Query 033761
Match_columns 112
No_of_seqs 116 out of 1077
Neff 9.1
Searched_HMMs 46136
Date Fri Mar 29 06:00:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033761.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033761hhsearch_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 2.4E-31 5.2E-36 163.4 10.2 108 5-112 7-114 (114)
2 COG3474 Cytochrome c2 [Energy 100.0 4.4E-29 9.5E-34 153.7 8.9 102 9-111 28-131 (135)
3 PTZ00048 cytochrome c; Provisi 100.0 2.7E-28 5.8E-33 150.3 10.5 105 7-112 10-114 (115)
4 KOG3453 Cytochrome c [Energy p 99.7 1.7E-18 3.7E-23 103.7 4.7 104 7-110 4-107 (110)
5 TIGR03872 cytochrome_MoxG cyto 99.7 5E-17 1.1E-21 102.4 7.9 82 9-112 41-123 (133)
6 TIGR02603 CxxCH_TIGR02603 puta 99.7 2.8E-16 6E-21 99.2 6.8 35 10-45 1-35 (133)
7 PRK13617 psbV cytochrome c-550 99.7 2.8E-16 6E-21 101.6 6.6 88 9-112 56-157 (170)
8 PF00034 Cytochrom_C: Cytochro 99.6 4E-18 8.8E-23 99.5 -3.4 80 12-111 1-91 (91)
9 CHL00183 petJ cytochrome c553; 99.6 8.3E-16 1.8E-20 93.8 6.5 84 7-111 21-104 (108)
10 PF13442 Cytochrome_CBB3: Cyto 99.6 3.8E-16 8.2E-21 87.6 4.1 67 10-107 1-67 (67)
11 CHL00133 psbV photosystem II c 99.6 1.9E-15 4.2E-20 97.5 7.0 88 8-111 48-149 (163)
12 TIGR03045 PS_II_C550 cytochrom 99.6 2.5E-15 5.4E-20 96.8 7.1 89 8-112 47-149 (159)
13 PRK13618 psbV cytochrome c-550 99.6 5.3E-15 1.2E-19 95.5 7.7 90 8-112 48-150 (163)
14 TIGR03046 PS_II_psbV2 photosys 99.6 1.4E-15 2.9E-20 97.3 4.9 88 9-111 52-144 (155)
15 PRK13621 psbV cytochrome c-550 99.6 2E-15 4.3E-20 97.4 5.2 89 8-111 62-155 (170)
16 PRK13620 psbV cytochrome c-550 99.6 1.7E-14 3.6E-19 95.4 7.6 88 8-112 100-202 (215)
17 PRK13697 cytochrome c6; Provis 99.6 1.4E-14 2.9E-19 88.7 6.7 82 9-111 25-106 (111)
18 TIGR00782 ccoP cytochrome c ox 99.6 2.1E-14 4.6E-19 100.8 8.5 83 9-112 200-283 (285)
19 PRK14487 cbb3-type cytochrome 99.6 1.2E-14 2.6E-19 97.0 6.5 83 9-111 48-159 (217)
20 COG2863 Cytochrome c553 [Energ 99.6 4.6E-15 1E-19 91.2 4.1 80 8-111 20-101 (121)
21 TIGR03874 4cys_cytochr c-type 99.6 1.9E-14 4.2E-19 91.1 7.0 79 11-110 32-115 (143)
22 PRK13619 psbV cytochrome c-550 99.5 6.2E-14 1.4E-18 89.2 5.8 89 8-111 47-148 (160)
23 TIGR00782 ccoP cytochrome c ox 99.5 2.3E-13 5E-18 95.6 8.0 81 12-111 107-193 (285)
24 PRK14486 putative bifunctional 99.5 3.9E-13 8.4E-18 94.6 8.3 80 9-111 212-291 (294)
25 PRK13622 psbV cytochrome c-550 99.4 3.5E-12 7.6E-17 83.4 7.2 91 6-111 56-159 (180)
26 COG3258 Cytochrome c [Energy p 99.4 3.4E-12 7.3E-17 87.2 7.1 84 7-112 157-253 (293)
27 TIGR00781 ccoO cytochrome c ox 99.3 8.8E-12 1.9E-16 83.9 6.3 82 9-110 47-157 (232)
28 COG2010 CccA Cytochrome c, mon 99.3 3.8E-12 8.3E-17 81.2 4.4 21 10-30 49-69 (150)
29 PRK14486 putative bifunctional 99.3 1E-11 2.2E-16 87.5 6.6 102 9-111 48-187 (294)
30 PF14495 Cytochrom_C550: Cytoc 99.3 3.8E-12 8.2E-17 78.7 2.7 87 9-110 22-121 (135)
31 COG4654 Cytochrome c551/c552 [ 99.0 6.3E-10 1.4E-14 65.9 4.2 83 9-109 20-104 (110)
32 TIGR03791 TTQ_mauG tryptophan 98.9 7.9E-09 1.7E-13 72.9 8.2 105 7-111 154-279 (291)
33 PF02433 FixO: Cytochrome C ox 98.8 1.6E-08 3.4E-13 68.3 5.1 102 9-110 47-157 (226)
34 PRK14485 putative bifunctional 98.5 6.2E-07 1.3E-11 69.8 7.3 102 9-110 534-647 (712)
35 COG2857 CYT1 Cytochrome c1 [En 98.3 2.6E-06 5.6E-11 59.1 5.8 42 70-111 172-213 (250)
36 PF09098 Dehyd-heme_bind: Quin 98.1 1.5E-06 3.3E-11 56.0 2.0 20 13-32 1-20 (167)
37 COG3245 CycB Cytochrome c5 [En 97.9 2.8E-05 6.2E-10 47.5 4.5 75 14-111 49-125 (126)
38 COG2993 CcoO Cbb3-type cytochr 97.8 6.6E-06 1.4E-10 54.6 1.1 100 10-110 50-159 (227)
39 PF06537 DUF1111: Protein of u 97.8 2E-05 4.4E-10 59.1 2.9 22 9-30 360-382 (499)
40 PF09086 DUF1924: Domain of un 97.8 2.2E-05 4.8E-10 46.4 2.5 27 5-31 4-39 (98)
41 PF02167 Cytochrom_C1: Cytochr 97.7 1.5E-05 3.2E-10 54.2 1.3 25 6-30 9-33 (219)
42 TIGR03806 chp_HNE_0200 conserv 97.3 0.00082 1.8E-08 48.2 6.0 21 12-32 213-233 (317)
43 COG3748 Predicted membrane pro 97.2 0.0015 3.3E-08 46.8 6.2 24 87-110 378-403 (407)
44 PF14376 Haem_bd: Haem-binding 97.1 0.0024 5.3E-08 40.5 6.3 97 9-110 30-136 (137)
45 PF10643 Cytochrome-c551: Phot 97.1 0.00047 1E-08 46.2 2.5 22 9-30 166-187 (233)
46 COG1858 MauG Cytochrome c pero 96.9 0.0043 9.3E-08 45.2 6.8 26 5-30 213-240 (364)
47 KOG3052 Cytochrome c1 [Energy 96.7 0.00037 8E-09 48.2 0.0 25 6-30 89-113 (311)
48 TIGR02162 torC trimethylamine- 96.7 0.0024 5.2E-08 47.0 4.1 17 13-29 322-338 (386)
49 COG3258 Cytochrome c [Energy p 96.6 0.0071 1.5E-07 42.1 5.3 16 96-111 121-136 (293)
50 PRK15032 trimethylamine N-oxid 96.3 0.0063 1.4E-07 44.9 3.9 17 13-29 319-335 (390)
51 PF09626 DHC: Dihaem cytochrom 95.6 0.02 4.4E-07 35.5 3.4 11 19-29 1-11 (120)
52 COG3488 Predicted thiol oxidor 94.6 0.022 4.8E-07 41.2 1.8 22 9-30 348-370 (481)
53 PF03150 CCP_MauG: Di-haem cyt 94.0 0.01 2.2E-07 38.6 -0.8 21 10-30 3-32 (159)
54 TIGR03791 TTQ_mauG tryptophan 91.6 0.081 1.8E-06 37.7 0.9 22 10-31 4-34 (291)
55 COG2857 CYT1 Cytochrome c1 [En 90.5 0.047 1E-06 38.0 -1.0 24 8-31 39-62 (250)
56 PF07635 PSCyt1: Planctomycete 90.3 0.17 3.7E-06 27.2 1.3 9 23-31 1-9 (59)
57 COG1858 MauG Cytochrome c pero 83.3 0.59 1.3E-05 34.3 1.1 22 10-31 60-90 (364)
58 PF06537 DUF1111: Protein of u 82.0 0.8 1.7E-05 35.1 1.4 18 18-35 66-84 (499)
59 PF09832 DUF2059: Uncharacteri 79.6 1.8 3.8E-05 23.4 1.9 16 94-109 16-31 (64)
60 PF08090 Enterotoxin_HS1: Heat 78.9 1.3 2.8E-05 20.8 1.1 10 21-30 20-29 (36)
61 TIGR03806 chp_HNE_0200 conserv 76.9 3.1 6.7E-05 30.1 3.0 23 22-45 145-167 (317)
62 COG3043 NapB Nitrate reductase 75.5 1.8 4E-05 27.8 1.4 10 23-32 129-138 (155)
63 PF07583 PSCyt2: Protein of un 74.6 1.4 3.1E-05 29.9 0.8 14 15-28 166-182 (208)
64 PRK11586 napB nitrate reductas 73.6 2.4 5.3E-05 27.2 1.6 11 22-32 122-132 (149)
65 TIGR03153 cytochr_NrfH cytochr 73.2 1.2 2.7E-05 28.0 0.2 16 14-29 96-111 (135)
66 TIGR01905 paired_CXXCH_1 doubl 69.7 1.9 4.1E-05 21.5 0.4 11 21-31 7-17 (41)
67 PF03892 NapB: Nitrate reducta 68.6 2.3 4.9E-05 26.9 0.7 11 22-32 111-121 (133)
68 COG3488 Predicted thiol oxidor 67.6 2.4 5.1E-05 31.1 0.7 28 8-35 82-111 (481)
69 PF07627 PSCyt3: Protein of un 64.4 1.3 2.8E-05 26.7 -1.0 7 22-28 71-77 (101)
70 PF11845 DUF3365: Protein of u 64.3 1.9 4E-05 28.3 -0.4 8 21-28 147-154 (188)
71 PF09722 DUF2384: Protein of u 61.0 8.1 0.00017 20.0 1.8 42 69-111 10-51 (54)
72 PF09699 Paired_CXXCH_1: Doubl 60.1 2.7 5.8E-05 20.6 -0.1 10 22-31 8-17 (41)
73 PF06943 zf-LSD1: LSD1 zinc fi 59.6 4.6 0.0001 17.9 0.6 8 22-29 18-25 (25)
74 TIGR01904 GSu_C4xC__C2xCH Geob 58.4 4.3 9.2E-05 20.4 0.4 6 22-27 37-42 (42)
75 PF13822 ACC_epsilon: Acyl-CoA 55.2 18 0.0004 19.5 2.7 18 94-111 10-27 (62)
76 PHA02119 hypothetical protein 55.2 8.8 0.00019 21.5 1.4 10 101-110 57-66 (87)
77 PF12162 STAT1_TAZ2bind: STAT1 54.9 18 0.00038 15.7 2.0 18 86-107 5-22 (23)
78 PF13986 DUF4224: Domain of un 53.3 8.6 0.00019 19.7 1.1 14 94-107 2-15 (47)
79 COG3005 TorC Nitrate/TMAO redu 50.3 6.2 0.00014 26.4 0.3 16 16-31 130-145 (190)
80 TIGR01053 LSD1 zinc finger dom 50.1 6.6 0.00014 18.3 0.3 9 22-30 21-29 (31)
81 PF11256 DUF3055: Protein of u 47.5 22 0.00047 20.6 2.2 16 95-110 66-81 (81)
82 CHL00037 petA cytochrome f 45.3 7.1 0.00015 28.1 0.0 7 22-28 55-61 (320)
83 PHA02902 putative IMV membrane 44.4 27 0.00058 19.3 2.2 20 90-109 49-68 (70)
84 cd07321 Extradiol_Dioxygenase_ 44.3 12 0.00025 21.3 0.8 31 69-105 15-45 (77)
85 PRK02693 apocytochrome f; Revi 44.2 7.6 0.00016 27.7 0.0 7 22-28 48-54 (312)
86 COG3303 NrfA Formate-dependent 43.9 6.8 0.00015 29.3 -0.2 17 14-30 324-340 (501)
87 PF13435 Cytochrome_C554: Cyto 42.7 12 0.00026 22.1 0.7 10 21-30 49-58 (130)
88 TIGR02826 RNR_activ_nrdG3 anae 41.7 65 0.0014 20.5 4.0 9 22-30 28-36 (147)
89 PF14522 Cytochrome_C7: Cytoch 41.7 11 0.00023 20.0 0.3 8 22-29 14-21 (65)
90 PF07128 DUF1380: Protein of u 40.4 56 0.0012 20.9 3.5 36 64-110 23-58 (139)
91 COG5204 SPT4 Transcription elo 39.9 47 0.001 19.9 2.9 35 69-104 62-97 (112)
92 cd07922 CarBa CarBa is the A s 39.6 16 0.00035 21.1 0.9 30 69-104 16-45 (81)
93 PF06883 RNA_pol_Rpa2_4: RNA p 38.7 34 0.00075 18.3 2.1 18 94-111 3-20 (58)
94 PF10058 DUF2296: Predicted in 37.9 13 0.00029 19.6 0.4 11 22-32 24-34 (54)
95 PF11829 DUF3349: Protein of u 37.8 45 0.00097 19.9 2.6 17 92-108 33-49 (96)
96 PF13453 zf-TFIIB: Transcripti 36.7 14 0.0003 18.0 0.3 8 22-29 21-28 (41)
97 PHA02681 ORF089 virion membran 36.5 37 0.00079 19.7 2.0 19 91-109 48-66 (92)
98 PF15161 Neuropep_like: Neurop 35.8 11 0.00024 20.2 -0.2 8 22-29 15-22 (65)
99 PF10955 DUF2757: Protein of u 35.8 10 0.00022 21.6 -0.3 13 94-106 31-43 (76)
100 PF02304 Phage_B: Scaffold pro 35.3 24 0.00053 21.4 1.2 19 10-28 62-82 (117)
101 COG0099 RpsM Ribosomal protein 34.8 47 0.001 20.7 2.4 16 93-108 46-61 (121)
102 TIGR02251 HIF-SF_euk Dullard-l 34.8 52 0.0011 21.1 2.8 23 90-112 137-159 (162)
103 PHA00003 B internal scaffoldin 34.4 30 0.00066 21.1 1.5 19 10-28 65-85 (120)
104 cd06395 PB1_Map2k5 PB1 domain 34.2 43 0.00092 19.4 2.0 14 96-109 58-71 (91)
105 PF14537 Cytochrom_c3_2: Cytoc 34.2 15 0.00032 20.1 0.2 8 22-29 8-15 (80)
106 cd07921 PCA_45_Doxase_A_like S 33.9 24 0.00052 21.5 1.0 31 69-105 25-55 (106)
107 PF04320 DUF469: Protein with 33.2 60 0.0013 19.6 2.7 19 93-111 68-86 (101)
108 PF07295 DUF1451: Protein of u 32.1 47 0.001 21.3 2.2 17 93-109 31-47 (146)
109 cd04860 AE_Prim_S AE_Prim_S: p 31.9 46 0.001 23.0 2.3 17 94-110 150-166 (232)
110 PF13821 DUF4187: Domain of un 31.6 43 0.00093 17.7 1.7 14 96-109 12-25 (55)
111 PF06677 Auto_anti-p27: Sjogre 31.6 41 0.00088 16.7 1.5 17 12-28 9-25 (41)
112 PRK11659 cytochrome c nitrite 31.5 14 0.00031 24.5 -0.2 10 22-31 134-143 (183)
113 PF04674 Phi_1: Phosphate-indu 31.3 45 0.00097 23.8 2.2 21 91-111 19-39 (273)
114 PF14769 CLAMP: Flagellar C1a 30.6 63 0.0014 19.0 2.5 17 93-109 62-78 (101)
115 KOG1605 TFIIF-interacting CTD 30.4 94 0.002 22.0 3.7 22 90-111 226-247 (262)
116 TIGR03152 cyto_c552_HCOOH form 30.1 25 0.00054 26.8 0.8 10 22-31 122-131 (439)
117 PF10281 Ish1: Putative stress 30.0 72 0.0016 15.1 3.8 13 67-79 3-15 (38)
118 TIGR03146 cyt_nit_nrfB cytochr 29.3 18 0.00039 22.9 -0.0 10 22-31 111-120 (145)
119 PF07095 IgaA: Intracellular g 29.2 95 0.0021 25.2 3.8 22 90-111 41-62 (705)
120 CHL00137 rps13 ribosomal prote 29.1 64 0.0014 20.0 2.4 15 94-108 47-61 (122)
121 CHL00136 rpl31 ribosomal prote 29.1 24 0.00053 19.6 0.5 9 21-29 36-44 (68)
122 PF08263 LRRNT_2: Leucine rich 29.1 58 0.0013 15.7 1.9 15 97-111 2-16 (43)
123 TIGR03631 bact_S13 30S ribosom 28.9 63 0.0014 19.7 2.4 16 93-108 44-59 (113)
124 TIGR02161 napC_nirT periplasmi 28.3 28 0.0006 23.2 0.8 9 22-30 77-85 (185)
125 PF12123 Amidase02_C: N-acetyl 28.1 74 0.0016 16.2 2.1 17 93-109 22-38 (45)
126 PRK11032 hypothetical protein; 28.0 62 0.0013 21.2 2.3 17 93-109 41-57 (160)
127 PF07102 DUF1364: Protein of u 28.0 11 0.00023 22.5 -1.1 9 22-30 53-61 (94)
128 PRK00019 rpmE 50S ribosomal pr 27.8 26 0.00057 19.7 0.5 9 21-29 36-44 (72)
129 PRK11125 nrfA cytochrome c nit 27.6 29 0.00063 26.8 0.8 10 22-31 160-169 (480)
130 PF03264 Cytochrom_NNT: NapC/N 27.6 15 0.00033 23.8 -0.6 18 13-30 113-134 (173)
131 PF02335 Cytochrom_C552: Cytoc 27.2 32 0.0007 26.2 1.0 9 20-28 272-280 (434)
132 PRK10617 cytochrome c-type pro 27.2 30 0.00064 23.5 0.7 10 22-31 86-95 (200)
133 cd03271 ABC_UvrA_II The excisi 27.1 28 0.00061 24.4 0.6 16 95-110 203-218 (261)
134 KOG0262 RNA polymerase I, larg 26.8 1.5E+02 0.0032 26.3 4.6 52 58-109 477-536 (1640)
135 PF13099 DUF3944: Domain of un 26.8 30 0.00064 16.7 0.5 15 94-108 12-26 (35)
136 PRK05179 rpsM 30S ribosomal pr 26.6 71 0.0015 19.8 2.3 16 94-109 47-62 (122)
137 TIGR03629 arch_S13P archaeal r 26.1 76 0.0016 20.3 2.4 16 94-109 51-66 (144)
138 TIGR02245 HAD_IIID1 HAD-superf 25.5 1.4E+02 0.0031 20.0 3.8 18 94-111 162-179 (195)
139 PF09630 DUF2024: Domain of un 25.5 9.4 0.0002 22.0 -1.6 13 17-29 49-61 (81)
140 PF05927 Penaeidin: Penaeidin; 25.2 36 0.00078 19.0 0.7 10 21-30 44-53 (73)
141 PF12408 DUF3666: Ribose-5-pho 25.1 49 0.0011 17.1 1.2 12 99-110 37-48 (48)
142 PRK01397 50S ribosomal protein 25.0 32 0.00069 19.7 0.5 9 21-29 35-43 (78)
143 PF14053 DUF4248: Domain of un 24.9 1.3E+02 0.0029 16.6 3.2 39 70-108 25-67 (69)
144 PLN03217 transcription factor 24.3 90 0.0019 18.3 2.2 17 94-110 16-32 (93)
145 PTZ00134 40S ribosomal protein 24.0 79 0.0017 20.5 2.2 17 93-109 59-75 (154)
146 PRK11702 hypothetical protein; 24.0 1E+02 0.0023 18.8 2.6 17 93-109 75-91 (108)
147 PF04270 Strep_his_triad: Stre 23.8 94 0.002 16.4 2.1 17 93-109 36-52 (53)
148 COG3086 RseC Positive regulato 23.8 30 0.00064 22.3 0.2 22 12-33 11-36 (150)
149 PF00432 Prenyltrans: Prenyltr 23.8 86 0.0019 15.2 1.9 13 99-111 2-14 (44)
150 PF02085 Cytochrom_CIII: Class 23.7 43 0.00092 19.6 0.9 9 22-30 49-57 (102)
151 TIGR03823 FliZ flagellar regul 23.4 25 0.00055 22.9 -0.1 10 21-30 23-32 (168)
152 PF11310 DUF3113: Protein of u 23.3 71 0.0015 17.0 1.6 12 97-108 28-39 (60)
153 PF01197 Ribosomal_L31: Riboso 23.3 38 0.00083 18.7 0.6 9 21-29 37-45 (69)
154 TIGR00105 L31 ribosomal protei 23.2 36 0.00078 18.8 0.5 9 21-29 36-44 (68)
155 cd08168 Cytochrom_C3 Heme-bind 23.2 34 0.00074 19.3 0.4 9 22-30 35-43 (85)
156 COG0633 Fdx Ferredoxin [Energy 23.1 31 0.00068 20.5 0.3 8 22-29 44-51 (102)
157 PF13447 Multi-haem_cyto: Seve 23.1 36 0.00078 24.1 0.6 13 17-29 210-222 (267)
158 PF06648 DUF1160: Protein of u 23.1 63 0.0014 20.2 1.6 15 94-108 98-112 (122)
159 PRK00528 rpmE 50S ribosomal pr 22.9 37 0.0008 19.0 0.5 9 21-29 38-46 (71)
160 PF12797 Fer4_2: 4Fe-4S bindin 22.8 34 0.00074 14.6 0.3 8 21-28 8-15 (22)
161 PF14566 PTPlike_phytase: Inos 22.8 81 0.0018 20.0 2.1 18 95-112 106-123 (149)
162 PF10180 DUF2373: Uncharacteri 22.7 1.2E+02 0.0026 16.6 2.5 17 95-111 34-50 (65)
163 COG3184 Uncharacterized protei 22.3 67 0.0015 21.5 1.7 17 93-109 106-122 (183)
164 COG1579 Zn-ribbon protein, pos 22.3 34 0.00073 23.9 0.3 8 22-29 199-206 (239)
165 PF10820 DUF2543: Protein of u 22.2 77 0.0017 17.8 1.7 16 95-110 24-39 (81)
166 PRK04053 rps13p 30S ribosomal 22.1 1E+02 0.0022 19.9 2.4 16 93-108 54-69 (149)
167 PRK11582 flagella biosynthesis 22.0 29 0.00063 22.7 -0.1 10 21-30 23-32 (169)
168 PRK01678 rpmE2 50S ribosomal p 21.8 39 0.00086 19.7 0.5 9 21-29 49-57 (87)
169 PF07637 PSD5: Protein of unkn 21.7 1.4E+02 0.003 16.0 2.6 19 91-109 15-33 (64)
170 PF09601 DUF2459: Protein of u 21.7 93 0.002 20.5 2.3 15 95-109 98-112 (173)
171 PF13709 DUF4159: Domain of un 21.4 88 0.0019 21.1 2.2 16 94-109 66-81 (207)
172 PF04369 Lactococcin: Lactococ 21.4 53 0.0011 17.8 0.9 12 93-104 8-19 (60)
173 cd07347 harmonin_N_like N-term 21.4 1E+02 0.0022 17.6 2.1 17 94-110 15-31 (78)
174 COG3183 Predicted restriction 21.2 30 0.00066 24.5 -0.1 8 22-29 243-250 (272)
175 PF15332 LIME1: Lck-interactin 21.1 38 0.00083 23.0 0.4 8 23-30 2-9 (228)
176 PF09256 BaffR-Tall_bind: BAFF 21.1 23 0.00049 16.5 -0.5 9 21-29 15-23 (31)
177 PF02831 gpW: gpW; InterPro: 21.0 46 0.00099 18.5 0.6 16 96-111 36-51 (68)
178 PF06207 DUF1002: Protein of u 21.0 95 0.0021 21.5 2.3 17 95-111 192-208 (225)
179 PF11116 DUF2624: Protein of u 20.9 99 0.0021 18.0 2.0 16 95-110 31-46 (85)
180 TIGR03507 decahem_SO1788 decah 20.7 39 0.00085 27.1 0.4 10 21-30 294-303 (664)
181 COG4840 Uncharacterized protei 20.5 1.4E+02 0.0031 16.6 2.4 19 94-112 53-71 (71)
No 1
>PTZ00405 cytochrome c; Provisional
Probab=99.97 E-value=2.4e-31 Score=163.42 Aligned_cols=108 Identities=53% Similarity=0.929 Sum_probs=99.4
Q ss_pred CCCCCccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCC
Q 033761 5 DEAPPGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYI 84 (112)
Q Consensus 5 ~a~~~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~ 84 (112)
.+...+++++|++||+.+|++||+++..+...+||+|.++.+|..+..++|.|+..+++.+++|+.++|..||.+|....
