCASCHSMSLISYRDL 120 (310)
Q Consensus 104 ~vCaaCHSlk~v~yr~L 120 (310)
+.|.+||+|+. -|..+
T Consensus 46 eFCvsCH~m~~-vy~E~ 61 (190)
T COG3005 46 EFCVSCHEMNR-VYEEY 61 (190)
T ss_pred HHHHHhhhhHH-HHHHH
Confidence 67999999986 34433
No 109
>cd03033 ArsC_15kD Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also encodes dinitrogenase reductase ADP-ribosyltransferase (DRAT) and dinitrogenase reductase activating glycohydrolase (DRAG). ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione via glutaredoxin, through a single catalytic cysteine.
Probab=21.99 E-value=30 Score=28.76 Aligned_cols=37 Identities=16% Similarity=0.268 Sum_probs=25.2
Q ss_pred ccccccchhhcccCCCCHHHHHHHHHhhcccCCCCCCC
Q 042592 110 HSMSLISYRDLVGVAYTEDETKAMAAEIEVVDGPNDEG 147 (310)
Q Consensus 110 HSlk~v~yr~L~~~g~te~evka~Aae~~v~d~p~~~g 147 (310)
|+..| .++++..-++|.+|++.+.++.++.+--|..|
T Consensus 23 ~gi~~-~~~d~~~~p~s~~eL~~~l~~~g~~~l~n~~~ 59 (113)
T cd03033 23 AGHEV-EVRDLLTEPWTAETLRPFFGDLPVAEWFNPAA 59 (113)
T ss_pred cCCCc-EEeehhcCCCCHHHHHHHHHHcCHHHHHhccc
Confidence 45555 56666677899999999999876644333333
No 110
>PF08456 Vmethyltransf_C: Viral methyltransferase C-terminal; InterPro: IPR013664 This domain is found in the central region of Virgaviridae (Tymoviruses) non-structural poly-protein, it spans the RNA helicase domain of the replicase large subunit, which is a RNA-dependent RNA polymerase active in viral RNA replication []. The poly-protein is processed into the replicase small subunit, which is the methyltransferase active in RNA capping and the RNA helicase. Methyltransferase displays a cytoplasmic capping enzyme activity. This function is necessary since all viral RNAs are synthesized in the cytoplasm, and host capping enzymes are restricted to the nucleus. The helicase region probably, which is immediately adjacent to the methyltransferase domain exhibits NTPase and RNA unwinding activities.
Probab=21.43 E-value=55 Score=30.81 Aligned_cols=26 Identities=19% Similarity=0.395 Sum_probs=24.0
Q ss_pred HHhHHHHHHHhhcccccccccchhhc
Q 042592 95 IRRGHQVYQQVCASCHSMSLISYRDL 120 (310)
Q Consensus 95 lqRG~qvy~~vCaaCHSlk~v~yr~L 120 (310)
-||+.++|.+-|.=|||..-+.++++
T Consensus 34 ~Qr~Lr~fA~W~~y~~G~~~i~~~~v 59 (212)
T PF08456_consen 34 YQRALRSFANWIGYAHGSDAIDFRDV 59 (212)
T ss_pred HHHHHHHHHHHHhhhcCCceeeeecc
Confidence 49999999999999999999988876
No 111
>cd03035 ArsC_Yffb Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine suggest that it is likely to function as a glutathione (GSH)-dependent thiol reductase. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from GSH via glutaredoxin, through a single catalytic cysteine.
