Query 024138
Match_columns 272
No_of_seqs 89 out of 115
Neff 2.2
Searched_HMMs 46136
Date Fri Mar 29 02:21:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024138.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024138hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02508 magnesium-protoporphy 100.0 1E-111 3E-116 781.7 11.8 191 60-256 1-202 (357)
2 PRK13654 magnesium-protoporphy 100.0 2E-110 5E-115 774.0 12.8 188 58-256 8-206 (355)
3 TIGR02029 AcsF magnesium-proto 100.0 1E-109 3E-114 764.8 11.8 185 61-256 1-196 (337)
4 CHL00185 ycf59 magnesium-proto 100.0 1E-109 3E-114 767.8 11.8 184 62-256 8-202 (351)
5 cd01047 ACSF Aerobic Cyclase S 100.0 8E-107 2E-111 743.2 12.3 175 71-256 1-186 (323)
6 PF02915 Rubrerythrin: Rubrery 99.2 7.6E-12 1.7E-16 93.2 1.9 91 141-231 1-111 (137)
7 cd00657 Ferritin_like Ferritin 97.8 9E-06 1.9E-10 56.8 1.2 92 143-237 3-109 (130)
8 cd01044 Ferritin_CCC1_N Ferrit 96.3 0.0034 7.3E-08 49.5 2.7 51 144-196 4-54 (125)
9 cd00657 Ferritin_like Ferritin 96.2 0.0058 1.2E-07 42.7 3.3 55 137-193 76-130 (130)
10 PF13668 Ferritin_2: Ferritin- 95.8 0.0085 1.8E-07 47.1 3.2 54 139-194 83-136 (137)
11 cd01045 Ferritin_like_AB Uncha 95.7 0.0087 1.9E-07 44.4 2.5 53 142-196 2-54 (139)
12 PF02915 Rubrerythrin: Rubrery 95.1 0.035 7.7E-07 41.4 4.1 55 135-191 81-135 (137)
13 cd01049 RNRR2 Ribonucleotide R 94.9 0.068 1.5E-06 46.8 5.9 60 135-196 141-204 (288)
14 cd07911 RNRR2_Rv0233_like Ribo 94.3 0.03 6.5E-07 49.8 2.4 44 151-196 160-204 (280)
15 cd07908 Mn_catalase_like Manga 93.6 0.096 2.1E-06 42.2 3.9 57 140-196 18-74 (154)
16 cd01050 Acyl_ACP_Desat Acyl AC 93.2 0.054 1.2E-06 50.5 2.2 48 144-191 153-200 (297)
17 cd01045 Ferritin_like_AB Uncha 92.5 0.14 3E-06 38.1 3.1 51 139-191 87-137 (139)
18 PRK08326 ribonucleotide-diphos 92.5 0.089 1.9E-06 48.2 2.5 43 150-194 178-221 (311)
19 COG1633 Uncharacterized conser 92.2 0.14 2.9E-06 44.3 3.1 56 139-196 25-80 (176)
20 PRK07209 ribonucleotide-diphos 90.9 0.24 5.2E-06 46.5 3.5 54 134-189 197-255 (369)
21 PF00268 Ribonuc_red_sm: Ribon 89.4 0.26 5.6E-06 43.6 2.3 44 151-196 165-208 (281)
22 cd07908 Mn_catalase_like Manga 89.2 0.39 8.5E-06 38.7 3.1 51 139-191 102-152 (154)
23 COG0208 NrdF Ribonucleotide re 88.7 0.51 1.1E-05 45.0 4.0 55 134-190 171-229 (348)
24 PRK09614 nrdF ribonucleotide-d 86.6 0.47 1E-05 43.1 2.3 58 137-196 151-212 (324)
25 PTZ00211 ribonucleoside-diphos 86.4 1.9 4.2E-05 39.8 6.1 39 151-191 178-216 (330)
26 PF03405 FA_desaturase_2: Fatt 86.1 0.45 9.6E-06 45.4 2.0 47 148-194 162-209 (330)
27 PRK12775 putative trifunctiona 85.2 0.56 1.2E-05 49.5 2.3 52 141-194 863-914 (1006)
28 PRK09101 nrdB ribonucleotide-d 85.1 1.5 3.2E-05 41.5 4.9 53 135-189 190-246 (376)
29 PLN02492 ribonucleoside-diphos 84.4 0.71 1.5E-05 42.4 2.4 41 151-193 167-207 (324)
30 cd01046 Rubrerythrin_like rubr 84.3 1.2 2.6E-05 35.5 3.4 94 139-237 2-96 (123)
31 PRK12759 bifunctional gluaredo 80.2 2 4.4E-05 40.9 3.8 54 136-191 234-291 (410)
32 PRK13967 nrdF1 ribonucleotide- 80.2 1.1 2.4E-05 41.4 2.0 38 151-190 166-203 (322)
33 PRK13965 ribonucleotide-diphos 77.4 1.7 3.6E-05 40.6 2.3 51 135-188 164-214 (335)
34 PF11583 AurF: P-aminobenzoate 75.0 2 4.2E-05 38.3 2.0 105 147-254 179-301 (304)
35 cd01041 Rubrerythrin Rubreryth 74.2 3.4 7.4E-05 32.7 3.0 62 140-201 3-65 (134)
36 cd01052 DPSL DPS-like protein, 73.5 5.8 0.00013 31.1 4.1 61 136-196 4-65 (148)
37 cd01389 MATA_HMG-box MATA_HMG- 71.8 4.9 0.00011 29.2 3.1 20 152-171 7-27 (77)
38 cd00907 Bacterioferritin Bacte 68.7 6.4 0.00014 31.0 3.4 60 137-196 4-64 (153)
39 cd07910 MiaE MiaE tRNA-modifyi 68.6 24 0.00051 31.7 7.2 106 78-191 44-154 (180)
40 PF08969 USP8_dimer: USP8 dime 68.6 2.3 5.1E-05 33.4 0.9 20 218-237 59-78 (115)
41 PF06175 MiaE: tRNA-(MS[2]IO[6 65.7 16 0.00035 34.1 5.8 112 73-192 90-206 (240)
42 PF13668 Ferritin_2: Ferritin- 65.5 7 0.00015 30.7 3.0 94 143-237 6-114 (137)
43 PTZ00183 centrin; Provisional 62.8 23 0.00051 27.0 5.4 88 101-191 15-109 (158)
44 cd01048 Ferritin_like_AB2 Unch 61.3 4.4 9.6E-05 32.9 1.3 42 150-196 12-53 (135)
45 COG1633 Uncharacterized conser 56.5 28 0.0006 30.2 5.4 54 137-192 112-165 (176)
46 PRK09614 nrdF ribonucleotide-d 54.8 22 0.00048 32.5 4.7 64 125-190 45-109 (324)
47 PF00268 Ribonuc_red_sm: Ribon 54.6 24 0.00052 31.4 4.8 70 125-196 42-112 (281)
48 COG2865 Predicted transcriptio 52.6 8.6 0.00019 38.5 1.9 49 163-213 325-373 (467)
49 cd01048 Ferritin_like_AB2 Unch 51.6 16 0.00035 29.7 3.0 45 139-185 83-127 (135)
50 PTZ00184 calmodulin; Provision 51.2 41 0.00089 25.2 4.9 77 112-191 21-103 (149)
51 cd01051 Mn_catalase Manganese 49.7 16 0.00036 30.9 2.8 54 140-195 101-154 (156)
52 PF00210 Ferritin: Ferritin-li 48.5 25 0.00055 26.3 3.4 98 140-237 1-113 (142)
53 PRK13966 nrdF2 ribonucleotide- 48.4 13 0.00028 34.7 2.2 36 151-188 168-203 (324)
54 PF10934 DUF2634: Protein of u 47.7 20 0.00043 28.9 2.9 64 61-124 24-92 (112)
55 PF13438 DUF4113: Domain of un 46.5 12 0.00026 26.7 1.3 20 66-86 31-50 (52)
56 cd01055 Nonheme_Ferritin nonhe 45.9 32 0.00069 27.5 3.8 58 139-196 4-62 (156)
57 cd01051 Mn_catalase Manganese 43.7 21 0.00046 30.2 2.6 68 145-213 30-99 (156)
58 PRK12775 putative trifunctiona 43.6 44 0.00094 35.8 5.4 55 140-196 943-998 (1006)
59 smart00441 FF Contains two con 43.4 40 0.00086 22.8 3.5 45 98-144 3-54 (55)
60 COG1592 Rubrerythrin [Energy p 42.4 16 0.00034 32.2 1.7 63 131-196 66-129 (166)
61 cd01042 DMQH Demethoxyubiquino 42.4 15 0.00032 31.9 1.6 58 148-207 10-67 (165)
62 PF08281 Sigma70_r4_2: Sigma-7 42.1 44 0.00095 22.4 3.5 35 123-165 3-37 (54)
63 cd01046 Rubrerythrin_like rubr 42.1 42 0.0009 26.8 3.9 65 128-196 57-122 (123)
64 cd00907 Bacterioferritin Bacte 40.6 31 0.00068 27.1 3.0 57 140-196 83-140 (153)
65 PF14098 SSPI: Small, acid-sol 40.2 33 0.00071 26.6 2.9 50 97-146 14-64 (65)
66 cd07911 RNRR2_Rv0233_like Ribo 39.9 63 0.0014 29.0 5.1 70 126-196 34-105 (280)
67 PF14337 DUF4393: Domain of un 39.6 27 0.0006 29.0 2.7 47 132-190 32-78 (186)
68 cd08536 SAM_PNT-Mae Sterile al 37.8 26 0.00056 26.4 2.0 55 98-164 10-65 (66)
69 cd01041 Rubrerythrin Rubreryth 37.6 42 0.00091 26.6 3.3 55 141-195 76-132 (134)
70 PF05138 PaaA_PaaC: Phenylacet 35.9 38 0.00082 31.0 3.1 66 127-196 6-73 (263)
71 COG1592 Rubrerythrin [Energy p 35.7 17 0.00037 32.0 0.8 71 154-226 23-111 (166)
72 PF09537 DUF2383: Domain of un 34.9 49 0.0011 25.2 3.2 54 141-196 4-57 (111)
73 TIGR02156 PA_CoA_Oxy1 phenylac 34.7 35 0.00077 32.2 2.8 66 127-196 13-80 (289)
74 PF03980 Nnf1: Nnf1 ; InterPr 33.6 43 0.00094 26.1 2.8 30 135-164 7-36 (109)
75 PLN02492 ribonucleoside-diphos 33.6 74 0.0016 29.4 4.7 60 126-187 45-105 (324)
76 PLN00179 acyl- [acyl-carrier p 33.1 32 0.00068 34.3 2.3 60 132-191 186-263 (390)
77 PRK10236 hypothetical protein; 32.9 49 0.0011 30.9 3.4 48 100-147 91-145 (237)
78 cd01049 RNRR2 Ribonucleotide R 32.3 87 0.0019 27.6 4.7 70 125-196 34-104 (288)
79 PTZ00211 ribonucleoside-diphos 30.8 80 0.0017 29.3 4.4 61 126-188 56-117 (330)
80 PRK13456 DNA protection protei 30.7 56 0.0012 29.4 3.3 64 133-196 15-79 (186)
81 PTZ00183 centrin; Provisional 30.2 2.3E+02 0.0051 21.5 6.2 90 96-190 49-144 (158)
82 KOG2880 SMAD6 interacting prot 29.6 27 0.00059 35.0 1.2 26 212-237 44-76 (424)
83 PF01846 FF: FF domain; Inter 29.6 69 0.0015 21.5 2.9 43 99-142 3-51 (51)
84 PF05823 Gp-FAR-1: Nematode fa 26.8 50 0.0011 28.1 2.2 51 123-178 13-63 (154)
85 PRK13778 paaA phenylacetate-Co 26.8 66 0.0014 30.9 3.2 67 126-196 30-98 (314)
86 TIGR03092 SASP_sspI small, aci 25.9 77 0.0017 24.7 2.9 50 97-146 13-63 (65)
87 PF01099 Uteroglobin: Uteroglo 25.9 83 0.0018 23.1 3.0 46 98-145 15-60 (67)
88 PTZ00370 STEVOR; Provisional 25.7 71 0.0015 30.9 3.2 67 104-184 41-124 (296)
89 PRK09101 nrdB ribonucleotide-d 25.2 1.2E+02 0.0026 29.0 4.6 55 126-186 61-120 (376)
90 cd07176 terB tellurite resista 25.0 1.7E+02 0.0037 21.5 4.5 55 99-158 42-97 (111)
91 PF14684 Tricorn_C1: Tricorn p 24.8 56 0.0012 24.0 1.9 51 68-118 15-65 (70)
92 cd01388 SOX-TCF_HMG-box SOX-TC 24.7 62 0.0013 23.3 2.1 19 152-170 7-26 (72)
93 PF12186 AcylCoA_dehyd_C: Acyl 24.0 1.2E+02 0.0026 25.6 3.9 82 94-191 16-106 (114)
94 cd08308 Death_Tube Death domai 23.8 73 0.0016 27.1 2.6 62 100-182 23-93 (125)
95 COG4479 Uncharacterized protei 23.6 87 0.0019 25.0 2.8 38 73-111 33-70 (74)
96 PF04545 Sigma70_r4: Sigma-70, 22.7 1.2E+02 0.0025 20.3 3.0 31 127-165 1-31 (50)
97 PF13833 EF-hand_8: EF-hand do 22.6 1.6E+02 0.0034 19.4 3.6 33 94-128 18-51 (54)
98 PRK07209 ribonucleotide-diphos 22.6 1.4E+02 0.0031 28.3 4.6 63 126-190 83-149 (369)
99 PLN02964 phosphatidylserine de 22.0 1.5E+02 0.0032 31.1 4.9 64 96-166 172-243 (644)
100 cd00084 HMG-box High Mobility 22.0 91 0.002 20.8 2.4 20 151-170 5-25 (66)
101 PRK02955 small acid-soluble sp 21.0 1.1E+02 0.0024 24.1 2.9 50 97-146 16-66 (68)
102 PF07923 N1221: N1221-like pro 20.8 1.6E+02 0.0036 26.8 4.4 36 126-161 48-90 (293)
103 PF03748 FliL: Flagellar basal 20.7 1.2E+02 0.0025 22.5 2.9 52 114-165 17-76 (99)
104 PF00210 Ferritin: Ferritin-li 20.6 1.3E+02 0.0029 22.4 3.3 60 139-198 81-141 (142)
105 TIGR01478 STEVOR variant surfa 20.2 1E+02 0.0022 29.9 3.1 68 104-184 41-125 (295)
106 PF02330 MAM33: Mitochondrial 20.1 88 0.0019 26.8 2.5 30 127-156 152-182 (204)
107 PRK13966 nrdF2 ribonucleotide- 20.1 3.2E+02 0.007 25.6 6.3 92 93-193 14-117 (324)
No 1
>PLN02508 magnesium-protoporphyrin IX monomethyl ester [oxidative] cyclase
Probab=100.00 E-value=1.5e-111 Score=781.70 Aligned_cols=191 Identities=81% Similarity=1.197 Sum_probs=187.5
Q ss_pred CccchhhHHhhccCCCCccccChHHHhhhhcccccccccHHHHHHHHHHHhhccCCCCcccChhHHHHHhcCChHHHHHH
Q 024138 60 SKKSNKTAIKETLLTPRFYTTDFDEMETLFNTEINKKLNQAEFEALLQEFKTDYNQTHFVRNKEFKEAADKMQGPLRQIF 139 (272)
Q Consensus 60 ~~~~~k~a~~etLLTPRFYTTDFd~m~~lf~~eid~~~~~~E~~Aml~Efr~DyNr~HFvR~~eF~~~~d~l~~~~R~~F 139 (272)
+++++|.|++||||||||||||||+|++|||++||++++++||+||++|||+||||+|||||+||+++|++|||++|++|
T Consensus 1 ~~~~~k~~~~etlLTPRFYTTDF~~m~~l~~~~id~s~~~~e~~A~l~Efr~DyNr~HF~R~~eF~~~~~~l~~~~r~~F 80 (357)
T PLN02508 1 MRKGIKEAIKETLLTPRFYTTDFDEMEQLFNTEINKNLDMAEFEALLQEFKTDYNQTHFVRNEEFKAAADKIQGPLRQIF 80 (357)
T ss_pred CCccccchhhhcccCCccccccHHHHHhhccccCCCchhHHHHHHHHHHHHhCccccccccChhhccchhhCCHHHHHHH
Confidence 35789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh-----------hhcccccCceee
Q 024138 140 VEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM-----------YVKYTFFKPKFI 208 (272)
Q Consensus 140 veFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df-----------~rkYTfF~PKfI 208 (272)
|||||||||||||||||||||+||||++||+|+|+|.+||||||||||||||||+|| +|+||||+||||
T Consensus 81 idFLerSctaEFSGflLYKEl~rrlk~~nP~lae~F~lMaRDEARHAGFlNkam~Df~l~lDLgfLtk~rkYTfF~PkfI 160 (357)
T PLN02508 81 IEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFTLMSRDEARHAGFLNKALSDFNLALDLGFLTKNRKYTFFKPKFI 160 (357)
T ss_pred HHHHHhhhhhhcccchHHHHHHHhcccCChHHHHHHHHhCchhHHHHhHHHHHHHHcCccccchhhcccCceeeeCccee
Confidence 999999999999999999999999999999999999999999999999999999999 999999999999
Q ss_pred eeehhcccccchhHHHHHHhHHhhCCCCCCCCCccccccchhhhhhhh
Q 024138 209 FYATYLSEKIGYWRYITIYRHLKANPDSSMTGRQSCGPDFSASRCMSQ 256 (272)
Q Consensus 209 fYATYLSEKIGYwRYItIyRHLe~nPe~r~~~~~~~~PIF~~Fe~~~~ 256 (272)
|||||||||||||||||||||||+|||+| |||||+|||.--|
T Consensus 161 fYAtYLSEKIGYwRYItIyRHLe~~Pe~r------~~PIFk~Fe~WCq 202 (357)
T PLN02508 161 FYATYLSEKIGYWRYITIYRHLQANPDYQ------LYPIFKYFENWCQ 202 (357)
T ss_pred ehhhHhhhhhhhhhHhHHHHHHHhCcccc------cchHHHHHHHHhc
Confidence 99999999999999999999999999999 9999999997655
No 2
>PRK13654 magnesium-protoporphyrin IX monomethyl ester cyclase; Provisional
Probab=100.00 E-value=2.3e-110 Score=774.00 Aligned_cols=188 Identities=57% Similarity=0.975 Sum_probs=183.9
Q ss_pred CCCccchhhHHhhccCCCCccccChHHHhhhhcccccccccHHHHHHHHHHHhhccCCCCcccChhHHHHHhcCChHHHH
Q 024138 58 KPSKKSNKTAIKETLLTPRFYTTDFDEMETLFNTEINKKLNQAEFEALLQEFKTDYNQTHFVRNKEFKEAADKMQGPLRQ 137 (272)
Q Consensus 58 ~~~~~~~k~a~~etLLTPRFYTTDFd~m~~lf~~eid~~~~~~E~~Aml~Efr~DyNr~HFvR~~eF~~~~d~l~~~~R~ 137 (272)
.+.++++|.+++||||||||||||||+|+++ |++++++||+|||+|||+||||+|||||+||+++||+|||++|+
T Consensus 8 ~~~~~~~k~~~~etlLTPRFYTTDF~~m~~~-----d~s~~~~e~~A~l~E~r~DyNr~HF~R~~ef~~~~d~l~~e~r~ 82 (355)
T PRK13654 8 SELRPGTKAALKETILTPRFYTTDFDAMAKL-----DLSPNREELDAILEEMRADYNRHHFVRDEEFDQDWDHLDPETRK 82 (355)
T ss_pred ccccccccchhhhcccCCccccccHHHHHhc-----CCchhHHHHHHHHHHHHhCcccccccCChhhhhchhhCCHHHHH
Confidence 4557999999999999999999999999997 99999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh-----------hhcccccCce
Q 024138 138 IFVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM-----------YVKYTFFKPK 206 (272)
Q Consensus 138 ~FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df-----------~rkYTfF~PK 206 (272)
+||||||||||||||||||||||+||+|++||+|+|||++||||||||||||||||+|| +|+||||+||
T Consensus 83 ~FidFLerSctaEFSGflLYKEl~rrlk~~nP~lae~F~lMaRDEARHAGFlNkam~df~l~lDLgfLtk~k~YTfF~Pk 162 (355)
T PRK13654 83 EFIDFLERSCTAEFSGFLLYKELSRRLKDRNPLLAELFQLMARDEARHAGFLNKAMKDFGLSLDLGFLTKKKKYTFFPPK 162 (355)
T ss_pred HHHHHHHHHhhhhhhhHHHHHHHHHhccccCcHHHHHHHHHhhhHHHHhhhHHHHHHHcCccccchhhccCCceeeeCcc
Confidence 99999999999999999999999999999999999999999999999999999999999 9999999999
Q ss_pred eeeeehhcccccchhHHHHHHhHHhhCCCCCCCCCccccccchhhhhhhh
Q 024138 207 FIFYATYLSEKIGYWRYITIYRHLKANPDSSMTGRQSCGPDFSASRCMSQ 256 (272)
Q Consensus 207 fIfYATYLSEKIGYwRYItIyRHLe~nPe~r~~~~~~~~PIF~~Fe~~~~ 256 (272)
|||||||||||||||||||||||||+|||+| |||||+|||.--|
T Consensus 163 fIfYatYLSEKIGYwRYItIyRHLe~~Pe~r------~~PIF~~Fe~WCq 206 (355)
T PRK13654 163 FIFYATYLSEKIGYWRYITIYRHLEKHPEHR------FHPIFKFFENWCQ 206 (355)
T ss_pred eeeehhHhHhhhhHHHHHHHHHHHHhCcccc------cCchHHHHHHHhc
Confidence 9999999999999999999999999999999 9999999997655
No 3
>TIGR02029 AcsF magnesium-protoporphyrin IX monomethyl ester aerobic oxidative cyclase. This model respresents the oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under aerobic conditions. This enzyme is believed to utilize a binuclear iron center and molecular oxygen. There are two isoforms of this enzyme in some plants and cyanobacterai which are differentially regulated based on the levels of copper and oxygen. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under aerobic conditions (a separate enzyme, BchE, acts under anaerobic conditions). This enzyme is found in plants, cyanobacteria and other photosynthetic bacteria.