T Consensus 7 ~~~~~gd~~~G~~lF~~~C~aCH~~~~~~~~~vGP~L~gv~gR~~g~~~~~~YS~al~~~g~~wd~~~L~~~l~~P~~~~ 86 (114)
T PTZ00405 7 APLPPGDAERGEKLFKGRAAQCHTATKGGSNGVGPNLFGIVNRKSGTVEGFAYSKANADSGVIWTPEVLDVYLENPKKFM 86 (114)
T ss_pred ccCCccCHHHHHHHHHhhhHhhCCCCCCCCCCcCCCccccccCccccccCccccHHHHhccCcCCHHHHHHHHHCHHhhC
Confidence 45667899999999998899999987555568999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHhccC
Q 033761 85 PGTKMVFPGLKKPQDRADLIAYLKQSTA 112 (112)
Q Consensus 85 ~~~~m~~~~~ls~~e~~~l~ayl~~l~~ 112 (112)
|+++|+|.++.+++|+++|++||++|+.
T Consensus 87 pgt~M~f~gl~~~~dr~~liaYL~sl~~ 114 (114)
T PTZ00405 87 PGTKMSFAGIKKPQERADVIAYLETLKD 114 (114)
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHhcC
Confidence 9999999999899999999999999874
No 2
>COG3474 Cytochrome c2 [Energy production and conversion]
Probab=99.96 E-value=4.4e-29 Score=153.70 Aligned_cols=102 Identities=57% Similarity=1.012 Sum_probs=97.5
Q ss_pred CccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcc--cccccHHHHHHHHhCCCCCCCC
Q 033761 9 PGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNM--AVNWEEKTLYDYLLNPKKYIPG 86 (112)
Q Consensus 9 ~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~l~~~l~~~~~~~~~ 86 (112)
.+++..|+.+|++ |.+||+++..|.+.+||.|.++.+|..++.++|.|+.+++.. +++|+.+.|..||.+|..+.||
T Consensus 28 ~~da~~G~~vFkk-C~~CH~i~~~g~nkvGP~L~gVvGR~ags~egf~YS~Amk~~~~g~vWd~~~L~~fL~~Pkk~vpG 106 (135)
T COG3474 28 LGDAAAGEKVFKK-CQACHSIEKGGPNKVGPHLWGVVGRPAGSVEGFSYSAAMKKAGGGIVWDEDNLDEFLTAPKKYVPG 106 (135)
T ss_pred cccHHHhHHHHHH-HHHhhccccCCCCCCCCccccccCccccccCCcccCHHHHhccCCcccCHHHHHHHHhChhhhCCC
Confidence 4799999999986 999999998888999999999999999999999999999998 8999999999999999999999
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHhcc
Q 033761 87 TKMVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 87 ~~m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
+.|.|.++..++||.+|++||++++
T Consensus 107 TkM~faGlkk~~dradlIAYLk~~~ 131 (135)
T COG3474 107 TKMAFAGLKKDQDRADLIAYLKSLP 131 (135)
T ss_pred cceeecCCCCHHHHHHHHHHHHhcc
Confidence 9999999999999999999999876
No 3
>PTZ00048 cytochrome c; Provisional
Probab=99.96 E-value=2.7e-28 Score=150.34 Aligned_cols=105 Identities=60% Similarity=1.137 Sum_probs=95.1
Q ss_pred CCCccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCCC
Q 033761 7 APPGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIPG 86 (112)
Q Consensus 7 ~~~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~ 86 (112)
.+.+++++|+++|+++|+.||++++.+...+||+|.++.++..+. ++|.|+..+...++.|+.++|..||.+|....|+
T Consensus 10 ~~~~~~~~G~~~f~~~C~~CH~~~~~g~~~~GP~L~Gi~gR~~g~-~~~~ys~~~~~~g~~wt~~~L~~~l~~P~~~~pg 88 (115)
T PTZ00048 10 VPEGDAKKGAKLFKAKCAQCHTINKGGAVKQGPNLHGFYGRKSGS-ADFPYSDANKNSGIVWSDKHLFEYLVNPKLYIPG 88 (115)
T ss_pred CCcccHHHHHHHHHhhhhhcCCCcCCCCCCcCCcccccccccccC-CCCccchhhhhcccccCHHHHHHHHhCcCccCCC
Confidence 446788999999998999999998767678899999999998887 7888888888888999999999999999999999
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHhccC
Q 033761 87 TKMVFPGLKKPQDRADLIAYLKQSTA 112 (112)
Q Consensus 87 ~~m~~~~~ls~~e~~~l~ayl~~l~~ 112 (112)
+.|+|.++.+++|+++|++||++|+.
T Consensus 89 t~M~~~gl~~~~~~~~liaYL~s~~~ 114 (115)
T PTZ00048 89 TKMVFAGIKKEKERADLIAYLKEASS 114 (115)
T ss_pred CccCcCCCCCHHHHHHHHHHHHHhcc
Confidence 99999888889999999999999863
No 4
>KOG3453 consensus Cytochrome c [Energy production and conversion]
Probab=99.75 E-value=1.7e-18 Score=103.67 Aligned_cols=104 Identities=64% Similarity=1.124 Sum_probs=96.1
Q ss_pred CCCccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCCC
Q 033761 7 APPGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIPG 86 (112)
Q Consensus 7 ~~~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~ 86 (112)
..+.+.+.|..+|.+.|..||.++..+...++|+|.++.++..++...+.+..+...-++.|..+.|..+|.+|..++|+
T Consensus 4 ~~~~d~~~g~~~f~~rc~qch~~~~~~~~k~~p~l~gl~g~~~g~~~~~sy~~a~KnKgV~wgE~tl~eyLenpkkyipG 83 (110)
T KOG3453|consen 4 VPAGDVEKGKKIFPQRCAQCHTVEKGGFHKTGPNLHGLFGRQLGQAAGLSYTDANKNKGVTWGEDTLMEYLENPKKYIPG 83 (110)
T ss_pred ccccccccccccceeeccccccccCCcccccCCcchhhHHHhhccccCcceeecccCCceEEcchhHHHHHhCCCccccc
Confidence 44678899999999999999999887778899999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHhc
Q 033761 87 TKMVFPGLKKPQDRADLIAYLKQS 110 (112)
Q Consensus 87 ~~m~~~~~ls~~e~~~l~ayl~~l 110 (112)
+.|-|.++-...|+.|+++||..-
T Consensus 84 tKmifaGikk~~eraDlIayl~ka 107 (110)
T KOG3453|consen 84 TKMIFAGIKKKAERADLIAYLKKA 107 (110)
T ss_pred cceeecccCchHHHHHHHHHHHHh
Confidence 999998887779999999999753
No 5
>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=99.71 E-value=5e-17 Score=102.36 Aligned_cols=82 Identities=22% Similarity=0.360 Sum_probs=58.7
Q ss_pred CccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCCCCC
Q 033761 9 PGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIPGTK 88 (112)
Q Consensus 9 ~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ 88 (112)
...+++|++||..+|++||+.++.|. .||+|.+....... ....+.|.+.+..+. ..+
T Consensus 41 ~~~~a~G~~ly~~~CAaCHG~~g~G~--~gP~L~~~~~~~~~----------------~~~~~~l~~~i~~G~----~g~ 98 (133)
T TIGR03872 41 AEALKKGESLFATACSGCHGHLAEGK--LGPGLNDDYWTYPK----------------NTTDKGLFETIFGGA----NGM 98 (133)
T ss_pred HHHHHHHHHHHHHhhHHhCCCCCCCC--CCCCCcCcccccCC----------------cccHHHHHHHHHcCC----CCC
Confidence 45678999999999999999987653 47988764321100 002445667776653 346
Q ss_pred C-CCCCCCCHHHHHHHHHHHHhccC
Q 033761 89 M-VFPGLKKPQDRADLIAYLKQSTA 112 (112)
Q Consensus 89 m-~~~~~ls~~e~~~l~ayl~~l~~ 112 (112)
| +|...|+++||++|++||+++.+
T Consensus 99 Mp~~~~~LsdeeI~aLaaYI~sl~~ 123 (133)
T TIGR03872 99 MGPQYGNLTLDEMLQIMAWIRHLYT 123 (133)
T ss_pred CcccccCCCHHHHHHHHHHHHHhCC
Confidence 7 57778999999999999999864
No 6
>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=99.66 E-value=2.8e-16 Score=99.19 Aligned_cols=35 Identities=29% Similarity=0.721 Sum_probs=29.7
Q ss_pred ccHHHHHHHHHhcCCccccCcCCCCCCCCCCccccc
Q 033761 10 GNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLF 45 (112)
Q Consensus 10 ~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~ 45 (112)
+++++|+.+|.+.|++||++++.|. ..||+|.++.
T Consensus 1 gd~~~G~~~f~~~C~~CH~~~g~g~-~~gP~L~~~~ 35 (133)
T TIGR02603 1 GDAEKGKAVYAQRCYVCHRIGGEGV-DVGPDLTGVG 35 (133)
T ss_pred CCHHHHHHHHHhHHHHhCCCCCCCC-ccCCCccccc
Confidence 4788999999988999999987664 6789999864
No 7
>PRK13617 psbV cytochrome c-550; Provisional
Probab=99.66 E-value=2.8e-16 Score=101.56 Aligned_cols=88 Identities=24% Similarity=0.342 Sum_probs=64.4
Q ss_pred CccHHHHHHHHHhcCCccccCcCC-CCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCC---
Q 033761 9 PGNAKAGEKIFKTKCAQCHTVEKG-AGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYI--- 84 (112)
Q Consensus 9 ~~~~~~G~~lf~~~C~~CH~~~~~-g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~--- 84 (112)
++++.+|+++|+.+|++||...+- ..+.+||+|..+.... + ...+.+.|.+||++|..++
T Consensus 56 ~~~~~~G~~~F~~~C~~CH~~g~T~~n~~vg~dL~~L~aa~----p------------~r~nv~aLv~yikdP~sydg~~ 119 (170)
T PRK13617 56 ESEIKAGRKVFNTSCGTCHAGGITKTNQNVGLDPETLALAT----P------------ARDNVDALVDYLKDPTSYDGEY 119 (170)
T ss_pred HHHHHHHHHHHHcchhhhccCCCcCCCCCcCCCHHHHhccC----C------------CCCCHHHHHHHHhChHhhcchh
Confidence 346789999999899999975432 2346788886553211 0 0126889999999997766
Q ss_pred ------CCC----CCCCCCCCCHHHHHHHHHHHHhccC
Q 033761 85 ------PGT----KMVFPGLKKPQDRADLIAYLKQSTA 112 (112)
Q Consensus 85 ------~~~----~m~~~~~ls~~e~~~l~ayl~~l~~ 112 (112)
|+. .||-...|||+|+.+|++||..++|
T Consensus 120 s~~e~~P~~~~~~imP~~~~LsdeeL~alAayLl~~~k 157 (170)
T PRK13617 120 SIADLHPSMRSADLYPAMRDLNDEDLRLMAGYILVAPK 157 (170)
T ss_pred hccccCccccccccCcccCCCCHHHHHHHHHHHHhccc
Confidence 543 5664456899999999999998854
No 8
>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=99.64 E-value=4e-18 Score=99.46 Aligned_cols=80 Identities=30% Similarity=0.507 Sum_probs=49.5
Q ss_pred HHHHHHHHHhcCCccccCcCCCCCCC-CCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCC----------
Q 033761 12 AKAGEKIFKTKCAQCHTVEKGAGHKQ-GPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNP---------- 80 (112)
Q Consensus 12 ~~~G~~lf~~~C~~CH~~~~~g~~~~-gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~---------- 80 (112)
+++|++||..+|++||+.++.+.... +|+|.++..+.. .+++..++.++
T Consensus 1 a~~G~~l~~~~C~~CH~~~~~~~~~~~~p~l~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~ 60 (91)
T PF00034_consen 1 AARGKELFQANCAACHGADGNGDGGGPGPDLTGIGKRYS--------------------YDWIGRYITNPEAISPPAHMP 60 (91)
T ss_dssp HHHHHHHHHHHTTTTHBTSTTSSSSSTSHBHTTHTHHBT--------------------THHTHHHHHHHHHHHHHHHHH
T ss_pred ChhHHHHHhCcChhcCCCCCcCCccccCccccCccccch--------------------HHHHHHHHHHHhhhccccchh
Confidence 57999999778999999987665444 588887654321 11111111111
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHHhcc
Q 033761 81 KKYIPGTKMVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 81 ~~~~~~~~m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
........|+....||++|+++|++||++|+
T Consensus 61 ~~~~~~~~~~~~~~ls~~e~~~l~ayl~slk 91 (91)
T PF00034_consen 61 DAMPMFPMMPMPKILSDEEIADLAAYLRSLK 91 (91)
T ss_dssp HHHHHHHHHHHHHTSSHHHHHHHHHHHHHTS
T ss_pred hccCcccCCcccCCCCHHHHHHHHHHHHHhC
Confidence 0000112233222689999999999999986
No 9
>CHL00183 petJ cytochrome c553; Provisional
Probab=99.63 E-value=8.3e-16 Score=93.79 Aligned_cols=84 Identities=21% Similarity=0.249 Sum_probs=57.7
Q ss_pred CCCccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCCC
Q 033761 7 APPGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIPG 86 (112)
Q Consensus 7 ~~~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~ 86 (112)
...++++.|+.||..+|++||+. |.+..+|.+.... ..+.... ..+.+.+..+++++. +
T Consensus 21 ~~~a~~~~G~~ly~~~Ca~CHg~---g~~~~~P~~~~~~-------------~~l~~~~-~~~~~~i~~~i~~G~----~ 79 (108)
T CHL00183 21 AFAADLDNGEQIFSANCAACHAG---GNNVIMPEKTLKK-------------DALEANS-MNSIEAITYQVTNGK----N 79 (108)
T ss_pred cccccHHHHHHHHHHHHHHHCCC---CCCCCCCCcccCH-------------HHHhhCc-CCCHHHHHHHHHcCc----c
Confidence 34567899999999999999984 2234567654211 0111111 125678888998865 2
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHhcc
Q 033761 87 TKMVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 87 ~~m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
.|++|...||++|+++|++||.++.
T Consensus 80 ~MP~f~~~Ls~~ei~~i~aYi~~~~ 104 (108)
T CHL00183 80 AMPAFGGRLSDEDIEDVANYVLSQA 104 (108)
T ss_pred ccccccCCCCHHHHHHHHHHHHHhh
Confidence 3445877899999999999999875
No 10
>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=99.63 E-value=3.8e-16 Score=87.57 Aligned_cols=67 Identities=30% Similarity=0.662 Sum_probs=51.6
Q ss_pred ccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCCCCCC
Q 033761 10 GNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIPGTKM 89 (112)
Q Consensus 10 ~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~m 89 (112)
+++..|+.||.++|++||+.+ ..||+|.+. .|+.+.|..++.++. +.|+
T Consensus 1 a~~~~G~~ly~~~C~~CH~~~-----~~gp~l~~~----------------------~~~~~~l~~~i~~g~----~~Mp 49 (67)
T PF13442_consen 1 ADAAKGKALYEQNCASCHGPG-----GAGPSLAGK----------------------DWSPEELYNIIRNGR----GGMP 49 (67)
T ss_dssp -HHHHHHHHHHHHTHHHHGTG-----SSSSTSTHH----------------------HHHHHHHHHHHHHTB----TTBS
T ss_pred CcHHHHHHHHHhHhHHhcCCC-----ccCccchhh----------------------hhhHHHHHHHHHhCc----CCCC
Confidence 467899999999999999943 235777643 245678888888776 3455
Q ss_pred CCCCCCCHHHHHHHHHHH
Q 033761 90 VFPGLKKPQDRADLIAYL 107 (112)
Q Consensus 90 ~~~~~ls~~e~~~l~ayl 107 (112)
+|...||++|+++|++||
T Consensus 50 ~~~~~ls~~e~~~l~~yi 67 (67)
T PF13442_consen 50 PFGGQLSDEEIEALAAYI 67 (67)
T ss_dssp CTTTTSTHHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHC
Confidence 677789999999999997
No 11
>CHL00133 psbV photosystem II cytochrome c550; Validated
Probab=99.61 E-value=1.9e-15 Score=97.46 Aligned_cols=88 Identities=20% Similarity=0.306 Sum_probs=58.3
Q ss_pred CCccHHHHHHHHHhcCCccccCcCC-CCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCC---
Q 033761 8 PPGNAKAGEKIFKTKCAQCHTVEKG-AGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKY--- 83 (112)
Q Consensus 8 ~~~~~~~G~~lf~~~C~~CH~~~~~-g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~--- 83 (112)
.++++++|++||..+|+.||..... ..+.+++++..+.+. .+ ...+.++|.+||++|..+
T Consensus 48 t~~~~~~Gk~lF~~~CaaCH~~G~~~~~p~vgl~l~~L~~A----~~------------~r~~~~~Lv~~iknP~~ydg~ 111 (163)
T CHL00133 48 TPEQVKRGKRLFNASCGACHVGGITKTNPNVGLDPEALSLA----TP------------PRDNIEALVDYMKNPTTYDGL 111 (163)
T ss_pred CHHHHHHHHHHHHhhHHHhCCCCCCCCCCCCCCCHHHHhhc----CC------------CcccHHHHHHHHhCcccccch
Confidence 3457899999999999999962100 112334444433220 00 012688999999999873
Q ss_pred ----------CCCCCCCCCCCCCHHHHHHHHHHHHhcc
Q 033761 84 ----------IPGTKMVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 84 ----------~~~~~m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
.++..||-...||++|+.+|++||....
T Consensus 112 ~~i~~~~~~~K~~~~MPa~~~LsdeEL~aVAaYIl~q~ 149 (163)
T CHL00133 112 ESIAEIHPSIKSADIFPKMRSLTDEDLYAIAGHILLQP 149 (163)
T ss_pred HHHHHhhcccCccccCCCCCCCCHHHHHHHHHHHHhcc
Confidence 2345576446789999999999997643
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=99.61 E-value=2.5e-15 Score=96.82 Aligned_cols=89 Identities=19% Similarity=0.260 Sum_probs=60.1
Q ss_pred CCccHHHHHHHHHhcCCccccCcCC-CCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCC---
Q 033761 8 PPGNAKAGEKIFKTKCAQCHTVEKG-AGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKY--- 83 (112)
Q Consensus 8 ~~~~~~~G~~lf~~~C~~CH~~~~~-g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~--- 83 (112)
.++++++|++||+.+|++||..... ..+.+++++..+.... + ...+.++|..||++|..+
T Consensus 47 ~~~~~~~Gk~lF~~~Ca~CH~~G~~~~~p~vgl~l~~L~~A~----~------------~r~~v~~Lv~~iknP~~~dg~ 110 (159)
T TIGR03045 47 TEEQVKRGKRLFNTACGTCHVGGITKTNPNVGLDPEALALAT----P------------PRDNVEALVDYMKNPTSYDGE 110 (159)
T ss_pred ChHhHHHHHHHHHHHHHHhCCCCCCCCCCCCCCChhhHHhcC----C------------CccCHHHHHHHHhCccccccc
Confidence 3568899999999999999952211 1134444544433210 0 012688999999999755
Q ss_pred ----------CCCCCCCCCCCCCHHHHHHHHHHHHhccC
Q 033761 84 ----------IPGTKMVFPGLKKPQDRADLIAYLKQSTA 112 (112)
Q Consensus 84 ----------~~~~~m~~~~~ls~~e~~~l~ayl~~l~~ 112 (112)
.+...||....||++|+.+|++||....+
T Consensus 111 ~~~~~~hp~~k~~~~mP~~~~LsdeEL~avAaYIl~q~~ 149 (159)
T TIGR03045 111 ESIAELHPSIRSADIFPKMRNLTDEDLRLIAGHILVQPK 149 (159)
T ss_pred chhhhcccccCcccccCCcCCCCHHHHHHHHHHHHHhcc
Confidence 23456765566899999999999987653
No 13
>PRK13618 psbV cytochrome c-550; Provisional
Probab=99.60 E-value=5.3e-15 Score=95.51 Aligned_cols=90 Identities=21% Similarity=0.271 Sum_probs=62.0
Q ss_pred CCccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCC----
Q 033761 8 PPGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKY---- 83 (112)
Q Consensus 8 ~~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~---- 83 (112)
..+++++|+++|+.+|++||. . |....+|++..-.....+..+. +.+.+.|..||++|..+
T Consensus 48 s~~~~~~G~~lF~~~Ca~CH~-~--G~~~~~p~~~l~~~~La~a~p~------------rd~v~~l~~yik~P~~~Dg~~ 112 (163)
T PRK13618 48 SLKQVKEGKRLFNYACAQCHA-G--GVTKTNQNVGLEPEALALATPN------------RDNIEGLVDYMKNPTTYDGEE 112 (163)
T ss_pred ChhhHHHHHHHHHHHHHHhcC-C--CCCCCCCCcCCChhhhccCCCC------------ccCHHHHHHHHhCchhccccc
Confidence 456889999999999999994 2 3355567665321111111110 12678999999999886
Q ss_pred ---------CCCCCCCCCCCCCHHHHHHHHHHHHhccC
Q 033761 84 ---------IPGTKMVFPGLKKPQDRADLIAYLKQSTA 112 (112)
Q Consensus 84 ---------~~~~~m~~~~~ls~~e~~~l~ayl~~l~~ 112 (112)
.+...||-...|||+|+.+|++||..+.|
T Consensus 113 ~~~~~h~~ik~~~~mP~~~~Lsd~eL~ava~yll~~~~ 150 (163)
T PRK13618 113 EISEIHPSIKSADIFTAMRNLTDKDLEAIAGHILVQPK 150 (163)
T ss_pred hhcccccccCccccCCCCCCCCHHHHHHHHHHHHhccC
Confidence 34456775556899999999999976543
No 14
>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=99.60 E-value=1.4e-15 Score=97.31 Aligned_cols=88 Identities=22% Similarity=0.417 Sum_probs=58.4
Q ss_pred CccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCC---
Q 033761 9 PGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIP--- 85 (112)
Q Consensus 9 ~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~--- 85 (112)
++++.+|+++|..+|++||.- |.+.+.|+..-......+..+. +-+.++|.+|+++|..+.+
T Consensus 52 ~~d~~~G~~lF~~~Ca~CH~g---G~n~~~p~~~L~~~~L~~atp~------------Rd~I~~Lv~~iknP~s~kG~~~ 116 (155)
T TIGR03046 52 PEQLTDGKNLFESNCLNCHVG---GATLPNPNVSLSLKDLKGATPP------------RDTIQSLVAYQRDPMSYDGSEE 116 (155)
T ss_pred HHHHHhHHHHHHHHHHHhccC---CCCCcCCCCCCCHHHHhcCCCc------------hHHHHHHHHHhhCCcccCcccc
Confidence 458899999999999999963 3334444322111111111110 0135789999999998766
Q ss_pred --CCCCCCCCCCCHHHHHHHHHHHHhcc
Q 033761 86 --GTKMVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 86 --~~~m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
+..||....|||+|+++|++||....
T Consensus 117 ~~~~~mp~~~~LsdeEL~aIAaYLl~qa 144 (155)
T TIGR03046 117 SYGCRPVPEDWMDDEEVENLAAFILRAA 144 (155)
T ss_pred cccccCCcccCCCHHHHHHHHHHHHHhh
Confidence 44566666789999999999998653
No 15
>PRK13621 psbV cytochrome c-550; Provisional
Probab=99.59 E-value=2e-15 Score=97.42 Aligned_cols=89 Identities=22% Similarity=0.445 Sum_probs=60.4
Q ss_pred CCccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCC--
Q 033761 8 PPGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIP-- 85 (112)
Q Consensus 8 ~~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-- 85 (112)
.++++..|+++|..+|++||. .|...+.|+..-......+..+. .-+.++|.+|+++|..+.+
T Consensus 62 s~~d~~~G~~lF~~~Ca~CH~---gG~n~v~p~ktL~~~~L~~a~p~------------rd~I~~LV~~iknPms~kg~~ 126 (170)
T PRK13621 62 SPEQLTDGKQLFDSNCLNCHV---GGATLPNPNVSLSLKDLRGATPP------------RDNIAALVAYQRDPMSYDGSE 126 (170)
T ss_pred CHHHHHhHHHHHHHHHHHhcc---CCCCCcCCCCCCCHHHHhcCCCc------------hHHHHHHHHHhhCCCCCCccc
Confidence 456889999999999999995 33455566433211111111111 1145799999999998865
Q ss_pred ---CCCCCCCCCCCHHHHHHHHHHHHhcc
Q 033761 86 ---GTKMVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 86 ---~~~m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
+..|+....||++|+++|++||....
