Query 031969
Match_columns 150
No_of_seqs 146 out of 465
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 07:51:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031969.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031969hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3077 Uncharacterized conser 100.0 2.3E-37 5.1E-42 250.5 10.2 149 1-149 1-157 (260)
2 PF14555 UBA_4: UBA-like domai 99.5 3.2E-14 6.8E-19 86.6 4.5 41 9-49 1-41 (43)
3 smart00804 TAP_C C-terminal do 98.1 6.4E-06 1.4E-10 54.0 4.8 44 3-46 7-50 (63)
4 PF03943 TAP_C: TAP C-terminal 98.0 3.7E-06 8E-11 52.9 2.7 40 9-48 1-40 (51)
5 KOG1364 Predicted ubiquitin re 97.3 0.00021 4.5E-09 60.8 3.9 43 6-48 4-47 (356)
6 PF00627 UBA: UBA/TS-N domain; 97.1 0.0011 2.4E-08 38.5 4.1 33 9-42 3-35 (37)
7 smart00165 UBA Ubiquitin assoc 96.2 0.011 2.4E-07 33.8 3.9 35 9-44 2-36 (37)
8 cd00194 UBA Ubiquitin Associat 96.1 0.014 3.1E-07 33.6 4.1 36 9-45 2-37 (38)
9 KOG2086 Protein tyrosine phosp 95.7 0.003 6.5E-08 54.4 0.1 42 7-48 3-44 (380)
10 cd00051 EFh EF-hand, calcium b 95.1 0.16 3.4E-06 30.0 6.6 61 59-119 2-62 (63)
11 PF13833 EF-hand_8: EF-hand do 94.9 0.1 2.3E-06 31.8 5.3 50 72-121 3-53 (54)
12 cd05031 S-100A10_like S-100A10 94.5 0.18 3.9E-06 34.6 6.2 68 57-124 8-82 (94)
13 KOG3763 mRNA export factor TAP 94.1 0.064 1.4E-06 48.5 4.1 41 9-49 536-576 (585)
14 cd00052 EH Eps15 homology doma 93.8 0.28 6.2E-06 30.5 5.8 62 60-123 2-63 (67)
15 cd05029 S-100A6 S-100A6: S-100 93.5 0.53 1.2E-05 32.3 7.1 66 57-122 10-80 (88)
16 PTZ00183 centrin; Provisional 93.4 0.64 1.4E-05 33.6 7.9 67 55-121 88-154 (158)
17 TIGR00264 alpha-NAC-related pr 93.4 0.14 3E-06 37.4 4.1 34 9-42 79-112 (116)
18 PRK06369 nac nascent polypepti 93.2 0.15 3.2E-06 37.3 4.1 35 9-43 77-111 (115)
19 smart00027 EH Eps15 homology d 92.8 0.51 1.1E-05 32.4 6.2 65 56-122 9-73 (96)
20 PF13499 EF-hand_7: EF-hand do 92.5 0.82 1.8E-05 28.6 6.5 62 58-119 1-66 (66)
21 PF02845 CUE: CUE domain; Int 92.5 0.27 5.9E-06 29.0 3.8 38 9-46 2-40 (42)
22 cd05030 calgranulins Calgranul 92.4 0.6 1.3E-05 31.8 6.1 66 57-122 8-80 (88)
23 PTZ00184 calmodulin; Provision 92.2 2.3 5E-05 30.1 9.3 19 106-124 97-115 (149)
24 PTZ00184 calmodulin; Provision 92.1 0.97 2.1E-05 32.1 7.1 65 56-120 83-147 (149)
25 PTZ00183 centrin; Provisional 91.9 2.2 4.8E-05 30.7 9.0 17 107-123 104-120 (158)
26 KOG4351 Uncharacterized conser 91.9 0.049 1.1E-06 44.2 0.1 45 5-49 20-67 (244)
27 TIGR01446 DnaD_dom DnaD and ph 91.9 0.48 1E-05 30.8 4.9 57 72-131 14-72 (73)
28 smart00546 CUE Domain that may 91.8 0.5 1.1E-05 27.9 4.5 38 10-47 4-42 (43)
29 PF09279 EF-hand_like: Phospho 91.6 0.49 1.1E-05 31.5 4.8 64 58-122 1-70 (83)
30 cd05026 S-100Z S-100Z: S-100Z 90.9 1.8 3.9E-05 29.7 7.2 67 57-123 10-83 (93)
31 cd00213 S-100 S-100: S-100 dom 89.9 2 4.2E-05 28.7 6.6 66 57-122 8-80 (88)
32 KOG0036 Predicted mitochondria 88.5 1.6 3.4E-05 38.5 6.5 82 56-140 81-162 (463)
33 cd05023 S-100A11 S-100A11: S-1 88.2 3.7 8E-05 28.1 7.1 67 56-122 8-81 (89)
34 KOG2756 Predicted Mg2+-depende 88.1 0.39 8.3E-06 40.4 2.4 40 9-48 26-65 (349)
35 PRK12332 tsf elongation factor 87.8 0.82 1.8E-05 36.3 4.0 39 9-47 5-43 (198)
36 CHL00098 tsf elongation factor 87.7 0.83 1.8E-05 36.3 4.0 38 10-47 3-40 (200)
37 TIGR00116 tsf translation elon 87.3 0.89 1.9E-05 38.1 4.2 40 9-48 5-44 (290)
38 KOG0027 Calmodulin and related 86.5 9 0.0002 28.2 8.9 69 56-124 7-75 (151)
39 PRK09377 tsf elongation factor 86.4 1.1 2.3E-05 37.6 4.2 40 9-48 6-45 (290)
40 COG1308 EGD2 Transcription fac 86.4 1.3 2.7E-05 32.7 4.0 35 9-43 85-119 (122)
41 COG5126 FRQ1 Ca2+-binding prot 86.3 8.1 0.00017 29.7 8.6 69 54-123 14-85 (160)
42 cd05025 S-100A1 S-100A1: S-100 86.2 6.1 0.00013 26.6 7.3 66 57-122 9-81 (92)
43 PF05517 p25-alpha: p25-alpha 85.8 6.3 0.00014 29.7 7.8 76 59-134 1-88 (154)
44 COG5126 FRQ1 Ca2+-binding prot 84.5 6.4 0.00014 30.3 7.3 69 53-121 88-156 (160)
45 cd05022 S-100A13 S-100A13: S-1 83.8 8.4 0.00018 26.5 7.1 66 57-122 8-76 (89)
46 cd05027 S-100B S-100B: S-100B 83.2 9.4 0.0002 26.0 7.1 66 57-122 8-80 (88)
47 PF13405 EF-hand_6: EF-hand do 80.7 3.9 8.5E-05 22.0 3.7 30 58-87 1-31 (31)
48 PF00036 EF-hand_1: EF hand; 80.3 1.4 3E-05 24.1 1.7 16 107-122 14-29 (29)
49 KOG0027 Calmodulin and related 79.8 15 0.00033 26.9 7.8 72 54-125 41-117 (151)
50 KOG1071 Mitochondrial translat 78.4 2.9 6.2E-05 35.7 3.8 37 7-43 45-81 (340)
51 PF03765 CRAL_TRIO_N: CRAL/TRI 77.1 2.7 5.9E-05 25.8 2.6 24 21-44 29-52 (55)
52 PF12096 DUF3572: Protein of u 76.1 3.7 8.1E-05 28.6 3.2 58 8-94 20-77 (88)
53 KOG0036 Predicted mitochondria 73.2 28 0.0006 31.0 8.5 89 56-144 13-118 (463)
54 PRK02264 N(5),N(10)-methenylte 72.7 0.86 1.9E-05 38.7 -0.8 70 25-97 85-167 (317)
55 COG0264 Tsf Translation elonga 72.2 5.7 0.00012 33.5 4.0 40 9-48 6-45 (296)
56 PRK05441 murQ N-acetylmuramic 71.9 6.5 0.00014 32.8 4.3 37 11-47 238-274 (299)
57 COG2922 Smg Uncharacterized pr 71.4 3.6 7.7E-05 31.3 2.3 36 59-94 5-41 (157)
58 PF14658 EF-hand_9: EF-hand do 71.1 15 0.00032 24.2 5.0 50 72-121 13-64 (66)
59 PF05042 Caleosin: Caleosin re 71.1 18 0.0004 28.2 6.3 61 55-115 94-160 (174)
60 TIGR00274 N-acetylmuramic acid 70.8 6.9 0.00015 32.6 4.2 37 11-47 233-269 (291)
61 PF06972 DUF1296: Protein of u 70.6 15 0.00032 23.8 4.7 42 6-47 3-45 (60)
62 PF09107 SelB-wing_3: Elongati 70.4 6.5 0.00014 24.3 3.0 22 11-32 12-33 (50)
63 PF07848 PaaX: PaaX-like prote 70.0 4.5 9.7E-05 26.7 2.4 39 57-95 4-42 (70)
64 PF07261 DnaB_2: Replication i 68.7 0.99 2.2E-05 29.3 -1.0 62 72-134 14-75 (77)
65 PRK12570 N-acetylmuramic acid- 68.5 8.3 0.00018 32.2 4.2 37 11-47 234-270 (296)
66 PF07531 TAFH: NHR1 homology t 68.0 11 0.00023 26.7 4.1 64 78-147 12-83 (96)
67 PRK00116 ruvA Holliday junctio 67.8 14 0.00031 28.8 5.2 96 5-100 65-173 (192)
68 PLN02223 phosphoinositide phos 66.9 16 0.00035 33.2 6.0 68 53-121 12-92 (537)
69 PF12763 EF-hand_4: Cytoskelet 66.2 20 0.00044 25.4 5.3 64 55-122 8-72 (104)
70 cd00252 SPARC_EC SPARC_EC; ext 63.7 50 0.0011 23.8 7.0 60 55-119 46-106 (116)
71 cd00545 MCH Methenyltetrahydro 62.8 1.5 3.2E-05 37.2 -1.3 71 25-97 83-166 (312)
72 PF13443 HTH_26: Cro/C1-type H 62.0 5.7 0.00012 24.6 1.6 37 54-94 22-58 (63)
73 PLN02964 phosphatidylserine de 61.5 53 0.0011 30.7 8.3 58 79-136 161-223 (644)
74 TIGR03120 one_C_mch methenylte 60.7 1.7 3.7E-05 36.8 -1.3 71 25-97 83-166 (312)
75 PF05674 DUF816: Baculovirus p 60.4 62 0.0013 25.1 7.3 90 37-144 34-134 (171)
76 PHA01083 hypothetical protein 59.6 14 0.0003 28.2 3.6 52 73-128 43-97 (149)
77 KOG0028 Ca2+-binding protein ( 57.5 90 0.0019 24.3 8.6 78 57-135 33-113 (172)
78 smart00222 Sec7 Sec7 domain. D 56.8 89 0.0019 24.1 10.1 115 9-123 3-165 (187)
79 PF01314 AFOR_C: Aldehyde ferr 56.7 6.8 0.00015 33.7 1.7 56 79-137 116-171 (382)
80 cd00171 Sec7 Sec7 domain; Doma 56.6 90 0.0019 24.1 8.9 68 56-123 82-163 (185)
81 KOG0030 Myosin essential light 56.4 58 0.0012 24.9 6.4 89 56-144 10-124 (152)
82 PLN02230 phosphoinositide phos 55.9 39 0.00085 31.2 6.5 68 53-121 25-102 (598)
83 smart00862 Trans_reg_C Transcr 55.2 31 0.00066 21.7 4.3 52 91-143 7-60 (78)
84 KOG4199 Uncharacterized conser 55.1 45 0.00098 29.3 6.3 105 10-117 81-187 (461)
85 TIGR00084 ruvA Holliday juncti 54.0 40 0.00086 26.4 5.5 91 4-95 63-166 (191)
86 COG2103 Predicted sugar phosph 51.9 27 0.00059 29.4 4.4 38 11-48 236-273 (298)
87 PF10075 PCI_Csn8: COP9 signal 51.6 10 0.00022 27.7 1.8 34 12-45 100-133 (143)
88 KOG4380 Carnitine deficiency a 51.4 45 0.00097 26.8 5.3 71 19-95 72-151 (244)
89 PF11860 DUF3380: Protein of u 49.7 43 0.00094 26.0 5.0 57 7-67 119-175 (175)
90 PF03793 PASTA: PASTA domain; 48.5 12 0.00026 23.2 1.4 22 17-38 5-26 (63)
91 PRK10391 oriC-binding nucleoid 47.0 32 0.00069 23.0 3.3 32 111-144 2-33 (71)
92 PRK13749 transcriptional regul 45.7 1.2E+02 0.0025 22.1 8.1 106 11-141 5-113 (121)
93 KOG0028 Ca2+-binding protein ( 45.6 1.3E+02 0.0028 23.5 6.9 67 55-121 104-170 (172)
94 PF04361 DUF494: Protein of un 45.6 20 0.00044 27.2 2.6 36 59-94 5-41 (155)
95 PRK10945 gene expression modul 45.5 21 0.00044 24.0 2.2 34 110-145 6-39 (72)
96 PLN02222 phosphoinositide phos 45.2 52 0.0011 30.3 5.5 65 55-122 23-91 (581)
97 KOG4511 Uncharacterized conser 42.6 17 0.00036 30.7 1.8 66 28-100 18-86 (335)
98 PLN02952 phosphoinositide phos 41.8 96 0.0021 28.7 6.7 67 53-121 34-110 (599)
99 PLN02964 phosphatidylserine de 41.8 1.4E+02 0.003 28.0 7.8 64 59-122 181-244 (644)
100 cd07025 Peptidase_S66 LD-Carbo 41.7 48 0.001 27.2 4.4 82 24-106 17-115 (282)
101 PF00486 Trans_reg_C: Transcri 41.4 59 0.0013 20.4 4.0 49 94-143 10-59 (77)
102 PF10036 RLL: Putative carniti 41.1 31 0.00067 28.1 3.1 29 76-104 57-86 (249)
103 PLN02228 Phosphoinositide phos 41.0 1.1E+02 0.0024 28.2 6.9 68 52-121 19-92 (567)
104 PF13348 Y_phosphatase3C: Tyro 40.7 12 0.00027 23.7 0.6 36 55-96 27-63 (68)
105 PF10384 Scm3: Centromere prot 40.1 23 0.00049 22.7 1.8 21 56-76 15-39 (58)
106 COG3252 Methenyltetrahydrometh 39.6 9 0.0002 32.0 -0.2 81 25-107 84-179 (314)
107 KOG1086 Cytosolic sorting prot 39.6 46 0.001 30.0 4.1 51 56-106 6-58 (594)
108 COG1619 LdcA Uncharacterized p 38.5 1E+02 0.0022 26.2 6.0 80 24-104 29-123 (313)
109 PF12244 DUF3606: Protein of u 38.3 81 0.0018 19.8 4.1 42 3-45 14-55 (57)
110 smart00549 TAFH TAF homology. 38.2 1.1E+02 0.0024 21.4 5.1 61 79-144 12-79 (92)
111 PF04508 Pox_A_type_inc: Viral 37.8 38 0.00083 17.8 2.1 17 126-142 2-18 (23)
112 COG3655 Predicted transcriptio 37.5 18 0.00038 24.4 1.0 27 71-97 40-66 (73)
113 PF14327 CSTF2_hinge: Hinge do 37.1 36 0.00078 23.0 2.5 32 9-41 32-63 (84)
114 PF01023 S_100: S-100/ICaBP ty 36.9 61 0.0013 19.3 3.2 28 57-84 6-35 (44)
115 PF12238 MSA-2c: Merozoite sur 36.8 62 0.0013 25.9 4.1 58 39-96 65-124 (205)
116 PF11527 ARL2_Bind_BART: The A 36.1 24 0.00052 25.3 1.6 39 56-99 43-81 (121)
117 PRK06771 hypothetical protein; 36.0 49 0.0011 23.3 3.1 25 8-32 68-92 (93)
118 PRK03980 flap endonuclease-1; 35.9 1.1E+02 0.0024 25.5 5.8 76 10-94 177-270 (292)
119 TIGR02051 MerR Hg(II)-responsi 35.9 1.6E+02 0.0035 21.0 7.9 65 12-97 2-66 (124)
120 PF13624 SurA_N_3: SurA N-term 35.8 47 0.001 24.0 3.2 60 74-134 84-144 (154)
121 PF02289 MCH: Cyclohydrolase ( 35.4 2.1 4.6E-05 36.3 -4.6 64 31-96 91-165 (313)
122 COG3710 CadC DNA-binding winge 35.4 50 0.0011 24.8 3.3 57 86-144 28-85 (148)
123 PRK14605 ruvA Holliday junctio 34.8 88 0.0019 24.5 4.7 92 4-97 64-169 (194)
124 PRK15455 PrkA family serine pr 34.7 1E+02 0.0023 28.8 5.8 67 25-102 475-561 (644)
125 KOG4414 COP9 signalosome, subu 34.7 58 0.0013 25.2 3.5 33 12-44 135-167 (197)
126 PF04957 RMF: Ribosome modulat 34.6 29 0.00062 22.1 1.6 18 104-121 29-46 (55)
127 PF12174 RST: RCD1-SRO-TAF4 (R 34.3 28 0.0006 23.0 1.5 17 106-122 38-54 (70)
128 cd03022 DsbA_HCCA_Iso DsbA fam 34.0 56 0.0012 24.2 3.4 39 55-93 102-140 (192)
129 COG0177 Nth Predicted EndoIII- 33.9 34 0.00073 27.5 2.3 34 56-89 48-82 (211)
130 cd04752 Commd4 COMM_Domain con 33.8 1.5E+02 0.0032 22.6 5.8 55 72-126 20-76 (174)
131 cd07311 terB_like_1 tellurium 33.8 1.7E+02 0.0037 22.0 6.0 91 3-96 39-130 (150)
132 cd00383 trans_reg_C Effector d 33.3 94 0.002 20.2 4.1 57 86-143 20-77 (95)
133 PF14518 Haem_oxygenas_2: Iron 33.3 98 0.0021 21.0 4.3 32 60-91 3-34 (106)
134 cd04766 HTH_HspR Helix-Turn-He 33.2 42 0.00092 22.6 2.4 86 12-142 4-89 (91)
135 cd03019 DsbA_DsbA DsbA family, 33.0 42 0.00092 24.4 2.6 35 58-92 81-115 (178)
136 KOG0041 Predicted Ca2+-binding 32.9 1.6E+02 0.0035 24.0 5.9 64 57-120 99-162 (244)
137 cd03518 Link_domain_HAPLN_modu 32.7 77 0.0017 22.3 3.7 40 66-105 5-45 (95)
138 PF12636 DUF3781: Protein of u 32.6 44 0.00095 22.5 2.3 37 76-114 12-48 (73)
139 PF14788 EF-hand_10: EF hand; 32.4 1.3E+02 0.0028 18.8 4.9 48 74-121 2-49 (51)
140 COG5296 Transcription factor i 32.3 72 0.0016 28.4 4.1 36 107-142 298-338 (521)
141 COG5503 Uncharacterized conser 32.2 33 0.00071 22.7 1.6 18 22-39 29-46 (69)
142 PF07299 FBP: Fibronectin-bind 31.8 24 0.00051 28.3 1.0 52 3-67 47-98 (208)
143 TIGR02384 RelB_DinJ addiction 31.5 44 0.00096 22.6 2.2 30 78-107 16-45 (83)
144 PF14229 DUF4332: Domain of un 31.4 1.5E+02 0.0033 21.2 5.2 60 78-141 31-92 (122)
145 PF08986 DUF1889: Domain of un 31.1 24 0.00053 25.2 0.9 20 72-91 46-65 (119)
146 cd01109 HTH_YyaN Helix-Turn-He 31.0 1.8E+02 0.004 20.1 8.8 67 12-99 3-69 (113)
147 CHL00173 cpeA phycoerythrin al 30.7 1.8E+02 0.004 22.3 5.8 90 4-94 19-128 (164)
148 PRK03430 hypothetical protein; 30.0 48 0.001 25.4 2.4 36 59-94 5-41 (157)
149 smart00530 HTH_XRE Helix-turn- 29.9 91 0.002 16.9 3.2 20 73-92 36-55 (56)
150 cd04770 HTH_HMRTR Helix-Turn-H 29.9 2E+02 0.0043 20.2 8.7 67 12-99 3-69 (123)
151 TIGR03685 L21P_arch 50S riboso 29.9 79 0.0017 22.5 3.4 36 72-107 15-50 (105)
152 PRK14563 ribosome modulation f 29.8 40 0.00088 21.4 1.7 19 104-122 29-47 (55)
153 PRK13288 pyrophosphatase PpaX; 29.3 1.4E+02 0.0031 22.6 5.0 63 73-135 138-211 (214)
154 PF13591 MerR_2: MerR HTH fami 29.2 41 0.0009 22.6 1.8 60 12-95 3-64 (84)
