Query psy8407
Match_columns 92
No_of_seqs 184 out of 1023
Neff 8.3
Searched_HMMs 46136
Date Fri Aug 16 17:58:01 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8407.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8407hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00405 cytochrome c; Provisi 100.0 5E-34 1.1E-38 174.8 7.8 91 2-92 24-114 (114)
2 COG3474 Cytochrome c2 [Energy 100.0 4.9E-34 1.1E-38 176.2 6.6 90 2-91 40-131 (135)
3 PTZ00048 cytochrome c; Provisi 100.0 2.9E-31 6.3E-36 162.9 8.6 89 2-91 25-113 (115)
4 KOG3453|consensus 99.8 2.1E-21 4.5E-26 116.6 4.6 91 1-91 18-108 (110)
5 PRK14487 cbb3-type cytochrome 99.6 3E-16 6.4E-21 104.5 5.0 58 15-92 101-160 (217)
6 PRK13617 psbV cytochrome c-550 99.5 3.2E-14 7E-19 91.9 5.8 76 1-92 68-157 (170)
7 TIGR02603 CxxCH_TIGR02603 puta 99.5 6E-14 1.3E-18 87.9 5.0 23 2-25 13-35 (133)
8 TIGR00781 ccoO cytochrome c ox 99.4 2.9E-13 6.3E-18 90.9 4.9 58 14-91 99-158 (232)
9 TIGR03872 cytochrome_MoxG cyto 99.4 1.4E-12 3.1E-17 81.8 6.5 70 1-92 53-123 (133)
10 CHL00133 psbV photosystem II c 99.4 1.1E-12 2.4E-17 84.6 5.8 74 1-90 61-148 (163)
11 PRK14486 putative bifunctional 99.4 7.5E-13 1.6E-17 92.5 5.4 57 15-91 101-187 (294)
12 TIGR03045 PS_II_C550 cytochrom 99.4 1.2E-12 2.7E-17 84.2 5.6 75 1-91 60-148 (159)
13 PF00034 Cytochrom_C: Cytochro 99.3 6.9E-15 1.5E-19 84.4 -5.2 79 2-91 11-91 (91)
14 PRK13620 psbV cytochrome c-550 99.3 4.3E-12 9.3E-17 84.1 6.3 74 1-91 113-201 (215)
15 PRK13618 psbV cytochrome c-550 99.3 8.5E-12 1.8E-16 80.5 5.9 76 1-91 61-149 (163)
16 PRK13621 psbV cytochrome c-550 99.2 9.4E-12 2E-16 80.4 4.3 41 50-90 109-154 (170)
17 CHL00183 petJ cytochrome c553; 99.2 4.3E-11 9.2E-16 72.3 4.4 69 1-91 35-104 (108)
18 TIGR03874 4cys_cytochr c-type 99.2 1.1E-10 2.3E-15 74.0 6.1 68 2-90 43-115 (143)
19 TIGR03046 PS_II_psbV2 photosys 99.1 4.6E-11 9.9E-16 76.5 4.0 41 50-90 98-143 (155)
20 PF13442 Cytochrome_CBB3: Cyto 99.1 1.2E-11 2.7E-16 68.6 1.0 54 2-87 13-67 (67)
21 PRK13697 cytochrome c6; Provis 99.1 7.3E-11 1.6E-15 71.4 4.1 68 2-91 38-106 (111)
22 TIGR00782 ccoP cytochrome c ox 99.1 2.9E-10 6.3E-15 79.0 7.1 69 1-91 212-282 (285)
23 TIGR00782 ccoP cytochrome c ox 98.9 2.5E-09 5.4E-14 74.4 6.1 70 2-91 117-193 (285)
24 PRK14486 putative bifunctional 98.9 3.1E-09 6.7E-14 74.4 5.9 67 2-92 225-292 (294)
25 COG2863 Cytochrome c553 [Energ 98.9 3.1E-09 6.7E-14 65.5 4.2 66 2-91 34-101 (121)
26 COG2857 CYT1 Cytochrome c1 [En 98.8 8E-09 1.7E-13 70.9 5.7 78 2-91 133-213 (250)
27 PF02433 FixO: Cytochrome C ox 98.7 2.1E-08 4.5E-13 67.5 3.8 56 15-90 100-157 (226)
28 COG2010 CccA Cytochrome c, mon 98.6 4.1E-08 9E-13 61.6 4.0 24 1-24 60-85 (150)
29 COG4654 Cytochrome c551/c552 [ 98.6 3.1E-08 6.8E-13 59.1 3.1 72 1-90 33-105 (110)
30 PRK13619 psbV cytochrome c-550 98.6 1E-07 2.2E-12 61.1 4.6 75 2-91 61-148 (160)
31 PRK14485 putative bifunctional 98.5 4.1E-07 8.9E-12 70.1 6.2 56 15-90 587-647 (712)
32 PRK13622 psbV cytochrome c-550 98.4 6.9E-07 1.5E-11 58.6 5.8 42 49-90 104-158 (180)
33 COG2993 CcoO Cbb3-type cytochr 98.4 1.7E-07 3.8E-12 62.0 2.7 58 14-91 101-160 (227)
34 COG3258 Cytochrome c [Energy p 97.9 1.6E-05 3.4E-10 54.9 4.3 34 51-92 215-253 (293)
35 TIGR03791 TTQ_mauG tryptophan 97.8 0.00019 4E-09 50.5 8.2 47 44-91 231-279 (291)
36 PF14495 Cytochrom_C550: Cytoc 97.3 0.00015 3.2E-09 45.3 2.3 42 49-90 67-121 (135)
37 PF09098 Dehyd-heme_bind: Quin 96.9 0.00039 8.5E-09 45.0 1.2 15 75-89 51-65 (167)
38 TIGR03806 chp_HNE_0200 conserv 96.3 0.011 2.4E-07 42.1 5.2 26 65-90 290-317 (317)
39 COG3258 Cytochrome c [Energy p 96.2 0.01 2.2E-07 41.3 4.4 73 2-91 64-136 (293)
40 PF10643 Cytochrome-c551: Phot 96.0 0.0019 4.1E-08 43.4 0.0 20 69-89 212-231 (233)
41 COG3748 Predicted membrane pro 95.9 0.0085 1.8E-07 43.0 2.9 65 2-90 334-403 (407)
42 COG3245 CycB Cytochrome c5 [En 95.8 0.04 8.8E-07 34.0 5.2 24 67-90 98-124 (126)
43 PF09086 DUF1924: Domain of un 94.9 0.008 1.7E-07 35.8 0.1 33 49-87 66-98 (98)
44 PF14376 Haem_bd: Haem-binding 94.6 0.027 5.9E-07 35.4 2.1 17 74-90 120-136 (137)
45 PF02167 Cytochrom_C1: Cytochr 88.8 0.13 2.8E-06 35.0 0.1 42 49-90 112-182 (219)
46 PF02167 Cytochrom_C1: Cytochr 88.5 1.9 4.2E-05 29.3 5.6 9 2-10 25-33 (219)
47 TIGR02162 torC trimethylamine- 87.9 0.4 8.7E-06 35.2 2.1 20 70-90 358-377 (386)
48 PF07635 PSCyt1: Planctomycete 85.3 0.53 1.2E-05 25.2 1.2 10 3-12 1-10 (59)
49 PRK15032 trimethylamine N-oxid 82.4 1 2.2E-05 33.2 2.0 20 70-90 355-374 (390)
50 PF09722 DUF2384: Protein of u 79.2 1.7 3.7E-05 22.6 1.7 42 49-91 10-51 (54)
51 PF02433 FixO: Cytochrome C ox 75.8 1.8 3.9E-05 29.6 1.5 16 76-91 207-222 (226)
52 PRK14487 cbb3-type cytochrome 74.6 2.2 4.8E-05 29.0 1.7 15 77-91 193-207 (217)
53 TIGR00781 ccoO cytochrome c ox 74.1 2.3 5E-05 29.2 1.7 15 77-91 207-221 (232)
54 COG1858 MauG Cytochrome c pero 73.2 8.5 0.00018 28.2 4.5 11 1-11 231-241 (364)
55 PF06537 DUF1111: Protein of u 71.7 2.5 5.4E-05 32.2 1.5 19 71-90 481-499 (499)
56 cd07321 Extradiol_Dioxygenase_ 71.3 2 4.3E-05 24.4 0.8 32 48-85 14-45 (77)
57 PRK11586 napB nitrate reductas 69.0 2 4.3E-05 27.5 0.5 11 1-11 81-91 (149)
58 COG3043 NapB Nitrate reductase 68.6 1.6 3.4E-05 28.1 -0.1 11 1-11 87-97 (155)
59 PF03150 CCP_MauG: Di-haem cyt 67.9 0.94 2E-05 29.1 -1.2 17 74-90 125-141 (159)
60 PF06943 zf-LSD1: LSD1 zinc fi 66.8 2.4 5.2E-05 19.0 0.4 8 2-9 18-25 (25)
61 PF07627 PSCyt3: Protein of un 66.3 1.1 2.3E-05 26.9 -1.1 9 2-10 71-79 (101)
62 KOG3052|consensus 64.5 1.4 3.1E-05 30.8 -0.9 14 77-90 249-262 (311)
63 cd07922 CarBa CarBa is the A s 63.9 3.1 6.6E-05 24.0 0.5 33 46-84 13-45 (81)
64 TIGR01905 paired_CXXCH_1 doubl 63.5 3.3 7.2E-05 20.6 0.6 10 2-11 8-17 (41)
65 PF11845 DUF3365: Protein of u 61.4 2.1 4.5E-05 27.6 -0.5 8 1-8 147-154 (188)
66 PF09832 DUF2059: Uncharacteri 61.0 7.8 0.00017 20.6 1.8 15 75-89 17-31 (64)
67 PF07583 PSCyt2: Protein of un 60.5 3.1 6.6E-05 28.0 0.2 9 2-10 176-184 (208)
68 PF07128 DUF1380: Protein of u 58.6 22 0.00048 22.6 3.8 34 46-90 25-58 (139)
69 PF09699 Paired_CXXCH_1: Doubl 57.9 3 6.5E-05 20.4 -0.2 10 2-11 8-17 (41)
70 TIGR02161 napC_nirT periplasmi 57.6 4 8.6E-05 27.0 0.3 10 1-10 136-145 (185)
71 PRK10617 cytochrome c-type pro 55.0 5 0.00011 26.9 0.4 10 1-10 145-154 (200)
72 COG3005 TorC Nitrate/TMAO redu 54.0 4 8.7E-05 27.2 -0.1 11 1-11 135-145 (190)
73 TIGR01053 LSD1 zinc finger dom 53.4 5.2 0.00011 18.8 0.2 9 2-10 21-29 (31)
74 PHA02119 hypothetical protein 52.4 10 0.00022 21.4 1.3 10 81-90 57-66 (87)
75 TIGR02251 HIF-SF_euk Dullard-l 51.5 22 0.00048 22.5 3.0 24 69-92 136-159 (162)
76 PF03892 NapB: Nitrate reducta 51.4 3.2 7E-05 26.1 -0.8 10 2-11 71-80 (133)
77 cd07921 PCA_45_Doxase_A_like S 50.5 8.6 0.00019 23.3 0.9 31 49-85 25-55 (106)
78 PF13821 DUF4187: Domain of un 48.6 16 0.00035 19.4 1.7 17 74-90 10-26 (55)
79 KOG1200|consensus 47.4 23 0.00049 24.4 2.6 20 70-89 218-237 (256)
80 PF13435 Cytochrome_C554: Cyto 47.4 8.4 0.00018 22.3 0.6 11 1-11 49-59 (130)
81 PF14522 Cytochrome_C7: Cytoch 46.6 9.7 0.00021 19.9 0.7 9 2-10 14-22 (65)
82 PF11829 DUF3349: Protein of u 45.5 7.2 0.00016 23.2 0.1 14 75-88 36-49 (96)
83 PRK14485 putative bifunctional 44.0 15 0.00033 29.3 1.6 46 45-91 648-698 (712)
84 PF08090 Enterotoxin_HS1: Heat 43.0 9.6 0.00021 18.1 0.3 9 2-10 21-29 (36)
85 PF15182 OTOS: Otospiralin 42.9 52 0.0011 18.2 3.1 24 67-91 15-38 (69)
86 TIGR02245 HAD_IIID1 HAD-superf 42.7 50 0.0011 22.0 3.7 36 54-91 140-179 (195)
87 cd02642 R3H_encore_like R3H do 42.7 16 0.00035 19.6 1.2 13 49-61 8-20 (63)
88 TIGR02826 RNR_activ_nrdG3 anae 42.6 61 0.0013 20.4 4.0 10 2-11 28-37 (147)
89 PF07746 LigA: Aromatic-ring-o 41.8 6.7 0.00015 22.9 -0.4 31 48-84 9-39 (88)
90 PF13822 ACC_epsilon: Acyl-CoA 41.2 40 0.00088 18.1 2.6 18 73-90 9-26 (62)
91 TIGR03153 cytochr_NrfH cytochr 39.9 6.9 0.00015 24.4 -0.6 10 1-10 103-112 (135)
92 PF14537 Cytochrom_c3_2: Cytoc 39.2 14 0.00031 19.9 0.6 9 2-10 8-16 (80)
93 COG5204 SPT4 Transcription elo 39.0 45 0.00097 20.0 2.7 34 49-83 62-96 (112)
94 CHL00037 petA cytochrome f 38.9 10 0.00022 27.1 0.0 9 3-11 56-64 (320)
95 PF03264 Cytochrom_NNT: NapC/N 38.9 9 0.00019 24.7 -0.3 10 2-11 37-46 (173)
96 PF15161 Neuropep_like: Neurop 38.4 7.3 0.00016 21.0 -0.6 10 1-10 14-23 (65)
97 COG3445 Acid-induced glycyl ra 38.2 33 0.00071 20.7 2.1 38 47-85 77-120 (127)
98 PRK02693 apocytochrome f; Revi 37.6 11 0.00024 26.7 0.1 9 3-11 49-57 (312)
99 COG2996 Predicted RNA-bindinin 36.7 36 0.00078 24.2 2.4 31 49-84 226-256 (287)
100 PF14769 CLAMP: Flagellar C1a 36.6 44 0.00095 19.6 2.5 18 72-89 61-78 (101)
101 COG1579 Zn-ribbon protein, pos 36.5 14 0.00031 25.5 0.4 11 1-11 198-208 (239)
102 PRK06393 rpoE DNA-directed RNA 36.4 19 0.00042 19.8 0.9 11 1-11 6-16 (64)
103 PF12797 Fer4_2: 4Fe-4S bindin 36.1 16 0.00034 15.8 0.4 7 2-8 9-15 (22)
104 PF10281 Ish1: Putative stress 36.1 54 0.0012 15.6 3.8 13 47-59 3-15 (38)
105 PF02375 JmjN: jmjN domain; I 35.6 17 0.00036 17.4 0.5 16 76-91 6-21 (34)
106 cd07923 Gallate_dioxygenase_C 35.4 18 0.00039 21.5 0.7 30 49-84 17-46 (94)
107 PF08263 LRRNT_2: Leucine rich 33.3 44 0.00096 16.1 1.9 15 77-91 2-16 (43)
108 COG1137 YhbG ABC-type (unclass 32.9 88 0.0019 21.7 3.7 20 70-89 166-187 (243)
109 KOG3831|consensus 31.2 40 0.00087 21.9 1.8 44 46-89 94-147 (196)
110 COG3488 Predicted thiol oxidor 31.1 36 0.00079 25.1 1.8 19 71-90 463-481 (481)
111 PF11256 DUF3055: Protein of u 31.1 56 0.0012 18.8 2.2 18 72-90 64-81 (81)
112 PRK13767 ATP-dependent helicas 30.8 92 0.002 25.4 4.1 35 46-89 440-474 (876)
113 smart00545 JmjN Small domain f 30.7 33 0.00072 17.1 1.1 16 76-91 8-23 (42)
114 COG3183 Predicted restriction 30.4 13 0.00028 26.1 -0.5 8 3-10 244-251 (272)
115 PF10180 DUF2373: Uncharacteri 30.0 68 0.0015 17.5 2.4 17 75-91 34-50 (65)
116 PF00432 Prenyltrans: Prenyltr 29.5 58 0.0013 15.8 1.9 12 79-90 2-13 (44)
117 PF06883 RNA_pol_Rpa2_4: RNA p 28.9 61 0.0013 17.3 2.0 17 75-91 4-20 (58)
118 TIGR03146 cyt_nit_nrfB cytochr 28.4 20 0.00043 22.5 0.1 10 2-11 111-120 (145)
119 PF04320 DUF469: Protein with 28.4 62 0.0013 19.4 2.2 19 73-91 68-86 (101)
120 PRK08340 glucose-1-dehydrogena 28.0 67 0.0015 21.3 2.6 20 70-89 217-236 (259)
121 PF02085 Cytochrom_CIII: Class 27.8 35 0.00077 19.7 1.1 10 2-11 49-58 (102)
122 KOG1605|consensus 27.7 1.1E+02 0.0024 21.4 3.7 35 55-91 213-247 (262)
123 PF15573 Imm27: Immunity prote 27.7 58 0.0013 22.6 2.2 26 66-91 216-243 (259)
124 PF08538 DUF1749: Protein of u 27.7 41 0.00088 24.1 1.5 15 76-90 86-100 (303)
125 PF14410 GH-E: HNH/ENDO VII su 27.7 58 0.0013 18.0 1.9 21 45-65 38-58 (70)
126 COG1250 FadB 3-hydroxyacyl-CoA 27.7 1.6E+02 0.0035 21.1 4.6 44 49-92 122-176 (307)
127 PF09383 NIL: NIL domain; Int 27.0 68 0.0015 17.4 2.1 15 76-90 55-69 (76)
128 PRK11659 cytochrome c nitrite 26.5 21 0.00045 23.5 -0.1 10 2-11 134-143 (183)
129 PF14566 PTPlike_phytase: Inos 26.3 63 0.0014 20.2 2.1 16 76-91 107-122 (149)
130 PF13561 adh_short_C2: Enoyl-( 26.1 40 0.00086 22.2 1.2 20 70-89 204-223 (241)
131 PF13099 DUF3944: Domain of un 25.9 78 0.0017 15.3 1.9 14 75-88 13-26 (35)
132 PRK06603 enoyl-(acyl carrier p 25.8 82 0.0018 21.1 2.7 20 70-89 216-235 (260)
133 cd08168 Cytochrom_C3 Heme-bind 25.5 32 0.00068 19.2 0.6 9 2-10 35-43 (85)
134 COG5469 Predicted metal-bindin 25.2 48 0.001 21.1 1.4 20 2-22 22-41 (143)
135 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 25.1 74 0.0016 16.5 1.9 18 46-63 30-47 (50)
136 PF11165 DUF2949: Protein of u 24.3 1.3E+02 0.0028 16.2 3.2 40 49-88 16-57 (58)
137 PRK02955 small acid-soluble sp 23.9 1.3E+02 0.0029 16.7 2.8 42 48-89 16-65 (68)
138 PF13986 DUF4224: Domain of un 23.8 47 0.001 16.9 1.0 13 74-86 2-14 (47)
139 CHL00136 rpl31 ribosomal prote 23.8 35 0.00076 18.9 0.5 10 2-11 37-46 (68)
140 cd06395 PB1_Map2k5 PB1 domain 23.7 82 0.0018 18.3 2.0 16 74-89 56-71 (91)
141 PF09256 BaffR-Tall_bind: BAFF 23.4 17 0.00037 17.0 -0.7 10 1-10 15-24 (31)
142 PF10955 DUF2757: Protein of u 23.3 25 0.00055 20.0 -0.1 16 71-87 29-44 (76)
143 COG0411 LivG ABC-type branched 23.2 88 0.0019 21.9 2.5 21 70-91 176-196 (250)
144 PF14098 SSPI: Small, acid-sol 23.1 98 0.0021 17.1 2.2 41 49-89 15-63 (65)
145 TIGR03092 SASP_sspI small, aci 23.0 88 0.0019 17.3 2.0 42 48-89 13-62 (65)
146 PF10058 DUF2296: Predicted in 23.0 35 0.00075 18.0 0.4 10 3-12 25-34 (54)
147 PRK05867 short chain dehydroge 22.9 96 0.0021 20.4 2.6 18 72-89 216-233 (253)
148 PF15614 WHIM3: WSTF, HB1, Itc 22.8 1E+02 0.0022 15.8 2.1 13 75-87 5-17 (46)
149 PF13453 zf-TFIIB: Transcripti 22.8 36 0.00079 16.5 0.4 7 3-9 22-28 (41)
150 PRK00019 rpmE 50S ribosomal pr 22.5 38 0.00083 19.0 0.5 9 3-11 38-46 (72)
151 PF09626 DHC: Dihaem cytochrom 22.2 99 0.0021 19.0 2.3 16 75-90 39-54 (120)
152 KOG2112|consensus 22.0 90 0.0019 21.2 2.3 26 66-91 177-205 (206)
153 PF14982 UPF0731: UPF0731 fami 21.6 41 0.0009 18.9 0.5 10 1-10 44-53 (79)
154 PF02335 Cytochrom_C552: Cytoc 21.5 33 0.00072 25.8 0.1 7 2-8 274-280 (434)
155 TIGR02894 DNA_bind_RsfA transc 21.4 62 0.0013 21.1 1.4 12 80-91 82-93 (161)
156 PF07102 DUF1364: Protein of u 21.4 15 0.00034 21.7 -1.3 10 2-11 53-62 (94)
157 TIGR03152 cyto_c552_HCOOH form 21.0 48 0.001 25.0 0.9 10 2-11 122-131 (439)
158 PRK02289 4-oxalocrotonate taut 20.8 1.3E+02 0.0028 15.6 2.4 14 73-87 11-24 (60)
159 PF05927 Penaeidin: Penaeidin; 20.6 49 0.0011 18.5 0.7 9 2-10 45-53 (73)
160 KOG3309|consensus 20.6 32 0.00069 22.3 -0.1 10 2-11 86-95 (159)
161 PRK06997 enoyl-(acyl carrier p 20.5 1.1E+02 0.0024 20.5 2.5 21 70-90 215-235 (260)
162 PRK11702 hypothetical protein; 20.5 1.3E+02 0.0027 18.3 2.5 17 73-89 75-91 (108)
163 PF01645 Glu_synthase: Conserv 20.3 1.7E+02 0.0036 21.6 3.5 22 70-91 180-201 (368)
164 PF07845 DUF1636: Protein of u 20.2 52 0.0011 20.1 0.8 19 71-89 70-88 (116)
165 PRK12481 2-deoxy-D-gluconate 3 20.1 1.3E+02 0.0027 20.0 2.7 20 70-89 212-231 (251)
166 PF14053 DUF4248: Domain of un 20.1 96 0.0021 17.1 1.8 38 51-88 26-67 (69)
No 1
>PTZ00405 cytochrome c; Provisional
Probab=100.00 E-value=5e-34 Score=174.84 Aligned_cols=91 Identities=57% Similarity=1.048 Sum_probs=85.8
Q ss_pred CCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHH
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMIFAGIKKPQERG 81 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~ 81 (92)
+|.+||++...+...+||+|.||++|..++.++|.||.++++.+++|+++.|..||.+|+.++||+.|+|.++.+++|++
T Consensus 24 ~C~aCH~~~~~~~~~vGP~L~gv~gR~~g~~~~~~YS~al~~~g~~wd~~~L~~~l~~P~~~~pgt~M~f~gl~~~~dr~ 103 (114)
T PTZ00405 24 RAAQCHTATKGGSNGVGPNLFGIVNRKSGTVEGFAYSKANADSGVIWTPEVLDVYLENPKKFMPGTKMSFAGIKKPQERA 103 (114)
T ss_pred hhHhhCCCCCCCCCCcCCCccccccCccccccCccccHHHHhccCcCCHHHHHHHHHCHHhhCCCCCCCCCCCCCHHHHH
Confidence 69999998765557899999999999999999999999999999999999999999999999999999999999899999
Q ss_pred HHHHHHhhccC
Q psy8407 82 DLIAYLEQASK 92 (92)
Q Consensus 82 ~liayL~sl~~ 92 (92)
+||+||++|+.