T Consensus 127 ~~~~~~mps~~~LSdeEL~aIAaYLL~qA 155 (170)
T PRK13621 127 ESYGCRQVPEDWMTDEELQNLAAFILRAA 155 (170)
T ss_pred ccccccCCccCCCCHHHHHHHHHHHHhhh
Confidence 45565556789999999999997653
No 16
>PRK13620 psbV cytochrome c-550; Provisional
Probab=99.56 E-value=1.7e-14 Score=95.39 Aligned_cols=88 Identities=20% Similarity=0.249 Sum_probs=65.0
Q ss_pred CCccHHHHHHHHHhcCCccccCcCC--CCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCC
Q 033761 8 PPGNAKAGEKIFKTKCAQCHTVEKG--AGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIP 85 (112)
Q Consensus 8 ~~~~~~~G~~lf~~~C~~CH~~~~~--g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~ 85 (112)
..+++++|++||++.|++|| +.|. ..+.++|+++.+.... .+ .++.+.|..||++|..+++
T Consensus 100 S~eq~~~GkqLF~~~Ca~CH-VgG~Tktnp~vgpdLt~LaaAt---pp-------------Rdn~e~Lv~wLkdP~sydg 162 (215)
T PRK13620 100 SLKQVAEGKQLFAYACGQCH-VGGITKTDPNVGLDPEALALAT---PP-------------RDSVESLVDYLHNPTTYDG 162 (215)
T ss_pred CHHHHHHHHHHHHhhhhhcc-CCCCCCCCCCCCCCHHHHhccC---CC-------------CCCHHHHHHHHhCccccCC
Confidence 35688999999998999999 4431 1235677777442211 11 1378899999999999887
Q ss_pred -------------CCCCCCCCCCCHHHHHHHHHHHHhccC
Q 033761 86 -------------GTKMVFPGLKKPQDRADLIAYLKQSTA 112 (112)
Q Consensus 86 -------------~~~m~~~~~ls~~e~~~l~ayl~~l~~ 112 (112)
+..||-...|||+|+.+|++|+.-..|
T Consensus 163 ~~siae~HPs~~s~d~mP~~r~LtdedL~aIa~~IL~qpk 202 (215)
T PRK13620 163 EREISELHPSTKSTDIFPKMRNLTEDDLVAISGHILLQPK 202 (215)
T ss_pred cchhhhcCccccccccccccCCCCHHHHHHHHHHHhcccc
Confidence 678886666899999999999975543
No 17
>PRK13697 cytochrome c6; Provisional
Probab=99.56 E-value=1.4e-14 Score=88.66 Aligned_cols=82 Identities=21% Similarity=0.325 Sum_probs=55.0
Q ss_pred CccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCCCCC
Q 033761 9 PGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIPGTK 88 (112)
Q Consensus 9 ~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ 88 (112)
.++...|+.+|..+|++||+.. .+....+|.+.... +... ..++.+.+...+.++. ..|
T Consensus 25 a~~~~~G~~ly~~~C~~CHg~g-~~~~~~~p~l~~~~---------------~~~~-~~~~~~~l~~~i~~g~----~~M 83 (111)
T PRK13697 25 AADAANGEQVFSANCASCHAGG-KNLVNAGKTLKKAD---------------LEKY-GMYSLEAITAQVTNGK----NAM 83 (111)
T ss_pred ccCHHHHHHHHHHHHHHhCCCC-CCCCCCCCCCCHHH---------------HHhc-CCCCHHHHHHHHHcCC----CCC
Confidence 4677899999998999999952 21122245444211 0111 1245678888888864 234
Q ss_pred CCCCCCCCHHHHHHHHHHHHhcc
Q 033761 89 MVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 89 m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
++|...+|++|+++|++||.++.
T Consensus 84 p~~~~~ls~~di~~l~~Yi~~~~ 106 (111)
T PRK13697 84 PAFKDRLSPDQIEDVAAYVLEQA 106 (111)
T ss_pred CCCcCCCCHHHHHHHHHHHHHHH
Confidence 46777899999999999999864
No 18
>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=99.56 E-value=2.1e-14 Score=100.79 Aligned_cols=83 Identities=19% Similarity=0.254 Sum_probs=59.4
Q ss_pred CccHHHHHHHHHhcCCccccCcCCCCCCC-CCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCCCC
Q 033761 9 PGNAKAGEKIFKTKCAQCHTVEKGAGHKQ-GPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIPGT 87 (112)
Q Consensus 9 ~~~~~~G~~lf~~~C~~CH~~~~~g~~~~-gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~ 87 (112)
+..+.+|+.||.++|++||+.++.|.... .|+|++..... . -+...+.+.++++.. +.
T Consensus 200 ~~~~~~G~~lf~~~Ca~CHG~~G~G~~~~gaP~L~~~~~~y---------~---------~~~~~i~~~i~~G~~---g~ 258 (285)
T TIGR00782 200 EALAAKGQELFADNCTTCHGEDGKGLQELGAPNLTDDVWLY---------G---------GDLKTITTTITNGRG---GV 258 (285)
T ss_pred hhHHHHHHHHHhccchhhCCCCCCCCCCCCCCCCCcchhhc---------C---------CCHHHHHHHHHhCCC---CC
Confidence 34568999999989999999988765443 48888642211 0 034566677776542 33
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhccC
Q 033761 88 KMVFPGLKKPQDRADLIAYLKQSTA 112 (112)
Q Consensus 88 ~m~~~~~ls~~e~~~l~ayl~~l~~ 112 (112)
|++|...||++||++|++||++|..
T Consensus 259 Mp~~~~~Ls~~ei~~La~Yv~sL~~ 283 (285)
T TIGR00782 259 MPAWGPRLSEAQIKALAAYVHSLGG 283 (285)
T ss_pred CCCccccCCHHHHHHHHHHHHHhcC
Confidence 3458788999999999999999863
No 19
>PRK14487 cbb3-type cytochrome c oxidase subunit II; Provisional
Probab=99.55 E-value=1.2e-14 Score=96.96 Aligned_cols=83 Identities=19% Similarity=0.359 Sum_probs=62.9
Q ss_pred CccHHHHHHHHHh-cCCcccc--CcCC-------C-----------------CCCCCCCcccccCCccccCCCCCCchhh
Q 033761 9 PGNAKAGEKIFKT-KCAQCHT--VEKG-------A-----------------GHKQGPNLNGLFGRQSGTTPGYSYSAAN 61 (112)
Q Consensus 9 ~~~~~~G~~lf~~-~C~~CH~--~~~~-------g-----------------~~~~gP~l~~~~~~~~~~~~~~~~~~~~ 61 (112)
++.+.+|+.+|.+ .|..||+ +++- | ....||+|+.+
T Consensus 48 t~lel~Gr~iyi~eGC~~CHsQ~VR~~~~e~~r~G~~S~a~e~~yd~P~lwGs~RtGPDLt~v----------------- 110 (217)
T PRK14487 48 TALELAGRDIYIREGCYNCHSQMIRPFRAETERYGHYSLAGESVYDHPFLWGSKRTGPDLARV----------------- 110 (217)
T ss_pred CHHHHHHHHHHHhcChhhccCccccCCchhhhhcCcccccchhhcccccccCCCCCCcchhhh-----------------
Confidence 4566799999975 5999998 4431 1 12344555544
Q ss_pred hcccccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHH--HHHHHHHhcc
Q 033761 62 KNMAVNWEEKTLYDYLLNPKKYIPGTKMVFPGLKKPQDRA--DLIAYLKQST 111 (112)
Q Consensus 62 ~~~~~~~~~~~l~~~l~~~~~~~~~~~m~~~~~ls~~e~~--~l~ayl~~l~ 111 (112)
|.+.+.+|+..||.+|+...|++.||-+..|++++++ +|++||++|.
T Consensus 111 ---G~R~s~~w~~~hl~nP~~v~PgS~MPay~~L~~~~ld~~~~~~~l~~l~ 159 (217)
T PRK14487 111 ---GGRYSDEWHRNHLINPRSVVPESNMPAYPWLAENDLDGTDTAEKMTALR 159 (217)
T ss_pred ---hccCCHHHHHHHHhCcccCCCCCCCCCCcccccccCCHHHHHHHHHHhh
Confidence 4444789999999999999999999866677788877 9999999885
No 20
>COG2863 Cytochrome c553 [Energy production and conversion]
Probab=99.55 E-value=4.6e-15 Score=91.18 Aligned_cols=80 Identities=28% Similarity=0.373 Sum_probs=62.7
Q ss_pred CCccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCC-CCCC
Q 033761 8 PPGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKK-YIPG 86 (112)
Q Consensus 8 ~~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~~ 86 (112)
...+++.|+.+|.+.|++||+.++.+.....|+|.++ +.++|...|++-+. ..++
T Consensus 20 a~~~a~~G~~~~~~~Ca~CHG~~g~~~~~~~P~Lagq------------------------~~~yl~~~L~a~k~g~r~~ 75 (121)
T COG2863 20 AAADAALGKALAAQSCAACHGADGNSPAPGYPKLAGQ------------------------SEAYLEKQLKAYKDGKRPG 75 (121)
T ss_pred hhhhHHHHHHhhcchhhhccCCCCCCccCCCCCcCCC------------------------CHHHHHHHHHHHHcCCCCc
Confidence 6788999999998889999999987755566777765 57788888865332 2334
Q ss_pred CCC-CCCCCCCHHHHHHHHHHHHhcc
Q 033761 87 TKM-VFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 87 ~~m-~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
..| .....|||+||.+|.+|+.+++
T Consensus 76 ~vM~~~a~~LsD~Di~~lAa~~a~~~ 101 (121)
T COG2863 76 PVMNAIASGLSDEDIADLAAYYAAQK 101 (121)
T ss_pred chHHHHHHhCCHHHHHHHHHHHHhCC
Confidence 466 5667799999999999999876
No 21
>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=99.55 E-value=1.9e-14 Score=91.13 Aligned_cols=79 Identities=18% Similarity=0.297 Sum_probs=58.4
Q ss_pred cHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCC---CC
Q 033761 11 NAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIP---GT 87 (112)
Q Consensus 11 ~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~---~~ 87 (112)
..-.|++||..+|++||+.++.|.. ..|+|.+.... .+..+|.+.|.++..... ..
T Consensus 32 ~~~~G~~lY~~~CAaCHG~dG~G~~-~~P~Lans~v~--------------------~s~~nli~vIl~G~~~~~~~~~~ 90 (143)
T TIGR03874 32 FTYSGYRRYHSECHVCHGPDGMGST-YAPALKDSVKR--------------------MSYGDFLGVVANGRQNVSAAQNN 90 (143)
T ss_pred ccccHHHHHHHHHHHhCCCCCCCCC-CCCCCCCcccc--------------------CCHHHHHHHHHhCCCCCCCCCCC
Confidence 3457999999999999999987743 57888632111 157788899988764322 23
Q ss_pred CC-CCCCCCCHH-HHHHHHHHHHhc
Q 033761 88 KM-VFPGLKKPQ-DRADLIAYLKQS 110 (112)
Q Consensus 88 ~m-~~~~~ls~~-e~~~l~ayl~~l 110 (112)
.| +|...|+++ ||.+|+.||+.-
T Consensus 91 ~MPaF~~~LsD~~eIa~L~~YLR~~ 115 (143)
T TIGR03874 91 VMPAFGDNPNVMCYLDDLYVYLRAR 115 (143)
T ss_pred CCCCccccCCcHHHHHHHHHHHHhc
Confidence 46 588889886 999999999864
No 22
>PRK13619 psbV cytochrome c-550; Provisional
Probab=99.49 E-value=6.2e-14 Score=89.25 Aligned_cols=89 Identities=21% Similarity=0.297 Sum_probs=62.0
Q ss_pred CCccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCC--
Q 033761 8 PPGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIP-- 85 (112)
Q Consensus 8 ~~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-- 85 (112)
.++++.+|++||+.+|+.||.. |...++|++.--........|.- -+.+.|..|+++|..++.
T Consensus 47 s~~d~~~GkklF~~~Ca~CH~g---G~nk~~Pnl~L~~~~L~~atP~R------------dnV~aLVdymk~PtsyDG~~ 111 (160)
T PRK13619 47 TSKQITNGQRLFVQECTQCHLQ---GKTKTNNNVSLGLEDLAGAEPPR------------DNVLALVDYLKHPTSYDGED 111 (160)
T ss_pred CHHHHHHHHHHHHHHHHHcccC---CCCCcCCCCCcCHHHHHhcCCCc------------ccHHHHHHHHhCCcccccch
Confidence 3568899999999999999985 55677887763222222222221 267899999999987731
Q ss_pred -----------CCCCCCCCCCCHHHHHHHHHHHHhcc
Q 033761 86 -----------GTKMVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 86 -----------~~~m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
...||-...|||+|+.+|++|+....
T Consensus 112 ~~a~~hpsi~~~di~P~mr~LtdedL~~iAg~IL~~p 148 (160)
T PRK13619 112 DYSELHPNVSRPDIFPELRNFTEDDLYDVAGYMLVAP 148 (160)
T ss_pred hhhhhcccccccccccccCCCCHHHHHHHHHHHHhcc
Confidence 12344334589999999999997544
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=99.47 E-value=2.3e-13 Score=95.57 Aligned_cols=81 Identities=25% Similarity=0.256 Sum_probs=56.8
Q ss_pred HHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCC------C
Q 033761 12 AKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYI------P 85 (112)
Q Consensus 12 ~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~------~ 85 (112)
...|+.||..+|+.||+.++.|.. ..|+|++..... ..+.+.+...|+++.... .
T Consensus 107 ~~~G~~lf~~~Ca~CHG~~g~G~~-g~P~L~~~~~~~------------------g~~~~~i~~~i~~G~~~~~~~~~~~ 167 (285)
T TIGR00782 107 RNAGAAIFRTWCAQCHGSGAGGAK-GFPNLLDNDWLW------------------GGTLEGIHTTIKHGIRDPDDGDTYV 167 (285)
T ss_pred HHHHHHHHHHHhHHhCCCCCCCCC-CCCCCCCCcccc------------------CCCHHHHHHHHHhCccCcccCCcCC
Confidence 478999999999999999876532 247777432110 014667778777665311 1
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHhcc
Q 033761 86 GTKMVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 86 ~~~m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
+.|++|...||++||++|++||+++.
T Consensus 168 ~~Mp~~~~~LsdeeI~aVaaYv~sl~ 193 (285)
T TIGR00782 168 GEMPAFGPLLEEADIKDVASYVMSLS 193 (285)
T ss_pred CCCCccccccChHHHHHHHHHHHHhc
Confidence 33446877899999999999999885
No 24
>PRK14486 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional
Probab=99.46 E-value=3.9e-13 Score=94.64 Aligned_cols=80 Identities=18% Similarity=0.324 Sum_probs=54.5
Q ss_pred CccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCCCCC
Q 033761 9 PGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIPGTK 88 (112)
Q Consensus 9 ~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ 88 (112)
.++..+|+.+|..+|++||+.++.|. .+|.+....... ...+.+.+.|.++... ..|
T Consensus 212 ~~~~~~G~~ly~~~Ca~CHg~~g~G~--~gp~p~~~~~~~-------------------~~~~~~~~~I~~G~~~--~~M 268 (294)
T PRK14486 212 VAAIAKGKALYDANCAACHGDEAQGQ--EGVALNDIDDGD-------------------LPDAAYFGMIKGGSDA--KGM 268 (294)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCC--CCCCccccccCC-------------------CcHHHHHHHHHcCCCc--CCC
Confidence 34578999999999999999887653 345444321100 0234556667765532 133
Q ss_pred CCCCCCCCHHHHHHHHHHHHhcc
Q 033761 89 MVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 89 m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
++|...||++|+++|++||++++
T Consensus 269 P~f~~~Lsdeei~~LaaYV~sl~ 291 (294)
T PRK14486 269 PGFGGDLSDDDIWAIVAYIRSQK 291 (294)
T ss_pred CcccccCCHHHHHHHHHHHHhcc
Confidence 45777799999999999999986
No 25
>PRK13622 psbV cytochrome c-550; Provisional
Probab=99.36 E-value=3.5e-12 Score=83.37 Aligned_cols=91 Identities=21% Similarity=0.313 Sum_probs=55.5
Q ss_pred CCCCccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCC
Q 033761 6 EAPPGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIP 85 (112)
Q Consensus 6 a~~~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~ 85 (112)
....++..+|+++|..+|++||+. | .+...|...-......+..++ .-+.+.|..++++|..+..
T Consensus 56 ~~s~~~~~~G~~lF~~~Ca~CH~~-G--~ni~~P~~tLk~~aL~~a~p~------------rdnv~AIv~yLk~p~tYdg 120 (180)
T PRK13622 56 TFTEAQLAKGKKLFNRACAQCHVG-G--QTYPNPDVSLKLSDLEGATPP------------RDNVLAIVDYIKNPVTYDG 120 (180)
T ss_pred cCCHHHHHHHHHHHHhhhHHhccC-C--CCCcCCCcccCHHHHcCCCCC------------cccHHHHHHHHhcccccCC
Confidence 344567789999999899999964 2 233344333211111111111 0156788889988886541
Q ss_pred ---------C----CCCCCCCCCCHHHHHHHHHHHHhcc
Q 033761 86 ---------G----TKMVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 86 ---------~----~~m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
+ ..||-...|||+|+++|++||....
T Consensus 121 ~~~~~e~~p~~~~~~~~p~~~~LsdeEI~~VA~yIl~qa 159 (180)
T PRK13622 121 VESLLEYHPNTQLLSEYPRLRNLTDEDLKLIAGYILVQA 159 (180)
T ss_pred ccchhhccccchhccccccccCCCHHHHHHHHHHHHhCc
Confidence 1 1133234689999999999998654
No 26
>COG3258 Cytochrome c [Energy production and conversion]
Probab=99.35 E-value=3.4e-12 Score=87.17 Aligned_cols=84 Identities=24% Similarity=0.369 Sum_probs=55.7
Q ss_pred CCCccHHHHHHHHHhcCCccccCcCCCCCC--------CCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHh
Q 033761 7 APPGNAKAGEKIFKTKCAQCHTVEKGAGHK--------QGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLL 78 (112)
Q Consensus 7 ~~~~~~~~G~~lf~~~C~~CH~~~~~g~~~--------~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~ 78 (112)
.-.++..+|++||.++|+.||+.+|+|... ..|.|.+. ++|+. .+...-...+.+||.
T Consensus 157 ~~aadp~rG~kly~eqCa~CHg~~G~G~k~~~~~~~~y~fPpLwG~--------dSfn~------GagMari~t~A~Fi~ 222 (293)
T COG3258 157 LKAADPVRGKKLYAEQCAACHGADGQGLKNDDEQGAGYLFPPLWGP--------DSFND------GAGMARINTLARFIK 222 (293)
T ss_pred ccCCCchhHHHHHHHHHHHhcCCCCCccccCcCCCcceecCcccCC--------cccCC------ccchhhHHHHHHHHH
Confidence 346799999999999999999998876432 23444432 12211 111122357778887
Q ss_pred CCCCCCCCCCCC--CCC---CCCHHHHHHHHHHHHhccC
Q 033761 79 NPKKYIPGTKMV--FPG---LKKPQDRADLIAYLKQSTA 112 (112)
Q Consensus 79 ~~~~~~~~~~m~--~~~---~ls~~e~~~l~ayl~~l~~ 112 (112)
. -|| +.. +|||+|.+||++|+.++++
T Consensus 223 ~--------nMP~g~~~~~P~Lsd~dA~DiAay~~~~pR 253 (293)
T COG3258 223 A--------NMPYGFSGTNPILSDQDAWDIAAYVNSQPR 253 (293)
T ss_pred h--------cCCCCcCccCCccChHHHHHHHHHHcCCCC
Confidence 5 244 323 4899999999999988653
No 27
>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=99.29 E-value=8.8e-12 Score=83.91 Aligned_cols=82 Identities=18% Similarity=0.291 Sum_probs=55.3
Q ss_pred CccHHHHHHHHHh-cCCcccc--CcCC------------------------CCCCCCCCcccccCCccccCCCCCCchhh
Q 033761 9 PGNAKAGEKIFKT-KCAQCHT--VEKG------------------------AGHKQGPNLNGLFGRQSGTTPGYSYSAAN 61 (112)
Q Consensus 9 ~~~~~~G~~lf~~-~C~~CH~--~~~~------------------------g~~~~gP~l~~~~~~~~~~~~~~~~~~~~ 61 (112)
++.+.+|+.+|.+ .|..||+ +++. |....||+|+.++
T Consensus 47 t~lel~Gr~iyi~eGC~~CHsQ~VR~~~~e~~ryG~~S~a~e~~yd~p~lwGs~RtGPDLt~vG---------------- 110 (232)
T TIGR00781 47 TPLELAGRDIYIREGCYHCHSQMIRPFRAEVERYGHYSLAGESMYDHPFQWGSKRTGPDLARVG---------------- 110 (232)
T ss_pred CHHHHHHHHHHHhcChhhcccccccCcchhhhhcCcccccchhhcccccccCCCCcCcCccccc----------------
Confidence 4566799999965 5999998 4431 1123455555444
Q ss_pred hcccccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHH--HHHHHHHhc
Q 033761 62 KNMAVNWEEKTLYDYLLNPKKYIPGTKMVFPGLKKPQDRA--DLIAYLKQS 110 (112)
Q Consensus 62 ~~~~~~~~~~~l~~~l~~~~~~~~~~~m~~~~~ls~~e~~--~l~ayl~~l 110 (112)
.+++.+|+..+|.+|+...|++.||-+..|++++++ ++.+.++++
T Consensus 111 ----~R~s~~wh~~hl~nPr~v~PgSiMP~y~~L~~~~ld~~~~~~~~~~~ 157 (232)
T TIGR00781 111 ----GRYSDEWHVKHLFDPRSVVPESIMPAYKHLATKKVDVDTAYAEAKTQ 157 (232)
T ss_pred ----ccCCHHHHHHHHhCccccCCCCCCCCCcccccccCCHHHHHHHHHHH
Confidence 444788999999999999999999755445444333 555555554
No 28
>COG2010 CccA Cytochrome c, mono- and diheme variants [Energy production and conversion]
Probab=99.29 E-value=3.8e-12 Score=81.20 Aligned_cols=21 Identities=33% Similarity=0.650 Sum_probs=19.0
Q ss_pred ccHHHHHHHHHhcCCccccCc
Q 033761 10 GNAKAGEKIFKTKCAQCHTVE 30 (112)
Q Consensus 10 ~~~~~G~~lf~~~C~~CH~~~ 30 (112)
.....|+++|..+|+.||+++
T Consensus 49 ~~~~~G~~~f~~~C~~CHg~~ 69 (150)
T COG2010 49 AARGAGLALFLGNCAACHGPN 69 (150)
T ss_pred HHHHHHHHHhcccchhccCCC
Confidence 467899999999999999987
No 29
>PRK14486 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional
Probab=99.28 E-value=1e-11 Score=87.50 Aligned_cols=102 Identities=14% Similarity=0.257 Sum_probs=60.2
Q ss_pred CccHHHHHHHHHh-cCCccccCc--CCCC--CCCC-CCccc--ccCCccccCCCCCCchhhhcccccccHHHHHHHHhCC
Q 033761 9 PGNAKAGEKIFKT-KCAQCHTVE--KGAG--HKQG-PNLNG--LFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNP 80 (112)
Q Consensus 9 ~~~~~~G~~lf~~-~C~~CH~~~--~~g~--~~~g-P~l~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~ 80 (112)
++.+.+|+.||.+ .|..||+.. .... ..-| ++..+ +..++ .....-...++|...|.+++.+|+..+|.+|
T Consensus 48 ~~~~~~G~~~y~~~gC~~CH~q~vr~~~~~~~~~g~~s~~~~~~~~~p-~~~g~~r~GPDL~~vG~r~~~~w~~~~l~~P 126 (294)
T PRK14486 48 TPLELAGRDVYQREGCVNCHTQTVRPLKSEVVRYGQYSKAGEFAYDHP-FLWGSKRTGPDLARIGGKYPDAWHYAHFEDP 126 (294)
T ss_pred CHHHHHHHHHHHHcCchhhcCccccCCcccccccCCCCcchhhhcccc-ccccCCCCCCchhhhcccCCHHHHHHHHhCc
Confidence 4567899999987 599999942 1100 0000 11110 00000 0001112234555556666899999999999
Q ss_pred CCCCCCCCCC-CC----CCC----------------CH---------HHHHHHHHHHHhcc
Q 033761 81 KKYIPGTKMV-FP----GLK----------------KP---------QDRADLIAYLKQST 111 (112)
Q Consensus 81 ~~~~~~~~m~-~~----~~l----------------s~---------~e~~~l~ayl~~l~ 111 (112)
+...|+..|| |. ..+ ++ .|+++|++||.+|.