155 PF04337 DUF480: Protein of un 28.9 45 0.00097 25.4 2.1 55 81-140 79-134 (148)
156 TIGR01565 homeo_ZF_HD homeobox 28.8 1.1E+02 0.0025 19.4 3.7 36 57-93 14-49 (58)
157 KOG2140 Uncharacterized conser 28.8 32 0.00069 31.8 1.5 19 19-37 288-306 (739)
158 PF07647 SAM_2: SAM domain (St 28.5 1.5E+02 0.0032 18.2 5.4 59 74-138 4-63 (66)
159 PF10366 Vps39_1: Vacuolar sor 27.9 2.2E+02 0.0047 20.0 6.9 76 8-90 13-96 (108)
160 COG5424 Pyrroloquinoline quino 27.9 62 0.0013 26.6 2.8 67 56-123 75-144 (242)
161 cd04769 HTH_MerR2 Helix-Turn-H 27.8 69 0.0015 22.6 2.8 70 12-103 3-72 (116)
162 PF01323 DSBA: DSBA-like thior 27.7 97 0.0021 22.8 3.8 40 56-95 103-142 (193)
163 PRK05883 acyl carrier protein; 27.5 1.6E+02 0.0036 20.0 4.6 71 56-136 16-86 (91)
164 KOG0037 Ca2+-binding protein, 27.1 3.4E+02 0.0073 22.1 6.9 67 55-122 55-123 (221)
165 smart00368 LRR_RI Leucine rich 27.0 63 0.0014 17.0 1.9 17 71-87 11-27 (28)
166 PF11219 DUF3014: Protein of u 26.8 2.7E+02 0.0059 21.3 6.1 78 53-139 60-158 (158)
167 KOG1194 Predicted DNA-binding 26.8 84 0.0018 28.4 3.7 37 8-44 140-180 (534)
168 PF11547 E3_UbLigase_EDD: E3 u 26.8 1.7E+02 0.0036 18.3 3.9 40 8-47 9-49 (53)
169 PF04380 BMFP: Membrane fusoge 26.7 1.3E+02 0.0028 20.1 3.8 32 105-141 42-73 (79)
170 PF06992 Phage_lambda_P: Repli 26.6 1.1E+02 0.0023 25.0 4.0 31 111-141 66-96 (233)
171 cd03024 DsbA_FrnE DsbA family, 25.8 83 0.0018 23.5 3.1 39 55-93 110-148 (201)
172 PF09432 THP2: Tho complex sub 25.7 1.8E+02 0.0039 21.7 4.7 84 54-142 35-131 (132)
173 PF13986 DUF4224: Domain of un 25.7 1.3E+02 0.0028 18.2 3.3 25 13-37 6-31 (47)
174 cd03515 Link_domain_TSG_6_like 25.6 1.3E+02 0.0029 21.0 3.8 33 73-105 13-45 (93)
175 PF00046 Homeobox: Homeobox do 25.6 1.2E+02 0.0025 18.1 3.3 35 57-96 13-47 (57)
176 PRK08406 transcription elongat 25.5 55 0.0012 24.3 2.0 23 3-25 4-26 (140)
177 PF12844 HTH_19: Helix-turn-he 25.5 75 0.0016 19.4 2.4 21 73-93 38-58 (64)
178 PHA00680 hypothetical protein 25.2 1.6E+02 0.0034 21.3 4.2 54 81-134 59-113 (143)
179 cd00086 homeodomain Homeodomai 24.8 1.3E+02 0.0028 17.7 3.3 36 56-96 12-47 (59)
180 TIGR02054 MerD mercuric resist 24.7 2.7E+02 0.0059 20.0 7.6 69 11-100 5-73 (120)
181 cd05832 Ribosomal_L12p Ribosom 24.6 1.2E+02 0.0026 21.8 3.5 36 72-107 15-50 (106)
182 PF01726 LexA_DNA_bind: LexA D 24.6 81 0.0018 20.3 2.5 25 1-25 1-28 (65)
183 PF08360 TetR_C_5: QacR-like p 24.6 64 0.0014 23.6 2.2 43 25-68 26-68 (131)
184 TIGR02043 ZntR Zn(II)-responsi 24.4 2.7E+02 0.006 20.0 8.4 67 12-99 4-70 (131)
185 PF11116 DUF2624: Protein of u 24.3 2.5E+02 0.0053 19.4 6.2 66 72-137 13-78 (85)
186 COG2815 Uncharacterized protei 24.0 54 0.0012 27.7 1.9 30 17-48 166-195 (303)
187 PRK09849 putative oxidoreducta 24.0 66 0.0014 30.3 2.7 31 80-112 370-400 (702)
188 KOG0034 Ca2+/calmodulin-depend 23.9 3.5E+02 0.0077 21.1 7.3 53 74-126 84-137 (187)
189 cd01102 Link_Domain The link d 23.8 1.1E+02 0.0025 21.2 3.2 34 72-105 12-45 (92)
190 PF07739 TipAS: TipAS antibiot 23.8 1.3E+02 0.0029 20.5 3.7 50 83-134 47-98 (118)
191 COG3793 TerB Tellurite resista 23.8 1.6E+02 0.0034 22.4 4.2 73 54-126 62-139 (144)
192 PF09312 SurA_N: SurA N-termin 23.7 2.6E+02 0.0057 19.6 5.4 53 79-135 56-109 (118)
193 smart00145 PI3Ka Phosphoinosit 23.7 2.1E+02 0.0045 22.2 5.0 62 3-64 22-84 (184)
194 PHA00442 host recBCD nuclease 23.6 1.6E+02 0.0034 18.8 3.5 25 111-135 27-51 (59)
195 KOG0455 Homoserine dehydrogena 23.6 1.7E+02 0.0038 24.7 4.8 66 57-122 178-270 (364)
196 PF03469 XH: XH domain; Inter 23.6 1.7E+02 0.0036 21.8 4.3 44 105-148 1-48 (132)
197 PF09066 B2-adapt-app_C: Beta2 23.6 54 0.0012 22.8 1.6 17 108-124 5-21 (114)
198 PF11198 DUF2857: Protein of u 23.5 34 0.00073 26.5 0.5 19 78-96 17-35 (180)
199 COG3888 Predicted transcriptio 23.4 1E+02 0.0022 26.0 3.4 31 7-37 265-295 (321)
200 COG5642 Uncharacterized conser 23.3 1.7E+02 0.0037 22.0 4.2 30 3-32 78-113 (149)
201 PF01406 tRNA-synt_1e: tRNA sy 23.3 1.1E+02 0.0024 25.9 3.6 67 74-140 31-117 (300)
202 PF09724 DUF2036: Uncharacteri 23.2 3.9E+02 0.0085 22.1 7.0 54 55-122 202-260 (325)
203 cd03021 DsbA_GSTK DsbA family, 23.1 1.5E+02 0.0033 22.7 4.2 35 62-96 118-152 (209)
204 PF10391 DNA_pol_lambd_f: Fing 22.8 79 0.0017 19.5 2.1 23 12-35 1-23 (52)
205 KOG0037 Ca2+-binding protein, 22.8 4.2E+02 0.0091 21.5 7.0 113 9-122 57-189 (221)
206 PF14174 YycC: YycC-like prote 22.7 52 0.0011 20.6 1.2 23 72-94 4-26 (53)
207 PF00536 SAM_1: SAM domain (St 22.6 1.9E+02 0.0042 17.5 5.4 58 74-137 3-60 (64)
208 smart00054 EFh EF-hand, calciu 22.6 99 0.0021 14.2 2.9 15 107-121 14-28 (29)
209 KOG2199 Signal transducing ada 22.5 3.1E+02 0.0067 24.5 6.3 34 108-141 82-116 (462)
210 PF03374 ANT: Phage antirepres 22.3 1.3E+02 0.0027 20.7 3.3 27 11-37 26-52 (111)
211 KOG4070 Putative signal transd 22.3 1.2E+02 0.0026 23.5 3.3 71 53-123 8-87 (180)
212 COG0632 RuvA Holliday junction 22.3 66 0.0014 25.6 2.0 39 4-42 64-103 (201)
213 PF12760 Zn_Tnp_IS1595: Transp 22.2 76 0.0017 18.7 1.9 16 22-37 2-17 (46)
214 PRK11239 hypothetical protein; 22.1 90 0.0019 25.2 2.7 56 80-140 83-143 (215)
215 TIGR02277 PaaX_trns_reg phenyl 22.0 1E+02 0.0022 25.5 3.2 35 61-95 5-39 (280)
216 PF04221 RelB: RelB antitoxin; 22.0 78 0.0017 21.1 2.1 24 24-47 14-37 (83)
217 PF13419 HAD_2: Haloacid dehal 21.9 67 0.0015 22.6 1.9 20 74-93 134-153 (176)
218 cd06577 PASTA_pknB PASTA domai 21.9 78 0.0017 18.3 1.9 22 17-38 4-25 (62)
219 PF08455 SNF2_assoc: Bacterial 21.7 2.9E+02 0.0063 23.3 6.0 60 54-114 276-357 (377)
220 cd01111 HTH_MerD Helix-Turn-He 21.6 2.9E+02 0.0063 19.2 7.8 101 12-141 3-103 (107)
221 KOG3389 NADH:ubiquinone oxidor 21.5 53 0.0012 25.2 1.3 22 18-39 129-150 (178)
222 PF02831 gpW: gpW; InterPro: 21.3 93 0.002 20.5 2.3 18 125-142 38-55 (68)
223 PF03250 Tropomodulin: Tropomo 21.3 1.1E+02 0.0024 23.3 2.9 58 64-121 10-75 (147)
224 KOG1815 Predicted E3 ubiquitin 21.2 1.6E+02 0.0034 25.9 4.3 43 6-48 10-52 (444)
225 cd05831 Ribosomal_P1 Ribosomal 21.2 1.2E+02 0.0026 21.4 3.0 36 72-107 16-51 (103)
226 PF09278 MerR-DNA-bind: MerR, 21.2 89 0.0019 19.2 2.1 57 79-141 6-62 (65)
227 PF03960 ArsC: ArsC family; I 21.1 1.4E+02 0.003 20.6 3.3 60 19-87 4-64 (110)
228 cd03567 VHS_GGA VHS domain fam 21.0 3.5E+02 0.0076 20.0 6.3 88 61-148 4-125 (139)
229 PF03911 Sec61_beta: Sec61beta 20.9 62 0.0013 19.1 1.2 23 77-99 3-29 (41)
230 PF04800 ETC_C1_NDUFA4: ETC co 20.9 66 0.0014 22.8 1.6 19 21-39 56-74 (101)
231 COG2414 Aldehyde:ferredoxin ox 20.8 1.5E+02 0.0032 27.6 4.2 44 72-116 327-373 (614)
232 PF13714 PEP_mutase: Phosphoen 20.7 1.5E+02 0.0033 23.9 3.9 45 78-122 20-64 (238)
233 TIGR03674 fen_arch flap struct 20.6 2.5E+02 0.0055 23.7 5.4 68 20-93 243-316 (338)
234 PF12728 HTH_17: Helix-turn-he 20.6 1.4E+02 0.0031 17.4 2.9 22 12-33 4-25 (51)
235 PF11731 Cdd1: Pathogenicity l 20.5 1.7E+02 0.0037 20.4 3.6 40 90-133 3-42 (93)
236 TIGR02247 HAD-1A3-hyp Epoxide 20.3 1.7E+02 0.0037 22.0 3.9 19 74-92 153-171 (211)
237 PRK13503 transcriptional activ 20.3 4.3E+02 0.0092 20.7 6.4 54 7-68 200-263 (278)
238 KOG2768 Translation initiation 20.2 3.6E+02 0.0079 22.0 5.8 77 53-129 79-192 (231)
239 COG3130 Rmf Ribosome modulatio 20.2 82 0.0018 19.8 1.7 15 111-125 36-50 (55)
240 PRK07027 cobalamin biosynthesi 20.2 2E+02 0.0042 20.8 4.0 50 74-129 47-96 (126)
241 PF12668 DUF3791: Protein of u 20.2 1.7E+02 0.0036 18.4 3.3 24 11-34 7-30 (62)
242 TIGR03351 PhnX-like phosphonat 20.0 72 0.0016 24.2 1.8 34 73-106 145-186 (220)
No 1
>KOG3077 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=2.3e-37 Score=250.52 Aligned_cols=149 Identities=46% Similarity=0.848 Sum_probs=139.3
Q ss_pred CCCCCcchHHHHHHHHHHhCCCHHHHHHHHHhCCCCchhh-hhhhhccCCC------CCcCCHHHHHHHHHHhcCCCC-C
Q 031969 1 MHKLSRSNRDKLQQFVSITGASEKAALQALKASDWHLEGA-FDVFYSQPQS------KSLTDTRHLEELYNRYKDPYL-D 72 (150)
Q Consensus 1 m~~l~~~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~A-i~~f~~~~~~------~~~~~~~~l~~lFd~Y~d~~~-d 72 (150)
|++|+..+++.+++|+.+|++++++++.+|.+++|++..| ...||.++.. .+.++.+.++++|.+|+||+. +
T Consensus 1 mnklk~~~~d~~~~~~~~~~~~~~~s~~~~~~~dw~~~~~~~~s~~~~~~~~~~~~~~~~~s~~~l~~~f~~y~d~~d~~ 80 (260)
T KOG3077|consen 1 MNKLKSSQKDKFEQFMSFTASRKKTSLSCLAACDWNLKYAFNDSYYTNPQSLREESVQARVSEKRLEELFNQYKDPDDDN 80 (260)
T ss_pred CCccchhHHHHHHhhcccccccchhhhhhhcccccccchhcccchhcchhHHHHhhhhccccHHHHHHHHHHhcCccccc
Confidence 8899999999999999999999999999999999999999 6666666543 235789999999999999976 6
Q ss_pred ccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHHHHHHHHHcCCCccccC
Q 031969 73 MILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRERISFMRAELKDERTCTG 149 (150)
Q Consensus 73 ~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l~~l~~~l~~~~~Fk~ 149 (150)
.|++||+.+||+||||+|+++++|||||+|+|++||+|||++|+.||.+++|||+++|+.+|+.++..|+|.+.||+
T Consensus 81 ~i~~dgi~~fc~dlg~~p~~i~~LvlAwkl~A~~m~~Fsr~ef~~g~~~l~~dS~d~lq~~l~~l~~~l~d~~~Fk~ 157 (260)
T KOG3077|consen 81 LIGPDGIEKFCEDLGVEPEDISVLVLAWKLGAATMCEFSREEFLKGMTALGCDSIDKLQQRLDFLRSVLKDLEKFKS 157 (260)
T ss_pred ccChHHHHHHHHHhCCCchhHHHHHHHHHhccchhhhhhHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHccHHHhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999998899985
No 2
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=99.49 E-value=3.2e-14 Score=86.58 Aligned_cols=41 Identities=41% Similarity=0.793 Sum_probs=36.1
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCC
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQ 49 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~ 49 (150)
+++|++|++|||+++.+|++||+.++|||+.||+.||+++.
T Consensus 1 ~e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~ 41 (43)
T PF14555_consen 1 DEKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGE 41 (43)
T ss_dssp HHHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-
T ss_pred CHHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence 47899999999999999999999999999999999998754
No 3
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=98.10 E-value=6.4e-06 Score=54.03 Aligned_cols=44 Identities=25% Similarity=0.449 Sum_probs=41.4
Q ss_pred CCCcchHHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhc
Q 031969 3 KLSRSNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYS 46 (150)
Q Consensus 3 ~l~~~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~ 46 (150)
.++..|.++|.+|+..||.+..-++.+|+.++||++.|+..|-+
T Consensus 7 ~~~~~q~~~v~~~~~~Tgmn~~~s~~cLe~~~Wd~~~Al~~F~~ 50 (63)
T smart00804 7 TLSPEQQEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNFTE 50 (63)
T ss_pred CCCHHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 46788999999999999999999999999999999999999965
No 4
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=98.04 E-value=3.7e-06 Score=52.90 Aligned_cols=40 Identities=25% Similarity=0.424 Sum_probs=35.0
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccC
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQP 48 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~ 48 (150)
+++|.+|+..||.+..-|..||+.++||++.|+..|-...
T Consensus 1 q~mv~~~s~~Tgmn~~~s~~CL~~n~Wd~~~A~~~F~~l~ 40 (51)
T PF03943_consen 1 QEMVQQFSQQTGMNLEWSQKCLEENNWDYERALQNFEELK 40 (51)
T ss_dssp HHHHHHHHHHCSS-CCHHHHHHHHTTT-CCHHHHHHHHCC
T ss_pred CHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 4789999999999999999999999999999999997553
No 5
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=97.34 E-value=0.00021 Score=60.79 Aligned_cols=43 Identities=33% Similarity=0.585 Sum_probs=39.5
Q ss_pred cchHHHHHHHHHHhC-CCHHHHHHHHHhCCCCchhhhhhhhccC
Q 031969 6 RSNRDKLQQFVSITG-ASEKAALQALKASDWHLEGAFDVFYSQP 48 (150)
Q Consensus 6 ~~~~~~i~~F~~iT~-~~~~~A~~~L~~~~w~le~Ai~~f~~~~ 48 (150)
.++.++|.+|+.||+ .+.+.|++||+..+|+|+.||+-||+..
T Consensus 4 ~~~~~lv~~fl~It~~~t~e~A~q~L~~~~~~le~ai~Lffe~~ 47 (356)
T KOG1364|consen 4 GAQRALVSKFLAITVQQTVEIATQYLSAADWDLEAAINLFFEHG 47 (356)
T ss_pred chHHHHHHHHHHHhccccHHHHHHHHHhcCCcHHHHHHHHHHhc
Confidence 467889999999999 7899999999999999999999999764
No 6
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=97.10 E-value=0.0011 Score=38.49 Aligned_cols=33 Identities=36% Similarity=0.528 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhh
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFD 42 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~ 42 (150)
.+.|++.++. |.++..|+..|+.++||++.|++
T Consensus 3 ~~~v~~L~~m-Gf~~~~~~~AL~~~~~nve~A~~ 35 (37)
T PF00627_consen 3 EEKVQQLMEM-GFSREQAREALRACNGNVERAVD 35 (37)
T ss_dssp HHHHHHHHHH-TS-HHHHHHHHHHTTTSHHHHHH
T ss_pred HHHHHHHHHc-CCCHHHHHHHHHHcCCCHHHHHH
Confidence 5789999999 99999999999999999999986
No 7
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=96.15 E-value=0.011 Score=33.85 Aligned_cols=35 Identities=31% Similarity=0.527 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhh
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFDVF 44 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f 44 (150)
.+.|.+++++ |.++..|+..|+.++||++.|++-.