T Consensus 104 ~liaYL~sl~~ 114 (114)
T PTZ00405 104 DVIAYLETLKD 114 (114)
T ss_pred HHHHHHHHhcC
Confidence 99999999873
No 2
>COG3474 Cytochrome c2 [Energy production and conversion]
Probab=100.00 E-value=4.9e-34 Score=176.20 Aligned_cols=90 Identities=58% Similarity=1.079 Sum_probs=86.7
Q ss_pred CCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhc--CccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHH
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKK--GITWNKDTLFEYLENPKKYIPGTKMIFAGIKKPQE 79 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~--~~~~~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d 79 (92)
.|.+||+++.++...+||+|.+|+||+.++.+||.||.++++. +++|+++.|..||.+|.+++|||.|.|.++.+++|
T Consensus 40 kC~~CH~i~~~g~nkvGP~L~gVvGR~ags~egf~YS~Amk~~~~g~vWd~~~L~~fL~~Pkk~vpGTkM~faGlkk~~d 119 (135)
T COG3474 40 KCQACHSIEKGGPNKVGPHLWGVVGRPAGSVEGFSYSAAMKKAGGGIVWDEDNLDEFLTAPKKYVPGTKMAFAGLKKDQD 119 (135)
T ss_pred HHHHhhccccCCCCCCCCccccccCccccccCCcccCHHHHhccCCcccCHHHHHHHHhChhhhCCCcceeecCCCCHHH
Confidence 5999999998778899999999999999999999999999988 89999999999999999999999999999999999
Q ss_pred HHHHHHHHhhcc
Q psy8407 80 RGDLIAYLEQAS 91 (92)
Q Consensus 80 ~~~liayL~sl~ 91 (92)
|+|||+||+++.
T Consensus 120 radlIAYLk~~~ 131 (135)
T COG3474 120 RADLIAYLKSLP 131 (135)
T ss_pred HHHHHHHHHhcc
Confidence 999999999875
No 3
>PTZ00048 cytochrome c; Provisional
Probab=99.97 E-value=2.9e-31 Score=162.92 Aligned_cols=89 Identities=67% Similarity=1.183 Sum_probs=83.8
Q ss_pred CCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHH
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMIFAGIKKPQERG 81 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~ 81 (92)
+|.+||++++.+...+||+|.||++|..++ ++|.|+.+++.+++.|+++.|.+||.||+.++|++.|+|.++.+++|++
T Consensus 25 ~C~~CH~~~~~g~~~~GP~L~Gi~gR~~g~-~~~~ys~~~~~~g~~wt~~~L~~~l~~P~~~~pgt~M~~~gl~~~~~~~ 103 (115)
T PTZ00048 25 KCAQCHTINKGGAVKQGPNLHGFYGRKSGS-ADFPYSDANKNSGIVWSDKHLFEYLVNPKLYIPGTKMVFAGIKKEKERA 103 (115)
T ss_pred hhhhcCCCcCCCCCCcCCcccccccccccC-CCCccchhhhhcccccCHHHHHHHHhCcCccCCCCccCcCCCCCHHHHH
Confidence 699999998766678999999999999988 8999999998889999999999999999999999999999999899999
Q ss_pred HHHHHHhhcc
Q psy8407 82 DLIAYLEQAS 91 (92)
Q Consensus 82 ~liayL~sl~ 91 (92)
+||+||++++
T Consensus 104 ~liaYL~s~~ 113 (115)
T PTZ00048 104 DLIAYLKEAS 113 (115)
T ss_pred HHHHHHHHhc
Confidence 9999999985
No 4
>KOG3453|consensus
Probab=99.84 E-value=2.1e-21 Score=116.63 Aligned_cols=91 Identities=74% Similarity=1.263 Sum_probs=85.5
Q ss_pred CCCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHH
Q psy8407 1 MKCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMIFAGIKKPQER 80 (92)
Q Consensus 1 ~~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~ 80 (92)
+.|..||+++..+.-.+||+|.++.+|..+...+|.|+.+++..|+.|.++.|.++|.+|..++||+.|-|.++-...|+
T Consensus 18 ~rc~qch~~~~~~~~k~~p~l~gl~g~~~g~~~~~sy~~a~KnKgV~wgE~tl~eyLenpkkyipGtKmifaGikk~~er 97 (110)
T KOG3453|consen 18 QRCAQCHTVEKGGFHKTGPNLHGLFGRQLGQAAGLSYTDANKNKGVTWGEDTLMEYLENPKKYIPGTKMIFAGIKKKAER 97 (110)
T ss_pred eeccccccccCCcccccCCcchhhHHHhhccccCcceeecccCCceEEcchhHHHHHhCCCccccccceeecccCchHHH
Confidence 47999999998667789999999999999999999999999999999999999999999999999999999999877999
Q ss_pred HHHHHHHhhcc
Q psy8407 81 GDLIAYLEQAS 91 (92)
Q Consensus 81 ~~liayL~sl~ 91 (92)
.|+|+||.+.+
T Consensus 98 aDlIayl~ka~ 108 (110)
T KOG3453|consen 98 ADLIAYLKKAT 108 (110)
T ss_pred HHHHHHHHHhc
Confidence 99999998754
No 5
>PRK14487 cbb3-type cytochrome c oxidase subunit II; Provisional
Probab=99.64 E-value=3e-16 Score=104.46 Aligned_cols=58 Identities=19% Similarity=0.239 Sum_probs=48.9
Q ss_pred CCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHH--HHHHHHhhccC
Q psy8407 15 HKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMIFAGIKKPQERG--DLIAYLEQASK 92 (92)
Q Consensus 15 ~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~--~liayL~sl~~ 92 (92)
.++||||+++++|. +.+++..||.||+.++|++.||-...+.+++++ +|.+||+++++
T Consensus 101 ~RtGPDLt~vG~R~--------------------s~~w~~~hl~nP~~v~PgS~MPay~~L~~~~ld~~~~~~~l~~l~~ 160 (217)
T PRK14487 101 KRTGPDLARVGGRY--------------------SDEWHRNHLINPRSVVPESNMPAYPWLAENDLDGTDTAEKMTALRV 160 (217)
T ss_pred CCCCcchhhhhccC--------------------CHHHHHHHHhCcccCCCCCCCCCCcccccccCCHHHHHHHHHHhhh
Confidence 47999999998875 589999999999999999999954434477766 99999999863
No 6
>PRK13617 psbV cytochrome c-550; Provisional
Probab=99.51 E-value=3.2e-14 Score=91.95 Aligned_cols=76 Identities=22% Similarity=0.292 Sum_probs=56.2
Q ss_pred CCCccCccccCC-CCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCC---------CCC---
Q psy8407 1 MKCAQCHTIEAG-GAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYI---------PGT--- 67 (92)
Q Consensus 1 ~~C~~CH~~~~~-~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~---------p~~--- 67 (92)
.+|.+||.+.+. ..+.+||+|..+..-. ...-+.+.|.+||+||+.+. |+.
T Consensus 68 ~~C~~CH~~g~T~~n~~vg~dL~~L~aa~----------------p~r~nv~aLv~yikdP~sydg~~s~~e~~P~~~~~ 131 (170)
T PRK13617 68 TSCGTCHAGGITKTNQNVGLDPETLALAT----------------PARDNVDALVDYLKDPTSYDGEYSIADLHPSMRSA 131 (170)
T ss_pred cchhhhccCCCcCCCCCcCCCHHHHhccC----------------CCCCCHHHHHHHHhChHhhcchhhccccCcccccc
Confidence 379999988863 2458999996653211 01236899999999997766 654
Q ss_pred -CCCCCCCCCHHHHHHHHHHHhhccC
Q psy8407 68 -KMIFAGIKKPQERGDLIAYLEQASK 92 (92)
Q Consensus 68 -~Mp~~~~~~~~d~~~liayL~sl~~ 92 (92)
.||-...++++|+++|++||..++|
T Consensus 132 ~imP~~~~LsdeeL~alAayLl~~~k 157 (170)
T PRK13617 132 DLYPAMRDLNDEDLRLMAGYILVAPK 157 (170)
T ss_pred ccCcccCCCCHHHHHHHHHHHHhccc
Confidence 7885444569999999999998854
No 7
>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=99.48 E-value=6e-14 Score=87.92 Aligned_cols=23 Identities=43% Similarity=0.915 Sum_probs=19.6
Q ss_pred CCccCccccCCCCCCCCCCccCcc
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLHGLI 25 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~~i~ 25 (92)
+|.+||++++.+ ..+||+|.++.
T Consensus 13 ~C~~CH~~~g~g-~~~gP~L~~~~ 35 (133)
T TIGR02603 13 RCYVCHRIGGEG-VDVGPDLTGVG 35 (133)
T ss_pred HHHHhCCCCCCC-CccCCCccccc
Confidence 599999999754 57899999985
No 8
>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=99.41 E-value=2.9e-13 Score=90.87 Aligned_cols=58 Identities=17% Similarity=0.230 Sum_probs=43.7
Q ss_pred CCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHH--HHHHHHHHHhhcc
Q psy8407 14 AHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMIFAGIKKPQ--ERGDLIAYLEQAS 91 (92)
Q Consensus 14 ~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~--d~~~liayL~sl~ 91 (92)
.+++||||+.+++|. +.+|+..||.||+.+.|++.||....+.++ |..++.+.|+.++
T Consensus 99 s~RtGPDLt~vG~R~--------------------s~~wh~~hl~nPr~v~PgSiMP~y~~L~~~~ld~~~~~~~~~~~~ 158 (232)
T TIGR00781 99 SKRTGPDLARVGGRY--------------------SDEWHVKHLFDPRSVVPESIMPAYKHLATKKVDVDTAYAEAKTQK 158 (232)
T ss_pred CCCcCcCcccccccC--------------------CHHHHHHHHhCccccCCCCCCCCCcccccccCCHHHHHHHHHHHH
Confidence 358999999998875 578999999999999999999943322233 3446677776654
No 9
>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=99.38 E-value=1.4e-12 Score=81.82 Aligned_cols=70 Identities=21% Similarity=0.238 Sum_probs=47.9
Q ss_pred CCCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCC-CCCCCCHHH
Q psy8407 1 MKCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMI-FAGIKKPQE 79 (92)
Q Consensus 1 ~~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp-~~~~~~~~d 79 (92)
++|++||..++. +.+||+|.+...... . .-..+.|.+.|.+.. ..+|| |...++++|
T Consensus 53 ~~CAaCHG~~g~--G~~gP~L~~~~~~~~---------~-------~~~~~~l~~~i~~G~----~g~Mp~~~~~Lsdee 110 (133)
T TIGR03872 53 TACSGCHGHLAE--GKLGPGLNDDYWTYP---------K-------NTTDKGLFETIFGGA----NGMMGPQYGNLTLDE 110 (133)
T ss_pred HhhHHhCCCCCC--CCCCCCCcCcccccC---------C-------cccHHHHHHHHHcCC----CCCCcccccCCCHHH
Confidence 379999999864 457899987432111 0 013455777776542 23686 556677999
Q ss_pred HHHHHHHHhhccC
Q psy8407 80 RGDLIAYLEQASK 92 (92)
Q Consensus 80 ~~~liayL~sl~~ 92 (92)
|.+|++||+++++
T Consensus 111 I~aLaaYI~sl~~ 123 (133)
T TIGR03872 111 MLQIMAWIRHLYT 123 (133)
T ss_pred HHHHHHHHHHhCC
Confidence 9999999999864
No 10
>CHL00133 psbV photosystem II cytochrome c550; Validated
Probab=99.38 E-value=1.1e-12 Score=84.58 Aligned_cols=74 Identities=15% Similarity=0.151 Sum_probs=50.7
Q ss_pred CCCccCccccCC-CCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCC-------------CCCC
Q psy8407 1 MKCAQCHTIEAG-GAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKK-------------YIPG 66 (92)
Q Consensus 1 ~~C~~CH~~~~~-~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~-------------~~p~ 66 (92)
++|++||..... ....+||+|..+.+-. ....+.++|.+||+||+. ..++
T Consensus 61 ~~CaaCH~~G~~~~~p~vgl~l~~L~~A~----------------~~r~~~~~Lv~~iknP~~ydg~~~i~~~~~~~K~~ 124 (163)
T CHL00133 61 ASCGACHVGGITKTNPNVGLDPEALSLAT----------------PPRDNIEALVDYMKNPTTYDGLESIAEIHPSIKSA 124 (163)
T ss_pred hhHHHhCCCCCCCCCCCCCCCHHHHhhcC----------------CCcccHHHHHHHHhCcccccchHHHHHhhcccCcc
Confidence 479999963211 1335566666553310 012368999999999987 4566
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhc
Q psy8407 67 TKMIFAGIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 67 ~~Mp~~~~~~~~d~~~liayL~sl 90 (92)
..||..+.++++|+++|++||...
T Consensus 125 ~~MPa~~~LsdeEL~aVAaYIl~q 148 (163)
T CHL00133 125 DIFPKMRSLTDEDLYAIAGHILLQ 148 (163)
T ss_pred ccCCCCCCCCHHHHHHHHHHHHhc
Confidence 789955656699999999999754
No 11
>PRK14486 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional
Probab=99.38 E-value=7.5e-13 Score=92.47 Aligned_cols=57 Identities=21% Similarity=0.493 Sum_probs=45.1
Q ss_pred CCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCC-CC----C-CC-------------
Q psy8407 15 HKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMI-FA----G-IK------------- 75 (92)
Q Consensus 15 ~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp-~~----~-~~------------- 75 (92)
.++||+|+++++|. +++|+..+|.||+.+.|++.|| |. . +.
T Consensus 101 ~r~GPDL~~vG~r~--------------------~~~w~~~~l~~P~~~~p~s~MP~~~~l~~~~~~~~~~~~~~~~~~~ 160 (294)
T PRK14486 101 KRTGPDLARIGGKY--------------------PDAWHYAHFEDPQAVVPRSNMPAYAFLKGKPLDAALTQRKMRALGF 160 (294)
T ss_pred CCCCCchhhhcccC--------------------CHHHHHHHHhCcccCCCCCCCCCCHHHhhccCcHHHHHHhhhhcCC
Confidence 57899999988775 6899999999999999999998 21 1 10
Q ss_pred --C---------HHHHHHHHHHHhhcc
Q psy8407 76 --K---------PQERGDLIAYLEQAS 91 (92)
Q Consensus 76 --~---------~~d~~~liayL~sl~ 91 (92)
+ ..|+++|++||++|.
T Consensus 161 py~~~~~~~~~~~~e~~AlvAYl~~L~ 187 (294)
T PRK14486 161 PYTDADLAALAGKTEMDAMVAYMQSLG 187 (294)
T ss_pred CCCHHHHHHhcccHHHHHHHHHHHHhc
Confidence 1 136789999999885
No 12
>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=99.37 E-value=1.2e-12 Score=84.17 Aligned_cols=75 Identities=16% Similarity=0.193 Sum_probs=52.0
Q ss_pred CCCccCccccCC-CCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCC-------------CCC
Q psy8407 1 MKCAQCHTIEAG-GAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKY-------------IPG 66 (92)
Q Consensus 1 ~~C~~CH~~~~~-~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~-------------~p~ 66 (92)
++|++||..... ....+||+|..+.+-.. ...+.++|..||+||..+ .+.
T Consensus 60 ~~Ca~CH~~G~~~~~p~vgl~l~~L~~A~~----------------~r~~v~~Lv~~iknP~~~dg~~~~~~~hp~~k~~ 123 (159)
T TIGR03045 60 TACGTCHVGGITKTNPNVGLDPEALALATP----------------PRDNVEALVDYMKNPTSYDGEESIAELHPSIRSA 123 (159)
T ss_pred HHHHHhCCCCCCCCCCCCCCChhhHHhcCC----------------CccCHHHHHHHHhCcccccccchhhhcccccCcc
Confidence 379999954321 13466777666543110 123688999999999755 456
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhcc
Q psy8407 67 TKMIFAGIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 67 ~~Mp~~~~~~~~d~~~liayL~sl~ 91 (92)
..||..+-++++|+++|++||....
T Consensus 124 ~~mP~~~~LsdeEL~avAaYIl~q~ 148 (159)
T TIGR03045 124 DIFPKMRNLTDEDLRLIAGHILVQP 148 (159)
T ss_pred cccCCcCCCCHHHHHHHHHHHHHhc
Confidence 7898665556999999999998764
No 13
>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=99.35 E-value=6.9e-15 Score=84.35 Aligned_cols=79 Identities=24% Similarity=0.326 Sum_probs=41.8
Q ss_pred CCccCccccCCCCCCC-CCCccCccCCCCCCCCCCcchHHhhhcCccccHH-HHHHHHhCCCCCCCCCCCCCCCCCCHHH
Q psy8407 2 KCAQCHTIEAGGAHKV-GPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKD-TLFEYLENPKKYIPGTKMIFAGIKKPQE 79 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~-GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~-~l~~~i~~P~~~~p~~~Mp~~~~~~~~d 79 (92)
+|++||++++.+.... +|+|.++..+.... +... .|... .+......+........||....++++|
T Consensus 11 ~C~~CH~~~~~~~~~~~~p~l~~~~~~~~~~-----~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~~e 79 (91)
T PF00034_consen 11 NCAACHGADGNGDGGGPGPDLTGIGKRYSYD-----WIGR------YITNPEAISPPAHMPDAMPMFPMMPMPKILSDEE 79 (91)
T ss_dssp HTTTTHBTSTTSSSSSTSHBHTTHTHHBTTH-----HTHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSHHH
T ss_pred cChhcCCCCCcCCccccCccccCccccchHH-----HHHH------HHHHHhhhccccchhhccCcccCCcccCCCCHHH
Confidence 6999999997653333 69999987664311 0000 00111 0110000000000112233221456999
Q ss_pred HHHHHHHHhhcc
Q psy8407 80 RGDLIAYLEQAS 91 (92)
Q Consensus 80 ~~~liayL~sl~ 91 (92)
+++|++||+|||
T Consensus 80 ~~~l~ayl~slk 91 (91)
T PF00034_consen 80 IADLAAYLRSLK 91 (91)
T ss_dssp HHHHHHHHHHTS
T ss_pred HHHHHHHHHHhC
Confidence 999999999997
No 14
>PRK13620 psbV cytochrome c-550; Provisional
Probab=99.33 E-value=4.3e-12 Score=84.05 Aligned_cols=74 Identities=19% Similarity=0.265 Sum_probs=54.3
Q ss_pred CCCccCccccC-C-CCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCC-------------
Q psy8407 1 MKCAQCHTIEA-G-GAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIP------------- 65 (92)
Q Consensus 1 ~~C~~CH~~~~-~-~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p------------- 65 (92)
+.|++|| +.+ . .+..+||+|..+..-. .+ .++.+.|..||+||+.+.|
T Consensus 113 ~~Ca~CH-VgG~Tktnp~vgpdLt~LaaAt---pp-------------Rdn~e~Lv~wLkdP~sydg~~siae~HPs~~s 175 (215)
T PRK13620 113 YACGQCH-VGGITKTDPNVGLDPEALALAT---PP-------------RDSVESLVDYLHNPTTYDGEREISELHPSTKS 175 (215)
T ss_pred hhhhhcc-CCCCCCCCCCCCCCHHHHhccC---CC-------------CCCHHHHHHHHhCccccCCcchhhhcCccccc
Confidence 3699999 543 2 2357899998552111 11 2478999999999999888
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHhhcc
Q psy8407 66 GTKMIFAGIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 66 ~~~Mp~~~~~~~~d~~~liayL~sl~ 91 (92)
+..||-.+.++++|+++|++|+.-..
T Consensus 176 ~d~mP~~r~LtdedL~aIa~~IL~qp 201 (215)
T PRK13620 176 TDIFPKMRNLTEDDLVAISGHILLQP 201 (215)
T ss_pred cccccccCCCCHHHHHHHHHHHhccc
Confidence 78899665456999999999987543
No 15
>PRK13618 psbV cytochrome c-550; Provisional
Probab=99.28 E-value=8.5e-12 Score=80.51 Aligned_cols=76 Identities=18% Similarity=0.223 Sum_probs=52.3
Q ss_pred CCCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCC-------------CCCC
Q psy8407 1 MKCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKY-------------IPGT 67 (92)
Q Consensus 1 ~~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~-------------~p~~ 67 (92)
++|++|| +. |...++|++.+ ++..- ++. ....-+.+.|..||+||..+ .+..
T Consensus 61 ~~Ca~CH-~~--G~~~~~p~~~l--~~~~L--a~a--------~p~rd~v~~l~~yik~P~~~Dg~~~~~~~h~~ik~~~ 125 (163)
T PRK13618 61 YACAQCH-AG--GVTKTNQNVGL--EPEAL--ALA--------TPNRDNIEGLVDYMKNPTTYDGEEEISEIHPSIKSAD 125 (163)
T ss_pred HHHHHhc-CC--CCCCCCCCcCC--Chhhh--ccC--------CCCccCHHHHHHHHhCchhccccchhcccccccCccc
Confidence 3699999 44 34677888774 22211 111 00011578999999999886 6778
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhcc
Q psy8407 68 KMIFAGIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 68 ~Mp~~~~~~~~d~~~liayL~sl~ 91 (92)
.||..+-++|+|+++|++||....
T Consensus 126 ~mP~~~~Lsd~eL~ava~yll~~~ 149 (163)
T PRK13618 126 IFTAMRNLTDKDLEAIAGHILVQP 149 (163)
T ss_pred cCCCCCCCCHHHHHHHHHHHHhcc
Confidence 898666556999999999998654
No 16
>PRK13621 psbV cytochrome c-550; Provisional
Probab=99.24 E-value=9.4e-12 Score=80.43 Aligned_cols=41 Identities=22% Similarity=0.344 Sum_probs=33.7
Q ss_pred HHHHHHHHhCCCCCCC-----CCCCCCCCCCCHHHHHHHHHHHhhc
Q psy8407 50 KDTLFEYLENPKKYIP-----GTKMIFAGIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 50 ~~~l~~~i~~P~~~~p-----~~~Mp~~~~~~~~d~~~liayL~sl 90 (92)
.++|.+||++|..+.| +..||....++++|+++|++||...