Probab=100.00 E-value=1.3e-109 Score=764.80 Aligned_cols=185 Identities=62% Similarity=1.033 Sum_probs=181.5
Q ss_pred ccchhhHHhhccCCCCccccChHHHhhhhcccccccccHHHHHHHHHHHhhccCCCCcccChhHHHHHhcCChHHHHHHH
Q 024138 61 KKSNKTAIKETLLTPRFYTTDFDEMETLFNTEINKKLNQAEFEALLQEFKTDYNQTHFVRNKEFKEAADKMQGPLRQIFV 140 (272)
Q Consensus 61 ~~~~k~a~~etLLTPRFYTTDFd~m~~lf~~eid~~~~~~E~~Aml~Efr~DyNr~HFvR~~eF~~~~d~l~~~~R~~Fv 140 (272)
++++|.+++||||||||||||||+|+++ |++++++||+||++|||+||||+|||||+||+++|++|||++|++||
T Consensus 1 ~~~~k~~~~etlLtPRFYTTDF~~m~~~-----d~s~~~~e~~A~l~E~r~DyNr~HF~R~~ef~~~~~~l~~e~r~~Fi 75 (337)
T TIGR02029 1 KKGTKTASQETLLTPRFYTTDFEEMANL-----DVSPVENEWDAMLAEMKADYNRHHFVRNEEFDQSWEHIDGELRQAFI 75 (337)
T ss_pred CCccccchhhcccCCccccccHHHHHhc-----CCchhHHHHHHHHHHHHhCccccccccChhhhcchhhCCHHHHHHHH
Confidence 4688999999999999999999999997 99999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh-----------hhcccccCceeee
Q 024138 141 EFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM-----------YVKYTFFKPKFIF 209 (272)
Q Consensus 141 eFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df-----------~rkYTfF~PKfIf 209 (272)
||||||||||||||||||||+||+|++||+|+|+|++||||||||||||||||+|| +|+||||+|||||
T Consensus 76 dFLerScTaEFSGflLYKEl~rrlk~~~P~lae~F~~MaRDEARHAGFlNkam~df~l~lDLgfLtk~r~YTfF~PkfI~ 155 (337)
T TIGR02029 76 EFLERSCTSEFSGFLLYKELSRRLKNRDPVVAELFQLMARDEARHAGFLNKALGDFGLALDLGFLTKTRKYTFFRPKFIY 155 (337)
T ss_pred HHHHHHhhhhhhhhHHHHHHHHhcCCCChHHHHHHHHHhhhhHHHhhhHHHHHHHcCcccchhhhccCCceeeeccceee
Confidence 99999999999999999999999999999999999999999999999999999999 9999999999999
Q ss_pred eehhcccccchhHHHHHHhHHhhCCCCCCCCCccccccchhhhhhhh
Q 024138 210 YATYLSEKIGYWRYITIYRHLKANPDSSMTGRQSCGPDFSASRCMSQ 256 (272)
Q Consensus 210 YATYLSEKIGYwRYItIyRHLe~nPe~r~~~~~~~~PIF~~Fe~~~~ 256 (272)
||||||||||||||||||||||+|||+| |||||+|||.--|
T Consensus 156 YAtYLSEKIGYwRYItIyRHLe~~Pe~r------~~PIF~~Fe~WCq 196 (337)
T TIGR02029 156 YATYLSEKIGYWRYITIYRHLEENPENQ------FYPIFKYFESWCQ 196 (337)
T ss_pred hhhHhHhhhhhHHHHHHHHHHHhCcccc------cchHHHHHHHHhc
Confidence 9999999999999999999999999999 9999999997655
No 4
>CHL00185 ycf59 magnesium-protoporphyrin IX monomethyl ester cyclase; Provisional
Probab=100.00 E-value=1.3e-109 Score=767.78 Aligned_cols=184 Identities=61% Similarity=0.983 Sum_probs=180.6
Q ss_pred cchhhHHhhccCCCCccccChHHHhhhhcccccccccHHHHHHHHHHHhhccCCCCcccChhHHHHHhcCChHHHHHHHH
Q 024138 62 KSNKTAIKETLLTPRFYTTDFDEMETLFNTEINKKLNQAEFEALLQEFKTDYNQTHFVRNKEFKEAADKMQGPLRQIFVE 141 (272)
Q Consensus 62 ~~~k~a~~etLLTPRFYTTDFd~m~~lf~~eid~~~~~~E~~Aml~Efr~DyNr~HFvR~~eF~~~~d~l~~~~R~~Fve 141 (272)
-++|.+++||||||||||||||+|+++ |++++++||+|||+|||+||||+|||||+||+++||+|||++|++|||
T Consensus 8 ~~~k~~~~etlLTPRFYTTDF~~m~~~-----dis~~~~e~~A~l~E~r~DyNr~HF~R~~eF~~~~d~l~~e~r~~Fid 82 (351)
T CHL00185 8 LQTKTPAKETLLTPRFYTTDFDEMANY-----DISSNIEEIEAILEEFRADYNQQHFIRDNEFNQSWSNLDEKTKSLFVE 82 (351)
T ss_pred hcccchhhhcccCCccccccHHHHHhc-----CCchhHHHHHHHHHHHHhCccccccccChhhhhchhhCCHHHHHHHHH
Confidence 468899999999999999999999997 999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh-----------hhcccccCceeeee
Q 024138 142 FLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM-----------YVKYTFFKPKFIFY 210 (272)
Q Consensus 142 FLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df-----------~rkYTfF~PKfIfY 210 (272)
|||||||||||||||||||+||+|++||+|+|+|+|||||||||||||||||+|| +|+||||+||||||
T Consensus 83 FLerScTaEFSGflLYKEl~rrlk~~nP~lae~F~lMaRDEARHAGFlNkam~df~l~lDLgfLtk~rkYTfF~PkfI~Y 162 (351)
T CHL00185 83 FLERSCTAEFSGFLLYKELSRKLKDKNPLLAEGFLLMSRDEARHAGFLNKAMSDFNLSLDLGFLTKSRKYTFFSPKFIFY 162 (351)
T ss_pred HHHHHhhhhhhhhHHHHHHHHHhccCCcHHHHHHHHHhhhhHHHhhhHHHHHHHcCccccchhhccCCceeeecccceeh
Confidence 9999999999999999999999999999999999999999999999999999999 99999999999999
Q ss_pred ehhcccccchhHHHHHHhHHhhCCCCCCCCCccccccchhhhhhhh
Q 024138 211 ATYLSEKIGYWRYITIYRHLKANPDSSMTGRQSCGPDFSASRCMSQ 256 (272)
Q Consensus 211 ATYLSEKIGYwRYItIyRHLe~nPe~r~~~~~~~~PIF~~Fe~~~~ 256 (272)
|||||||||||||||||||||+|||+| |||||+|||.--|
T Consensus 163 AtYLSEKIGYwRYItIyRHLe~~Pe~r------~~PIF~~FE~WCq 202 (351)
T CHL00185 163 ATYLSEKIGYWRYITIYRHLEKNPEYR------IYPIFKFFESWCQ 202 (351)
T ss_pred hhHHHhhhhhhHHhHHHHHHHhCcccc------cchHHHHHHHHhc
Confidence 999999999999999999999999999 9999999997655
No 5
>cd01047 ACSF Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain. Aerobic Cyclase System, Fe-containing subunit (ACSF) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. Rubrivivax gelatinosus acsF codes for a conserved, putative binuclear iron-cluster-containing protein involved in aerobic oxidative cyclization of Mg-protoporphyrin IX monomethyl ester. AcsF and homologs have a leucine zipper and two copies of the conserved glutamate and histidine residues predicted to act as ligands for iron in the Ex(29-35)DExRH motifs. Several homologs of AcsF are found in a wide range of photosynthetic organisms, including Chlamydomonas reinhardtii Crd1 and Pharbitis nil PNZIP, suggesting that this aerobic oxidative cyclization mechanism is conserved from bacteria to plants.
Probab=100.00 E-value=8.2e-107 Score=743.24 Aligned_cols=175 Identities=71% Similarity=1.130 Sum_probs=172.4
Q ss_pred ccCCCCccccChHHHhhhhcccccccccHHHHHHHHHHHhhccCCCCcccChhHHHHHhcCChHHHHHHHHHHHhhhhcc
Q 024138 71 TLLTPRFYTTDFDEMETLFNTEINKKLNQAEFEALLQEFKTDYNQTHFVRNKEFKEAADKMQGPLRQIFVEFLERSCTAE 150 (272)
Q Consensus 71 tLLTPRFYTTDFd~m~~lf~~eid~~~~~~E~~Aml~Efr~DyNr~HFvR~~eF~~~~d~l~~~~R~~FveFLerScTAE 150 (272)
|||||||||||||+|+++ |++++++||+||++||++||||+|||||++|+++|++|||++|++||||||||||||
T Consensus 1 tlLtPRFYTTDF~~m~~~-----dis~~~~e~~A~l~E~r~DyNr~HF~R~~ef~~~~~~~~~e~r~~FidFLerSctaE 75 (323)
T cd01047 1 TLLTPRFYTTDFDEMAAL-----DISKNREEFEAMLAEFKADYNRHHFVRNDEFDQAADKIDPELRQIFLEFLERSCTSE 75 (323)
T ss_pred CCCCCccccccHHHHHhc-----CCchhHHHHHHHHHHHHhCcccccccCCchhhhhhhhCCHHHHHHHHHHHHHHhhhh
Confidence 799999999999999997 999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh-----------hhcccccCceeeeeehhcccccc
Q 024138 151 FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM-----------YVKYTFFKPKFIFYATYLSEKIG 219 (272)
Q Consensus 151 FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df-----------~rkYTfF~PKfIfYATYLSEKIG 219 (272)
||||||||||+||+|++||+|+|+|++||||||||||||||||+|| +|+||||+|||||||||||||||
T Consensus 76 FSGflLYKEl~rrlk~~nP~lae~F~lMaRDEARHAGFlNkam~df~l~lDLgfLtk~r~YTfF~PkfI~YatYLSEKIG 155 (323)
T cd01047 76 FSGFLLYKELGRRLKNTNPVVAELFRLMARDEARHAGFLNKALSDFNLALDLGFLTKTRKYTFFKPKFIFYATYLSEKIG 155 (323)
T ss_pred hhhHHHHHHHHHHcccCCcHHHHHHHHHhhhHHHHhhhHHHHHHHcCcccchhhhccCCceeeeCccceeehhHhhhhhh
Confidence 9999999999999999999999999999999999999999999999 99999999999999999999999
Q ss_pred hhHHHHHHhHHhhCCCCCCCCCccccccchhhhhhhh
Q 024138 220 YWRYITIYRHLKANPDSSMTGRQSCGPDFSASRCMSQ 256 (272)
Q Consensus 220 YwRYItIyRHLe~nPe~r~~~~~~~~PIF~~Fe~~~~ 256 (272)
||||||||||||+|||+| |||||+|||.--|
T Consensus 156 YwRYItIyRHLe~~Pe~r------~~PIF~~Fe~WCq 186 (323)
T cd01047 156 YWRYITIYRHLERNPENQ------FHPIFKYFENWCQ 186 (323)
T ss_pred hHHHHHHHHHHHhCcccc------cchHHHHHHHHhc
Confidence 999999999999999999 9999999997655
No 6
>PF02915 Rubrerythrin: Rubrerythrin; InterPro: IPR003251 Rubrerythrin (Rr), found in anaerobic sulphate-reducing bacteria [], is a fusion protein containing an N-terminal diiron-binding domain and a C-terminal domain homologous to rubredoxin []. The physiological role of Rr has not been identified. The 3-D structure of Desulphovibrio vulgaris rubrerythrin has been solved []. The structure reveals a tetramer of two-domain subunits. In each monomer, the N-terminal 146 residues form a four-alpha-helix bundle containing the diiron-oxo site (centre I), and the C-terminal 45 residues form a rubredoxin-like FeS4 domain.; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1VJX_A 2FZF_A 3SID_B 3QHC_B 3QHB_B 4DI0_A 1J30_B 1YV1_A 1YUZ_B 1YUX_B ....
Probab=99.18 E-value=7.6e-12 Score=93.22 Aligned_cols=91 Identities=25% Similarity=0.371 Sum_probs=82.8
Q ss_pred HHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh-----------hhcccccC-----
Q 024138 141 EFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM-----------YVKYTFFK----- 204 (272)
Q Consensus 141 eFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df-----------~rkYTfF~----- 204 (272)
|.|..+|..|.+|..+|++++++.++.+|.++++|..||+||.+|++++.+.+.+. ...+++++
T Consensus 1 e~L~~A~~~E~~~~~~Y~~~a~~~~~~~p~~~~~f~~lA~~E~~H~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (137)
T PF02915_consen 1 EILEMAIKMELEAAKFYRELAEKAKDEGPELKELFRRLAEEEQEHAKFLEKLLRKLGPGEEPPFLEEKVEYSFFPKLEEE 80 (137)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHCHCSTTHHTHCHCCCCCHCCCCTCCSS
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCcchhhhhhhhhhcchhhhh
Confidence 57899999999999999999999987779999999999999999999999999887 24566676
Q ss_pred ----ceeeeeehhcccccchhHHHHHHhHHh
Q 024138 205 ----PKFIFYATYLSEKIGYWRYITIYRHLK 231 (272)
Q Consensus 205 ----PKfIfYATYLSEKIGYwRYItIyRHLe 231 (272)
+..++...+..|+.+|..|..+.+.+.
T Consensus 81 ~~~~~~~~l~~a~~~E~~~~~~Y~~~a~~~~ 111 (137)
T PF02915_consen 81 TDENLEEALEMAIKEEKDAYEFYAELARKAP 111 (137)
T ss_dssp HHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 789999999999999999999998875
No 7
>cd00657 Ferritin_like Ferritin-like superfamily of diiron-containing four-helix-bundle proteins. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterioferritin, ferritin, rubrerythrin, aromatic and alkene monooxygenase hydroxylases (AAMH), ribonucleotide reductase R2 (RNRR2), acyl-ACP-desaturases (Acyl_ACP_Desat), manganese (Mn) catalases, demethoxyub
Probab=97.78 E-value=9e-06 Score=56.83 Aligned_cols=92 Identities=17% Similarity=0.210 Sum_probs=74.1
Q ss_pred HHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhhhh---------------cccccCcee
Q 024138 143 LERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVMYV---------------KYTFFKPKF 207 (272)
Q Consensus 143 LerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df~r---------------kYTfF~PKf 207 (272)
|...+..|..|...|..+..+++ ||.++++|.-++.||.+|+..+++.+..... ......|.-
T Consensus 3 L~~~~~~E~~a~~~y~~~~~~~~--~~~~~~~~~~~a~~E~~H~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (130)
T cd00657 3 LNDALAGEYAAIIAYGQLAARAP--DPDLKDELLEIADEERRHADALAERLRELGGTPPLPPAHLLAAYALPKTSDDPAE 80 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHhcccCCCccCHHH
Confidence 55677899999999999999994 9999999999999999999999998877611 134455666
Q ss_pred eeeehhcccccchhHHHHHHhHHhhCCCCC
Q 024138 208 IFYATYLSEKIGYWRYITIYRHLKANPDSS 237 (272)
Q Consensus 208 IfYATYLSEKIGYwRYItIyRHLe~nPe~r 237 (272)
++...+..|+.|...|-.+.+.++ +|+.+
T Consensus 81 ~l~~~~~~E~~~~~~y~~~~~~~~-d~~~~ 109 (130)
T cd00657 81 ALRAALEVEARAIAAYRELIEQAD-DPELR 109 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcC-ChHHH
Confidence 777778899988888887777765 44433
No 8
>cd01044 Ferritin_CCC1_N Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain. Ferritin-like N-terminal domain present in an uncharacterized family of proteins found in bacteria and archaea. These proteins also have a C-terminal CCC1-like transmembrane domain and are thought to be involved in iron and/or manganese transport. This domain has the conserved residues of a diiron center found in other ferritin-like proteins.
Probab=96.26 E-value=0.0034 Score=49.47 Aligned_cols=51 Identities=24% Similarity=0.313 Sum_probs=45.7
Q ss_pred HhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 144 ERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 144 erScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
...+.-|-.|..+|..+++.. ++|.++++|..||.+|.+|+-++-+-+.+.
T Consensus 4 ~~~~~~E~~~~~~Y~~la~~~--~~~~~k~~f~~lA~~E~~H~~~~~~~~~~~ 54 (125)
T cd01044 4 RKFQKDEITEAAIYRKLAKRE--KDPENREILLKLAEDERRHAEFWKKFLGKR 54 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 345667999999999999998 799999999999999999999998877776
No 9
>cd00657 Ferritin_like Ferritin-like superfamily of diiron-containing four-helix-bundle proteins. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterioferritin, ferritin, rubrerythrin, aromatic and alkene monooxygenase hydroxylases (AAMH), ribonucleotide reductase R2 (RNRR2), acyl-ACP-desaturases (Acyl_ACP_Desat), manganese (Mn) catalases, demethoxyub
Probab=96.19 E-value=0.0058 Score=42.67 Aligned_cols=55 Identities=22% Similarity=0.243 Sum_probs=48.5
Q ss_pred HHHHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhh
Q 024138 137 QIFVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASK 193 (272)
Q Consensus 137 ~~FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal 193 (272)
....+-|..+...|=-|.-.|+++.+.+ .+|++++++.-+.+||++|..++++.+
T Consensus 76 ~~~~~~l~~~~~~E~~~~~~y~~~~~~~--~d~~~~~~~~~~~~~E~~H~~~~~~~~ 130 (130)
T cd00657 76 DDPAEALRAALEVEARAIAAYRELIEQA--DDPELRRLLERILADEQRHAAWFRKLL 130 (130)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHhc--CChHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 3456788888999999999999999998 499999999999999999999988753
No 10
>PF13668 Ferritin_2: Ferritin-like domain
Probab=95.83 E-value=0.0085 Score=47.10 Aligned_cols=54 Identities=24% Similarity=0.276 Sum_probs=49.8
Q ss_pred HHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhh
Q 024138 139 FVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKS 194 (272)
Q Consensus 139 FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~ 194 (272)
-.+||.-+.+-|=.|.-.|+.+..++ +||.+..++.-++-+|+||++.||..|.
T Consensus 83 ~~~~L~~A~~~E~~~~~~Y~g~~~~~--~~~~~~~~~~~i~~~Ea~H~~~ir~ll~ 136 (137)
T PF13668_consen 83 DASFLRLAYTLEDVGVSAYKGAAPQI--EDPELKALAASIAGVEARHAAWIRNLLG 136 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 46788889999999999999999999 7999999999999999999999998764
No 11
>cd01045 Ferritin_like_AB Uncharacterized family of ferritin-like proteins found in archaea and bacteria. Ferritin-like domain found in archaea and bacteria (Ferritin_like_AB). This uncharacterized domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins whose function is unknown. This family includes unknown or hypothetical proteins which were sequenced from mostly anaerobic or microaerophilic metal-metabolizing and/or nitrogen-fixing microbes. The family includes sequences from ferric-, sulfate-, and arsenic-reducing bacteria, Geobacter, Magnetospirillum, Desulfovibrio, and Desulfitobacterium. Also included are several nitrogen-fixing endosymbiotic bacteria, Rhizobium, Mesorhizobium, and Bradyrhizobium; also phototrophic purple nonsulfur bacteria, Rhodobacter and Rhodopseudomonas, as well as, obligate thermophiles, Thermotoga, Thermoanaerobacter, and Pyrococcus. The conserved residues of a diiron center are present in this uncharacterized domain.
Probab=95.66 E-value=0.0087 Score=44.44 Aligned_cols=53 Identities=19% Similarity=0.258 Sum_probs=46.1
Q ss_pred HHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 142 FLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 142 FLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
.|.....-|-.|--+|..++++. .||.++++|.-+|+||.+|+..|...+...
T Consensus 2 ~l~~a~~~E~~~~~~Y~~~a~~~--~~~~~~~~~~~la~eE~~H~~~l~~~~~~~ 54 (139)
T cd01045 2 ILALAIKMEEEAAEFYLELAEKA--KDPELKKLFEELAEEEKEHAERLEELYEKL 54 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34555667888999999999999 889999999999999999999999877665
No 12
>PF02915 Rubrerythrin: Rubrerythrin; InterPro: IPR003251 Rubrerythrin (Rr), found in anaerobic sulphate-reducing bacteria [], is a fusion protein containing an N-terminal diiron-binding domain and a C-terminal domain homologous to rubredoxin []. The physiological role of Rr has not been identified. The 3-D structure of Desulphovibrio vulgaris rubrerythrin has been solved []. The structure reveals a tetramer of two-domain subunits. In each monomer, the N-terminal 146 residues form a four-alpha-helix bundle containing the diiron-oxo site (centre I), and the C-terminal 45 residues form a rubredoxin-like FeS4 domain.; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1VJX_A 2FZF_A 3SID_B 3QHC_B 3QHB_B 4DI0_A 1J30_B 1YV1_A 1YUZ_B 1YUX_B ....
Probab=95.05 E-value=0.035 Score=41.40 Aligned_cols=55 Identities=22% Similarity=0.387 Sum_probs=48.4
Q ss_pred HHHHHHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhh
Q 024138 135 LRQIFVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECA 191 (272)
Q Consensus 135 ~R~~FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNk 191 (272)
...-..+-|+-.--.|=.+...|.++.+.+ .+|.++++|.-|+.||.+|.-.+.+
T Consensus 81 ~~~~~~~~l~~a~~~E~~~~~~Y~~~a~~~--~~~~~~~~~~~l~~~E~~H~~~l~~ 135 (137)
T PF02915_consen 81 TDENLEEALEMAIKEEKDAYEFYAELARKA--PDPEIRKLFEELAKEEKEHEDLLEK 135 (137)
T ss_dssp HHHHHHHHHHHHHHHHHTHHHHHHHHHHHT--TSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344577778888888999999999999999 7999999999999999999987765
No 13
>cd01049 RNRR2 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain. Ribonucleotide Reductase, R2/beta subunit (RNRR2) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in all eukaryotes, many prokaryotes, several viruses, and few archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites. The beta subunit (R2) contains a diiron cluster that, in its reduced state, reacts with dioxygen to form a stable tyrosyl radical and a diiron(III) cluster. This essential tyrosyl radical is proposed to generate a thiyl radical, located on a cysteine residue in the R1 active site that initiates ribonucleotide reduction. The beta subunit is composed of 10-13 helices, the 8 longest helices form an alpha-
Probab=94.86 E-value=0.068 Score=46.76 Aligned_cols=60 Identities=35% Similarity=0.467 Sum_probs=47.7
Q ss_pred HHHHHHHHHHhhhhcc----chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 135 LRQIFVEFLERSCTAE----FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 135 ~R~~FveFLerScTAE----FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
+.+.|++.|+-++.-| +|||...--++||. .=|-+++++.+.+|||++|..|--..+.++
T Consensus 141 ~~~~~~~~lv~~~~lEgi~f~s~F~~~~~l~~~g--~m~g~~~~i~~I~RDE~~H~~~~~~~~~~l 204 (288)
T cd01049 141 TKESFAERLVAFAILEGIFFYSGFAAIFWLARRG--KMPGLAEIIELISRDESLHGDFACLLIREL 204 (288)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CccchHHHhHHHHccHHHHHHHHHHHHHHH
Confidence 4456777776665555 58998888888875 779999999999999999999977766655
No 14
>cd07911 RNRR2_Rv0233_like Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain. Rv0233 is a Mycobacterium tuberculosis ribonucleotide reductase R2 protein with a heterodinuclear manganese/iron-carboxylate cofactor located in its metal center. The Rv0233-like family may represent a structural/functional counterpart of the evolutionary ancestor of the RNRR2's (Ribonucleotide Reductase, R2/beta subunit) and the bacterial multicomponent monooxygenases. RNRR2s belong to a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in prokaryotes and archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites.