T Consensus 2 ~~~v~~L~~m-Gf~~~~a~~aL~~~~~d~~~A~~~L 36 (37)
T smart00165 2 EEKIDQLLEM-GFSREEALKALRAANGNVERAAEYL 36 (37)
T ss_pred HHHHHHHHHc-CCCHHHHHHHHHHhCCCHHHHHHHH
Confidence 3567788776 9999999999999999999998754
No 8
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=96.07 E-value=0.014 Score=33.57 Aligned_cols=36 Identities=31% Similarity=0.461 Sum_probs=30.9
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhh
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFY 45 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~ 45 (150)
.+.|.++++ .|.++..|+..|+.++||++.|++-.+
T Consensus 2 ~~~v~~L~~-mGf~~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 2 EEKLEQLLE-MGFSREEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred HHHHHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHHHh
Confidence 356778877 499999999999999999999998654
No 9
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=95.67 E-value=0.003 Score=54.41 Aligned_cols=42 Identities=29% Similarity=0.292 Sum_probs=38.4
Q ss_pred chHHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccC
Q 031969 7 SNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQP 48 (150)
Q Consensus 7 ~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~ 48 (150)
...+.+++|+.+||.++..|++||..++|+++.|...++...
T Consensus 3 ~p~~~ls~f~~~t~~se~~~~~~l~s~~~d~~~a~~~~~~~~ 44 (380)
T KOG2086|consen 3 IPLDSLSEFRAVTGPSESRARFYLESIYWDREAAHRSELEAF 44 (380)
T ss_pred CchhHHHHHhccCCCCccccccccccCCCchhhhhhhhcccc
Confidence 346789999999999999999999999999999999999753
No 10
>cd00051 EFh EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to the activation or inactivation of target proteins. EF-hands tend to occur in pairs or higher copy numbers.
Probab=95.12 E-value=0.16 Score=30.03 Aligned_cols=61 Identities=11% Similarity=0.073 Sum_probs=49.6
Q ss_pred HHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHh
Q 031969 59 LEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGL 119 (150)
Q Consensus 59 l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~ 119 (150)
+..+|..|....++.|+.+-+...+..+|..+....+-.+...+....-|.++-++|+..+
T Consensus 2 ~~~~f~~~d~~~~g~l~~~e~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ef~~~~ 62 (63)
T cd00051 2 LREAFRLFDKDGDGTISADELKAALKSLGEGLSEEEIDEMIREVDKDGDGKIDFEEFLELM 62 (63)
T ss_pred HHHHHHHhCCCCCCcCcHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCCCCeEeHHHHHHHh
Confidence 5678888865444689999999999999999887777777778877778999999998653
No 11
>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=94.86 E-value=0.1 Score=31.76 Aligned_cols=50 Identities=14% Similarity=0.041 Sum_probs=45.9
Q ss_pred CccchHHHHHHHhhcCCC-CCcHHHHHHHHhhcccccccccHHHHHHHhHH
Q 031969 72 DMILVDGITLLCNDLQVD-PQDIVMLVVSWHMKAATMCEFSKQEFIGGLQS 121 (150)
Q Consensus 72 d~I~~dG~~~~~edLgv~-ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~ 121 (150)
..|+.+.+.+.+..+|++ +.+-.+=.|-..+-...-|.|+.+||+..|+.
T Consensus 3 G~i~~~~~~~~l~~~g~~~~s~~e~~~l~~~~D~~~~G~I~~~EF~~~~~~ 53 (54)
T PF13833_consen 3 GKITREEFRRALSKLGIKDLSEEEVDRLFREFDTDGDGYISFDEFISMMQR 53 (54)
T ss_dssp SEEEHHHHHHHHHHTTSSSSCHHHHHHHHHHHTTSSSSSEEHHHHHHHHHH
T ss_pred CEECHHHHHHHHHHhCCCCCCHHHHHHHHHhcccCCCCCCCHHHHHHHHHh
Confidence 479999999999889999 88888889999999999999999999999875
No 12
>cd05031 S-100A10_like S-100A10_like: S-100A10 domain found in proteins similar to S100A10. S100A10 is a member of the S100 family of EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1_like group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. A unique feature of S100A10 is that it contains mutation in both of the calcium binding sites, making it calcium insensitive. S100A10 has been detected in brain, heart, gastrointestinal tract, kidney, liver, lung, spleen, testes, epidermis, aorta, and thymus. Structural data supports the homo- and hetero-dimeric as well as hetero-tetrameric nature of the protein. S100A10 has multiple binding partners in its calcium free state and is therefore involved in many diverse biological functions.
Probab=94.46 E-value=0.18 Score=34.56 Aligned_cols=68 Identities=13% Similarity=0.173 Sum_probs=53.0
Q ss_pred HHHHHHHHHhcCCC--CCccchHHHHHHHhh-----cCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCC
Q 031969 57 RHLEELYNRYKDPY--LDMILVDGITLLCND-----LQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGI 124 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~--~d~I~~dG~~~~~ed-----Lgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~ 124 (150)
..|...|..|-+.+ ...|+.+-+..++.. +|..+....+--+...+....-|.|+-++|+..|..+.+
T Consensus 8 ~~l~~~F~~~D~~dg~dG~Is~~El~~~l~~~~g~~lg~~~s~~ei~~~~~~~D~~~dg~I~f~eF~~l~~~~~~ 82 (94)
T cd05031 8 ESLILTFHRYAGKDGDKNTLSRKELKKLMEKELSEFLKNQKDPMAVDKIMKDLDQNRDGKVNFEEFVSLVAGLSI 82 (94)
T ss_pred HHHHHHHHHHhccCCCCCeECHHHHHHHHHHHhHHHhhccccHHHHHHHHHHhCCCCCCcCcHHHHHHHHHHHHH
Confidence 45777899996622 369999999999876 677776665555556677778899999999999988764
No 13
>KOG3763 consensus mRNA export factor TAP/MEX67 [RNA processing and modification]
Probab=94.10 E-value=0.064 Score=48.51 Aligned_cols=41 Identities=24% Similarity=0.447 Sum_probs=37.1
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCC
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQ 49 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~ 49 (150)
.++|..|++.||....-+..+|++++||.+.|+..|-+-.+
T Consensus 536 ~e~l~~~~~~tGln~~~s~~c~e~~nWdy~~A~k~F~~~ks 576 (585)
T KOG3763|consen 536 DEKLLKFQEETGLNSEWSTMCLEQNNWDYERALKLFIELKS 576 (585)
T ss_pred HHHHHHHHHHhcCChHHHHHHHHHccCCHHHHHHHHHHhhc
Confidence 56788999999999999999999999999999999976543
No 14
>cd00052 EH Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A hydrophobic binding pocket is formed by residues from both EF-hand motifs. The EH domain binds to proteins containing NPF (class I), [WF]W or SWG (class II), or H[TS]F (class III) sequence motifs.
Probab=93.84 E-value=0.28 Score=30.50 Aligned_cols=62 Identities=8% Similarity=0.060 Sum_probs=44.9
Q ss_pred HHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcC
Q 031969 60 EELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLG 123 (150)
Q Consensus 60 ~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~ 123 (150)
.++|..|-......|+.+.+.+++..+|++.+.+.- +...+....-|.|+.++|+..|..+.
T Consensus 2 ~~~F~~~D~~~~G~i~~~el~~~l~~~g~~~~~~~~--i~~~~d~~~~g~i~~~ef~~~~~~~~ 63 (67)
T cd00052 2 DQIFRSLDPDGDGLISGDEARPFLGKSGLPRSVLAQ--IWDLADTDKDGKLDKEEFAIAMHLIA 63 (67)
T ss_pred hHHHHHhCCCCCCcCcHHHHHHHHHHcCCCHHHHHH--HHHHhcCCCCCcCCHHHHHHHHHHHH
Confidence 357777733233689999999999999985444333 33456666789999999999987643
No 15
>cd05029 S-100A6 S-100A6: S-100A6 domain found in proteins similar to S100A6. S100A6 is a member of the S100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A6 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control . S100A6 is normally expressed in the G1 phase of the cell cycle in neuronal cells. The function of S100A6 remains unclear, but evidence suggests that it is involved in cell cycle regulation and exocytosis. S100A6 may also be involved in tumorigenesis; the protein is overexpressed in several tumors. Ca2+ binding to S100A6 leads to a conformational change in the protein, which exposes a hydrophobic surface for interact
Probab=93.52 E-value=0.53 Score=32.26 Aligned_cols=66 Identities=15% Similarity=0.165 Sum_probs=51.1
Q ss_pred HHHHHHHHHhcCCC--CCccchHHHHHHHhh---cCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 57 RHLEELYNRYKDPY--LDMILVDGITLLCND---LQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~--~d~I~~dG~~~~~ed---Lgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
..|..+|.+|...+ .+.|+.+.+.+++.. +|..+.+-.+--+-..+....-|.|+-++|+.-+..+
T Consensus 10 ~~~i~~F~~y~~~~~~~g~Is~~EL~~~l~~~~~lg~k~t~~ev~~m~~~~D~d~dG~Idf~EFv~lm~~l 80 (88)
T cd05029 10 GLLVAIFHKYSGREGDKNTLSKKELKELIQKELTIGSKLQDAEIAKLMEDLDRNKDQEVNFQEYVTFLGAL 80 (88)
T ss_pred HHHHHHHHHHHccCCCCCEECHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH
Confidence 45788999998633 359999999999974 6877665555555556677777999999999877765
No 16
>PTZ00183 centrin; Provisional
Probab=93.42 E-value=0.64 Score=33.57 Aligned_cols=67 Identities=12% Similarity=0.118 Sum_probs=51.1
Q ss_pred CHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHH
Q 031969 55 DTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQS 121 (150)
Q Consensus 55 ~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~ 121 (150)
....+..+|..|-......|+.+.+..+|..+|..+.+-.+-.+...+....-|.|+.++|+..+..
T Consensus 88 ~~~~l~~~F~~~D~~~~G~i~~~e~~~~l~~~~~~l~~~~~~~~~~~~d~~~~g~i~~~ef~~~~~~ 154 (158)
T PTZ00183 88 PREEILKAFRLFDDDKTGKISLKNLKRVAKELGETITDEELQEMIDEADRNGDGEISEEEFYRIMKK 154 (158)
T ss_pred cHHHHHHHHHHhCCCCCCcCcHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCCCCcCcHHHHHHHHhc
Confidence 3467888998774333468999999999999997776666666666676666789999999988765
No 17
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=93.37 E-value=0.14 Score=37.44 Aligned_cols=34 Identities=21% Similarity=0.222 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhh
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFD 42 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~ 42 (150)
.+.|.-.++-||+|++.|+..|++++||+-.||-
T Consensus 79 ~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~ 112 (116)
T TIGR00264 79 EDDIELVMKQCNVSKEEARRALEECGGDLAEAIM 112 (116)
T ss_pred HHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHH
Confidence 4568888999999999999999999999988875
No 18
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=93.24 E-value=0.15 Score=37.27 Aligned_cols=35 Identities=26% Similarity=0.298 Sum_probs=31.5
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhh
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFDV 43 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~ 43 (150)
.+.|.-.++-||+|+..|+..|+.++||+-.||-.
T Consensus 77 ~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~ 111 (115)
T PRK06369 77 EEDIELVAEQTGVSEEEARKALEEANGDLAEAILK 111 (115)
T ss_pred HHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHH
Confidence 46788899999999999999999999999888753
No 19
>smart00027 EH Eps15 homology domain. Pair of EF hand motifs that recognise proteins containing Asn-Pro-Phe (NPF) sequences.
Probab=92.81 E-value=0.51 Score=32.35 Aligned_cols=65 Identities=8% Similarity=0.037 Sum_probs=48.8
Q ss_pred HHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 56 TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
...+.+.|..|-......|+.+-+.+.+..+|++.+.+.-+.- .+....-|.|+.++|+..|..+
T Consensus 9 ~~~l~~~F~~~D~d~~G~Is~~el~~~l~~~~~~~~ev~~i~~--~~d~~~~g~I~~~eF~~~~~~~ 73 (96)
T smart00027 9 KAKYEQIFRSLDKNQDGTVTGAQAKPILLKSGLPQTLLAKIWN--LADIDNDGELDKDEFALAMHLI 73 (96)
T ss_pred HHHHHHHHHHhCCCCCCeEeHHHHHHHHHHcCCCHHHHHHHHH--HhcCCCCCCcCHHHHHHHHHHH
Confidence 3567778887754344699999999999999987666554332 3455667999999999988774
No 20
>PF13499 EF-hand_7: EF-hand domain pair; PDB: 1TCF_A 2TN4_A 1TN4_A 1A2X_A 2CT9_B 2OTG_B 2OS8_B 1SNL_A 3O4Y_A 3J04_E ....
Probab=92.54 E-value=0.82 Score=28.62 Aligned_cols=62 Identities=13% Similarity=0.129 Sum_probs=44.1
Q ss_pred HHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCC-cHHHHHHHH---hhcccccccccHHHHHHHh
Q 031969 58 HLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQ-DIVMLVVSW---HMKAATMCEFSKQEFIGGL 119 (150)
Q Consensus 58 ~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~pe-d~~~LvLa~---~l~a~~~g~~tr~eF~~g~ 119 (150)
+|.++|+.|=-.....|+.+-+.+++..++.... ...--.+.. .+-...-|.|+.+||++.|
T Consensus 1 ~l~~~F~~~D~d~~G~i~~~el~~~~~~~~~~~~~~~~~~~~~~~~~~~D~d~dG~i~~~Ef~~~~ 66 (66)
T PF13499_consen 1 RLKEAFKKFDKDGDGYISKEELRRALKHLGRDMSDEESDEMIDQIFREFDTDGDGRISFDEFLNFM 66 (66)
T ss_dssp HHHHHHHHHSTTSSSEEEHHHHHHHHHHTTSHSTHHHHHHHHHHHHHHHTTTSSSSEEHHHHHHHH
T ss_pred CHHHHHHHHcCCccCCCCHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCCCCcCCCcHHHHhccC
Confidence 4778899986545579999999999999998752 222223222 3334456999999999754
No 21
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=92.46 E-value=0.27 Score=29.03 Aligned_cols=38 Identities=18% Similarity=0.274 Sum_probs=31.4
Q ss_pred HHHHHHHHHHh-CCCHHHHHHHHHhCCCCchhhhhhhhc
Q 031969 9 RDKLQQFVSIT-GASEKAALQALKASDWHLEGAFDVFYS 46 (150)
Q Consensus 9 ~~~i~~F~~iT-~~~~~~A~~~L~~~~w~le~Ai~~f~~ 46 (150)
.+.|++..++. +.++..-+..|+++++|++.|++..++
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 46788888887 557889999999999999999998764
No 22
>cd05030 calgranulins Calgranulins: S-100 domain found in proteins belonging to the Calgranulin subgroup of the S100 family of EF-hand calcium-modulated proteins, including S100A8, S100A9, and S100A12 . Note that the S-100 hierarchy, to which this Calgranulin group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. These proteins are expressed mainly in granulocytes, and are involved in inflammation, allergy, and neuritogenesis, as well as in host-parasite response. Calgranulins are modulated not only by calcium, but also by other metals such as zinc and copper. Structural data suggested that calgranulins may exist in multiple structural forms, homodimers, as well as hetero-oligomers. For example, the S100A8/S100A9 complex called calprotectin plays important roles in the regulation of inflammatory processes, wound repair, and regulating zinc-dependent enzymes as well as microbial growth.
Probab=92.41 E-value=0.6 Score=31.79 Aligned_cols=66 Identities=11% Similarity=0.099 Sum_probs=47.2
Q ss_pred HHHHHHHHHhcCCCC--CccchHHHHHHHh-hcCCCCC----cHHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 57 RHLEELYNRYKDPYL--DMILVDGITLLCN-DLQVDPQ----DIVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~~--d~I~~dG~~~~~e-dLgv~pe----d~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
..|..+|.+|...++ +.|+.+.+..++. .+|-.+. +-.+=-+-..+....-|.|+-++|+..+..+
T Consensus 8 ~~~~~~f~~y~~~~~~~~~Is~~El~~ll~~~~g~~~t~~~~~~~v~~i~~~~D~d~dG~I~f~eF~~~~~~~ 80 (88)
T cd05030 8 ETIINVFHQYSVRKGHPDTLYKKEFKQLVEKELPNFLKKEKNQKAIDKIFEDLDTNQDGQLSFEEFLVLVIKV 80 (88)
T ss_pred HHHHHHHHHHhccCCCcccCCHHHHHHHHHHHhhHhhccCCCHHHHHHHHHHcCCCCCCcCcHHHHHHHHHHH
Confidence 457789999997643 6999999999997 4443332 2333333344556667999999999998875
No 23
>PTZ00184 calmodulin; Provisional
Probab=92.21 E-value=2.3 Score=30.09 Aligned_cols=19 Identities=21% Similarity=0.064 Sum_probs=11.9
Q ss_pred ccccccHHHHHHHhHHcCC
Q 031969 106 TMCEFSKQEFIGGLQSLGI 124 (150)
Q Consensus 106 ~~g~~tr~eF~~g~~~l~~ 124 (150)
.-|.+++++|..++..+|.
T Consensus 97 ~~g~i~~~e~~~~l~~~~~ 115 (149)
T PTZ00184 97 GNGFISAAELRHVMTNLGE 115 (149)
T ss_pred CCCeEeHHHHHHHHHHHCC
Confidence 3466666666666666554
No 24
>PTZ00184 calmodulin; Provisional
Probab=92.08 E-value=0.97 Score=32.06 Aligned_cols=65 Identities=9% Similarity=0.088 Sum_probs=50.0
Q ss_pred HHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhH
Q 031969 56 TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQ 120 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~ 120 (150)
...+..+|..|--...+.|+.+-+.++|..+|+.+.+..+-.+...+....-|.|+.++|+..+.