T Consensus 109 I~~LV~~iknPms~kg~~~~~~~~mps~~~LSdeEL~aIAaYLL~q 154 (170)
T PRK13621 109 IAALVAYQRDPMSYDGSEESYGCRQVPEDWMTDEELQNLAAFILRA 154 (170)
T ss_pred HHHHHHHhhCCCCCCcccccccccCCccCCCCHHHHHHHHHHHHhh
Confidence 4789999999999876 5667755556699999999999764
No 17
>CHL00183 petJ cytochrome c553; Provisional
Probab=99.16 E-value=4.3e-11 Score=72.34 Aligned_cols=69 Identities=19% Similarity=0.232 Sum_probs=47.0
Q ss_pred CCCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCC-CCCCCCHHH
Q psy8407 1 MKCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMI-FAGIKKPQE 79 (92)
Q Consensus 1 ~~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp-~~~~~~~~d 79 (92)
++|++||... .+.++|++.... ..+... ...+.+.|..+|+++.. .|| |.+.++++|
T Consensus 35 ~~Ca~CHg~g---~~~~~P~~~~~~-------------~~l~~~-~~~~~~~i~~~i~~G~~-----~MP~f~~~Ls~~e 92 (108)
T CHL00183 35 ANCAACHAGG---NNVIMPEKTLKK-------------DALEAN-SMNSIEAITYQVTNGKN-----AMPAFGGRLSDED 92 (108)
T ss_pred HHHHHHCCCC---CCCCCCCcccCH-------------HHHhhC-cCCCHHHHHHHHHcCcc-----ccccccCCCCHHH
Confidence 3799999953 356788875311 111111 12357889999998752 587 656677999
Q ss_pred HHHHHHHHhhcc
Q psy8407 80 RGDLIAYLEQAS 91 (92)
Q Consensus 80 ~~~liayL~sl~ 91 (92)
+++|++||.++.
T Consensus 93 i~~i~aYi~~~~ 104 (108)
T CHL00183 93 IEDVANYVLSQA 104 (108)
T ss_pred HHHHHHHHHHhh
Confidence 999999999864
No 18
>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=99.16 E-value=1.1e-10 Score=73.98 Aligned_cols=68 Identities=21% Similarity=0.370 Sum_probs=49.0
Q ss_pred CCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCC---CCCCCC-CCCCCCH
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYI---PGTKMI-FAGIKKP 77 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~---p~~~Mp-~~~~~~~ 77 (92)
+|++||..++.|. ...|+|.+...+ -+.+.|.+.|.+..... ....|| |...+++
T Consensus 43 ~CAaCHG~dG~G~-~~~P~Lans~v~--------------------~s~~nli~vIl~G~~~~~~~~~~~MPaF~~~LsD 101 (143)
T TIGR03874 43 ECHVCHGPDGMGS-TYAPALKDSVKR--------------------MSYGDFLGVVANGRQNVSAAQNNVMPAFGDNPNV 101 (143)
T ss_pred HHHHhCCCCCCCC-CCCCCCCCcccc--------------------CCHHHHHHHHHhCCCCCCCCCCCCCCCccccCCc
Confidence 6999999998653 368999753322 15778888888754321 124698 7677777
Q ss_pred H-HHHHHHHHHhhc
Q psy8407 78 Q-ERGDLIAYLEQA 90 (92)
Q Consensus 78 ~-d~~~liayL~sl 90 (92)
+ ||++|+.||+.-
T Consensus 102 ~~eIa~L~~YLR~~ 115 (143)
T TIGR03874 102 MCYLDDLYVYLRAR 115 (143)
T ss_pred HHHHHHHHHHHHhc
Confidence 6 999999999864
No 19
>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=99.14 E-value=4.6e-11 Score=76.48 Aligned_cols=41 Identities=22% Similarity=0.356 Sum_probs=33.9
Q ss_pred HHHHHHHHhCCCCCCC-----CCCCCCCCCCCHHHHHHHHHHHhhc
Q psy8407 50 KDTLFEYLENPKKYIP-----GTKMIFAGIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 50 ~~~l~~~i~~P~~~~p-----~~~Mp~~~~~~~~d~~~liayL~sl 90 (92)
.+.|.+||++|..+.+ +..||....++++|+++|++||...
T Consensus 98 I~~Lv~~iknP~s~kG~~~~~~~~mp~~~~LsdeEL~aIAaYLl~q 143 (155)
T TIGR03046 98 IQSLVAYQRDPMSYDGSEESYGCRPVPEDWMDDEEVENLAAFILRA 143 (155)
T ss_pred HHHHHHHhhCCcccCcccccccccCCcccCCCHHHHHHHHHHHHHh
Confidence 4789999999999876 5667766556699999999999864
No 20
>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=99.14 E-value=1.2e-11 Score=68.62 Aligned_cols=54 Identities=33% Similarity=0.687 Sum_probs=41.2
Q ss_pred CCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCC-CCCCCCHHHH
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMI-FAGIKKPQER 80 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp-~~~~~~~~d~ 80 (92)
+|++||+.+ ..||+|.+. .|+++.|..+|.++. ..|| |...++++|+
T Consensus 13 ~C~~CH~~~-----~~gp~l~~~----------------------~~~~~~l~~~i~~g~-----~~Mp~~~~~ls~~e~ 60 (67)
T PF13442_consen 13 NCASCHGPG-----GAGPSLAGK----------------------DWSPEELYNIIRNGR-----GGMPPFGGQLSDEEI 60 (67)
T ss_dssp HTHHHHGTG-----SSSSTSTHH----------------------HHHHHHHHHHHHHTB-----TTBSCTTTTSTHHHH
T ss_pred HhHHhcCCC-----ccCccchhh----------------------hhhHHHHHHHHHhCc-----CCCCCCCCCCCHHHH
Confidence 699999933 346888852 256789999999875 2577 4445679999
Q ss_pred HHHHHHH
Q psy8407 81 GDLIAYL 87 (92)
Q Consensus 81 ~~liayL 87 (92)
++|++||
T Consensus 61 ~~l~~yi 67 (67)
T PF13442_consen 61 EALAAYI 67 (67)
T ss_dssp HHHHHHH
T ss_pred HHHHHHC
Confidence 9999997
No 21
>PRK13697 cytochrome c6; Provisional
Probab=99.12 E-value=7.3e-11 Score=71.38 Aligned_cols=68 Identities=22% Similarity=0.312 Sum_probs=45.5
Q ss_pred CCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCC-CCCCCCHHHH
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMI-FAGIKKPQER 80 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp-~~~~~~~~d~ 80 (92)
+|.+||..+.. ....||+|....-+.. ..|+.+.|...|+++. ..|| |.+.++++|+
T Consensus 38 ~C~~CHg~g~~-~~~~~p~l~~~~~~~~----------------~~~~~~~l~~~i~~g~-----~~Mp~~~~~ls~~di 95 (111)
T PRK13697 38 NCASCHAGGKN-LVNAGKTLKKADLEKY----------------GMYSLEAITAQVTNGK-----NAMPAFKDRLSPDQI 95 (111)
T ss_pred HHHHhCCCCCC-CCCCCCCCCHHHHHhc----------------CCCCHHHHHHHHHcCC-----CCCCCCcCCCCHHHH
Confidence 69999996421 2234676663211110 1356788999998864 3587 5556679999
Q ss_pred HHHHHHHhhcc
Q psy8407 81 GDLIAYLEQAS 91 (92)
Q Consensus 81 ~~liayL~sl~ 91 (92)
++|++||.+++
T Consensus 96 ~~l~~Yi~~~~ 106 (111)
T PRK13697 96 EDVAAYVLEQA 106 (111)
T ss_pred HHHHHHHHHHH
Confidence 99999999864
No 22
>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=99.11 E-value=2.9e-10 Score=79.05 Aligned_cols=69 Identities=20% Similarity=0.300 Sum_probs=47.9
Q ss_pred CCCccCccccCCCCCCC-CCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCC-CCCCCCHH
Q psy8407 1 MKCAQCHTIEAGGAHKV-GPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMI-FAGIKKPQ 78 (92)
Q Consensus 1 ~~C~~CH~~~~~~~~~~-GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp-~~~~~~~~ 78 (92)
++|++||..++.|.... .|+|.+...... -+.+.+.+.|++.. ...|| |...++++
T Consensus 212 ~~Ca~CHG~~G~G~~~~gaP~L~~~~~~y~------------------~~~~~i~~~i~~G~----~g~Mp~~~~~Ls~~ 269 (285)
T TIGR00782 212 DNCTTCHGEDGKGLQELGAPNLTDDVWLYG------------------GDLKTITTTITNGR----GGVMPAWGPRLSEA 269 (285)
T ss_pred ccchhhCCCCCCCCCCCCCCCCCcchhhcC------------------CCHHHHHHHHHhCC----CCCCCCccccCCHH
Confidence 36999999997654334 499987432211 03556777777643 23688 55566799
Q ss_pred HHHHHHHHHhhcc
Q psy8407 79 ERGDLIAYLEQAS 91 (92)
Q Consensus 79 d~~~liayL~sl~ 91 (92)
||++|++||.+|+
T Consensus 270 ei~~La~Yv~sL~ 282 (285)
T TIGR00782 270 QIKALAAYVHSLG 282 (285)
T ss_pred HHHHHHHHHHHhc
Confidence 9999999999986
No 23
>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=98.93 E-value=2.5e-09 Score=74.39 Aligned_cols=70 Identities=24% Similarity=0.271 Sum_probs=46.2
Q ss_pred CCccCccccCCCCCCCC-CCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCC----CCC-CCCCC-CCCC
Q psy8407 2 KCAQCHTIEAGGAHKVG-PNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKK----YIP-GTKMI-FAGI 74 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~G-P~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~----~~p-~~~Mp-~~~~ 74 (92)
+|++||..++.+ ..| |+|.+..... ..+.+.|...|++... ... ...|| |...
T Consensus 117 ~Ca~CHG~~g~G--~~g~P~L~~~~~~~------------------g~~~~~i~~~i~~G~~~~~~~~~~~~~Mp~~~~~ 176 (285)
T TIGR00782 117 WCAQCHGSGAGG--AKGFPNLLDNDWLW------------------GGTLEGIHTTIKHGIRDPDDGDTYVGEMPAFGPL 176 (285)
T ss_pred HhHHhCCCCCCC--CCCCCCCCCCcccc------------------CCCHHHHHHHHHhCccCcccCCcCCCCCCccccc
Confidence 699999998753 334 8887632111 0146677777765432 111 24687 5456
Q ss_pred CCHHHHHHHHHHHhhcc
Q psy8407 75 KKPQERGDLIAYLEQAS 91 (92)
Q Consensus 75 ~~~~d~~~liayL~sl~ 91 (92)
++++|+++|++||+++.
T Consensus 177 LsdeeI~aVaaYv~sl~ 193 (285)
T TIGR00782 177 LEEADIKDVASYVMSLS 193 (285)
T ss_pred cChHHHHHHHHHHHHhc
Confidence 77999999999999875
No 24
>PRK14486 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional
Probab=98.91 E-value=3.1e-09 Score=74.42 Aligned_cols=67 Identities=21% Similarity=0.360 Sum_probs=45.8
Q ss_pred CCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCC-CCCCCCHHHH
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMI-FAGIKKPQER 80 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp-~~~~~~~~d~ 80 (92)
+|++||..++. +..||++..+.... ...+.+...|++... +..|| |...++++|+
T Consensus 225 ~Ca~CHg~~g~--G~~gp~p~~~~~~~-------------------~~~~~~~~~I~~G~~---~~~MP~f~~~Lsdeei 280 (294)
T PRK14486 225 NCAACHGDEAQ--GQEGVALNDIDDGD-------------------LPDAAYFGMIKGGSD---AKGMPGFGGDLSDDDI 280 (294)
T ss_pred HHHHhcCCCCC--CCCCCCccccccCC-------------------CcHHHHHHHHHcCCC---cCCCCcccccCCHHHH
Confidence 69999998864 45677666542211 134456677877543 24688 5555679999
Q ss_pred HHHHHHHhhccC
Q psy8407 81 GDLIAYLEQASK 92 (92)
Q Consensus 81 ~~liayL~sl~~ 92 (92)
.+|++||.+++.
T Consensus 281 ~~LaaYV~sl~~ 292 (294)
T PRK14486 281 WAIVAYIRSQKA 292 (294)
T ss_pred HHHHHHHHhccC
Confidence 999999999863
No 25
>COG2863 Cytochrome c553 [Energy production and conversion]
Probab=98.87 E-value=3.1e-09 Score=65.54 Aligned_cols=66 Identities=26% Similarity=0.349 Sum_probs=45.6
Q ss_pred CCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCC-CCCCCCCCCC-CCCCCCHHH
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENP-KKYIPGTKMI-FAGIKKPQE 79 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P-~~~~p~~~Mp-~~~~~~~~d 79 (92)
.|++||..++.+....=|.|.+. ++++|...|++= .+..++..|- ...-++|+|
T Consensus 34 ~Ca~CHG~~g~~~~~~~P~Lagq------------------------~~~yl~~~L~a~k~g~r~~~vM~~~a~~LsD~D 89 (121)
T COG2863 34 SCAACHGADGNSPAPGYPKLAGQ------------------------SEAYLEKQLKAYKDGKRPGPVMNAIASGLSDED 89 (121)
T ss_pred hhhhccCCCCCCccCCCCCcCCC------------------------CHHHHHHHHHHHHcCCCCcchHHHHHHhCCHHH
Confidence 49999999976544444666543 477788777742 2334555674 444456999
Q ss_pred HHHHHHHHhhcc
Q psy8407 80 RGDLIAYLEQAS 91 (92)
Q Consensus 80 ~~~liayL~sl~ 91 (92)
|++|.+|+.+++
T Consensus 90 i~~lAa~~a~~~ 101 (121)
T COG2863 90 IADLAAYYAAQK 101 (121)
T ss_pred HHHHHHHHHhCC
Confidence 999999999876
No 26
>COG2857 CYT1 Cytochrome c1 [Energy production and conversion]
Probab=98.83 E-value=8e-09 Score=70.88 Aligned_cols=78 Identities=27% Similarity=0.284 Sum_probs=55.5
Q ss_pred CCccCccccCC-CCCCCCC-CccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCC-CCCCCCHH
Q psy8407 2 KCAQCHTIEAG-GAHKVGP-NLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMI-FAGIKKPQ 78 (92)
Q Consensus 2 ~C~~CH~~~~~-~~~~~GP-~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp-~~~~~~~~ 78 (92)
-|..||+..+. .....|+ +|.....+..... . -....+.++..||+||+...|++.|| +..+. ||
T Consensus 133 ~~~~ch~~~~~~~~~~t~~~~l~p~g~~~~~g~-~----------~~~~~~~~~~~~i~~p~~~k~~~~m~~~~~~t-dq 200 (250)
T COG2857 133 FYARCHGVPDYINSLLTGYVDLPPAGLRTPQGT-S----------YNPYFEGELGIFIADPLKDKPGTYMPGNPALT-DQ 200 (250)
T ss_pred HHhhcccCCCCcCeeecCCCCCCCcccccCCcc-c----------ccccchhhHhhhccCccccCCcCCCCCChhhH-HH
Confidence 47789999863 2445666 5665555543221 0 12234556999999999999999998 55555 99
Q ss_pred HHHHHHHHHhhcc
Q psy8407 79 ERGDLIAYLEQAS 91 (92)
Q Consensus 79 d~~~liayL~sl~ 91 (92)
++++|++||++++
T Consensus 201 ~~~dlvaYL~~~~ 213 (250)
T COG2857 201 EVKDLVAYLKWAA 213 (250)
T ss_pred HHHHHHHHHHHcc
Confidence 9999999999875
No 27
>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=98.68 E-value=2.1e-08 Score=67.53 Aligned_cols=56 Identities=25% Similarity=0.421 Sum_probs=38.8
Q ss_pred CCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCC-CCCCC-CHHHHHHHHHHHhhc
Q psy8407 15 HKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMI-FAGIK-KPQERGDLIAYLEQA 90 (92)
Q Consensus 15 ~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp-~~~~~-~~~d~~~liayL~sl 90 (92)
.+.||||+.+++|. +++|-..-+.||..+.|++.|| |.-+. .+.|..++.+.|+.+
T Consensus 100 kRtGPDLarvG~r~--------------------s~~Wh~~Hl~~Pr~v~p~SiMP~Y~~L~~~~~d~~~~~~~~~~l 157 (226)
T PF02433_consen 100 KRTGPDLARVGGRY--------------------SDDWHLAHLYNPRSVVPGSIMPSYPWLFENKLDGEDIQAKMKAL 157 (226)
T ss_pred CCcCccHHHHhccC--------------------ChHHHHHHhhChHhhCCCCCCCCChhHhhccCcHHHHHHHHHHH
Confidence 46788888777665 5778888899999999999999 33232 122445666665554
No 28
>COG2010 CccA Cytochrome c, mono- and diheme variants [Energy production and conversion]
Probab=98.63 E-value=4.1e-08 Score=61.63 Aligned_cols=24 Identities=38% Similarity=0.616 Sum_probs=16.4
Q ss_pred CCCccCccccC--CCCCCCCCCccCc
Q psy8407 1 MKCAQCHTIEA--GGAHKVGPNLHGL 24 (92)
Q Consensus 1 ~~C~~CH~~~~--~~~~~~GP~L~~i 24 (92)
.+|++||+.+. .+....||.|.+.
T Consensus 60 ~~C~~CHg~~~~g~~~~~~~~~l~~~ 85 (150)
T COG2010 60 GNCAACHGPNLGGAGPLLDGPALAGG 85 (150)
T ss_pred ccchhccCCCCCCCCCcCcchhhhCC
Confidence 48999999993 2222447888764
No 29
>COG4654 Cytochrome c551/c552 [Energy production and conversion]
Probab=98.63 E-value=3.1e-08 Score=59.10 Aligned_cols=72 Identities=17% Similarity=0.226 Sum_probs=47.7
Q ss_pred CCCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCC-CCCCCCCCCCHHH
Q psy8407 1 MKCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPG-TKMIFAGIKKPQE 79 (92)
Q Consensus 1 ~~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~-~~Mp~~~~~~~~d 79 (92)
+.|.+||.++. ..+||++..|..+..+.. =..+.|...|+......-+ -.||.....++.|
T Consensus 33 kgC~~CHq~~v---ktVGPS~kdIAakYag~~---------------~~~~kl~q~i~~g~~g~wg~ipMppqp~~sd~~ 94 (110)
T COG4654 33 KGCVACHQPDV---KTVGPSYKDIAAKYAGKA---------------GALAKLAQGIKPGGVGVWGPIPMPPQPAISDAD 94 (110)
T ss_pred ccchhhccccc---cccCccHHHHHHHHccch---------------hHHHHHHHhccccCcCccccCCCCCcccccchH
Confidence 46999999984 589999999987765321 1345666666643322222 4688664445888
Q ss_pred HHHHHHHHhhc
Q psy8407 80 RGDLIAYLEQA 90 (92)
Q Consensus 80 ~~~liayL~sl 90 (92)
.+.++.|+...
T Consensus 95 a~~~~kwvl~~ 105 (110)
T COG4654 95 AKTLAKWVLAF 105 (110)
T ss_pred HHHHHHHHHhc
Confidence 88888877653
No 30
>PRK13619 psbV cytochrome c-550; Provisional
Probab=98.58 E-value=1e-07 Score=61.10 Aligned_cols=75 Identities=23% Similarity=0.286 Sum_probs=48.8
Q ss_pred CCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCC-----C----C----CCC
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKY-----I----P----GTK 68 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~-----~----p----~~~ 68 (92)
+|++||... ...++|++.--..-.... +.-.-+-+.|+.|+++|..+ . | ...
T Consensus 61 ~Ca~CH~gG---~nk~~Pnl~L~~~~L~~a------------tP~RdnV~aLVdymk~PtsyDG~~~~a~~hpsi~~~di 125 (160)
T PRK13619 61 ECTQCHLQG---KTKTNNNVSLGLEDLAGA------------EPPRDNVLALVDYLKHPTSYDGEDDYSELHPNVSRPDI 125 (160)
T ss_pred HHHHcccCC---CCCcCCCCCcCHHHHHhc------------CCCcccHHHHHHHHhCCcccccchhhhhhccccccccc
Confidence 699999994 568899877311100000 11122577899999999876 1 1 135
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcc
Q psy8407 69 MIFAGIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 69 Mp~~~~~~~~d~~~liayL~sl~ 91 (92)
||...-++|+|+.+|.+|+....
T Consensus 126 ~P~mr~LtdedL~~iAg~IL~~p 148 (160)
T PRK13619 126 FPELRNFTEDDLYDVAGYMLVAP 148 (160)
T ss_pred ccccCCCCHHHHHHHHHHHHhcc
Confidence 66543356999999999987643
No 31
>PRK14485 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional
Probab=98.47 E-value=4.1e-07 Score=70.09 Aligned_cols=56 Identities=18% Similarity=0.309 Sum_probs=41.7
Q ss_pred CCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCC-C----CCCCCHHHHHHHHHHHhh
Q psy8407 15 HKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMI-F----AGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 15 ~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp-~----~~~~~~~d~~~liayL~s 89 (92)
.+.||||..+++|+ ++++-..-+.||+.+.|++.|| | ...++.+++.+-+..++.
T Consensus 587 ~rtgpdl~~~g~~~--------------------~~~wh~~hl~~p~~~~p~s~mp~y~~l~~~~~~~~~~~~~~~~~~~ 646 (712)
T PRK14485 587 KRTGPDLAREGGKY--------------------PDSWHYNHMEDPQSTSPGSIMPAYPWLLENELDISDTPAKIKAMQT 646 (712)
T ss_pred CCcCcchhhhcCCC--------------------ChHHHHHHhcCchhcCCCCCCCCChhhhhCCCChHHHHHHHHHHHh
Confidence 46899999888876 3577778899999999999998 2 234445666666666665
Q ss_pred c
Q psy8407 90 A 90 (92)
Q Consensus 90 l 90 (92)
+
T Consensus 647 ~ 647 (712)
T PRK14485 647 L 647 (712)
T ss_pred c
Confidence 4
No 32
>PRK13622 psbV cytochrome c-550; Provisional
Probab=98.43 E-value=6.9e-07 Score=58.55 Aligned_cols=42 Identities=17% Similarity=0.260 Sum_probs=29.9
Q ss_pred cHHHHHHHHhCCCCCC---------CC----CCCCCCCCCCHHHHHHHHHHHhhc
Q psy8407 49 NKDTLFEYLENPKKYI---------PG----TKMIFAGIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 49 ~~~~l~~~i~~P~~~~---------p~----~~Mp~~~~~~~~d~~~liayL~sl 90 (92)
+.+.|..++++|..+- |. ..||-.+.++|+|+++|.+|+...