Probab=21.33 E-value=41 Score=27.44 Aligned_cols=42 Identities=12% Similarity=0.166 Sum_probs=28.0
Q ss_pred hhcccccc---------cccchhhcccCCCCHHHHHHHHHhhcccCCCCCCC
Q 042592 105 VCASCHSM---------SLISYRDLVGVAYTEDETKAMAAEIEVVDGPNDEG 147 (310)
Q Consensus 105 vCaaCHSl---------k~v~yr~L~~~g~te~evka~Aae~~v~d~p~~~g 147 (310)
.|+.|.-. .| .++++..-..|++|++++.++.++.+--+..|
T Consensus 8 ~C~~crka~~~L~~~~i~~-~~~di~~~p~s~~eL~~~l~~~g~~~li~~~~ 58 (105)
T cd03035 8 NCDTVKKARKWLEARGVAY-TFHDYRKDGLDAATLERWLAKVGWETLLNKRG 58 (105)
T ss_pred CCHHHHHHHHHHHHcCCCe-EEEecccCCCCHHHHHHHHHHhChHHHHccCc
Confidence 47777543 33 45666677899999999999887544433333
No 112
>PF13447 Multi-haem_cyto: Seven times multi-haem cytochrome CxxCH; PDB: 1FGJ_B.
Probab=21.30 E-value=29 Score=33.38 Aligned_cols=17 Identities=35% Similarity=0.772 Sum_probs=12.9
Q ss_pred HHHHHhhcccccccccc
Q 042592 100 QVYQQVCASCHSMSLIS 116 (310)
Q Consensus 100 qvy~~vCaaCHSlk~v~ 116 (310)
+--..+|..|||-++++
T Consensus 210 ~~m~~vC~~CHS~~fa~ 226 (267)
T PF13447_consen 210 DKMKKVCSQCHSPSFAD 226 (267)
T ss_dssp HHHHHHHTTTS-HHHHH
T ss_pred HHHHHhhhccCCHHHHH
Confidence 45668999999998865
No 113
>TIGR00014 arsC arsenate reductase (glutaredoxin). composed of two polypeptides, the products of the arsA and arsB genes. The pump alone produces resistance to arsenite and antimonite. This protein, ArsC, catalyzes the reduction of arsenate to arsenite, and thus extends resistance to include arsenate.
Probab=21.01 E-value=72 Score=26.23 Aligned_cols=29 Identities=14% Similarity=0.111 Sum_probs=23.1
Q ss_pred ccccccchhhcccCCCCHHHHHHHHHhhcc
Q 042592 110 HSMSLISYRDLVGVAYTEDETKAMAAEIEV 139 (310)
Q Consensus 110 HSlk~v~yr~L~~~g~te~evka~Aae~~v 139 (310)
|+.++. ++++..-++|++|++.+.+..++
T Consensus 22 ~~i~~~-~~di~~~p~t~~el~~~l~~~g~ 50 (114)
T TIGR00014 22 KGIEPE-VVKYLKNPPTKSELEAIFAKLGL 50 (114)
T ss_pred CCCCeE-EEeccCCCcCHHHHHHHHHHcCC
Confidence 566664 77888888999999999988654
No 114
>PRK09546 zntB zinc transporter; Reviewed
Probab=20.58 E-value=78 Score=30.38 Aligned_cols=31 Identities=23% Similarity=0.293 Sum_probs=18.0
Q ss_pred CCcHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhc
Q 042592 264 EPEMEERKLMGFKWIF--VLSLALLQAGYYRRLRW 296 (310)
Q Consensus 264 EP~~~~Rk~~G~~Vl~--fL~il~~l~y~~Kr~~W 296 (310)
=|+... ..|+++++ .+++..++.|++||+.|
T Consensus 291 mPel~~--~~gy~~~l~im~~i~~~~~~~fkrk~W 323 (324)
T PRK09546 291 IPGGGW--PFGFSIFCLLLVVLIGGVAWWLKRSKW 323 (324)
T ss_pred CCCcCC--cchHHHHHHHHHHHHHHHHHHHHhccc
Confidence 355433 35776543 33344556788888888
No 115
>PF09331 DUF1985: Domain of unknown function (DUF1985); InterPro: IPR015410 This domain is functionally uncharacterised; it is found in a set of Arabidopsis thaliana (Mouse-ear cress) hypothetical proteins.