T Consensus 83 ~~~~~~~F~~~D~~~~g~i~~~e~~~~l~~~~~~~~~~~~~~~~~~~d~~~~g~i~~~ef~~~~~ 147 (149)
T PTZ00184 83 EEEIKEAFKVFDRDGNGFISAAELRHVMTNLGEKLTDEEVDEMIREADVDGDGQINYEEFVKMMM 147 (149)
T ss_pred HHHHHHHHHhhCCCCCCeEeHHHHHHHHHHHCCCCCHHHHHHHHHhcCCCCCCcCcHHHHHHHHh
Confidence 46788899998433346899999999999999887665555555666556679999999997653
No 25
>PTZ00183 centrin; Provisional
Probab=91.93 E-value=2.2 Score=30.70 Aligned_cols=17 Identities=18% Similarity=0.175 Sum_probs=9.3
Q ss_pred cccccHHHHHHHhHHcC
Q 031969 107 MCEFSKQEFIGGLQSLG 123 (150)
Q Consensus 107 ~g~~tr~eF~~g~~~l~ 123 (150)
-|.+++++|...+..+|
T Consensus 104 ~G~i~~~e~~~~l~~~~ 120 (158)
T PTZ00183 104 TGKISLKNLKRVAKELG 120 (158)
T ss_pred CCcCcHHHHHHHHHHhC
Confidence 35555555555555544
No 26
>KOG4351 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.90 E-value=0.049 Score=44.21 Aligned_cols=45 Identities=20% Similarity=0.407 Sum_probs=38.9
Q ss_pred CcchHHHHHHHHHHhCCC--H-HHHHHHHHhCCCCchhhhhhhhccCC
Q 031969 5 SRSNRDKLQQFVSITGAS--E-KAALQALKASDWHLEGAFDVFYSQPQ 49 (150)
Q Consensus 5 ~~~~~~~i~~F~~iT~~~--~-~~A~~~L~~~~w~le~Ai~~f~~~~~ 49 (150)
+.++..+|.+|.++++.. + .-|++||+-.+|||..|+..||+..+
T Consensus 20 t~dr~~Li~qf~~lm~~qm~P~~~aaF~Ld~knW~lqna~sv~~d~~t 67 (244)
T KOG4351|consen 20 TTDRPELIHQFQRLMNTQMNPMLSAAFVLDMKNWNLQNAGSVYWDQDT 67 (244)
T ss_pred CCCcHHHHHHHHHHhhhccCcccccceeeeccceeccccccEEEcCCC
Confidence 447788999999999863 5 67999999999999999999998754
No 27
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=91.90 E-value=0.48 Score=30.84 Aligned_cols=57 Identities=7% Similarity=0.212 Sum_probs=41.1
Q ss_pred CccchHHHHHHHhhcCCCCCcHHHHHHHHhh--cccccccccHHHHHHHhHHcCCCCHHHHH
Q 031969 72 DMILVDGITLLCNDLQVDPQDIVMLVVSWHM--KAATMCEFSKQEFIGGLQSLGIDSLDKFR 131 (150)
Q Consensus 72 d~I~~dG~~~~~edLgv~ped~~~LvLa~~l--~a~~~g~~tr~eF~~g~~~l~~dsi~~lk 131 (150)
.....+-+..++++.|.+|+ ++..++-+-+ +.++++.+ +.-+..|+.-|+.|+++.+
T Consensus 14 s~~e~~~i~~~~~~~~~~~e-vI~~ai~~a~~~~~~~~~Yi--~~Il~~W~~~gi~T~e~~~ 72 (73)
T TIGR01446 14 SPFEMEDLKYWLDEFGNSPE-LIKEALKEAVSNNKANYKYI--DAILNNWKNNGIKTVEDVE 72 (73)
T ss_pred CHHHHHHHHHHHHHhCCCHH-HHHHHHHHHHHcCCCCHHHH--HHHHHHHHHcCCCCHHHHh
Confidence 34667888899999998755 6666665544 34445433 4778889999999999875
No 28
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=91.81 E-value=0.5 Score=27.92 Aligned_cols=38 Identities=13% Similarity=0.245 Sum_probs=31.1
Q ss_pred HHHHHHHHHh-CCCHHHHHHHHHhCCCCchhhhhhhhcc
Q 031969 10 DKLQQFVSIT-GASEKAALQALKASDWHLEGAFDVFYSQ 47 (150)
Q Consensus 10 ~~i~~F~~iT-~~~~~~A~~~L~~~~w~le~Ai~~f~~~ 47 (150)
+.+.+..++. +.++...+..|+++++|++.|++...+.
T Consensus 4 ~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~~ 42 (43)
T smart00546 4 EALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLEG 42 (43)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence 4566666665 5688999999999999999999988754
No 29
>PF09279 EF-hand_like: Phosphoinositide-specific phospholipase C, efhand-like; InterPro: IPR015359 This domain is predominantly found in the enzyme phosphoinositol-specific phospholipase C. It adopts a structure consisting of a core of four alpha helices, in an EF like fold, and is required for functioning of the enzyme []. ; PDB: 3OHM_B 3QR0_A 2ZKM_X 2FJU_B 3QR1_D 1DJW_B 1DJI_B 1DJG_B 1QAS_B 2ISD_B ....
Probab=91.65 E-value=0.49 Score=31.50 Aligned_cols=64 Identities=11% Similarity=0.199 Sum_probs=45.5
Q ss_pred HHHHHHHHhcCCCCCccchHHHHHHHhh----cCCCCCcHHHHHHHHhhc--ccccccccHHHHHHHhHHc
Q 031969 58 HLEELYNRYKDPYLDMILVDGITLLCND----LQVDPQDIVMLVVSWHMK--AATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 58 ~l~~lFd~Y~d~~~d~I~~dG~~~~~ed----Lgv~ped~~~LvLa~~l~--a~~~g~~tr~eF~~g~~~l 122 (150)
.|..+|.+|.+ +...|+++.+.+|+.+ -.++++.+.-++--+.-. ....+.+|.++|+.-+..=
T Consensus 1 ei~~if~~ys~-~~~~mt~~~f~~FL~~eQ~~~~~~~~~~~~li~~~~~~~~~~~~~~lt~~gF~~fL~S~ 70 (83)
T PF09279_consen 1 EIEEIFRKYSS-DKEYMTAEEFRRFLREEQGEPRLTDEQAKELIEKFEPDERNRQKGQLTLEGFTRFLFSD 70 (83)
T ss_dssp HHHHHHHHHCT-TSSSEEHHHHHHHHHHTSS-TTSSHHHHHHHHHHHHHHHHHHCTTEEEHHHHHHHHHST
T ss_pred CHHHHHHHHhC-CCCcCCHHHHHHHHHHHhccccCcHHHHHHHHHHHccchhhcccCCcCHHHHHHHHCCC
Confidence 47889999988 6679999999999953 344555555554443222 2246899999999887653
No 30
>cd05026 S-100Z S-100Z: S-100Z domain found in proteins similar to S100Z. S100Z is a member of the S100 domain family within the EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100Z group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately.S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control. S100Z is normally expressed in various tissues, with its highest level of expression being in spleen and leukocytes. The function of S100Z remains unclear. Preliminary structural data suggests that S100Z is homodimer, however a heterodimer with S100P has been reported. S100Z is capable of binding calcium ions. When calcium binds to S110Z, the protein experiences a conformational change, which exposes hydrophobic surfac
Probab=90.91 E-value=1.8 Score=29.72 Aligned_cols=67 Identities=13% Similarity=0.153 Sum_probs=48.6
Q ss_pred HHHHHHHHHhcCCCCC--ccchHHHHHHHhh-c----CCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcC
Q 031969 57 RHLEELYNRYKDPYLD--MILVDGITLLCND-L----QVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLG 123 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~~d--~I~~dG~~~~~ed-L----gv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~ 123 (150)
..+...|.+|.+.+++ .|+.+-+..++.. + +-.+.+-.+=-+...+....=|.|+-+||+.-+..|-
T Consensus 10 ~~~~~~F~~~dd~dgdg~~Is~~EL~~ll~~~~~~~~~~~~~~~~v~~i~~elD~n~dG~Idf~EF~~l~~~l~ 83 (93)
T cd05026 10 DTLIRIFHNYSGKEGDRYKLSKGELKELLQRELTDFLSSQKDPMLVDKIMNDLDSNKDNEVDFNEFVVLVAALT 83 (93)
T ss_pred HHHHHHHHHHHccCCCCCEECHHHHHHHHHHHhHHhcccccCHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHH
Confidence 3455669999977664 6999999999976 3 3333333444455566666779999999999887763
No 31
>cd00213 S-100 S-100: S-100 domain, which represents the largest family within the superfamily of proteins carrying the Ca-binding EF-hand motif. Note that this S-100 hierarchy contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. Intracellularly, S100 proteins act as Ca-signaling or Ca-buffering proteins. The most unusual characteristic of certain S100 proteins is their occurrence in extracellular space, where they act in a cytokine-like manner through RAGE, the receptor for advanced glycation products. Structural data suggest that many S100 members exist within cells as homo- or heterodimers and even oligomers; oligomerization contributes to their functional diversification. Upon binding calcium, most S100 proteins change conformation to a more open structure exposing a hydrophobic cleft. This hydrophobic surface represents th
Probab=89.89 E-value=2 Score=28.67 Aligned_cols=66 Identities=12% Similarity=0.100 Sum_probs=47.1
Q ss_pred HHHHHHHHHhcC--CCCCccchHHHHHHHhh-cCCCC----CcHHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 57 RHLEELYNRYKD--PYLDMILVDGITLLCND-LQVDP----QDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 57 ~~l~~lFd~Y~d--~~~d~I~~dG~~~~~ed-Lgv~p----ed~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
+.+...|..|-. ...+.|+.+.+.+++.. +|..+ ....+=-+-..+....-|.|+-++|+..|..+
T Consensus 8 ~~l~~~F~~~D~~~~~~G~Is~~el~~~l~~~~g~~~~~~~~~~ei~~i~~~~d~~~~g~I~f~eF~~~~~~~ 80 (88)
T cd00213 8 ETIIDVFHKYSGKEGDKDTLSKKELKELLETELPNFLKNQKDPEAVDKIMKDLDVNKDGKVDFQEFLVLIGKL 80 (88)
T ss_pred HHHHHHHHHHhhccCCCCcCcHHHHHHHHHHHhhhhccCCCCHHHHHHHHHHhccCCCCcCcHHHHHHHHHHH
Confidence 456777888865 34468999999999976 56433 23333334445566778999999999988874
No 32
>KOG0036 consensus Predicted mitochondrial carrier protein [Nucleotide transport and metabolism]
Probab=88.54 E-value=1.6 Score=38.54 Aligned_cols=82 Identities=15% Similarity=0.053 Sum_probs=59.3
Q ss_pred HHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHHHH
Q 031969 56 TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRERIS 135 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l~ 135 (150)
..+|-.+|.+-.-..+..|++..+.++|.|+|+++.|...--+-..+--..-+.|.-+||.+-+.-.- .+.|..-+.
T Consensus 81 E~~l~~~F~~iD~~hdG~i~~~Ei~~~l~~~gi~l~de~~~k~~e~~d~~g~~~I~~~e~rd~~ll~p---~s~i~di~~ 157 (463)
T KOG0036|consen 81 ELELYRIFQSIDLEHDGKIDPNEIWRYLKDLGIQLSDEKAAKFFEHMDKDGKATIDLEEWRDHLLLYP---ESDLEDIYD 157 (463)
T ss_pred HHHHHHHHhhhccccCCccCHHHHHHHHHHhCCccCHHHHHHHHHHhccCCCeeeccHHHHhhhhcCC---hhHHHHHHH
Confidence 35555666655433345999999999999999999998877777777777778999999998766554 444444444
Q ss_pred HHHHH
Q 031969 136 FMRAE 140 (150)
Q Consensus 136 ~l~~~ 140 (150)
.++..
T Consensus 158 ~W~h~ 162 (463)
T KOG0036|consen 158 FWRHV 162 (463)
T ss_pred hhhhh
Confidence 44443
No 33
>cd05023 S-100A11 S-100A11: S-100A11 domain found in proteins similar to S100A11. S100A11 is a member of the S-100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A11 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control . S100 proteins have also been associated with a variety of pathological events, including neoplastic transformation and neurodegenerative diseases such as Alzheimer's, usually via over expression of the protein. S100A11 is expressed in smooth muscle and other tissues and involves in calcium-dependent membrane aggregation, which is important for cell vesiculation . As is the case for many other S100 proteins, S
Probab=88.21 E-value=3.7 Score=28.11 Aligned_cols=67 Identities=13% Similarity=0.116 Sum_probs=46.8
Q ss_pred HHHHHHHHHHhcCCCCC--ccchHHHHHHHhhc-----CCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 56 TRHLEELYNRYKDPYLD--MILVDGITLLCNDL-----QVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d--~I~~dG~~~~~edL-----gv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
-..|..+|.+|.+.+++ .|+.+.+..+++.- +-..++..+--+-..+....=|.|+-+||+.-+..+
T Consensus 8 i~~l~~~F~~y~~~dg~~~~Ls~~Elk~ll~~e~~~~~~~~~~~~~~~~ll~~~D~d~DG~I~f~EF~~l~~~l 81 (89)
T cd05023 8 IESLIAVFQKYAGKDGDSYQLSKTEFLSFMNTELASFTKNQKDPGVLDRMMKKLDLNSDGQLDFQEFLNLIGGL 81 (89)
T ss_pred HHHHHHHHHHHhccCCCcCeECHHHHHHHHHHhhhHhhcCCCCHHHHHHHHHHcCCCCCCcCcHHHHHHHHHHH
Confidence 35678899999976553 89999999999775 222222233333445556666999999999877765
No 34
>KOG2756 consensus Predicted Mg2+-dependent phosphodiesterase TTRAP [Signal transduction mechanisms]
Probab=88.07 E-value=0.39 Score=40.39 Aligned_cols=40 Identities=23% Similarity=0.434 Sum_probs=36.6
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccC
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQP 48 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~ 48 (150)
++++-+|..+|.+.++.|..+|..+.|.+..|++.||...
T Consensus 26 ~~ll~efa~~~s~dea~aq~~l~~~dw~~~ral~~~~~se 65 (349)
T KOG2756|consen 26 RLLCVEFASVASCDAAVAQCFLAENDWEMERALNSYFEPE 65 (349)
T ss_pred HHHHHHHHHhhhhHHHhHHHHhhcchhHHHHHHHhhcCce
Confidence 4677899999999999999999999999999999999754
No 35
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=87.78 E-value=0.82 Score=36.27 Aligned_cols=39 Identities=18% Similarity=0.233 Sum_probs=35.3
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhcc
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQ 47 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~ 47 (150)
.++|++.++.||++--.+..-|..++||++.|++---..
T Consensus 5 a~~ik~LR~~tga~~~~ck~AL~~~~gd~~~A~~~lr~~ 43 (198)
T PRK12332 5 AKLVKELREKTGAGMMDCKKALEEANGDMEKAIEWLREK 43 (198)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 468999999999999999999999999999999877544
No 36
>CHL00098 tsf elongation factor Ts
Probab=87.68 E-value=0.83 Score=36.32 Aligned_cols=38 Identities=18% Similarity=0.284 Sum_probs=34.5
Q ss_pred HHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhcc
Q 031969 10 DKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQ 47 (150)
Q Consensus 10 ~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~ 47 (150)
++|++.++.||++--.+..-|..++||++.|++---..
T Consensus 3 ~~ik~LR~~Tgag~~dck~AL~e~~gd~~~A~~~Lr~~ 40 (200)
T CHL00098 3 ELVKELRDKTGAGMMDCKKALQEANGDFEKALESLRQK 40 (200)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 67999999999999999999999999999999876544
No 37
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=87.33 E-value=0.89 Score=38.11 Aligned_cols=40 Identities=18% Similarity=0.173 Sum_probs=35.7
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccC
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQP 48 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~ 48 (150)
.++|++.++.||+.--.++.-|..++||++.|++---...
T Consensus 5 a~~IK~LRe~Tgagm~dCKkAL~e~~gDiekAi~~LRkkG 44 (290)
T TIGR00116 5 AQLVKELRERTGAGMMDCKKALTEANGDFEKAIKNLRESG 44 (290)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 4679999999999999999999999999999998775443
No 38
>KOG0027 consensus Calmodulin and related proteins (EF-Hand superfamily) [Signal transduction mechanisms]
Probab=86.45 E-value=9 Score=28.15 Aligned_cols=69 Identities=14% Similarity=0.169 Sum_probs=57.4
Q ss_pred HHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCC
Q 031969 56 TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGI 124 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~ 124 (150)
...+.+.|..|--.....|..+=+...+..||.+|..-..-.+-..+....-|.|..++|+.-+.....
T Consensus 7 ~~el~~~F~~fD~d~~G~i~~~el~~~lr~lg~~~t~~el~~~~~~~D~dg~g~I~~~eF~~l~~~~~~ 75 (151)
T KOG0027|consen 7 ILELKEAFQLFDKDGDGKISVEELGAVLRSLGQNPTEEELRDLIKEIDLDGDGTIDFEEFLDLMEKLGE 75 (151)
T ss_pred HHHHHHHHHHHCCCCCCcccHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCCCCeEcHHHHHHHHHhhhc
Confidence 356777888875433468999999999999999999888888888888888899999999998887655
No 39
>PRK09377 tsf elongation factor Ts; Provisional
Probab=86.43 E-value=1.1 Score=37.64 Aligned_cols=40 Identities=20% Similarity=0.215 Sum_probs=36.0
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccC
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQP 48 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~ 48 (150)
.++|++.++.||+.--.+++-|..++||++.|++---...
T Consensus 6 ~~~IK~LR~~Tgagm~dCKkAL~e~~gD~ekAi~~Lrk~G 45 (290)
T PRK09377 6 AALVKELRERTGAGMMDCKKALTEADGDIEKAIEWLRKKG 45 (290)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 4789999999999999999999999999999998776543
No 40
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=86.41 E-value=1.3 Score=32.74 Aligned_cols=35 Identities=20% Similarity=0.299 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhh
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFDV 43 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~ 43 (150)
.+-|+=-++-||+|+..|+..|+.++.+|-.||-.
T Consensus 85 eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~ 119 (122)
T COG1308 85 EEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMK 119 (122)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHH
Confidence 35577788999999999999999999999888754
No 41
>COG5126 FRQ1 Ca2+-binding protein (EF-Hand superfamily) [Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only]
Probab=86.28 E-value=8.1 Score=29.71 Aligned_cols=69 Identities=13% Similarity=0.131 Sum_probs=50.8
Q ss_pred CCHHHHHHHHHHhc--CCCC-CccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcC
Q 031969 54 TDTRHLEELYNRYK--DPYL-DMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLG 123 (150)
Q Consensus 54 ~~~~~l~~lFd~Y~--d~~~-d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~ 123 (150)
-+...+.+|.+.|. |+++ ..|+-+-+..++..||.+|.+..+.=|-.-+.+ .-|.++-.+|+..|...-
T Consensus 14 ~t~~qi~~lkeaF~l~D~d~~G~I~~~el~~ilr~lg~~~s~~ei~~l~~~~d~-~~~~idf~~Fl~~ms~~~ 85 (160)
T COG5126 14 LTEEQIQELKEAFQLFDRDSDGLIDRNELGKILRSLGFNPSEAEINKLFEEIDA-GNETVDFPEFLTVMSVKL 85 (160)
T ss_pred CCHHHHHHHHHHHHHhCcCCCCCCcHHHHHHHHHHcCCCCcHHHHHHHHHhccC-CCCccCHHHHHHHHHHHh
Confidence 34566777777776 4443 589999999999999999988888777777777 556677777777766643
No 42
>cd05025 S-100A1 S-100A1: S-100A1 domain found in proteins similar to S100A1. S100A1 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. As is the case with many other members of S100 protein family, S100A1 is implicated in intracellular and extracellular regulatory activities, including interaction with myosin-associated twitchin kinase, actin-capping protein CapZ, sinapsin I, and tubulin. Structural data suggests that S100A1 proteins exist within cells as antiparallel homodimers, while heterodimers with S100A4 and S100B also has been reported. Upon binding calcium S100A1 changes conformation to expose a hydrophobic cleft which is the interaction site of S100A1 with its more that 20 known target proteins.
Probab=86.23 E-value=6.1 Score=26.63 Aligned_cols=66 Identities=12% Similarity=0.034 Sum_probs=47.9
Q ss_pred HHHHHHHHHhcCCCC-C-ccchHHHHHHHhh-cCC----CCCcHHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 57 RHLEELYNRYKDPYL-D-MILVDGITLLCND-LQV----DPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~~-d-~I~~dG~~~~~ed-Lgv----~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
..|.+.|..|-|.++ . .|+.+-+.+++.. +|. .|....+=-+-..+....-|.|+-++|+.-+..+
T Consensus 9 ~~l~~~F~~fDd~dg~G~~Is~~El~~~l~~~lg~~~~~~~s~~~v~~i~~~~D~d~~G~I~f~eF~~l~~~~ 81 (92)
T cd05025 9 ETLINVFHAHSGKEGDKYKLSKKELKDLLQTELSDFLDAQKDADAVDKIMKELDENGDGEVDFQEFVVLVAAL 81 (92)
T ss_pred HHHHHHHHHHhcccCCCCeECHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHCCCCCCcCcHHHHHHHHHHH
Confidence 567889999964444 4 5999999999975 553 4444444445555677788999999999877764
No 43
>PF05517 p25-alpha: p25-alpha ; InterPro: IPR008907 This family encodes a 25 kDa protein that is phosphorylated by a Ser/Thr-Pro kinase []. It has been described as a brain specific protein, but it is found in Tetrahymena thermophila.; PDB: 1WLM_A 1PUL_A 2JRF_A.