T Consensus 104 nv~AIv~yLk~p~tYdg~~~~~e~~p~~~~~~~~p~~~~LsdeEI~~VA~yIl~q 158 (180)
T PRK13622 104 NVLAIVDYIKNPVTYDGVESLLEYHPNTQLLSEYPRLRNLTDEDLKLIAGYILVQ 158 (180)
T ss_pred cHHHHHHHHhcccccCCccchhhccccchhccccccccCCCHHHHHHHHHHHHhC
Confidence 4678889999987432 22 135544456799999999999764
No 33
>COG2993 CcoO Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]
Probab=98.41 E-value=1.7e-07 Score=61.96 Aligned_cols=58 Identities=22% Similarity=0.318 Sum_probs=44.0
Q ss_pred CCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCC-CCCCC-CHHHHHHHHHHHhhcc
Q psy8407 14 AHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMI-FAGIK-KPQERGDLIAYLEQAS 91 (92)
Q Consensus 14 ~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp-~~~~~-~~~d~~~liayL~sl~ 91 (92)
..+.||||..+++|. +.+|=..-+.||..++|.+.|| |.-+. ++-|++++.+-++.++
T Consensus 101 SKRTGPDLaRVG~ry--------------------S~dWH~~Hl~~PR~vVPeSiMPsY~~L~~~~ld~~d~~~~~~~~r 160 (227)
T COG2993 101 SKRTGPDLARVGGRY--------------------SDDWHRAHLLDPRSVVPESIMPSYPWLFDNKLDVDDIGAELKALR 160 (227)
T ss_pred CCccCcchhhhcccc--------------------ccHHHHHHccCchhcCccccCcccHHHhcCCCchHHHHHHHHhhc
Confidence 457999999998886 4667777788999999999999 43332 3447788877777654
No 34
>COG3258 Cytochrome c [Energy production and conversion]
Probab=97.93 E-value=1.6e-05 Score=54.89 Aligned_cols=34 Identities=24% Similarity=0.461 Sum_probs=24.6
Q ss_pred HHHHHHHhCCCCCCCCCCCCCC-----CCCCHHHHHHHHHHHhhccC
Q psy8407 51 DTLFEYLENPKKYIPGTKMIFA-----GIKKPQERGDLIAYLEQASK 92 (92)
Q Consensus 51 ~~l~~~i~~P~~~~p~~~Mp~~-----~~~~~~d~~~liayL~sl~~ 92 (92)
-.+.+||+. -||+. .++++||.-||++|+.+..|
T Consensus 215 ~t~A~Fi~~--------nMP~g~~~~~P~Lsd~dA~DiAay~~~~pR 253 (293)
T COG3258 215 NTLARFIKA--------NMPYGFSGTNPILSDQDAWDIAAYVNSQPR 253 (293)
T ss_pred HHHHHHHHh--------cCCCCcCccCCccChHHHHHHHHHHcCCCC
Confidence 356778763 37742 24789999999999987643
No 35
>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=97.81 E-value=0.00019 Score=50.47 Aligned_cols=47 Identities=26% Similarity=0.308 Sum_probs=26.9
Q ss_pred cCccccHHHHHHHHhCCCCCCCC--CCCCCCCCCCHHHHHHHHHHHhhcc
Q psy8407 44 KGITWNKDTLFEYLENPKKYIPG--TKMIFAGIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 44 ~~~~~~~~~l~~~i~~P~~~~p~--~~Mp~~~~~~~~d~~~liayL~sl~ 91 (92)
.|...+=+++.++...-....|+ ..+-... ++++|+++||+||+||+
T Consensus 231 dG~~~tL~evv~~y~~~g~~~~~~~~~~~~~~-Lt~~E~~dLvaFL~tLt 279 (291)
T TIGR03791 231 DGQLGSLDAVIDHYEKGGEKRPSISAEMKPFE-LSEREREDLIAFIETLD 279 (291)
T ss_pred CCCcCCHHHHHHHHHccCccccccccccccCC-CCHHHHHHHHHHHHhcC
Confidence 35555666666655432221121 1111123 45999999999999986
No 36
>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=97.35 E-value=0.00015 Score=45.34 Aligned_cols=42 Identities=24% Similarity=0.446 Sum_probs=25.9
Q ss_pred cHHHHHHHHhCCCCCC---------CCCCCC--C--CCCCCHHHHHHHHHHHhhc
Q psy8407 49 NKDTLFEYLENPKKYI---------PGTKMI--F--AGIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 49 ~~~~l~~~i~~P~~~~---------p~~~Mp--~--~~~~~~~d~~~liayL~sl 90 (92)
+-+.|+.|+++|..+- |...-+ | ..-++++|+.+|.+||.-.
T Consensus 67 Ni~~LVdYmk~PtsYDG~~~i~e~hp~~~s~di~p~mr~ltdddL~~iAg~IL~~ 121 (135)
T PF14495_consen 67 NIEALVDYMKNPTSYDGEESISELHPSIKSADIFPKMRNLTDDDLYAIAGYILRQ 121 (135)
T ss_dssp SHHHHHHHHHS-B-TTSSSBGTTTS-STTCTTTSGGGTS--HHHHHHHHHHHHHH
T ss_pred cHHHHHHHhhCCCCcCCchhHHHhCcCcccchhhHhhcCCCHHHHHHHHHHHHhc
Confidence 6789999999997642 222112 2 2234699999999999753
No 37
>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=96.92 E-value=0.00039 Score=45.00 Aligned_cols=15 Identities=33% Similarity=0.700 Sum_probs=10.2
Q ss_pred CCHHHHHHHHHHHhh
Q psy8407 75 KKPQERGDLIAYLEQ 89 (92)
Q Consensus 75 ~~~~d~~~liayL~s 89 (92)
++++|+.+||.||..
T Consensus 51 Is~eer~avVkYLAd 65 (167)
T PF09098_consen 51 ISPEERRAVVKYLAD 65 (167)
T ss_dssp --HHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHH
Confidence 348888888888853
No 38
>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=96.30 E-value=0.011 Score=42.08 Aligned_cols=26 Identities=15% Similarity=0.295 Sum_probs=19.9
Q ss_pred CCCCCCCCC--CCCHHHHHHHHHHHhhc
Q psy8407 65 PGTKMIFAG--IKKPQERGDLIAYLEQA 90 (92)
Q Consensus 65 p~~~Mp~~~--~~~~~d~~~liayL~sl 90 (92)
++..||..+ +..+++++-|-+||.+|
T Consensus 290 ~~~~MPp~G~~l~~~e~vaLI~~WI~~l 317 (317)
T TIGR03806 290 PGVRMPELGRSLVHQEGLALIRQWIASL 317 (317)
T ss_pred ccccCCcCCCCCCCHHHHHHHHHHHHhC
Confidence 456798654 56568999999999875
No 39
>COG3258 Cytochrome c [Energy production and conversion]
Probab=96.20 E-value=0.01 Score=41.29 Aligned_cols=73 Identities=14% Similarity=0.266 Sum_probs=40.4
Q ss_pred CCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHH
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLENPKKYIPGTKMIFAGIKKPQERG 81 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~ 81 (92)
+|.+||...+. ...+-+|.+++++... |. .+.-.++.-++.|.--+... ..|..|| .+.-|++
T Consensus 64 ~C~sCHl~~Gt--~~~~~p~vgv~~~yPq----y~----~r~~kvitledRInGcf~~s---~nGk~~p----aDspEmk 126 (293)
T COG3258 64 NCVSCHLNAGT--KPYSSPFVGVYNKYPQ----YD----IRTMKVITLEDRINGCFERS---TNGKPLP----ADSPEMK 126 (293)
T ss_pred ceeecccccCc--CcCCcchhheeccccc----cC----cccCceeeHHHHHHHHhhcC---CCCCCCC----CCCHHHH
Confidence 79999998853 3456667777766421 11 00011222244444333211 1233455 2358999
Q ss_pred HHHHHHhhcc
Q psy8407 82 DLIAYLEQAS 91 (92)
Q Consensus 82 ~liayL~sl~ 91 (92)
+|++|++-|+
T Consensus 127 AmlaY~kWL~ 136 (293)
T COG3258 127 AMLAYMKWLK 136 (293)
T ss_pred HHHHHHHHHH
Confidence 9999998875
No 40
>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=95.97 E-value=0.0019 Score=43.41 Aligned_cols=20 Identities=20% Similarity=0.486 Sum_probs=14.0
Q ss_pred CCCCCCCCHHHHHHHHHHHhh
Q psy8407 69 MIFAGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 69 Mp~~~~~~~~d~~~liayL~s 89 (92)
||..++. ++|...|+.||..
T Consensus 212 ~PnSgIt-~eDa~~I~~YLne 231 (233)
T PF10643_consen 212 VPNSGIT-DEDAPQIMMYLNE 231 (233)
T ss_dssp STT-----HHHHHHHHHHHHH
T ss_pred CCCCCCC-HHHHHHHHHHHHh
Confidence 5666776 9999999999975
No 41
>COG3748 Predicted membrane protein [Function unknown]
Probab=95.85 E-value=0.0085 Score=42.96 Aligned_cols=65 Identities=17% Similarity=0.255 Sum_probs=38.1
Q ss_pred CCccCccccCCCCCCCCCCccCccCCCCCCCCCCcchHHhhhcCccccHHHHHHHHhC--CCCCCCCCCCCCC---CCCC
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLHGLIGRKTGQAPGFSYTEANIKKGITWNKDTLFEYLEN--PKKYIPGTKMIFA---GIKK 76 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~~i~~r~~~~~~g~~y~~~~~~~~~~~~~~~l~~~i~~--P~~~~p~~~Mp~~---~~~~ 76 (92)
+|..||+.+..-.+...|+..-..+ ++++|...-+. -+.. ....||.. ++.
T Consensus 334 rCs~CHaa~P~~e~~~~~p~gv~ld----------------------t~~~iaa~A~~Iy~qA~-~s~~MP~gNvt~mT- 389 (407)
T COG3748 334 RCSMCHAAEPTWEGISAPPKGVMLD----------------------TDEQIAAHAREIYLQAG-RSHAMPPGNVTQMT- 389 (407)
T ss_pred hhhhhhcCCCcccccccCCCceeec----------------------CHHHHHHHHHHHHHHHH-HhccCCCcccccCC-
Confidence 6999999987544455555433222 34555433221 0111 13568743 454
Q ss_pred HHHHHHHHHHHhhc
Q psy8407 77 PQERGDLIAYLEQA 90 (92)
Q Consensus 77 ~~d~~~liayL~sl 90 (92)
|||++-|.+|+++-
T Consensus 390 ~eER~ll~aW~e~~ 403 (407)
T COG3748 390 DEERALLAAWFESG 403 (407)
T ss_pred HHHHHHHHHHHHhc
Confidence 99999999999864
No 42
>COG3245 CycB Cytochrome c5 [Energy production and conversion]
Probab=95.77 E-value=0.04 Score=33.98 Aligned_cols=24 Identities=21% Similarity=0.141 Sum_probs=18.1
Q ss_pred CCCCCCCC---CCHHHHHHHHHHHhhc
Q psy8407 67 TKMIFAGI---KKPQERGDLIAYLEQA 90 (92)
Q Consensus 67 ~~Mp~~~~---~~~~d~~~liayL~sl 90 (92)
..||..+. .||+|+++.|.|+...
T Consensus 98 nAMPpkG~ca~cSdDe~kAaId~M~~~ 124 (126)
T COG3245 98 NAMPPKGGCADCSDDEVKAAIDFMAAA 124 (126)
T ss_pred cCCCCCCCcCCCCHHHHHHHHHHHHhc
Confidence 45886542 4699999999998754
No 43
>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=94.87 E-value=0.008 Score=35.79 Aligned_cols=33 Identities=21% Similarity=0.417 Sum_probs=18.6
Q ss_pred cHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
Q psy8407 49 NKDTLFEYLENPKKYIPGTKMIFAGIKKPQERGDLIAYL 87 (92)
Q Consensus 49 ~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~~liayL 87 (92)
+.+.+.+|++.--..+ +..-=+.+|-.|+++||
T Consensus 66 D~~kVEKwf~RNC~dv------lgReCTa~EKgD~l~yl 98 (98)
T PF09086_consen 66 DAAKVEKWFKRNCNDV------LGRECTAQEKGDVLAYL 98 (98)
T ss_dssp SHHHHHHHHHHHHHHH------HSS---HHHHHHHHHHH
T ss_pred CHHHHHHHHHccchhh------hcccCCHHHhcchheeC
Confidence 5667777776211000 11123589999999998
No 44
>PF14376 Haem_bd: Haem-binding domain
Probab=94.61 E-value=0.027 Score=35.43 Aligned_cols=17 Identities=12% Similarity=0.358 Sum_probs=14.6
Q ss_pred CCCHHHHHHHHHHHhhc
Q psy8407 74 IKKPQERGDLIAYLEQA 90 (92)
Q Consensus 74 ~~~~~d~~~liayL~sl 90 (92)
.++++|++.|++|+++.
T Consensus 120 ~Ls~~ek~~Ll~Wi~~~ 136 (137)
T PF14376_consen 120 KLSEEEKQALLNWIKEQ 136 (137)
T ss_pred CCCHHHHHHHHHHHHHc
Confidence 45699999999999864
No 45
>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=88.80 E-value=0.13 Score=34.95 Aligned_cols=42 Identities=29% Similarity=0.503 Sum_probs=25.5
Q ss_pred cHHHHHHHHh----CCCC-----------CCCC--CCCCC---CC---------CCCHHHHHHHHHHHhhc
Q psy8407 49 NKDTLFEYLE----NPKK-----------YIPG--TKMIF---AG---------IKKPQERGDLIAYLEQA 90 (92)
Q Consensus 49 ~~~~l~~~i~----~P~~-----------~~p~--~~Mp~---~~---------~~~~~d~~~liayL~sl 90 (92)
..++|+.+|+ +|.+ +.|+ ..||. .+ -.-+|.++||++||...
T Consensus 112 G~dyiys~L~gy~~~p~~~~~~~~~~~N~~fpg~~iaMP~~L~~~~v~y~dGt~at~~q~a~DVv~FL~w~ 182 (219)
T PF02167_consen 112 GADYIYSLLTGYYEDPAGVSVRPGGYYNPYFPGGAIAMPPPLSDGQVEYDDGTPATVDQMAKDVVNFLAWA 182 (219)
T ss_dssp HHHHHHHHHCTBSS--TTGTTSTTSEEETTSTTSEESS--TSSTTSS-BTTTB---HHHHHHHHHHHHHHH
T ss_pred chHHHHHHHhccCCCcccccCCCCCccccccCCCcccchhhhhhhcccccCCCcchHHHHHHHHHHHHHHH
Confidence 5788988885 5652 4567 67872 11 11267889999999754
No 46
>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=88.49 E-value=1.9 Score=29.30 Aligned_cols=9 Identities=44% Similarity=1.309 Sum_probs=6.8
Q ss_pred CCccCcccc
Q psy8407 2 KCAQCHTIE 10 (92)
Q Consensus 2 ~C~~CH~~~ 10 (92)
.|++||++.
T Consensus 25 ~C~~CHsl~ 33 (219)
T PF02167_consen 25 VCASCHSLK 33 (219)
T ss_dssp TGGGTSBCT
T ss_pred HHhhccccc
Confidence 588888854
No 47
>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=87.92 E-value=0.4 Score=35.20 Aligned_cols=20 Identities=15% Similarity=0.346 Sum_probs=16.5
Q ss_pred CCCCCCCHHHHHHHHHHHhhc
Q psy8407 70 IFAGIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 70 p~~~~~~~~d~~~liayL~sl 90 (92)
+|..|. ++|.+-|+.||+.-
T Consensus 358 ~~t~l~-~~e~~lv~~YLQ~h 377 (386)
T TIGR02162 358 GFTNLD-KEQERLVLRYLQMH 377 (386)
T ss_pred hhcCCC-HHHHHHHHHHHHHh
Confidence 567765 99999999999864
No 48
>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=85.29 E-value=0.53 Score=25.20 Aligned_cols=10 Identities=30% Similarity=0.816 Sum_probs=8.5
Q ss_pred CccCccccCC
Q psy8407 3 CAQCHTIEAG 12 (92)
Q Consensus 3 C~~CH~~~~~ 12 (92)
|..||+-+..
T Consensus 1 C~~CHg~~~~ 10 (59)
T PF07635_consen 1 CFSCHGPDKQ 10 (59)
T ss_pred CcCCCCCCCc
Confidence 9999998853
No 49
>PRK15032 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional
Probab=82.37 E-value=1 Score=33.17 Aligned_cols=20 Identities=25% Similarity=0.489 Sum_probs=15.1
Q ss_pred CCCCCCCHHHHHHHHHHHhhc
Q psy8407 70 IFAGIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 70 p~~~~~~~~d~~~liayL~sl 90 (92)
.|..+. ++|.+-|+.||+.-
T Consensus 355 ~~t~ld-~~e~~ll~kYLQ~h 374 (390)
T PRK15032 355 GFTSLD-KREERTLLKYLQMN 374 (390)
T ss_pred hccCCC-HHHHHHHHHHHHHh
Confidence 455655 88999999999754
No 50
>PF09722 DUF2384: Protein of unknown function (DUF2384); InterPro: IPR024467 This domain is found predominantly in proteobacterial proteins. Its function in unknown.
Probab=79.19 E-value=1.7 Score=22.59 Aligned_cols=42 Identities=14% Similarity=0.365 Sum_probs=29.5
Q ss_pred cHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHHHHHhhcc
Q psy8407 49 NKDTLFEYLENPKKYIPGTKMIFAGIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 49 ~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~~liayL~sl~ 91 (92)
+++....|+..|....-| .-|..-+.+...+..|.+||..+.
T Consensus 10 d~~~a~~Wl~~p~~~l~g-~~Plel~~t~~G~~~V~~~L~~~~ 51 (54)
T PF09722_consen 10 DEDKARRWLRTPNPALGG-RTPLELLRTEAGAERVLDYLDRIE 51 (54)
T ss_pred CHHHHHHHHHChHHHhCC-CCHHHHHcChHHHHHHHHHHHHHH
Confidence 678899999988765433 234333445888899999997653
No 51
>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=75.79 E-value=1.8 Score=29.61 Aligned_cols=16 Identities=38% Similarity=0.474 Sum_probs=13.7
Q ss_pred CHHHHHHHHHHHhhcc
Q psy8407 76 KPQERGDLIAYLEQAS 91 (92)
Q Consensus 76 ~~~d~~~liayL~sl~ 91 (92)
...|+.+|||||+.|-
T Consensus 207 ~~~Ei~ALIAYLQ~LG 222 (226)
T PF02433_consen 207 EDTEIVALIAYLQRLG 222 (226)
T ss_pred CccHHHHHHHHHHHcc
Confidence 3689999999999873
No 52
>PRK14487 cbb3-type cytochrome c oxidase subunit II; Provisional
Probab=74.63 E-value=2.2 Score=29.02 Aligned_cols=15 Identities=40% Similarity=0.499 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHhhcc
Q psy8407 77 PQERGDLIAYLEQAS 91 (92)
Q Consensus 77 ~~d~~~liayL~sl~ 91 (92)
..|+++|||||++|.
T Consensus 193 ~te~~AliAYLq~LG 207 (217)
T PRK14487 193 ITEMDALIAYLQSLG 207 (217)
T ss_pred ccHHHHHHHHHHHhc
Confidence 589999999999874
No 53
>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=74.06 E-value=2.3 Score=29.18 Aligned_cols=15 Identities=33% Similarity=0.485 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHhhcc
Q psy8407 77 PQERGDLIAYLEQAS 91 (92)
Q Consensus 77 ~~d~~~liayL~sl~ 91 (92)
..|+++|||||++|.
T Consensus 207 ~tE~~ALiAYLQ~LG 221 (232)
T TIGR00781 207 LTEMDALVAYLQSLG 221 (232)
T ss_pred chHHHHHHHHHHHhc
Confidence 689999999999874
No 54
>COG1858 MauG Cytochrome c peroxidase [Inorganic ion transport and metabolism]
Probab=73.16 E-value=8.5 Score=28.22 Aligned_cols=11 Identities=36% Similarity=0.736 Sum_probs=8.7
Q ss_pred CCCccCccccC
Q psy8407 1 MKCAQCHTIEA 11 (92)
Q Consensus 1 ~~C~~CH~~~~ 11 (92)
.+|++||....
T Consensus 231 ~~C~aCH~g~~ 241 (364)
T COG1858 231 ANCAACHNGIN 241 (364)
T ss_pred CCchhhccCcc
Confidence 37999998764
No 55
>PF06537 DUF1111: Protein of unknown function (DUF1111); InterPro: IPR010538 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=71.71 E-value=2.5 Score=32.17 Aligned_cols=19 Identities=37% Similarity=0.712 Sum_probs=15.6
Q ss_pred CCCCCCHHHHHHHHHHHhhc
Q psy8407 71 FAGIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 71 ~~~~~~~~d~~~liayL~sl 90 (92)
|..+ +++|+++||+||.||
T Consensus 481 f~~L-~~~dR~aLi~FL~SL 499 (499)
T PF06537_consen 481 FRAL-SKEDRAALIAFLESL 499 (499)
T ss_pred HHhC-CHHHHHHHHHHHhcC
Confidence 3444 499999999999987
No 56
>cd07321 Extradiol_Dioxygenase_3A_like Subunit A of Class III extradiol dioxygenases. Extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. There are two major groups of dioxygenases according to the cleavage site of the aromatic ring. Intradiol enzymes cleave the aromatic ring between two hydroxyl groups, whereas extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes are evolutionary related and show sequence similarity, with the two domain class II enzymes evolving from the class I enzyme through gene duplication. Class III enzymes are different in sequence and structure and usually have two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents subunit A of c
Probab=71.32 E-value=2 Score=24.38 Aligned_cols=32 Identities=19% Similarity=0.393 Sum_probs=23.3
Q ss_pred ccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHHH
Q psy8407 48 WNKDTLFEYLENPKKYIPGTKMIFAGIKKPQERGDLIA 85 (92)
Q Consensus 48 ~~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~~lia 85 (92)
.+++...+|+.||.++. --.+++ ++|+++|.+
T Consensus 14 ~~~~~re~f~~dp~a~~-----~~~~Lt-~eE~~al~~ 45 (77)
T cd07321 14 VKPEVKERFKADPEAVL-----AEYGLT-PEEKAALLA 45 (77)
T ss_pred cCHHHHHHHHhCHHHHH-----HHcCCC-HHHHHHHHc
Confidence 46788889999997643 334665 899988753
No 57
>PRK11586 napB nitrate reductase cytochrome C550 subunit; Provisional
Probab=69.04 E-value=2 Score=27.51 Aligned_cols=11 Identities=45% Similarity=1.141 Sum_probs=9.1
Q ss_pred CCCccCccccC
Q psy8407 1 MKCAQCHTIEA 11 (92)
Q Consensus 1 ~~C~~CH~~~~ 11 (92)
..|.+||+...