T Consensus 127 ~~~~p~s~MP~~~~l~~~~~~~~~~~~~~~~~~~py~~~~~~~~~~~~e~~AlvAYl~~L~ 187 (294)
T PRK14486 127 QAVVPRSNMPAYAFLKGKPLDAALTQRKMRALGFPYTDADLAALAGKTEMDAMVAYMQSLG 187 (294)
T ss_pred ccCCCCCCCCCCHHHhhccCcHHHHHHhhhhcCCCCCHHHHHHhcccHHHHHHHHHHHHhc
Confidence 9999998886 22 111 12 36789999999885
No 30
>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=99.25 E-value=3.8e-12 Score=78.72 Aligned_cols=87 Identities=28% Similarity=0.444 Sum_probs=51.8
Q ss_pred CccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCCCC-
Q 033761 9 PGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIPGT- 87 (112)
Q Consensus 9 ~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~- 87 (112)
..++.+|++||...|+.||. +|.....|+..--.....+..|.- -|.+.|..|+++|..++.-.
T Consensus 22 ~~q~~~GkrLF~~~C~~CH~---GG~TktNpnV~L~le~L~~AtPpR------------DNi~~LVdYmk~PtsYDG~~~ 86 (135)
T PF14495_consen 22 PEQLKRGKRLFNASCAQCHV---GGITKTNPNVSLSLEDLAGATPPR------------DNIEALVDYMKNPTSYDGEES 86 (135)
T ss_dssp HHHHHHHHHHHHHHTHHHHG---GGCBTTSTTSBSSHHHHHTSSS--------------SSHHHHHHHHHS-B-TTSSSB
T ss_pred HHHHHHHHHHHHHHHHhhcc---CCcccCCCCCCcCHHHHccCCCCc------------ccHHHHHHHhhCCCCcCCchh
Confidence 45789999999999999996 222333454432111122222221 27889999999998776321
Q ss_pred -------C-----CCCCCCCCHHHHHHHHHHHHhc
Q 033761 88 -------K-----MVFPGLKKPQDRADLIAYLKQS 110 (112)
Q Consensus 88 -------~-----m~~~~~ls~~e~~~l~ayl~~l 110 (112)
+ .|-..-|+++|+.+|++||...
T Consensus 87 i~e~hp~~~s~di~p~mr~ltdddL~~iAg~IL~~ 121 (135)
T PF14495_consen 87 ISELHPSIKSADIFPKMRNLTDDDLYAIAGYILRQ 121 (135)
T ss_dssp GTTTS-STTCTTTSGGGTS--HHHHHHHHHHHHHH
T ss_pred HHHhCcCcccchhhHhhcCCCHHHHHHHHHHHHhc
Confidence 1 1111237999999999999643
No 31
>COG4654 Cytochrome c551/c552 [Energy production and conversion]
Probab=99.00 E-value=6.3e-10 Score=65.92 Aligned_cols=83 Identities=19% Similarity=0.297 Sum_probs=55.6
Q ss_pred CccHHHHHHHHHhc-CCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCCC-
Q 033761 9 PGNAKAGEKIFKTK-CAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIPG- 86 (112)
Q Consensus 9 ~~~~~~G~~lf~~~-C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~- 86 (112)
.+++++|+.||.++ |.+||.++- ..+||++..+..++.+..+ ....|...++.+.....+
T Consensus 20 a~~a~~~~aif~qkgC~~CHq~~v---ktVGPS~kdIAakYag~~~---------------~~~kl~q~i~~g~~g~wg~ 81 (110)
T COG4654 20 AADAEDGKAIFSQKGCVACHQPDV---KTVGPSYKDIAAKYAGKAG---------------ALAKLAQGIKPGGVGVWGP 81 (110)
T ss_pred ccchhhhHHHHHhccchhhccccc---cccCccHHHHHHHHccchh---------------HHHHHHHhccccCcCcccc
Confidence 47889999999986 999999864 5789999988776654322 234555555544332222
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHh
Q 033761 87 TKMVFPGLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 87 ~~m~~~~~ls~~e~~~l~ayl~~ 109 (112)
..||-...+|+.+...++.||..
T Consensus 82 ipMppqp~~sd~~a~~~~kwvl~ 104 (110)
T COG4654 82 IPMPPQPAISDADAKTLAKWVLA 104 (110)
T ss_pred CCCCCcccccchHHHHHHHHHHh
Confidence 35654444578888888877764
No 32
>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=98.92 E-value=7.9e-09 Score=72.90 Aligned_cols=105 Identities=22% Similarity=0.264 Sum_probs=51.3
Q ss_pred CCCccHHHHHHHHH--hcCCccccCcCCC---CCCCC-CC-cc-cccCCc--cccCCCCCC-chhhhcc---------cc
Q 033761 7 APPGNAKAGEKIFK--TKCAQCHTVEKGA---GHKQG-PN-LN-GLFGRQ--SGTTPGYSY-SAANKNM---------AV 66 (112)
Q Consensus 7 ~~~~~~~~G~~lf~--~~C~~CH~~~~~g---~~~~g-P~-l~-~~~~~~--~~~~~~~~~-~~~~~~~---------~~ 66 (112)
..++++.+|..||. .+|+.||...--+ ....| |. +. +..... ....+.+.+ .+.|++. |.
T Consensus 154 als~~e~~G~~LF~~k~~C~~CH~g~~ftd~~f~~iG~~~~~d~G~~~~~~~~~~~~~~~FrtPsLRnV~~taPY~HdG~ 233 (291)
T TIGR03791 154 AIGADAKRGFALFKGKAGCAACHSSWRFTDDSFHDIGLKAGLDLGRGAFAPPQVTAMQHAFKTPSLRDLPMEGPFMHDGQ 233 (291)
T ss_pred cCCHHHHHHHHHhcCCCCCCCCCCCCCcCCchHHhcCCCCccCCCcccccccccccccCcccCccccccccCCCCCCCCC
Confidence 44678899999997 3699999722110 01111 11 00 000000 000011112 3334332 23
Q ss_pred cccHHHHHHHHhCCCCCCCCCCCCC-CCCCCHHHHHHHHHHHHhcc
Q 033761 67 NWEEKTLYDYLLNPKKYIPGTKMVF-PGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 67 ~~~~~~l~~~l~~~~~~~~~~~m~~-~~~ls~~e~~~l~ayl~~l~ 111 (112)
..+.+.+..+...+....++.-... .-.||++|+++||+||++|+
T Consensus 234 ~~tL~evv~~y~~~g~~~~~~~~~~~~~~Lt~~E~~dLvaFL~tLt 279 (291)
T TIGR03791 234 LGSLDAVIDHYEKGGEKRPSISAEMKPFELSEREREDLIAFIETLD 279 (291)
T ss_pred cCCHHHHHHHHHccCccccccccccccCCCCHHHHHHHHHHHHhcC
Confidence 3456666666544332222111001 11489999999999999997
No 33
>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=98.76 E-value=1.6e-08 Score=68.27 Aligned_cols=102 Identities=18% Similarity=0.200 Sum_probs=58.3
Q ss_pred CccHHHHHHHHHhc-CCccccCcCCC--C--CCCC-CCccccc-CCccccCCCCCCchhhhcccccccHHHHHHHHhCCC
Q 033761 9 PGNAKAGEKIFKTK-CAQCHTVEKGA--G--HKQG-PNLNGLF-GRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPK 81 (112)
Q Consensus 9 ~~~~~~G~~lf~~~-C~~CH~~~~~g--~--~~~g-P~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 81 (112)
++.+.+|+.+|.++ |..||+..-.- . ..-| +++.+-. ......-.+-...++|...|.+.+.+|-...+.+|+
T Consensus 47 t~lel~GR~iYi~eGC~~CHSQ~VRp~~~e~~RyG~yS~a~e~~yd~P~lwGSkRtGPDLarvG~r~s~~Wh~~Hl~~Pr 126 (226)
T PF02433_consen 47 TPLELAGRDIYIREGCYYCHSQMVRPFRAEVERYGRYSVAGEYVYDHPFLWGSKRTGPDLARVGGRYSDDWHLAHLYNPR 126 (226)
T ss_pred cHHHHhHHHHHHHcCchhcccccCCCchhhhhhcCCCCchhhhhccCccccCCCCcCccHHHHhccCChHHHHHHhhChH
Confidence 45678999999864 99999843110 0 0001 1221100 000011112223455666666678899999999999
Q ss_pred CCCCCCCCCCCCCCCH--HHHHHHHHHHHhc
Q 033761 82 KYIPGTKMVFPGLKKP--QDRADLIAYLKQS 110 (112)
Q Consensus 82 ~~~~~~~m~~~~~ls~--~e~~~l~ayl~~l 110 (112)
...|+..||-+..|-+ .+...+.+.++.|
T Consensus 127 ~v~p~SiMP~Y~~L~~~~~d~~~~~~~~~~l 157 (226)
T PF02433_consen 127 SVVPGSIMPSYPWLFENKLDGEDIQAKMKAL 157 (226)
T ss_pred hhCCCCCCCCChhHhhccCcHHHHHHHHHHH
Confidence 9999999974444422 2444566655544
No 34
>PRK14485 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional
Probab=98.47 E-value=6.2e-07 Score=69.83 Aligned_cols=102 Identities=14% Similarity=0.175 Sum_probs=58.5
Q ss_pred CccHHHHHHHHHhc-CCccccCcCC--CC--CCCC-CCccccc-CCccccCCCCCCchhhhcccccccHHHHHHHHhCCC
Q 033761 9 PGNAKAGEKIFKTK-CAQCHTVEKG--AG--HKQG-PNLNGLF-GRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPK 81 (112)
Q Consensus 9 ~~~~~~G~~lf~~~-C~~CH~~~~~--g~--~~~g-P~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 81 (112)
++.+.+|+.+|.++ |..||+..-. .. ..-| +++.+-. ....-.-.+-+..|++.+.|.+.++++-...+.||+
T Consensus 534 t~~~~~Gr~iyi~egC~~CHsq~vr~~~~e~~r~G~~s~~~e~~~d~p~~~Gs~rtgpdl~~~g~~~~~~wh~~hl~~p~ 613 (712)
T PRK14485 534 TPLELEGRDLYIREGCYNCHSQMIRPFRSEVERYGEYSKAGEFVYDHPFLWGSKRTGPDLAREGGKYPDSWHYNHMEDPQ 613 (712)
T ss_pred ChHHHhhHHHHHHcCccccccccCCCCchhHHhcCCCCchhhhhccCCcccCCCCcCcchhhhcCCCChHHHHHHhcCch
Confidence 45678999999865 9999984311 00 0001 1111100 000001111223455656666667889999999999
Q ss_pred CCCCCCCCC-----CCCCCCHHHHHHHHHHHHhc
Q 033761 82 KYIPGTKMV-----FPGLKKPQDRADLIAYLKQS 110 (112)
Q Consensus 82 ~~~~~~~m~-----~~~~ls~~e~~~l~ayl~~l 110 (112)
...|++.|| +...++.+++.+-...++.+
T Consensus 614 ~~~p~s~mp~y~~l~~~~~~~~~~~~~~~~~~~~ 647 (712)
T PRK14485 614 STSPGSIMPAYPWLLENELDISDTPAKIKAMQTL 647 (712)
T ss_pred hcCCCCCCCCChhhhhCCCChHHHHHHHHHHHhc
Confidence 999999887 23445555666555555543
No 35
>COG2857 CYT1 Cytochrome c1 [Energy production and conversion]
Probab=98.26 E-value=2.6e-06 Score=59.07 Aligned_cols=42 Identities=36% Similarity=0.382 Sum_probs=34.9
Q ss_pred HHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhcc
Q 033761 70 EKTLYDYLLNPKKYIPGTKMVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 70 ~~~l~~~l~~~~~~~~~~~m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
...+..||.+|....+++.|+-...++|++.++|++||..+.
T Consensus 172 ~~~~~~~i~~p~~~k~~~~m~~~~~~tdq~~~dlvaYL~~~~ 213 (250)
T COG2857 172 EGELGIFIADPLKDKPGTYMPGNPALTDQEVKDLVAYLKWAA 213 (250)
T ss_pred hhhHhhhccCccccCCcCCCCCChhhHHHHHHHHHHHHHHcc
Confidence 334889999999999888786455678999999999998864
No 36
>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=98.11 E-value=1.5e-06 Score=56.01 Aligned_cols=20 Identities=35% Similarity=0.885 Sum_probs=15.0
Q ss_pred HHHHHHHHhcCCccccCcCC
Q 033761 13 KAGEKIFKTKCAQCHTVEKG 32 (112)
Q Consensus 13 ~~G~~lf~~~C~~CH~~~~~ 32 (112)
+.|+.|.+++|+.||+.+..
T Consensus 1 q~G~~Lv~~kC~~CHs~~~~ 20 (167)
T PF09098_consen 1 QDGEQLVQEKCAGCHSADYD 20 (167)
T ss_dssp --HHHHHHHCHCCTC-EECT
T ss_pred CcHHHHHHHHHHHhcCcccc
Confidence 36999999999999997653
No 37
>COG3245 CycB Cytochrome c5 [Energy production and conversion]
Probab=97.89 E-value=2.8e-05 Score=47.52 Aligned_cols=75 Identities=15% Similarity=0.256 Sum_probs=40.6
Q ss_pred HHHHHHHhcCCccccCcCCCCCCCCCCcccccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCCCCCCCCCCCCC-
Q 033761 14 AGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPKKYIPGTKMVFP- 92 (112)
Q Consensus 14 ~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~m~~~- 92 (112)
+|+.+|...|..||+..--| .|...+-. .|.- .+.-..+.|...-.++- |.|+|-.
T Consensus 49 ~Gk~vy~~tC~~CHa~~~~G----APk~GdkA--------aW~P-------RiaqG~dtL~~hai~Gf----nAMPpkG~ 105 (126)
T COG3245 49 EGKKVYGATCQACHAAGLPG----APKTGDKA--------AWAP-------RIAQGKDTLLDHAINGF----NAMPPKGG 105 (126)
T ss_pred ccchhHhhhhhHhccCCCCC----CCCCCchh--------hhhh-------HHHhchHHHHHHHhccc----cCCCCCCC
Confidence 39999999999999843211 23222110 0000 00002445555444433 2233322
Q ss_pred -CCCCHHHHHHHHHHHHhcc
Q 033761 93 -GLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 93 -~~ls~~e~~~l~ayl~~l~ 111 (112)
...||+|+.+.|.|+...+
T Consensus 106 ca~cSdDe~kAaId~M~~~~ 125 (126)
T COG3245 106 CADCSDDEVKAAIDFMAAAS 125 (126)
T ss_pred cCCCCHHHHHHHHHHHHhcc
Confidence 2369999999999997654
No 38
>COG2993 CcoO Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]
Probab=97.83 E-value=6.6e-06 Score=54.56 Aligned_cols=100 Identities=18% Similarity=0.190 Sum_probs=53.3
Q ss_pred ccHHHHHHHHHh-cCCccccCcCCCC----CCCC-CCccc--ccCCccccCCCCCCchhhhcccccccHHHHHHHHhCCC
Q 033761 10 GNAKAGEKIFKT-KCAQCHTVEKGAG----HKQG-PNLNG--LFGRQSGTTPGYSYSAANKNMAVNWEEKTLYDYLLNPK 81 (112)
Q Consensus 10 ~~~~~G~~lf~~-~C~~CH~~~~~g~----~~~g-P~l~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 81 (112)
+-...|+.+|-+ .|..||+.--.-. ..-| -++++ .+..++ .-.+-...+++...|...+.+|=...|.+|+
T Consensus 50 ~LeLaGR~IYIreGCy~CHSQmiRpfr~E~eRYGhySvA~Es~yDhPf-lWGSKRTGPDLaRVG~ryS~dWH~~Hl~~PR 128 (227)
T COG2993 50 PLELAGRDIYIREGCYVCHSQMIRPFRAEVERYGHYSVAGESVYDHPF-LWGSKRTGPDLARVGGRYSDDWHRAHLLDPR 128 (227)
T ss_pred HHHhccceeEeecccchhhhhccccchHHHHhhccceechhhhccCch-hhcCCccCcchhhhccccccHHHHHHccCch
Confidence 445689999976 5999998321100 0000 01110 000000 0001112334444455558889999999999
Q ss_pred CCCCCCCCCCCCCC--CHHHHHHHHHHHHhc
Q 033761 82 KYIPGTKMVFPGLK--KPQDRADLIAYLKQS 110 (112)
Q Consensus 82 ~~~~~~~m~~~~~l--s~~e~~~l~ayl~~l 110 (112)
.+.|...||.+..| ++-|++++.+=+.++
T Consensus 129 ~vVPeSiMPsY~~L~~~~ld~~d~~~~~~~~ 159 (227)
T COG2993 129 SVVPESIMPSYPWLFDNKLDVDDIGAELKAL 159 (227)
T ss_pred hcCccccCcccHHHhcCCCchHHHHHHHHhh
Confidence 99998888733332 233566666555544
No 39
>PF06537 DUF1111: Protein of unknown function (DUF1111); InterPro: IPR010538 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=97.76 E-value=2e-05 Score=59.08 Aligned_cols=22 Identities=32% Similarity=0.670 Sum_probs=18.7
Q ss_pred CccHHHHHHHHHh-cCCccccCc
Q 033761 9 PGNAKAGEKIFKT-KCAQCHTVE 30 (112)
Q Consensus 9 ~~~~~~G~~lf~~-~C~~CH~~~ 30 (112)
..++.+|++||.+ .|++||.+.
T Consensus 360 ~~~v~~G~~lF~~~GCa~CH~p~ 382 (499)
T PF06537_consen 360 DPQVLRGKQLFYQIGCASCHTPS 382 (499)
T ss_pred cHHHHHHHHHHHhcCCcccCCCc
Confidence 4678899999987 599999865
No 40
>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=97.76 E-value=2.2e-05 Score=46.44 Aligned_cols=27 Identities=33% Similarity=0.600 Sum_probs=18.5
Q ss_pred CCCCCccHHHHHHHHHh---------cCCccccCcC
Q 033761 5 DEAPPGNAKAGEKIFKT---------KCAQCHTVEK 31 (112)
Q Consensus 5 ~a~~~~~~~~G~~lf~~---------~C~~CH~~~~ 31 (112)
++....++++|+++|.+ .|++||+.+.
T Consensus 4 ~~~~~~sa~rG~~~f~~~~~~~g~~~sCasCH~~~p 39 (98)
T PF09086_consen 4 PAFAGFSAARGEAFFTSKHTGNGKEWSCASCHTADP 39 (98)
T ss_dssp CCTSS--HHHHHHHHH--ECCTTCECSCHHHH-SST
T ss_pred cccCCCCHHHHHHHHHccCCCCCCCCCcccccCCCc
Confidence 45667889999999963 2999999764
No 41
>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=97.70 E-value=1.5e-05 Score=54.19 Aligned_cols=25 Identities=20% Similarity=0.626 Sum_probs=20.1
Q ss_pred CCCCccHHHHHHHHHhcCCccccCc
Q 033761 6 EAPPGNAKAGEKIFKTKCAQCHTVE 30 (112)
Q Consensus 6 a~~~~~~~~G~~lf~~~C~~CH~~~ 30 (112)
....++++||.++|.+.|++||+..
T Consensus 9 ~~D~aslqRG~qvy~~~C~~CHsl~ 33 (219)
T PF02167_consen 9 SFDKASLQRGAQVYMEVCASCHSLK 33 (219)
T ss_dssp ---HHHHHHHHHHHHHTGGGTSBCT
T ss_pred cccHHHHHHHHHHHHHHHhhccccc
Confidence 4456788999999999999999965
No 42
>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=97.31 E-value=0.00082 Score=48.22 Aligned_cols=21 Identities=24% Similarity=0.499 Sum_probs=17.4
Q ss_pred HHHHHHHHHhcCCccccCcCC
Q 033761 12 AKAGEKIFKTKCAQCHTVEKG 32 (112)
Q Consensus 12 ~~~G~~lf~~~C~~CH~~~~~ 32 (112)
..+-+.++..+|+.||+.++.
T Consensus 213 e~rarpyL~~NC~~CH~p~g~ 233 (317)
T TIGR03806 213 AQRARAYLDVNCAHCHNPGGL 233 (317)
T ss_pred HHHHHHHHHhHHHhcCCCCcC
Confidence 467888999999999997643
No 43
>COG3748 Predicted membrane protein [Function unknown]
Probab=97.20 E-value=0.0015 Score=46.77 Aligned_cols=24 Identities=21% Similarity=0.199 Sum_probs=17.7
Q ss_pred CCCCCCC--CCCHHHHHHHHHHHHhc
Q 033761 87 TKMVFPG--LKKPQDRADLIAYLKQS 110 (112)
Q Consensus 87 ~~m~~~~--~ls~~e~~~l~ayl~~l 110 (112)
..||..+ .+||||+..|.+|+.+-
T Consensus 378 ~~MP~gNvt~mT~eER~ll~aW~e~~ 403 (407)
T COG3748 378 HAMPPGNVTQMTDEERALLAAWFESG 403 (407)
T ss_pred ccCCCcccccCCHHHHHHHHHHHHhc
Confidence 3565433 46999999999999763
No 44
>PF14376 Haem_bd: Haem-binding domain
Probab=97.14 E-value=0.0024 Score=40.47 Aligned_cols=97 Identities=11% Similarity=0.189 Sum_probs=46.3
Q ss_pred CccHHHHHHHHHhcCCccccCcCCCCCCCCCCcccccCCc-------cccCCCCCCchhhh--cccccccHHHHHHHHhC
Q 033761 9 PGNAKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQ-------SGTTPGYSYSAANK--NMAVNWEEKTLYDYLLN 79 (112)
Q Consensus 9 ~~~~~~G~~lf~~~C~~CH~~~~~g~~~~gP~l~~~~~~~-------~~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~ 79 (112)
....+.-+.+++..|-.||+.+- .-|=.+.+.... ......++++.-.. ...-....+.+...|.+
T Consensus 30 ~~~p~~v~~il~~~CydCHSn~T-----~~PwYa~i~p~s~l~~~dI~~Gr~~lNfs~~~~~~~~~~~~~l~~i~~~I~~ 104 (137)
T PF14376_consen 30 IKAPEEVKIILKNSCYDCHSNNT-----RYPWYANIAPASWLMEKDIKEGRRHLNFSEWGSYSKRKQEAKLAKIEEVIED 104 (137)
T ss_pred ccchHHHHHHHHccccccCCCCC-----CCccceecCchHHHHHHHHHHHHHHhCcchhhhcCcccCHHHHHHHHHHHHc
Confidence 34556778899889999999542 234333221100 00000111111000 00001133455555665
Q ss_pred CCCCCCC-CCCCCCCCCCHHHHHHHHHHHHhc
Q 033761 80 PKKYIPG-TKMVFPGLKKPQDRADLIAYLKQS 110 (112)
Q Consensus 80 ~~~~~~~-~~m~~~~~ls~~e~~~l~ayl~~l 110 (112)
+..-.+. .+|-....||++|+..|++|++..