Probab=94.27 E-value=0.03 Score=49.75 Aligned_cols=44 Identities=18% Similarity=0.204 Sum_probs=35.0
Q ss_pred chhhHH-HHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 151 FSGFLL-YKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 151 FSGfLL-YKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
+|||.. +.-+++|- +-|-+++++.+.+|||+||-.|.-..++++
T Consensus 160 ~sgF~~~~~~l~~~g--~m~g~~~~i~~I~RDE~~H~~fg~~l~~~l 204 (280)
T cd07911 160 ETGYYAWRTICEKRG--ILPGMQEGIRRLGDDESRHIAWGTFTCRRL 204 (280)
T ss_pred HHHHHHHHHHHhhcC--CCcCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678865 43576654 679999999999999999999987766555
No 15
>cd07908 Mn_catalase_like Manganese catalase-like protein, ferritin-like diiron-binding domain. This uncharacterized bacterial protein family has a ferritin-like domain similar to that of the manganese catalase protein of Lactobacillus plantarum and the bll3758 protein of Bradyrhizobium japonicum. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterio
Probab=93.60 E-value=0.096 Score=42.20 Aligned_cols=57 Identities=14% Similarity=0.015 Sum_probs=45.2
Q ss_pred HHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 140 VEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 140 veFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
+.=+.-.|..|.+..+.|---+.-.+.+||.++++|..+|++|-+|+++|-+-+..+
T Consensus 18 ~~~~~~g~~~E~~ai~~Y~y~~~~~~~~~~~~k~~f~~lA~eE~~H~~~l~~~i~~l 74 (154)
T cd07908 18 LLDDYAGTNSELTAISQYIYQHLISEEKYPEIAETFLGIAIVEMHHLEILGQLIVLL 74 (154)
T ss_pred HHHHhCCcchHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 333445677888888877665555555799999999999999999999999877776
No 16
>cd01050 Acyl_ACP_Desat Acyl ACP desaturase, ferritin-like diiron-binding domain. Acyl-Acyl Carrier Protein Desaturase (Acyl_ACP_Desat) is a mu-oxo-bridged diiron-carboxylate enzyme, which belongs to a broad superfamily of ferritin-like proteins and catalyzes the NADPH and O2-dependent formation of a cis-double bond in acyl-ACPs. Acyl-ACP desaturases are found in higher plants and a few bacterial species (Mycobacterium tuberculosis, M. leprae, M. avium and Streptomyces avermitilis, S. coelicolor). In plants, Acyl-ACP desaturase is a plastid-localized, covalently ACP linked, soluble desaturase that introduces the first double bound into saturated fatty acids, resulting in the corresponding monounsaturated fatty acid. Members of this class of soluble desaturases are specific for a particular substrate chain length and introduce the double bond between specific carbon atoms. For example, delta 9 stearoyl-ACP is specific for stearic acid and introduces a double bond between carbon 9 and 1
Probab=93.23 E-value=0.054 Score=50.53 Aligned_cols=48 Identities=21% Similarity=0.309 Sum_probs=40.8
Q ss_pred HhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhh
Q 024138 144 ERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECA 191 (272)
Q Consensus 144 erScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNk 191 (272)
+=-|.-|-...+-|.-+++..+...|+|++|-...|+||+||..|--+
T Consensus 153 ~y~~fqE~aT~v~y~nl~~~a~~gdPvL~~i~~~IA~DE~rH~~fy~~ 200 (297)
T cd01050 153 VYTSFQELATRISHRNTARLAGAGDPVLAKLLGRIAADEARHEAFYRD 200 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666777889999999988767999999999999999999987544
No 17
>cd01045 Ferritin_like_AB Uncharacterized family of ferritin-like proteins found in archaea and bacteria. Ferritin-like domain found in archaea and bacteria (Ferritin_like_AB). This uncharacterized domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins whose function is unknown. This family includes unknown or hypothetical proteins which were sequenced from mostly anaerobic or microaerophilic metal-metabolizing and/or nitrogen-fixing microbes. The family includes sequences from ferric-, sulfate-, and arsenic-reducing bacteria, Geobacter, Magnetospirillum, Desulfovibrio, and Desulfitobacterium. Also included are several nitrogen-fixing endosymbiotic bacteria, Rhizobium, Mesorhizobium, and Bradyrhizobium; also phototrophic purple nonsulfur bacteria, Rhodobacter and Rhodopseudomonas, as well as, obligate thermophiles, Thermotoga, Thermoanaerobacter, and Pyrococcus. The conserved residues of a diiron center are present in this uncharacterized domain.
Probab=92.50 E-value=0.14 Score=38.05 Aligned_cols=51 Identities=22% Similarity=0.311 Sum_probs=45.1
Q ss_pred HHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhh
Q 024138 139 FVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECA 191 (272)
Q Consensus 139 FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNk 191 (272)
..+-|+.....|=.+.-+|.++.... .+|.++++|.-|+.||.+|..-|-+
T Consensus 87 ~~~~l~~a~~~E~~~~~~Y~~~~~~~--~d~~~~~~~~~l~~~E~~H~~~l~~ 137 (139)
T cd01045 87 PLEALRLAIEIEKDAIEFYEELAEKA--EDPEVKKLFEELAEEERGHLRLLEE 137 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46678888889999999999999987 7899999999999999999876643
No 18
>PRK08326 ribonucleotide-diphosphate reductase subunit beta; Validated
Probab=92.48 E-value=0.089 Score=48.20 Aligned_cols=43 Identities=21% Similarity=0.267 Sum_probs=33.3
Q ss_pred cchhhHHH-HHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhh
Q 024138 150 EFSGFLLY-KELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKS 194 (272)
Q Consensus 150 EFSGfLLY-KEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~ 194 (272)
=+|||..+ .=+++|- .=|-+++++.+.+|||+||..|.-..++
T Consensus 178 f~sgF~~~~~~l~~~~--~mpgl~~~i~~I~RDE~~H~~fg~~l~~ 221 (311)
T PRK08326 178 AETGYYAWRKICVTRG--ILPGLQELVRRIGDDERRHIAWGTYTCR 221 (311)
T ss_pred HHHHHHHHHHHHHhcC--CCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 37888775 4666644 5699999999999999999988755333
No 19
>COG1633 Uncharacterized conserved protein [Function unknown]
Probab=92.19 E-value=0.14 Score=44.29 Aligned_cols=56 Identities=20% Similarity=0.320 Sum_probs=49.5
Q ss_pred HHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 139 FVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 139 FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
-+|-|.-+.-+|..+--.|.++..|+ .|+.++++|.-|++||.||.|-+-+-+...
T Consensus 25 ~~e~L~~Ai~~E~eA~~fY~~lae~~--~~~~~rk~~~~la~eE~~H~~~f~~l~~~~ 80 (176)
T COG1633 25 IEELLAIAIRGELEAIKFYEELAERI--EDEEIRKLFEDLADEEMRHLRKFEKLLEKL 80 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc--CCHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46778888899999999999999999 899999999999999999999877655444
No 20
>PRK07209 ribonucleotide-diphosphate reductase subunit beta; Validated
Probab=90.85 E-value=0.24 Score=46.54 Aligned_cols=54 Identities=28% Similarity=0.409 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHh-hhhcc----chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcch
Q 024138 134 PLRQIFVEFLER-SCTAE----FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYE 189 (272)
Q Consensus 134 ~~R~~FveFLer-ScTAE----FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFl 189 (272)
+..+.|++-|+- +|.-| +|||...-=|+||- +=|-++++.++.+|||..|..|.
T Consensus 197 ~~~~~~~~~lva~~~ilEGi~FysgFa~~~~l~r~g--~M~G~~~~i~~I~RDE~~H~~f~ 255 (369)
T PRK07209 197 ENDQKLLRNLIAFYCIMEGIFFYVGFTQILSLGRQN--KMTGIAEQYQYILRDESMHLNFG 255 (369)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC--CcccHHHHHHHHHHHHHHHHHHH
Confidence 455666666664 56545 78988877888864 78999999999999999999774
No 21
>PF00268 Ribonuc_red_sm: Ribonucleotide reductase, small chain; InterPro: IPR000358 Ribonucleotide reductase (1.17.4.1 from EC) [, ] catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides: 2'-deoxyribonucleoside diphosphate + oxidized thioredoxin + H2O = ribonucleoside diphosphate + reduced thioredoxin It provides the precursors necessary for DNA synthesis. RNRs divide into three classes on the basis of their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, bacteriophage and viruses, use a diiron-tyrosyl radical, Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in anaerobic bacteria and bacteriophage, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. Ribonucleotide reductase is an oligomeric enzyme composed of a large subunit (700 to 1000 residues) and a small subunit (300 to 400 residues) - class II RNRs are less complex, using the small molecule B12 in place of the small chain []. The small chain binds two iron atoms [] (three Glu, one Asp, and two His are involved in metal binding) and contains an active site tyrosine radical. The regions of the sequence that contain the metal-binding residues and the active site tyrosine are conserved in ribonucleotide reductase small chain from prokaryotes, eukaryotes and viruses. We have selected one of these regions as a signature pattern. It contains the active site residue as well as a glutamate and a histidine involved in the binding of iron.; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0009186 deoxyribonucleoside diphosphate metabolic process, 0055114 oxidation-reduction process; PDB: 1JK0_B 1SMS_B 2VUX_B 4DJN_B 3HF1_B 2RCC_B 2BQ1_I 1R2F_A 2R2F_A 2O1Z_A ....
Probab=89.37 E-value=0.26 Score=43.62 Aligned_cols=44 Identities=32% Similarity=0.426 Sum_probs=36.2
Q ss_pred chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 151 FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 151 FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
+|||....-++++- .=|-++++..+..|||.+|..|...-++.+
T Consensus 165 ~s~F~~~~~l~~~g--~m~g~~~~i~~I~RDE~~H~~~~~~l~~~l 208 (281)
T PF00268_consen 165 YSGFAYILYLARQG--KMPGLAEIIKLIMRDESLHVEFGIYLFRTL 208 (281)
T ss_dssp HHHHHHHHHHHHTT--SSHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcC--cchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 68888777787754 569999999999999999999877655555
No 22
>cd07908 Mn_catalase_like Manganese catalase-like protein, ferritin-like diiron-binding domain. This uncharacterized bacterial protein family has a ferritin-like domain similar to that of the manganese catalase protein of Lactobacillus plantarum and the bll3758 protein of Bradyrhizobium japonicum. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterio
Probab=89.23 E-value=0.39 Score=38.69 Aligned_cols=51 Identities=18% Similarity=0.251 Sum_probs=45.7
Q ss_pred HHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhh
Q 024138 139 FVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECA 191 (272)
Q Consensus 139 FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNk 191 (272)
..+-|......|--+.-.|+++.+++ .+|.+.+++..++.||-+|.-.|-+
T Consensus 102 ~~~~L~~~~~~E~~ai~~Y~~~~~~~--~d~~~r~ll~~I~~eE~~H~~~L~~ 152 (154)
T cd07908 102 IKEMLKLDIASEKAAIAKYKRQAETI--KDPYIRALLNRIILDEKLHIKILEE 152 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56688888999999999999999987 7899999999999999999976644
No 23
>COG0208 NrdF Ribonucleotide reductase, beta subunit [Nucleotide transport and metabolism]
Probab=88.72 E-value=0.51 Score=45.05 Aligned_cols=55 Identities=36% Similarity=0.476 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHhhhhcc----chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchh
Q 024138 134 PLRQIFVEFLERSCTAE----FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYEC 190 (272)
Q Consensus 134 ~~R~~FveFLerScTAE----FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlN 190 (272)
++.+.+..=++-||.=| +|||-+.-=++||- +-|-.++++++..|||+.|--|+-
T Consensus 171 ~~~~~~~~~~v~~~~lEgi~FYsGFa~~~~l~~r~--kM~g~a~iirlI~RDE~~H~~~~~ 229 (348)
T COG0208 171 PLEEFLLKLVVASVILEGILFYSGFAYPLYLARRG--KMPGTAEIIRLIIRDEALHLYFIG 229 (348)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--CCCCHHHHHHHHHHHHHHHHHHHH
Confidence 34555555566666666 79999999999998 679999999999999999976653
No 24
>PRK09614 nrdF ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=86.61 E-value=0.47 Score=43.13 Aligned_cols=58 Identities=28% Similarity=0.205 Sum_probs=43.6
Q ss_pred HHHHHHHHhhhhcc----chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 137 QIFVEFLERSCTAE----FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 137 ~~FveFLerScTAE----FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
+.+...|+-+..-| +|||...--+.+|- .=|-++++..+.+|||..|..|.-.-++.+
T Consensus 151 ~~~~~~~~~~~~lEgi~f~sgF~~~~~l~~~g--~m~g~~~~i~~I~RDE~~H~~f~~~l~~~l 212 (324)
T PRK09614 151 KILRKAAVASVFLEGFLFYSGFYYPLYLARQG--KMTGTAQIIRLIIRDESLHGYYIGYLFQEG 212 (324)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--CcccHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 35555555555555 68888777888864 679999999999999999999876544444
No 25
>PTZ00211 ribonucleoside-diphosphate reductase small subunit; Provisional
Probab=86.37 E-value=1.9 Score=39.77 Aligned_cols=39 Identities=28% Similarity=0.314 Sum_probs=32.6
Q ss_pred chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhh
Q 024138 151 FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECA 191 (272)
Q Consensus 151 FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNk 191 (272)
+|||...-=+++|- .=|-++++..+.+|||+.|..|.-.
T Consensus 178 ~sgF~~~~~l~~~g--~m~g~~~~i~~I~RDE~~H~~f~~~ 216 (330)
T PTZ00211 178 SGSFCAIFWLKKRG--LMPGLTFSNELISRDEGLHTDFACL 216 (330)
T ss_pred hhhHHHHHHHHhcC--CCcchHHHHHHHHhhHHHHHHHHHH
Confidence 67887776777754 6899999999999999999988743
No 26
>PF03405 FA_desaturase_2: Fatty acid desaturase; InterPro: IPR005067 Fatty acid desaturases are enzymes that catalyze the insertion of a double bond at the delta position of fatty acids. There seem to be two distinct families of fatty acid desaturases which do not seem to be evolutionary related. Family 1 is composed of: - Stearoyl-CoA desaturase (SCD) (1.14.19.1 from EC) []. Family 2 is composed of: - Bacterial fatty acid desaturases. - Plant stearoyl-acyl-carrier-protein desaturase (1.14.19.1 from EC) [], this enzyme catalyzes the introduction of a double bond at the delta(9) position of steraoyl-ACP to produce oleoyl-ACP. This enzyme is responsible for the conversion of saturated fatty acids to unsaturated fatty acids in the synthesis of vegetable oils. - Cyanobacterial DesA [], an enzyme that can introduce a second cis double bond at the delta(12) position of fatty acid bound to membranes glycerolipids. DesA is involved in chilling tolerance; the phase transition temperature of lipids of cellular membranes being dependent on the degree of unsaturation of fatty acids of the membrane lipids. This entry contains fatty acid desaturases belonging to Family 2. ; GO: 0045300 acyl-[acyl-carrier-protein] desaturase activity, 0006631 fatty acid metabolic process, 0055114 oxidation-reduction process; PDB: 1OQ7_B 1AFR_A 2XZ0_B 1OQB_A 2J2F_E 1OQ4_B 1OQ9_A 2XZ1_A 1ZA0_A.
Probab=86.11 E-value=0.45 Score=45.44 Aligned_cols=47 Identities=28% Similarity=0.367 Sum_probs=36.5
Q ss_pred hccchhhHHHHHHhhhhhc-cCccHHHHHhhhccchhhhhcchhhhhh
Q 024138 148 TAEFSGFLLYKELGRRLKK-TNPVVAEIFSLMSRDEARHAGYECASKS 194 (272)
Q Consensus 148 TAEFSGfLLYKEl~rrlk~-~NP~lae~F~lMsRDEARHAGFlNkal~ 194 (272)
--|-.-++.|..++|..++ ..|+|++|-+.+|+||+||..|--+-++
T Consensus 162 fQE~AT~vsh~n~~~~a~~~~DpvL~~il~~IA~DE~rH~~fy~~iv~ 209 (330)
T PF03405_consen 162 FQERATQVSHRNTGRLAKQAGDPVLAQILGRIAADEARHEAFYRNIVE 209 (330)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 3455567777778877744 5999999999999999999988655443
No 27
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=85.20 E-value=0.56 Score=49.52 Aligned_cols=52 Identities=19% Similarity=0.347 Sum_probs=44.1
Q ss_pred HHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhh
Q 024138 141 EFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKS 194 (272)
Q Consensus 141 eFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~ 194 (272)
|=|....-=|=.|.-.|++++.+. .||.++++|..||+.|.+|+-.|.+-+.
T Consensus 863 eil~~Ai~mE~~g~~FY~~~A~~a--~~~~~K~lF~~LA~eE~~H~~~l~~~~~ 914 (1006)
T PRK12775 863 EAIRTAFEIELGGMAFYARAAKET--SDPVLKELFLKFAGMEQEHMATLARRYH 914 (1006)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345555566889999999999998 7999999999999999999988866544
No 28
>PRK09101 nrdB ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=85.08 E-value=1.5 Score=41.51 Aligned_cols=53 Identities=25% Similarity=0.210 Sum_probs=39.1
Q ss_pred HHHHHHHHHHhhhhcc----chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcch
Q 024138 135 LRQIFVEFLERSCTAE----FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYE 189 (272)
Q Consensus 135 ~R~~FveFLerScTAE----FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFl 189 (272)
.++.++.-|+-|..=| +|||...==|+||- +=|-++++..+.+|||+-|..|.
T Consensus 190 ~~~~l~~~lva~~~lEgi~FyssFa~~~~l~~~g--~m~g~~~~i~~I~RDE~lH~~~~ 246 (376)
T PRK09101 190 LKKKLYLCLMSVNALEAIRFYVSFACSFAFAERE--LMEGNAKIIRLIARDEALHLTGT 246 (376)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC--CCccHHHHHHHHHHHHHHHHHHH
Confidence 3555555555555444 67777666788764 78999999999999999998765
No 29
>PLN02492 ribonucleoside-diphosphate reductase
Probab=84.40 E-value=0.71 Score=42.35 Aligned_cols=41 Identities=27% Similarity=0.264 Sum_probs=33.6
Q ss_pred chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhh
Q 024138 151 FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASK 193 (272)
Q Consensus 151 FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal 193 (272)
+|||...-=+++|- +=|-++++..+.+|||+.|..|.-.-.
T Consensus 167 ~sgF~~~~~l~~~g--~m~g~~~~i~~I~RDE~~H~~~~~~l~ 207 (324)
T PLN02492 167 SGSFCAIFWLKKRG--LMPGLTFSNELISRDEGLHCDFACLLY 207 (324)
T ss_pred hhhHHHHHHHHHcC--CCcchHHHHHHHHhhHHHHHHHHHHHH
Confidence 67887777787764 789999999999999999998774333
No 30
>cd01046 Rubrerythrin_like rubrerythrin-like, diiron-binding domain. Rubrerythrin-like domain, similar to rubrerythrin, a nonheme iron binding domain found in many air-sensitive bacteria and archaea, and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system. The rubrerythrin protein has two domains, a binuclear metal center located within a four-helix bundle of the rubrerythrin domain, and a rubredoxin domain. The Rubrerythrin-like domains in this CD are singular domains (no C-terminus rubredoxin domain) and are phylogenetically distinct from rubrerythrin domains of rubrerythrin-rubredoxin proteins.
Probab=84.26 E-value=1.2 Score=35.47 Aligned_cols=94 Identities=19% Similarity=0.061 Sum_probs=69.4
Q ss_pred HHHHHHhhhhccchhhHHHHHHhhhhhcc-CccHHHHHhhhccchhhhhcchhhhhhhhhhcccccCceeeeeehhcccc
Q 024138 139 FVEFLERSCTAEFSGFLLYKELGRRLKKT-NPVVAEIFSLMSRDEARHAGYECASKSVMYVKYTFFKPKFIFYATYLSEK 217 (272)
Q Consensus 139 FveFLerScTAEFSGfLLYKEl~rrlk~~-NP~lae~F~lMsRDEARHAGFlNkal~Df~rkYTfF~PKfIfYATYLSEK 217 (272)
..+.|......|......|..+++..+.. .|.++..|...|.+|..||+-+-+.+.... -.++=++=+.+-.|+
T Consensus 2 ~~~~L~~a~~~E~~a~~~Y~~~a~~a~~eG~~~~A~~f~~~a~eE~~HA~~~~~~l~~i~-----~~~~~~le~a~~~E~ 76 (123)
T cd01046 2 LEEDLEANFKGETTEVGMYLAMARVAQREGYPEVAEELKRIAMEEAEHAARFAELLGKVS-----EDTKENLEMMLEGEA 76 (123)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCc-----ccHHHHHHHHHHhHH
Confidence 35778888999999999999999998877 899999999999999999998888665432 122333444455566
Q ss_pred cchhHHHHHHhHHhhCCCCC
Q 024138 218 IGYWRYITIYRHLKANPDSS 237 (272)
Q Consensus 218 IGYwRYItIyRHLe~nPe~r 237 (272)
..+-.|--++++-++--++.
T Consensus 77 ~~~~~~~~~~~~A~~egd~~ 96 (123)
T cd01046 77 GANEGKKDAATEAKAEGLDE 96 (123)
T ss_pred HHHHhHHHHHHHHHHcCCHH
Confidence 66666666666665554444
No 31
>PRK12759 bifunctional gluaredoxin/ribonucleoside-diphosphate reductase subunit beta; Provisional
Probab=80.23 E-value=2 Score=40.88 Aligned_cols=54 Identities=20% Similarity=0.214 Sum_probs=39.4
Q ss_pred HHHHHHHHHhhhhcc----chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhh
Q 024138 136 RQIFVEFLERSCTAE----FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECA 191 (272)
Q Consensus 136 R~~FveFLerScTAE----FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNk 191 (272)
++.|.+-|.-+..-| +|||...-=+++|- +=|-++++..+.+|||+.|..|.-.