Probab=20.56 E-value=1.5e+02 Score=25.52 Aligned_cols=26 Identities=19% Similarity=0.165 Sum_probs=18.2
Q ss_pred hHHHHHHHHhhhcCCcHHHHHHHHHH
Q 042592 251 MGKDVVTFLSWAAEPEMEERKLMGFK 276 (310)
Q Consensus 251 ~akDVvaFL~waAEP~~~~Rk~~G~~ 276 (310)
...||.+-|.-.-.=..++|.++++-
T Consensus 70 tv~dv~~~L~~~~~~~~~~Rlrla~L 95 (142)
T PF09331_consen 70 TVEDVIAKLKKMKKWDSEDRLRLALL 95 (142)
T ss_pred cHHHHHHHHhhcccCChhhHHHHHHH
Confidence 45788888887744556888887643
No 116
>TIGR03806 chp_HNE_0200 conserved hypothetical protein, HNE_0200 family. The model TIGR03805 describes an uncharacterized protein family that contains repeats associated with the formation of a right-handed helical stack of parallel beta strands, homologous to those found in a number of carbohydrate-binding proteins and sugar hydrolases. This model describes another uncharacterized protein family, found in the same species as TIGR03805 member proteins, usually as the adjacent gene or in a fusion protein. An example is HNE_0200 from Hyphomonas neptunium ATCC 15444. Sometimes two members of this family are with a single member of TIGR03805. The function is unknown.
Probab=20.46 E-value=55 Score=32.28 Aligned_cols=18 Identities=28% Similarity=0.617 Sum_probs=13.9
Q ss_pred HhHHHHHHHhhccccccc
Q 042592 96 RRGHQVYQQVCASCHSMS 113 (310)
Q Consensus 96 qRG~qvy~~vCaaCHSlk 113 (310)
+|=.-++..+|+.||+-.
T Consensus 214 ~rarpyL~~NC~~CH~p~ 231 (317)
T TIGR03806 214 QRARAYLDVNCAHCHNPG 231 (317)
T ss_pred HHHHHHHHhHHHhcCCCC
Confidence 455566788999999975
No 117
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=20.20 E-value=75 Score=27.94 Aligned_cols=27 Identities=19% Similarity=0.082 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhccccccc
Q 042592 276 KWIFVLSLALLQAGYYRRLRWSVLKSR 302 (310)
Q Consensus 276 ~Vl~fL~il~~l~y~~Kr~~W~~vk~r 302 (310)
.++-|+++|.+|.|+++|-+=+-+..|
T Consensus 25 ~iinflIl~~lL~~fl~kpI~~~l~~R 51 (174)
T PRK07352 25 NLINLAIVIGLLYYFGRGFLGKILEER 51 (174)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 366777777777777766665444444
No 118
>PRK10853 putative reductase; Provisional
Probab=20.08 E-value=50 Score=27.64 Aligned_cols=37 Identities=11% Similarity=0.122 Sum_probs=27.0
Q ss_pred ccccccchhhcccCCCCHHHHHHHHHhhcccCCCCCCC
Q 042592 110 HSMSLISYRDLVGVAYTEDETKAMAAEIEVVDGPNDEG 147 (310)
Q Consensus 110 HSlk~v~yr~L~~~g~te~evka~Aae~~v~d~p~~~g 147 (310)
|+..| .++++..-++|.+|++.+.++.++.+--|-.|
T Consensus 23 ~~i~~-~~~d~~k~p~s~~eL~~~l~~~g~~~l~n~~~ 59 (118)
T PRK10853 23 QGIDY-RFHDYRVDGLDSELLQGFIDELGWEALLNTRG 59 (118)
T ss_pred cCCCc-EEeehccCCcCHHHHHHHHHHcCHHHHHhcCC
Confidence 56666 57777788899999999998887654333333
Done!