Probab=85.80 E-value=6.3 Score=29.72 Aligned_cols=76 Identities=18% Similarity=0.347 Sum_probs=50.7
Q ss_pred HHHHHHHhcC---CCCCccchHHHHHHHhhcCCCCCcH---HHHHHHHhhcccccccccHHHHHHHhHHc----CCC--C
Q 031969 59 LEELYNRYKD---PYLDMILVDGITLLCNDLQVDPQDI---VMLVVSWHMKAATMCEFSKQEFIGGLQSL----GID--S 126 (150)
Q Consensus 59 l~~lFd~Y~d---~~~d~I~~dG~~~~~edLgv~ped~---~~LvLa~~l~a~~~g~~tr~eF~~g~~~l----~~d--s 126 (150)
|+++|..|+. .....|+..-..++|.|.||=..-+ .+=++-.+++++.-..|+-++|+..+..+ +++ +
T Consensus 1 L~~~F~~f~~fG~~~~~~m~~~~F~Kl~kD~~i~d~k~t~tdvDiiF~Kvk~k~~~~I~f~~F~~aL~~lA~~~~~~~~~ 80 (154)
T PF05517_consen 1 LEAVFKAFASFGKKNGTEMDSKNFAKLCKDCGIIDKKLTSTDVDIIFSKVKAKGARKITFEQFLEALAELAEKKGKDKSS 80 (154)
T ss_dssp HHHHHHHHHCSSTSTSSEEEHHHHHHHHHHTSS--SSS-HHHHHHHHHHHT-SS-SEEEHHHHHHHHHHHHHHHSCCCTH
T ss_pred CHHHHHHHHHhcCCccccccHHHHHHHHHHcCCCCCCCchHHHHHHHHHhhcCCCcccCHHHHHHHHHHHHHHhhccccc
Confidence 6789999953 2346899999999999999953222 22233345677766679999999998875 333 4
Q ss_pred HHHHHHHH
Q 031969 127 LDKFRERI 134 (150)
Q Consensus 127 i~~lk~~l 134 (150)
.+.+..+|
T Consensus 81 ~~~~~~kl 88 (154)
T PF05517_consen 81 AEELKEKL 88 (154)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 55555555
No 44
>COG5126 FRQ1 Ca2+-binding protein (EF-Hand superfamily) [Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only]
Probab=84.47 E-value=6.4 Score=30.28 Aligned_cols=69 Identities=12% Similarity=0.058 Sum_probs=56.1
Q ss_pred cCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHH
Q 031969 53 LTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQS 121 (150)
Q Consensus 53 ~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~ 121 (150)
.....+|...|.-|=......|+..-+.+.+.-||-...+-.+=-|-..+....-|+|+.++|++.|..
T Consensus 88 ~~~~Eel~~aF~~fD~d~dG~Is~~eL~~vl~~lge~~~deev~~ll~~~d~d~dG~i~~~eF~~~~~~ 156 (160)
T COG5126 88 GDKEEELREAFKLFDKDHDGYISIGELRRVLKSLGERLSDEEVEKLLKEYDEDGDGEIDYEEFKKLIKD 156 (160)
T ss_pred CCcHHHHHHHHHHhCCCCCceecHHHHHHHHHhhcccCCHHHHHHHHHhcCCCCCceEeHHHHHHHHhc
Confidence 344788999999997755579999999999999999987766666656665567899999999998875
No 45
>cd05022 S-100A13 S-100A13: S-100A13 domain found in proteins similar to S100A13. S100A13 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A13 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100A13 is involved in the cellular export of interleukin-1 (IL-1) and of fibroblast growth factor-1 (FGF-1), which plays an important role in angiogenesis and tissue regeneration. Export is based on the CuII-dependent formation of multiprotein complexes containing the S100A13 protein. Assembly of these complexes occurs near the inner surface of the plasma membrane. Binding of two Ca(II) ions per monomer triggers key conformational changes leading to the creation of two identical and symmetrical Cu(II)-binding sites on the surface of the protein, close to the interface between the two monomers. These Cu
Probab=83.77 E-value=8.4 Score=26.47 Aligned_cols=66 Identities=12% Similarity=0.015 Sum_probs=48.4
Q ss_pred HHHHHHHHHhcC-CCCCccchHHHHHHHhh-cCCCCCc-HHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 57 RHLEELYNRYKD-PYLDMILVDGITLLCND-LQVDPQD-IVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 57 ~~l~~lFd~Y~d-~~~d~I~~dG~~~~~ed-Lgv~ped-~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
..|...|..|.. ...+.|+.+.+..++.. ||-..++ -.+=-+-..+....=|.|+-+||+.-+..+
T Consensus 8 ~~l~~~F~~fd~~~~~g~i~~~ELk~ll~~elg~~ls~~~~v~~mi~~~D~d~DG~I~F~EF~~l~~~l 76 (89)
T cd05022 8 ETLVSNFHKASVKGGKESLTASEFQELLTQQLPHLLKDVEGLEEKMKNLDVNQDSKLSFEEFWELIGEL 76 (89)
T ss_pred HHHHHHHHHHhCCCCCCeECHHHHHHHHHHHhhhhccCHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHH
Confidence 457788999976 44579999999999998 9844444 333333344556667999999999877775
No 46
>cd05027 S-100B S-100B: S-100B domain found in proteins similar to S100B. S100B is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100B group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100B is most abundant in glial cells of the central nervous system, predominately in astrocytes. S100B is involved in signal transduction via the inhibition of protein phoshorylation, regulation of enzyme activity and by affecting the calcium homeostasis. Upon calcium binding the S100B homodimer changes conformation to expose a hydrophobic cleft, which represents the interaction site of S100B with its more than 20 known target proteins. These target proteins include several cellular architecture proteins such as tubulin and GFAP; S100B can inhibit polymerization of these oligomeric molecules. Furthermore, S100B i
Probab=83.24 E-value=9.4 Score=25.99 Aligned_cols=66 Identities=17% Similarity=0.127 Sum_probs=47.9
Q ss_pred HHHHHHHHHhcCCCC-C-ccchHHHHHHHhh-----cCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 57 RHLEELYNRYKDPYL-D-MILVDGITLLCND-----LQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~~-d-~I~~dG~~~~~ed-----Lgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
..|.+.|..|.+.++ . .|+.+-+..++.. +|-.++.-.+=-+-..+....-|.|+-++|+.-+..+
T Consensus 8 ~~l~~aF~~fD~~dgdG~~I~~~eL~~ll~~~~~~~lg~~~~~~~v~~~i~~~D~n~dG~v~f~eF~~li~~~ 80 (88)
T cd05027 8 VALIDVFHQYSGREGDKHKLKKSELKELINNELSHFLEEIKEQEVVDKVMETLDSDGDGECDFQEFMAFVAMV 80 (88)
T ss_pred HHHHHHHHHhcccCCCcCEECHHHHHHHHHHHhHHHhcCCCCHHHHHHHHHHhCCCCCCcCcHHHHHHHHHHH
Confidence 457789999964333 4 6999999999999 9977654433333345566777999999998766553
No 47
>PF13405 EF-hand_6: EF-hand domain; PDB: 2AMI_A 3QRX_A 1W7J_B 1OE9_B 1W7I_B 1KFU_S 1KFX_S 2BL0_B 1Y1X_B 3MSE_B ....
Probab=80.68 E-value=3.9 Score=22.04 Aligned_cols=30 Identities=13% Similarity=0.215 Sum_probs=20.9
Q ss_pred HHHHHHHHhcCCCCCccchHHHHHHHh-hcC
Q 031969 58 HLEELYNRYKDPYLDMILVDGITLLCN-DLQ 87 (150)
Q Consensus 58 ~l~~lFd~Y~d~~~d~I~~dG~~~~~e-dLg 87 (150)
++.++|+.|=......|+.+-+...+. .||
T Consensus 1 ~l~~~F~~~D~d~dG~I~~~el~~~l~~~lG 31 (31)
T PF13405_consen 1 RLREAFKMFDKDGDGFIDFEELRAILRKSLG 31 (31)
T ss_dssp HHHHHHHHH-TTSSSEEEHHHHHHHHHHHTT
T ss_pred CHHHHHHHHCCCCCCcCcHHHHHHHHHHhcC
Confidence 467788888443346888888888887 676
No 48
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=80.27 E-value=1.4 Score=24.10 Aligned_cols=16 Identities=19% Similarity=0.183 Sum_probs=11.0
Q ss_pred cccccHHHHHHHhHHc
Q 031969 107 MCEFSKQEFIGGLQSL 122 (150)
Q Consensus 107 ~g~~tr~eF~~g~~~l 122 (150)
=|.|+.+||+.++++|
T Consensus 14 dG~I~~~Ef~~~~~~L 29 (29)
T PF00036_consen 14 DGKIDFEEFKEMMKKL 29 (29)
T ss_dssp SSEEEHHHHHHHHHHT
T ss_pred CCcCCHHHHHHHHHhC
Confidence 4777777777777654
No 49
>KOG0027 consensus Calmodulin and related proteins (EF-Hand superfamily) [Signal transduction mechanisms]
Probab=79.84 E-value=15 Score=26.89 Aligned_cols=72 Identities=18% Similarity=0.082 Sum_probs=57.2
Q ss_pred CCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCc----HHHHHHHHhh-cccccccccHHHHHHHhHHcCCC
Q 031969 54 TDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQD----IVMLVVSWHM-KAATMCEFSKQEFIGGLQSLGID 125 (150)
Q Consensus 54 ~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped----~~~LvLa~~l-~a~~~g~~tr~eF~~g~~~l~~d 125 (150)
+....+..+++++-...+..|+.+....++...+..... ...+.=|+.+ -...-|.||.+++..-+..+|=.
T Consensus 41 ~t~~el~~~~~~~D~dg~g~I~~~eF~~l~~~~~~~~~~~~~~~~el~eaF~~fD~d~~G~Is~~el~~~l~~lg~~ 117 (151)
T KOG0027|consen 41 PTEEELRDLIKEIDLDGDGTIDFEEFLDLMEKLGEEKTDEEASSEELKEAFRVFDKDGDGFISASELKKVLTSLGEK 117 (151)
T ss_pred CCHHHHHHHHHHhCCCCCCeEcHHHHHHHHHhhhcccccccccHHHHHHHHHHHccCCCCcCcHHHHHHHHHHhCCc
Confidence 467899999999876555799999999999988887654 3466666654 44567999999999999998753
No 50
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=78.45 E-value=2.9 Score=35.69 Aligned_cols=37 Identities=27% Similarity=0.170 Sum_probs=33.7
Q ss_pred chHHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhh
Q 031969 7 SNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDV 43 (150)
Q Consensus 7 ~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~ 43 (150)
.++.+|.++++=||++-..+++-|+.++|||..|..=
T Consensus 45 ~~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~ 81 (340)
T KOG1071|consen 45 SSKALLKKLREKTGASMVNCKKALEECGGDLVLAEEW 81 (340)
T ss_pred ccHHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHH
Confidence 4789999999999999999999999999999887653
No 51
>PF03765 CRAL_TRIO_N: CRAL/TRIO, N-terminal domain; InterPro: IPR008273 This entry defines the N-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1AUA_A 3Q8G_A 3B7Q_B 3B7Z_A 3B7N_A ....
Probab=77.11 E-value=2.7 Score=25.81 Aligned_cols=24 Identities=25% Similarity=0.474 Sum_probs=19.7
Q ss_pred CCHHHHHHHHHhCCCCchhhhhhh
Q 031969 21 ASEKAALQALKASDWHLEGAFDVF 44 (150)
Q Consensus 21 ~~~~~A~~~L~~~~w~le~Ai~~f 44 (150)
.++..-.+||.+.+||++.|+..+
T Consensus 29 ~~d~~llRFLRARkf~v~~A~~mL 52 (55)
T PF03765_consen 29 HDDNFLLRFLRARKFDVEKAFKML 52 (55)
T ss_dssp -SHHHHHHHHHHTTT-HHHHHHHH
T ss_pred CCHHHHHHHHHHccCCHHHHHHHH
Confidence 467889999999999999998765
No 52
>PF12096 DUF3572: Protein of unknown function (DUF3572); InterPro: IPR021955 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 100 amino acids in length.
Probab=76.13 E-value=3.7 Score=28.58 Aligned_cols=58 Identities=17% Similarity=0.288 Sum_probs=39.1
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcC
Q 031969 8 NRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQ 87 (150)
Q Consensus 8 ~~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLg 87 (150)
..+.+..|...||+++..=+.-.... .+-.+|=.|+-.. + .=++.||+.+|
T Consensus 20 d~e~l~rFLa~TG~~p~~LR~~a~dp--~FL~~VLdFl~~d---------------------e------~~l~af~~a~~ 70 (88)
T PF12096_consen 20 DPERLPRFLALTGLSPDDLRAAAGDP--AFLAAVLDFLLMD---------------------E------AWLLAFCDAAG 70 (88)
T ss_pred CHHHHHHHHHHhCCCHHHHHHHccCh--HHHHHHHHHHHcc---------------------h------HHHHHHHHHcC
Confidence 45778889999999988755433332 2334555555432 1 36889999999
Q ss_pred CCCCcHH
Q 031969 88 VDPQDIV 94 (150)
Q Consensus 88 v~ped~~ 94 (150)
++|+.+.
T Consensus 71 ~~p~~v~ 77 (88)
T PF12096_consen 71 IPPEAVA 77 (88)
T ss_pred cChhHHH
Confidence 9998654
No 53
>KOG0036 consensus Predicted mitochondrial carrier protein [Nucleotide transport and metabolism]
Probab=73.21 E-value=28 Score=30.97 Aligned_cols=89 Identities=15% Similarity=0.092 Sum_probs=73.6
Q ss_pred HHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCC-CCcHHHHHHHHhhcccccccccHHHHHHHhHHc------------
Q 031969 56 TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVD-PQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL------------ 122 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~-ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l------------ 122 (150)
+.++..+|+.+-......++.+-+.+-++.|+.. |..-..-.|...+.+..-|...-++|.+-+..-
T Consensus 13 ~~r~~~lf~~lD~~~~g~~d~~~l~k~~~~l~~~~~~~~~~~~l~~~~d~~~dg~vDy~eF~~Y~~~~E~~l~~~F~~iD 92 (463)
T KOG0036|consen 13 DIRIRCLFKELDSKNDGQVDLDQLEKGLEKLDHPKPNYEAAKMLFSAMDANRDGRVDYSEFKRYLDNKELELYRIFQSID 92 (463)
T ss_pred HHHHHHHHHHhccCCCCceeHHHHHHHHHhcCCCCCchHHHHHHHHhcccCcCCcccHHHHHHHHHHhHHHHHHHHhhhc
Confidence 5678889999877555799999999999999998 877788888889999999999999998876542
Q ss_pred ----CCCCHHHHHHHHHHHHHHcCCC
Q 031969 123 ----GIDSLDKFRERISFMRAELKDE 144 (150)
Q Consensus 123 ----~~dsi~~lk~~l~~l~~~l~~~ 144 (150)
|+-.+..+.++|.++-.+|+|.
T Consensus 93 ~~hdG~i~~~Ei~~~l~~~gi~l~de 118 (463)
T KOG0036|consen 93 LEHDGKIDPNEIWRYLKDLGIQLSDE 118 (463)
T ss_pred cccCCccCHHHHHHHHHHhCCccCHH
Confidence 4457888999998888777655
No 54
>PRK02264 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional
Probab=72.73 E-value=0.86 Score=38.65 Aligned_cols=70 Identities=26% Similarity=0.482 Sum_probs=44.5
Q ss_pred HHHHHH--HhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHH--hcCCC--------CCccchHH-HHHHHhhcCCCCC
Q 031969 25 AALQAL--KASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNR--YKDPY--------LDMILVDG-ITLLCNDLQVDPQ 91 (150)
Q Consensus 25 ~A~~~L--~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~--Y~d~~--------~d~I~~dG-~~~~~edLgv~pe 91 (150)
-+..+| +..+|.|. .+.||.-.++.+.+-..+ +.||+. |+|.. .+.+-++- +.+..++.||+|+
T Consensus 85 P~iAcLgSQ~AGW~l~--~~~ffa~GSGPaRAla~k-e~l~~~l~Y~D~~~~avl~lE~~~lP~~~v~e~vA~~cgv~p~ 161 (317)
T PRK02264 85 PALACLGSQKAGWSLS--VGKFFALGSGPARALALK-EELYEELGYRDDADFAVLVLESDKLPPEEVAEKVAEECGVDPE 161 (317)
T ss_pred hHHHHHhccccCcccc--cCCEeeecCcHHHHHhhh-hHHHHHhCCccccCeEEEEEecCCCCCHHHHHHHHHHcCCCHH
Confidence 344555 55999995 588998877644333334 778885 55532 23444444 4555699999999
Q ss_pred cHHHHH
Q 031969 92 DIVMLV 97 (150)
Q Consensus 92 d~~~Lv 97 (150)
++..|+
T Consensus 162 ~v~~lv 167 (317)
T PRK02264 162 NVYLLV 167 (317)
T ss_pred HEEEEE
Confidence 986443
No 55
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=72.18 E-value=5.7 Score=33.49 Aligned_cols=40 Identities=18% Similarity=0.207 Sum_probs=35.9
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccC
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQP 48 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~ 48 (150)
.++|+++++.||+.=-.+.+-|..++.|+|.|++---...
T Consensus 6 a~~VKeLRe~TgAGMmdCKkAL~E~~Gd~EkAie~LR~kG 45 (296)
T COG0264 6 AALVKELREKTGAGMMDCKKALEEANGDIEKAIEWLREKG 45 (296)
T ss_pred HHHHHHHHHHhCCcHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 4689999999999999999999999999999999876543
No 56
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=71.91 E-value=6.5 Score=32.78 Aligned_cols=37 Identities=24% Similarity=0.257 Sum_probs=32.2
Q ss_pred HHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhcc
Q 031969 11 KLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQ 47 (150)
Q Consensus 11 ~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~ 47 (150)
.++=.+++||++...|...|++++|++-.||-.-...
T Consensus 238 a~~i~~~~~~~~~~~a~~~l~~~~~~vk~a~~~~~~~ 274 (299)
T PRK05441 238 AVRIVMEATGVSREEAEAALEAADGSVKLAIVMILTG 274 (299)
T ss_pred HHHHHHHHHCcCHHHHHHHHHHhCCCcHHHHHHHHhC
Confidence 3456889999999999999999999999999877554
No 57
>COG2922 Smg Uncharacterized protein conserved in bacteria [Function unknown]
Probab=71.38 E-value=3.6 Score=31.33 Aligned_cols=36 Identities=22% Similarity=0.226 Sum_probs=31.3
Q ss_pred HHHHHHHhcCCCCC-ccchHHHHHHHhhcCCCCCcHH
Q 031969 59 LEELYNRYKDPYLD-MILVDGITLLCNDLQVDPQDIV 94 (150)
Q Consensus 59 l~~lFd~Y~d~~~d-~I~~dG~~~~~edLgv~ped~~ 94 (150)
|-=||+.|.+.+.+ .++.|.+...++|.|.+++|+-
T Consensus 5 l~YLfE~y~h~ea~l~vd~d~L~~~L~~aGF~~~dI~ 41 (157)
T COG2922 5 LMYLFETYIHNEAELPVDQDSLENDLEDAGFDREDIY 41 (157)
T ss_pred HHHHHHHHhccCCCCCcCHHHHHhHHHHcCCCHHHHH
Confidence 45589999987664 7999999999999999999875
No 58
>PF14658 EF-hand_9: EF-hand domain
Probab=71.14 E-value=15 Score=24.21 Aligned_cols=50 Identities=6% Similarity=0.090 Sum_probs=45.1
Q ss_pred CccchHHHHHHHhhcCC-CCCcHHHHHHHHhhccccc-ccccHHHHHHHhHH
Q 031969 72 DMILVDGITLLCNDLQV-DPQDIVMLVVSWHMKAATM-CEFSKQEFIGGLQS 121 (150)
Q Consensus 72 d~I~~dG~~~~~edLgv-~ped~~~LvLa~~l~a~~~-g~~tr~eF~~g~~~ 121 (150)
.+|-+.-+..|+..+|- +|++-..=-|+..+-...- |.+.++.|+.-|+.