T Consensus 234 ~~~~~~~lv~~~~lEgi~Fys~Fa~~~~l~~~g--~m~g~~~~i~~I~RDE~lH~~~~~~ 291 (410)
T PRK12759 234 RRGLGLCLAKTVFNEGVALFASFAMLLNFQRFG--KMKGMGKVVEWSIRDESMHVEGNAA 291 (410)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CCeeHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444333 68888877888874 6899999999999999999988533
No 32
>PRK13967 nrdF1 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=80.18 E-value=1.1 Score=41.39 Aligned_cols=38 Identities=34% Similarity=0.424 Sum_probs=30.0
Q ss_pred chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchh
Q 024138 151 FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYEC 190 (272)
Q Consensus 151 FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlN 190 (272)
+|||-..-=+.+| ++=|-++++..+.+|||+.|.-|.-
T Consensus 166 ysgF~~~~~l~~~--g~m~g~~~~i~~I~RDE~~H~~~~~ 203 (322)
T PRK13967 166 YSGFYLPMYWSSR--GKLTNTADLIRLIIRDEAVHGYYIG 203 (322)
T ss_pred HHHHHHHHHHhhC--CCCccHHHHHHHHHHHHHHHHHHHH
Confidence 5777666666654 3679999999999999999987543
No 33
>PRK13965 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=77.41 E-value=1.7 Score=40.58 Aligned_cols=51 Identities=25% Similarity=0.335 Sum_probs=36.1
Q ss_pred HHHHHHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcc
Q 024138 135 LRQIFVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGY 188 (272)
Q Consensus 135 ~R~~FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGF 188 (272)
.++.....+..++-- +|||...-=|+||- +=|-++++..+.+|||+.|.-|
T Consensus 164 ~~~~va~~~lEGi~F-ysgFa~~~~L~~~g--kM~g~~~~i~~I~RDE~lH~~~ 214 (335)
T PRK13965 164 LKSKVAAAMMPGFLL-YGGFYLPFYLSARG--KLPNTSDIIRLILRDKVIHNYY 214 (335)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHhhcC--CCccHHHHHHHHHHhHHHHHHH
Confidence 344444343333332 47776666688864 7899999999999999999875
No 34
>PF11583 AurF: P-aminobenzoate N-oxygenase AurF; PDB: 3CHI_B 3CHT_A 3CHH_A 2JCD_B 3CHU_A.
Probab=74.99 E-value=2 Score=38.25 Aligned_cols=105 Identities=21% Similarity=0.245 Sum_probs=60.2
Q ss_pred hhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh--------hhcccccCceeeeeehhccccc
Q 024138 147 CTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM--------YVKYTFFKPKFIFYATYLSEKI 218 (272)
Q Consensus 147 cTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df--------~rkYTfF~PKfIfYATYLSEKI 218 (272)
|.+|=+-=-+.+++.+-= .-.|.+.+++..=.+|||||.+|--..|.+. ...-.-+=|..+. .++.-=+
T Consensus 179 lv~Ee~i~~~~~~~~~D~-~iqP~~r~v~~iH~~DEaRHi~f~~~~l~~~~~~l~~~~r~~~~~~l~~~~~--~~~~~~~ 255 (304)
T PF11583_consen 179 LVAEEIIDAYQREIARDE-TIQPLVRQVMRIHVRDEARHIAFAREELRRVWPRLSPAERRALAELLPEAIR--AFVASLI 255 (304)
T ss_dssp HHHHHSBHHHHHHHHT-S-SS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHH--HHHB--T
T ss_pred HHHHHHHHHHHHHhhcCC-CCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH--HHHHHhc
Confidence 444444333444443311 1369999999999999999999988888776 1111122222222 1233345
Q ss_pred chhHHHHH------Hh----HHhhCCCCCCCCCccccccchhhhhh
Q 024138 219 GYWRYITI------YR----HLKANPDSSMTGRQSCGPDFSASRCM 254 (272)
Q Consensus 219 GYwRYItI------yR----HLe~nPe~r~~~~~~~~PIF~~Fe~~ 254 (272)
+=|.|+.. -+ -+-.||..+..-|..+.++.++++..
T Consensus 256 ~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~ 301 (304)
T PF11583_consen 256 NPWVYILAGLGLDPRRAIRAALRRSPHRRRRRRDLFSRIVRFLDEA 301 (304)
T ss_dssp HHHHHHHHHCT-TTHHHHHHHHHTSTTTTBSS-BT-HHHHHHHHHT
T ss_pred ChHHHHHhhcCCChHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHc
Confidence 56666655 22 23478888877777777888877654
No 35
>cd01041 Rubrerythrin Rubrerythrin, ferritin-like diiron-binding domain. Rubrerythrin domain is a nonheme iron binding domain found in many air-sensitive bacteria and archaea and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The homodimeric rubrerythrin protein contains a binuclear metal center located within a four helix bundle. Many, but not all, rubrerythrin proteins have a second domain with a rubredoxin-like hexacoordinated iron center. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system but its function is still poorly understood.
Probab=74.21 E-value=3.4 Score=32.75 Aligned_cols=62 Identities=16% Similarity=0.075 Sum_probs=52.5
Q ss_pred HHHHHhhhhccchhhHHHHHHhhhhhcc-CccHHHHHhhhccchhhhhcchhhhhhhhhhccc
Q 024138 140 VEFLERSCTAEFSGFLLYKELGRRLKKT-NPVVAEIFSLMSRDEARHAGYECASKSVMYVKYT 201 (272)
Q Consensus 140 veFLerScTAEFSGfLLYKEl~rrlk~~-NP~lae~F~lMsRDEARHAGFlNkal~Df~rkYT 201 (272)
++-|.+....|+...-.|...++-.++. -|.++..|..-|-+|..||.-+-+.+.+..-.-+
T Consensus 3 ~~~L~~a~~~E~~a~~~Y~~~a~~a~~~g~~~~a~~f~~~a~eE~~HA~~~~~~l~~l~g~~~ 65 (134)
T cd01041 3 EKNLLAAFAGESQARNRYTYFAEKARKEGYEQIARLFRATAENEKEHAKGHFKLLKGLGGGDT 65 (134)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCc
Confidence 3568888899999999999999998776 6999999999999999999888788877743333
No 36
>cd01052 DPSL DPS-like protein, ferritin-like diiron-binding domain. DPSL (DPS-like). DPSL is a phylogenetically distinct class within the ferritin-like superfamily, and similar in many ways to the DPS (DNA Protecting protein under Starved conditions) proteins. Like DPS, these proteins are expressed in response to oxidative stress, form dodecameric cage-like particles, preferentially utilize hydrogen peroxide in the controlled oxidation of iron, and possess a short N-terminal extension implicated in stabilizing cellular DNA. This domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. These proteins are distantly related to bacterial ferritins which assemble 24 monomers, each of which have a four-helix bundle with a fifth shorter helix at the C terminus and a diiron (ferroxidase) center. Ferritins contain a center where oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical
Probab=73.48 E-value=5.8 Score=31.09 Aligned_cols=61 Identities=16% Similarity=0.278 Sum_probs=55.0
Q ss_pred HHHHHHHHHhhhhccchhhHHHHHHhhhhhcc-CccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 136 RQIFVEFLERSCTAEFSGFLLYKELGRRLKKT-NPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 136 R~~FveFLerScTAEFSGfLLYKEl~rrlk~~-NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
++..++.|-.-.+.|+.....|.-+...++.. -+.+++.|.-++.+|.+||--+-+-+.++
T Consensus 4 ~~~~~~~Ln~~la~e~~~~~~y~~~~~~~~g~~f~~l~~~~~~~~~ee~~Had~laEri~~l 65 (148)
T cd01052 4 VDELIELLNKAFADEWLAYYYYTILAKHVKGPEGEGIKEELEEAAEEELNHAELLAERIYEL 65 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 67789999999999999999999999999766 46799999999999999999888877776
No 37
>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include the fungal mating type gene products MC, MATA1 and Ste11.
Probab=71.84 E-value=4.9 Score=29.24 Aligned_cols=20 Identities=35% Similarity=0.715 Sum_probs=15.2
Q ss_pred hhhHHHH-HHhhhhhccCccH
Q 024138 152 SGFLLYK-ELGRRLKKTNPVV 171 (272)
Q Consensus 152 SGfLLYK-El~rrlk~~NP~l 171 (272)
++|+||- +..+.++..||.+
T Consensus 7 naf~lf~~~~r~~~~~~~p~~ 27 (77)
T cd01389 7 NAFILYRQDKHAQLKTENPGL 27 (77)
T ss_pred cHHHHHHHHHHHHHHHHCCCC
Confidence 6788874 7777888888865
No 38
>cd00907 Bacterioferritin Bacterioferritin, ferritin-like diiron-binding domain. Bacterioferritins, also known as cytochrome b1, are members of a broad superfamily of ferritin-like diiron-carboxylate proteins. Similar to ferritin in architecture, Bfr forms an oligomer of 24 subunits that assembles to form a hollow sphere with 432 symmetry. Up to 12 heme cofactor groups (iron protoporphyrin IX or coproporphyrin III) are bound between dimer pairs. The role of the heme is unknown, although it may be involved in mediating iron-core reduction and iron release. Each subunit is composed of a four-helix bundle which carries a diiron ferroxidase center; it is here that initial oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical products, and storage of ferric-hydroxyphosphate at the core. Some bacterioferritins are composed of two subunit types, one conferring heme-binding ability (alpha) and the other (beta) best
Probab=68.69 E-value=6.4 Score=31.00 Aligned_cols=60 Identities=23% Similarity=0.190 Sum_probs=53.6
Q ss_pred HHHHHHHHhhhhccchhhHHHHHHhhhhhcc-CccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 137 QIFVEFLERSCTAEFSGFLLYKELGRRLKKT-NPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 137 ~~FveFLerScTAEFSGfLLYKEl~rrlk~~-NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
...++.|.+-..-|+...+.|+-++..++.. -|.+++.|.-.+.||-+||.-+-+-+.+.
T Consensus 4 ~~~~~~Ln~~l~~E~~a~~~Y~~~a~~~~~~~~~~~~~~f~~~a~ee~~Ha~~lae~i~~l 64 (153)
T cd00907 4 PKVIEALNKALTGELTAINQYFLHARMLEDWGLEKLAERFRKESIEEMKHADKLIERILFL 64 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4578899999999999999999999999764 56899999999999999999998888777
No 39
>cd07910 MiaE MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain. MiaE is a nonheme diiron monooxygenase that catalyzes the posttranscriptional allylic hydroxylation of a modified nucleoside in tRNA called 2-methylthio-N-6-isopentenyl adenosine (ms2i6A). ms2i6A is found at position 37, next to the anticodon at the 3' position in almost all eukaryotic and bacterial tRNA's that read codons beginning with uridine. The miaE gene is absent in Escherichia coli, a finding consistent with the absence of the hydroxylated derivative of ms2i6A in this species.
Probab=68.65 E-value=24 Score=31.73 Aligned_cols=106 Identities=14% Similarity=0.154 Sum_probs=67.7
Q ss_pred cccChHHHhhhhcccccccccHHHHH---HHHHHHhhccCCCCcccChhH-HHHHhcCChHHHHHHHHHHHhhhhccchh
Q 024138 78 YTTDFDEMETLFNTEINKKLNQAEFE---ALLQEFKTDYNQTHFVRNKEF-KEAADKMQGPLRQIFVEFLERSCTAEFSG 153 (272)
Q Consensus 78 YTTDFd~m~~lf~~eid~~~~~~E~~---Aml~Efr~DyNr~HFvR~~eF-~~~~d~l~~~~R~~FveFLerScTAEFSG 153 (272)
|..+-+=+++| ..+.+||+. .+++-|++-.-.--=.+.+.+ .+....+....-..++|=|.=+-.=|--|
T Consensus 44 Y~~~~~Lv~~m------~~LarEEL~HFeqV~~im~~Rgi~l~~~~~~~Ya~~L~k~vR~~~p~~llD~Llv~alIEARS 117 (180)
T cd07910 44 YPEKPELVEAM------SDLAREELQHFEQVLKIMKKRGIPLGPDSKDPYASGLRKLVRKGEPERLLDRLLVAALIEARS 117 (180)
T ss_pred cCCcHhHHHHH------HHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHcccCChHHHHHHHHHHHHHHHHh
Confidence 55555656665 236788877 777777654322111233334 33334444444556778776555556666
Q ss_pred hHHHHHHhhhhhccCccHHHHHhhhccchhhhhc-chhh
Q 024138 154 FLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAG-YECA 191 (272)
Q Consensus 154 fLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAG-FlNk 191 (272)
|==|+=|+..+ ..+.|++.|.-+-+.||||-| |+.-
T Consensus 118 cERF~lLa~~l--~D~eL~~FY~~Ll~SEarHy~~yl~L 154 (180)
T cd07910 118 CERFALLAPAL--PDPELKKFYRGLLESEARHYELFLDL 154 (180)
T ss_pred HHHHHHHhccC--CCHHHHHHHHHHHHHHhhHHHHHHHH
Confidence 66778888887 568999999999999999965 4444
No 40
>PF08969 USP8_dimer: USP8 dimerisation domain; InterPro: IPR015063 This domain is predominantly found in the amino terminal region of Ubiquitin carboxyl-terminal hydrolase 8 (USP8). It has no known function. ; PDB: 2XZE_B 2A9U_A.
Probab=68.57 E-value=2.3 Score=33.42 Aligned_cols=20 Identities=30% Similarity=0.659 Sum_probs=18.7
Q ss_pred cchhHHHHHHhHHhhCCCCC
Q 024138 218 IGYWRYITIYRHLKANPDSS 237 (272)
Q Consensus 218 IGYwRYItIyRHLe~nPe~r 237 (272)
|-|+||++++-+|.+|||++
T Consensus 59 vl~~R~~~L~~ki~~Hpdy~ 78 (115)
T PF08969_consen 59 VLYMRYLTLVEKIPKHPDYK 78 (115)
T ss_dssp HHHHHHHHHHCCHCCSCCCC
T ss_pred HHHHHHHHHHHHhhcCcccc
Confidence 56899999999999999998
No 41
>PF06175 MiaE: tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE); InterPro: IPR010386 This family consists of several bacterial tRNA-(MSIO[6]A)-hydroxylase (MiaE) proteins. The modified nucleoside 2-methylthio-N-6-isopentenyl adenosine (ms2i6A) is present at position 37 (3' of the anticodon) of tRNAs that read codons beginning with U except tRNA(I,V Ser) in Escherichia coli. Salmonella typhimurium 2-methylthio-cis-ribozeatin (ms2io6A) is found in tRNA, probably in the corresponding species that have ms2i6A in E. coli. The miaE gene is absent in E. coli, a finding consistent with the absence of the hydroxylated derivative of ms2i6A in this species [].; PDB: 2ITB_B.
Probab=65.66 E-value=16 Score=34.12 Aligned_cols=112 Identities=19% Similarity=0.198 Sum_probs=63.2
Q ss_pred CCCCccccChHHHhhhhcccccccccHHHH---HHHHHHHhhccCCCCcccChhHH-HHHhcCChHHHHHHHHHHHhhhh
Q 024138 73 LTPRFYTTDFDEMETLFNTEINKKLNQAEF---EALLQEFKTDYNQTHFVRNKEFK-EAADKMQGPLRQIFVEFLERSCT 148 (272)
Q Consensus 73 LTPRFYTTDFd~m~~lf~~eid~~~~~~E~---~Aml~Efr~DyNr~HFvR~~eF~-~~~d~l~~~~R~~FveFLerScT 148 (272)
+.|+.--.+-.++-.- =..+.+||| +.+++.|++-.-.---++.+.+. +...++....-+.+||=|.=+-.
T Consensus 90 ~~~~~~~P~~~eLv~~-----Ms~LarEEL~HFeqVl~im~~RGi~l~~~~~d~Ya~~L~k~vR~~ep~~lvDrLLv~Al 164 (240)
T PF06175_consen 90 LQPKSHYPEKEELVDK-----MSRLAREELHHFEQVLEIMKKRGIPLGPDRKDRYAKGLRKHVRKGEPERLVDRLLVGAL 164 (240)
T ss_dssp ----------HHHHHH-----HHHHHHHHHHHHHHHHHHHHHTT---------SHHHHHHTTS-SSTTHHHHHHHHHHHH
T ss_pred ccccccccccHHHHHH-----HHHHHHHHHHHHHHHHHHHHHcCCCCCCCCcCHHHHHHHHhccCCchHhHHHHHHHHHh
Confidence 5566666665554432 234567775 56777777655554456666663 34444433344678887775556
Q ss_pred ccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhc-chhhh
Q 024138 149 AEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAG-YECAS 192 (272)
Q Consensus 149 AEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAG-FlNka 192 (272)
=|--||==|+=|+-.| .|.|++.|.-+-+.||||-+ ||+-|
T Consensus 165 IEARSCERF~lLa~~l---D~eL~~FY~~Ll~SEArHy~~yl~LA 206 (240)
T PF06175_consen 165 IEARSCERFALLAEHL---DEELAKFYRSLLRSEARHYQDYLKLA 206 (240)
T ss_dssp HHHHHHHHHHHHGGGS----HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhhhHHHHHHHHHhh---CHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 6777777888899988 69999999999999999964 55544
No 42
>PF13668 Ferritin_2: Ferritin-like domain
Probab=65.53 E-value=7 Score=30.74 Aligned_cols=94 Identities=18% Similarity=0.285 Sum_probs=64.8
Q ss_pred HHhhhhccchhhHHHHHHhhhh------hccCccHHHHHhhhccchhhhhcchhhhhh-hh---hhcccccCcee-----
Q 024138 143 LERSCTAEFSGFLLYKELGRRL------KKTNPVVAEIFSLMSRDEARHAGYECASKS-VM---YVKYTFFKPKF----- 207 (272)
Q Consensus 143 LerScTAEFSGfLLYKEl~rrl------k~~NP~lae~F~lMsRDEARHAGFlNkal~-Df---~rkYTfF~PKf----- 207 (272)
|---.+.|.-+.=.|+....+. ...++.+.++|.-++.+|..|.-+|.+++. .- .-.|.|.-+.|
T Consensus 6 L~~Al~lE~l~~~fY~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~E~~H~~~l~~~l~g~~~~~~~~~~~~~~~~~~~~~ 85 (137)
T PF13668_consen 6 LNFALNLEYLEADFYQQAAEGFTLQDNKAALDPEVRDLFQEIADQEQGHVDFLQAALEGGRPVPPPAYDFPFDPFTDDAS 85 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCChhhhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccccCCCCCHHH
Confidence 3444556667777788877754 346899999999999999999999999994 22 44565522222
Q ss_pred eeeehhcccccchhHHHHHHhHHhhCCCCC
Q 024138 208 IFYATYLSEKIGYWRYITIYRHLKANPDSS 237 (272)
Q Consensus 208 IfYATYLSEKIGYwRYItIyRHLe~nPe~r 237 (272)
+.=+-+.-|+.|.-=|..+-.+++ +|+.+
T Consensus 86 ~L~~A~~~E~~~~~~Y~g~~~~~~-~~~~~ 114 (137)
T PF13668_consen 86 FLRLAYTLEDVGVSAYKGAAPQIE-DPELK 114 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcC-CHHHH
Confidence 222334558888888888877666 45443
No 43
>PTZ00183 centrin; Provisional
Probab=62.79 E-value=23 Score=27.04 Aligned_cols=88 Identities=16% Similarity=0.182 Sum_probs=46.3
Q ss_pred HHHHHHHHHh-hccCCCCcccChhHHHHHhcCChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhhc------cCccHHH
Q 024138 101 EFEALLQEFK-TDYNQTHFVRNKEFKEAADKMQGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLKK------TNPVVAE 173 (272)
Q Consensus 101 E~~Aml~Efr-~DyNr~HFvR~~eF~~~~d~l~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk~------~NP~lae 173 (272)
+.+++...|. -|.|+...+-..+|...+..+....-..-++=+-+.+-.+-.|.|-|.|...=+.. ....+.+
T Consensus 15 ~~~~~~~~F~~~D~~~~G~i~~~e~~~~l~~~g~~~~~~~~~~l~~~~d~~~~g~i~~~eF~~~~~~~~~~~~~~~~l~~ 94 (158)
T PTZ00183 15 QKKEIREAFDLFDTDGSGTIDPKELKVAMRSLGFEPKKEEIKQMIADVDKDGSGKIDFEEFLDIMTKKLGERDPREEILK 94 (158)
T ss_pred HHHHHHHHHHHhCCCCCCcccHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCCCCcEeHHHHHHHHHHHhcCCCcHHHHHH
Confidence 3334444333 36667777777777666654321111223344444444555666666655432211 1236778
Q ss_pred HHhhhccchhhhhcchhh
Q 024138 174 IFSLMSRDEARHAGYECA 191 (272)
Q Consensus 174 ~F~lMsRDEARHAGFlNk 191 (272)
+|..+..| +.|.|+.
T Consensus 95 ~F~~~D~~---~~G~i~~ 109 (158)
T PTZ00183 95 AFRLFDDD---KTGKISL 109 (158)
T ss_pred HHHHhCCC---CCCcCcH
Confidence 88888766 3566654
No 44
>cd01048 Ferritin_like_AB2 Uncharacterized family of ferritin-like proteins found in archaea and bacteria. Ferritin-like domain found in archaea and bacteria, subgroup 2 (Ferritin_like_AB2). This uncharacterized domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins whose function is unknown. The conserved residues of a diiron center are present within the putative active site.
Probab=61.31 E-value=4.4 Score=32.94 Aligned_cols=42 Identities=19% Similarity=0.059 Sum_probs=35.0
Q ss_pred cchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 150 EFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 150 EFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
|--|.=.|..+..+.+ ..++|..++++|.+|...|.+-+...
T Consensus 12 Ek~a~~~Y~~~~~k~~-----~~~~F~~la~~E~~H~~~l~~L~~~~ 53 (135)
T cd01048 12 EKLARDVYLALYEKFG-----GLRPFSNIAESEQRHMDALKTLLERY 53 (135)
T ss_pred HHHHHHHHHHHHHHhc-----CcchHHHHHHHHHHHHHHHHHHHHHc
Confidence 5557778999998873 68999999999999999998877654
No 45
>COG1633 Uncharacterized conserved protein [Function unknown]
Probab=56.54 E-value=28 Score=30.23 Aligned_cols=54 Identities=26% Similarity=0.310 Sum_probs=47.7
Q ss_pred HHHHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhh
Q 024138 137 QIFVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECAS 192 (272)
Q Consensus 137 ~~FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNka 192 (272)
.-.++=|..+.-+|.-..-.|.++...+ .|+.++.+|...+.||-.|+-++..=
T Consensus 112 ~~~~~~I~~a~~~E~~t~~~Y~~~~~~~--~~~~~~~~~~~~a~~E~~H~~~l~~~ 165 (176)
T COG1633 112 VSYLEAIEAAMEAEKDTIEFYEELLDEL--VNEEAKKLFKTIADDEKGHASGLLSL 165 (176)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHc--cCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466777788888999999999999999 99999999999999999999888763
No 46
>PRK09614 nrdF ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=54.81 E-value=22 Score=32.46 Aligned_cols=64 Identities=13% Similarity=0.093 Sum_probs=43.9
Q ss_pred HHHHhcCChHHHHHHHHHHHh-hhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchh
Q 024138 125 KEAADKMQGPLRQIFVEFLER-SCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYEC 190 (272)
Q Consensus 125 ~~~~d~l~~~~R~~FveFLer-ScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlN 190 (272)
..+|.+|+++.|..+..-|-- +..-..-|.-+-..+.+.+ ++|.++-.++.++-.|+.|+=.-.