T Consensus 105 g~MP~~~Y~~~H~~a~Ls~~ek~~Ll~Wi~~~ 136 (137)
T PF14376_consen 105 GEMPPPSYTLLHWEAKLSEEEKQALLNWIKEQ 136 (137)
T ss_pred CCCChHHHhhhCCCCCCCHHHHHHHHHHHHHc
Confidence 2211110 111234568999999999999763
No 45
>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=97.06 E-value=0.00047 Score=46.25 Aligned_cols=22 Identities=32% Similarity=0.688 Sum_probs=16.0
Q ss_pred CccHHHHHHHHHhcCCccccCc
Q 033761 9 PGNAKAGEKIFKTKCAQCHTVE 30 (112)
Q Consensus 9 ~~~~~~G~~lf~~~C~~CH~~~ 30 (112)
..+...-+.+|+.+|..||+.+
T Consensus 166 gfdf~AAk~L~~~KCNkCHTl~ 187 (233)
T PF10643_consen 166 GFDFAAAKALFDRKCNKCHTLK 187 (233)
T ss_dssp T--HHHHHHHHHHHTTSSS-SH
T ss_pred hhhHHHHHHHHHhhccccccHH
Confidence 3456678899999999999964
No 46
>COG1858 MauG Cytochrome c peroxidase [Inorganic ion transport and metabolism]
Probab=96.95 E-value=0.0043 Score=45.22 Aligned_cols=26 Identities=38% Similarity=0.646 Sum_probs=20.3
Q ss_pred CCCCCccHHHHHHHHH-h-cCCccccCc
Q 033761 5 DEAPPGNAKAGEKIFK-T-KCAQCHTVE 30 (112)
Q Consensus 5 ~a~~~~~~~~G~~lf~-~-~C~~CH~~~ 30 (112)
.+..+.+..+|.+||. . +|++||.-.
T Consensus 213 ~~aLT~~e~rGl~LF~~k~~C~aCH~g~ 240 (364)
T COG1858 213 DAALTEQEKRGLALFKGKANCAACHNGI 240 (364)
T ss_pred hhhcCHHHHHHHHHHccCCCchhhccCc
Confidence 3455678899999998 4 599999743
No 47
>KOG3052 consensus Cytochrome c1 [Energy production and conversion]
Probab=96.74 E-value=0.00037 Score=48.16 Aligned_cols=25 Identities=24% Similarity=0.679 Sum_probs=20.8
Q ss_pred CCCCccHHHHHHHHHhcCCccccCc
Q 033761 6 EAPPGNAKAGEKIFKTKCAQCHTVE 30 (112)
Q Consensus 6 a~~~~~~~~G~~lf~~~C~~CH~~~ 30 (112)
+.+-+.+.+|.++|++.|++||+.+
T Consensus 89 s~DhaSiRRGyqVYkqVCaaCHSm~ 113 (311)
T KOG3052|consen 89 SFDHASIRRGYQVYKQVCAACHSMD 113 (311)
T ss_pred cccHHHHhhhHHHHHHHHHHhhhhH
Confidence 4445678999999999999999944
No 48
>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=96.72 E-value=0.0024 Score=47.00 Aligned_cols=17 Identities=18% Similarity=0.661 Sum_probs=15.3
Q ss_pred HHHHHHHHhcCCccccC
Q 033761 13 KAGEKIFKTKCAQCHTV 29 (112)
Q Consensus 13 ~~G~~lf~~~C~~CH~~ 29 (112)
..|+.+|..+|+.||+.
T Consensus 322 ~~a~~ly~~~Cs~CH~~ 338 (386)
T TIGR02162 322 AYAKSMYNGACSMCHVQ 338 (386)
T ss_pred HHHHHHHhcchhhhcCC
Confidence 56999999999999985
No 49
>COG3258 Cytochrome c [Energy production and conversion]
Probab=96.56 E-value=0.0071 Score=42.14 Aligned_cols=16 Identities=19% Similarity=0.378 Sum_probs=13.7
Q ss_pred CHHHHHHHHHHHHhcc
Q 033761 96 KPQDRADLIAYLKQST 111 (112)
Q Consensus 96 s~~e~~~l~ayl~~l~ 111 (112)
+..|+.+|++|+.-|+
T Consensus 121 DspEmkAmlaY~kWL~ 136 (293)
T COG3258 121 DSPEMKAMLAYMKWLK 136 (293)
T ss_pred CCHHHHHHHHHHHHHH
Confidence 5689999999998775
No 50
>PRK15032 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional
Probab=96.25 E-value=0.0063 Score=44.87 Aligned_cols=17 Identities=24% Similarity=0.761 Sum_probs=15.1
Q ss_pred HHHHHHHHhcCCccccC
Q 033761 13 KAGEKIFKTKCAQCHTV 29 (112)
Q Consensus 13 ~~G~~lf~~~C~~CH~~ 29 (112)
..|+.+|+.+|+.||+.
T Consensus 319 ~ya~~ly~~~Cs~CHa~ 335 (390)
T PRK15032 319 AYADSLYNGTCNQCHGA 335 (390)
T ss_pred HHHHHHHhccchhhcCC
Confidence 46999999999999985
No 51
>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=95.55 E-value=0.02 Score=35.51 Aligned_cols=11 Identities=36% Similarity=1.168 Sum_probs=7.2
Q ss_pred HHhcCCccccC
Q 033761 19 FKTKCAQCHTV 29 (112)
Q Consensus 19 f~~~C~~CH~~ 29 (112)
|.+.|++||-.
T Consensus 1 Y~~eCgsCH~a 11 (120)
T PF09626_consen 1 YKEECGSCHMA 11 (120)
T ss_dssp -HHHTTSSS--
T ss_pred CccchhhccCc
Confidence 56789999974
No 52
>COG3488 Predicted thiol oxidoreductase [Energy production and conversion]
Probab=94.57 E-value=0.022 Score=41.22 Aligned_cols=22 Identities=36% Similarity=0.741 Sum_probs=18.2
Q ss_pred CccHHHHHHHHHh-cCCccccCc
Q 033761 9 PGNAKAGEKIFKT-KCAQCHTVE 30 (112)
Q Consensus 9 ~~~~~~G~~lf~~-~C~~CH~~~ 30 (112)
..++..|++||.+ .|++||.+.
T Consensus 348 dp~vl~GkkLF~~agC~aCH~pk 370 (481)
T COG3488 348 DPQVLAGKKLFAQAGCVACHTPK 370 (481)
T ss_pred ChhhhhhhHHHHhcCchhccCCc
Confidence 4577899999986 699999854
No 53
>PF03150 CCP_MauG: Di-haem cytochrome c peroxidase; InterPro: IPR004852 This is a group of distinct cytochrome c peroxidases (CCPs) that contain two haem groups. Similar to other cytochrome c peroxidases, they reduce hydrogen peroxide to water using c-type haem as an oxidizable substrate. However, since they possess two, instead of one, haem prosthetic groups, bacterial CCPs reduce hydrogen peroxide without the need to generate semi-stable free radicals. The two haem groups have significantly different redox potentials. The high potential (+320 mV) haem feeds electrons from electron shuttle proteins to the low potential (-330 mV) haem, where peroxide is reduced (indeed, the low potential site is known as the peroxidatic site) []. The CCP protein itself is structured into two domains, each containing one c-type haem group, with a calcium-binding site at the domain interface. This family also includes MauG proteins, whose similarity to di-haem CCP was previously recognised [].; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1IQC_A 2VHD_B 1EB7_A 3RN0_A 3SVW_B 3RMZ_A 3SJL_B 3PXW_A 3SLE_B 3PXS_A ....
Probab=93.98 E-value=0.01 Score=38.57 Aligned_cols=21 Identities=43% Similarity=0.842 Sum_probs=14.8
Q ss_pred ccHHHHHHHHHh---------cCCccccCc
Q 033761 10 GNAKAGEKIFKT---------KCAQCHTVE 30 (112)
Q Consensus 10 ~~~~~G~~lf~~---------~C~~CH~~~ 30 (112)
+.++-|+.||.. .|++||.++
T Consensus 3 ~~~~LGk~LF~D~~LS~~~~~SCasCH~~~ 32 (159)
T PF03150_consen 3 AKAALGKKLFFDPRLSGDGTVSCASCHDPE 32 (159)
T ss_dssp HHHHHHHHHHT-GGGSTTSS--HHHHS-TT
T ss_pred HHHHHHHHHhCCCccCCCcCcCchhhCCCc
Confidence 346789999943 499999876
No 54
>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=91.57 E-value=0.081 Score=37.67 Aligned_cols=22 Identities=32% Similarity=0.637 Sum_probs=16.7
Q ss_pred ccHHHHHHHHHh---------cCCccccCcC
Q 033761 10 GNAKAGEKIFKT---------KCAQCHTVEK 31 (112)
Q Consensus 10 ~~~~~G~~lf~~---------~C~~CH~~~~ 31 (112)
+.++-|+.||.. .|++||.++.
T Consensus 4 ~k~~LGk~LFfD~~LS~~~~~SCasCH~p~~ 34 (291)
T TIGR03791 4 EKAALGKALFFDPRLSRDGSMSCATCHNPGL 34 (291)
T ss_pred HHHHHHHHHhcCcccCCCCCcCchhcCCccc
Confidence 456789999931 4999998764
No 55
>COG2857 CYT1 Cytochrome c1 [Energy production and conversion]
Probab=90.54 E-value=0.047 Score=38.01 Aligned_cols=24 Identities=25% Similarity=0.767 Sum_probs=20.0
Q ss_pred CCccHHHHHHHHHhcCCccccCcC
Q 033761 8 PPGNAKAGEKIFKTKCAQCHTVEK 31 (112)
Q Consensus 8 ~~~~~~~G~~lf~~~C~~CH~~~~ 31 (112)
..++..+|..+|...|..||+...
T Consensus 39 d~~~lq~g~~~~~~~c~~chs~~~ 62 (250)
T COG2857 39 DKGSLQRGAQLYKEYCSACHSLKL 62 (250)
T ss_pred hhHHhhhceeeeecCChhhccccc
Confidence 346778999999999999999654
No 56
>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=90.33 E-value=0.17 Score=27.24 Aligned_cols=9 Identities=44% Similarity=1.106 Sum_probs=7.6
Q ss_pred CCccccCcC
Q 033761 23 CAQCHTVEK 31 (112)
Q Consensus 23 C~~CH~~~~ 31 (112)
|..||+.+.
T Consensus 1 C~~CHg~~~ 9 (59)
T PF07635_consen 1 CFSCHGPDK 9 (59)
T ss_pred CcCCCCCCC
Confidence 999999764
No 57
>COG1858 MauG Cytochrome c peroxidase [Inorganic ion transport and metabolism]
Probab=83.33 E-value=0.59 Score=34.35 Aligned_cols=22 Identities=36% Similarity=0.850 Sum_probs=17.2
Q ss_pred ccHHHHHHHHHh---------cCCccccCcC
Q 033761 10 GNAKAGEKIFKT---------KCAQCHTVEK 31 (112)
Q Consensus 10 ~~~~~G~~lf~~---------~C~~CH~~~~ 31 (112)
+.++-|+.||-. .|++||.+..
T Consensus 60 ~~~aLGk~LffDprLS~sg~~SC~sCH~~~~ 90 (364)
T COG1858 60 AKAALGKKLFFDPRLSASGTISCATCHNLAR 90 (364)
T ss_pred HHHHHHHHhhcCcccCCCCCcCchhhcCccc
Confidence 557889999932 4999998764
No 58
>PF06537 DUF1111: Protein of unknown function (DUF1111); InterPro: IPR010538 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=82.03 E-value=0.8 Score=35.05 Aligned_cols=18 Identities=22% Similarity=0.726 Sum_probs=14.0
Q ss_pred HHHhc-CCccccCcCCCCC
Q 033761 18 IFKTK-CAQCHTVEKGAGH 35 (112)
Q Consensus 18 lf~~~-C~~CH~~~~~g~~ 35 (112)
||... |.+||--+|.|..
T Consensus 66 LfN~~SC~sCH~~dGRG~p 84 (499)
T PF06537_consen 66 LFNARSCQSCHIKDGRGHP 84 (499)
T ss_pred hhhhhhHhhcccCCCCCCC
Confidence 77754 9999998877653
No 59
>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=79.59 E-value=1.8 Score=23.38 Aligned_cols=16 Identities=6% Similarity=0.220 Sum_probs=13.3
Q ss_pred CCCHHHHHHHHHHHHh
Q 033761 94 LKKPQDRADLIAYLKQ 109 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~~ 109 (112)
.+|++|+.+|++|..|
T Consensus 16 ~ft~~El~~i~~FY~S 31 (64)
T PF09832_consen 16 HFTEEELDAILAFYES 31 (64)
T ss_dssp HS-HHHHHHHHHHHHS
T ss_pred HCCHHHHHHHHHHHCC
Confidence 4689999999999976
No 60
>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=78.86 E-value=1.3 Score=20.80 Aligned_cols=10 Identities=40% Similarity=0.953 Sum_probs=7.6
Q ss_pred hcCCccccCc
Q 033761 21 TKCAQCHTVE 30 (112)
Q Consensus 21 ~~C~~CH~~~ 30 (112)
..|++||+..
T Consensus 20 tac~s~~grt 29 (36)
T PF08090_consen 20 TACGSCHGRT 29 (36)
T ss_pred hhhccCCCCc
Confidence 4699999843
No 61
>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=76.92 E-value=3.1 Score=30.14 Aligned_cols=23 Identities=30% Similarity=0.574 Sum_probs=14.3
Q ss_pred cCCccccCcCCCCCCCCCCccccc
Q 033761 22 KCAQCHTVEKGAGHKQGPNLNGLF 45 (112)
Q Consensus 22 ~C~~CH~~~~~g~~~~gP~l~~~~ 45 (112)
.|..||...+. ....||....+.
T Consensus 145 ~C~~CH~~~~~-~~piG~k~r~LN 167 (317)
T TIGR03806 145 QCKQCHQLAAD-IVPLGPKARQLN 167 (317)
T ss_pred HhHHhcCCCCC-ccccCcCHHHcC
Confidence 49999986432 234677655543
No 62
>COG3043 NapB Nitrate reductase cytochrome c-type subunit [Energy production and conversion]
Probab=75.50 E-value=1.8 Score=27.76 Aligned_cols=10 Identities=40% Similarity=1.002 Sum_probs=5.6
Q ss_pred CCccccCcCC
Q 033761 23 CAQCHTVEKG 32 (112)
Q Consensus 23 C~~CH~~~~~ 32 (112)
|.+||.++.+
T Consensus 129 ClQCHVPQaD 138 (155)
T COG3043 129 CLQCHVPQAD 138 (155)
T ss_pred eeeccccccc
Confidence 6666655443
No 63
>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=74.60 E-value=1.4 Score=29.93 Aligned_cols=14 Identities=43% Similarity=1.001 Sum_probs=9.6
Q ss_pred HHHHHHh---cCCcccc
Q 033761 15 GEKIFKT---KCAQCHT 28 (112)
Q Consensus 15 G~~lf~~---~C~~CH~ 28 (112)
=.++|-+ .|+.||-
T Consensus 166 ~~~~FLG~~l~CAqCHd 182 (208)
T PF07583_consen 166 VSRVFLGVRLQCAQCHD 182 (208)
T ss_pred HHHHHHhcccchhhccC
Confidence 3455654 5999996
No 64
>PRK11586 napB nitrate reductase cytochrome C550 subunit; Provisional
Probab=73.56 E-value=2.4 Score=27.16 Aligned_cols=11 Identities=36% Similarity=0.812 Sum_probs=7.5
Q ss_pred cCCccccCcCC
Q 033761 22 KCAQCHTVEKG 32 (112)
Q Consensus 22 ~C~~CH~~~~~ 32 (112)
.|..||.++.+
T Consensus 122 fCtQCHVPQad 132 (149)
T PRK11586 122 FCLQCHVPQAD 132 (149)
T ss_pred eeccccCcccc
Confidence 38888876543
No 65
>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=73.16 E-value=1.2 Score=27.98 Aligned_cols=16 Identities=25% Similarity=0.760 Sum_probs=12.7
Q ss_pred HHHHHHHhcCCccccC
Q 033761 14 AGEKIFKTKCAQCHTV 29 (112)
Q Consensus 14 ~G~~lf~~~C~~CH~~ 29 (112)
+.+++.+.+|.+||+.
T Consensus 96 ~~~~~~~~nC~~CH~~ 111 (135)
T TIGR03153 96 HSRKVVQENCVRCHAG 111 (135)
T ss_pred HHhHhhhcchHHHHhH
Confidence 4567778899999974
No 66
>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=69.72 E-value=1.9 Score=21.50 Aligned_cols=11 Identities=27% Similarity=0.809 Sum_probs=8.5
Q ss_pred hcCCccccCcC
Q 033761 21 TKCAQCHTVEK 31 (112)
Q Consensus 21 ~~C~~CH~~~~ 31 (112)
..|.+||.+.+
T Consensus 7 g~C~~CH~pH~ 17 (41)
T TIGR01905 7 GDCTSCHDPHG 17 (41)
T ss_pred CCccccccccc
Confidence 35999998754
No 67
>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=68.58 E-value=2.3 Score=26.93 Aligned_cols=11 Identities=36% Similarity=0.866 Sum_probs=5.4
Q ss_pred cCCccccCcCC
Q 033761 22 KCAQCHTVEKG 32 (112)
Q Consensus 22 ~C~~CH~~~~~ 32 (112)
.|..||.++.+
T Consensus 111 fC~qCHvpQ~d 121 (133)
T PF03892_consen 111 FCTQCHVPQAD 121 (133)
T ss_dssp SGGGT--B-BS
T ss_pred eeccccCcccc
Confidence 38888876543
No 68
>COG3488 Predicted thiol oxidoreductase [Energy production and conversion]
Probab=67.60 E-value=2.4 Score=31.14 Aligned_cols=28 Identities=25% Similarity=0.577 Sum_probs=18.6
Q ss_pred CCccHHHHH-HHHHhc-CCccccCcCCCCC
Q 033761 8 PPGNAKAGE-KIFKTK-CAQCHTVEKGAGH 35 (112)
Q Consensus 8 ~~~~~~~G~-~lf~~~-C~~CH~~~~~g~~ 35 (112)
++.++..|- -||+.+ |-.||--+|.|..
T Consensus 82 sSTqAsDGLGPlfN~raCqnCHvkDGRGrP 111 (481)
T COG3488 82 SSTQASDGLGPLFNTRACQNCHVKDGRGRP 111 (481)
T ss_pred cccccccccccccccccccccccccCCCCC
Confidence 344455554 466654 9999998887753
No 69
>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=64.44 E-value=1.3 Score=26.67 Aligned_cols=7 Identities=57% Similarity=1.474 Sum_probs=6.2
Q ss_pred cCCcccc
Q 033761 22 KCAQCHT 28 (112)
Q Consensus 22 ~C~~CH~ 28 (112)
.|++||.
T Consensus 71 ~Ca~CH~ 77 (101)
T PF07627_consen 71 ACASCHR 77 (101)
T ss_pred cHHHHhh
Confidence 4999997
No 70
>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=64.35 E-value=1.9 Score=28.27 Aligned_cols=8 Identities=38% Similarity=1.120 Sum_probs=6.9
Q ss_pred hcCCcccc
Q 033761 21 TKCAQCHT 28 (112)
Q Consensus 21 ~~C~~CH~ 28 (112)
..|..||+
T Consensus 147 ~~CL~CHg 154 (188)
T PF11845_consen 147 ESCLSCHG 154 (188)
T ss_pred hHHHHccC
Confidence 35999998
No 71
>PF09722 DUF2384: Protein of unknown function (DUF2384); InterPro: IPR024467 This domain is found predominantly in proteobacterial proteins. Its function in unknown.
Probab=60.97 E-value=8.1 Score=20.01 Aligned_cols=42 Identities=17% Similarity=0.337 Sum_probs=29.4
Q ss_pred cHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhcc
Q 033761 69 EEKTLYDYLLNPKKYIPGTKMVFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 69 ~~~~l~~~l~~~~~~~~~~~m~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
+.+....|+..|.....+ .-|..-+.|+..+..|..||..+.
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 677889999987765544 233222336899999999998753
No 72
>PF09699 Paired_CXXCH_1: Doubled CXXCH motif (Paired_CXXCH_1)
Probab=60.13 E-value=2.7 Score=20.58 Aligned_cols=10 Identities=30% Similarity=0.959 Sum_probs=8.0
Q ss_pred cCCccccCcC
Q 033761 22 KCAQCHTVEK 31 (112)
Q Consensus 22 ~C~~CH~~~~ 31 (112)
.|.+||.+.+
T Consensus 8 ~C~~CH~~H~ 17 (41)
T PF09699_consen 8 QCTSCHDPHG 17 (41)
T ss_pred ChhHhccccc
Confidence 4999998654
No 73
>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=59.63 E-value=4.6 Score=17.94 Aligned_cols=8 Identities=75% Similarity=1.564 Sum_probs=6.3
Q ss_pred cCCccccC
Q 033761 22 KCAQCHTV 29 (112)
Q Consensus 22 ~C~~CH~~ 29 (112)
.|+.||.+
T Consensus 18 rCa~C~~V 25 (25)
T PF06943_consen 18 RCACCHTV 25 (25)
T ss_pred ECCccCcC
Confidence 49999964
No 74
>TIGR01904 GSu_C4xC__C2xCH Geobacter sulfurreducens CxxxxCH...CXXCH domain. This domain occurs from three to eight times in eight different proteins of Geobacter sulfurreducens. The final CXXCH motif matches ProSite motif PS00190, the cytochrome c family heme-binding site signature, suggesting
Probab=58.38 E-value=4.3 Score=20.40 Aligned_cols=6 Identities=50% Similarity=1.475 Sum_probs=5.4
Q ss_pred cCCccc
Q 033761 22 KCAQCH 27 (112)
Q Consensus 22 ~C~~CH 27 (112)
.|.+||
T Consensus 37 ~C~~CH 42 (42)
T TIGR01904 37 GCNGCH 42 (42)
T ss_pred cCcccC
Confidence 599999
No 75
>PF13822 ACC_epsilon: Acyl-CoA carboxylase epsilon subunit
Probab=55.19 E-value=18 Score=19.54 Aligned_cols=18 Identities=22% Similarity=0.161 Sum_probs=14.9
Q ss_pred CCCHHHHHHHHHHHHhcc
Q 033761 94 LKKPQDRADLIAYLKQST 111 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~~l~ 111 (112)
.-|++|+.+|++-|..+.
T Consensus 10 nPt~eElAAL~aVlaa~~ 27 (62)
T PF13822_consen 10 NPTDEELAALTAVLAARA 27 (62)
T ss_pred CCCHHHHHHHHHHHHHHh
Confidence 358999999999987654
No 76
>PHA02119 hypothetical protein
Probab=55.16 E-value=8.8 Score=21.51 Aligned_cols=10 Identities=30% Similarity=0.750 Sum_probs=8.5
Q ss_pred HHHHHHHHhc
Q 033761 101 ADLIAYLKQS 110 (112)
Q Consensus 101 ~~l~ayl~~l 110 (112)
.+|++||++|
T Consensus 57 ~divdylr~l 66 (87)
T PHA02119 57 KDIVDYLRSL 66 (87)
T ss_pred HHHHHHHHHc
Confidence 4789999987
No 77
>PF12162 STAT1_TAZ2bind: STAT1 TAZ2 binding domain; InterPro: IPR022752 This entry represents the C-terminal domain of STAT1, which selectively binds the TAZ2 domain of CRB (CREB-binding protein) []. This group of eukaryotic proteins is approximately 20 amino acids in length, and is found in association with PF02865 from PFAM, PF00017 from PFAM, PF01017 from PFAM, PF02864 from PFAM. By binding to CRB, it becomes a transcriptional activator and can initiate transcription of certain genes. ; GO: 0003700 sequence-specific DNA binding transcription factor activity; PDB: 2KA6_B.
Probab=54.87 E-value=18 Score=15.69 Aligned_cols=18 Identities=22% Similarity=0.307 Sum_probs=10.5
Q ss_pred CCCCCCCCCCCHHHHHHHHHHH
Q 033761 86 GTKMVFPGLKKPQDRADLIAYL 107 (112)
Q Consensus 86 ~~~m~~~~~ls~~e~~~l~ayl 107 (112)
.++|| +|++|-..|..++
T Consensus 5 dnmmP----MSPddy~~l~~~V 22 (23)
T PF12162_consen 5 DNMMP----MSPDDYDELERMV 22 (23)
T ss_dssp TS-------S-HHHHHHHHHHH
T ss_pred hcccC----CCHHHHHHHHHhh
Confidence 35778 6799998887765
No 78
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=53.33 E-value=8.6 Score=19.68 Aligned_cols=14 Identities=14% Similarity=0.325 Sum_probs=11.5
Q ss_pred CCCHHHHHHHHHHH
Q 033761 94 LKKPQDRADLIAYL 107 (112)
Q Consensus 94 ~ls~~e~~~l~ayl 107 (112)
.||++|+.+|..|-
T Consensus 2 fLT~~El~elTG~k 15 (47)
T PF13986_consen 2 FLTDEELQELTGYK 15 (47)
T ss_pred CCCHHHHHHHHCCC
Confidence 47999999998764
No 79
>COG3005 TorC Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]
Probab=50.33 E-value=6.2 Score=26.43 Aligned_cols=16 Identities=19% Similarity=0.571 Sum_probs=10.7
Q ss_pred HHHHHhcCCccccCcC
Q 033761 16 EKIFKTKCAQCHTVEK 31 (112)
Q Consensus 16 ~~lf~~~C~~CH~~~~ 31 (112)
+..+-..|.+||..+.