T Consensus 81 N~CL~CH~~~~ 91 (149)
T PRK11586 81 NRCLQCHGVES 91 (149)
T ss_pred CcCccCCCHhH
Confidence 36999999885
No 58
>COG3043 NapB Nitrate reductase cytochrome c-type subunit [Energy production and conversion]
Probab=68.58 E-value=1.6 Score=28.05 Aligned_cols=11 Identities=36% Similarity=1.102 Sum_probs=9.0
Q ss_pred CCCccCccccC
Q psy8407 1 MKCAQCHTIEA 11 (92)
Q Consensus 1 ~~C~~CH~~~~ 11 (92)
..|.+||+.+.
T Consensus 87 N~CLsCH~~e~ 97 (155)
T COG3043 87 NRCLSCHSVEN 97 (155)
T ss_pred chhhhccCHHH
Confidence 36999999875
No 59
>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=67.91 E-value=0.94 Score=29.15 Aligned_cols=17 Identities=18% Similarity=0.061 Sum_probs=11.5
Q ss_pred CCCHHHHHHHHHHHhhc
Q psy8407 74 IKKPQERGDLIAYLEQA 90 (92)
Q Consensus 74 ~~~~~d~~~liayL~sl 90 (92)
+.-+.=.++|.+|.+|+
T Consensus 125 ~t~~~i~~Alaaf~~tl 141 (159)
T PF03150_consen 125 ITFENIGKALAAFERTL 141 (159)
T ss_dssp CSHHHHHHHHHHHHTTT
T ss_pred chHHHHHHHHHHHHhcc
Confidence 33344557888888876
No 60
>PF06943 zf-LSD1: LSD1 zinc finger; InterPro: IPR005735 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC []. This domain may play a role in the regulation of transcription, via either repression of a prodeath pathway or activation of an antideath pathway, in response to signals emanating from cells undergoing pathogen-induced hypersensitive cell death. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=66.84 E-value=2.4 Score=19.03 Aligned_cols=8 Identities=63% Similarity=1.551 Sum_probs=6.1
Q ss_pred CCccCccc
Q psy8407 2 KCAQCHTI 9 (92)
Q Consensus 2 ~C~~CH~~ 9 (92)
.|+.||.+
T Consensus 18 rCa~C~~V 25 (25)
T PF06943_consen 18 RCACCHTV 25 (25)
T ss_pred ECCccCcC
Confidence 48888875
No 61
>PF07627 PSCyt3: Protein of unknown function (DUF1588); InterPro: IPR013039 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013042 from INTERPRO and IPR013043 from INTERPRO.
Probab=66.28 E-value=1.1 Score=26.93 Aligned_cols=9 Identities=44% Similarity=0.969 Sum_probs=7.4
Q ss_pred CCccCcccc
Q psy8407 2 KCAQCHTIE 10 (92)
Q Consensus 2 ~C~~CH~~~ 10 (92)
.|++||..-
T Consensus 71 ~Ca~CH~~i 79 (101)
T PF07627_consen 71 ACASCHRKI 79 (101)
T ss_pred cHHHHhhhh
Confidence 599999854
No 62
>KOG3052|consensus
Probab=64.52 E-value=1.4 Score=30.83 Aligned_cols=14 Identities=29% Similarity=0.449 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHhhc
Q psy8407 77 PQERGDLIAYLEQA 90 (92)
Q Consensus 77 ~~d~~~liayL~sl 90 (92)
.|..+|++.||.-.
T Consensus 249 sQ~aKDV~~FL~Wa 262 (311)
T KOG3052|consen 249 SQMAKDVVTFLHWA 262 (311)
T ss_pred HHHHHHHHHHHHhc
Confidence 56678999999753
No 63
>cd07922 CarBa CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. 2-aminophenol 1,6-dioxygenase is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, composed of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, the enzyme has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=63.85 E-value=3.1 Score=24.01 Aligned_cols=33 Identities=18% Similarity=0.317 Sum_probs=24.6
Q ss_pred ccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHH
Q psy8407 46 ITWNKDTLFEYLENPKKYIPGTKMIFAGIKKPQERGDLI 84 (92)
Q Consensus 46 ~~~~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~~li 84 (92)
+.++++...+|+.||+++ |-..+++ ++|+++|.
T Consensus 13 L~~dp~~rerF~~DPea~-----~~~~gLt-~eE~~aL~ 45 (81)
T cd07922 13 LFKDPGLIERFQDDPSAV-----FEEYGLT-PAERAALR 45 (81)
T ss_pred HhcCHHHHHHHHHCHHHH-----HHHcCCC-HHHHHHHH
Confidence 456888999999999864 3335665 89888774
No 64
>TIGR01905 paired_CXXCH_1 doubled CXXCH domain. This model represents a domain of about 41 amino acids that contains, among other motifs, two copies of the motif CXXCH associated with heme binding. Almost every member of this family has at least three copies of this domain (at least six copies of CXXCH) is predicted to be a high molecular weight c-type cytochrome. Members are found mostly in species of Shewanella, Geobacter, and Vibrio.
Probab=63.50 E-value=3.3 Score=20.63 Aligned_cols=10 Identities=30% Similarity=0.953 Sum_probs=8.4
Q ss_pred CCccCccccC
Q psy8407 2 KCAQCHTIEA 11 (92)
Q Consensus 2 ~C~~CH~~~~ 11 (92)
.|.+||..-+
T Consensus 8 ~C~~CH~pH~ 17 (41)
T TIGR01905 8 DCTSCHDPHG 17 (41)
T ss_pred Cccccccccc
Confidence 5999999874
No 65
>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=61.45 E-value=2.1 Score=27.60 Aligned_cols=8 Identities=38% Similarity=1.041 Sum_probs=6.8
Q ss_pred CCCccCcc
Q psy8407 1 MKCAQCHT 8 (92)
Q Consensus 1 ~~C~~CH~ 8 (92)
+.|..||+
T Consensus 147 ~~CL~CHg 154 (188)
T PF11845_consen 147 ESCLSCHG 154 (188)
T ss_pred hHHHHccC
Confidence 35999999
No 66
>PF09832 DUF2059: Uncharacterized protein conserved in bacteria (DUF2059); InterPro: IPR018637 This entry contains proteins that have no known function. ; PDB: 2X3O_B 3OAO_A.
Probab=61.03 E-value=7.8 Score=20.63 Aligned_cols=15 Identities=20% Similarity=0.359 Sum_probs=12.4
Q ss_pred CCHHHHHHHHHHHhh
Q psy8407 75 KKPQERGDLIAYLEQ 89 (92)
Q Consensus 75 ~~~~d~~~liayL~s 89 (92)
.+++|+++|++|..|
T Consensus 17 ft~~El~~i~~FY~S 31 (64)
T PF09832_consen 17 FTEEELDAILAFYES 31 (64)
T ss_dssp S-HHHHHHHHHHHHS
T ss_pred CCHHHHHHHHHHHCC
Confidence 359999999999876
No 67
>PF07583 PSCyt2: Protein of unknown function (DUF1549); InterPro: IPR011444 The function is not known. It is found associated with IPR022655 from INTERPRO. It is also found associated with the Planctomycete cytochrome C domain IPR011429 from INTERPRO.
Probab=60.51 E-value=3.1 Score=28.05 Aligned_cols=9 Identities=56% Similarity=1.217 Sum_probs=7.4
Q ss_pred CCccCcccc
Q psy8407 2 KCAQCHTIE 10 (92)
Q Consensus 2 ~C~~CH~~~ 10 (92)
+|+.||.-.
T Consensus 176 ~CAqCHdHp 184 (208)
T PF07583_consen 176 QCAQCHDHP 184 (208)
T ss_pred chhhccCCC
Confidence 699999765
No 68
>PF07128 DUF1380: Protein of unknown function (DUF1380); InterPro: IPR009811 This family consists of several hypothetical bacterial proteins of around 140 residues in length. Members of this family seem to be specific to Enterobacteria. The function of this family is unknown.
Probab=58.61 E-value=22 Score=22.57 Aligned_cols=34 Identities=12% Similarity=0.365 Sum_probs=23.7
Q ss_pred ccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHHHHHhhc
Q psy8407 46 ITWNKDTLFEYLENPKKYIPGTKMIFAGIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 46 ~~~~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~~liayL~sl 90 (92)
++|+++.+...-.. |-+ . ++++|++.|+++|-..
T Consensus 25 lIWT~eDV~~~a~g---------me~-~-lTd~E~~aVL~~I~~~ 58 (139)
T PF07128_consen 25 LIWTREDVRALADG---------MEY-N-LTDDEARAVLARIGDI 58 (139)
T ss_pred EEecHHHHHHHHhc---------CCC-C-CCHHHHHHHHHHHhcC
Confidence 68999988776431 322 1 3589999999988764
No 69
>PF09699 Paired_CXXCH_1: Doubled CXXCH motif (Paired_CXXCH_1)
Probab=57.94 E-value=3 Score=20.36 Aligned_cols=10 Identities=30% Similarity=0.986 Sum_probs=8.2
Q ss_pred CCccCccccC
Q psy8407 2 KCAQCHTIEA 11 (92)
Q Consensus 2 ~C~~CH~~~~ 11 (92)
.|.+||..-+
T Consensus 8 ~C~~CH~~H~ 17 (41)
T PF09699_consen 8 QCTSCHDPHG 17 (41)
T ss_pred ChhHhccccc
Confidence 5999998774
No 70
>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=57.62 E-value=4 Score=27.03 Aligned_cols=10 Identities=40% Similarity=1.271 Sum_probs=8.3
Q ss_pred CCCccCcccc
Q psy8407 1 MKCAQCHTIE 10 (92)
Q Consensus 1 ~~C~~CH~~~ 10 (92)
++|.+||+.+
T Consensus 136 ~~C~~CH~~~ 145 (185)
T TIGR02161 136 LECRNCHNFE 145 (185)
T ss_pred hhchhhcCcc
Confidence 4799999965
No 71
>PRK10617 cytochrome c-type protein NapC; Provisional
Probab=54.96 E-value=5 Score=26.95 Aligned_cols=10 Identities=30% Similarity=1.115 Sum_probs=8.3
Q ss_pred CCCccCcccc
Q psy8407 1 MKCAQCHTIE 10 (92)
Q Consensus 1 ~~C~~CH~~~ 10 (92)
++|.+||+.+
T Consensus 145 ~~Cr~CH~~~ 154 (200)
T PRK10617 145 QECRNCHNFD 154 (200)
T ss_pred ccchhhcCcc
Confidence 4799999965
No 72
>COG3005 TorC Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]
Probab=54.05 E-value=4 Score=27.20 Aligned_cols=11 Identities=36% Similarity=1.096 Sum_probs=9.1
Q ss_pred CCCccCccccC
Q psy8407 1 MKCAQCHTIEA 11 (92)
Q Consensus 1 ~~C~~CH~~~~ 11 (92)
++|.+||+++.
T Consensus 135 ~eCr~CH~~~~ 145 (190)
T COG3005 135 AECRNCHNFDA 145 (190)
T ss_pred hhhhhccchhh
Confidence 36999999984
No 73
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=53.40 E-value=5.2 Score=18.78 Aligned_cols=9 Identities=44% Similarity=1.265 Sum_probs=7.0
Q ss_pred CCccCcccc
Q psy8407 2 KCAQCHTIE 10 (92)
Q Consensus 2 ~C~~CH~~~ 10 (92)
+|+.||.+.
T Consensus 21 rCs~C~~vt 29 (31)
T TIGR01053 21 RCALCQTVN 29 (31)
T ss_pred ECCCCCeEe
Confidence 488898875
No 74
>PHA02119 hypothetical protein
Probab=52.40 E-value=10 Score=21.41 Aligned_cols=10 Identities=30% Similarity=0.680 Sum_probs=8.5
Q ss_pred HHHHHHHhhc
Q psy8407 81 GDLIAYLEQA 90 (92)
Q Consensus 81 ~~liayL~sl 90 (92)
+||++||++|
T Consensus 57 ~divdylr~l 66 (87)
T PHA02119 57 KDIVDYLRSL 66 (87)
T ss_pred HHHHHHHHHc
Confidence 6789999987
No 75
>TIGR02251 HIF-SF_euk Dullard-like phosphatase domain. This domain is related to domains found in FCP1-like phosphatases (TIGR02250), and together both are detected by the Pfam model pfam03031.
Probab=51.46 E-value=22 Score=22.54 Aligned_cols=24 Identities=25% Similarity=0.209 Sum_probs=19.8
Q ss_pred CCCCCCCCHHHHHHHHHHHhhccC
Q psy8407 69 MIFAGIKKPQERGDLIAYLEQASK 92 (92)
Q Consensus 69 Mp~~~~~~~~d~~~liayL~sl~~ 92 (92)
.||.+-.+|.++..|+.||.+|++
T Consensus 136 ~~f~~~~~D~~L~~l~~~L~~l~~ 159 (162)
T TIGR02251 136 KSWFGDPNDTELLNLIPFLEGLRF 159 (162)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHhc
Confidence 357776779999999999999864
No 76
>PF03892 NapB: Nitrate reductase cytochrome c-type subunit (NapB); InterPro: IPR005591 The napB gene encodes a dihaem cytochrome c, the small subunit of a heterodimeric periplasmic nitrate reductase [].; PDB: 3O5A_B 3ML1_B 1OGY_L 1JNI_A.
Probab=51.44 E-value=3.2 Score=26.13 Aligned_cols=10 Identities=50% Similarity=1.125 Sum_probs=8.8
Q ss_pred CCccCccccC
Q psy8407 2 KCAQCHTIEA 11 (92)
Q Consensus 2 ~C~~CH~~~~ 11 (92)
.|.+||+...
T Consensus 71 ~Cl~CH~~~~ 80 (133)
T PF03892_consen 71 KCLSCHSPEV 80 (133)
T ss_dssp CCHHHHSTTT
T ss_pred cCcccCCccc
Confidence 6999999985
No 77
>cd07921 PCA_45_Doxase_A_like Subunit A of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and similar enzymes. This subfamily includes the A subunit of protocatechuate (PCA) 4,5-dioxygenase (LigAB) and two subfamilies of unknown function. The A subunit is the smaller, non-catalytic subunit of LigAB. PCA 4,5-dioxygenase catalyzes the oxidization and subsequent ring-opening of PCA (or 3,4-dihydroxybenzoic acid), which is an intermediate in the breakdown of lignin and other compounds. PCA 4,5-dioxygenase is one of the aromatic ring opening dioxygenases which play key roles in the degradation of aromatic compounds. As members of the Class III extradiol dioxygenase family, the enzymes use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like class III enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit.
Probab=50.50 E-value=8.6 Score=23.33 Aligned_cols=31 Identities=6% Similarity=0.202 Sum_probs=22.8
Q ss_pred cHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHHH
Q psy8407 49 NKDTLFEYLENPKKYIPGTKMIFAGIKKPQERGDLIA 85 (92)
Q Consensus 49 ~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~~lia 85 (92)
++++..+|+.||.++ |--.+++ +||+++|.+
T Consensus 25 ~a~~Re~F~aD~eAy-----~~~~gLT-eEe~~AV~~ 55 (106)
T cd07921 25 KAENREAFKADEEAY-----CDKFGLT-EEQKQAVLD 55 (106)
T ss_pred CHHHHHHHHhCHHHH-----HHHcCCC-HHHHHHHHh
Confidence 677888999999764 4345665 899888753
No 78
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=48.55 E-value=16 Score=19.36 Aligned_cols=17 Identities=18% Similarity=0.473 Sum_probs=13.5
Q ss_pred CCCHHHHHHHHHHHhhc
Q psy8407 74 IKKPQERGDLIAYLEQA 90 (92)
Q Consensus 74 ~~~~~d~~~liayL~sl 90 (92)
+...+.+..|+.||++.
T Consensus 10 l~~~e~L~~l~~YLR~~ 26 (55)
T PF13821_consen 10 LSPEERLDKLLSYLREE 26 (55)
T ss_pred cCHHHHHHHHHHHHHhh
Confidence 34478899999999863
No 79
>KOG1200|consensus
Probab=47.39 E-value=23 Score=24.38 Aligned_cols=20 Identities=15% Similarity=0.383 Sum_probs=16.0
Q ss_pred CCCCCCCHHHHHHHHHHHhh
Q psy8407 70 IFAGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 70 p~~~~~~~~d~~~liayL~s 89 (92)
|...+=..||+++++.||.|
T Consensus 218 Pmgr~G~~EevA~~V~fLAS 237 (256)
T KOG1200|consen 218 PMGRLGEAEEVANLVLFLAS 237 (256)
T ss_pred CccccCCHHHHHHHHHHHhc
Confidence 44455578999999999986
No 80
>PF13435 Cytochrome_C554: Cytochrome c554 and c-prime; PDB: 1BVB_A 1FT5_A 1FT6_A 1SP3_A.
Probab=47.39 E-value=8.4 Score=22.34 Aligned_cols=11 Identities=36% Similarity=0.803 Sum_probs=8.6
Q ss_pred CCCccCccccC
Q psy8407 1 MKCAQCHTIEA 11 (92)
Q Consensus 1 ~~C~~CH~~~~ 11 (92)
..|..||....
T Consensus 49 ~~C~~CH~~~~ 59 (130)
T PF13435_consen 49 DSCTSCHTPGG 59 (130)
T ss_dssp CCCGGGSCCTT
T ss_pred CcccccCCCcc
Confidence 36999998874
No 81
>PF14522 Cytochrome_C7: Cytochrome c7; PDB: 3OV0_A 3OUQ_A 3H4N_A 3BXU_B 1OS6_A 2LDO_A 3OUE_A 3H33_A 1RWJ_A 1LM2_A ....
Probab=46.58 E-value=9.7 Score=19.93 Aligned_cols=9 Identities=44% Similarity=1.110 Sum_probs=7.5
Q ss_pred CCccCcccc
Q psy8407 2 KCAQCHTIE 10 (92)
Q Consensus 2 ~C~~CH~~~ 10 (92)
.|..||...
T Consensus 14 ~C~~CH~~~ 22 (65)
T PF14522_consen 14 NCASCHSDT 22 (65)
T ss_dssp CGCCTSTTT
T ss_pred ChhhhCCCc
Confidence 699999884
No 82
>PF11829 DUF3349: Protein of unknown function (DUF3349); InterPro: IPR021784 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 99 to 124 amino acids in length. ; PDB: 2KVC_A 3OL3_B 3OL4_A 2LKY_A.
Probab=45.53 E-value=7.2 Score=23.20 Aligned_cols=14 Identities=21% Similarity=0.185 Sum_probs=10.2
Q ss_pred CCHHHHHHHHHHHh
Q psy8407 75 KKPQERGDLIAYLE 88 (92)
Q Consensus 75 ~~~~d~~~liayL~ 88 (92)
++++|+..|++-|.
T Consensus 36 Ltd~ev~~Va~~L~ 49 (96)
T PF11829_consen 36 LTDDEVAEVAAELA 49 (96)
T ss_dssp S-HHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHH
Confidence 55888888888774
No 83
>PRK14485 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional
Probab=44.01 E-value=15 Score=29.27 Aligned_cols=46 Identities=17% Similarity=0.205 Sum_probs=25.5
Q ss_pred CccccHHHHHHHHhCCCCC-CC-CCCC---CCCCCCCHHHHHHHHHHHhhcc
Q psy8407 45 GITWNKDTLFEYLENPKKY-IP-GTKM---IFAGIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 45 ~~~~~~~~l~~~i~~P~~~-~p-~~~M---p~~~~~~~~d~~~liayL~sl~ 91 (92)
|...+++++.+.-.+=++. .+ ...| -+.+.. +.|+++|||||++|.
T Consensus 648 gvpy~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~-~~e~~aliaylq~lg 698 (712)
T PRK14485 648 GVPYTDGYEENAQADLREQAEAIAADLAADGFKVAP-DKEIVALIAYLQRLG 698 (712)
T ss_pred CCCCCHHHHHHHHHHHHHhhhhhhhHHHhccCCCCc-chHHHHHHHHHHHhc
Confidence 6677777776544321110 00 0111 123332 789999999999874
No 84
>PF08090 Enterotoxin_HS1: Heat stable E.coli enterotoxin 1; InterPro: IPR012557 Heat-stable toxin 1 of entero-aggregative Escherichia coli (EAST1) is a small toxin. It is not, however, solely associated with entero-aggregative E. coli but also with many other diarrhoeic E. coli families. Some studies have established the role of EAST1 in some human outbreaks of diarrhoea. Isolates from farm animals have been shown to carry the astA gene coding for EAST1. However, the relation between the presence of EAST1 and disease is not conclusive [].
Probab=43.04 E-value=9.6 Score=18.09 Aligned_cols=9 Identities=33% Similarity=0.951 Sum_probs=6.7
Q ss_pred CCccCcccc
Q psy8407 2 KCAQCHTIE 10 (92)
Q Consensus 2 ~C~~CH~~~ 10 (92)
.|++||.-.
T Consensus 21 ac~s~~grt 29 (36)
T PF08090_consen 21 ACGSCHGRT 29 (36)
T ss_pred hhccCCCCc
Confidence 488888755
No 85
>PF15182 OTOS: Otospiralin
Probab=42.89 E-value=52 Score=18.18 Aligned_cols=24 Identities=8% Similarity=0.181 Sum_probs=19.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhcc
Q psy8407 67 TKMIFAGIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 67 ~~Mp~~~~~~~~d~~~liayL~sl~ 91 (92)
..||++..+ -.|.=.-|+|++++-
T Consensus 15 pa~PYWPfs-tsDFW~YveyFrtlG 38 (69)
T PF15182_consen 15 PAMPYWPFS-TSDFWNYVEYFRTLG 38 (69)
T ss_pred CcCCcCCcc-chHHHHHHHHHHHhc
Confidence 359998877 588889999998874
No 86
>TIGR02245 HAD_IIID1 HAD-superfamily subfamily IIID hydrolase, TIGR02245. This family of sequences appears to belong to the Haloacid Dehalogenase (HAD) superfamily of enzymes by virtue of the presence of three catalytic domains, in this case: LLVLD(ILV)D(YH)T, I(VMG)IWS, and (DN)(VC)K(PA)Lx{15-17}T(IL)(MH)(FV)DD(IL)(GRS)(RK)N. Since this family has no large "cap" domain between motifs 1 and 2 or between 2 and 3, it is formally a "class III" HAD.
Probab=42.71 E-value=50 Score=21.99 Aligned_cols=36 Identities=25% Similarity=0.242 Sum_probs=24.1
Q ss_pred HHHHhCCCCCCCCCCCCCCC----CCCHHHHHHHHHHHhhcc
Q psy8407 54 FEYLENPKKYIPGTKMIFAG----IKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 54 ~~~i~~P~~~~p~~~Mp~~~----~~~~~d~~~liayL~sl~ 91 (92)
..++.+|...++= -||.+ -.+|.++.+|+.||..+.