T Consensus 45 ~~dw~~Lt~~Er~~~~~~l~~~~~~D~~v~~~~~~~~~~~~--~~~E~~~~~~~q~~~E~iH~~sYs 109 (324)
T PRK09614 45 LKDWKKLSDEEKNLYTRVFGGLTLLDTLQNNNGMPNLMPDI--TTPEEEAVLANIAFMEAVHAKSYS 109 (324)
T ss_pred HHHHHhCCHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHC--CcHHHHHHHHHHHHHHHHHHHHHH
Confidence 457889999999976654432 1222222333345566666 679999999999999999985433
No 47
>PF00268 Ribonuc_red_sm: Ribonucleotide reductase, small chain; InterPro: IPR000358 Ribonucleotide reductase (1.17.4.1 from EC) [, ] catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides: 2'-deoxyribonucleoside diphosphate + oxidized thioredoxin + H2O = ribonucleoside diphosphate + reduced thioredoxin It provides the precursors necessary for DNA synthesis. RNRs divide into three classes on the basis of their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, bacteriophage and viruses, use a diiron-tyrosyl radical, Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in anaerobic bacteria and bacteriophage, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. Ribonucleotide reductase is an oligomeric enzyme composed of a large subunit (700 to 1000 residues) and a small subunit (300 to 400 residues) - class II RNRs are less complex, using the small molecule B12 in place of the small chain []. The small chain binds two iron atoms [] (three Glu, one Asp, and two His are involved in metal binding) and contains an active site tyrosine radical. The regions of the sequence that contain the metal-binding residues and the active site tyrosine are conserved in ribonucleotide reductase small chain from prokaryotes, eukaryotes and viruses. We have selected one of these regions as a signature pattern. It contains the active site residue as well as a glutamate and a histidine involved in the binding of iron.; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0009186 deoxyribonucleoside diphosphate metabolic process, 0055114 oxidation-reduction process; PDB: 1JK0_B 1SMS_B 2VUX_B 4DJN_B 3HF1_B 2RCC_B 2BQ1_I 1R2F_A 2R2F_A 2O1Z_A ....
Probab=54.61 E-value=24 Score=31.36 Aligned_cols=70 Identities=14% Similarity=0.114 Sum_probs=46.7
Q ss_pred HHHHhcCChHHHHHHHHHHHhhhhcc-chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 125 KEAADKMQGPLRQIFVEFLERSCTAE-FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 125 ~~~~d~l~~~~R~~FveFLerScTAE-FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
..+|.+|+++.|..+..-|--=+.+| --|--+--.|.+.+ ++|.+.-+++..+-.|+.|+=+-+.-+.-+
T Consensus 42 ~~~~~~Ls~~e~~~~~~~l~~~~~~D~~v~~~l~~~i~~~~--~~~E~~~~l~~q~~~E~iH~~sYs~il~~l 112 (281)
T PF00268_consen 42 IKDWKKLSEEEREAYKRILAFFAQLDSLVSENLLPNIMPEI--TSPEIRAFLTFQAFMEAIHAESYSYILDSL 112 (281)
T ss_dssp HHHHHHS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--SSHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhCCHHHHHHHHHHHHHHHHHHhHHHhhHHHHHHHHc--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45788899999887765443222222 12222335666777 789999999999999999997766655444
No 48
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=52.58 E-value=8.6 Score=38.50 Aligned_cols=49 Identities=29% Similarity=0.322 Sum_probs=42.4
Q ss_pred hhhccCccHHHHHhhhccchhhhhcchhhhhhhhhhcccccCceeeeeehh
Q 024138 163 RLKKTNPVVAEIFSLMSRDEARHAGYECASKSVMYVKYTFFKPKFIFYATY 213 (272)
Q Consensus 163 rlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df~rkYTfF~PKfIfYATY 213 (272)
+=|.+||.||.+|.-|-.=|.+=.|+= -|.|..+.|--.+|+|+.|..|
T Consensus 325 ~s~~RNp~LA~~l~~~~liE~~GSGi~--rm~~~~~~~gl~~p~f~~~~~~ 373 (467)
T COG2865 325 RSKSRNPVLAKVLRDMGLIEERGSGIR--RMFDLMEENGLPKPEFEEDNDY 373 (467)
T ss_pred CCcccCHHHHHHHHHhhhHHHhCccHH--HHHHHHHHcCCCCceeeccCCe
Confidence 346689999999999999999999973 4677788999999999999876
No 49
>cd01048 Ferritin_like_AB2 Uncharacterized family of ferritin-like proteins found in archaea and bacteria. Ferritin-like domain found in archaea and bacteria, subgroup 2 (Ferritin_like_AB2). This uncharacterized domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins whose function is unknown. The conserved residues of a diiron center are present within the putative active site.
Probab=51.64 E-value=16 Score=29.68 Aligned_cols=45 Identities=22% Similarity=0.293 Sum_probs=40.5
Q ss_pred HHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhh
Q 024138 139 FVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARH 185 (272)
Q Consensus 139 FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARH 185 (272)
-+|=|+-.+..|=...-.|.++..+. +||++..+|.-++..|-+|
T Consensus 83 ~~~al~~g~~~E~~~i~~ye~~~~~~--~d~d~k~v~~~L~~~e~~H 127 (135)
T cd01048 83 LQDALEVGVLIEELDIADYDRLLERT--QNPDIRDVFENLQAASRNH 127 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc--ccHHHHHHHHHHHHHHHHH
Confidence 45667778888999999999999999 7899999999999999988
No 50
>PTZ00184 calmodulin; Provisional
Probab=51.21 E-value=41 Score=25.16 Aligned_cols=77 Identities=16% Similarity=0.229 Sum_probs=38.1
Q ss_pred ccCCCCcccChhHHHHHhcCChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhhc------cCccHHHHHhhhccchhhh
Q 024138 112 DYNQTHFVRNKEFKEAADKMQGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLKK------TNPVVAEIFSLMSRDEARH 185 (272)
Q Consensus 112 DyNr~HFvR~~eF~~~~d~l~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk~------~NP~lae~F~lMsRDEARH 185 (272)
|.|+.-.+-..+|...+..+.......-+.-+.+.+-..-+|.|-|+|..+-+.. .-..+..+|...-.| +
T Consensus 21 D~~~~G~i~~~e~~~~l~~~~~~~~~~~~~~~~~~~d~~~~g~i~~~ef~~~l~~~~~~~~~~~~~~~~F~~~D~~---~ 97 (149)
T PTZ00184 21 DKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTLMARKMKDTDSEEEIKEAFKVFDRD---G 97 (149)
T ss_pred cCCCCCcCCHHHHHHHHHHhCCCCCHHHHHHHHHhcCcCCCCcCcHHHHHHHHHHhccCCcHHHHHHHHHHhhCCC---C
Confidence 5555556666666655443322112223333444444444566666665543321 112456677766544 3
Q ss_pred hcchhh
Q 024138 186 AGYECA 191 (272)
Q Consensus 186 AGFlNk 191 (272)
-|+|++
T Consensus 98 ~g~i~~ 103 (149)
T PTZ00184 98 NGFISA 103 (149)
T ss_pred CCeEeH
Confidence 477665
No 51
>cd01051 Mn_catalase Manganese catalase, ferritin-like diiron-binding domain. Manganese (Mn) catalase is a member of a broad superfamily of ferritin-like diiron enzymes. While many diiron enzymes catalyze dioxygen-dependent reactions, manganese catalase performs peroxide-dependent oxidation-reduction. Catalases are important antioxidant metalloenzymes that catalyze disproportionation of hydrogen peroxide, forming dioxygen and water. Manganese catalase, a nonheme type II catalase, contains a binuclear manganese cluster that catalyzes the redox dismutation of hydrogen peroxide, interconverting between dimanganese(II) [(2,2)] and dimanganese(III) [(3,3)] oxidation states during turnover. Mn catalases are found in a broad range of microorganisms in microaerophilic environments, including the mesophilic lactic acid bacteria (e.g., Lactobacillus plantarum) and bacterial and archaeal thermophiles (e.g., Thermus thermophilus and Pyrobaculum caldifontis). L. plantarum and T. thermophilus holoenz
Probab=49.65 E-value=16 Score=30.87 Aligned_cols=54 Identities=22% Similarity=0.164 Sum_probs=45.8
Q ss_pred HHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhh
Q 024138 140 VEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSV 195 (272)
Q Consensus 140 veFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~D 195 (272)
++=|..-..||-.+-..|+++.+-+ ++|.+.++...+..||-.|.-=+-++|..
T Consensus 101 ~~~L~~ni~aE~~Ai~~Y~~l~~~~--~Dp~v~~~l~~I~~rE~~H~~~f~~~l~~ 154 (156)
T cd01051 101 VADLRSNIAAESRARLTYERLYEMT--DDPGVKDTLSFLLVREIVHQNAFGKALES 154 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4446677889999999999999998 58999999999999999998776666653
No 52
>PF00210 Ferritin: Ferritin-like domain; InterPro: IPR008331 Ferritin is one of the major non-haem iron storage proteins in animals, plants, and microorganisms []. It consists of a mineral core of hydrated ferric oxide, and a multi-subunit protein shell that encloses the former and assures its solubility in an aqueous environment. In animals the protein is mainly cytoplasmic and there are generally two or more genes that encode closely related subunits - in mammals there are two subunits which are known as H(eavy) and L(ight). In plants ferritin is found in the chloroplast []. This entry represents the main structural domain of ferritin. The domain is also found in other ferritin-like proteins such as members of the DNA protection during starvation (DPS) family and bacterioferritins.; GO: 0008199 ferric iron binding, 0006879 cellular iron ion homeostasis; PDB: 1N1Q_C 4DYU_E 2YJJ_D 2YJK_B 2VXX_B 3FVB_A 2WLU_A 2XGW_A 2WLA_A 1Z4A_D ....
Probab=48.48 E-value=25 Score=26.28 Aligned_cols=98 Identities=17% Similarity=0.179 Sum_probs=66.1
Q ss_pred HHHHHhhhhccchhhHHHHHHhhhhhccC-ccHHHHHhhhccchhhhhcchhhhhhhhhh----------cc----cccC
Q 024138 140 VEFLERSCTAEFSGFLLYKELGRRLKKTN-PVVAEIFSLMSRDEARHAGYECASKSVMYV----------KY----TFFK 204 (272)
Q Consensus 140 veFLerScTAEFSGfLLYKEl~rrlk~~N-P~lae~F~lMsRDEARHAGFlNkal~Df~r----------kY----TfF~ 204 (272)
|+=|.+-...|+.+.+.|+-++-.++..| |.+++.|.-++-+|-.|+.-+.+-+.+.-- +. .+-.
T Consensus 1 i~~Ln~~l~~e~~~~~~y~~~~~~~~~~~~~~l~~~~~~~a~e~~~h~~~l~e~i~~lgg~p~~~~~~~~~~~~~~~~~~ 80 (142)
T PF00210_consen 1 IEALNEQLALELQASQQYLNMHWNFDGPNFPGLAKFFQDQAEEEREHADELAERILMLGGKPSGSPVEIPEIPKPPEWTD 80 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-SSTSHHHHHHHHSSSSSSS
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhhHHHhHHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHhhhhhccccCCc
Confidence 34567778889999999999998887664 889999999999999999988886666510 00 1124
Q ss_pred ceeeeeehhcccccchhHHHHHHhHHhhCCCCC
Q 024138 205 PKFIFYATYLSEKIGYWRYITIYRHLKANPDSS 237 (272)
Q Consensus 205 PKfIfYATYLSEKIGYwRYItIyRHLe~nPe~r 237 (272)
|+-++=..--.||-....|--+...-++.-|..
T Consensus 81 ~~~~l~~~l~~e~~~~~~~~~l~~~a~~~~D~~ 113 (142)
T PF00210_consen 81 PREALEAALEDEKEIIEEYRELIKLAEKEGDPE 113 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHH
Confidence 444444444455555555555555555443433
No 53
>PRK13966 nrdF2 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=48.44 E-value=13 Score=34.68 Aligned_cols=36 Identities=36% Similarity=0.487 Sum_probs=28.6
Q ss_pred chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcc
Q 024138 151 FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGY 188 (272)
Q Consensus 151 FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGF 188 (272)
+|||...-=+.||- +=|-+++++.+.+|||+-|.-|
T Consensus 168 ysgF~~~~~l~~~~--km~g~~~~i~~I~RDE~lH~~f 203 (324)
T PRK13966 168 YSGFYLPMYWSSRA--KLTNTADMIRLIIRDEAVHGYY 203 (324)
T ss_pred HHHHHHHHHHhhcC--CCCcHHHHHHHHHHhHHHHHHH
Confidence 56766555666643 5689999999999999999877
No 54
>PF10934 DUF2634: Protein of unknown function (DUF2634); InterPro: IPR020288 This entry is represented by the Bacteriophage EJ-1, Orf60. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Bacteriophage EJ-1, Orf60 function has not been characterised. It has been shown to be simialr to XkdS (P54331 from SWISSPROT), which is encoded on a phage-like element (prophage) of PSBX found in Bacillus subtilis.
Probab=47.72 E-value=20 Score=28.90 Aligned_cols=64 Identities=25% Similarity=0.324 Sum_probs=46.7
Q ss_pred ccchhhHHhhccCCCCc----cccChH-HHhhhhcccccccccHHHHHHHHHHHhhccCCCCcccChhH
Q 024138 61 KKSNKTAIKETLLTPRF----YTTDFD-EMETLFNTEINKKLNQAEFEALLQEFKTDYNQTHFVRNKEF 124 (272)
Q Consensus 61 ~~~~k~a~~etLLTPRF----YTTDFd-~m~~lf~~eid~~~~~~E~~Aml~Efr~DyNr~HFvR~~eF 124 (272)
.++.++.+.-+|.|+|| |.+||- +++.|++...+.+..+.|++.++.|=-..--+--=|.|-+|
T Consensus 24 ~EAl~qwi~k~L~TeR~~~~iYs~~yG~ele~lig~~~~~~~~~sEi~r~I~EaL~~d~rI~~V~~f~f 92 (112)
T PF10934_consen 24 LEALKQWIYKALNTERYRYLIYSWDYGSELEDLIGKNYPREYVESEIEREIEEALLQDPRITSVENFSF 92 (112)
T ss_pred HHHHHHHHHHHhCCcccceeccccccchhHHHHhcCCCChHHHHHHHHHHHHHHHhcCCCcceEEEEEE
Confidence 46678889999999996 888884 77888777778888999999999884332224444444444
No 55
>PF13438 DUF4113: Domain of unknown function (DUF4113)
Probab=46.50 E-value=12 Score=26.68 Aligned_cols=20 Identities=40% Similarity=0.815 Sum_probs=16.0
Q ss_pred hHHhhccCCCCccccChHHHh
Q 024138 66 TAIKETLLTPRFYTTDFDEME 86 (272)
Q Consensus 66 ~a~~etLLTPRFYTTDFd~m~ 86 (272)
=.++-..+||+ |||+.+++-
T Consensus 31 W~mr~~~~Sp~-yTT~w~el~ 50 (52)
T PF13438_consen 31 WKMRREMLSPR-YTTRWDELP 50 (52)
T ss_pred hHHHHHhcCCC-CcCCHHHcc
Confidence 45677789998 799999874
No 56
>cd01055 Nonheme_Ferritin nonheme-containing ferritins. Nonheme Ferritin domain, found in archaea and bacteria, is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The ferritin protein shell is composed of 24 protein subunits arranged in 432 symmetry. Each protein subunit, a four-helix bundle with a fifth short terminal helix, contains a dinuclear ferroxidase center (H type). Unique to this group of proteins is a third metal site in the ferroxidase center. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite.
Probab=45.93 E-value=32 Score=27.46 Aligned_cols=58 Identities=16% Similarity=0.124 Sum_probs=47.3
Q ss_pred HHHHHHhhhhccchhhHHHHHHhhhhhcc-CccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 139 FVEFLERSCTAEFSGFLLYKELGRRLKKT-NPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 139 FveFLerScTAEFSGfLLYKEl~rrlk~~-NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
.++-|.+=...|+.....|--++....+. -|.+++.|.-.|.+|..||.-+-+-+.+.
T Consensus 4 ~~~~Ln~~~~~El~A~~~Yl~~a~~~~~~~~~~~a~~f~~~a~eE~~HA~~l~~~i~~~ 62 (156)
T cd01055 4 LEKALNEQINLELYSSYLYLAMAAWFDSKGLDGFANFFRVQAQEEREHAMKFFDYLNDR 62 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCChhHHHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 45667777788888888888777766554 69999999999999999999888777665
No 57
>cd01051 Mn_catalase Manganese catalase, ferritin-like diiron-binding domain. Manganese (Mn) catalase is a member of a broad superfamily of ferritin-like diiron enzymes. While many diiron enzymes catalyze dioxygen-dependent reactions, manganese catalase performs peroxide-dependent oxidation-reduction. Catalases are important antioxidant metalloenzymes that catalyze disproportionation of hydrogen peroxide, forming dioxygen and water. Manganese catalase, a nonheme type II catalase, contains a binuclear manganese cluster that catalyzes the redox dismutation of hydrogen peroxide, interconverting between dimanganese(II) [(2,2)] and dimanganese(III) [(3,3)] oxidation states during turnover. Mn catalases are found in a broad range of microorganisms in microaerophilic environments, including the mesophilic lactic acid bacteria (e.g., Lactobacillus plantarum) and bacterial and archaeal thermophiles (e.g., Thermus thermophilus and Pyrobaculum caldifontis). L. plantarum and T. thermophilus holoenz
Probab=43.66 E-value=21 Score=30.23 Aligned_cols=68 Identities=10% Similarity=0.120 Sum_probs=48.0
Q ss_pred hhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh--hhcccccCceeeeeehh
Q 024138 145 RSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM--YVKYTFFKPKFIFYATY 213 (272)
Q Consensus 145 rScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df--~rkYTfF~PKfIfYATY 213 (272)
-+|.+|.|-.+-|-==+-.++ .||.++++|.-.|.+|-+|++.|-..+..+ ...-..+.+.+|-|..-
T Consensus 30 gG~~gEl~ai~qYl~q~~~~~-~~~~~~d~l~~ia~eEm~H~e~la~~I~~Lg~~~~g~pw~~~yv~~~~d 99 (156)
T cd01051 30 GGAFGELSAAMQYLFQSFNFR-EDPKYRDLLLDIGTEELSHLEMVATLIAMLLKDSQGVPWTAAYIQSSGN 99 (156)
T ss_pred CCccHHHHHHHHHHHHHhhcC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCcCCCcccCCCCC
Confidence 456666666666654444442 789999999999999999999998887766 22234456777766443
No 58
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=43.62 E-value=44 Score=35.84 Aligned_cols=55 Identities=9% Similarity=0.089 Sum_probs=47.4
Q ss_pred HHHHHhhhhccchhhHHHHHHhhhhhccCcc-HHHHHhhhccchhhhhcchhhhhhhh
Q 024138 140 VEFLERSCTAEFSGFLLYKELGRRLKKTNPV-VAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 140 veFLerScTAEFSGfLLYKEl~rrlk~~NP~-lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
.+-|+-.+-.|-.+..+|+|++.+. .+|. .+++|.-|+..|..|.=.|-+-|..+
T Consensus 943 ~~al~lAm~~Ekdai~fY~~la~~~--~d~e~~k~l~~~LA~EEk~Hl~~L~~~~d~~ 998 (1006)
T PRK12775 943 GNLFRIAIEFERRAVKFFKERVAET--PDGSVERQLYKELAAEEREHVALLTTEFERW 998 (1006)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhC--CChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888999999999999999998 6775 69999999999999987776655544
No 59
>smart00441 FF Contains two conserved F residues. A novel motif that often accompanies WW domains. Often contains two conserved Phe (F) residues.
Probab=43.36 E-value=40 Score=22.82 Aligned_cols=45 Identities=18% Similarity=0.357 Sum_probs=31.5
Q ss_pred cHHHHHHHHHHHhhc-cCC------CCcccChhHHHHHhcCChHHHHHHHHHHH
Q 024138 98 NQAEFEALLQEFKTD-YNQ------THFVRNKEFKEAADKMQGPLRQIFVEFLE 144 (272)
Q Consensus 98 ~~~E~~Aml~Efr~D-yNr------~HFvR~~eF~~~~d~l~~~~R~~FveFLe 144 (272)
.+++|..||.|...+ ++. ..+..++.|....+ +.+-+++|-+|+.
T Consensus 3 ~~~~F~~LL~e~~~~~~~~~W~~~~~~~~~d~ry~~l~~--~~~r~~lF~~~i~ 54 (55)
T smart00441 3 AKEAFKELLKEHEVITPDTTWSEARKKLKNDPRYKALLS--ESEREQLFEDHIE 54 (55)
T ss_pred HHHHHHHHHHhCCCCCCCCcHHHHHHHHhcChHHHHhcC--hHHHHHHHHHHHh
Confidence 357888888888776 664 35777888874433 4556688888875
No 60
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=42.39 E-value=16 Score=32.23 Aligned_cols=63 Identities=19% Similarity=0.209 Sum_probs=40.0
Q ss_pred CChHHHHHHHHHHHhhhhccchhhH-HHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 131 MQGPLRQIFVEFLERSCTAEFSGFL-LYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 131 l~~~~R~~FveFLerScTAEFSGfL-LYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
+.+.+++.-.+-++..| -|...-= -|.|..+-. -+..++.-|..++|||.+|++-+.++|.-.
T Consensus 66 ~~~~~~eNl~~aieGE~-~e~~emyp~~ae~A~~~--g~~~~a~~f~~~~~~Ek~H~~~~~~~Le~~ 129 (166)
T COG1592 66 VLGDTRENLEEAIEGET-YEITEMYPVFAEVAEEE--GFKEAARSFRAAAKAEKRHAEMFRGLLERL 129 (166)
T ss_pred ccccHHHHHHHHHccch-HHHHHhChHHHHHHHHc--CcHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34555665555555433 3333221 223333322 247888999999999999999999988776
No 61
>cd01042 DMQH Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain. Demethoxyubiquinone hydroxylases (DMQH) are members of the ferritin-like, diiron-carboxylate family which are present in eukaryotes (the CLK-1/CAT5 family) and prokaryotes (the Coq7 family). DMQH participates in one of the last steps of ubiquinone biosysnthesis and is responsible for DMQ hydroxylation, resulting in the formation of hydroxyubiquinone, a precursor of ubiquinone. CLK-1 is a mitochondrial inner membrane protein and Coq7 is a proposed interfacial integral membrane protein. Mutations in the Caenorhabditis elegans gene clk-1 affect biological timing and extend longevity. The conserved residues of a diiron center are present in this domain.