T Consensus 13 G~V~v~~l~~~Lra~~~~~p~e~~Lq~l~~elDP~g~~~~v~~d~F~~iM~~ 64 (66)
T PF14658_consen 13 GRVPVSDLITYLRAVTGRSPEESELQDLINELDPEGRDGSVNFDTFLAIMRD 64 (66)
T ss_pred ceEeHHHHHHHHHHHcCCCCcHHHHHHHHHHhCCCCCCceEeHHHHHHHHHH
Confidence 58889999999999999 9999998889999988877 99999999998874
No 59
>PF05042 Caleosin: Caleosin related protein; InterPro: IPR007736 This family contains plant proteins related to caleosin. Caleosins contain calcium-binding domains and have an oleosin-like association with lipid bodies. Caleosins are present at relatively low levels and are mainly bound to microsomal membrane fractions at the early stages of seed development. As the seeds mature, overall levels of caleosins increased dramatically and they were associated almost exclusively with storage lipid bodies []. The calcium binding domain is probably related to the calcium-binding EF-hands motif IPR002048 from INTERPRO.
Probab=71.11 E-value=18 Score=28.20 Aligned_cols=61 Identities=13% Similarity=0.189 Sum_probs=46.4
Q ss_pred CHHHHHHHHHHhcCCCCCccchHHHHHHHhh--cCCCC----CcHHHHHHHHhhcccccccccHHHH
Q 031969 55 DTRHLEELYNRYKDPYLDMILVDGITLLCND--LQVDP----QDIVMLVVSWHMKAATMCEFSKQEF 115 (150)
Q Consensus 55 ~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~ed--Lgv~p----ed~~~LvLa~~l~a~~~g~~tr~eF 115 (150)
.+.+.+++|.+|+...+|.+...-+.+++.. .-.|| ....-..+.|.|-.+.-|...||.-
T Consensus 94 vp~kFe~iF~kya~~~~d~LT~~E~~~m~~~nr~~~D~~GW~a~~~EW~~~y~L~~d~dG~l~Ke~i 160 (174)
T PF05042_consen 94 VPQKFEEIFSKYAKTGPDALTLRELWRMLKGNRNANDPFGWFAAFFEWGALYILAKDKDGFLSKEDI 160 (174)
T ss_pred CHHHHHHHHHHhCCCCCCCcCHHHHHHHHHhccccCCcchhhhhhhHHHHHHHHHcCcCCcEeHHHH
Confidence 4899999999999866788988888888865 33333 2244677888888888888877764
No 60
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=70.76 E-value=6.9 Score=32.60 Aligned_cols=37 Identities=22% Similarity=0.174 Sum_probs=31.6
Q ss_pred HHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhcc
Q 031969 11 KLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQ 47 (150)
Q Consensus 11 ~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~ 47 (150)
.++=.+++||++...|...|.+++|++-.||-.-..+
T Consensus 233 a~~i~~~~~~~~~~~a~~~l~~~~~~vk~Ai~~~~~~ 269 (291)
T TIGR00274 233 AVRIVRQATDCNKELAEQTLLAADQNVKLAIVMILST 269 (291)
T ss_pred HHHHHHHHhCcCHHHHHHHHHHhCCCcHHHHHHHHhC
Confidence 3455788899999999999999999999999876543
No 61
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=70.57 E-value=15 Score=23.83 Aligned_cols=42 Identities=26% Similarity=0.337 Sum_probs=36.8
Q ss_pred cchHHHHHHHHHHhCC-CHHHHHHHHHhCCCCchhhhhhhhcc
Q 031969 6 RSNRDKLQQFVSITGA-SEKAALQALKASDWHLEGAFDVFYSQ 47 (150)
Q Consensus 6 ~~~~~~i~~F~~iT~~-~~~~A~~~L~~~~w~le~Ai~~f~~~ 47 (150)
++-+..|+...+|||+ |++.--..|..+|-+-+.|++.....
T Consensus 3 ~~~rk~VQ~iKEiv~~hse~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 3 AASRKTVQSIKEIVGCHSEEEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred hHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 4557889999999999 99999999999999999999887654
No 62
>PF09107 SelB-wing_3: Elongation factor SelB, winged helix ; InterPro: IPR015191 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 3". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm; PDB: 2PJP_A 2UWM_A 1WSU_B 1LVA_A 2PLY_A.
Probab=70.39 E-value=6.5 Score=24.35 Aligned_cols=22 Identities=27% Similarity=0.398 Sum_probs=18.6
Q ss_pred HHHHHHHHhCCCHHHHHHHHHh
Q 031969 11 KLQQFVSITGASEKAALQALKA 32 (150)
Q Consensus 11 ~i~~F~~iT~~~~~~A~~~L~~ 32 (150)
.+.+|.+.+|+|.+.|+.+|+-
T Consensus 12 tv~~~rd~lg~sRK~ai~lLE~ 33 (50)
T PF09107_consen 12 TVAEFRDLLGLSRKYAIPLLEY 33 (50)
T ss_dssp EHHHHHHHHTS-HHHHHHHHHH
T ss_pred cHHHHHHHHCccHHHHHHHHHH
Confidence 3789999999999999999874
No 63
>PF07848 PaaX: PaaX-like protein; InterPro: IPR012906 This entry describes the N-terminal region of proteins that are similar to, and nclude, the product of the paaX gene of Escherichia coli (P76086 from SWISSPROT). PaaX is a transcriptional regulator that is always found in association with operons believed to be involved in the degradation of phenylacetic acid []. The gene product has been shown to bind to the promoter sites and repress their transcription []. ; PDB: 3KFW_X 3L09_B.
Probab=69.95 E-value=4.5 Score=26.74 Aligned_cols=39 Identities=18% Similarity=0.192 Sum_probs=30.6
Q ss_pred HHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHH
Q 031969 57 RHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVM 95 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~ 95 (150)
.-|-.+|-.|--+.+..|...+++++++.+||++..+.+
T Consensus 4 Sli~tl~Gdy~~~~g~~i~~~~Li~ll~~~Gv~e~avR~ 42 (70)
T PF07848_consen 4 SLIVTLLGDYLRPRGGWIWVASLIRLLAAFGVSESAVRT 42 (70)
T ss_dssp HHHHHHHHHHCCTTTS-EEHHHHHHHHCCTT--HHHHHH
T ss_pred eehHHHHHHHhccCCCceeHHHHHHHHHHcCCChHHHHH
Confidence 346778999988877899999999999999999886654
No 64
>PF07261 DnaB_2: Replication initiation and membrane attachment; InterPro: IPR006343 This entry represents a domain found in several bacterial replication initiation and membrane attachment proteins, DnaB and DnaD. The DnaD protein is a component of the PriA primosome. The PriA primosome functions to recruit the replication fork helicase onto the DNA []. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria []. The DnaB protein is essential for both replication initiation and membrane attachment of the origin region of the chromosome and Plasmid pUB110 in Bacillus subtilis. It is known that there are two different classes (DnaBI and DnaBII) in the DnaB mutants; DnaBI is essential for both chromosome and pUB110 replication, whereas DnaBII is necessary only for chromosome replication []. This domain tends to be found towards the C terminus of DnaB and DnaD proteins and is alpha helical in nature.; PDB: 2I5U_A 2ZC2_A.
Probab=68.65 E-value=0.99 Score=29.31 Aligned_cols=62 Identities=10% Similarity=0.180 Sum_probs=34.4
Q ss_pred CccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHHH
Q 031969 72 DMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRERI 134 (150)
Q Consensus 72 d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l 134 (150)
.....+-+..++++.|++|+ ++..++-+-+.......=--+.-++.|..-|+.|+++..++.
T Consensus 14 s~~e~~~l~~~~~~~~~~~~-~v~~ai~~~~~~~~~~~~Yi~~Il~~W~~~gi~t~e~~~~~~ 75 (77)
T PF07261_consen 14 SPSEIEKLEKWIDDYGFSPE-VVNEAIEYALENNKRSFNYIEKILNNWKQKGIKTVEDAEEYE 75 (77)
T ss_dssp -HHHHHHHHHHHCCCHHHHH-HHHHHHHHHHHCT--SHHHHHHHHHHHHHCT--SCCCCT---
T ss_pred CHHHHHHHHHHHHHcCCCHH-HHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCCCHHHHHHHh
Confidence 35566677777777766665 555555554422222222245778889999999987766554
No 65
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=68.49 E-value=8.3 Score=32.16 Aligned_cols=37 Identities=27% Similarity=0.279 Sum_probs=31.9
Q ss_pred HHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhcc
Q 031969 11 KLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQ 47 (150)
Q Consensus 11 ~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~ 47 (150)
.++=.+++||++...|...|.+++|++-.||-..-..
T Consensus 234 a~~i~~~~~~~~~~~a~~~l~~~~~~vk~ai~~~~~~ 270 (296)
T PRK12570 234 AVRIVMQATGCSEDEAKELLKESDNDVKLAILMILTG 270 (296)
T ss_pred HHHHHHHHHCcCHHHHHHHHHHhCCccHHHHHHHHhC
Confidence 3455788899999999999999999999999877544
No 66
>PF07531 TAFH: NHR1 homology to TAF; InterPro: IPR003894 The TAF homology (TAFH) or Nervy homology region 1 (NHR1) domain is a domain of 95-100 amino acids present in eukaryotic proteins of the MTG/ETO family and whereof the core ~75-80 residues occur in TAF proteins. The transcription initiation TFIID complex is composed of TATA binding protein (TBP) and a number of TBP-associated factors (TAFs). The TAFH/NHR1 domain is named after fruit fly TATA-box-associated factor 110 (TAF110), human TAF105 and TAF130, and the fruit fly protein Nervy, which is a homologue of human MTG8/ETO [, ]. The human eight twenty-one (ETO or MTG8) and related myeloid transforming gene products MTGR1 and MTG16 as well as the Nervy protein contain the NHR1-4 domains. The NHR1/TAFH domain occurs in the N-terminal part of these proteins, while a MYND-type zinc finger forms the NHR4 domain []. The TAFH/NHR1 domain can be involved in protein-protein interactions, e.g in MTG8/ETO with HSP90 and Gfi-1 []. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2P6V_A 2KNH_A 2PP4_A 2H7B_A.
Probab=67.98 E-value=11 Score=26.71 Aligned_cols=64 Identities=19% Similarity=0.246 Sum_probs=44.1
Q ss_pred HHHHHHhhcCCCC---CcHHHHHHHHhhcccccccccHHHHHHHhHHc-CC----CCHHHHHHHHHHHHHHcCCCccc
Q 031969 78 GITLLCNDLQVDP---QDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL-GI----DSLDKFRERISFMRAELKDERTC 147 (150)
Q Consensus 78 G~~~~~edLgv~p---ed~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l-~~----dsi~~lk~~l~~l~~~l~~~~~F 147 (150)
-+++|..+ .++| +.|..||.+-. -|.|+-|||...++.. +- .=++=||+.||.|++++.+...|
T Consensus 12 tLi~las~-~~spev~~~Vr~LV~~L~-----~~~i~~EeF~~~Lq~~lns~pqP~lvPFLK~~lp~Lr~~l~~~~~~ 83 (96)
T PF07531_consen 12 TLIQLASD-KQSPEVGENVRELVQNLV-----DGKIEAEEFTSKLQEELNSSPQPYLVPFLKKSLPALRQELPNCARF 83 (96)
T ss_dssp HHHHHHCC-SC-CCHHHHHHHHHHHHH-----TTSS-HHHHHHHHHHHCTSS--TTHHHHHHHHHHHHHHCHCHHHHH
T ss_pred HHHHHhcC-CCChHHHHHHHHHHHHHH-----cCCCCHHHHHHHHHHHhcCCCCcchHHHHHHhHHHHHHHHHHHHHH
Confidence 35677777 4555 34556665543 3789999999999873 32 34889999999999998765544
No 67
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=67.79 E-value=14 Score=28.75 Aligned_cols=96 Identities=16% Similarity=0.133 Sum_probs=58.3
Q ss_pred CcchHHHHHHHHHHhCCCHHHHHHHHHhCCCC-chhhhhh-hhccCCCCCcCCHHHHHHHHHHhcCCCCC----------
Q 031969 5 SRSNRDKLQQFVSITGASEKAALQALKASDWH-LEGAFDV-FYSQPQSKSLTDTRHLEELYNRYKDPYLD---------- 72 (150)
Q Consensus 5 ~~~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~-le~Ai~~-f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d---------- 72 (150)
+...++....+.++-|.-++.|..+|+..+.+ +..|+.. -.+.-..-+...++..+++...+++...+
T Consensus 65 ~~~ek~~f~~L~~i~GIGpk~A~~il~~fg~~~l~~~i~~~d~~~L~~v~Gig~k~A~~I~~~l~~~~~~~~~~~~~~~~ 144 (192)
T PRK00116 65 TKEERELFRLLISVSGVGPKLALAILSGLSPEELVQAIANGDVKALTKVPGIGKKTAERIVLELKDKLAAAASAAAAAAA 144 (192)
T ss_pred CHHHHHHHHHHhcCCCCCHHHHHHHHHhCCHHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccccc
Confidence 44456667788899999999999999988752 2222222 11111112345677777777777643210
Q ss_pred -ccchHHHHHHHhhcCCCCCcHHHHHHHH
Q 031969 73 -MILVDGITLLCNDLQVDPQDIVMLVVSW 100 (150)
Q Consensus 73 -~I~~dG~~~~~edLgv~ped~~~LvLa~ 100 (150)
.-..+-++..+..||+++..+...+=.+
T Consensus 145 ~~~~~~ev~~aL~~LG~~~~~a~~~~~~~ 173 (192)
T PRK00116 145 ASSALEEAVSALVALGYKPKEASKAVAKI 173 (192)
T ss_pred ccchHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 0114667778888888887666555433
No 68
>PLN02223 phosphoinositide phospholipase C
Probab=66.88 E-value=16 Score=33.24 Aligned_cols=68 Identities=6% Similarity=-0.058 Sum_probs=42.2
Q ss_pred cCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhc-------CCCCCcHHHHHHHHhhc------ccccccccHHHHHHHh
Q 031969 53 LTDTRHLEELYNRYKDPYLDMILVDGITLLCNDL-------QVDPQDIVMLVVSWHMK------AATMCEFSKQEFIGGL 119 (150)
Q Consensus 53 ~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edL-------gv~ped~~~LvLa~~l~------a~~~g~~tr~eF~~g~ 119 (150)
...+..+..+|++|.+ +.+.|+++++.+|+.=| +...++...++=...-. ...-+.++.++|..-+
T Consensus 12 ~~~p~~v~~~f~~~~~-~~~~m~~~~l~~fl~~l~~~q~e~~~~~~~a~~i~~~~~~~~~~~~~~~~~~~l~~~~f~~~L 90 (537)
T PLN02223 12 ANQPDLILNFFGNEFH-GYDDDMPELLPRFIELLDTEKDEDGAGLNAAEKIAAELKRRKCDILAFRNLRCLELDHLNEFL 90 (537)
T ss_pred CCCcHHHHHHHHHhhc-CCCCCCHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHhhcccchhhhhccccCHHHHHHHh
Confidence 3467899999999975 34689999999999333 55555555544432111 0111336666666655
Q ss_pred HH
Q 031969 120 QS 121 (150)
Q Consensus 120 ~~ 121 (150)
..
T Consensus 91 ~s 92 (537)
T PLN02223 91 FS 92 (537)
T ss_pred cC
Confidence 44
No 69
>PF12763 EF-hand_4: Cytoskeletal-regulatory complex EF hand; PDB: 2QPT_A 2KSP_A 2KFG_A 2JQ6_A 2KFH_A 2KFF_A 1IQ3_A 3FIA_A 2KHN_A 2KGR_A ....
Probab=66.21 E-value=20 Score=25.36 Aligned_cols=64 Identities=9% Similarity=0.191 Sum_probs=49.1
Q ss_pred CHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhc-ccccccccHHHHHHHhHHc
Q 031969 55 DTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMK-AATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 55 ~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~-a~~~g~~tr~eF~~g~~~l 122 (150)
...+..++|+... +.+..|+.+....++..-|++.+.+. =-|-|- ...-|.++++||+-+|+=.
T Consensus 8 e~~~y~~~F~~l~-~~~g~isg~~a~~~f~~S~L~~~~L~---~IW~LaD~~~dG~L~~~EF~iAm~Li 72 (104)
T PF12763_consen 8 EKQKYDQIFQSLD-PQDGKISGDQAREFFMKSGLPRDVLA---QIWNLADIDNDGKLDFEEFAIAMHLI 72 (104)
T ss_dssp HHHHHHHHHHCTS-SSTTEEEHHHHHHHHHHTTSSHHHHH---HHHHHH-SSSSSEEEHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcC-CCCCeEeHHHHHHHHHHcCCCHHHHH---HHHhhhcCCCCCcCCHHHHHHHHHHH
Confidence 4567788998864 45578999999999999999876443 344444 4567999999999998864
No 70
>cd00252 SPARC_EC SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate cell-matrix interactions; binds to such proteins as collagen and vitronectin and binds to endothelial cells thus inhibiting cellular proliferation. The EC domain interacts with a follistatin-like (FS) domain which appears to stabilize Ca2+ binding. The two EF-hands interact canonically but their conserved disulfide bonds confer a tight association between the EF-hand pair and an acid/amphiphilic N-terminal helix. Proposed active form involves a Ca2+ dependent symmetric homodimerization of EC-FS modules.
Probab=63.67 E-value=50 Score=23.76 Aligned_cols=60 Identities=10% Similarity=0.058 Sum_probs=43.7
Q ss_pred CHHHHHHHHHHhcCCCC-CccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHh
Q 031969 55 DTRHLEELYNRYKDPYL-DMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGL 119 (150)
Q Consensus 55 ~~~~l~~lFd~Y~d~~~-d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~ 119 (150)
...+|.-.|.+| |.++ ..|+.+-+..++ +.|....+--+-..+-+..=|.||.+||..++
T Consensus 46 ~~~~l~w~F~~l-D~d~DG~Ls~~EL~~~~----l~~~e~~~~~f~~~~D~n~Dg~IS~~Ef~~cl 106 (116)
T cd00252 46 CKDPVGWMFNQL-DGNYDGKLSHHELAPIR----LDPNEHCIKPFFESCDLDKDGSISLDEWCYCF 106 (116)
T ss_pred HHHHHHHHHHHH-CCCCCCcCCHHHHHHHH----ccchHHHHHHHHHHHCCCCCCCCCHHHHHHHH
Confidence 456788899999 4444 589999998877 44433334445555667778999999999988
No 71
>cd00545 MCH Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5), N(10)-methenyltetrahydromethanopterin (methenyl-H4MPT+) from N(5)-formyltetrahydromethanopterin (formyl- H4MPT), in the third step of the reaction to reduce CO2 to CH4. The protein functions as a homodimer or homotrimer, depending on the organism.