T Consensus 140 ~~~~~~P~N~i~I--~~f~~~~~~~~~D~eL~~L~~yL~~la 179 (195)
T TIGR02245 140 RNFLMNPQNGLKI--RPFKKAHANRGTDQELLKLTQYLKTIA 179 (195)
T ss_pred HHHhcCCCCcccc--CCccccCCCCcccHHHHHHHHHHHHHh
Confidence 4567788765431 24432 235889999999999875
No 87
>cd02642 R3H_encore_like R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H domain is a potential regulator of DBF1 activity in stress responses. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=42.71 E-value=16 Score=19.63 Aligned_cols=13 Identities=8% Similarity=0.424 Sum_probs=10.7
Q ss_pred cHHHHHHHHhCCC
Q psy8407 49 NKDTLFEYLENPK 61 (92)
Q Consensus 49 ~~~~l~~~i~~P~ 61 (92)
-++.|..||.++.
T Consensus 8 ~E~~i~~Fi~~~~ 20 (63)
T cd02642 8 LEKDLLAFIKDST 20 (63)
T ss_pred HHHHHHHHHhCCC
Confidence 3788999999983
No 88
>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein. Members of this family represent a set of proteins related to, yet architecturally different from, the activating protein for the glycine radical-containing, oxygen-sensitive ribonucleoside-triphosphate reductase (RNR) as described in model TIGR02491. Members of this family are found paired with members of a similarly divergent set of anaerobic ribonucleoside-triphosphate reductases. Identification of this protein as an RNR activitating protein is partly from pairing with a candidate RNR. It is further supported by our finding that upstream of these operons are examples of a conserved regulatory element (described Rodionov and Gelfand) that is found in nearly all bacteria and that occurs specifically upstream of operons for all three classes of RNR genes.
Probab=42.60 E-value=61 Score=20.42 Aligned_cols=10 Identities=40% Similarity=1.002 Sum_probs=8.0
Q ss_pred CCccCccccC
Q psy8407 2 KCAQCHTIEA 11 (92)
Q Consensus 2 ~C~~CH~~~~ 11 (92)
+|..||+...
T Consensus 28 rC~~C~n~~~ 37 (147)
T TIGR02826 28 GCKGCHSPES 37 (147)
T ss_pred CCCCCCChHH
Confidence 6999999753
No 89
>PF07746 LigA: Aromatic-ring-opening dioxygenase LigAB, LigA subunit; InterPro: IPR011986 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes (IPR000627 from INTERPRO) use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) [, ]. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Extradiol dioxygenases are usually homo-multimeric, bind one atom of ferrous ion per subunit and have a subunit size of about 33 kDa. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes (IPR000486 from INTERPRO) show sequence similarity, with the two-domain class II enzymes having evolved from a class I enzyme through gene duplication. Class III enzymes are different in sequence and structure, but they do share several common active-site characteristics with the class II enzymes, in particular the coordination sphere and the disposition of the putative catalytic base are very similar. Class III enzymes usually have two subunits, designated A (IPR004183 from INTERPRO) and B (IPR004183 from INTERPRO). LigAB is a protocatechuate 4,5-dioxygenase (1.13.11.8 from EC) that belongs to the extradiol class III enzyme family. The LigA subunit of this enzyme is multi-helical, containing a compact array of 6 short helices [].; PDB: 1BOU_A 1B4U_A.
Probab=41.83 E-value=6.7 Score=22.88 Aligned_cols=31 Identities=19% Similarity=0.412 Sum_probs=20.0
Q ss_pred ccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHH
Q psy8407 48 WNKDTLFEYLENPKKYIPGTKMIFAGIKKPQERGDLI 84 (92)
Q Consensus 48 ~~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~~li 84 (92)
.+++...+|+.||.++. --.+++ ++|+++|.
T Consensus 9 ~~~~~r~~F~~D~~a~~-----~~~~Lt-~eer~av~ 39 (88)
T PF07746_consen 9 NDPENRERFLADPEAYL-----DEYGLT-EEERQAVL 39 (88)
T ss_dssp GSHHHHHHHHH-HHHHH-----HCCT---HHHHHHHH
T ss_pred cCHHHHHHHHHCHHHHH-----HHcCCC-HHHHHHHH
Confidence 46788889999997543 334565 88888764
No 90
>PF13822 ACC_epsilon: Acyl-CoA carboxylase epsilon subunit
Probab=41.21 E-value=40 Score=18.12 Aligned_cols=18 Identities=28% Similarity=0.257 Sum_probs=14.4
Q ss_pred CCCCHHHHHHHHHHHhhc
Q psy8407 73 GIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 73 ~~~~~~d~~~liayL~sl 90 (92)
|--++||+++|++=|..+
T Consensus 9 GnPt~eElAAL~aVlaa~ 26 (62)
T PF13822_consen 9 GNPTDEELAALTAVLAAR 26 (62)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 334699999999988765
No 91
>TIGR03153 cytochr_NrfH cytochrome c nitrate reductase, small subunit. Members of this protein family are NrfH, a tetraheme cytochrome c. NrfH is the cytochrome c nitrate reductase small subunit, and forms a heterodimer with NrfA, the catalytic subunit. While NrfA can act as a monomer, NrfH can bind to and anchor NrfA in the membrane and enables electron transfer to NrfA from quinones.
Probab=39.88 E-value=6.9 Score=24.38 Aligned_cols=10 Identities=30% Similarity=0.757 Sum_probs=7.9
Q ss_pred CCCccCcccc
Q psy8407 1 MKCAQCHTIE 10 (92)
Q Consensus 1 ~~C~~CH~~~ 10 (92)
.+|.+||+-.
T Consensus 103 ~nC~~CH~~~ 112 (135)
T TIGR03153 103 ENCVRCHAGL 112 (135)
T ss_pred cchHHHHhHH
Confidence 3799999864
No 92
>PF14537 Cytochrom_c3_2: Cytochrome c3; PDB: 1D4C_A 1D4E_A 1D4D_A 2K3V_A 1QO8_D 2P0B_A 2OZY_A 1M64_A 1JRX_A 1QJD_A ....
Probab=39.16 E-value=14 Score=19.94 Aligned_cols=9 Identities=33% Similarity=1.018 Sum_probs=7.1
Q ss_pred CCccCcccc
Q psy8407 2 KCAQCHTIE 10 (92)
Q Consensus 2 ~C~~CH~~~ 10 (92)
+|..||...
T Consensus 8 ~C~~CH~~~ 16 (80)
T PF14537_consen 8 NCVDCHGPH 16 (80)
T ss_dssp TGGGTSSSS
T ss_pred ChhHhCCCC
Confidence 699999754
No 93
>COG5204 SPT4 Transcription elongation factor SPT4 [Transcription]
Probab=39.02 E-value=45 Score=20.00 Aligned_cols=34 Identities=15% Similarity=0.215 Sum_probs=19.5
Q ss_pred cHHHHHHHHhCCCCCCCC-CCCCCCCCCCHHHHHHH
Q psy8407 49 NKDTLFEYLENPKKYIPG-TKMIFAGIKKPQERGDL 83 (92)
Q Consensus 49 ~~~~l~~~i~~P~~~~p~-~~Mp~~~~~~~~d~~~l 83 (92)
+..|+.+|.+-- .+.+| ..|--.+.++++-+++|
T Consensus 62 t~SWVakWqrid-~f~~GlYA~~V~G~L~edvve~L 96 (112)
T COG5204 62 TNSWVAKWQRID-EFRKGLYAMVVEGALSEDVVEDL 96 (112)
T ss_pred cHHHHHHHhhhc-ccccceeEEEEcccCCHHHHHHH
Confidence 566788887642 23444 23445677755555554
No 94
>CHL00037 petA cytochrome f
Probab=38.91 E-value=10 Score=27.12 Aligned_cols=9 Identities=44% Similarity=1.128 Sum_probs=7.1
Q ss_pred CccCccccC
Q psy8407 3 CAQCHTIEA 11 (92)
Q Consensus 3 C~~CH~~~~ 11 (92)
|+.||-...
T Consensus 56 CANCHLA~K 64 (320)
T CHL00037 56 CANCHLANK 64 (320)
T ss_pred eeccccccC
Confidence 999997654
No 95
>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=38.87 E-value=9 Score=24.65 Aligned_cols=10 Identities=50% Similarity=1.152 Sum_probs=7.8
Q ss_pred CCccCccccC
Q psy8407 2 KCAQCHTIEA 11 (92)
Q Consensus 2 ~C~~CH~~~~ 11 (92)
-|++||....
T Consensus 37 fC~sCH~m~~ 46 (173)
T PF03264_consen 37 FCASCHEMEP 46 (173)
T ss_dssp HHTTSGGGHH
T ss_pred HHHhhcCCcH
Confidence 3899998774
No 96
>PF15161 Neuropep_like: Neuropeptide-like
Probab=38.37 E-value=7.3 Score=21.04 Aligned_cols=10 Identities=40% Similarity=1.095 Sum_probs=8.0
Q ss_pred CCCccCcccc
Q psy8407 1 MKCAQCHTIE 10 (92)
Q Consensus 1 ~~C~~CH~~~ 10 (92)
+-|.-||..+
T Consensus 14 RPCVDCHAFe 23 (65)
T PF15161_consen 14 RPCVDCHAFE 23 (65)
T ss_pred CCchhhHHHH
Confidence 3599999887
No 97
>COG3445 Acid-induced glycyl radical enzyme [General function prediction only]
Probab=38.16 E-value=33 Score=20.72 Aligned_cols=38 Identities=29% Similarity=0.590 Sum_probs=26.5
Q ss_pred cccHHHHHHHHhCCCCCCC------CCCCCCCCCCCHHHHHHHHH
Q psy8407 47 TWNKDTLFEYLENPKKYIP------GTKMIFAGIKKPQERGDLIA 85 (92)
Q Consensus 47 ~~~~~~l~~~i~~P~~~~p------~~~Mp~~~~~~~~d~~~lia 85 (92)
+..++.|...+++|.++.. |....|..+. +++-+|+|+
T Consensus 77 vl~retledav~~pekypqltirvsgyavrfnslt-peqqrdvi~ 120 (127)
T COG3445 77 VLRRETLEDAVKHPEKYPQLTIRVSGYAVRFNSLT-PEQQRDVIA 120 (127)
T ss_pred eeehhhHHHHhhCcccCCceEEEEeeEEEEeccCC-HHHhhhHHH
Confidence 3468899999999988643 3333466666 777777775
No 98
>PRK02693 apocytochrome f; Reviewed
Probab=37.56 E-value=11 Score=26.75 Aligned_cols=9 Identities=44% Similarity=1.158 Sum_probs=7.2
Q ss_pred CccCccccC
Q psy8407 3 CAQCHTIEA 11 (92)
Q Consensus 3 C~~CH~~~~ 11 (92)
|+.||-...
T Consensus 49 CANCHLA~K 57 (312)
T PRK02693 49 CANCHLAQK 57 (312)
T ss_pred eeccccccC
Confidence 999997654
No 99
>COG2996 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]
Probab=36.74 E-value=36 Score=24.19 Aligned_cols=31 Identities=23% Similarity=0.419 Sum_probs=22.8
Q ss_pred cHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHH
Q psy8407 49 NKDTLFEYLENPKKYIPGTKMIFAGIKKPQERGDLI 84 (92)
Q Consensus 49 ~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~~li 84 (92)
+.+-|..+|+.- |..|||..-++++||++..
T Consensus 226 daq~Il~yL~~~-----gG~mpf~DKSsPEdIk~~F 256 (287)
T COG2996 226 DAQMILTYLESN-----GGFMPFNDKSSPEDIKATF 256 (287)
T ss_pred hHHHHHHHHHHc-----CCccccCCCCCHHHHHHHh
Confidence 445566666642 4679999999999998764
No 100
>PF14769 CLAMP: Flagellar C1a complex subunit C1a-32
Probab=36.64 E-value=44 Score=19.55 Aligned_cols=18 Identities=22% Similarity=0.398 Sum_probs=15.0
Q ss_pred CCCCCHHHHHHHHHHHhh
Q psy8407 72 AGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 72 ~~~~~~~d~~~liayL~s 89 (92)
.++.+.+|+++|++|+.+
T Consensus 61 ~~iFs~~~~~~i~~y~~~ 78 (101)
T PF14769_consen 61 IGIFSVDQVKAIIDYFHN 78 (101)
T ss_pred cCcCCHHHHHHHHHHHHH
Confidence 356789999999999975
No 101
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=36.54 E-value=14 Score=25.53 Aligned_cols=11 Identities=27% Similarity=0.603 Sum_probs=8.6
Q ss_pred CCCccCccccC
Q psy8407 1 MKCAQCHTIEA 11 (92)
Q Consensus 1 ~~C~~CH~~~~ 11 (92)
+.|++||..-+
T Consensus 198 ~~C~GC~m~l~ 208 (239)
T COG1579 198 RVCGGCHMKLP 208 (239)
T ss_pred CcccCCeeeec
Confidence 35999998764
No 102
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=36.40 E-value=19 Score=19.81 Aligned_cols=11 Identities=18% Similarity=0.770 Sum_probs=8.5
Q ss_pred CCCccCccccC
Q psy8407 1 MKCAQCHTIEA 11 (92)
Q Consensus 1 ~~C~~CH~~~~ 11 (92)
+.|..||.+..
T Consensus 6 ~AC~~C~~i~~ 16 (64)
T PRK06393 6 RACKKCKRLTP 16 (64)
T ss_pred hhHhhCCcccC
Confidence 35899998874
No 103
>PF12797 Fer4_2: 4Fe-4S binding domain; InterPro: IPR001450 This superfamily includes proteins containing domains which bind to iron-sulphur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Ferredoxins are iron-sulphur proteins that mediate electron transfer in a range of metabolic reactions; they fall into several subgroups according to the nature of their iron-sulphur cluster(s) [, ]. One group, originally found in bacteria, has been termed "bacterial-type", in which the active centre is a 4Fe-4S cluster. 4Fe-4S ferredoxins may in turn be subdivided into further groups, based on their sequence properties. Most contain at least one conserved domain, including four Cys residues that bind to a 4Fe-4S centre. ; GO: 0009055 electron carrier activity, 0051536 iron-sulfur cluster binding
Probab=36.13 E-value=16 Score=15.82 Aligned_cols=7 Identities=29% Similarity=1.099 Sum_probs=5.1
Q ss_pred CCccCcc
Q psy8407 2 KCAQCHT 8 (92)
Q Consensus 2 ~C~~CH~ 8 (92)
.|.+|++
T Consensus 9 rCiGC~~ 15 (22)
T PF12797_consen 9 RCIGCGA 15 (22)
T ss_pred cccCchh
Confidence 5888875
No 104
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=36.08 E-value=54 Score=15.58 Aligned_cols=13 Identities=31% Similarity=0.762 Sum_probs=11.8
Q ss_pred cccHHHHHHHHhC
Q psy8407 47 TWNKDTLFEYLEN 59 (92)
Q Consensus 47 ~~~~~~l~~~i~~ 59 (92)
.|+.+.|..||..
T Consensus 3 tWs~~~L~~wL~~ 15 (38)
T PF10281_consen 3 TWSDSDLKSWLKS 15 (38)
T ss_pred CCCHHHHHHHHHH
Confidence 5999999999987
No 105
>PF02375 JmjN: jmjN domain; InterPro: IPR003349 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with JmjC (see IPR003347 from INTERPRO).; PDB: 2XML_A 2W2I_C 3DXT_A 3DXU_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=35.58 E-value=17 Score=17.40 Aligned_cols=16 Identities=25% Similarity=0.316 Sum_probs=11.6
Q ss_pred CHHHHHHHHHHHhhcc
Q psy8407 76 KPQERGDLIAYLEQAS 91 (92)
Q Consensus 76 ~~~d~~~liayL~sl~ 91 (92)
+.+|.+|-+.||.++.
T Consensus 6 t~eEF~dp~~yi~~i~ 21 (34)
T PF02375_consen 6 TMEEFKDPIKYISSIE 21 (34)
T ss_dssp -HHHHS-HHHHHHHHH
T ss_pred CHHHHhCHHHHHHHHH
Confidence 4789999999998753
No 106
>cd07923 Gallate_dioxygenase_C The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of the PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. This model represents the C-terminal domain, which is similar to the A subunit of PCA 4,5-dioxygenase (or LigAB). The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. Since enzymes in this subfamily have fused A and B subunits, the dimer interface may resemble the tetramer interface of classical LigAB enzymes. This enzyme belongs to the class III extradiol dioxygenase family, composed of enzymes whi
Probab=35.35 E-value=18 Score=21.47 Aligned_cols=30 Identities=23% Similarity=0.311 Sum_probs=21.6
Q ss_pred cHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHH
Q psy8407 49 NKDTLFEYLENPKKYIPGTKMIFAGIKKPQERGDLI 84 (92)
Q Consensus 49 ~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~~li 84 (92)
.+++-.+|+.||.++ |--.+++ +||+++|.
T Consensus 17 ~a~~RerF~~D~ea~-----~~e~gLt-~Ee~~av~ 46 (94)
T cd07923 17 EPAHRERFLEDPEAL-----FDEAGLT-EEERTLIR 46 (94)
T ss_pred CHHHHHHHHhCHHHH-----HHHcCCC-HHHHHHHH
Confidence 567778899998754 4445665 88888775
No 107
>PF08263 LRRNT_2: Leucine rich repeat N-terminal domain; InterPro: IPR013210 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. This domain is often found at the N terminus of tandem leucine rich repeats.; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1OGQ_A.
Probab=33.32 E-value=44 Score=16.12 Aligned_cols=15 Identities=27% Similarity=0.472 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHhhcc
Q psy8407 77 PQERGDLIAYLEQAS 91 (92)
Q Consensus 77 ~~d~~~liayL~sl~ 91 (92)
++|+++|++|-+++.
T Consensus 2 ~~d~~aLl~~k~~l~ 16 (43)
T PF08263_consen 2 NQDRQALLAFKKSLN 16 (43)
T ss_dssp HHHHHHHHHHHHCTT
T ss_pred cHHHHHHHHHHHhcc
Confidence 689999999887664
No 108
>COG1137 YhbG ABC-type (unclassified) transport system, ATPase component [General function prediction only]
Probab=32.88 E-value=88 Score=21.65 Aligned_cols=20 Identities=25% Similarity=0.371 Sum_probs=15.6
Q ss_pred CCCCCC--CHHHHHHHHHHHhh
Q psy8407 70 IFAGIK--KPQERGDLIAYLEQ 89 (92)
Q Consensus 70 p~~~~~--~~~d~~~liayL~s 89 (92)
||.++. +-.||+.||.+|+.
T Consensus 166 PFAGVDPiaV~dIq~iI~~L~~ 187 (243)
T COG1137 166 PFAGVDPIAVIDIQRIIKHLKD 187 (243)
T ss_pred CccCCCchhHHHHHHHHHHHHh
Confidence 677643 47899999999985
No 109
>KOG3831|consensus
Probab=31.21 E-value=40 Score=21.95 Aligned_cols=44 Identities=20% Similarity=0.388 Sum_probs=27.6
Q ss_pred ccccHHH-HHHHHhCCCCCCC------CCCCC---CCCCCCHHHHHHHHHHHhh
Q psy8407 46 ITWNKDT-LFEYLENPKKYIP------GTKMI---FAGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 46 ~~~~~~~-l~~~i~~P~~~~p------~~~Mp---~~~~~~~~d~~~liayL~s 89 (92)
+.|+--. =++.+++|.+++. .+.|| |.-+-+++++..+-+|.+.
T Consensus 94 ~~wsiikakrq~l~~pdgfia~fynise~v~paia~gflg~~~ql~elc~ffk~ 147 (196)
T KOG3831|consen 94 ACWSIIKAKRQLLKNPDGFIAHFYNISEHVMPAIAFGFLGPDEQLAELCAFFKE 147 (196)
T ss_pred HHHHHHHHHHHHhcCCchHHHHHhhhhhhhhHHHHhhccCCcHHHHHHHHHHHH
Confidence 3565432 2356778988652 46788 3224468888888888764
No 110
>COG3488 Predicted thiol oxidoreductase [Energy production and conversion]
Probab=31.10 E-value=36 Score=25.12 Aligned_cols=19 Identities=37% Similarity=0.651 Sum_probs=15.0
Q ss_pred CCCCCCHHHHHHHHHHHhhc
Q psy8407 71 FAGIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 71 ~~~~~~~~d~~~liayL~sl 90 (92)
|..+ +..|+++|++||.||
T Consensus 463 faa~-~k~~R~ALvaFLeSL 481 (481)
T COG3488 463 FAAF-DKAQREALVAFLESL 481 (481)
T ss_pred Hhcc-CHHHHHHHHHHHhcC
Confidence 3344 489999999999986
No 111
>PF11256 DUF3055: Protein of unknown function (DUF3055); InterPro: IPR021415 This family of proteins with unknown function appear to be restricted to Firmicutes.
Probab=31.07 E-value=56 Score=18.85 Aligned_cols=18 Identities=22% Similarity=0.405 Sum_probs=14.8
Q ss_pred CCCCCHHHHHHHHHHHhhc
Q psy8407 72 AGIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 72 ~~~~~~~d~~~liayL~sl 90 (92)
.++ +++|.++|-+||..+
T Consensus 64 f~l-~~eea~eL~~fl~~~ 81 (81)
T PF11256_consen 64 FGL-SEEEAEELREFLYEL 81 (81)
T ss_pred hCC-CHHHHHHHHHHHhhC
Confidence 456 599999999999764
No 112
>PRK13767 ATP-dependent helicase; Provisional
Probab=30.80 E-value=92 Score=25.40 Aligned_cols=35 Identities=9% Similarity=0.387 Sum_probs=26.9
Q ss_pred ccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHHHHHhh
Q psy8407 46 ITWNKDTLFEYLENPKKYIPGTKMIFAGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 46 ~~~~~~~l~~~i~~P~~~~p~~~Mp~~~~~~~~d~~~liayL~s 89 (92)
..|+.+.+.++++. ..||..+. .++.+.++.||..
T Consensus 440 ~~~~~~~~~~~~~~--------~~~~~~l~-~~~~~~~l~~l~~ 474 (876)
T PRK13767 440 RPWDIEEAYNIVRR--------AYPYRDLS-DEDFESVLRYLAG 474 (876)
T ss_pred CCCCHHHHHHHHhc--------cCCcccCC-HHHHHHHHHHHhc
Confidence 36777777777763 36788776 8999999999964
No 113
>smart00545 JmjN Small domain found in the jumonji family of transcription factors. To date, this domain always co-occurs with the JmjC domain (although the reverse is not true).
Probab=30.75 E-value=33 Score=17.13 Aligned_cols=16 Identities=25% Similarity=0.368 Sum_probs=13.0
Q ss_pred CHHHHHHHHHHHhhcc
Q psy8407 76 KPQERGDLIAYLEQAS 91 (92)
Q Consensus 76 ~~~d~~~liayL~sl~ 91 (92)
+.+|.+|-++||.++.
T Consensus 8 t~eEF~Dp~~yi~~i~ 23 (42)
T smart00545 8 TMEEFKDPLAYISKIR 23 (42)
T ss_pred CHHHHHCHHHHHHHHH
Confidence 4789999999998763
No 114
>COG3183 Predicted restriction endonuclease [Defense mechanisms]
Probab=30.36 E-value=13 Score=26.13 Aligned_cols=8 Identities=38% Similarity=1.277 Sum_probs=7.2
Q ss_pred CccCcccc
Q psy8407 3 CAQCHTIE 10 (92)
Q Consensus 3 C~~CH~~~ 10 (92)
|.+||.+-
T Consensus 244 CpNCH~mv 251 (272)
T COG3183 244 CPNCHKMV 251 (272)
T ss_pred CccHHHHH
Confidence 99999986
No 115
>PF10180 DUF2373: Uncharacterised conserved protein (DUF2373); InterPro: IPR019327 This is a conserved family of proteins found from fungi to humans. The function is not known.