Probab=42.38 E-value=15 Score=31.94 Aligned_cols=58 Identities=16% Similarity=0.220 Sum_probs=49.7
Q ss_pred hccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhhhhcccccCcee
Q 024138 148 TAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVMYVKYTFFKPKF 207 (272)
Q Consensus 148 TAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df~rkYTfF~PKf 207 (272)
.-|+.-.-+|+--..-+ ++|.+++...-|+++|.+|--..|+-+.+..-.=|++.|-|
T Consensus 10 AGE~gA~~IY~gQ~~~~--~~~~~~~~l~~~~~~E~~Hl~~f~~~i~~~~~rps~l~PlW 67 (165)
T cd01042 10 AGEVGAVRIYRGQLAVA--RDPAVRPLIKEMLDEEKDHLAWFEELLPELGVRPSLLLPLW 67 (165)
T ss_pred cchHHHHHHHHHHHHHh--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCchHHHHH
Confidence 34666677888666666 67999999999999999999999999999988888888888
No 62
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=42.08 E-value=44 Score=22.36 Aligned_cols=35 Identities=20% Similarity=0.325 Sum_probs=24.9
Q ss_pred hHHHHHhcCChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhh
Q 024138 123 EFKEAADKMQGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLK 165 (272)
Q Consensus 123 eF~~~~d~l~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk 165 (272)
.+.++.+.||++.|++|......- +-|+||++.+.
T Consensus 3 ~l~~~l~~L~~~~r~i~~l~~~~g--------~s~~eIa~~l~ 37 (54)
T PF08281_consen 3 ALQQALAQLPERQREIFLLRYFQG--------MSYAEIAEILG 37 (54)
T ss_dssp HHHHHHHCS-HHHHHHHHHHHTS-----------HHHHHHHCT
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHC--------cCHHHHHHHHC
Confidence 467889999999999999865432 45788888774
No 63
>cd01046 Rubrerythrin_like rubrerythrin-like, diiron-binding domain. Rubrerythrin-like domain, similar to rubrerythrin, a nonheme iron binding domain found in many air-sensitive bacteria and archaea, and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system. The rubrerythrin protein has two domains, a binuclear metal center located within a four-helix bundle of the rubrerythrin domain, and a rubredoxin domain. The Rubrerythrin-like domains in this CD are singular domains (no C-terminus rubredoxin domain) and are phylogenetically distinct from rubrerythrin domains of rubrerythrin-rubredoxin proteins.
Probab=42.07 E-value=42 Score=26.78 Aligned_cols=65 Identities=17% Similarity=0.086 Sum_probs=46.8
Q ss_pred HhcCChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhhc-cCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 128 ADKMQGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLKK-TNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 128 ~d~l~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk~-~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
...+|+.+++.|..=+ .-|-..-=.|+++.+.-.+ .....+..|..+..+|.+|+-.+.++|..+
T Consensus 57 l~~i~~~~~~~le~a~----~~E~~~~~~~~~~~~~A~~egd~~~~~~~~~~~~~E~~H~~~~~~~l~~~ 122 (123)
T cd01046 57 LGKVSEDTKENLEMML----EGEAGANEGKKDAATEAKAEGLDEAHDFFHEAAKDEARHGKMLKGLLERY 122 (123)
T ss_pred HhcCcccHHHHHHHHH----HhHHHHHHhHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3445566666655544 3444444458888777643 489999999999999999999998887653
No 64
>cd00907 Bacterioferritin Bacterioferritin, ferritin-like diiron-binding domain. Bacterioferritins, also known as cytochrome b1, are members of a broad superfamily of ferritin-like diiron-carboxylate proteins. Similar to ferritin in architecture, Bfr forms an oligomer of 24 subunits that assembles to form a hollow sphere with 432 symmetry. Up to 12 heme cofactor groups (iron protoporphyrin IX or coproporphyrin III) are bound between dimer pairs. The role of the heme is unknown, although it may be involved in mediating iron-core reduction and iron release. Each subunit is composed of a four-helix bundle which carries a diiron ferroxidase center; it is here that initial oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical products, and storage of ferric-hydroxyphosphate at the core. Some bacterioferritins are composed of two subunit types, one conferring heme-binding ability (alpha) and the other (beta) best
Probab=40.62 E-value=31 Score=27.12 Aligned_cols=57 Identities=16% Similarity=0.211 Sum_probs=47.1
Q ss_pred HHHHHhhhhccchhhHHHHHHhhhhhc-cCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 140 VEFLERSCTAEFSGFLLYKELGRRLKK-TNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 140 veFLerScTAEFSGfLLYKEl~rrlk~-~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
.+-|+.....|=.-.-.|+++.+...+ ..+..+++|.-...||-+|.-++++.+..+
T Consensus 83 ~~~l~~~l~~E~~~~~~y~~~~~~A~~~~D~~t~~~l~~~~~~e~~h~~~l~~~l~~~ 140 (153)
T cd00907 83 PEMLENDLALEYEAIAALNEAIALCEEVGDYVSRDLLEEILEDEEEHIDWLETQLDLI 140 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677777777777788888766543 589999999999999999999999998877
No 65
>PF14098 SSPI: Small, acid-soluble spore protein I
Probab=40.25 E-value=33 Score=26.55 Aligned_cols=50 Identities=12% Similarity=0.117 Sum_probs=32.4
Q ss_pred ccHHHHHHHHHHHhhccCCCCccc-ChhHHHHHhcCChHHHHHHHHHHHhh
Q 024138 97 LNQAEFEALLQEFKTDYNQTHFVR-NKEFKEAADKMQGPLRQIFVEFLERS 146 (272)
Q Consensus 97 ~~~~E~~Aml~Efr~DyNr~HFvR-~~eF~~~~d~l~~~~R~~FveFLerS 146 (272)
..++|++.++++=-.-..-+---- .==|+..|.++++..|+.+++.|++.
T Consensus 14 ~s~~el~~~I~daI~sgEE~~LPGLGVlFE~~W~~~~~~ek~~m~~~l~~~ 64 (65)
T PF14098_consen 14 SSKEELKDTIEDAIQSGEEKALPGLGVLFEVIWKNSDESEKQEMVNTLEQG 64 (65)
T ss_pred CCHHHHHHHHHHHHhccchhcCCchHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence 356777777776433221111000 01389999999999999999999863
No 66
>cd07911 RNRR2_Rv0233_like Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain. Rv0233 is a Mycobacterium tuberculosis ribonucleotide reductase R2 protein with a heterodinuclear manganese/iron-carboxylate cofactor located in its metal center. The Rv0233-like family may represent a structural/functional counterpart of the evolutionary ancestor of the RNRR2's (Ribonucleotide Reductase, R2/beta subunit) and the bacterial multicomponent monooxygenases. RNRR2s belong to a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in prokaryotes and archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites.
Probab=39.89 E-value=63 Score=28.95 Aligned_cols=70 Identities=11% Similarity=0.053 Sum_probs=40.7
Q ss_pred HHHhcCChHHHHHHHHHHHhhhhccc-hhhHHHHHHhhhhh-ccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 126 EAADKMQGPLRQIFVEFLERSCTAEF-SGFLLYKELGRRLK-KTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 126 ~~~d~l~~~~R~~FveFLerScTAEF-SGfLLYKEl~rrlk-~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
.+|++|++..|..+..-|--=..+|- -|.-|. .+.+.+. ..+|++.-.+..++=+|++|+=+-..-+.-+
T Consensus 34 ~~w~~L~~~Er~~~~~~l~~f~~~D~~v~~~l~-~~~~~~~~~~~~e~~~~l~~q~~~EaiH~esYs~~l~tl 105 (280)
T cd07911 34 EDWEQLSEEERDLALRLCAGFIAGEEAVTLDLL-PLMMAMAAEGRLEEEMYLTQFLFEEAKHTDFFRRWLDAV 105 (280)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 47788999888876543322122221 111122 2222111 2368888899999999999997666555444
No 67
>PF14337 DUF4393: Domain of unknown function (DUF4393)
Probab=39.61 E-value=27 Score=29.04 Aligned_cols=47 Identities=30% Similarity=0.432 Sum_probs=35.9
Q ss_pred ChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchh
Q 024138 132 QGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYEC 190 (272)
Q Consensus 132 ~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlN 190 (272)
++++|+.|-.-|.+|+..... ...+|...+|-+-|+-||||=--+|.
T Consensus 32 ~e~Lremfa~LLass~d~~~~------------~~~hp~fv~Ii~qLsp~EA~iL~~l~ 78 (186)
T PF14337_consen 32 DEELREMFANLLASSMDKRKN------------DDVHPSFVEIIKQLSPDEARILKYLY 78 (186)
T ss_pred cHHHHHHHHHHHHHHhCcCcc------------ccccHHHHHHHHhCCHHHHHHHHHHH
Confidence 688999999999999987643 23567777777788888887555544
No 68
>cd08536 SAM_PNT-Mae Sterile alpha motif (SAM)/Pointed domain of Mae protein homolog. Mae (Modulator of the Activity of ETS) subfamily represents a group of SAM Pointed monodomain proteins. SAM Pointed domain is a protein-protein interaction domain. It can interact with other SAM pointed domains forming head-to-tail heterodimers and also provides a kinase docking site. For example, in Drosophila Mae is required for facilitating phosphorylation of the Yan factor and for blocking phosphorylation of the ETS-2 regulator. Mae interacts with the SAM Pointed domains of Yan and ETS-2. Binding enhances access of the kinase to the Yan phosphorylation site by providing a kinase docking site, or inhibits phosphorylation of ETS-2 by blocking its docking site. This type of factors participates in regulation of kinase signaling particularly during embryogenesis.
Probab=37.83 E-value=26 Score=26.35 Aligned_cols=55 Identities=24% Similarity=0.329 Sum_probs=35.9
Q ss_pred cHHHHHHHHHHHhhcc-CCCCcccChhHHHHHhcCChHHHHHHHHHHHhhhhccchhhHHHHHHhhhh
Q 024138 98 NQAEFEALLQEFKTDY-NQTHFVRNKEFKEAADKMQGPLRQIFVEFLERSCTAEFSGFLLYKELGRRL 164 (272)
Q Consensus 98 ~~~E~~Aml~Efr~Dy-Nr~HFvR~~eF~~~~d~l~~~~R~~FveFLerScTAEFSGfLLYKEl~rrl 164 (272)
+..=++..+.||.=+. |-.+|.=| -+.+=.|+. -||+.| ++. .|=+||+.+.+||
T Consensus 10 V~~WL~w~~~ef~L~~~~~~~F~m~---Gk~LC~ls~------edF~~r--~P~-~GdiL~~~lq~~l 65 (66)
T cd08536 10 VRTWLRWVSARYQLEVVDLDKFLMN---GKGLCLMSL------EGFLYR--VPV-GGKLLYEDFQRRL 65 (66)
T ss_pred HHHHHHHHHHHhCCCCCCccccCCC---HHHHHcCCH------HHHHhh--cCC-ccHHHHHHHHHHh
Confidence 4444567777877766 66666322 234445553 367766 333 9999999999998
No 69
>cd01041 Rubrerythrin Rubrerythrin, ferritin-like diiron-binding domain. Rubrerythrin domain is a nonheme iron binding domain found in many air-sensitive bacteria and archaea and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The homodimeric rubrerythrin protein contains a binuclear metal center located within a four helix bundle. Many, but not all, rubrerythrin proteins have a second domain with a rubredoxin-like hexacoordinated iron center. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system but its function is still poorly understood.
Probab=37.61 E-value=42 Score=26.58 Aligned_cols=55 Identities=18% Similarity=0.097 Sum_probs=41.2
Q ss_pred HHHHhhhhccch-hhHHHHHHhhhhhcc-CccHHHHHhhhccchhhhhcchhhhhhh
Q 024138 141 EFLERSCTAEFS-GFLLYKELGRRLKKT-NPVVAEIFSLMSRDEARHAGYECASKSV 195 (272)
Q Consensus 141 eFLerScTAEFS-GfLLYKEl~rrlk~~-NP~lae~F~lMsRDEARHAGFlNkal~D 195 (272)
+=|+..-..|-- ..-.|+++.+.-.+. +...+.+|.-+..||.+|+-.+-+.|.+
T Consensus 76 ~~l~~~~~~E~~e~~~~y~~~~~~A~~e~d~~~~~~f~~i~~~E~~H~~~l~~~l~~ 132 (134)
T cd01041 76 ENLKAAIAGETYEYTEMYPEFAEVAEEEGFKEAARSFEAIAEAEKVHAERYKKALEN 132 (134)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 445555556653 446788877766544 7889999999999999999888777764
No 70
>PF05138 PaaA_PaaC: Phenylacetic acid catabolic protein; InterPro: IPR007814 This family includes proteins such as PaaA and PaaC that are part of a catabolic pathway of phenylacetic acid []. These proteins may form part of a dioxygenase complex.; PDB: 3PWQ_K 3PVT_B 1OTK_B 3PW1_B 3PW8_B 3PVR_B 3PVY_B 3Q1G_A 3PF7_B 3PM5_C ....
Probab=35.87 E-value=38 Score=30.99 Aligned_cols=66 Identities=21% Similarity=0.227 Sum_probs=54.9
Q ss_pred HHhcCChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhh--hccchhhhhcchhhhhhhh
Q 024138 127 AADKMQGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSL--MSRDEARHAGYECASKSVM 196 (272)
Q Consensus 127 ~~d~l~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~l--MsRDEARHAGFlNkal~Df 196 (272)
..+.||++.|+..+++|.+---.|+.|---|-|.--+- |.|.|-..+ ++=||-+||-.+..-+.++
T Consensus 6 ~~~~~~~~~~~~L~~~l~~laD~elil~~r~~ew~~~A----P~LeediAl~~ia~DelGHAr~ly~ll~el 73 (263)
T PF05138_consen 6 DPDEMPEEYREALIRYLLRLADDELILGQRLSEWCGHA----PSLEEDIALANIAQDELGHARLLYRLLEEL 73 (263)
T ss_dssp TTSS--HHHHHHHHHHHHHHHHHHHHHHHHHHTGGGGS----SSHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred cchhhhhhhHHHHHHHHHHHhChHHHhhhHHhHHHhhC----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45789999999999999999999999888888876666 998886554 6779999999999988887
No 71
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=35.66 E-value=17 Score=32.02 Aligned_cols=71 Identities=18% Similarity=0.176 Sum_probs=55.2
Q ss_pred hHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhh-------h-----------hhcccccCceeeeeehhcc
Q 024138 154 FLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSV-------M-----------YVKYTFFKPKFIFYATYLS 215 (272)
Q Consensus 154 fLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~D-------f-----------~rkYTfF~PKfIfYATYLS 215 (272)
++.|..+.++- --|.|+++|.-.|.+|+.||.=.=+.|.+ . .-.++...|+|.=+|-...
T Consensus 23 Y~~~A~~A~~e--G~~~va~lfr~iA~~E~~HA~~~~~~l~~~~~~~~~~~eNl~~aieGE~~e~~emyp~~ae~A~~~g 100 (166)
T COG1592 23 YLIFAKVAEEE--GYPEIARLFRAIAEAEAVHAKNHLKLLGKLLLVLGDTRENLEEAIEGETYEITEMYPVFAEVAEEEG 100 (166)
T ss_pred HHHHHHHHHHC--CCHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHccchHHHHHhChHHHHHHHHcC
Confidence 67777777766 68999999999999999999876666664 2 6678889999988888877
Q ss_pred cccchhHHHHH
Q 024138 216 EKIGYWRYITI 226 (272)
Q Consensus 216 EKIGYwRYItI 226 (272)
+|===+|...+
T Consensus 101 ~~~~a~~f~~~ 111 (166)
T COG1592 101 FKEAARSFRAA 111 (166)
T ss_pred cHHHHHHHHHH
Confidence 55444555554
No 72
>PF09537 DUF2383: Domain of unknown function (DUF2383); InterPro: IPR019052 This entry represents a functionally uncharacterised ferritin like domain.; PDB: 3FSE_B.
Probab=34.85 E-value=49 Score=25.21 Aligned_cols=54 Identities=17% Similarity=0.241 Sum_probs=41.8
Q ss_pred HHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 141 EFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 141 eFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
+=|..=+..+..|.--|+....++ +||.++.+|.-++.+-.+|+.=|..-+.++
T Consensus 4 ~~Ln~Ll~~~~d~~~~Y~~a~~~~--~~~~lk~~f~~~~~~~~~~~~~L~~~i~~~ 57 (111)
T PF09537_consen 4 EALNDLLKGLHDGIEGYEKAAEKA--EDPELKSLFQEFAQERQQHAEELQAEIQEL 57 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH----SHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 334445566778888999999999 589999999999999999988887766655
No 73
>TIGR02156 PA_CoA_Oxy1 phenylacetate-CoA oxygenase, PaaG subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=34.75 E-value=35 Score=32.20 Aligned_cols=66 Identities=23% Similarity=0.298 Sum_probs=57.3
Q ss_pred HHhcCChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHh--hhccchhhhhcchhhhhhhh
Q 024138 127 AADKMQGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFS--LMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 127 ~~d~l~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~--lMsRDEARHAGFlNkal~Df 196 (272)
.-|.||++.|+..+.+|.+---+|+-|-.-+.|--.|- |.|.|=.. -++=||..||=.+-..+.++
T Consensus 13 ~~d~mp~~yr~~L~r~l~~~AdsEli~a~r~~eW~~~A----P~LeediAl~niaqDelGHar~ly~~a~~L 80 (289)
T TIGR02156 13 AKDWMPAAYRKTLIRQISQHAHSEIVGMLPEGNWITRA----PTLKRKLILMAKVQDEAGHGLYLYAAAETL 80 (289)
T ss_pred CcccCCHHHHHHHHHHHHHHhhHHHHhccccccHHHhC----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34779999999999999999999999999999987777 88887544 45789999999999988887
No 74
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=33.63 E-value=43 Score=26.08 Aligned_cols=30 Identities=33% Similarity=0.657 Sum_probs=23.9
Q ss_pred HHHHHHHHHHhhhhccchhhHHHHHHhhhh
Q 024138 135 LRQIFVEFLERSCTAEFSGFLLYKELGRRL 164 (272)
Q Consensus 135 ~R~~FveFLerScTAEFSGfLLYKEl~rrl 164 (272)
.++-|++||..+|..||.-.+-=..|..+|
T Consensus 7 ~~~Q~~~~l~~~~~~Ef~~I~~Er~v~~kL 36 (109)
T PF03980_consen 7 VHQQMIEFLEENCKKEFEEILEERDVVEKL 36 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 467799999999999999877555565555
No 75
>PLN02492 ribonucleoside-diphosphate reductase
Probab=33.58 E-value=74 Score=29.40 Aligned_cols=60 Identities=12% Similarity=0.069 Sum_probs=42.1
Q ss_pred HHHhcCChHHHHHHHHHHHhhhhccc-hhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhc
Q 024138 126 EAADKMQGPLRQIFVEFLERSCTAEF-SGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAG 187 (272)
Q Consensus 126 ~~~d~l~~~~R~~FveFLerScTAEF-SGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAG 187 (272)
++|.+|+++.|..+..-|--=..++- -|.-+...+...+ ++|.++..+..++--|+.|+-
T Consensus 45 ~dw~~Lt~~Er~~~~~il~~~~~~D~~v~~~~~~~~~~~~--~~~E~~~~~~~q~~~E~iH~~ 105 (324)
T PLN02492 45 KDWEKLTDDERHFISHVLAFFAASDGIVLENLAARFMKEV--QVPEARAFYGFQIAIENIHSE 105 (324)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHHHHH
Confidence 46788999999877654433222222 2333445666666 689999999999999999974
No 76
>PLN00179 acyl- [acyl-carrier protein] desaturase
Probab=33.13 E-value=32 Score=34.27 Aligned_cols=60 Identities=18% Similarity=0.267 Sum_probs=39.4
Q ss_pred ChHHHHHHHHHHHhhh------hccchhhH--HHHHHhhhhhcc----------CccHHHHHhhhccchhhhhcchhh
Q 024138 132 QGPLRQIFVEFLERSC------TAEFSGFL--LYKELGRRLKKT----------NPVVAEIFSLMSRDEARHAGYECA 191 (272)
Q Consensus 132 ~~~~R~~FveFLerSc------TAEFSGfL--LYKEl~rrlk~~----------NP~lae~F~lMsRDEARHAGFlNk 191 (272)
|+..=+.-+.+|..+= ...+-||+ -|+|+.-++--. +|+++.|-.-.|.||.||.-|--+
T Consensus 186 Dm~~iE~t~q~li~~G~d~~~~~~py~~~vYtSFQErAT~VSH~NTarlA~~~gDp~la~icg~IAaDE~rHe~fY~~ 263 (390)
T PLN00179 186 DMRQIEKTIQYLIGSGMDPKTENNPYLGFIYTSFQERATFISHGNTARLAKEHGDAKLAKICGTIAADEKRHETAYTR 263 (390)
T ss_pred CHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHhhhHHHHHHhcCChHHHHHHHHHhccHHHHHHHHHH
Confidence 4444445566666332 12344543 577887655322 699999999999999999876444
No 77
>PRK10236 hypothetical protein; Provisional
Probab=32.95 E-value=49 Score=30.91 Aligned_cols=48 Identities=13% Similarity=0.108 Sum_probs=33.4
Q ss_pred HHHHHHHHHHhhccCCCCcccCh-------hHHHHHhcCChHHHHHHHHHHHhhh
Q 024138 100 AEFEALLQEFKTDYNQTHFVRNK-------EFKEAADKMQGPLRQIFVEFLERSC 147 (272)
Q Consensus 100 ~E~~Aml~Efr~DyNr~HFvR~~-------eF~~~~d~l~~~~R~~FveFLerSc 147 (272)
+=+.-..+.++..||++-=+-+- =++++|++||++.|+.|.+=|.+|.