T Consensus 130 kan~s~eCr~CH~~~~ 145 (190)
T COG3005 130 KANDSAECRNCHNFDA 145 (190)
T ss_pred Hhhcchhhhhccchhh
Confidence 3344446999998763
No 80
>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=50.07 E-value=6.6 Score=18.33 Aligned_cols=9 Identities=56% Similarity=1.276 Sum_probs=7.2
Q ss_pred cCCccccCc
Q 033761 22 KCAQCHTVE 30 (112)
Q Consensus 22 ~C~~CH~~~ 30 (112)
.|+.||.++
T Consensus 21 rCs~C~~vt 29 (31)
T TIGR01053 21 RCALCQTVN 29 (31)
T ss_pred ECCCCCeEe
Confidence 499999864
No 81
>PF11256 DUF3055: Protein of unknown function (DUF3055); InterPro: IPR021415 This family of proteins with unknown function appear to be restricted to Firmicutes.
Probab=47.52 E-value=22 Score=20.55 Aligned_cols=16 Identities=13% Similarity=0.256 Sum_probs=14.0
Q ss_pred CCHHHHHHHHHHHHhc
Q 033761 95 KKPQDRADLIAYLKQS 110 (112)
Q Consensus 95 ls~~e~~~l~ayl~~l 110 (112)
++++|.++|.+||..+
T Consensus 66 l~~eea~eL~~fl~~~ 81 (81)
T PF11256_consen 66 LSEEEAEELREFLYEL 81 (81)
T ss_pred CCHHHHHHHHHHHhhC
Confidence 4899999999999864
No 82
>CHL00037 petA cytochrome f
Probab=45.26 E-value=7.1 Score=28.07 Aligned_cols=7 Identities=57% Similarity=1.383 Sum_probs=6.0
Q ss_pred cCCcccc
Q 033761 22 KCAQCHT 28 (112)
Q Consensus 22 ~C~~CH~ 28 (112)
.|+.||-
T Consensus 55 VCANCHL 61 (320)
T CHL00037 55 VCANCHL 61 (320)
T ss_pred Eeecccc
Confidence 4999996
No 83
>PHA02902 putative IMV membrane protein; Provisional
Probab=44.35 E-value=27 Score=19.25 Aligned_cols=20 Identities=15% Similarity=0.202 Sum_probs=15.8
Q ss_pred CCCCCCCHHHHHHHHHHHHh
Q 033761 90 VFPGLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 90 ~~~~~ls~~e~~~l~ayl~~ 109 (112)
.|...||++|+.++-.++.+
T Consensus 49 ~F~D~lTpDQirAlHrlvT~ 68 (70)
T PHA02902 49 LFKDSLTPDQIKALHRLVSL 68 (70)
T ss_pred hhhccCCHHHHHHHHHHHhc
Confidence 37778999999998877643
No 84
>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=44.28 E-value=12 Score=21.27 Aligned_cols=31 Identities=16% Similarity=0.379 Sum_probs=20.5
Q ss_pred cHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHHH
Q 033761 69 EEKTLYDYLLNPKKYIPGTKMVFPGLKKPQDRADLIA 105 (112)
Q Consensus 69 ~~~~l~~~l~~~~~~~~~~~m~~~~~ls~~e~~~l~a 105 (112)
+.+...+|+.+|...... + -||++|+++|.+
T Consensus 15 ~~~~re~f~~dp~a~~~~----~--~Lt~eE~~al~~ 45 (77)
T cd07321 15 KPEVKERFKADPEAVLAE----Y--GLTPEEKAALLA 45 (77)
T ss_pred CHHHHHHHHhCHHHHHHH----c--CCCHHHHHHHHc
Confidence 466777888876643321 2 378999998863
No 85
>PRK02693 apocytochrome f; Reviewed
Probab=44.20 E-value=7.6 Score=27.70 Aligned_cols=7 Identities=57% Similarity=1.383 Sum_probs=6.0
Q ss_pred cCCcccc
Q 033761 22 KCAQCHT 28 (112)
Q Consensus 22 ~C~~CH~ 28 (112)
.|+.||-
T Consensus 48 VCANCHL 54 (312)
T PRK02693 48 VCANCHL 54 (312)
T ss_pred Eeecccc
Confidence 3999996
No 86
>COG3303 NrfA Formate-dependent nitrite reductase, periplasmic cytochrome c552 subunit [Inorganic ion transport and metabolism]
Probab=43.91 E-value=6.8 Score=29.27 Aligned_cols=17 Identities=35% Similarity=0.655 Sum_probs=12.4
Q ss_pred HHHHHHHhcCCccccCc
Q 033761 14 AGEKIFKTKCAQCHTVE 30 (112)
Q Consensus 14 ~G~~lf~~~C~~CH~~~ 30 (112)
+-..-|.+.|++||..+
T Consensus 324 nPf~~f~stCanCH~Qs 340 (501)
T COG3303 324 NPFDNFASTCANCHTQS 340 (501)
T ss_pred ChhHHHHHHHhhhhhhh
Confidence 34556777899999843
No 87
>PF13435 Cytochrome_C554: Cytochrome c554 and c-prime; PDB: 1BVB_A 1FT5_A 1FT6_A 1SP3_A.
Probab=42.67 E-value=12 Score=22.05 Aligned_cols=10 Identities=40% Similarity=0.992 Sum_probs=8.0
Q ss_pred hcCCccccCc
Q 033761 21 TKCAQCHTVE 30 (112)
Q Consensus 21 ~~C~~CH~~~ 30 (112)
..|..||...
T Consensus 49 ~~C~~CH~~~ 58 (130)
T PF13435_consen 49 DSCTSCHTPG 58 (130)
T ss_dssp CCCGGGSCCT
T ss_pred CcccccCCCc
Confidence 3699999865
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=41.73 E-value=65 Score=20.51 Aligned_cols=9 Identities=44% Similarity=1.102 Sum_probs=7.4
Q ss_pred cCCccccCc
Q 033761 22 KCAQCHTVE 30 (112)
Q Consensus 22 ~C~~CH~~~ 30 (112)
.|..||...
T Consensus 28 rC~~C~n~~ 36 (147)
T TIGR02826 28 GCKGCHSPE 36 (147)
T ss_pred CCCCCCChH
Confidence 599999864
No 89
>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=41.68 E-value=11 Score=19.95 Aligned_cols=8 Identities=50% Similarity=1.290 Sum_probs=7.0
Q ss_pred cCCccccC
Q 033761 22 KCAQCHTV 29 (112)
Q Consensus 22 ~C~~CH~~ 29 (112)
.|..||+.
T Consensus 14 ~C~~CH~~ 21 (65)
T PF14522_consen 14 NCASCHSD 21 (65)
T ss_dssp CGCCTSTT
T ss_pred ChhhhCCC
Confidence 69999985
No 90
>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=40.36 E-value=56 Score=20.89 Aligned_cols=36 Identities=8% Similarity=0.165 Sum_probs=24.7
Q ss_pred ccccccHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhc
Q 033761 64 MAVNWEEKTLYDYLLNPKKYIPGTKMVFPGLKKPQDRADLIAYLKQS 110 (112)
Q Consensus 64 ~~~~~~~~~l~~~l~~~~~~~~~~~m~~~~~ls~~e~~~l~ayl~~l 110 (112)
.-++|+.+.+.....+ |-+ .+|++|+..|..+|-..
T Consensus 23 ~LlIWT~eDV~~~a~g---------me~--~lTd~E~~aVL~~I~~~ 58 (139)
T PF07128_consen 23 ALLIWTREDVRALADG---------MEY--NLTDDEARAVLARIGDI 58 (139)
T ss_pred EEEEecHHHHHHHHhc---------CCC--CCCHHHHHHHHHHHhcC
Confidence 3467888888777331 322 26899999999988654
No 91
>COG5204 SPT4 Transcription elongation factor SPT4 [Transcription]
Probab=39.91 E-value=47 Score=19.89 Aligned_cols=35 Identities=17% Similarity=0.136 Sum_probs=19.5
Q ss_pred cHHHHHHHHhCCCCCCCC-CCCCCCCCCCHHHHHHHH
Q 033761 69 EEKTLYDYLLNPKKYIPG-TKMVFPGLKKPQDRADLI 104 (112)
Q Consensus 69 ~~~~l~~~l~~~~~~~~~-~~m~~~~~ls~~e~~~l~ 104 (112)
+..|..+|.+=. ...+| ..|-..+.|+++=+++|-
T Consensus 62 t~SWVakWqrid-~f~~GlYA~~V~G~L~edvve~L~ 97 (112)
T COG5204 62 TNSWVAKWQRID-EFRKGLYAMVVEGALSEDVVEDLE 97 (112)
T ss_pred cHHHHHHHhhhc-ccccceeEEEEcccCCHHHHHHHH
Confidence 455777776421 12222 134466788877777665
No 92
>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=39.56 E-value=16 Score=21.06 Aligned_cols=30 Identities=17% Similarity=0.261 Sum_probs=20.6
Q ss_pred cHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHH
Q 033761 69 EEKTLYDYLLNPKKYIPGTKMVFPGLKKPQDRADLI 104 (112)
Q Consensus 69 ~~~~l~~~l~~~~~~~~~~~m~~~~~ls~~e~~~l~ 104 (112)
+.+...+|+.+|..... .+ -||++|+.+|.
T Consensus 16 dp~~rerF~~DPea~~~----~~--gLt~eE~~aL~ 45 (81)
T cd07922 16 DPGLIERFQDDPSAVFE----EY--GLTPAERAALR 45 (81)
T ss_pred CHHHHHHHHHCHHHHHH----Hc--CCCHHHHHHHH
Confidence 67788888888764322 12 27899998875
No 93
>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=38.70 E-value=34 Score=18.30 Aligned_cols=18 Identities=11% Similarity=0.255 Sum_probs=14.8
Q ss_pred CCCHHHHHHHHHHHHhcc
Q 033761 94 LKKPQDRADLIAYLKQST 111 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~~l~ 111 (112)
.+++++...+++.||.++
T Consensus 3 ~~~~~~a~~~~~~LR~~K 20 (58)
T PF06883_consen 3 YVSPEEAEQIADQLRYLK 20 (58)
T ss_pred eecHHHHHHHHHHHHHHH
Confidence 357889999999998775
No 94
>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=37.95 E-value=13 Score=19.59 Aligned_cols=11 Identities=18% Similarity=0.555 Sum_probs=9.0
Q ss_pred cCCccccCcCC
Q 033761 22 KCAQCHTVEKG 32 (112)
Q Consensus 22 ~C~~CH~~~~~ 32 (112)
.|..||..+|.
T Consensus 24 IC~~C~~hNGl 34 (54)
T PF10058_consen 24 ICSKCFSHNGL 34 (54)
T ss_pred ECcccchhhcc
Confidence 49999998764
No 95
>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=37.81 E-value=45 Score=19.90 Aligned_cols=17 Identities=18% Similarity=0.085 Sum_probs=13.2
Q ss_pred CCCCCHHHHHHHHHHHH
Q 033761 92 PGLKKPQDRADLIAYLK 108 (112)
Q Consensus 92 ~~~ls~~e~~~l~ayl~ 108 (112)
...||++|+.+|++-|.
T Consensus 33 ~r~Ltd~ev~~Va~~L~ 49 (96)
T PF11829_consen 33 RRRLTDDEVAEVAAELA 49 (96)
T ss_dssp TTTS-HHHHHHHHHHHH
T ss_pred cccCCHHHHHHHHHHHH
Confidence 44689999999998874
No 96
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=36.71 E-value=14 Score=18.04 Aligned_cols=8 Identities=25% Similarity=0.933 Sum_probs=6.7
Q ss_pred cCCccccC
Q 033761 22 KCAQCHTV 29 (112)
Q Consensus 22 ~C~~CH~~ 29 (112)
.|.+|||+
T Consensus 21 ~C~~C~G~ 28 (41)
T PF13453_consen 21 VCPSCGGI 28 (41)
T ss_pred ECCCCCeE
Confidence 59999984
No 97
>PHA02681 ORF089 virion membrane protein; Provisional
Probab=36.50 E-value=37 Score=19.73 Aligned_cols=19 Identities=11% Similarity=0.102 Sum_probs=15.9
Q ss_pred CCCCCCHHHHHHHHHHHHh
Q 033761 91 FPGLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 91 ~~~~ls~~e~~~l~ayl~~ 109 (112)
|...||++|++++=.++.+
T Consensus 48 F~D~lTpDQVrAlHRlvTs 66 (92)
T PHA02681 48 FEDKMTDDQVRAFHALVTS 66 (92)
T ss_pred hhccCCHHHHHHHHHHHhC
Confidence 7778999999999888754
No 98
>PF15161 Neuropep_like: Neuropeptide-like
Probab=35.77 E-value=11 Score=20.23 Aligned_cols=8 Identities=38% Similarity=1.252 Sum_probs=6.7
Q ss_pred cCCccccC
Q 033761 22 KCAQCHTV 29 (112)
Q Consensus 22 ~C~~CH~~ 29 (112)
-|+.||..
T Consensus 15 PCVDCHAF 22 (65)
T PF15161_consen 15 PCVDCHAF 22 (65)
T ss_pred CchhhHHH
Confidence 49999984
No 99
>PF10955 DUF2757: Protein of unknown function (DUF2757); InterPro: IPR020115 This entry contains proteins with no known function.
Probab=35.76 E-value=10 Score=21.63 Aligned_cols=13 Identities=38% Similarity=0.846 Sum_probs=11.1
Q ss_pred CCCHHHHHHHHHH
Q 033761 94 LKKPQDRADLIAY 106 (112)
Q Consensus 94 ~ls~~e~~~l~ay 106 (112)
.||++|+++++.|
T Consensus 31 ~Lt~eEr~dmI~~ 43 (76)
T PF10955_consen 31 HLTPEERQDMISY 43 (76)
T ss_pred cCCHHHHhhheEE
Confidence 4789999999876
No 100
>PF02304 Phage_B: Scaffold protein B; InterPro: IPR003513 This is a family of proteins from single-stranded DNA bacteriophages. Scaffold proteins B and D are required for procapsid formation. Sixty copies of the internal scaffold protein B are found in the procapsid.; GO: 0019069 viral capsid assembly, 0046729 viral procapsid; PDB: 1CD3_B 1AL0_B.
Probab=35.29 E-value=24 Score=21.44 Aligned_cols=19 Identities=26% Similarity=0.600 Sum_probs=13.5
Q ss_pred ccHHHHHHHHHhc--CCcccc
Q 033761 10 GNAKAGEKIFKTK--CAQCHT 28 (112)
Q Consensus 10 ~~~~~G~~lf~~~--C~~CH~ 28 (112)
.+++.|+.+|..+ |+-|--
T Consensus 62 ~~iE~~ka~~~R~FG~A~~~d 82 (117)
T PF02304_consen 62 IDIEAGKAACARRFGCATCDD 82 (117)
T ss_dssp HHHHHHHHHHHHHHHSS--SC
T ss_pred HHHHHHHHHHHHHcCCCCcch
Confidence 4678899999874 999974
No 101
>COG0099 RpsM Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=34.79 E-value=47 Score=20.69 Aligned_cols=16 Identities=13% Similarity=0.135 Sum_probs=14.0
Q ss_pred CCCCHHHHHHHHHHHH
Q 033761 93 GLKKPQDRADLIAYLK 108 (112)
Q Consensus 93 ~~ls~~e~~~l~ayl~ 108 (112)
+.|||+|+..|..++.
T Consensus 46 ~eLteeei~~ir~~i~ 61 (121)
T COG0099 46 GELTEEEIERLRDAIQ 61 (121)
T ss_pred ccCCHHHHHHHHHHHH
Confidence 3589999999999987
No 102
>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=34.76 E-value=52 Score=21.10 Aligned_cols=23 Identities=17% Similarity=0.225 Sum_probs=19.7
Q ss_pred CCCCCCCHHHHHHHHHHHHhccC
Q 033761 90 VFPGLKKPQDRADLIAYLKQSTA 112 (112)
Q Consensus 90 ~~~~~ls~~e~~~l~ayl~~l~~ 112 (112)
+|.+...|.++..|..||.+|++
T Consensus 137 ~f~~~~~D~~L~~l~~~L~~l~~ 159 (162)
T TIGR02251 137 SWFGDPNDTELLNLIPFLEGLRF 159 (162)
T ss_pred CCCCCCCHHHHHHHHHHHHHHhc
Confidence 57777789999999999998864
No 103
>PHA00003 B internal scaffolding protein
Probab=34.38 E-value=30 Score=21.10 Aligned_cols=19 Identities=26% Similarity=0.536 Sum_probs=15.2
Q ss_pred ccHHHHHHHHHhc--CCcccc
Q 033761 10 GNAKAGEKIFKTK--CAQCHT 28 (112)
Q Consensus 10 ~~~~~G~~lf~~~--C~~CH~ 28 (112)
.+++.|+.+|... |+-|--
T Consensus 65 ~~iEagk~~c~RrFGgAtcdd 85 (120)
T PHA00003 65 ADIEAGKAICARRFGGATCDD 85 (120)
T ss_pred HHHHHHHHHHHHHcCCCCcch
Confidence 4678899999874 999974
No 104
>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=34.20 E-value=43 Score=19.43 Aligned_cols=14 Identities=7% Similarity=0.318 Sum_probs=12.2
Q ss_pred CHHHHHHHHHHHHh
Q 033761 96 KPQDRADLIAYLKQ 109 (112)
Q Consensus 96 s~~e~~~l~ayl~~ 109 (112)
||+|+++++.|.-+
T Consensus 58 SDeEm~AMlsyy~~ 71 (91)
T cd06395 58 SDEEMKAMLSYYCS 71 (91)
T ss_pred chHHHHHHHHHHHH
Confidence 89999999999754
No 105
>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=34.16 E-value=15 Score=20.07 Aligned_cols=8 Identities=38% Similarity=1.161 Sum_probs=6.7
Q ss_pred cCCccccC
Q 033761 22 KCAQCHTV 29 (112)
Q Consensus 22 ~C~~CH~~ 29 (112)
.|..||+.
T Consensus 8 ~C~~CH~~ 15 (80)
T PF14537_consen 8 NCVDCHGP 15 (80)
T ss_dssp TGGGTSSS
T ss_pred ChhHhCCC
Confidence 69999974
No 106
>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=33.87 E-value=24 Score=21.46 Aligned_cols=31 Identities=6% Similarity=0.175 Sum_probs=20.0
Q ss_pred cHHHHHHHHhCCCCCCCCCCCCCCCCCCHHHHHHHHH
Q 033761 69 EEKTLYDYLLNPKKYIPGTKMVFPGLKKPQDRADLIA 105 (112)
Q Consensus 69 ~~~~l~~~l~~~~~~~~~~~m~~~~~ls~~e~~~l~a 105 (112)
+.++..+|+.||..+... + -||+||+++|.+
T Consensus 25 ~a~~Re~F~aD~eAy~~~----~--gLTeEe~~AV~~ 55 (106)
T cd07921 25 KAENREAFKADEEAYCDK----F--GLTEEQKQAVLD 55 (106)
T ss_pred CHHHHHHHHhCHHHHHHH----c--CCCHHHHHHHHh
Confidence 456777787776643221 2 278999998863
No 107
>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=33.20 E-value=60 Score=19.55 Aligned_cols=19 Identities=37% Similarity=0.475 Sum_probs=15.7
Q ss_pred CCCCHHHHHHHHHHHHhcc
Q 033761 93 GLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 93 ~~ls~~e~~~l~ayl~~l~ 111 (112)
+..|++++.+|.+||...+
T Consensus 68 gs~tee~R~~v~~WL~~~~ 86 (101)
T PF04320_consen 68 GSCTEEDRAAVEAWLKARP 86 (101)
T ss_pred CCCCHHHHHHHHHHHHhCC
Confidence 4569999999999998653
No 108
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=32.06 E-value=47 Score=21.33 Aligned_cols=17 Identities=35% Similarity=0.401 Sum_probs=14.4
Q ss_pred CCCCHHHHHHHHHHHHh
Q 033761 93 GLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 93 ~~ls~~e~~~l~ayl~~ 109 (112)
+.||.+|++.|.+||+.
T Consensus 31 ~elT~eEl~lv~~ylkR 47 (146)
T PF07295_consen 31 GELTREELALVSAYLKR 47 (146)
T ss_pred hhcCHHHHHHHHHHHHH
Confidence 35799999999999963
No 109
>cd04860 AE_Prim_S AE_Prim_S: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. Primases are DNA-dependent RNA polymerases which synthesis the short RNA primers required for DNA replication. In addition to its catalytic role in replication, DNA primase may play a role in coupling replication to DNA damage repair and in checkpoint control during S phase. In eukaryotes, this small catalytically active primase subunit (p50) and a larger primase subunit (p60), referred to jointly as the core primase, associate with the B subunit and the DNA polymerase alpha subunit in a complex, called Pol alpha-pri. The function of the larger primase subunit is unclear. Included in this group are Pfu41 and Pfu46, these two proteins comprise the primase complex of the archaea Pyrococcus furiosus; Pfu41 and Pfu46 have sequence identity to the eukaryotic p50 and p60 primase proteins respectively. Pfu41 preferentially uses dNTPs as substrate. Pfu46 regulat
Probab=31.91 E-value=46 Score=23.02 Aligned_cols=17 Identities=18% Similarity=0.442 Sum_probs=14.7
Q ss_pred CCCHHHHHHHHHHHHhc
Q 033761 94 LKKPQDRADLIAYLKQS 110 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~~l 110 (112)
.|+++++.+|+.||...
T Consensus 150 ~L~~~~R~~Iv~Yl~~~ 166 (232)
T cd04860 150 KLDSDERREIVDYLNGI 166 (232)
T ss_pred hCCHHHHHHHHHHHHHh
Confidence 47999999999999754
No 110
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=31.63 E-value=43 Score=17.70 Aligned_cols=14 Identities=21% Similarity=0.534 Sum_probs=11.9
Q ss_pred CHHHHHHHHHHHHh
Q 033761 96 KPQDRADLIAYLKQ 109 (112)
Q Consensus 96 s~~e~~~l~ayl~~ 109 (112)
..+.+..|+.|||+
T Consensus 12 ~~e~L~~l~~YLR~ 25 (55)
T PF13821_consen 12 PEERLDKLLSYLRE 25 (55)
T ss_pred HHHHHHHHHHHHHh
Confidence 47888999999986
No 111
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=31.59 E-value=41 Score=16.70 Aligned_cols=17 Identities=24% Similarity=0.583 Sum_probs=13.3
Q ss_pred HHHHHHHHHhcCCcccc
Q 033761 12 AKAGEKIFKTKCAQCHT 28 (112)
Q Consensus 12 ~~~G~~lf~~~C~~CH~ 28 (112)
..+|..+....|..|..
T Consensus 9 LL~G~~ML~~~Cp~C~~ 25 (41)
T PF06677_consen 9 LLQGWTMLDEHCPDCGT 25 (41)
T ss_pred HHHhHhHhcCccCCCCC
Confidence 45688888888999965
No 112
>PRK11659 cytochrome c nitrite reductase pentaheme subunit; Provisional
Probab=31.50 E-value=14 Score=24.48 Aligned_cols=10 Identities=40% Similarity=1.158 Sum_probs=8.4
Q ss_pred cCCccccCcC
Q 033761 22 KCAQCHTVEK 31 (112)
Q Consensus 22 ~C~~CH~~~~ 31 (112)
.|++||.+-+
T Consensus 134 ~C~~CH~~H~ 143 (183)
T PRK11659 134 TCASCHSLHP 143 (183)
T ss_pred chhhhhhccc
Confidence 5999999764
No 113
>PF04674 Phi_1: Phosphate-induced protein 1 conserved region; InterPro: IPR006766 This entry represents a family of conserved plant proteins. A conserved region in these proteins was identified in a phosphate-induced protein of unknown function [].