Probab=30.00 E-value=68 Score=17.51 Aligned_cols=17 Identities=18% Similarity=0.116 Sum_probs=14.0
Q ss_pred CCHHHHHHHHHHHhhcc
Q psy8407 75 KKPQERGDLIAYLEQAS 91 (92)
Q Consensus 75 ~~~~d~~~liayL~sl~ 91 (92)
++++....+++||..++
T Consensus 34 IP~~~~~~ll~Yl~glk 50 (65)
T PF10180_consen 34 IPSEYFPILLEYLKGLK 50 (65)
T ss_pred CCHHHHHHHHHHHHhCc
Confidence 34788999999998875
No 116
>PF00432 Prenyltrans: Prenyltransferase and squalene oxidase repeat This Prosite family is a subset of the Pfam family.; InterPro: IPR001330 The beta subunit of the farnesyltransferases is responsible for peptide binding. Squalene-hopene cyclase is a bacterial enzyme that catalyzes the cyclization of squalene into hopene, a key step in hopanoid (triterpenoid) metabolism []. Lanosterol synthase (5.4.99.7 from EC) (oxidosqualene-lanosterol cyclase) catalyzes the cyclization of (S)-2,3-epoxysqualene to lanosterol, the initial precursor of cholesterol, steroid hormones and vitamin D in vertebrates and of ergosterol in fungi []. Cycloartenol synthase () (2,3-epoxysqualene-cycloartenol cyclase) is a plant enzyme that catalyzes the cyclization of (S)-2,3-epoxysqualene to cycloartenol.; GO: 0003824 catalytic activity; PDB: 2IEJ_B 1LD7_B 1LD8_B 2H6G_B 1TN6_B 1S63_B 1MZC_B 2H6I_B 2H6F_B 1JCQ_B ....
Probab=29.49 E-value=58 Score=15.81 Aligned_cols=12 Identities=25% Similarity=0.412 Sum_probs=8.8
Q ss_pred HHHHHHHHHhhc
Q psy8407 79 ERGDLIAYLEQA 90 (92)
Q Consensus 79 d~~~liayL~sl 90 (92)
|++.++.||.+.
T Consensus 2 d~~~~~~~l~~~ 13 (44)
T PF00432_consen 2 DVEKLIRFLLSC 13 (44)
T ss_dssp HHHHHHHHHHHT
T ss_pred CHHHHHHHHHHH
Confidence 567788888764
No 117
>PF06883 RNA_pol_Rpa2_4: RNA polymerase I, Rpa2 specific domain ; InterPro: IPR009674 This domain is found between domain 3 and domain 5, but shows no homology to domain 4 of Rpb2. The external domains in multisubunit RNA polymerase (those most distant from the active site) are known to demonstrate more sequence variability [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent, 0005634 nucleus
Probab=28.92 E-value=61 Score=17.31 Aligned_cols=17 Identities=18% Similarity=0.245 Sum_probs=13.2
Q ss_pred CCHHHHHHHHHHHhhcc
Q psy8407 75 KKPQERGDLIAYLEQAS 91 (92)
Q Consensus 75 ~~~~d~~~liayL~sl~ 91 (92)
.++++...+++.|+.+|
T Consensus 4 ~~~~~a~~~~~~LR~~K 20 (58)
T PF06883_consen 4 VSPEEAEQIADQLRYLK 20 (58)
T ss_pred ecHHHHHHHHHHHHHHH
Confidence 34788888888888765
No 118
>TIGR03146 cyt_nit_nrfB cytochrome c nitrite reductase, pentaheme subunit. Members of this protein family contain five copies of the CXXCH heme-binding motif, and are the NrfB component of the multisubunit enzyme, cytochrome c nitrite reductase.
Probab=28.45 E-value=20 Score=22.52 Aligned_cols=10 Identities=50% Similarity=1.255 Sum_probs=8.4
Q ss_pred CCccCccccC
Q psy8407 2 KCAQCHTIEA 11 (92)
Q Consensus 2 ~C~~CH~~~~ 11 (92)
.|.+||++-+
T Consensus 111 ~C~~CH~~H~ 120 (145)
T TIGR03146 111 TCASCHTLHP 120 (145)
T ss_pred Chhhhccccc
Confidence 5999999874
No 119
>PF04320 DUF469: Protein with unknown function (DUF469); InterPro: IPR007416 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.
Probab=28.40 E-value=62 Score=19.41 Aligned_cols=19 Identities=21% Similarity=0.375 Sum_probs=15.2
Q ss_pred CCCCHHHHHHHHHHHhhcc
Q psy8407 73 GIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 73 ~~~~~~d~~~liayL~sl~ 91 (92)
+-.+++++.+|.+||+..+
T Consensus 68 gs~tee~R~~v~~WL~~~~ 86 (101)
T PF04320_consen 68 GSCTEEDRAAVEAWLKARP 86 (101)
T ss_pred CCCCHHHHHHHHHHHHhCC
Confidence 3456999999999998643
No 120
>PRK08340 glucose-1-dehydrogenase; Provisional
Probab=28.03 E-value=67 Score=21.28 Aligned_cols=20 Identities=30% Similarity=0.353 Sum_probs=15.8
Q ss_pred CCCCCCCHHHHHHHHHHHhh
Q psy8407 70 IFAGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 70 p~~~~~~~~d~~~liayL~s 89 (92)
|...+.+++|+.+++.||.+
T Consensus 217 p~~r~~~p~dva~~~~fL~s 236 (259)
T PRK08340 217 PLKRTGRWEELGSLIAFLLS 236 (259)
T ss_pred CccCCCCHHHHHHHHHHHcC
Confidence 43445569999999999986
No 121
>PF02085 Cytochrom_CIII: Class III cytochrome C family; InterPro: IPR020942 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 III comprises the low redox potential multiple haem cytochromes: cyt C7 (trihaem), C3 (tetrahaem), and high-molecular-weight cytC, HMC (hexadecahaem), with only 30-40 residues per haem group. The haem c groups, all bis-histidinyl coordinated, are structurally and functionally nonequivalent and present different redox potentials in the range 0 to -400 mV []. The 3D structures of a number of cyt C3 proteins have been determined. The proteins consist of 4-5 alpha-helices and 2 beta-strands wrapped around a compact core of four non-parallel haems, which present a relatively high degree of exposure to the solvent. The overall protein architecture, haem plane orientations and iron-iron distances are highly conserved [].; GO: 0009055 electron carrier activity, 0020037 heme binding; PDB: 1AQE_A 1CZJ_A 1H29_B 1GWS_A 2CVC_A 2KMY_A 1DUW_A 1UPD_A 1I77_A 1GMB_A ....
Probab=27.78 E-value=35 Score=19.74 Aligned_cols=10 Identities=30% Similarity=0.909 Sum_probs=7.9
Q ss_pred CCccCccccC
Q psy8407 2 KCAQCHTIEA 11 (92)
Q Consensus 2 ~C~~CH~~~~ 11 (92)
.|.+||....
T Consensus 49 ~C~~CH~~~~ 58 (102)
T PF02085_consen 49 SCMSCHDENG 58 (102)
T ss_dssp SCTCSSSSSS
T ss_pred hHHHhcCccc
Confidence 5889998773
No 122
>KOG1605|consensus
Probab=27.74 E-value=1.1e+02 Score=21.43 Aligned_cols=35 Identities=23% Similarity=0.255 Sum_probs=22.2
Q ss_pred HHHhCCCCCCCCCCCCCCCCCCHHHHHHHHHHHhhcc
Q psy8407 55 EYLENPKKYIPGTKMIFAGIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 55 ~~i~~P~~~~p~~~Mp~~~~~~~~d~~~liayL~sl~ 91 (92)
.|+.+|+..+|= -+|..-.+|.|+-+|+-||..|.
T Consensus 213 sy~~~p~NgIpI--~sw~~d~~D~eLL~LlpfLe~L~ 247 (262)
T KOG1605|consen 213 SYRLQPENGIPI--KSWFDDPTDTELLKLLPFLEALA 247 (262)
T ss_pred HhccCccCCCcc--cccccCCChHHHHHHHHHHHHhc
Confidence 345566554431 23333334999999999999875
No 123
>PF15573 Imm27: Immunity protein 27
Probab=27.74 E-value=58 Score=22.60 Aligned_cols=26 Identities=27% Similarity=0.517 Sum_probs=20.2
Q ss_pred CCCCC--CCCCCCHHHHHHHHHHHhhcc
Q psy8407 66 GTKMI--FAGIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 66 ~~~Mp--~~~~~~~~d~~~liayL~sl~ 91 (92)
|-..| +..+++.++.++++.|+.+|.
T Consensus 216 GekvP~dy~tiIs~~~~~~~i~YId~Ls 243 (259)
T PF15573_consen 216 GEKVPVDYNTIISRENYKDMISYIDSLS 243 (259)
T ss_pred CccccccccceechhHHHHHHHHHHHHh
Confidence 33445 556778999999999998875
No 124
>PF08538 DUF1749: Protein of unknown function (DUF1749); InterPro: IPR013744 This is a plant and fungal family of unknown function. This family contains many hypothetical proteins. ; PDB: 2Q0X_B.
Probab=27.74 E-value=41 Score=24.12 Aligned_cols=15 Identities=27% Similarity=0.501 Sum_probs=12.5
Q ss_pred CHHHHHHHHHHHhhc
Q psy8407 76 KPQERGDLIAYLEQA 90 (92)
Q Consensus 76 ~~~d~~~liayL~sl 90 (92)
+.+||+++|.||++.
T Consensus 86 D~~eI~~~v~ylr~~ 100 (303)
T PF08538_consen 86 DVEEIAQLVEYLRSE 100 (303)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHh
Confidence 367888999999987
No 125
>PF14410 GH-E: HNH/ENDO VII superfamily nuclease with conserved GHE residues
Probab=27.73 E-value=58 Score=18.02 Aligned_cols=21 Identities=10% Similarity=0.339 Sum_probs=17.7
Q ss_pred CccccHHHHHHHHhCCCCCCC
Q psy8407 45 GITWNKDTLFEYLENPKKYIP 65 (92)
Q Consensus 45 ~~~~~~~~l~~~i~~P~~~~p 65 (92)
...|+..++..|+.+|..+.+
T Consensus 38 ~~~~t~ke~~d~~n~p~nyrl 58 (70)
T PF14410_consen 38 EGGITRKEFLDWYNDPDNYRL 58 (70)
T ss_pred hcCCCHHHHHHHHhCccceee
Confidence 466899999999999987754
No 126
>COG1250 FadB 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]
Probab=27.68 E-value=1.6e+02 Score=21.08 Aligned_cols=44 Identities=16% Similarity=0.279 Sum_probs=32.0
Q ss_pred cHHHHHHHHhCCCCC------CCCCCCCCC-----CCCCHHHHHHHHHHHhhccC
Q psy8407 49 NKDTLFEYLENPKKY------IPGTKMIFA-----GIKKPQERGDLIAYLEQASK 92 (92)
Q Consensus 49 ~~~~l~~~i~~P~~~------~p~~~Mp~~-----~~~~~~d~~~liayL~sl~~ 92 (92)
+-..|.+....|+.+ .|...||.. ..++++-++.+++|++++.|
T Consensus 122 ~it~ia~~~~rper~iG~HFfNP~~~m~LVEvI~g~~T~~e~~~~~~~~~~~igK 176 (307)
T COG1250 122 SITELAEALKRPERFIGLHFFNPVPLMPLVEVIRGEKTSDETVERVVEFAKKIGK 176 (307)
T ss_pred CHHHHHHHhCCchhEEEEeccCCCCcceeEEEecCCCCCHHHHHHHHHHHHHcCC
Confidence 455677777888774 366678842 35679999999999998653
No 127
>PF09383 NIL: NIL domain; InterPro: IPR018449 This domain is found at the C terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins. This domain is likely to act as a substrate binding domain. The domain has been named after a conserved sequence in some members of the family. ; PDB: 2QRR_A 3CED_A 2QSW_A 3TUZ_D 3TUJ_D 3DHX_B 3TUI_H 3DHW_D.
Probab=26.95 E-value=68 Score=17.39 Aligned_cols=15 Identities=33% Similarity=0.474 Sum_probs=12.1
Q ss_pred CHHHHHHHHHHHhhc
Q psy8407 76 KPQERGDLIAYLEQA 90 (92)
Q Consensus 76 ~~~d~~~liayL~sl 90 (92)
++++++..++||++.
T Consensus 55 ~~~~~~~a~~~L~~~ 69 (76)
T PF09383_consen 55 DDEEIEKAIAYLREQ 69 (76)
T ss_dssp -HHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHHC
Confidence 478899999999864
No 128
>PRK11659 cytochrome c nitrite reductase pentaheme subunit; Provisional
Probab=26.51 E-value=21 Score=23.50 Aligned_cols=10 Identities=40% Similarity=1.222 Sum_probs=8.7
Q ss_pred CCccCccccC
Q psy8407 2 KCAQCHTIEA 11 (92)
Q Consensus 2 ~C~~CH~~~~ 11 (92)
.|.+||.+-+
T Consensus 134 ~C~~CH~~H~ 143 (183)
T PRK11659 134 TCASCHSLHP 143 (183)
T ss_pred chhhhhhccc
Confidence 5999999885
No 129
>PF14566 PTPlike_phytase: Inositol hexakisphosphate; PDB: 1U24_A 2PSZ_B 3MOZ_A 3D1H_B 2B4P_B 3D1Q_A 2B4O_A 3MMJ_B 1U25_A 1U26_B ....
Probab=26.29 E-value=63 Score=20.24 Aligned_cols=16 Identities=13% Similarity=0.482 Sum_probs=13.3
Q ss_pred CHHHHHHHHHHHhhcc
Q psy8407 76 KPQERGDLIAYLEQAS 91 (92)
Q Consensus 76 ~~~d~~~liayL~sl~ 91 (92)
+++++++++++++++.
T Consensus 107 ~~~~iD~fi~~v~~~p 122 (149)
T PF14566_consen 107 DPEDIDAFINFVKSLP 122 (149)
T ss_dssp -HHHHHHHHHHHHTS-
T ss_pred CHHHHHHHHHHHHhCC
Confidence 5999999999999874
No 130
>PF13561 adh_short_C2: Enoyl-(Acyl carrier protein) reductase; PDB: 2UV8_B 3HMJ_A 2VKZ_C 1O5I_A 2P91_C 2OP0_A 2OL4_B 1NHW_A 1NNU_B 2O2Y_B ....
Probab=26.11 E-value=40 Score=22.18 Aligned_cols=20 Identities=15% Similarity=0.406 Sum_probs=15.6
Q ss_pred CCCCCCCHHHHHHHHHHHhh
Q psy8407 70 IFAGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 70 p~~~~~~~~d~~~liayL~s 89 (92)
|...+.+++|+.+.+.||.|
T Consensus 204 pl~r~~~~~evA~~v~fL~s 223 (241)
T PF13561_consen 204 PLGRLGTPEEVANAVLFLAS 223 (241)
T ss_dssp TTSSHBEHHHHHHHHHHHHS
T ss_pred ccCCCcCHHHHHHHHHHHhC
Confidence 44444569999999999986
No 131
>PF13099 DUF3944: Domain of unknown function (DUF3944)
Probab=25.95 E-value=78 Score=15.27 Aligned_cols=14 Identities=21% Similarity=0.292 Sum_probs=11.6
Q ss_pred CCHHHHHHHHHHHh
Q psy8407 75 KKPQERGDLIAYLE 88 (92)
Q Consensus 75 ~~~~d~~~liayL~ 88 (92)
.+.+|+++|+..|.
T Consensus 13 cs~edL~~L~~~Lt 26 (35)
T PF13099_consen 13 CSNEDLKDLVDILT 26 (35)
T ss_pred CCHHHHHHHHHHHh
Confidence 46899999999885
No 132
>PRK06603 enoyl-(acyl carrier protein) reductase; Provisional
Probab=25.76 E-value=82 Score=21.08 Aligned_cols=20 Identities=15% Similarity=0.177 Sum_probs=15.6
Q ss_pred CCCCCCCHHHHHHHHHHHhh
Q psy8407 70 IFAGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 70 p~~~~~~~~d~~~liayL~s 89 (92)
|...+.+++|+.+.+.||.+
T Consensus 216 p~~r~~~pedva~~~~~L~s 235 (260)
T PRK06603 216 PLKRNTTQEDVGGAAVYLFS 235 (260)
T ss_pred CcCCCCCHHHHHHHHHHHhC
Confidence 44444569999999999986
No 133
>cd08168 Cytochrom_C3 Heme-binding domain of the class III cytochrome C family and related proteins. This alignment models heme binding core motifs as encountered in the cytochrome C3 family and related proteins. Cytochrome C3 is a tetraheme protein found in sulfate-reducing bacteria which use either thiosulfate or sulfate as the ultimate electron acceptors. C3 is an integral part of a complex electron transfer chain. The model also contains triheme cytochromes C7 which function in electron transfer during Fe(III) respiration by Geobacter sulfurreducens (PpcA, PpcB, PpcC, PpcD, and PpcE) and four repeated core motifs as found in the 16-heme cytochrome C HmcA of Desulfovibrio vulgaris Hildenborough which plays a role in electron transfer through the membrane following periplasmic oxidation of hydrogen (resulting in sulfate reduction in the cytoplasm).
Probab=25.52 E-value=32 Score=19.24 Aligned_cols=9 Identities=56% Similarity=1.416 Sum_probs=6.2
Q ss_pred CCccCcccc
Q psy8407 2 KCAQCHTIE 10 (92)
Q Consensus 2 ~C~~CH~~~ 10 (92)
.|..||...
T Consensus 35 ~C~~CH~~~ 43 (85)
T cd08168 35 KCAECHSHD 43 (85)
T ss_pred chhhcCCCC
Confidence 577777665
No 134
>COG5469 Predicted metal-binding protein [Function unknown]
Probab=25.23 E-value=48 Score=21.11 Aligned_cols=20 Identities=20% Similarity=0.564 Sum_probs=13.8
Q ss_pred CCccCccccCCCCCCCCCCcc
Q psy8407 2 KCAQCHTIEAGGAHKVGPNLH 22 (92)
Q Consensus 2 ~C~~CH~~~~~~~~~~GP~L~ 22 (92)
-|.+||.+... ....||..-
T Consensus 22 VCksC~~~~~~-~~~~~p~~G 41 (143)
T COG5469 22 VCKSCRDVSQE-GKENGPSDG 41 (143)
T ss_pred EeccccccccC-CccCCCCcH
Confidence 39999998853 345777644
No 135
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=25.13 E-value=74 Score=16.50 Aligned_cols=18 Identities=28% Similarity=0.632 Sum_probs=12.9
Q ss_pred ccccHHHHHHHHhCCCCC
Q psy8407 46 ITWNKDTLFEYLENPKKY 63 (92)
Q Consensus 46 ~~~~~~~l~~~i~~P~~~ 63 (92)
+..+..-+..||+||..+
T Consensus 30 i~RSr~~Ir~yl~dP~~y 47 (50)
T PF11427_consen 30 IGRSRTCIRRYLKDPVNY 47 (50)
T ss_dssp HT--HHHHHHHHHSCCCT
T ss_pred hCccHHHHHHHhcChhhc
Confidence 456788899999999754
No 136
>PF11165 DUF2949: Protein of unknown function (DUF2949); InterPro: IPR021336 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=24.26 E-value=1.3e+02 Score=16.16 Aligned_cols=40 Identities=15% Similarity=0.190 Sum_probs=25.8
Q ss_pred cHHHHHHHHhCCCCCCCCCCCC--CCCCCCHHHHHHHHHHHh
Q psy8407 49 NKDTLFEYLENPKKYIPGTKMI--FAGIKKPQERGDLIAYLE 88 (92)
Q Consensus 49 ~~~~l~~~i~~P~~~~p~~~Mp--~~~~~~~~d~~~liayL~ 88 (92)
+++.|.-.++..+.....-+|= ..|+++=++++.|.+||.
T Consensus 16 s~~~i~lalr~~~~~~~pLPmiLWqyGLItL~QL~~i~DWl~ 57 (58)
T PF11165_consen 16 SEASIALALRQQEQDQGPLPMILWQYGLITLEQLDQIFDWLE 57 (58)
T ss_pred CHHHHHHHHHhHhccCCCcchHHHHhccccHHHHHHHHHHHh
Confidence 5666776676544321111232 457888999999999985
No 137
>PRK02955 small acid-soluble spore protein SspI; Provisional
Probab=23.92 E-value=1.3e+02 Score=16.69 Aligned_cols=42 Identities=21% Similarity=0.325 Sum_probs=26.0
Q ss_pred ccHHHHHHHHhCCC-----CCCCCCCCC---CCCCCCHHHHHHHHHHHhh
Q psy8407 48 WNKDTLFEYLENPK-----KYIPGTKMI---FAGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 48 ~~~~~l~~~i~~P~-----~~~p~~~Mp---~~~~~~~~d~~~liayL~s 89 (92)
.++++|..+|.|.- ...||---= ++.-.+++|...++..|..
T Consensus 16 ~s~eel~~~I~daIqsgEEk~LPGLGVlFE~~W~~~~~~ek~~m~~~l~~ 65 (68)
T PRK02955 16 NSKEELEGTIVDAIQSGEEKMLPGLGVLFEVIWKNADENEKDEMLETLEQ 65 (68)
T ss_pred CCHHHHHHHHHHHHhccchhcCCcchhHHHHHHHhcCHHHHHHHHHHHHH
Confidence 47788888777532 334541111 2333468999999998865
No 138
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=23.78 E-value=47 Score=16.87 Aligned_cols=13 Identities=23% Similarity=0.381 Sum_probs=9.2
Q ss_pred CCCHHHHHHHHHH
Q psy8407 74 IKKPQERGDLIAY 86 (92)
Q Consensus 74 ~~~~~d~~~liay 86 (92)
+++++|+.+|..|
T Consensus 2 fLT~~El~elTG~ 14 (47)
T PF13986_consen 2 FLTDEELQELTGY 14 (47)
T ss_pred CCCHHHHHHHHCC
Confidence 3568888887655
No 139
>CHL00136 rpl31 ribosomal protein L31; Validated
Probab=23.78 E-value=35 Score=18.92 Aligned_cols=10 Identities=10% Similarity=0.009 Sum_probs=7.7
Q ss_pred CCccCccccC
Q psy8407 2 KCAQCHTIEA 11 (92)
Q Consensus 2 ~C~~CH~~~~ 11 (92)
-|..||-.-.