T Consensus 91 eIL~DVc~~LKV~y~~~~st~~iE~~il~kll~~a~~kms~eE~~~L~~~l~~~l 145 (237)
T PRK10236 91 AILLDVSKRLKLKADKEMSTFEIEQQLLEQFLRNTWKKMDEEHKQEFLHAVDARV 145 (237)
T ss_pred HHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHhhhc
Confidence 33444455667777764322221 2578999999999999999999883
No 78
>cd01049 RNRR2 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain. Ribonucleotide Reductase, R2/beta subunit (RNRR2) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in all eukaryotes, many prokaryotes, several viruses, and few archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites. The beta subunit (R2) contains a diiron cluster that, in its reduced state, reacts with dioxygen to form a stable tyrosyl radical and a diiron(III) cluster. This essential tyrosyl radical is proposed to generate a thiyl radical, located on a cysteine residue in the R1 active site that initiates ribonucleotide reduction. The beta subunit is composed of 10-13 helices, the 8 longest helices form an alpha-
Probab=32.26 E-value=87 Score=27.58 Aligned_cols=70 Identities=16% Similarity=0.073 Sum_probs=42.8
Q ss_pred HHHHhcCChHHHHHHHHHHHhhhhccc-hhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 125 KEAADKMQGPLRQIFVEFLERSCTAEF-SGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 125 ~~~~d~l~~~~R~~FveFLerScTAEF-SGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
.++|.+|+++.|..+..-|--=-.+|- -|-.+ .++..+.- ++|.++-.+..-+-+|++|+=+-+.-+..+
T Consensus 34 ~~~~~~l~~~er~~~~~~la~~~~~d~~v~~~~-~~~~~~~~-~~~e~~~~~~~q~~~E~iH~e~Ys~il~~l 104 (288)
T cd01049 34 LKDWEKLTEAERHFIKRVLAFLAALDSIVGENL-VELFSRHV-QIPEARAFYGFQAFMENIHSESYSYILDTL 104 (288)
T ss_pred HHHHhHCCHHHHHHHHHHHHHHHHHHHHHHHhH-HHHHHHHc-ChHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 468889999888877654322111111 11111 12222221 589999999999999999997766655444
No 79
>PTZ00211 ribonucleoside-diphosphate reductase small subunit; Provisional
Probab=30.78 E-value=80 Score=29.32 Aligned_cols=61 Identities=13% Similarity=0.096 Sum_probs=42.3
Q ss_pred HHHhcCChHHHHHHHHHHHhhhhcc-chhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcc
Q 024138 126 EAADKMQGPLRQIFVEFLERSCTAE-FSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGY 188 (272)
Q Consensus 126 ~~~d~l~~~~R~~FveFLerScTAE-FSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGF 188 (272)
++|.+|+++.|..+..-|--=..++ --|..+...+...+ +.|.++..+..++=-|+.|+--
T Consensus 56 ~dw~~Lt~~Er~~~~~~l~~~~~~D~~v~~~~~~~~~~~~--~~pE~~~~~~~q~~~E~iHs~s 117 (330)
T PTZ00211 56 KDWEKLNDGERHFIKHVLAFFAASDGIVLENLAQRFMREV--QVPEARCFYGFQIAMENIHSET 117 (330)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHHHHHH
Confidence 4688999999998876553322222 12333444555666 6799999999999999999753
No 80
>PRK13456 DNA protection protein DPS; Provisional
Probab=30.70 E-value=56 Score=29.45 Aligned_cols=64 Identities=20% Similarity=0.200 Sum_probs=54.6
Q ss_pred hHHHHHHHHHHHhhhhccchhhHHHHHHhhhhhcc-CccHHHHHhhhccchhhhhcchhhhhhhh
Q 024138 133 GPLRQIFVEFLERSCTAEFSGFLLYKELGRRLKKT-NPVVAEIFSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 133 ~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk~~-NP~lae~F~lMsRDEARHAGFlNkal~Df 196 (272)
+..++..|+-|...-..|+.-++-|.-.+--++.- .+.|+|.+.--+=||-+||-.|-.-+.++
T Consensus 15 g~d~~~li~lLn~AlA~E~~a~~~Y~~~a~~~~G~~~e~V~e~le~a~~EEl~HA~~lAeRI~qL 79 (186)
T PRK13456 15 GVDVDKLVELLVKNAAAEFTTYYYYTILRAHLIGLEGEGLKEIAEDARLEDRNHFEALVPRIYEL 79 (186)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45688899999999999999999999998888755 68999888886669999999887766655
No 81
>PTZ00183 centrin; Provisional
Probab=30.21 E-value=2.3e+02 Score=21.54 Aligned_cols=90 Identities=14% Similarity=0.134 Sum_probs=47.2
Q ss_pred cccHHHHHHHHHHHhhccCCCCcccChhHHHHHhcC-ChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhhcc-----Cc
Q 024138 96 KLNQAEFEALLQEFKTDYNQTHFVRNKEFKEAADKM-QGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLKKT-----NP 169 (272)
Q Consensus 96 ~~~~~E~~Aml~Efr~DyNr~HFvR~~eF~~~~d~l-~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk~~-----NP 169 (272)
.+..++++.++..+-. |..=.+-=++|...+... +....+.=++.+-.+|-..=+|.|...|+..=++.. ..
T Consensus 49 ~~~~~~~~~l~~~~d~--~~~g~i~~~eF~~~~~~~~~~~~~~~~l~~~F~~~D~~~~G~i~~~e~~~~l~~~~~~l~~~ 126 (158)
T PTZ00183 49 EPKKEEIKQMIADVDK--DGSGKIDFEEFLDIMTKKLGERDPREEILKAFRLFDDDKTGKISLKNLKRVAKELGETITDE 126 (158)
T ss_pred CCCHHHHHHHHHHhCC--CCCCcEeHHHHHHHHHHHhcCCCcHHHHHHHHHHhCCCCCCcCcHHHHHHHHHHhCCCCCHH
Confidence 3444556666666533 222223334565443321 111111223344466777778999988887666432 34
Q ss_pred cHHHHHhhhccchhhhhcchh
Q 024138 170 VVAEIFSLMSRDEARHAGYEC 190 (272)
Q Consensus 170 ~lae~F~lMsRDEARHAGFlN 190 (272)
.+.++|.....| +.|.|+
T Consensus 127 ~~~~~~~~~d~~---~~g~i~ 144 (158)
T PTZ00183 127 ELQEMIDEADRN---GDGEIS 144 (158)
T ss_pred HHHHHHHHhCCC---CCCcCc
Confidence 566667666554 456665
No 82
>KOG2880 consensus SMAD6 interacting protein AMSH, contains JAB/MPN/Mov34 domain [Signal transduction mechanisms]
Probab=29.59 E-value=27 Score=34.98 Aligned_cols=26 Identities=35% Similarity=0.640 Sum_probs=22.1
Q ss_pred hhcccc------cchhHHHHHHhH-HhhCCCCC
Q 024138 212 TYLSEK------IGYWRYITIYRH-LKANPDSS 237 (272)
Q Consensus 212 TYLSEK------IGYwRYItIyRH-Le~nPe~r 237 (272)
+||+|+ |=|-||||.|=- +.+|||++
T Consensus 44 VY~~EgN~enafvLy~ry~tLfiEkipkHrDy~ 76 (424)
T KOG2880|consen 44 VYLEEGNVENAFVLYLRYITLFIEKIPKHRDYR 76 (424)
T ss_pred HHHhcCCcchhhhHHHHHHHHHHHhcccCcchh
Confidence 577776 679999999977 88999988
No 83
>PF01846 FF: FF domain; InterPro: IPR002713 The FF domain may be involved in protein-protein interaction []. It often occurs as multiple copies and often accompanies WW domains IPR001202 from INTERPRO. PRP40 from yeast encodes a novel, essential splicing component that associates with the yeast U1 small nuclear ribonucleoprotein particle [].; PDB: 3HFH_B 2KIS_A 2DOD_A 2JUC_A 2LKS_A 1UZC_A 2KZG_A 2L9V_A 2DOF_A 2KFD_A ....
Probab=29.58 E-value=69 Score=21.54 Aligned_cols=43 Identities=19% Similarity=0.405 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHhhccCCC------CcccChhHHHHHhcCChHHHHHHHHH
Q 024138 99 QAEFEALLQEFKTDYNQT------HFVRNKEFKEAADKMQGPLRQIFVEF 142 (272)
Q Consensus 99 ~~E~~Aml~Efr~DyNr~------HFvR~~eF~~~~d~l~~~~R~~FveF 142 (272)
+++|.+||+|..-+++-. -+..++.|... ..-+.+-+++|-||
T Consensus 3 ~~~F~~lL~e~~i~~~s~W~~~~~~l~~dpry~~i-~~~~~~R~~lF~ey 51 (51)
T PF01846_consen 3 REAFKELLKEHKITPYSSWEEVKPKLSKDPRYKAI-GDSESERESLFEEY 51 (51)
T ss_dssp HHHHHHHHHHTTS-TTSSHHHHHHHHTTSCHHHHS-TSCHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCCCCCCcHHHHHHHHccCHHHHHh-cCCHHHHHHHHHhC
Confidence 466777777766444432 13455666544 22233344556554
No 84
>PF05823 Gp-FAR-1: Nematode fatty acid retinoid binding protein (Gp-FAR-1); InterPro: IPR008632 Parasitic nematodes produce at least two structurally novel classes of small helix-rich retinol- and fatty-acid-binding proteins that have no counterparts in their plant or animal hosts and thus represent potential targets for new nematicides. Gp-FAR-1 is a member of the nematode-specific fatty-acid- and retinol-binding (FAR) family of proteins but localises to the surface of the organism, placing it in a strategic position for interaction with the host. Gp-FAR-1 functions as a broad-spectrum retinol- and fatty-acid-binding protein, and it is thought that it is involved in the evasion of primary host plant defence systems [].; GO: 0008289 lipid binding; PDB: 2W9Y_A.
Probab=26.83 E-value=50 Score=28.06 Aligned_cols=51 Identities=18% Similarity=0.169 Sum_probs=34.1
Q ss_pred hHHHHHhcCChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHHHhhh
Q 024138 123 EFKEAADKMQGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLM 178 (272)
Q Consensus 123 eF~~~~d~l~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lM 178 (272)
|-....+.|.++.|.+.+|++.. .+.|=-+.|+-.-||+++|.|.+-+.-|
T Consensus 13 ev~~~~~~Lt~eeK~~lkev~~~-----~~~~~~~de~i~~LK~ksP~L~~k~~~l 63 (154)
T PF05823_consen 13 EVVEFYKNLTPEEKAELKEVAKN-----YAKFKNEDEMIAALKEKSPSLYEKAEKL 63 (154)
T ss_dssp HHHHHHHH--TTTHHHHHHHHTT------------TTHHHHHHHH-HHHHHHHHHH
T ss_pred HHHHHHHcCCHHHHHHHHHHHHH-----ccccCCHHHHHHHHHHhCHHHHHHHHHH
Confidence 34566789999999999999887 3455588899999999999998876554
No 85
>PRK13778 paaA phenylacetate-CoA oxygenase subunit PaaA; Provisional
Probab=26.78 E-value=66 Score=30.90 Aligned_cols=67 Identities=21% Similarity=0.286 Sum_probs=57.0
Q ss_pred HHHhcCChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhhccCccHHHH--Hhhhccchhhhhcchhhhhhhh
Q 024138 126 EAADKMQGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLKKTNPVVAEI--FSLMSRDEARHAGYECASKSVM 196 (272)
Q Consensus 126 ~~~d~l~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk~~NP~lae~--F~lMsRDEARHAGFlNkal~Df 196 (272)
+.-|.||++.|+..+.+|.+---+|+-|-.-..|--.|- |.|.|= +.-++=||..||=.+-..+.++
T Consensus 30 e~~d~mp~~yr~~L~~~l~~laDseLi~a~r~~eWi~~A----P~LeediAl~niaqDelGHa~~ly~~aeeL 98 (314)
T PRK13778 30 EPKDWMPDAYRKTLIRQISQHAHSEIVGMLPEGNWITRA----PSLKRKAILLAKVQDEAGHGLYLYSAAETL 98 (314)
T ss_pred CCccccCHHHHHHHHHHHHHHhhHHHHhcchhccHHHhC----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344779999999999999999999999998888877666 888774 4456789999999999988887
No 86
>TIGR03092 SASP_sspI small, acid-soluble spore protein I. This protein family is restricted to a subset of endospore-forming bacteria such as Bacillus subtilis, all of which are in the Firmicutes (low-GC Gram-positive) lineage. It is a minor SASP (small, acid-soluble spore protein) designated SspI. The gene in Bacillus subtilis previously was designated ysfA.
Probab=25.90 E-value=77 Score=24.70 Aligned_cols=50 Identities=12% Similarity=0.111 Sum_probs=32.3
Q ss_pred ccHHHHHHHHHHHhhccCCCCccc-ChhHHHHHhcCChHHHHHHHHHHHhh
Q 024138 97 LNQAEFEALLQEFKTDYNQTHFVR-NKEFKEAADKMQGPLRQIFVEFLERS 146 (272)
Q Consensus 97 ~~~~E~~Aml~Efr~DyNr~HFvR-~~eF~~~~d~l~~~~R~~FveFLerS 146 (272)
..++|++.++..--.-..-+.--- .==|+..|.+++...++.+++-|++.
T Consensus 13 ~s~~elk~~I~daI~sgEEk~LPGLGVlFE~~W~~~~~~ek~~m~~~l~~~ 63 (65)
T TIGR03092 13 NTKEQLEATIVDAIQSGEEKMLPGLGVLFEAIWKHANEQEKDEMLETLEQG 63 (65)
T ss_pred CCHHHHHHHHHHHHhccchhcCCccHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence 345677777765432211111100 01389999999999999999999874
No 87
>PF01099 Uteroglobin: Uteroglobin family; InterPro: IPR006038 Uteroglobin (or blastokinin) is a mammalian steroid-inducible secreted protein originally isolated from the uterus of rabbits during early pregnancy. The mucosal epithelia of several organs that communicate with the external environment express uteroglobin. Its tissue-specific expression is regulated by steroid hormones, and is augmented in the uterus by non-steroidal prolactin. Uteroglobin may be a multi-functional protein with anti-inflammatory/immunomodulatory properties, acting to inhibit phospholipase A2 activity, and binding to (and possibly sequestering) several hydrophobic ligands such as progesterone, retinols, polychlorinated biphenyls, phospholipids and prostaglandins. In addition, uteroglobin has anti-chemotactic, anti-allergic, anti-tumourigenic and embryo growth-stimulatory properties. Uteroglobin may have a homeostatic role against oxidative damage, inflammation, autoimmunity and cancer [, , , ]. Uteroglobin consists of a disulphide-linked dimer of two identical polypeptides, each polypeptide being composed of four helices. It is a member of the secretoglobin superfamily. This entry represents uteroglobin proteins from several mammalian species, as well as other members of the secretoglobin superfamily, such as lipophilin B [], prostatic steroid-binding protein [], mammaglobin [], and the related allergen Fel d 1 (Felis domesticus allergen 1) [].; GO: 0005488 binding, 0005576 extracellular region; PDB: 1UTR_B 1CCD_A 1UTG_A 2UTG_A 1ZKR_B 1PUO_B 2EJN_B.
Probab=25.87 E-value=83 Score=23.07 Aligned_cols=46 Identities=22% Similarity=0.424 Sum_probs=29.3
Q ss_pred cHHHHHHHHHHHhhccCCCCcccChhHHHHHhcCChHHHHHHHHHHHh
Q 024138 98 NQAEFEALLQEFKTDYNQTHFVRNKEFKEAADKMQGPLRQIFVEFLER 145 (272)
Q Consensus 98 ~~~E~~Aml~Efr~DyNr~HFvR~~eF~~~~d~l~~~~R~~FveFLer 145 (272)
..++..+-|++|..|..-.. --.++|+..|+|++++|..+..+|+.
T Consensus 15 s~~~Y~~~l~~y~~~~~~~~--A~~~lK~C~d~ls~e~~~~i~~~l~~ 60 (67)
T PF01099_consen 15 SPEEYKESLQKYNPPPEAVE--AKLELKQCVDKLSNETRENILKLLEK 60 (67)
T ss_dssp -HHHHHHHHHCC---HHHHH--HHHHHHHHHTTS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHhcCCCHHHHH--HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 45677777766554432111 11378999999999999999999875
No 88
>PTZ00370 STEVOR; Provisional
Probab=25.74 E-value=71 Score=30.88 Aligned_cols=67 Identities=27% Similarity=0.315 Sum_probs=49.6
Q ss_pred HHHHHHhhccCCCCcccChhHHHHHhcCCh-------HHHHHHHHHHHh----------hhhccchhhHHHHHHhhhhhc
Q 024138 104 ALLQEFKTDYNQTHFVRNKEFKEAADKMQG-------PLRQIFVEFLER----------SCTAEFSGFLLYKELGRRLKK 166 (272)
Q Consensus 104 Aml~Efr~DyNr~HFvR~~eF~~~~d~l~~-------~~R~~FveFLer----------ScTAEFSGfLLYKEl~rrlk~ 166 (272)
.+|.|-.. ||. |+.-|+|-++..|+++. .+.+-|.++=|| .|-.|. ..+|.
T Consensus 41 R~L~Ecel-~~p-~YdNDpemK~i~d~~n~eaikkyqqT~~~f~e~~e~~~k~~~K~k~~~d~e~---------k~klE- 108 (296)
T PTZ00370 41 RLLAQTQN-HNP-HYHNDPELKEIIDKMNEEAIKKYQQTHDPYEQLKEVVEKNGTKYTGGNDAEP---------MSTLE- 108 (296)
T ss_pred eehhhhhc-CCC-CCCCcHHHHHHHHHHhHHHhhhhhhhcchHHHHHHHHHhcCCccccccCcch---------hHHHH-
Confidence 34666666 888 99999999999999988 777777777654 344443 55554
Q ss_pred cCccHHHHHhhhccchhh
Q 024138 167 TNPVVAEIFSLMSRDEAR 184 (272)
Q Consensus 167 ~NP~lae~F~lMsRDEAR 184 (272)
.++.|-|.-|-.||..
T Consensus 109 --Kel~e~~ee~fg~~~~ 124 (296)
T PTZ00370 109 --KELLETYEEMFGDESD 124 (296)
T ss_pred --HHHHHHHHHHhcCccc
Confidence 4678888899999976
No 89
>PRK09101 nrdB ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=25.19 E-value=1.2e+02 Score=28.99 Aligned_cols=55 Identities=16% Similarity=0.109 Sum_probs=36.4
Q ss_pred HHHhcCChHHHHHHHHHHH-----hhhhccchhhHHHHHHhhhhhccCccHHHHHhhhccchhhhh
Q 024138 126 EAADKMQGPLRQIFVEFLE-----RSCTAEFSGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHA 186 (272)
Q Consensus 126 ~~~d~l~~~~R~~FveFLe-----rScTAEFSGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHA 186 (272)
.+|.+|+++.|..|..-|- .|..++ -+.-.+.+.+ ++|.+.-++..++--|+-|+
T Consensus 61 ~dw~~Lt~~Er~~~~~~L~~lt~lDs~q~~----~~~~~~~~~i--~~pE~~~~~~~q~~~E~IHs 120 (376)
T PRK09101 61 IDYQALPEHEKHIFISNLKYQTLLDSIQGR----SPNVALLPLV--SIPELETWIETWSFSETIHS 120 (376)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHHHHHHH----hhHHHHHHHC--ChHHHHHHHHHHHHHHHHHH
Confidence 4677788888887754432 122222 1223455666 67999988888888999997
No 90
>cd07176 terB tellurite resistance protein terB. This family contains uncharacterized bacterial proteins involved in tellurium resistance. The prototype of this CD is the Kp-terB protein from Klebsiella pneumoniae, whose 3D structure was recently determined. The biological function of terB and the mechanism responsible for tellurium resistance are unknown.
Probab=24.99 E-value=1.7e+02 Score=21.48 Aligned_cols=55 Identities=18% Similarity=0.105 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhhccCCCCcccChhH-HHHHhcCChHHHHHHHHHHHhhhhccchhhHHHH
Q 024138 99 QAEFEALLQEFKTDYNQTHFVRNKEF-KEAADKMQGPLRQIFVEFLERSCTAEFSGFLLYK 158 (272)
Q Consensus 99 ~~E~~Aml~Efr~DyNr~HFvR~~eF-~~~~d~l~~~~R~~FveFLerScTAEFSGfLLYK 158 (272)
++++.+++++...++ +-..-.++ ....+.++++.|+..+.++.+-+.|. |-+--+
T Consensus 42 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~ia~aD--G~~~~~ 97 (111)
T cd07176 42 RERLIALLDKLLALL---RPEGLAALLKAAAKLLPPELRETAFAVAVDIAAAD--GEVDPE 97 (111)
T ss_pred HHHHHHHHHHHHHHH---HHhhHHHHHHHHHHhCCHHHHHHHHHHHHHHHHcc--CCCCHH
Confidence 345555555555543 00011233 33444556999999999999988776 444433
No 91
>PF14684 Tricorn_C1: Tricorn protease C1 domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=24.82 E-value=56 Score=24.02 Aligned_cols=51 Identities=18% Similarity=0.359 Sum_probs=32.5
Q ss_pred HhhccCCCCccccChHHHhhhhcccccccccHHHHHHHHHHHhhccCCCCc
Q 024138 68 IKETLLTPRFYTTDFDEMETLFNTEINKKLNQAEFEALLQEFKTDYNQTHF 118 (272)
Q Consensus 68 ~~etLLTPRFYTTDFd~m~~lf~~eid~~~~~~E~~Aml~Efr~DyNr~HF 118 (272)
++|...-|.|---|.+++-+-+.-.|....+++|+-.+|.||-+.-|-.|-
T Consensus 15 ~~~~f~d~~~~gvDW~~~~~~Y~p~v~~~~~~~el~~vl~eMl~eL~~~H~ 65 (70)
T PF14684_consen 15 VRENFYDPDMHGVDWDAVYDRYRPLVPAAKTRDELYDVLNEMLGELNDSHT 65 (70)
T ss_dssp HHHHSS-HHHHHHHHHHHHHHHHGGGGG--SHHHHHHHHHHHHHTT--S--
T ss_pred HHHhcCCCCCCCCChHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHCCCcc
Confidence 445555555555577777776777777778888999999999888887773
No 92
>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and transcription factor-like proteins, TCF-1, -3, -4, and LEF-1. They appear to bind the minor groove of the A/T C A A A G/C-motif.
Probab=24.73 E-value=62 Score=23.26 Aligned_cols=19 Identities=26% Similarity=0.658 Sum_probs=14.2
Q ss_pred hhhHHH-HHHhhhhhccCcc
Q 024138 152 SGFLLY-KELGRRLKKTNPV 170 (272)
Q Consensus 152 SGfLLY-KEl~rrlk~~NP~ 170 (272)
++|++| +|...++++.||.
T Consensus 7 naf~~F~~~~r~~~~~~~p~ 26 (72)
T cd01388 7 NAFMLFSKRHRRKVLQEYPL 26 (72)
T ss_pred cHHHHHHHHHHHHHHHHCCC
Confidence 677777 4677778888887
No 93
>PF12186 AcylCoA_dehyd_C: Acyl-CoA dehydrogenase C terminal; InterPro: IPR020964 This entry represents the C-terminal alpha helical domain of some bacterial Acyl-CoA dehydrogenases. It is found in association with PF02770 from PFAM, PF00441 from PFAM, PF02771 from PFAM. There is a conserved ARRL sequence motif. ; PDB: 2OKU_A.