Probab=31.26 E-value=45 Score=23.80 Aligned_cols=21 Identities=19% Similarity=0.363 Sum_probs=17.0
Q ss_pred CCCCCCHHHHHHHHHHHHhcc
Q 033761 91 FPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 91 ~~~~ls~~e~~~l~ayl~~l~ 111 (112)
|++..++.|+.-|.+||++|+
T Consensus 19 WYG~ftp~QkaiI~DFl~SLs 39 (273)
T PF04674_consen 19 WYGRFTPAQKAIIRDFLRSLS 39 (273)
T ss_pred EeeCCCHHHHHHHHHHHHhcC
Confidence 344568999999999999986
No 114
>PF14769 CLAMP: Flagellar C1a complex subunit C1a-32
Probab=30.57 E-value=63 Score=19.02 Aligned_cols=17 Identities=18% Similarity=0.415 Sum_probs=14.5
Q ss_pred CCCCHHHHHHHHHHHHh
Q 033761 93 GLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 93 ~~ls~~e~~~l~ayl~~ 109 (112)
++.|.+|+.+|++|+.+
T Consensus 62 ~iFs~~~~~~i~~y~~~ 78 (101)
T PF14769_consen 62 GIFSVDQVKAIIDYFHN 78 (101)
T ss_pred CcCCHHHHHHHHHHHHH
Confidence 46799999999999864
No 115
>KOG1605 consensus TFIIF-interacting CTD phosphatase, including NLI-interacting factor (involved in RNA polymerase II regulation) [Transcription]
Probab=30.43 E-value=94 Score=22.03 Aligned_cols=22 Identities=9% Similarity=0.141 Sum_probs=18.7
Q ss_pred CCCCCCCHHHHHHHHHHHHhcc
Q 033761 90 VFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 90 ~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
+|..-.+|.|+-.|+-||.+|.
T Consensus 226 sw~~d~~D~eLL~LlpfLe~L~ 247 (262)
T KOG1605|consen 226 SWFDDPTDTELLKLLPFLEALA 247 (262)
T ss_pred ccccCCChHHHHHHHHHHHHhc
Confidence 5666678999999999999875
No 116
>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=30.15 E-value=25 Score=26.81 Aligned_cols=10 Identities=40% Similarity=1.039 Sum_probs=7.9
Q ss_pred cCCccccCcC
Q 033761 22 KCAQCHTVEK 31 (112)
Q Consensus 22 ~C~~CH~~~~ 31 (112)
.|+.||.+..
T Consensus 122 gCadCHd~es 131 (439)
T TIGR03152 122 GCADCHDTTS 131 (439)
T ss_pred ChhhcCCCcc
Confidence 4999998654
No 117
>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=30.05 E-value=72 Score=15.15 Aligned_cols=13 Identities=23% Similarity=0.693 Sum_probs=11.4
Q ss_pred cccHHHHHHHHhC
Q 033761 67 NWEEKTLYDYLLN 79 (112)
Q Consensus 67 ~~~~~~l~~~l~~ 79 (112)
.|+.+.|..||..
T Consensus 3 tWs~~~L~~wL~~ 15 (38)
T PF10281_consen 3 TWSDSDLKSWLKS 15 (38)
T ss_pred CCCHHHHHHHHHH
Confidence 4899999999976
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=29.27 E-value=18 Score=22.93 Aligned_cols=10 Identities=50% Similarity=1.192 Sum_probs=8.1
Q ss_pred cCCccccCcC
Q 033761 22 KCAQCHTVEK 31 (112)
Q Consensus 22 ~C~~CH~~~~ 31 (112)
.|.+||++-+
T Consensus 111 ~C~~CH~~H~ 120 (145)
T TIGR03146 111 TCASCHTLHP 120 (145)
T ss_pred Chhhhccccc
Confidence 4999998763
No 119
>PF07095 IgaA: Intracellular growth attenuator protein IgaA; InterPro: IPR010771 This family consists of several bacterial intracellular growth attenuator (IgaA) proteins. IgaA is involved in negative control of bacterial proliferation within fibroblasts. IgaA is homologous to the Escherichia coli YrfF and Proteus mirabilis UmoB proteins. Whereas the biological function of YrfF is currently unknown, UmoB has been shown elsewhere to act as a positive regulator of FlhDC, the master regulator of flagella and swarming. FlhDC has been shown to repress cell division during P. mirabilis swarming, suggesting that UmoB could repress cell division via FlhDC. This biological function, if maintained in Salmonella enterica, could sustain a putative negative control of cell division and growth exerted by IgaA in intracellular bacteria [].; GO: 0009276 Gram-negative-bacterium-type cell wall, 0016021 integral to membrane
Probab=29.19 E-value=95 Score=25.19 Aligned_cols=22 Identities=18% Similarity=0.188 Sum_probs=17.6
Q ss_pred CCCCCCCHHHHHHHHHHHHhcc
Q 033761 90 VFPGLKKPQDRADLIAYLKQST 111 (112)
Q Consensus 90 ~~~~~ls~~e~~~l~ayl~~l~ 111 (112)
|....|+++|..+|..||..+.
T Consensus 41 ~~~RKLt~eEr~aIe~YL~~~~ 62 (705)
T PF07095_consen 41 PTHRKLTAEERQAIEQYLNQLN 62 (705)
T ss_pred CCCCCCCHHHHHHHHHHHHHhh
Confidence 3445789999999999998543
No 120
>CHL00137 rps13 ribosomal protein S13; Validated
Probab=29.10 E-value=64 Score=20.03 Aligned_cols=15 Identities=7% Similarity=-0.015 Sum_probs=13.6
Q ss_pred CCCHHHHHHHHHHHH
Q 033761 94 LKKPQDRADLIAYLK 108 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~ 108 (112)
.||++|+..|..+|.
T Consensus 47 ~Lt~~qi~~l~~~i~ 61 (122)
T CHL00137 47 DLTDEQISALREIIE 61 (122)
T ss_pred cCCHHHHHHHHHHHH
Confidence 579999999999996
No 121
>CHL00136 rpl31 ribosomal protein L31; Validated
Probab=29.07 E-value=24 Score=19.58 Aligned_cols=9 Identities=11% Similarity=0.054 Sum_probs=7.0
Q ss_pred hcCCccccC
Q 033761 21 TKCAQCHTV 29 (112)
Q Consensus 21 ~~C~~CH~~ 29 (112)
..|+.||-.
T Consensus 36 dv~s~~HPf 44 (68)
T CHL00136 36 DIWSGNHPF 44 (68)
T ss_pred EeCCCCCcc
Confidence 469999963
No 122
>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=29.05 E-value=58 Score=15.73 Aligned_cols=15 Identities=40% Similarity=0.550 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHhcc
Q 033761 97 PQDRADLIAYLKQST 111 (112)
Q Consensus 97 ~~e~~~l~ayl~~l~ 111 (112)
++|+++|.+|-++|.
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 678999999887764
No 123
>TIGR03631 bact_S13 30S ribosomal protein S13. This model describes bacterial ribosomal protein S13, to the exclusion of the homologous archaeal S13P and eukaryotic ribosomal protein S18. This model identifies some (but not all) instances of chloroplast and mitochondrial S13, which is of bacterial type.
Probab=28.88 E-value=63 Score=19.72 Aligned_cols=16 Identities=0% Similarity=-0.087 Sum_probs=13.9
Q ss_pred CCCCHHHHHHHHHHHH
Q 033761 93 GLKKPQDRADLIAYLK 108 (112)
Q Consensus 93 ~~ls~~e~~~l~ayl~ 108 (112)
+.|+++|+..|..+|.
T Consensus 44 ~~L~~~qi~~l~~~l~ 59 (113)
T TIGR03631 44 KDLTEEELNAIREEIE 59 (113)
T ss_pred ccCCHHHHHHHHHHHH
Confidence 3579999999999995
No 124
>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=28.27 E-value=28 Score=23.24 Aligned_cols=9 Identities=33% Similarity=1.069 Sum_probs=7.6
Q ss_pred cCCccccCc
Q 033761 22 KCAQCHTVE 30 (112)
Q Consensus 22 ~C~~CH~~~ 30 (112)
.|..||.+.
T Consensus 77 ~C~dCH~ph 85 (185)
T TIGR02161 77 TCPDCHVPH 85 (185)
T ss_pred cCcccCCCC
Confidence 599999875
No 125
>PF12123 Amidase02_C: N-acetylmuramoyl-l-alanine amidase; InterPro: IPR021976 This domain is found in bacteria and viruses. This domain is about 50 amino acids in length. This domain is classified with the enzyme classification code 3.5.1.28 from EC. This domain is the C-terminal of the enzyme which hydrolyses the link between N-acetylmuramoyl residues and L-amino acid residues in certain cell-wall glycopeptides. ; PDB: 2L48_B.
Probab=28.09 E-value=74 Score=16.16 Aligned_cols=17 Identities=12% Similarity=0.192 Sum_probs=11.6
Q ss_pred CCCCHHHHHHHHHHHHh
Q 033761 93 GLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 93 ~~ls~~e~~~l~ayl~~ 109 (112)
+.+|+.|++.+.+||..
T Consensus 22 ~~~s~~~L~k~~~wld~ 38 (45)
T PF12123_consen 22 DPLSDAELDKFTAWLDE 38 (45)
T ss_dssp ----HHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHh
Confidence 45789999999999864
No 126
>PRK11032 hypothetical protein; Provisional
Probab=27.99 E-value=62 Score=21.17 Aligned_cols=17 Identities=6% Similarity=0.073 Sum_probs=14.4
Q ss_pred CCCCHHHHHHHHHHHHh
Q 033761 93 GLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 93 ~~ls~~e~~~l~ayl~~ 109 (112)
+.||.+|++.|.+||+.
T Consensus 41 ~elT~dEl~lv~~ylkR 57 (160)
T PRK11032 41 GELTRDEVDLITRAVRR 57 (160)
T ss_pred HhcCHHHHHHHHHHHHH
Confidence 35799999999999963
No 127
>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=27.98 E-value=11 Score=22.47 Aligned_cols=9 Identities=33% Similarity=0.922 Sum_probs=6.0
Q ss_pred cCCccccCc
Q 033761 22 KCAQCHTVE 30 (112)
Q Consensus 22 ~C~~CH~~~ 30 (112)
.|+.||..=
T Consensus 53 aCs~CHd~i 61 (94)
T PF07102_consen 53 ACSACHDEI 61 (94)
T ss_dssp E-HHHHHHH
T ss_pred hHHHHHHHH
Confidence 499999743
No 128
>PRK00019 rpmE 50S ribosomal protein L31; Reviewed
Probab=27.85 E-value=26 Score=19.69 Aligned_cols=9 Identities=33% Similarity=1.113 Sum_probs=7.0
Q ss_pred hcCCccccC
Q 033761 21 TKCAQCHTV 29 (112)
Q Consensus 21 ~~C~~CH~~ 29 (112)
..|+.||-.
T Consensus 36 di~s~~HPF 44 (72)
T PRK00019 36 DVCSKCHPF 44 (72)
T ss_pred EeCCCCCCc
Confidence 469999963
No 129
>PRK11125 nrfA cytochrome c nitrite reductase subunit c552; Provisional
Probab=27.63 E-value=29 Score=26.76 Aligned_cols=10 Identities=40% Similarity=1.042 Sum_probs=7.5
Q ss_pred cCCccccCcC
Q 033761 22 KCAQCHTVEK 31 (112)
Q Consensus 22 ~C~~CH~~~~ 31 (112)
.|+.||....
T Consensus 160 ~CadCHd~~~ 169 (480)
T PRK11125 160 GCADCHDTAS 169 (480)
T ss_pred ChhhcCCCcc
Confidence 3999998654
No 130
>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=27.59 E-value=15 Score=23.84 Aligned_cols=18 Identities=33% Similarity=0.625 Sum_probs=11.6
Q ss_pred HHHHHHHHhc----CCccccCc
Q 033761 13 KAGEKIFKTK----CAQCHTVE 30 (112)
Q Consensus 13 ~~G~~lf~~~----C~~CH~~~ 30 (112)
.+.+..+..+ |..||+..
T Consensus 113 ~~~~~~~~~~~~~~C~~CH~~~ 134 (173)
T PF03264_consen 113 EDSWKRFKANDDSTCLNCHSDL 134 (173)
T ss_dssp -HHHHHHHHH---HHHHHCHHH
T ss_pred HHHHHHHHhhhcccCcccCCCc
Confidence 3455555544 99999854
No 131
>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=27.23 E-value=32 Score=26.16 Aligned_cols=9 Identities=33% Similarity=1.187 Sum_probs=7.5
Q ss_pred HhcCCcccc
Q 033761 20 KTKCAQCHT 28 (112)
Q Consensus 20 ~~~C~~CH~ 28 (112)
...|..||.
T Consensus 272 ~~sC~~CH~ 280 (434)
T PF02335_consen 272 ENSCQTCHS 280 (434)
T ss_dssp HHCTTTTST
T ss_pred hhHHhhhcC
Confidence 357999997
No 132
>PRK10617 cytochrome c-type protein NapC; Provisional
Probab=27.17 E-value=30 Score=23.45 Aligned_cols=10 Identities=30% Similarity=1.002 Sum_probs=8.0
Q ss_pred cCCccccCcC
Q 033761 22 KCAQCHTVEK 31 (112)
Q Consensus 22 ~C~~CH~~~~ 31 (112)
.|..||.+.+
T Consensus 86 ~C~DCH~Ph~ 95 (200)
T PRK10617 86 TCPDCHVPHE 95 (200)
T ss_pred cCcccCCCCc
Confidence 5999998753
No 133
>cd03271 ABC_UvrA_II The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=27.15 E-value=28 Score=24.42 Aligned_cols=16 Identities=19% Similarity=0.196 Sum_probs=11.7
Q ss_pred CCHHHHHHHHHHHHhc
Q 033761 95 KKPQDRADLIAYLKQS 110 (112)
Q Consensus 95 ls~~e~~~l~ayl~~l 110 (112)
|+.+++..|...|+.+
T Consensus 203 LD~~~~~~l~~~L~~l 218 (261)
T cd03271 203 LHFHDVKKLLEVLQRL 218 (261)
T ss_pred CCHHHHHHHHHHHHHH
Confidence 5677888887777665
No 134
>KOG0262 consensus RNA polymerase I, large subunit [Transcription]
Probab=26.77 E-value=1.5e+02 Score=26.26 Aligned_cols=52 Identities=15% Similarity=0.236 Sum_probs=36.8
Q ss_pred chhhhcccccccHHHHHHHHhCCCCCCCCC--------CCCCCCCCCHHHHHHHHHHHHh
Q 033761 58 SAANKNMAVNWEEKTLYDYLLNPKKYIPGT--------KMVFPGLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 58 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~--------~m~~~~~ls~~e~~~l~ayl~~ 109 (112)
.-+..+....||.+.|+..+.++....||. .+....-++++++.+|+.=|.+
T Consensus 477 KLTyPepVt~~NV~elr~aViNGP~~hPGA~~iqd~dg~~t~l~~~~~~qR~alA~qLLt 536 (1640)
T KOG0262|consen 477 KLTYPEPVTPWNVNELRKAVINGPDVHPGATYIQDEDGTLTLLSPMTDEQREALANQLLT 536 (1640)
T ss_pred hccCCCcCCcccHHHHHHHHhcCCCCCCCcceeecCCCceeecCCCCHHHHHHHHHHhhc
Confidence 333444556799999999998887666552 3333334689999999988876
No 135
>PF13099 DUF3944: Domain of unknown function (DUF3944)
Probab=26.77 E-value=30 Score=16.66 Aligned_cols=15 Identities=27% Similarity=0.275 Sum_probs=12.4
Q ss_pred CCCHHHHHHHHHHHH
Q 033761 94 LKKPQDRADLIAYLK 108 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~ 108 (112)
..|.+|+.+|+.+|-
T Consensus 12 ~cs~edL~~L~~~Lt 26 (35)
T PF13099_consen 12 ECSNEDLKDLVDILT 26 (35)
T ss_pred HCCHHHHHHHHHHHh
Confidence 468999999998874
No 136
>PRK05179 rpsM 30S ribosomal protein S13; Validated
Probab=26.58 E-value=71 Score=19.81 Aligned_cols=16 Identities=0% Similarity=-0.035 Sum_probs=14.0
Q ss_pred CCCHHHHHHHHHHHHh
Q 033761 94 LKKPQDRADLIAYLKQ 109 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~~ 109 (112)
.||++|+..|.++|..
T Consensus 47 ~L~~~qi~~l~~~i~~ 62 (122)
T PRK05179 47 DLTDEELDKIREEIDK 62 (122)
T ss_pred cCCHHHHHHHHHHHHh
Confidence 5799999999999963
No 137
>TIGR03629 arch_S13P archaeal ribosomal protein S13P. This model describes exclusively the archaeal ribosomal protein S13P. It excludes the homologous eukaryotic 40S ribosomal protein S18 and bacterial 30S ribosomal protein S13.
Probab=26.08 E-value=76 Score=20.33 Aligned_cols=16 Identities=6% Similarity=0.065 Sum_probs=14.4
Q ss_pred CCCHHHHHHHHHHHHh
Q 033761 94 LKKPQDRADLIAYLKQ 109 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~~ 109 (112)
.||++|+..|..||..
T Consensus 51 ~Lt~~qi~~l~~~i~~ 66 (144)
T TIGR03629 51 YLDDEEIEKLEEAVEN 66 (144)
T ss_pred cCCHHHHHHHHHHHHh
Confidence 5899999999999975
No 138
>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=25.52 E-value=1.4e+02 Score=20.02 Aligned_cols=18 Identities=28% Similarity=0.290 Sum_probs=15.4
Q ss_pred CCCHHHHHHHHHHHHhcc
Q 033761 94 LKKPQDRADLIAYLKQST 111 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~~l~ 111 (112)
..+|.|+.+|..||..+.
T Consensus 162 ~~~D~eL~~L~~yL~~la 179 (195)
T TIGR02245 162 RGTDQELLKLTQYLKTIA 179 (195)
T ss_pred CcccHHHHHHHHHHHHHh
Confidence 357899999999999875
No 139
>PF09630 DUF2024: Domain of unknown function (DUF2024); InterPro: IPR018592 This protein of 86 residues is expressed in bacteria. It consists of two alpha helices and four beta strands. Its function is unknown.; PDB: 2HFQ_A.
Probab=25.50 E-value=9.4 Score=22.04 Aligned_cols=13 Identities=23% Similarity=0.759 Sum_probs=8.0
Q ss_pred HHHHhcCCccccC
Q 033761 17 KIFKTKCAQCHTV 29 (112)
Q Consensus 17 ~lf~~~C~~CH~~ 29 (112)
.|-...|.-||+.
T Consensus 49 ~vt~~eC~FCHse 61 (81)
T PF09630_consen 49 DVTQKECRFCHSE 61 (81)
T ss_dssp ---TTTEEEEEEE
T ss_pred ccccccCcccccc
Confidence 3434569999985
No 140
>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=25.20 E-value=36 Score=18.95 Aligned_cols=10 Identities=20% Similarity=0.740 Sum_probs=7.5
Q ss_pred hcCCccccCc
Q 033761 21 TKCAQCHTVE 30 (112)
Q Consensus 21 ~~C~~CH~~~ 30 (112)
..|.+||.+.
T Consensus 44 ~~C~sC~~i~ 53 (73)
T PF05927_consen 44 PVCNSCYRIS 53 (73)
T ss_dssp SSTTTTTTS-
T ss_pred cccccccccC
Confidence 4699999864
No 141
>PF12408 DUF3666: Ribose-5-phosphate isomerase ; InterPro: IPR022133 This domain family is found in bacteria, and is approximately 50 amino acids in length. The family is found in association with PF02502 from PFAM. There are two completely conserved residues (D and F) that may be functionally important. ; PDB: 3ONO_A 3C5Y_N 2PPW_A.
Probab=25.06 E-value=49 Score=17.11 Aligned_cols=12 Identities=25% Similarity=0.559 Sum_probs=6.7
Q ss_pred HHHHHHHHHHhc
Q 033761 99 DRADLIAYLKQS 110 (112)
Q Consensus 99 e~~~l~ayl~~l 110 (112)
+-..|++||+++
T Consensus 37 qd~eI~~yvk~l 48 (48)
T PF12408_consen 37 QDEEIAAYVKEL 48 (48)
T ss_dssp --HHHHHHHHCC
T ss_pred CcHHHHHHHHcC
Confidence 345677777754
No 142
>PRK01397 50S ribosomal protein L31; Provisional
Probab=25.00 E-value=32 Score=19.69 Aligned_cols=9 Identities=11% Similarity=-0.082 Sum_probs=7.1
Q ss_pred hcCCccccC
Q 033761 21 TKCAQCHTV 29 (112)
Q Consensus 21 ~~C~~CH~~ 29 (112)
..|+.||-.
T Consensus 35 di~s~~HPF 43 (78)
T PRK01397 35 DVDFRKHPA 43 (78)
T ss_pred EeCCCCCCc
Confidence 469999953
No 143
>PF14053 DUF4248: Domain of unknown function (DUF4248)
Probab=24.89 E-value=1.3e+02 Score=16.57 Aligned_cols=39 Identities=10% Similarity=0.065 Sum_probs=23.7
Q ss_pred HHHHHHHHhCCCCC----CCCCCCCCCCCCCHHHHHHHHHHHH
Q 033761 70 EKTLYDYLLNPKKY----IPGTKMVFPGLKKPQDRADLIAYLK 108 (112)
Q Consensus 70 ~~~l~~~l~~~~~~----~~~~~m~~~~~ls~~e~~~l~ayl~ 108 (112)
...|.+||+.-..- ...+.-+....+|+.|+.-|+.||-
T Consensus 25 ~r~L~rwI~~~~~L~~~L~~~Gy~~~~r~~TP~QV~lIv~~LG 67 (69)
T PF14053_consen 25 VRKLRRWIRRNPELLEELEATGYHPRQRSFTPRQVRLIVRYLG 67 (69)
T ss_pred HHHHHHHHHHCHHHHHHHHHcCCCCCCEecCHHHHHHHHHHcC
Confidence 44677777542210 0112234455689999999999984
No 144
>PLN03217 transcription factor ATBS1; Provisional
Probab=24.30 E-value=90 Score=18.27 Aligned_cols=17 Identities=29% Similarity=0.204 Sum_probs=13.6
Q ss_pred CCCHHHHHHHHHHHHhc
Q 033761 94 LKKPQDRADLIAYLKQS 110 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~~l 110 (112)
..||+||.+|+.=|+.|
T Consensus 16 risddqi~dLvsKLq~l 32 (93)
T PLN03217 16 RISEDQINDLIIKLQQL 32 (93)
T ss_pred CCCHHHHHHHHHHHHHH
Confidence 46899999999887754
No 145
>PTZ00134 40S ribosomal protein S18; Provisional
Probab=24.01 E-value=79 Score=20.54 Aligned_cols=17 Identities=6% Similarity=0.255 Sum_probs=14.7
Q ss_pred CCCCHHHHHHHHHHHHh
Q 033761 93 GLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 93 ~~ls~~e~~~l~ayl~~ 109 (112)
+.||++|+..|..+|..
T Consensus 59 ~~Lt~~qi~~l~~~i~~ 75 (154)
T PTZ00134 59 GELTAEEIEKIVEIIAN 75 (154)
T ss_pred ccCCHHHHHHHHHHHhc
Confidence 35899999999999975
No 146
>PRK11702 hypothetical protein; Provisional
Probab=23.96 E-value=1e+02 Score=18.79 Aligned_cols=17 Identities=24% Similarity=0.278 Sum_probs=14.6
Q ss_pred CCCCHHHHHHHHHHHHh
Q 033761 93 GLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 93 ~~ls~~e~~~l~ayl~~ 109 (112)
+..|++++..|.+||..
T Consensus 75 gs~tEe~R~~V~~WL~~ 91 (108)
T PRK11702 75 GKCTEEHRALVKKWLEG 91 (108)
T ss_pred CCCCHHHHHHHHHHHHh
Confidence 45699999999999975
No 147
>PF04270 Strep_his_triad: Streptococcal histidine triad protein ; InterPro: IPR006270 This entry represents a repeated sequence region that includes a His-X-X-His-X-His (histidine triad) motif, which is found in family of Streptococcal proteins. Members of the family are suggested to cleave human complement component 3, and family member PhpA has been shown in vaccine studies to be a protective antigen in mice []. ; PDB: 2CS7_C.
Probab=23.85 E-value=94 Score=16.39 Aligned_cols=17 Identities=18% Similarity=0.089 Sum_probs=12.9
Q ss_pred CCCCHHHHHHHHHHHHh
Q 033761 93 GLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 93 ~~ls~~e~~~l~ayl~~ 109 (112)
..||+.|+++.-+||..