T Consensus 37 v~s~~HPfyT 46 (68)
T CHL00136 37 IWSGNHPFYT 46 (68)
T ss_pred eCCCCCccCc
Confidence 3899998764
No 140
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=23.70 E-value=82 Score=18.31 Aligned_cols=16 Identities=13% Similarity=0.399 Sum_probs=12.9
Q ss_pred CCCHHHHHHHHHHHhh
Q psy8407 74 IKKPQERGDLIAYLEQ 89 (92)
Q Consensus 74 ~~~~~d~~~liayL~s 89 (92)
+-||+|+++++.|--+
T Consensus 56 VRSDeEm~AMlsyy~~ 71 (91)
T cd06395 56 VRSDEEMKAMLSYYCS 71 (91)
T ss_pred ecchHHHHHHHHHHHH
Confidence 4579999999998654
No 141
>PF09256 BaffR-Tall_bind: BAFF-R, TALL-1 binding; InterPro: IPR015336 Cytokines can be grouped into a family on the basis of sequence, functional and structural similarities [, , ]. Tumor necrosis factor (TNF) (also known as TNF-alpha or cachectin) is a monocyte-derived cytotoxin that has been implicated in tumour regression, septic shock and cachexia [, ]. The protein is synthesised as a prohormone with an unusually long and atypical signal sequence, which is absent from the mature secreted cytokine []. A short hydrophobic stretch of amino acids serves to anchor the prohormone in lipid bilayers []. Both the mature protein and a partially-processed form of the hormone are secreted after cleavage of the propeptide []. There are a number of different families of TNF, but all these cytokines seem to form homotrimeric (or heterotrimeric in the case of LT-alpha/beta) complexes that are recognised by their specific receptors. The domain represented by this entry is predominantly found in the tumour necrosis factor receptor superfamily member 13c, BAFF-R and is required for binding to tumour necrosis factor ligand TALL-1 []. ; PDB: 1P0T_c 2HFG_R 1OSX_A 1OQE_N.
Probab=23.40 E-value=17 Score=17.04 Aligned_cols=10 Identities=20% Similarity=0.803 Sum_probs=7.4
Q ss_pred CCCccCcccc
Q psy8407 1 MKCAQCHTIE 10 (92)
Q Consensus 1 ~~C~~CH~~~ 10 (92)
++|.+|+-+.
T Consensus 15 R~CV~C~Ll~ 24 (31)
T PF09256_consen 15 RHCVACELLR 24 (31)
T ss_dssp TEEEEGGGSS
T ss_pred hcceeeeeec
Confidence 5788897665
No 142
>PF10955 DUF2757: Protein of unknown function (DUF2757); InterPro: IPR020115 This entry contains proteins with no known function.
Probab=23.30 E-value=25 Score=20.00 Aligned_cols=16 Identities=44% Similarity=0.847 Sum_probs=11.8
Q ss_pred CCCCCCHHHHHHHHHHH
Q psy8407 71 FAGIKKPQERGDLIAYL 87 (92)
Q Consensus 71 ~~~~~~~~d~~~liayL 87 (92)
|..| +++|+.+||.|=
T Consensus 29 f~~L-t~eEr~dmI~~~ 44 (76)
T PF10955_consen 29 FHHL-TPEERQDMISYD 44 (76)
T ss_pred cccC-CHHHHhhheEEc
Confidence 4444 599999998873
No 143
>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]
Probab=23.21 E-value=88 Score=21.86 Aligned_cols=21 Identities=24% Similarity=0.461 Sum_probs=17.2
Q ss_pred CCCCCCCHHHHHHHHHHHhhcc
Q psy8407 70 IFAGIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 70 p~~~~~~~~d~~~liayL~sl~ 91 (92)
|..|+. ++|.++|++.|+.++
T Consensus 176 PaAGln-~~e~~~l~~~i~~i~ 196 (250)
T COG0411 176 PAAGLN-PEETEELAELIRELR 196 (250)
T ss_pred ccCCCC-HHHHHHHHHHHHHHH
Confidence 456776 899999999998875
No 144
>PF14098 SSPI: Small, acid-soluble spore protein I
Probab=23.10 E-value=98 Score=17.08 Aligned_cols=41 Identities=24% Similarity=0.441 Sum_probs=25.1
Q ss_pred cHHHHHHHHhCC-----CCCCCCCCCC---CCCCCCHHHHHHHHHHHhh
Q psy8407 49 NKDTLFEYLENP-----KKYIPGTKMI---FAGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 49 ~~~~l~~~i~~P-----~~~~p~~~Mp---~~~~~~~~d~~~liayL~s 89 (92)
+.++|..+|.+. ....||---= ++.-+++++...++.+|..
T Consensus 15 s~~el~~~I~daI~sgEE~~LPGLGVlFE~~W~~~~~~ek~~m~~~l~~ 63 (65)
T PF14098_consen 15 SKEELKDTIEDAIQSGEEKALPGLGVLFEVIWKNSDESEKQEMVNTLEQ 63 (65)
T ss_pred CHHHHHHHHHHHHhccchhcCCchHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence 677787777753 2334541100 2233469999999998864
No 145
>TIGR03092 SASP_sspI small, acid-soluble spore protein I. This protein family is restricted to a subset of endospore-forming bacteria such as Bacillus subtilis, all of which are in the Firmicutes (low-GC Gram-positive) lineage. It is a minor SASP (small, acid-soluble spore protein) designated SspI. The gene in Bacillus subtilis previously was designated ysfA.
Probab=23.05 E-value=88 Score=17.27 Aligned_cols=42 Identities=24% Similarity=0.323 Sum_probs=25.8
Q ss_pred ccHHHHHHHHhCCC-----CCCCCCC--C-CCCCCCCHHHHHHHHHHHhh
Q psy8407 48 WNKDTLFEYLENPK-----KYIPGTK--M-IFAGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 48 ~~~~~l~~~i~~P~-----~~~p~~~--M-p~~~~~~~~d~~~liayL~s 89 (92)
.+.++|..+|.|.- ...||-- + -++.-++++|-+.++..|..
T Consensus 13 ~s~~elk~~I~daI~sgEEk~LPGLGVlFE~~W~~~~~~ek~~m~~~l~~ 62 (65)
T TIGR03092 13 NTKEQLEATIVDAIQSGEEKMLPGLGVLFEAIWKHANEQEKDEMLETLEQ 62 (65)
T ss_pred CCHHHHHHHHHHHHhccchhcCCccHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence 46788888887632 2344411 1 02333468999999998865
No 146
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=22.96 E-value=35 Score=17.97 Aligned_cols=10 Identities=20% Similarity=0.727 Sum_probs=8.4
Q ss_pred CccCccccCC
Q psy8407 3 CAQCHTIEAG 12 (92)
Q Consensus 3 C~~CH~~~~~ 12 (92)
|..||+.+|.
T Consensus 25 C~~C~~hNGl 34 (54)
T PF10058_consen 25 CSKCFSHNGL 34 (54)
T ss_pred Ccccchhhcc
Confidence 8999999863
No 147
>PRK05867 short chain dehydrogenase; Provisional
Probab=22.85 E-value=96 Score=20.40 Aligned_cols=18 Identities=28% Similarity=0.543 Sum_probs=14.9
Q ss_pred CCCCCHHHHHHHHHHHhh
Q psy8407 72 AGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 72 ~~~~~~~d~~~liayL~s 89 (92)
..+.+++|+.+.+.||.+
T Consensus 216 ~r~~~p~~va~~~~~L~s 233 (253)
T PRK05867 216 GRLGRPEELAGLYLYLAS 233 (253)
T ss_pred CCCcCHHHHHHHHHHHcC
Confidence 345679999999999976
No 148
>PF15614 WHIM3: WSTF, HB1, Itc1p, MBD9 motif 3
Probab=22.85 E-value=1e+02 Score=15.80 Aligned_cols=13 Identities=31% Similarity=0.583 Sum_probs=10.9
Q ss_pred CCHHHHHHHHHHH
Q psy8407 75 KKPQERGDLIAYL 87 (92)
Q Consensus 75 ~~~~d~~~liayL 87 (92)
.+++|+++|+..|
T Consensus 5 ~~~e~ld~L~~aL 17 (46)
T PF15614_consen 5 DDPEELDELLKAL 17 (46)
T ss_pred cCHHHHHHHHHHH
Confidence 4589999999888
No 149
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=22.84 E-value=36 Score=16.47 Aligned_cols=7 Identities=43% Similarity=1.189 Sum_probs=3.8
Q ss_pred CccCccc
Q psy8407 3 CAQCHTI 9 (92)
Q Consensus 3 C~~CH~~ 9 (92)
|.+||++
T Consensus 22 C~~C~G~ 28 (41)
T PF13453_consen 22 CPSCGGI 28 (41)
T ss_pred CCCCCeE
Confidence 5555554
No 150
>PRK00019 rpmE 50S ribosomal protein L31; Reviewed
Probab=22.47 E-value=38 Score=18.98 Aligned_cols=9 Identities=33% Similarity=1.132 Sum_probs=7.3
Q ss_pred CccCccccC
Q psy8407 3 CAQCHTIEA 11 (92)
Q Consensus 3 C~~CH~~~~ 11 (92)
|..||-.-.
T Consensus 38 ~s~~HPFyT 46 (72)
T PRK00019 38 CSKCHPFYT 46 (72)
T ss_pred CCCCCCcCc
Confidence 899998764
No 151
>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=22.25 E-value=99 Score=19.03 Aligned_cols=16 Identities=25% Similarity=0.559 Sum_probs=12.6
Q ss_pred CCHHHHHHHHHHHhhc
Q psy8407 75 KKPQERGDLIAYLEQA 90 (92)
Q Consensus 75 ~~~~d~~~liayL~sl 90 (92)
+++++...|.+||.+-
T Consensus 39 Ld~~~~~~I~~YL~~n 54 (120)
T PF09626_consen 39 LDPATQAEIWAYLQAN 54 (120)
T ss_dssp --HHHHHHHHHHHHHT
T ss_pred CCHHHHHHHHHHHHHc
Confidence 4599999999999864
No 152
>KOG2112|consensus
Probab=21.98 E-value=90 Score=21.17 Aligned_cols=26 Identities=27% Similarity=0.372 Sum_probs=19.8
Q ss_pred CCCCCCCC---CCCHHHHHHHHHHHhhcc
Q psy8407 66 GTKMIFAG---IKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 66 ~~~Mp~~~---~~~~~d~~~liayL~sl~ 91 (92)
.+.|||.+ -+..+|+++|..||.++.
T Consensus 177 ~~f~~y~g~~h~~~~~e~~~~~~~~~~l~ 205 (206)
T KOG2112|consen 177 VTFKPYPGLGHSTSPQELDDLKSWIKTLE 205 (206)
T ss_pred eeeeecCCccccccHHHHHHHHHHHHHhc
Confidence 45677765 346999999999998853
No 153
>PF14982 UPF0731: UPF0731 family
Probab=21.59 E-value=41 Score=18.88 Aligned_cols=10 Identities=20% Similarity=0.670 Sum_probs=7.7
Q ss_pred CCCccCcccc
Q psy8407 1 MKCAQCHTIE 10 (92)
Q Consensus 1 ~~C~~CH~~~ 10 (92)
+.|-+||-+.
T Consensus 44 rRCpgsHCLT 53 (79)
T PF14982_consen 44 RRCPGSHCLT 53 (79)
T ss_pred ccCCCcceeE
Confidence 4699999765
No 154
>PF02335 Cytochrom_C552: Cytochrome c552; InterPro: IPR003321 The enzyme cytochrome c nitrite reductase (c552) catalyses the six-electron reduction of nitrite to ammonia as one of the key steps in the biological nitrogen cycle, where it participates in the anaerobic energy metabolism of dissimilatory nitrate ammonification. Cytochrome c nitrite reductase from Sulfurospirillum deleyianum is a functional dimer, with 10 close-packed haem groups of type c and an unusual lysine-coordinated high-spin haem at the active site [].; GO: 0006807 nitrogen compound metabolic process, 0055114 oxidation-reduction process; PDB: 1QDB_B 3TTB_B 3BNJ_A 3BNG_A 1FS8_A 2E80_A 3BNH_A 1FS7_A 2E81_A 3BNF_A ....
Probab=21.50 E-value=33 Score=25.80 Aligned_cols=7 Identities=43% Similarity=1.445 Sum_probs=6.3
Q ss_pred CCccCcc
Q psy8407 2 KCAQCHT 8 (92)
Q Consensus 2 ~C~~CH~ 8 (92)
.|..||+
T Consensus 274 sC~~CH~ 280 (434)
T PF02335_consen 274 SCQTCHS 280 (434)
T ss_dssp CTTTTST
T ss_pred HHhhhcC
Confidence 5999998
No 155
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=21.37 E-value=62 Score=21.10 Aligned_cols=12 Identities=25% Similarity=0.523 Sum_probs=10.7
Q ss_pred HHHHHHHHhhcc
Q psy8407 80 RGDLIAYLEQAS 91 (92)
Q Consensus 80 ~~~liayL~sl~ 91 (92)
+++||+||.+++
T Consensus 82 l~~vI~fLq~l~ 93 (161)
T TIGR02894 82 LQDVISFLQNLK 93 (161)
T ss_pred HHHHHHHHHHHH
Confidence 999999999875
No 156
>PF07102 DUF1364: Protein of unknown function (DUF1364); InterPro: IPR010774 This entry is represented by Bacteriophage 82, YbcO. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several bacterial and phage proteins of around 95 residues in length. The function of this family is unknown.; PDB: 3G27_A.
Probab=21.36 E-value=15 Score=21.72 Aligned_cols=10 Identities=30% Similarity=0.793 Sum_probs=6.7
Q ss_pred CCccCccccC
Q psy8407 2 KCAQCHTIEA 11 (92)
Q Consensus 2 ~C~~CH~~~~ 11 (92)
.|.+||..-.
T Consensus 53 aCs~CHd~iD 62 (94)
T PF07102_consen 53 ACSACHDEID 62 (94)
T ss_dssp E-HHHHHHHT
T ss_pred hHHHHHHHHh
Confidence 4999997654
No 157
>TIGR03152 cyto_c552_HCOOH formate-dependent cytochrome c nitrite reductase, c552 subunit. Members of this protein family are cytochrome c552, a component of cytochrome c nitrite reductase, which is known more formally as nitrite reductase (cytochrome; ammonia-forming) (EC 1.7.2.2). Nitrate can be reduced by several enzymes. EC 1.7.2.2 reduces nitrite all the way to ammonia, rather than to ammonium hydroxide (nitrite reductase (NAD(P)H), EC 1.7.1.4) or nitric oxide (nitrite reductase (NO-forming), EC 1.7.2.1). Some examples of EC 1.7.2.2 occur in a seven gene system that enables formate-dependent nitrite reduction, but is also found in simpler contexts. Members of this protein family, however, belong to the formate-dependent system.
Probab=20.99 E-value=48 Score=25.01 Aligned_cols=10 Identities=40% Similarity=1.052 Sum_probs=8.2
Q ss_pred CCccCccccC
Q psy8407 2 KCAQCHTIEA 11 (92)
Q Consensus 2 ~C~~CH~~~~ 11 (92)
.|+.||....
T Consensus 122 gCadCHd~es 131 (439)
T TIGR03152 122 GCADCHDTTS 131 (439)
T ss_pred ChhhcCCCcc
Confidence 6999998774
No 158
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=20.80 E-value=1.3e+02 Score=15.61 Aligned_cols=14 Identities=14% Similarity=0.287 Sum_probs=10.1
Q ss_pred CCCCHHHHHHHHHHH
Q psy8407 73 GIKKPQERGDLIAYL 87 (92)
Q Consensus 73 ~~~~~~d~~~liayL 87 (92)
+. ++++.++|++=|
T Consensus 11 Gr-s~EqK~~L~~~i 24 (60)
T PRK02289 11 GR-SQEQKNALAREV 24 (60)
T ss_pred CC-CHHHHHHHHHHH
Confidence 44 589988887654
No 159
>PF05927 Penaeidin: Penaeidin; InterPro: IPR009226 This family consists of several isoforms of the penaeidin protein, which is specific to shrimps. Penaeidins, a unique family of antimicrobial peptides (AMPs) with both proline and cysteine-rich domains, were initially identified in the hemolymph of the Pacific white shrimp, Penaeus vannamei [].; GO: 0008061 chitin binding, 0005737 cytoplasm; PDB: 1UEO_A 1XV3_A.
Probab=20.64 E-value=49 Score=18.49 Aligned_cols=9 Identities=33% Similarity=0.851 Sum_probs=6.6
Q ss_pred CCccCcccc
Q psy8407 2 KCAQCHTIE 10 (92)
Q Consensus 2 ~C~~CH~~~ 10 (92)
.|.+||.+.
T Consensus 45 ~C~sC~~i~ 53 (73)
T PF05927_consen 45 VCNSCYRIS 53 (73)
T ss_dssp STTTTTTS-
T ss_pred ccccccccC
Confidence 588999876
No 160
>KOG3309|consensus
Probab=20.63 E-value=32 Score=22.34 Aligned_cols=10 Identities=40% Similarity=1.049 Sum_probs=7.8
Q ss_pred CCccCccccC
Q psy8407 2 KCAQCHTIEA 11 (92)
Q Consensus 2 ~C~~CH~~~~ 11 (92)
.|..||.+=.
T Consensus 86 ACSTCHViv~ 95 (159)
T KOG3309|consen 86 ACSTCHVIVD 95 (159)
T ss_pred cccceEEEEc
Confidence 4999998753
No 161
>PRK06997 enoyl-(acyl carrier protein) reductase; Provisional
Probab=20.51 E-value=1.1e+02 Score=20.47 Aligned_cols=21 Identities=19% Similarity=0.200 Sum_probs=15.9
Q ss_pred CCCCCCCHHHHHHHHHHHhhc
Q psy8407 70 IFAGIKKPQERGDLIAYLEQA 90 (92)
Q Consensus 70 p~~~~~~~~d~~~liayL~sl 90 (92)
|...+.+++|+.+.+.||.+-
T Consensus 215 p~~r~~~pedva~~~~~l~s~ 235 (260)
T PRK06997 215 PLRRNVTIEEVGNVAAFLLSD 235 (260)
T ss_pred cccccCCHHHHHHHHHHHhCc
Confidence 444455699999999999763
No 162
>PRK11702 hypothetical protein; Provisional
Probab=20.45 E-value=1.3e+02 Score=18.34 Aligned_cols=17 Identities=24% Similarity=0.288 Sum_probs=14.3
Q ss_pred CCCCHHHHHHHHHHHhh
Q psy8407 73 GIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 73 ~~~~~~d~~~liayL~s 89 (92)
+-.+++++..|.+||+.
T Consensus 75 gs~tEe~R~~V~~WL~~ 91 (108)
T PRK11702 75 GKCTEEHRALVKKWLEG 91 (108)
T ss_pred CCCCHHHHHHHHHHHHh
Confidence 44569999999999985
No 163
>PF01645 Glu_synthase: Conserved region in glutamate synthase; InterPro: IPR002932 Ferredoxin-dependent glutamate synthases have been implicated in a number of functions including photorespiration in Arabidopsis where they may also play a role in primary nitrogen assimilation in roots []. This region is expressed as a seperate subunit in the glutamate synthase alpha subunit from archaebacteria, or part of a large multidomain enzyme in other organisms. The aligned region of these proteins contains a putative FMN binding site and Fe-S cluster.; GO: 0015930 glutamate synthase activity, 0016638 oxidoreductase activity, acting on the CH-NH2 group of donors, 0006537 glutamate biosynthetic process, 0055114 oxidation-reduction process; PDB: 1EA0_A 2VDC_E 1OFE_A 1LLW_A 1OFD_A 1LLZ_A 1LM1_A.
Probab=20.27 E-value=1.7e+02 Score=21.61 Aligned_cols=22 Identities=18% Similarity=0.164 Sum_probs=16.8
Q ss_pred CCCCCCCHHHHHHHHHHHhhcc
Q psy8407 70 IFAGIKKPQERGDLIAYLEQAS 91 (92)
Q Consensus 70 p~~~~~~~~d~~~liayL~sl~ 91 (92)
|+.++.+.+|+.++|..|+++.
T Consensus 180 ~h~di~s~edl~~~I~~Lr~~~ 201 (368)
T PF01645_consen 180 PHHDIYSIEDLAQLIEELRELN 201 (368)
T ss_dssp S-TT-SSHHHHHHHHHHHHHH-
T ss_pred CCCCcCCHHHHHHHHHHHHhhC
Confidence 4667888999999999999875
No 164
>PF07845 DUF1636: Protein of unknown function (DUF1636); InterPro: IPR012863 The sequences featured in this family are derived from a number of hypothetical prokaryotic proteins. The region in question is approximately 130 amino acids long.
Probab=20.16 E-value=52 Score=20.11 Aligned_cols=19 Identities=16% Similarity=0.485 Sum_probs=14.4
Q ss_pred CCCCCCHHHHHHHHHHHhh
Q psy8407 71 FAGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 71 ~~~~~~~~d~~~liayL~s 89 (92)
|..+..++++++|++|.+.
T Consensus 70 fGdl~p~~~a~~il~~a~~ 88 (116)
T PF07845_consen 70 FGDLDPDEDAEDILAFAAL 88 (116)
T ss_pred EecCCcccCHHHHHHHHHH
Confidence 4456655999999999864
No 165
>PRK12481 2-deoxy-D-gluconate 3-dehydrogenase; Provisional
Probab=20.12 E-value=1.3e+02 Score=19.96 Aligned_cols=20 Identities=10% Similarity=0.129 Sum_probs=15.4
Q ss_pred CCCCCCCHHHHHHHHHHHhh
Q psy8407 70 IFAGIKKPQERGDLIAYLEQ 89 (92)
Q Consensus 70 p~~~~~~~~d~~~liayL~s 89 (92)
|...+.+++|+.+.+.||.+
T Consensus 212 p~~~~~~peeva~~~~~L~s 231 (251)
T PRK12481 212 PASRWGTPDDLAGPAIFLSS 231 (251)
T ss_pred CCCCCcCHHHHHHHHHHHhC
Confidence 33345569999999999976
No 166
>PF14053 DUF4248: Domain of unknown function (DUF4248)
Probab=20.07 E-value=96 Score=17.12 Aligned_cols=38 Identities=11% Similarity=0.124 Sum_probs=23.2
Q ss_pred HHHHHHHhCCCCCC----CCCCCCCCCCCCHHHHHHHHHHHh
Q psy8407 51 DTLFEYLENPKKYI----PGTKMIFAGIKKPQERGDLIAYLE 88 (92)
Q Consensus 51 ~~l~~~i~~P~~~~----p~~~Mp~~~~~~~~d~~~liayL~ 88 (92)
..|.+||+.-.... ...--+.....++.|++-|+.||-
T Consensus 26 r~L~rwI~~~~~L~~~L~~~Gy~~~~r~~TP~QV~lIv~~LG 67 (69)
T PF14053_consen 26 RKLRRWIRRNPELLEELEATGYHPRQRSFTPRQVRLIVRYLG 67 (69)
T ss_pred HHHHHHHHHCHHHHHHHHHcCCCCCCEecCHHHHHHHHHHcC
Confidence 46788887422211 111224445567999999999984
Done!