Probab=62.81 E-value=1.5 Score=37.17 Aligned_cols=71 Identities=20% Similarity=0.389 Sum_probs=42.5
Q ss_pred HHHHHH--HhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHh--cCCC--------CCccchHH-HHHHHhhcCCCCC
Q 031969 25 AALQAL--KASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRY--KDPY--------LDMILVDG-ITLLCNDLQVDPQ 91 (150)
Q Consensus 25 ~A~~~L--~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y--~d~~--------~d~I~~dG-~~~~~edLgv~pe 91 (150)
-++.+| +..+|.|. .+.||.-.++.+..-..+=+.+|+++ +|.- .+.+-++- +.+..++.||+|+
T Consensus 83 P~iAcLgSQ~AGW~l~--~~~ffamGSGPaRAla~kpe~ly~~l~Y~D~~~~avl~lE~~~lP~~~v~~~vA~~cgv~p~ 160 (312)
T cd00545 83 PVIACLGSQYAGWSLS--VGDFFALGSGPARALALKPEELYEEIGYRDDAEVAVLVLESDKLPPEEVAEKVAAECGVDPE 160 (312)
T ss_pred HHHHHhcccccCcccc--cCCEeEecCchHHHhhcCcHHHHHHhCCccccceEEEEEecCCCCCHHHHHHHHHHcCCCHH
Confidence 344555 55999984 88999877663221111115677764 4531 23343444 4555699999999
Q ss_pred cHHHHH
Q 031969 92 DIVMLV 97 (150)
Q Consensus 92 d~~~Lv 97 (150)
++..|+
T Consensus 161 ~l~~lv 166 (312)
T cd00545 161 NVTLIV 166 (312)
T ss_pred HEEEEE
Confidence 987543
No 72
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=61.95 E-value=5.7 Score=24.59 Aligned_cols=37 Identities=14% Similarity=0.258 Sum_probs=20.7
Q ss_pred CCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHH
Q 031969 54 TDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIV 94 (150)
Q Consensus 54 ~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~ 94 (150)
.+...+.+++.. ....+..+-+.++|.-||++|+++.
T Consensus 22 is~~tl~~~~~~----~~~~~~~~~l~~ia~~l~~~~~el~ 58 (63)
T PF13443_consen 22 ISRSTLSRILNG----KPSNPSLDTLEKIAKALNCSPEELF 58 (63)
T ss_dssp --HHHHHHHHTT----T-----HHHHHHHHHHHT--HHHCT
T ss_pred cCHHHHHHHHhc----ccccccHHHHHHHHHHcCCCHHHHh
Confidence 344555555552 1246889999999999999998753
No 73
>PLN02964 phosphatidylserine decarboxylase
Probab=61.50 E-value=53 Score=30.66 Aligned_cols=58 Identities=14% Similarity=0.060 Sum_probs=31.6
Q ss_pred HHHHHhhcC-CCCCcHHH---HHHHHhhcccccccccHHHHHHHhHHcCC-CCHHHHHHHHHH
Q 031969 79 ITLLCNDLQ-VDPQDIVM---LVVSWHMKAATMCEFSKQEFIGGLQSLGI-DSLDKFRERISF 136 (150)
Q Consensus 79 ~~~~~edLg-v~ped~~~---LvLa~~l~a~~~g~~tr~eF~~g~~~l~~-dsi~~lk~~l~~ 136 (150)
+-..+..|| ++|++-.. --+-..+....-|.|+.+||+..+..++. .+-++++.....
T Consensus 161 Lg~ilrslG~~~pte~e~~fi~~mf~~~D~DgdG~IdfdEFl~lL~~lg~~~seEEL~eaFk~ 223 (644)
T PLN02964 161 VGSIFVSCSIEDPVETERSFARRILAIVDYDEDGQLSFSEFSDLIKAFGNLVAANKKEELFKA 223 (644)
T ss_pred HHHHHHHhCCCCCCHHHHHHHHHHHHHhCCCCCCeEcHHHHHHHHHHhccCCCHHHHHHHHHH
Confidence 555566777 46655542 12222234444577777777777776654 344444444433
No 74
>TIGR03120 one_C_mch methenyltetrahydromethanopterin cyclohydrolase. Members of this protein family are the enzyme methenyltetrahydromethanopterin cyclohydrolase, a key enzyme for tetrahydromethanopterin (H4MPT)-linked C1 transfer metabolism.
Probab=60.74 E-value=1.7 Score=36.82 Aligned_cols=71 Identities=15% Similarity=0.381 Sum_probs=42.5
Q ss_pred HHHHHH--HhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHh--cCCC--------CCccchHH-HHHHHhhcCCCCC
Q 031969 25 AALQAL--KASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRY--KDPY--------LDMILVDG-ITLLCNDLQVDPQ 91 (150)
Q Consensus 25 ~A~~~L--~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y--~d~~--------~d~I~~dG-~~~~~edLgv~pe 91 (150)
-++.+| +..+|.|. .+.||.-.++...+-..+=+.+|+++ +|.. .+.+-++- +.+..++.||+|+
T Consensus 83 P~iAcLgSQ~AGW~l~--~~~ffamGSGPaRAla~kpe~ly~~l~Y~d~~~~avl~lE~~~lP~~~v~~~vA~~cgv~p~ 160 (312)
T TIGR03120 83 PVIACLGSQKAGWQVK--VGKYFAMGSGPARALALKPKETYEEIGYEDDSDVAVIVLESDKLPDEEVAEYIADECGVDPE 160 (312)
T ss_pred HHHHHhhccccCcccc--cCCEeEecCchHHHhhcCcHHHHHHhCCcccCceEEEEEecCCCCCHHHHHHHHHHcCCCHH
Confidence 344555 55999994 89999887663221111115677764 4531 23344444 4555699999999
Q ss_pred cHHHHH
Q 031969 92 DIVMLV 97 (150)
Q Consensus 92 d~~~Lv 97 (150)
++..|+
T Consensus 161 ~l~~lv 166 (312)
T TIGR03120 161 NLTLLV 166 (312)
T ss_pred HEEEEE
Confidence 987543
No 75
>PF05674 DUF816: Baculovirus protein of unknown function (DUF816); InterPro: IPR008534 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf106. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family includes proteins that are about 200 amino acids in length. The proteins are all from baculoviruses. This family includes ORF107 from Orgyia pseudotsugata multicapsid polyhedrosis virus (OpMNPV) and a variety of other numbered ORF proteins, such as ORF52 Q91F03 from SWISSPROT, ORF140 Q9YMI8 from SWISSPROT from other baculoviruses. The function of these proteins is unknown.
Probab=60.37 E-value=62 Score=25.11 Aligned_cols=90 Identities=16% Similarity=0.248 Sum_probs=59.0
Q ss_pred chhhhhhhhccCCCCCcCCHHHHHHHHHHhc--CCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhccccc-cccc--
Q 031969 37 LEGAFDVFYSQPQSKSLTDTRHLEELYNRYK--DPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATM-CEFS-- 111 (150)
Q Consensus 37 le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~--d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~-g~~t-- 111 (150)
+..|.+.||++|+. .+-..|.+||.+=+ +. .| .+.-=+..++.+|.++.-..- ..|.
T Consensus 34 ik~A~~ey~~~Pt~---~Ny~~iKkLf~qtkYvdd---sI------------dyKnfnRr~~lIa~k~~lnk~k~~f~~y 95 (171)
T PF05674_consen 34 IKTARDEYFENPTD---KNYENIKKLFSQTKYVDD---SI------------DYKNFNRRILLIAFKFILNKSKDYFPNY 95 (171)
T ss_pred HHHHHHHHhcCCCh---hhHHHHHHHHHHhhhhhc---ch------------hhhhhhhHHHHHHHHHHHhhhhHhhhhh
Confidence 36799999999864 46688999998743 42 12 222233567888888876543 4454
Q ss_pred HHHHHHHhHHcCC------CCHHHHHHHHHHHHHHcCCC
Q 031969 112 KQEFIGGLQSLGI------DSLDKFRERISFMRAELKDE 144 (150)
Q Consensus 112 r~eF~~g~~~l~~------dsi~~lk~~l~~l~~~l~~~ 144 (150)
|.=+...+++|.- +|...|=++-.++-+++.+|
T Consensus 96 k~~~e~alkrL~~inpdlksSP~amLqhYnecle~ld~p 134 (171)
T PF05674_consen 96 KSFIETALKRLDKINPDLKSSPRAMLQHYNECLENLDNP 134 (171)
T ss_pred HHHHHHHHHHHhcCCCccccCHHHHHHHHHHHHHhccCC
Confidence 4444555666633 67888888777777788655
No 76
>PHA01083 hypothetical protein
Probab=59.63 E-value=14 Score=28.16 Aligned_cols=52 Identities=12% Similarity=0.131 Sum_probs=42.2
Q ss_pred ccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHc---CCCCHH
Q 031969 73 MILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL---GIDSLD 128 (150)
Q Consensus 73 ~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l---~~dsi~ 128 (150)
.|+-+=+.++++-+|+||+.+...+.+.+-+.|.. |.-|.+-++++ |..+|+
T Consensus 43 ~i~de~A~~LAe~aGiDp~eall~i~aDraetp~~----kalWesIaKKlnglgl~~is 97 (149)
T PHA01083 43 YISDEEAIFLAESAGIDPEIALLGCHADRNENPRA----KAIWESIAKKQNGLGLRTIS 97 (149)
T ss_pred CCCHHHHHHHHHHhCCCHHHHHHHHHHHhcCCHHH----HHHHHHHHHHHhccchhHHH
Confidence 57778899999999999999999999999988887 67777766664 544444
No 77
>KOG0028 consensus Ca2+-binding protein (centrin/caltractin), EF-Hand superfamily protein [Cytoskeleton; Cell cycle control, cell division, chromosome partitioning]
Probab=57.54 E-value=90 Score=24.33 Aligned_cols=78 Identities=12% Similarity=0.241 Sum_probs=58.6
Q ss_pred HHHHHHHHHhcCCCC-CccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHc--CCCCHHHHHHH
Q 031969 57 RHLEELYNRYKDPYL-DMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL--GIDSLDKFRER 133 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~~-d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l--~~dsi~~lk~~ 133 (150)
.++..-|+-+- ++. +.|+.+++--=.-.||.+|..-.++-|.--+.....|.|+-++|+.-|... .-||.+.++..
T Consensus 33 q~i~e~f~lfd-~~~~g~iD~~EL~vAmralGFE~~k~ei~kll~d~dk~~~g~i~fe~f~~~mt~k~~e~dt~eEi~~a 111 (172)
T KOG0028|consen 33 QEIKEAFELFD-PDMAGKIDVEELKVAMRALGFEPKKEEILKLLADVDKEGSGKITFEDFRRVMTVKLGERDTKEEIKKA 111 (172)
T ss_pred hhHHHHHHhhc-cCCCCcccHHHHHHHHHHcCCCcchHHHHHHHHhhhhccCceechHHHHHHHHHHHhccCcHHHHHHH
Confidence 44555555544 444 799999997677789999998888877777777778999999999987662 23687777776
Q ss_pred HH
Q 031969 134 IS 135 (150)
Q Consensus 134 l~ 135 (150)
+.
T Consensus 112 fr 113 (172)
T KOG0028|consen 112 FR 113 (172)
T ss_pred HH
Confidence 65
No 78
>smart00222 Sec7 Sec7 domain. Domain named after the S. cerevisiae SEC7 gene product, which is required for proper protein transport through the Golgi. The domain facilitates guanine nucleotide exchange on the small GTPases, ARFs (ADP ribosylation factors).
Probab=56.78 E-value=89 Score=24.06 Aligned_cols=115 Identities=13% Similarity=0.177 Sum_probs=62.9
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCc---hhhhhhhhccCCC-----------C-------------------CcCC
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHL---EGAFDVFYSQPQS-----------K-------------------SLTD 55 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~l---e~Ai~~f~~~~~~-----------~-------------------~~~~ 55 (150)
+..+.+++...+-++..+..||.+++--- ...|..|+....+ . ...-
T Consensus 3 k~~~~~~~~~Fn~~p~~gi~~l~~~~~~~~~~~~~ia~fl~~~~~l~k~~ig~~l~~~~~~~~~vL~~y~~~f~f~~~~i 82 (187)
T smart00222 3 KKLLSEGSVKFNDKPKKGIDSLQEKGFLAKDDPQDVADFLSKNEGLNKKAIGDYLGEHDEFNRLVLHAFVDLFDFSAKDL 82 (187)
T ss_pred hHHHHHHHHHHccCHHHHHHHHHHcCCCCCCCHHHHHHHHHhCCCCCHHHHHHHHcCCChHHHHHHHHHHHhcCcCCCcH
Confidence 45677778888888888888888876322 3445555533211 0 0111
Q ss_pred HHHHHHHHHHhcCCCC----CccchHHHHHHHhh---cCC--CCCcHHHHHHHHh-----hccccc-ccccHHHHHHHhH
Q 031969 56 TRHLEELYNRYKDPYL----DMILVDGITLLCND---LQV--DPQDIVMLVVSWH-----MKAATM-CEFSKQEFIGGLQ 120 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~----d~I~~dG~~~~~ed---Lgv--~ped~~~LvLa~~-----l~a~~~-g~~tr~eF~~g~~ 120 (150)
...|..++.+++=|.+ |+|-..=..+||++ ... +++.+-+|+-|.+ ++.+.+ ...|+++|++..+
T Consensus 83 ~~ALR~~l~~f~lpgE~q~Idrile~Fs~~y~~~N~~~~~~~~~d~~y~l~~s~lmLnTdlhn~~~k~kmt~~~Fi~~~~ 162 (187)
T smart00222 83 DQALREFLESFRLPGEAQKIDRLLEAFSSRYCECNPSVFSKLNADAAYTLAYSLIMLNTDLHNPNVKKKMTLEDFIKNVR 162 (187)
T ss_pred HHHHHHHHHhCcCCchHHHHHHHHHHHHHHHHHHCCCccCCCChhHHHHHHHHHHHHhHHhcCCccCCCCCHHHHHHHHh
Confidence 3344444444443322 22222233345542 333 5666666665554 345554 6789999999888
Q ss_pred HcC
Q 031969 121 SLG 123 (150)
Q Consensus 121 ~l~ 123 (150)
..+
T Consensus 163 ~~~ 165 (187)
T smart00222 163 GSN 165 (187)
T ss_pred ccC
Confidence 753
No 79
>PF01314 AFOR_C: Aldehyde ferredoxin oxidoreductase, domains 2 & 3; InterPro: IPR001203 Enzymes of the aldehyde ferredoxin oxidoreductase (AOR) family [] contain a tungsten cofactor and an 4Fe4S cluster and catalyse the interconversion of aldehydes to carboxylates []. This family includes AOR, formaldehyde ferredoxin oxidoreductase (FOR), glyceraldehyde-3-phosphate ferredoxin oxidoreductase (GAPOR), all isolated from hyperthermophilic archea []; carboxylic acid reductase found in clostridia []; and hydroxycarboxylate viologen oxidoreductase from Proteus vulgaris, the sole member of the AOR family containing molybdenum []. GAPOR may be involved in glycolysis [], but the functions of the other proteins are not yet clear. AOR has been proposed to be the primary enzyme responsible for oxidising the aldehydes that are produced by the 2-keto acid oxidoreductases []. This entry represents the C-terminal region of these enzymes, containing the alpha-helical structural domains 2 and 3 [, ].; GO: 0009055 electron carrier activity, 0016491 oxidoreductase activity, 0016625 oxidoreductase activity, acting on the aldehyde or oxo group of donors, iron-sulfur protein as acceptor, 0051536 iron-sulfur cluster binding, 0055114 oxidation-reduction process; PDB: 1B25_C 1B4N_C 1AOR_B.
Probab=56.65 E-value=6.8 Score=33.74 Aligned_cols=56 Identities=16% Similarity=0.210 Sum_probs=37.4
Q ss_pred HHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHHHHHH
Q 031969 79 ITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRERISFM 137 (150)
Q Consensus 79 ~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l~~l 137 (150)
+..+|.++|+|.-+.-. +|||.+.+-.-|.|++++. +...+.--+.+.+...|..+
T Consensus 116 ~~~lcd~~GlDtis~G~-~ia~~me~~e~G~i~~~d~--~g~~l~~Gd~e~~~~ll~~I 171 (382)
T PF01314_consen 116 ANDLCDDYGLDTISAGN-TIAWAMELYEKGLITKEDT--DGLELRWGDPEAVLELLEKI 171 (382)
T ss_dssp HHHHHHHHTB-HHHHHH-HHHHHHHHHHTTSSSCHHH--TS-S--TT-CHHHHHHHHHH
T ss_pred HHHHHHHhCCcHHHHHH-HHHHHHHHHHCCCCChhhc--CCCCCCCCCHHHHHHHHHHH
Confidence 45689999999866654 8999999999999999888 22233344555555555443
No 80
>cd00171 Sec7 Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor activity.
Probab=56.65 E-value=90 Score=24.06 Aligned_cols=68 Identities=16% Similarity=0.247 Sum_probs=40.4
Q ss_pred HHHHHHHHHHhcCCCC----CccchHHHHHHHhh---cCC-CCCcHHHHHHHHhh-----ccccc-ccccHHHHHHHhHH
Q 031969 56 TRHLEELYNRYKDPYL----DMILVDGITLLCND---LQV-DPQDIVMLVVSWHM-----KAATM-CEFSKQEFIGGLQS 121 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~----d~I~~dG~~~~~ed---Lgv-~ped~~~LvLa~~l-----~a~~~-g~~tr~eF~~g~~~ 121 (150)
...|..++.+++=|.+ |+|-..=..+||++ ... +++.+-+|+.|.+| +.+.+ ..+|+++|++..+.
T Consensus 82 ~~ALR~~l~~f~lpgE~Q~Idrile~Fs~~y~~~Np~~~~~~~d~v~~l~~sllmLnTdlHn~~~~~kmt~~~Fi~~~~~ 161 (185)
T cd00171 82 DEALRKFLQSFRLPGEAQKIDRLLEKFSERYCECNPGIFSSSADAAYTLAYSIIMLNTDLHNPNVKKKMTLEDFIKNLRG 161 (185)
T ss_pred HHHHHHHHHhccCCchHHHHHHHHHHHHHHHHHHCCCCCCCChhHHHHHHHHHHHHhHHhcCcccCCCCCHHHHHHHHhc
Confidence 4555555555554432 23333334455542 333 67777777777754 55554 57899999998876
Q ss_pred cC
Q 031969 122 LG 123 (150)
Q Consensus 122 l~ 123 (150)
..
T Consensus 162 ~~ 163 (185)
T cd00171 162 IN 163 (185)
T ss_pred cc
Confidence 43
No 81
>KOG0030 consensus Myosin essential light chain, EF-Hand protein superfamily [Cytoskeleton]
Probab=56.43 E-value=58 Score=24.86 Aligned_cols=89 Identities=15% Similarity=0.148 Sum_probs=58.7
Q ss_pred HHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccc---------------------cccccHHH
Q 031969 56 TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAAT---------------------MCEFSKQE 114 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~---------------------~g~~tr~e 114 (150)
..++.++|+=|-...+.+|+..-.-.-+-.||.+|.+..++-..-...+.. -...|-++
T Consensus 10 ~~e~ke~F~lfD~~gD~ki~~~q~gdvlRalG~nPT~aeV~k~l~~~~~~~~~~~rl~FE~fLpm~q~vaknk~q~t~ed 89 (152)
T KOG0030|consen 10 MEEFKEAFLLFDRTGDGKISGSQVGDVLRALGQNPTNAEVLKVLGQPKRREMNVKRLDFEEFLPMYQQVAKNKDQGTYED 89 (152)
T ss_pred HHHHHHHHHHHhccCcccccHHHHHHHHHHhcCCCcHHHHHHHHcCcccchhhhhhhhHHHHHHHHHHHHhccccCcHHH
Confidence 356666776665544468999999999999999998877655444444431 23355667
Q ss_pred HHHHhHHcCC-----CCHHHHHHHHHHHHHHcCCC
Q 031969 115 FIGGLQSLGI-----DSLDKFRERISFMRAELKDE 144 (150)
Q Consensus 115 F~~g~~~l~~-----dsi~~lk~~l~~l~~~l~~~ 144 (150)
|++|++-..- =.-..||..|-+|-.+|.+.