Probab=24.04 E-value=1.2e+02 Score=25.56 Aligned_cols=82 Identities=20% Similarity=0.353 Sum_probs=51.4
Q ss_pred cccccHHHHHHHHHHHhhccCCCCcccChhHHHHHhcCChHHHHHHHHHHHhhhh---cc-chhhHHHHHHhhhhhccCc
Q 024138 94 NKKLNQAEFEALLQEFKTDYNQTHFVRNKEFKEAADKMQGPLRQIFVEFLERSCT---AE-FSGFLLYKELGRRLKKTNP 169 (272)
Q Consensus 94 d~~~~~~E~~Aml~Efr~DyNr~HFvR~~eF~~~~d~l~~~~R~~FveFLerScT---AE-FSGfLLYKEl~rrlk~~NP 169 (272)
++++..+-+..-+.+|.. .|.++..+.-+..-|++.||+-|... +. +-|.||-..=+ +.|
T Consensus 16 ~~~~el~~l~~rl~~m~~-----------~yeeav~~Vke~~nqe~~Df~ARRLvEMa~~iims~LLl~dA~-----k~p 79 (114)
T PF12186_consen 16 EVSPELQPLKERLKKMTE-----------KYEEAVAKVKEAKNQELQDFHARRLVEMAAHIIMSYLLLRDAS-----KAP 79 (114)
T ss_dssp ---GGGHHHHHHHHHHHH-----------HHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----H--
T ss_pred ccCHHHHHHHHHHHHHHH-----------HHHHHHHHHHhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HhH
Confidence 556655555666666653 46778888888888999999999753 32 34555554433 456
Q ss_pred c----HHHHHhhhccch-hhhhcchhh
Q 024138 170 V----VAEIFSLMSRDE-ARHAGYECA 191 (272)
Q Consensus 170 ~----lae~F~lMsRDE-ARHAGFlNk 191 (272)
+ -+++|--|+=+| +.|+.||+.
T Consensus 80 elf~kSA~Vyvr~ae~ev~~~~~~I~~ 106 (114)
T PF12186_consen 80 ELFAKSANVYVRYAEAEVAKHAAFIMN 106 (114)
T ss_dssp GGGHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 6 578888887777 568888876
No 94
>cd08308 Death_Tube Death domain of Tube. Death domains (DDs) similar to the DD in the protein Tube from Drosophila melanogaster. In Drosophila, interaction between the DDs of Tube and Pelle is an important component of the Toll pathway, which functions in establishing dorsoventral polarity in embryos and also in mediating innate immune response to pathogens. Tube and Pelle transmit the signal from the Toll receptor to the Dorsal/Cactus complex. Some members of this subfamily contain a C-terminal kinase domain, like Pelle, in addition to the DD. Tube has no counterpart in vertebrates. It contains an N-terminal DD and a C-terminal region with five copies of the Tube repeat, an 8-amino acid motif. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (D
Probab=23.85 E-value=73 Score=27.15 Aligned_cols=62 Identities=31% Similarity=0.533 Sum_probs=39.0
Q ss_pred HHHHHHHH---------HHhhccCCCCcccChhHHHHHhcCChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhhccCcc
Q 024138 100 AEFEALLQ---------EFKTDYNQTHFVRNKEFKEAADKMQGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLKKTNPV 170 (272)
Q Consensus 100 ~E~~Aml~---------Efr~DyNr~HFvR~~eF~~~~d~l~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk~~NP~ 170 (272)
+-|+.|+. ....-||..|+.+ +++.... + -||||-| |-.|=|---| .+|.
T Consensus 23 d~Wk~L~~~Ip~~~~~~~~~~~Y~~~hv~~---ie~~~~~-~-----------grSpte~-----LL~eWGT~g~-~r~T 81 (125)
T cd08308 23 DGWKKLMAIIPSDDDDFNNLAKYNAEHFKL---IEQAANK-Q-----------RRSCSEI-----LLDEWGTSGK-VRPT 81 (125)
T ss_pred ccHHHHHHhcCCcccccccccccCHHHHHH---HHHHHHh-c-----------CCChHHH-----HHHHHhhcCC-CCCc
Confidence 67888888 4555666666644 3322221 1 2799976 3344444333 5699
Q ss_pred HHHHHhhhccch
Q 024138 171 VAEIFSLMSRDE 182 (272)
Q Consensus 171 lae~F~lMsRDE 182 (272)
|.++|.++.+-|
T Consensus 82 v~~L~~LL~k~~ 93 (125)
T cd08308 82 LGVLLQLLVKAE 93 (125)
T ss_pred HHHHHHHHHHhh
Confidence 999999998655
No 95
>COG4479 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.56 E-value=87 Score=25.04 Aligned_cols=38 Identities=24% Similarity=0.448 Sum_probs=30.6
Q ss_pred CCCCccccChHHHhhhhcccccccccHHHHHHHHHHHhh
Q 024138 73 LTPRFYTTDFDEMETLFNTEINKKLNQAEFEALLQEFKT 111 (272)
Q Consensus 73 LTPRFYTTDFd~m~~lf~~eid~~~~~~E~~Aml~Efr~ 111 (272)
.=|. -|+||+++....++.-+...+...||.+-+|.-.
T Consensus 33 sFPK-~t~Df~~is~YLE~~a~f~~~m~~FDeiwe~Yle 70 (74)
T COG4479 33 SFPK-HTDDFHEISDYLETNADFLFNMSVFDEIWEEYLE 70 (74)
T ss_pred cCCC-CCccHHHHHHHHHhcCCcccchhhHHHHHHHHHH
Confidence 3344 4899999999988888899999988888877654
No 96
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=22.70 E-value=1.2e+02 Score=20.28 Aligned_cols=31 Identities=23% Similarity=0.248 Sum_probs=21.8
Q ss_pred HHhcCChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhh
Q 024138 127 AADKMQGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLK 165 (272)
Q Consensus 127 ~~d~l~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk 165 (272)
+++.||++.|+++....... +-++||++++.
T Consensus 1 Al~~L~~~er~vi~~~y~~~--------~t~~eIa~~lg 31 (50)
T PF04545_consen 1 ALDQLPPREREVIRLRYFEG--------LTLEEIAERLG 31 (50)
T ss_dssp HHCTS-HHHHHHHHHHHTST---------SHHHHHHHHT
T ss_pred ChhhCCHHHHHHHHHHhcCC--------CCHHHHHHHHC
Confidence 46889999999998877333 34778888774
No 97
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=22.62 E-value=1.6e+02 Score=19.42 Aligned_cols=33 Identities=27% Similarity=0.479 Sum_probs=22.2
Q ss_pred ccc-ccHHHHHHHHHHHhhccCCCCcccChhHHHHH
Q 024138 94 NKK-LNQAEFEALLQEFKTDYNQTHFVRNKEFKEAA 128 (272)
Q Consensus 94 d~~-~~~~E~~Aml~Efr~DyNr~HFvR~~eF~~~~ 128 (272)
.+. ...+|++.|+..+ |.|+.-.+--+||...+
T Consensus 18 g~~~~s~~e~~~l~~~~--D~~~~G~I~~~EF~~~~ 51 (54)
T PF13833_consen 18 GIKDLSEEEVDRLFREF--DTDGDGYISFDEFISMM 51 (54)
T ss_dssp TSSSSCHHHHHHHHHHH--TTSSSSSEEHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHhc--ccCCCCCCCHHHHHHHH
Confidence 445 6777899998877 55666666666665544
No 98
>PRK07209 ribonucleotide-diphosphate reductase subunit beta; Validated
Probab=22.56 E-value=1.4e+02 Score=28.30 Aligned_cols=63 Identities=19% Similarity=0.067 Sum_probs=43.0
Q ss_pred HHHh---cCChHHHHHHHHHHHhhhhccc-hhhHHHHHHhhhhhccCccHHHHHhhhccchhhhhcchh
Q 024138 126 EAAD---KMQGPLRQIFVEFLERSCTAEF-SGFLLYKELGRRLKKTNPVVAEIFSLMSRDEARHAGYEC 190 (272)
Q Consensus 126 ~~~d---~l~~~~R~~FveFLerScTAEF-SGfLLYKEl~rrlk~~NP~lae~F~lMsRDEARHAGFlN 190 (272)
++|. +|+++.|..+..-|--=..++- -|--+...+.+.+ ++|.+.-.+...+-.|+.|+=.-.
T Consensus 83 ~dw~~~~~Lt~~Er~~~~~il~ff~~~Ds~v~~nl~~~l~~~i--~~pE~r~~l~~q~~~E~iHs~sYs 149 (369)
T PRK07209 83 ALWKSPNGLTEDERRIVKRNLGFFSTADSLVANNIVLAIYRHI--TNPECRQYLLRQAFEEAIHTHAYQ 149 (369)
T ss_pred HHHccccCCCHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHc--CHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4575 4999999887654433223332 2333445666777 789999999999999999985433
No 99
>PLN02964 phosphatidylserine decarboxylase
Probab=22.03 E-value=1.5e+02 Score=31.10 Aligned_cols=64 Identities=17% Similarity=0.235 Sum_probs=43.7
Q ss_pred cccHHH---HHHHHHHHhhccCCCCcccChhHHHHHhcCC-----hHHHHHHHHHHHhhhhccchhhHHHHHHhhhhhc
Q 024138 96 KLNQAE---FEALLQEFKTDYNQTHFVRNKEFKEAADKMQ-----GPLRQIFVEFLERSCTAEFSGFLLYKELGRRLKK 166 (272)
Q Consensus 96 ~~~~~E---~~Aml~Efr~DyNr~HFvR~~eF~~~~d~l~-----~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk~ 166 (272)
.+.++| |+.|++++ |.|..-.+--+||....+.+. +++++.|- .+-.+=+|+|-+.||.+=++.
T Consensus 172 ~pte~e~~fi~~mf~~~--D~DgdG~IdfdEFl~lL~~lg~~~seEEL~eaFk-----~fDkDgdG~Is~dEL~~vL~~ 243 (644)
T PLN02964 172 DPVETERSFARRILAIV--DYDEDGQLSFSEFSDLIKAFGNLVAANKKEELFK-----AADLNGDGVVTIDELAALLAL 243 (644)
T ss_pred CCCHHHHHHHHHHHHHh--CCCCCCeEcHHHHHHHHHHhccCCCHHHHHHHHH-----HhCCCCCCcCCHHHHHHHHHh
Confidence 344455 88999986 777777777788977666553 23455554 334556799999999887755
No 100
>cd00084 HMG-box High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4; and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III member
Probab=22.00 E-value=91 Score=20.77 Aligned_cols=20 Identities=30% Similarity=0.569 Sum_probs=14.1
Q ss_pred chhhHHHH-HHhhhhhccCcc
Q 024138 151 FSGFLLYK-ELGRRLKKTNPV 170 (272)
Q Consensus 151 FSGfLLYK-El~rrlk~~NP~ 170 (272)
-|||++|. |....++..||.
T Consensus 5 ~~af~~f~~~~~~~~~~~~~~ 25 (66)
T cd00084 5 LSAYFLFSQEHRAEVKAENPG 25 (66)
T ss_pred CcHHHHHHHHHHHHHHHHCcC
Confidence 36888876 666667777775
No 101
>PRK02955 small acid-soluble spore protein SspI; Provisional
Probab=20.99 E-value=1.1e+02 Score=24.06 Aligned_cols=50 Identities=12% Similarity=0.099 Sum_probs=32.8
Q ss_pred ccHHHHHHHHHHHhhccCCCCccc-ChhHHHHHhcCChHHHHHHHHHHHhh
Q 024138 97 LNQAEFEALLQEFKTDYNQTHFVR-NKEFKEAADKMQGPLRQIFVEFLERS 146 (272)
Q Consensus 97 ~~~~E~~Aml~Efr~DyNr~HFvR-~~eF~~~~d~l~~~~R~~FveFLerS 146 (272)
..++|++.++.+=-.-..-+.--- .==|+..|.+++...+..+++-|++.
T Consensus 16 ~s~eel~~~I~daIqsgEEk~LPGLGVlFE~~W~~~~~~ek~~m~~~l~~~ 66 (68)
T PRK02955 16 NSKEELEGTIVDAIQSGEEKMLPGLGVLFEVIWKNADENEKDEMLETLEQG 66 (68)
T ss_pred CCHHHHHHHHHHHHhccchhcCCcchhHHHHHHHhcCHHHHHHHHHHHHHh
Confidence 356777777766433221111100 01389999999999999999999874
No 102
>PF07923 N1221: N1221-like protein; InterPro: IPR012486 The sequences featured in this family are similar to a hypothetical protein product of ORF N1221 in the CPT1-SPC98 intergenic region of the yeast genome (P53917 from SWISSPROT). This encodes an acidic polypeptide with several possible transmembrane regions [].
Probab=20.77 E-value=1.6e+02 Score=26.79 Aligned_cols=36 Identities=28% Similarity=0.246 Sum_probs=28.1
Q ss_pred HHHhcCChHHHHHHHHHHHhhhhc-------cchhhHHHHHHh
Q 024138 126 EAADKMQGPLRQIFVEFLERSCTA-------EFSGFLLYKELG 161 (272)
Q Consensus 126 ~~~d~l~~~~R~~FveFLerScTA-------EFSGfLLYKEl~ 161 (272)
..|++++...|+.||.-|...+.. +-.++|||==.|
T Consensus 48 ~~W~~~~~~~~~~~i~~ll~~L~~~~~~~R~~al~~LlYi~~G 90 (293)
T PF07923_consen 48 PSWDELSFDQRKDFIEKLLDQLESSDSEDRLEALRALLYIAQG 90 (293)
T ss_pred ccccccchhhHHHHHHHHHHhccccchhhHHHHHHHHHHHHcC
Confidence 678999999999999888877665 666888885433
No 103
>PF03748 FliL: Flagellar basal body-associated protein FliL; InterPro: IPR005503 This FliL protein controls the rotational direction of the flagella during chemotaxis []. FliL is a cytoplasmic membrane protein associated with the basal body [].; GO: 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009425 bacterial-type flagellum basal body
Probab=20.71 E-value=1.2e+02 Score=22.49 Aligned_cols=52 Identities=17% Similarity=0.318 Sum_probs=37.0
Q ss_pred CCCCccc--------ChhHHHHHhcCChHHHHHHHHHHHhhhhccchhhHHHHHHhhhhh
Q 024138 114 NQTHFVR--------NKEFKEAADKMQGPLRQIFVEFLERSCTAEFSGFLLYKELGRRLK 165 (272)
Q Consensus 114 Nr~HFvR--------~~eF~~~~d~l~~~~R~~FveFLerScTAEFSGfLLYKEl~rrlk 165 (272)
++.||++ +++-...+++..|..|..++.+|-.-=.+|++|----..|+..|+
T Consensus 17 ~~~~~l~~~i~l~~~~~~~~~~~~~~~~~ird~ii~~l~~~~~~~l~~~~g~~~Lk~~l~ 76 (99)
T PF03748_consen 17 GRQRYLKVSISLELSDEEAAEELESNMPRIRDAIISYLSSKTAEDLSGPEGKERLKDELK 76 (99)
T ss_pred CCcEEEEEEEEEEECCHHHHHHHHhccHHHHHHHHHHHHcCCHHHhcChhhHHHHHHHHH
Confidence 5556665 555566667778899999999997766678887655555555554
No 104
>PF00210 Ferritin: Ferritin-like domain; InterPro: IPR008331 Ferritin is one of the major non-haem iron storage proteins in animals, plants, and microorganisms []. It consists of a mineral core of hydrated ferric oxide, and a multi-subunit protein shell that encloses the former and assures its solubility in an aqueous environment. In animals the protein is mainly cytoplasmic and there are generally two or more genes that encode closely related subunits - in mammals there are two subunits which are known as H(eavy) and L(ight). In plants ferritin is found in the chloroplast []. This entry represents the main structural domain of ferritin. The domain is also found in other ferritin-like proteins such as members of the DNA protection during starvation (DPS) family and bacterioferritins.; GO: 0008199 ferric iron binding, 0006879 cellular iron ion homeostasis; PDB: 1N1Q_C 4DYU_E 2YJJ_D 2YJK_B 2VXX_B 3FVB_A 2WLU_A 2XGW_A 2WLA_A 1Z4A_D ....
Probab=20.55 E-value=1.3e+02 Score=22.36 Aligned_cols=60 Identities=22% Similarity=0.145 Sum_probs=49.5
Q ss_pred HHHHHHhhhhccchhhHHHHHHhhhhhc-cCccHHHHHhhhccchhhhhcchhhhhhhhhh
Q 024138 139 FVEFLERSCTAEFSGFLLYKELGRRLKK-TNPVVAEIFSLMSRDEARHAGYECASKSVMYV 198 (272)
Q Consensus 139 FveFLerScTAEFSGfLLYKEl~rrlk~-~NP~lae~F~lMsRDEARHAGFlNkal~Df~r 198 (272)
..+-|+.....|=..--.|+++.+...+ ..|.+..++.-+-.+|.+|.=++.+-|.++.|
T Consensus 81 ~~~~l~~~l~~e~~~~~~~~~l~~~a~~~~D~~t~~~~~~~l~~~~~~~~~l~~~l~~l~~ 141 (142)
T PF00210_consen 81 PREALEAALEDEKEIIEEYRELIKLAEKEGDPETADFLDEFLEEEEKHIWMLQAHLTNLKR 141 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4555666666777888889999888876 48999999999999999999999998887643
No 105
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=20.23 E-value=1e+02 Score=29.91 Aligned_cols=68 Identities=25% Similarity=0.318 Sum_probs=51.1
Q ss_pred HHHHHHhhccCCCCcccChhHHHHHhcCCh-------HHHHHHHHHHHh----------hhhccchhhHHHHHHhhhhhc
Q 024138 104 ALLQEFKTDYNQTHFVRNKEFKEAADKMQG-------PLRQIFVEFLER----------SCTAEFSGFLLYKELGRRLKK 166 (272)
Q Consensus 104 Aml~Efr~DyNr~HFvR~~eF~~~~d~l~~-------~~R~~FveFLer----------ScTAEFSGfLLYKEl~rrlk~ 166 (272)
.+|.|-..-||. |+.-|+|.++..|+++. .+.+-|.++=|| .|-+|.. .+|.
T Consensus 41 R~L~Ecel~~~p-~Y~nDpEmK~iid~~n~eaikkyqqT~~~f~e~~e~~~k~~~K~k~~~d~e~~---------~klE- 109 (295)
T TIGR01478 41 RLLAEIQRPKNP-HYHNDPELKEIIDKLNEEAIKKYQETHDPYEQLQELVEKNRTKSTGGNGAEPM---------STIE- 109 (295)
T ss_pred eehhhhccccCC-CCCCcHHHHHHHHHHhHHHhhhhhhhcchHHHHHHHHHhcCCcccccCCcchh---------hHHH-
Confidence 456777766888 99999999999999998 777788777654 4555444 4554
Q ss_pred cCccHHHHHhhhccchhh
Q 024138 167 TNPVVAEIFSLMSRDEAR 184 (272)
Q Consensus 167 ~NP~lae~F~lMsRDEAR 184 (272)
.++.|-|.-|-.||..
T Consensus 110 --Kel~e~~~~~fg~e~~ 125 (295)
T TIGR01478 110 --KELLEKYEEMFGDESH 125 (295)
T ss_pred --HHHHHHHHHHhCCccc
Confidence 4677888888889876
No 106
>PF02330 MAM33: Mitochondrial glycoprotein; InterPro: IPR003428 This mitochondrial matrix protein family contains members of the MAM33 family which bind to the globular 'heads' of C1Q.; GO: 0005759 mitochondrial matrix; PDB: 3QV0_A 1YQF_F 3JV1_A 1P32_A 3RPX_A.
Probab=20.15 E-value=88 Score=26.82 Aligned_cols=30 Identities=30% Similarity=0.593 Sum_probs=23.2
Q ss_pred HHhcCChHHHHHHHHHHH-hhhhccchhhHH
Q 024138 127 AADKMQGPLRQIFVEFLE-RSCTAEFSGFLL 156 (272)
Q Consensus 127 ~~d~l~~~~R~~FveFLe-rScTAEFSGfLL 156 (272)
..+.||+.+...|.+||+ |-...+|.-||.
T Consensus 152 ~f~~LDe~Lq~~~~~yLeeRGId~~la~fl~ 182 (204)
T PF02330_consen 152 DFDELDENLQDAFMNYLEERGIDEELANFLH 182 (204)
T ss_dssp EGGGSBHHHHHHHHHHHHHTT-SHHHHHHHH
T ss_pred ccccCCHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence 347899999999999996 567777776653
No 107
>PRK13966 nrdF2 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=20.11 E-value=3.2e+02 Score=25.59 Aligned_cols=92 Identities=12% Similarity=0.079 Sum_probs=53.7
Q ss_pred ccccccHHHHHHHH-HHHhhccCCCCcccChhH---HHHHhcCChHHHHHHHHHHH-----hhhhccchhhHHHHHHhhh
Q 024138 93 INKKLNQAEFEALL-QEFKTDYNQTHFVRNKEF---KEAADKMQGPLRQIFVEFLE-----RSCTAEFSGFLLYKELGRR 163 (272)
Q Consensus 93 id~~~~~~E~~Aml-~Efr~DyNr~HFvR~~eF---~~~~d~l~~~~R~~FveFLe-----rScTAEFSGfLLYKEl~rr 163 (272)
+|.++++.+|..-+ +.+. +...+...=++ ..+|.+|+++.|..+..-|- .|...+..+. .+...
T Consensus 14 ~n~n~~~~~~~~~~~~~~~---~nfW~peEi~l~~D~~dw~~Lt~~Ek~~~~~~L~fl~~~D~~~~~n~~~----~~~~~ 86 (324)
T PRK13966 14 INWNRLQDEKDAEVWDRLT---GNFWLPEKVPVSNDIPSWGTLTAGEKQLTMRVFTGLTMLDTIQGTVGAV----SLIPD 86 (324)
T ss_pred ccCCCcccHHHHHHHHHHH---hCCCCccccCccchHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHhccHH----HHHHh
Confidence 46777777764322 2222 33333333344 35788999999987654332 1222232222 33334
Q ss_pred hhccCccHHHHHhhhccchhhhh---cchhhhh
Q 024138 164 LKKTNPVVAEIFSLMSRDEARHA---GYECASK 193 (272)
Q Consensus 164 lk~~NP~lae~F~lMsRDEARHA---GFlNkal 193 (272)
+ .+|..+.++...+--|+.|+ +.|..++
T Consensus 87 ~--~~pe~~~~~~~q~~~E~IHsesYs~il~tl 117 (324)
T PRK13966 87 A--LTPHEEAVLTNIAFMESVHAKSYSQIFSTL 117 (324)
T ss_pred c--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4 56999999999999999998 4455544
Done!