T Consensus 36 ~dLs~~E~~aA~~~~~~ 52 (53)
T PF04270_consen 36 SDLSASELKAAQAYLAG 52 (53)
T ss_dssp GGS-HHHHHHHHHHHH-
T ss_pred hhCCHHHHHHHHHHHhc
Confidence 35899999999999874
No 148
>COG3086 RseC Positive regulator of sigma E activity [Signal transduction mechanisms]
Probab=23.81 E-value=30 Score=22.35 Aligned_cols=22 Identities=14% Similarity=0.359 Sum_probs=13.6
Q ss_pred HHHHHHHHH----hcCCccccCcCCC
Q 033761 12 AKAGEKIFK----TKCAQCHTVEKGA 33 (112)
Q Consensus 12 ~~~G~~lf~----~~C~~CH~~~~~g 33 (112)
.++|+.+.. ..|.+||+-++=|
T Consensus 11 ~q~G~a~V~c~~~S~CgsC~a~~~CG 36 (150)
T COG3086 11 WQNGQAKVSCQRQSACGSCAARAGCG 36 (150)
T ss_pred ccCCeEEEEeeccCccccchhhcccc
Confidence 445554442 3599999976533
No 149
>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=23.75 E-value=86 Score=15.21 Aligned_cols=13 Identities=31% Similarity=0.460 Sum_probs=9.3
Q ss_pred HHHHHHHHHHhcc
Q 033761 99 DRADLIAYLKQST 111 (112)
Q Consensus 99 e~~~l~ayl~~l~ 111 (112)
+++.++.||++.+
T Consensus 2 d~~~~~~~l~~~Q 14 (44)
T PF00432_consen 2 DVEKLIRFLLSCQ 14 (44)
T ss_dssp HHHHHHHHHHHTB
T ss_pred CHHHHHHHHHHHC
Confidence 5678888887643
No 150
>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=23.74 E-value=43 Score=19.59 Aligned_cols=9 Identities=33% Similarity=1.021 Sum_probs=7.1
Q ss_pred cCCccccCc
Q 033761 22 KCAQCHTVE 30 (112)
Q Consensus 22 ~C~~CH~~~ 30 (112)
.|.+||...
T Consensus 49 ~C~~CH~~~ 57 (102)
T PF02085_consen 49 SCMSCHDEN 57 (102)
T ss_dssp SCTCSSSSS
T ss_pred hHHHhcCcc
Confidence 599999764
No 151
>TIGR03823 FliZ flagellar regulatory protein FliZ. FliZ is involved in the regulation of flagellar assembly and possibly also the down-regulation of the motile phenotype. FliZ interacts with the flagellar translational activator FlhCD complex.
Probab=23.38 E-value=25 Score=22.92 Aligned_cols=10 Identities=40% Similarity=1.115 Sum_probs=7.8
Q ss_pred hcCCccccCc
Q 033761 21 TKCAQCHTVE 30 (112)
Q Consensus 21 ~~C~~CH~~~ 30 (112)
.+|+.||..-
T Consensus 23 thCshC~K~L 32 (168)
T TIGR03823 23 THCSHCHKLL 32 (168)
T ss_pred chhhhhcchh
Confidence 4799999743
No 152
>PF11310 DUF3113: Protein of unknown function (DUF3113); InterPro: IPR021461 This entry is represented by Bacteriophage 92, Orf93. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=23.29 E-value=71 Score=17.04 Aligned_cols=12 Identities=25% Similarity=0.515 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHH
Q 033761 97 PQDRADLIAYLK 108 (112)
Q Consensus 97 ~~e~~~l~ayl~ 108 (112)
|+|.+.|+.||-
T Consensus 28 D~eKe~LAdyLy 39 (60)
T PF11310_consen 28 DKEKEALADYLY 39 (60)
T ss_pred hhHHHHHHHHHh
Confidence 889999999984
No 153
>PF01197 Ribosomal_L31: Ribosomal protein L31; InterPro: IPR002150 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L31 is one of the proteins from the large ribosomal subunit. L31 is a protein of 66 to 97 amino-acid residues which has only been found so far in bacteria and in some plant and algal chloroplasts.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3D5D_4 3PYO_1 3D5B_4 3PYV_1 3PYT_1 3MRZ_1 3MS1_1 3PYR_1 3F1F_4 3F1H_4 ....
Probab=23.27 E-value=38 Score=18.74 Aligned_cols=9 Identities=33% Similarity=1.069 Sum_probs=7.0
Q ss_pred hcCCccccC
Q 033761 21 TKCAQCHTV 29 (112)
Q Consensus 21 ~~C~~CH~~ 29 (112)
..|+.||-.
T Consensus 37 di~s~~HPf 45 (69)
T PF01197_consen 37 DICSNCHPF 45 (69)
T ss_dssp CSCSSSSCT
T ss_pred eecCCCCEE
Confidence 469999963
No 154
>TIGR00105 L31 ribosomal protein L31. This family consists exclusively of bacterial (and organellar) 50S ribosomal protein L31. In some species, such as Bacillus subtilis, this protein exists in two forms (RpmE and YtiA), one of which (RpmE) contains a pair of motifs, CXC and CXXC, for binding zinc.
Probab=23.23 E-value=36 Score=18.83 Aligned_cols=9 Identities=33% Similarity=1.099 Sum_probs=7.0
Q ss_pred hcCCccccC
Q 033761 21 TKCAQCHTV 29 (112)
Q Consensus 21 ~~C~~CH~~ 29 (112)
..|+.||-.
T Consensus 36 di~s~~HPf 44 (68)
T TIGR00105 36 DICSKCHPF 44 (68)
T ss_pred EECCCCccc
Confidence 459999963
No 155
>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=23.21 E-value=34 Score=19.26 Aligned_cols=9 Identities=56% Similarity=1.424 Sum_probs=6.3
Q ss_pred cCCccccCc
Q 033761 22 KCAQCHTVE 30 (112)
Q Consensus 22 ~C~~CH~~~ 30 (112)
.|..||+..
T Consensus 35 ~C~~CH~~~ 43 (85)
T cd08168 35 KCAECHSHD 43 (85)
T ss_pred chhhcCCCC
Confidence 588888753
No 156
>COG0633 Fdx Ferredoxin [Energy production and conversion]
Probab=23.12 E-value=31 Score=20.46 Aligned_cols=8 Identities=25% Similarity=0.916 Sum_probs=6.7
Q ss_pred cCCccccC
Q 033761 22 KCAQCHTV 29 (112)
Q Consensus 22 ~C~~CH~~ 29 (112)
.|+.||..
T Consensus 44 ~C~TC~v~ 51 (102)
T COG0633 44 ACGTCRVK 51 (102)
T ss_pred ccCccEEE
Confidence 69999973
No 157
>PF13447 Multi-haem_cyto: Seven times multi-haem cytochrome CxxCH; PDB: 1FGJ_B.
Probab=23.06 E-value=36 Score=24.09 Aligned_cols=13 Identities=38% Similarity=0.874 Sum_probs=8.5
Q ss_pred HHHHhcCCccccC
Q 033761 17 KIFKTKCAQCHTV 29 (112)
Q Consensus 17 ~lf~~~C~~CH~~ 29 (112)
.-....|..||+.
T Consensus 210 ~~m~~vC~~CHS~ 222 (267)
T PF13447_consen 210 DKMKKVCSQCHSP 222 (267)
T ss_dssp HHHHHHHTTTS-H
T ss_pred HHHHHhhhccCCH
Confidence 3445579999984
No 158
>PF06648 DUF1160: Protein of unknown function (DUF1160); InterPro: IPR010594 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf75; it is a family of uncharacterised viral proteins.
Probab=23.06 E-value=63 Score=20.15 Aligned_cols=15 Identities=20% Similarity=0.147 Sum_probs=13.3
Q ss_pred CCCHHHHHHHHHHHH
Q 033761 94 LKKPQDRADLIAYLK 108 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~ 108 (112)
.|+++|+.+|+.||-
T Consensus 98 ~l~dddi~~ls~FLV 112 (122)
T PF06648_consen 98 HLTDDDISYLSEFLV 112 (122)
T ss_pred cCCcccHHHHHHHHH
Confidence 478999999999985
No 159
>PRK00528 rpmE 50S ribosomal protein L31; Reviewed
Probab=22.90 E-value=37 Score=18.97 Aligned_cols=9 Identities=11% Similarity=-0.027 Sum_probs=7.1
Q ss_pred hcCCccccC
Q 033761 21 TKCAQCHTV 29 (112)
Q Consensus 21 ~~C~~CH~~ 29 (112)
..|..||-.
T Consensus 38 dv~s~~HPf 46 (71)
T PRK00528 38 DIDSGNHPA 46 (71)
T ss_pred EECCCCCcc
Confidence 469999964
No 160
>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=22.78 E-value=34 Score=14.63 Aligned_cols=8 Identities=25% Similarity=0.958 Sum_probs=5.9
Q ss_pred hcCCcccc
Q 033761 21 TKCAQCHT 28 (112)
Q Consensus 21 ~~C~~CH~ 28 (112)
..|..|+.
T Consensus 8 ~rCiGC~~ 15 (22)
T PF12797_consen 8 ERCIGCGA 15 (22)
T ss_pred ccccCchh
Confidence 35888885
No 161
>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=22.75 E-value=81 Score=19.97 Aligned_cols=18 Identities=22% Similarity=0.455 Sum_probs=13.8
Q ss_pred CCHHHHHHHHHHHHhccC
Q 033761 95 KKPQDRADLIAYLKQSTA 112 (112)
Q Consensus 95 ls~~e~~~l~ayl~~l~~ 112 (112)
.+++++++++++++++++
T Consensus 106 P~~~~iD~fi~~v~~~p~ 123 (149)
T PF14566_consen 106 PDPEDIDAFINFVKSLPK 123 (149)
T ss_dssp --HHHHHHHHHHHHTS-T
T ss_pred CCHHHHHHHHHHHHhCCC
Confidence 379999999999998753
No 162
>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=22.66 E-value=1.2e+02 Score=16.59 Aligned_cols=17 Identities=24% Similarity=0.172 Sum_probs=14.3
Q ss_pred CCHHHHHHHHHHHHhcc
Q 033761 95 KKPQDRADLIAYLKQST 111 (112)
Q Consensus 95 ls~~e~~~l~ayl~~l~ 111 (112)
++++.-..+.+||..|+
T Consensus 34 IP~~~~~~ll~Yl~glk 50 (65)
T PF10180_consen 34 IPSEYFPILLEYLKGLK 50 (65)
T ss_pred CCHHHHHHHHHHHHhCc
Confidence 46888889999999875
No 163
>COG3184 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.31 E-value=67 Score=21.45 Aligned_cols=17 Identities=6% Similarity=0.167 Sum_probs=14.4
Q ss_pred CCCCHHHHHHHHHHHHh
Q 033761 93 GLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 93 ~~ls~~e~~~l~ayl~~ 109 (112)
...|++|+.+|.+|..|
T Consensus 106 ~~FT~eEl~ai~aFY~S 122 (183)
T COG3184 106 KIFTEEELNAITAFYGS 122 (183)
T ss_pred HhcCHHHHHHHHHHHcC
Confidence 45689999999999865
No 164
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=22.25 E-value=34 Score=23.91 Aligned_cols=8 Identities=38% Similarity=1.020 Sum_probs=6.6
Q ss_pred cCCccccC
Q 033761 22 KCAQCHTV 29 (112)
Q Consensus 22 ~C~~CH~~ 29 (112)
.|++||-.
T Consensus 199 ~C~GC~m~ 206 (239)
T COG1579 199 VCGGCHMK 206 (239)
T ss_pred cccCCeee
Confidence 49999974
No 165
>PF10820 DUF2543: Protein of unknown function (DUF2543); InterPro: IPR020251 This entry contains proteins with no known function.
Probab=22.20 E-value=77 Score=17.83 Aligned_cols=16 Identities=19% Similarity=0.304 Sum_probs=13.1
Q ss_pred CCHHHHHHHHHHHHhc
Q 033761 95 KKPQDRADLIAYLKQS 110 (112)
Q Consensus 95 ls~~e~~~l~ayl~~l 110 (112)
.|+.|+..|+-|+.-|
T Consensus 24 Vse~erd~LAhYFQlL 39 (81)
T PF10820_consen 24 VSEAERDALAHYFQLL 39 (81)
T ss_pred cchhhhhHHHHHHHHH
Confidence 4789999999998654
No 166
>PRK04053 rps13p 30S ribosomal protein S13P; Reviewed
Probab=22.09 E-value=1e+02 Score=19.90 Aligned_cols=16 Identities=13% Similarity=0.200 Sum_probs=14.0
Q ss_pred CCCCHHHHHHHHHHHH
Q 033761 93 GLKKPQDRADLIAYLK 108 (112)
Q Consensus 93 ~~ls~~e~~~l~ayl~ 108 (112)
+.||++|+..|..||.
T Consensus 54 ~~Lt~~qi~~l~~~i~ 69 (149)
T PRK04053 54 GYLSDEEIEKIEEALE 69 (149)
T ss_pred CcCCHHHHHHHHHHHH
Confidence 3589999999999995
No 167
>PRK11582 flagella biosynthesis protein FliZ; Provisional
Probab=22.04 E-value=29 Score=22.69 Aligned_cols=10 Identities=40% Similarity=0.979 Sum_probs=7.8
Q ss_pred hcCCccccCc
Q 033761 21 TKCAQCHTVE 30 (112)
Q Consensus 21 ~~C~~CH~~~ 30 (112)
.+|+.||..-
T Consensus 23 thCshC~K~L 32 (169)
T PRK11582 23 THCAHCRKLL 32 (169)
T ss_pred cchhhhccch
Confidence 4799999743
No 168
>PRK01678 rpmE2 50S ribosomal protein L31 type B; Reviewed
Probab=21.80 E-value=39 Score=19.74 Aligned_cols=9 Identities=11% Similarity=0.191 Sum_probs=7.1
Q ss_pred hcCCccccC
Q 033761 21 TKCAQCHTV 29 (112)
Q Consensus 21 ~~C~~CH~~ 29 (112)
..|+.||-.
T Consensus 49 di~S~~HPF 57 (87)
T PRK01678 49 EISSASHPF 57 (87)
T ss_pred EeCCCCCCc
Confidence 469999963
No 169
>PF07637 PSD5: Protein of unknown function (DUF1595); InterPro: IPR013043 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, IPR013039 from INTERPRO and IPR013042 from INTERPRO.
Probab=21.70 E-value=1.4e+02 Score=16.02 Aligned_cols=19 Identities=11% Similarity=0.139 Sum_probs=14.5
Q ss_pred CCCCCCHHHHHHHHHHHHh
Q 033761 91 FPGLKKPQDRADLIAYLKQ 109 (112)
Q Consensus 91 ~~~~ls~~e~~~l~ayl~~ 109 (112)
|..-++++|++.+++++..
T Consensus 15 fRRp~~~~e~~~~~~~~~~ 33 (64)
T PF07637_consen 15 FRRPLTDEEVDRYLALYDS 33 (64)
T ss_pred hCCCCCHHHHHHHHHHHHH
Confidence 4555789999998888754
No 170
>PF09601 DUF2459: Protein of unknown function (DUF2459); InterPro: IPR011727 This conserved hypothetical protein of unknown function is predominantly found in proteobacteria. Its function is unknown and its genome context is not well-conserved. It is found amid urease genes in at least one species.
Probab=21.67 E-value=93 Score=20.47 Aligned_cols=15 Identities=13% Similarity=0.344 Sum_probs=13.6
Q ss_pred CCHHHHHHHHHHHHh
Q 033761 95 KKPQDRADLIAYLKQ 109 (112)
Q Consensus 95 ls~~e~~~l~ayl~~ 109 (112)
+|++|.+.|++||+.
T Consensus 98 ls~~~y~~L~~~I~~ 112 (173)
T PF09601_consen 98 LSEAQYRRLVAFIRA 112 (173)
T ss_pred cCHHHHHHHHHHHHH
Confidence 699999999999974
No 171
>PF13709 DUF4159: Domain of unknown function (DUF4159)
Probab=21.44 E-value=88 Score=21.12 Aligned_cols=16 Identities=25% Similarity=0.341 Sum_probs=14.0
Q ss_pred CCCHHHHHHHHHHHHh
Q 033761 94 LKKPQDRADLIAYLKQ 109 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~~ 109 (112)
.+|++|++.|-+||+.
T Consensus 66 ~~s~~e~~~Lr~Yl~~ 81 (207)
T PF13709_consen 66 PLSDEEIANLRRYLEN 81 (207)
T ss_pred CCCHHHHHHHHHHHHc
Confidence 4799999999999963
No 172
>PF04369 Lactococcin: Lactococcin-like family; InterPro: IPR007464 Bacteriocins are produced by bacteria to inhibit the growth of similar or closely related bacterial strains. The class II bacteriocins are small heat-stable proteins for which disulphide bonds are the only modification to the peptide. Lactococcin A and B are class-IId bacteriocins (one-peptide non-pediocin-like bacteriocin) [, ].; GO: 0042742 defense response to bacterium, 0005576 extracellular region
Probab=21.43 E-value=53 Score=17.82 Aligned_cols=12 Identities=0% Similarity=0.122 Sum_probs=9.4
Q ss_pred CCCCHHHHHHHH
Q 033761 93 GLKKPQDRADLI 104 (112)
Q Consensus 93 ~~ls~~e~~~l~ 104 (112)
.++||+|+..|.
T Consensus 8 ~~~sdeeL~~i~ 19 (60)
T PF04369_consen 8 NILSDEELSKIN 19 (60)
T ss_pred eecCHHHHhhcc
Confidence 367999998874
No 173
>cd07347 harmonin_N_like N-terminal protein-binding module of harmonin and similar domains. This domain is found in harmonin, and similar proteins such as delphilin, and whirlin. These are postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold proteins. Harmonin and whirlin are organizers of the Usher protein network of the inner ear and the retina, delphilin is found at the cerebellar parallel fiber-Purkinje cell synapses. This harmonin_N_like domain is found in either one or two copies. Harmonin contains a single copy, which is found at its N-terminus and binds specifically to a short internal peptide fragment of the cadherin 23 cytoplasmic domain; cadherin 23 is a component of the Usher protein network. Whirlin contains two copies of the harmonin_N_like domain; the first of these has been assayed for interaction with the cytoplasmic domain of cadherin 23 and no interaction could be detected.
Probab=21.37 E-value=1e+02 Score=17.63 Aligned_cols=17 Identities=18% Similarity=0.249 Sum_probs=14.1
Q ss_pred CCCHHHHHHHHHHHHhc
Q 033761 94 LKKPQDRADLIAYLKQS 110 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~~l 110 (112)
+|++.|+..+..||+..
T Consensus 15 LL~~~Er~~~~~~L~~Y 31 (78)
T cd07347 15 LLTDAEREQVTRALERY 31 (78)
T ss_pred HCCHHHHHHHHHHHHHH
Confidence 57899999999998753
No 174
>COG3183 Predicted restriction endonuclease [Defense mechanisms]
Probab=21.19 E-value=30 Score=24.50 Aligned_cols=8 Identities=38% Similarity=1.232 Sum_probs=6.8
Q ss_pred cCCccccC
Q 033761 22 KCAQCHTV 29 (112)
Q Consensus 22 ~C~~CH~~ 29 (112)
.|..||..
T Consensus 243 lCpNCH~m 250 (272)
T COG3183 243 LCPNCHKM 250 (272)
T ss_pred cCccHHHH
Confidence 59999974
No 175
>PF15332 LIME1: Lck-interacting transmembrane adapter 1
Probab=21.14 E-value=38 Score=23.03 Aligned_cols=8 Identities=38% Similarity=1.252 Sum_probs=6.6
Q ss_pred CCccccCc
Q 033761 23 CAQCHTVE 30 (112)
Q Consensus 23 C~~CH~~~ 30 (112)
|+.||-.+
T Consensus 2 CtaC~R~d 9 (228)
T PF15332_consen 2 CTACHRPD 9 (228)
T ss_pred cccccCch
Confidence 99999854
No 176
>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=21.08 E-value=23 Score=16.49 Aligned_cols=9 Identities=22% Similarity=0.896 Sum_probs=6.9
Q ss_pred hcCCccccC
Q 033761 21 TKCAQCHTV 29 (112)
Q Consensus 21 ~~C~~CH~~ 29 (112)
++|++|+-.
T Consensus 15 R~CV~C~Ll 23 (31)
T PF09256_consen 15 RHCVACELL 23 (31)
T ss_dssp TEEEEGGGS
T ss_pred hcceeeeee
Confidence 479999754
No 177
>PF02831 gpW: gpW; InterPro: IPR004174 GpW is a 68 residue protein known to be present in phage particles. Extracts of phage-infected cells lacking GpW contain DNA-filled heads, and active tails, but no infectious virions. GpW is required for the addition of GpFII to the head, which is, in turn, required for the attachment of tails. Since GpFII and tails are known to be attached at the connector, GpW is also likely to assemble at this site. The addition of GpW to filled heads increases the DNase resistance of the packaged DNA, suggesting that GpW either forms a plug at the connector to prevent ejection of the DNA, or binds directly to the DNA. The large number of positively charged residues in GpW (its calculated pI is 10.8) is consistent with a role in DNA interaction [].; GO: 0019067 viral assembly, maturation, egress, and release; PDB: 2L6Q_A 2L6R_A 1HYW_A.
Probab=20.99 E-value=46 Score=18.50 Aligned_cols=16 Identities=31% Similarity=0.445 Sum_probs=12.6
Q ss_pred CHHHHHHHHHHHHhcc
Q 033761 96 KPQDRADLIAYLKQST 111 (112)
Q Consensus 96 s~~e~~~l~ayl~~l~ 111 (112)
+..++.+|.+|++.|.
T Consensus 36 t~a~i~~L~~yI~~L~ 51 (68)
T PF02831_consen 36 TQANIGDLRAYIQQLE 51 (68)
T ss_dssp EGGGHHHHHHHHHHHH
T ss_pred ecCCHHHHHHHHHHHH
Confidence 5778888888888764
No 178
>PF06207 DUF1002: Protein of unknown function (DUF1002); InterPro: IPR009343 This protein family has no known function. Its members are about 300 amino acids in length. It has so far been detected in Firmicute bacteria and some archaebacteria.
Probab=20.95 E-value=95 Score=21.45 Aligned_cols=17 Identities=6% Similarity=0.188 Sum_probs=14.6
Q ss_pred CCHHHHHHHHHHHHhcc
Q 033761 95 KKPQDRADLIAYLKQST 111 (112)
Q Consensus 95 ls~~e~~~l~ayl~~l~ 111 (112)
||++++..|+.++..++
T Consensus 192 ls~~q~~~i~~l~~~~~ 208 (225)
T PF06207_consen 192 LSDEQIQQIVNLMKKIQ 208 (225)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 79999999999997664
No 179
>PF11116 DUF2624: Protein of unknown function (DUF2624); InterPro: IPR020277 This entry contains proteins with no known function.
Probab=20.92 E-value=99 Score=18.02 Aligned_cols=16 Identities=6% Similarity=0.146 Sum_probs=14.0
Q ss_pred CCHHHHHHHHHHHHhc
Q 033761 95 KKPQDRADLIAYLKQS 110 (112)
Q Consensus 95 ls~~e~~~l~ayl~~l 110 (112)
+|+++.+.|+.||+.-
T Consensus 31 it~~QA~~I~~~lr~k 46 (85)
T PF11116_consen 31 ITKKQAEQIANILRGK 46 (85)
T ss_pred CCHHHHHHHHHHHhcC
Confidence 6899999999999863
No 180
>TIGR03507 decahem_SO1788 decaheme c-type cytochrome, OmcA/MtrC family. The protein SO_1778 (MtrC) of Shewanella oneidensis MR-1, and its paralog SO_1779 (OmcA), with which it intteracts, are large decaheme proteins, about 900 amino acids in length, involved in the use of manganese [Mn(III/IV)] and iron [Fe(III)] as terminal electron acceptors. This model represents these and similar decaheme proteins, found also in Rhodoferax ferrireducens DSM 15236, Aeromonas hydrophila ATCC7966, and a few other bacterial species.
Probab=20.68 E-value=39 Score=27.13 Aligned_cols=10 Identities=50% Similarity=1.165 Sum_probs=7.7
Q ss_pred hcCCccccCc
Q 033761 21 TKCAQCHTVE 30 (112)
Q Consensus 21 ~~C~~CH~~~ 30 (112)
..|++||+..
T Consensus 294 ~~C~~CH~~~ 303 (664)
T TIGR03507 294 TQCAACHNAG 303 (664)
T ss_pred CchhhccCCC
Confidence 4699999754
No 181
>COG4840 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.50 E-value=1.4e+02 Score=16.59 Aligned_cols=19 Identities=11% Similarity=0.052 Sum_probs=15.3
Q ss_pred CCCHHHHHHHHHHHHhccC
Q 033761 94 LKKPQDRADLIAYLKQSTA 112 (112)
Q Consensus 94 ~ls~~e~~~l~ayl~~l~~ 112 (112)
.+|+.|+.+|+.=|.+|-|
T Consensus 53 nfSpsEmqaiA~eL~rlRk 71 (71)
T COG4840 53 NFSPSEMQAIADELGRLRK 71 (71)
T ss_pred cCCHHHHHHHHHHHHHhhC
Confidence 3689999999998887754
Done!