T Consensus 90 fvegLrvFDkeg~G~i~~aeLRhvLttlGekl~ee 124 (152)
T KOG0030|consen 90 FVEGLRVFDKEGNGTIMGAELRHVLTTLGEKLTEE 124 (152)
T ss_pred HHHHHHhhcccCCcceeHHHHHHHHHHHHhhccHH
Confidence 7777665422 13567888888877777543
No 82
>PLN02230 phosphoinositide phospholipase C 4
Probab=55.93 E-value=39 Score=31.24 Aligned_cols=68 Identities=13% Similarity=0.094 Sum_probs=45.1
Q ss_pred cCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCC-----CCCcHHHHHHHHhhcc-----cccccccHHHHHHHhHH
Q 031969 53 LTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQV-----DPQDIVMLVVSWHMKA-----ATMCEFSKQEFIGGLQS 121 (150)
Q Consensus 53 ~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv-----~ped~~~LvLa~~l~a-----~~~g~~tr~eF~~g~~~ 121 (150)
...+..+..||.+|.+.. +.|+.+++.+|+.+-.= ++++..-++.-..-.- ...+.++.++|..-+..
T Consensus 25 ~~p~~ei~~lf~~~s~~~-~~mt~~~l~~FL~~~Q~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~F~~yL~s 102 (598)
T PLN02230 25 SGPVADVRDLFEKYADGD-AHMSPEQLQKLMAEEGGGEGETSLEEAERIVDEVLRRKHHIAKFTRRNLTLDDFNYYLFS 102 (598)
T ss_pred CCCcHHHHHHHHHHhCCC-CccCHHHHHHHHHHhCCCcccCCHHHHHHHHHHHHhhccccccccccccCHHHHHHHHcC
Confidence 446789999999998643 69999999999987662 2333344443221111 12345899999887655
No 83
>smart00862 Trans_reg_C Transcriptional regulatory protein, C terminal. This domain is almost always found associated with the response regulator receiver domain. It may play a role in DNA binding.
Probab=55.16 E-value=31 Score=21.72 Aligned_cols=52 Identities=13% Similarity=0.131 Sum_probs=38.0
Q ss_pred CcHHHHHHHHhhcccccccccHHHHHHH-hHHcC-CCCHHHHHHHHHHHHHHcCC
Q 031969 91 QDIVMLVVSWHMKAATMCEFSKQEFIGG-LQSLG-IDSLDKFRERISFMRAELKD 143 (150)
Q Consensus 91 ed~~~LvLa~~l~a~~~g~~tr~eF~~g-~~~l~-~dsi~~lk~~l~~l~~~l~~ 143 (150)
..-..-+|+.++..+.. .+|+++..+- |..-. ..+...++.+|..||+.|.+
T Consensus 7 t~~e~~lL~~L~~~~~~-~vs~~~l~~~lw~~~~~~~~~~~l~~~i~~LR~~l~~ 60 (78)
T smart00862 7 TPKEFRLLELLLRNPGR-VVSREELLEAVWGDDDDDVDDNTLDVHISRLRKKLED 60 (78)
T ss_pred CHHHHHHHHHHHhCCCC-ccCHHHHHHHHcCCCCCCCccchHHHHHHHHHHHHhc
Confidence 33445577888877655 7999999986 54432 34667899999999999954
No 84
>KOG4199 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.08 E-value=45 Score=29.27 Aligned_cols=105 Identities=17% Similarity=0.302 Sum_probs=71.1
Q ss_pred HHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcC--
Q 031969 10 DKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQ-- 87 (150)
Q Consensus 10 ~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLg-- 87 (150)
+.+++|+. .|....|.++|..-+..+..-+-..-...++.-++-.+.|+.| ++.-+..||-.+.+|+.-...-|.
T Consensus 81 ~ll~~l~d--~ck~~~A~r~la~~~ga~~~~it~~~la~~~~~~~l~ksL~al-~~lt~~qpdl~da~g~~vvv~lL~~~ 157 (461)
T KOG4199|consen 81 ELLEQLAD--ECKKSLAHRVLAGKNGAHDALITLLELAESPNESVLKKSLEAI-NSLTHKQPDLFDAEAMAVVLKLLALK 157 (461)
T ss_pred HHHHHHHH--HHhhhHHHHHHhccCCCcchhhhHHHHhhCCchhHHHHHHHHH-HHhhcCCcchhccccHHHHHHHHhcc
Confidence 45667763 5556678888888887776666555422222112223333333 233344678888899888887555
Q ss_pred CCCCcHHHHHHHHhhcccccccccHHHHHH
Q 031969 88 VDPQDIVMLVVSWHMKAATMCEFSKQEFIG 117 (150)
Q Consensus 88 v~ped~~~LvLa~~l~a~~~g~~tr~eF~~ 117 (150)
++-+|+..+.|+|.-+|-.|-+..|..|++
T Consensus 158 ~~~~dlt~~~~~~v~~Ac~~hE~nrQ~~m~ 187 (461)
T KOG4199|consen 158 VESEEVTLLTLQWLQKACIMHEVNRQLFME 187 (461)
T ss_pred cchHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 455789999999999999999999999986
No 85
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=53.96 E-value=40 Score=26.36 Aligned_cols=91 Identities=20% Similarity=0.204 Sum_probs=53.8
Q ss_pred CCcchHHHHHHHHHHhCCCHHHHHHHHHhCCC-Cchhhhhh----hhccCCC-CCcCCHHHHHHHHHHhcCCC---C---
Q 031969 4 LSRSNRDKLQQFVSITGASEKAALQALKASDW-HLEGAFDV----FYSQPQS-KSLTDTRHLEELYNRYKDPY---L--- 71 (150)
Q Consensus 4 l~~~~~~~i~~F~~iT~~~~~~A~~~L~~~~w-~le~Ai~~----f~~~~~~-~~~~~~~~l~~lFd~Y~d~~---~--- 71 (150)
++..+++....++++.|.-++.|..+|...+. +|..|+.+ ....-++ +..+-.+-+.+|-+++.... .
T Consensus 63 ~~~~Er~lF~~L~~V~GIGpK~Al~iL~~~~~~el~~aI~~~d~~~L~~ipGiGkKtAerIileLk~k~~~~~~~~~~~~ 142 (191)
T TIGR00084 63 NTLEERELFKELIKVNGVGPKLALAILSNMSPEEFVYAIETEEVKALVKIPGVGKKTAERLLLELKGKLKGNKNLEMFTP 142 (191)
T ss_pred CCHHHHHHHHHHhCCCCCCHHHHHHHHhcCCHHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHhhhccccccccccc
Confidence 56788899999999999999999999997665 56666653 2222111 11112233344555553210 0
Q ss_pred -CccchHHHHHHHhhcCCCCCcHHH
Q 031969 72 -DMILVDGITLLCNDLQVDPQDIVM 95 (150)
Q Consensus 72 -d~I~~dG~~~~~edLgv~ped~~~ 95 (150)
..+ .+-+..-+..||+++.++.-
T Consensus 143 ~~~~-~~e~~~aL~~LGy~~~e~~~ 166 (191)
T TIGR00084 143 TEAA-RDELFEALVSLGYKPQEIQQ 166 (191)
T ss_pred ccch-HHHHHHHHHHcCCCHHHHHH
Confidence 011 23455566677887766553
No 86
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=51.91 E-value=27 Score=29.36 Aligned_cols=38 Identities=16% Similarity=0.158 Sum_probs=33.5
Q ss_pred HHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccC
Q 031969 11 KLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQP 48 (150)
Q Consensus 11 ~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~ 48 (150)
.++-.+++||++.+.|.++|++++.++-.||-.....-
T Consensus 236 a~RIv~~aT~~~~~~A~~~L~~~~~~vK~AIvm~~~~~ 273 (298)
T COG2103 236 AVRIVMEATGCSAEEAEALLEEAGGNVKLAIVMLLTGL 273 (298)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHcCCccHhHHHHHHhCC
Confidence 46678899999999999999999999999998887554
No 87
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=51.63 E-value=10 Score=27.72 Aligned_cols=34 Identities=24% Similarity=0.447 Sum_probs=22.7
Q ss_pred HHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhh
Q 031969 12 LQQFVSITGASEKAALQALKASDWHLEGAFDVFY 45 (150)
Q Consensus 12 i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~ 45 (150)
+..+.++.|.+++.+..+.++.||.++.+...|-
T Consensus 100 ~~~la~~Lg~~~~el~~~~~~~gW~~d~~~~~~~ 133 (143)
T PF10075_consen 100 LSDLAEMLGLSEEELEKFIKSRGWTVDGDGVLFP 133 (143)
T ss_dssp HHHHHHHTTS-HHHHHHHHHHHT-EE-----EE-
T ss_pred HHHHHHHhCCCHHHHHHHHHHcCCEECCCccEEe
Confidence 4677888999999999999999999987666554
No 88
>KOG4380 consensus Carnitine deficiency associated protein [General function prediction only]
Probab=51.40 E-value=45 Score=26.76 Aligned_cols=71 Identities=17% Similarity=0.110 Sum_probs=40.5
Q ss_pred hCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCC-CC----Cc---cchHHHHHHHhhcCCCC
Q 031969 19 TGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDP-YL----DM---ILVDGITLLCNDLQVDP 90 (150)
Q Consensus 19 T~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~-~~----d~---I~~dG~~~~~edLgv~p 90 (150)
.|++...|+.| -|..||..-|++..++..--...-++.-+.-.+. +| |. ==.+|.+.+|.=|||+.
T Consensus 72 ~~~~R~~AID~------~L~~AV~~~Y~~~~~~~~~~~~~~~K~~~~~~~~~~PL~~LD~~~P~F~~~~~AL~~iL~I~~ 145 (244)
T KOG4380|consen 72 KIQDRQEAIDW------LLGLAVRLEYGDNAEKYKDLVPDNSKTADNATKNAEPLINLDVNNPDFKAGVMALANLLQIQR 145 (244)
T ss_pred ccccHHHHHHH------HHHHHHHHHHHhcccchhhhhhhhHHHHHhhhcccCchhhcCCCCccHHHHHHHHHHHhcccc
Confidence 56677777765 4788999999775442211112222233332222 11 11 11479999999999994
Q ss_pred -CcHHH
Q 031969 91 -QDIVM 95 (150)
Q Consensus 91 -ed~~~ 95 (150)
.|+.+
T Consensus 146 H~D~~V 151 (244)
T KOG4380|consen 146 HDDYLV 151 (244)
T ss_pred CCCHHH
Confidence 44443
No 89
>PF11860 DUF3380: Protein of unknown function (DUF3380); InterPro: IPR024408 Proteins in this entry including lysozyme from Enterobacteria phage PRD1 [, ].
Probab=49.72 E-value=43 Score=26.04 Aligned_cols=57 Identities=32% Similarity=0.497 Sum_probs=43.1
Q ss_pred chHHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhc
Q 031969 7 SNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYK 67 (150)
Q Consensus 7 ~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~ 67 (150)
+..+.|.-|+.+.-.+.. -...|+.++| .++...|+.|.-+...++.+|.+-|++|.
T Consensus 119 se~~Ql~af~~Fi~~~~~-L~~aLr~~dW---~~fAr~YNGp~y~~n~Yd~kl~~ay~~~~ 175 (175)
T PF11860_consen 119 SEAAQLDAFVRFIKANPA-LLKALRAKDW---AAFARGYNGPGYAKNQYDTKLARAYARFS 175 (175)
T ss_pred CHHHHHHHHHHHHHcCHH-HHHHHHhCCH---HHHHHHcCCchhhhccHHHHHHHHHHhcC
Confidence 345567777777666543 3567899999 78999998886555578999999999984
No 90
>PF03793 PASTA: PASTA domain; InterPro: IPR005543 The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBP) and bacterial serine/threonine kinases. It binds the beta-lactam stem, which implicates it in sensing D-alanyl-D-alanine - the PBP transpeptidase substrate. In PknB of Mycobacterium tuberculosis (P71584 from SWISSPROT), all of the extracellular portion is predicted to be made up of four PASTA domains, which strongly suggests that it is a signal-binding sensor domain. The domain has also been found in proteins involved in cell wall biosynthesis, where it is implicated in localizing the biosynthesis complex to unlinked peptidoglycan. PASTA is a small globular fold consisting of 3 beta-sheets and an alpha-helix, with a loop region of variable length between the first and second beta-strands. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain [].; GO: 0008658 penicillin binding; PDB: 2ZC3_C 1QME_A 1RP5_B 2Z2M_C 2Z2L_F 2ZC4_C 1QMF_A 3M9G_A 3PY9_A 1K25_B ....
Probab=48.47 E-value=12 Score=23.20 Aligned_cols=22 Identities=18% Similarity=0.285 Sum_probs=18.2
Q ss_pred HHhCCCHHHHHHHHHhCCCCch
Q 031969 17 SITGASEKAALQALKASDWHLE 38 (150)
Q Consensus 17 ~iT~~~~~~A~~~L~~~~w~le 38 (150)
+++|.+...|...|++++|+++
T Consensus 5 d~~g~~~~~a~~~l~~~g~~~~ 26 (63)
T PF03793_consen 5 DLVGMTYDEAKSILEAAGLTVN 26 (63)
T ss_dssp TTTTSBHHHHHHHHHHTT-EEE
T ss_pred CcCCCcHHHHHHHHHHCCCEEE
Confidence 4689999999999999999553
No 91
>PRK10391 oriC-binding nucleoid-associated protein; Provisional
Probab=46.96 E-value=32 Score=23.00 Aligned_cols=32 Identities=19% Similarity=0.416 Sum_probs=27.3
Q ss_pred cHHHHHHHhHHcCCCCHHHHHHHHHHHHHHcCCC
Q 031969 111 SKQEFIGGLQSLGIDSLDKFRERISFMRAELKDE 144 (150)
Q Consensus 111 tr~eF~~g~~~l~~dsi~~lk~~l~~l~~~l~~~ 144 (150)
|+.+|+--+++ |.|++.|-+.+..++..|+++
T Consensus 2 tk~eyLlkfRk--css~eTLEkv~e~~~y~L~~~ 33 (71)
T PRK10391 2 TVQDYLLKFRK--ISSLESLEKLFDHLNYTLTDD 33 (71)
T ss_pred cHHHHHHHHHh--cCcHHHHHHHHHHhhcccCCH
Confidence 67888876665 999999999999999999873
No 92
>PRK13749 transcriptional regulator MerD; Provisional
Probab=45.73 E-value=1.2e+02 Score=22.12 Aligned_cols=106 Identities=12% Similarity=0.050 Sum_probs=55.2
Q ss_pred HHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCC
Q 031969 11 KLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDP 90 (150)
Q Consensus 11 ~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~p 90 (150)
.|.++...||+|..+=+.|=+ .|- |. .-..+.++...-+++. +.-=..++.|.++|+++
T Consensus 5 tIgelA~~~gvS~~tiR~YE~-~GL-l~----p~~r~~~gyR~Y~~~~---------------l~rL~~I~~~r~~G~sL 63 (121)
T PRK13749 5 TVSRLALDAGVSVHIVRDYLL-RGL-LR----PVACTTGGYGLFDDAA---------------LQRLCFVRAAFEAGIGL 63 (121)
T ss_pred cHHHHHHHHCCCHHHHHHHHH-CCC-CC----CCCcCCCCCccCCHHH---------------HHHHHHHHHHHHcCCCH
Confidence 388999999999887655543 331 10 0001111111111222 22226788889999999
Q ss_pred CcHHHHHHHHhhcccccccccHHHHHHHhHH---cCCCCHHHHHHHHHHHHHHc
Q 031969 91 QDIVMLVVSWHMKAATMCEFSKQEFIGGLQS---LGIDSLDKFRERISFMRAEL 141 (150)
Q Consensus 91 ed~~~LvLa~~l~a~~~g~~tr~eF~~g~~~---l~~dsi~~lk~~l~~l~~~l 141 (150)
+++..|.=++-- +.-.. .......+.. -....+..|+..|..|..+-
T Consensus 64 ~eI~~ll~l~~~--~~~~~--~~~~~~~~~~~v~~~i~~L~~l~~~L~~l~~~~ 113 (121)
T PRK13749 64 DALARLCRALDA--ADGDE--AAAQLAVLRQLVERRREALADLEVQLATMPTEP 113 (121)
T ss_pred HHHHHHHhhhcC--CCcch--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999887776633 22211 1222333333 13344555555555555543
No 93
>KOG0028 consensus Ca2+-binding protein (centrin/caltractin), EF-Hand superfamily protein [Cytoskeleton; Cell cycle control, cell division, chromosome partitioning]
Probab=45.62 E-value=1.3e+02 Score=23.50 Aligned_cols=67 Identities=12% Similarity=0.174 Sum_probs=52.1
Q ss_pred CHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHH
Q 031969 55 DTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQS 121 (150)
Q Consensus 55 ~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~ 121 (150)
+...|...|.-+.+.....|.+.-+-+....||=+..|-..--.-.-..--.-|+++.++|+.-|+.
T Consensus 104 t~eEi~~afrl~D~D~~Gkis~~~lkrvakeLgenltD~El~eMIeEAd~d~dgevneeEF~~imk~ 170 (172)
T KOG0028|consen 104 TKEEIKKAFRLFDDDKTGKISQRNLKRVAKELGENLTDEELMEMIEEADRDGDGEVNEEEFIRIMKK 170 (172)
T ss_pred cHHHHHHHHHcccccCCCCcCHHHHHHHHHHhCccccHHHHHHHHHHhcccccccccHHHHHHHHhc
Confidence 4566667777666654569999999999999999998877666656555566799999999988764
No 94
>PF04361 DUF494: Protein of unknown function (DUF494); InterPro: IPR007456 Members of this family of uncharacterised proteins are often named Smg.
Probab=45.62 E-value=20 Score=27.23 Aligned_cols=36 Identities=19% Similarity=0.117 Sum_probs=30.7
Q ss_pred HHHHHHHhcCCCC-CccchHHHHHHHhhcCCCCCcHH
Q 031969 59 LEELYNRYKDPYL-DMILVDGITLLCNDLQVDPQDIV 94 (150)
Q Consensus 59 l~~lFd~Y~d~~~-d~I~~dG~~~~~edLgv~ped~~ 94 (150)
|.=||++|.+++. ...+.+-+.+.+.+.|.+.+++-
T Consensus 5 L~yLfE~y~~~~~~~~~d~~~L~~~L~~aGF~~~eI~ 41 (155)
T PF04361_consen 5 LMYLFENYIDFESDACPDQDDLTRELSAAGFEDEEIN 41 (155)
T ss_pred HHHHHHHHcCCccccCCCHHHHHHHHHHcCCCHHHHH
Confidence 4558999999754 46899999999999999998876
No 95
>PRK10945 gene expression modulator; Provisional
Probab=45.47 E-value=21 Score=24.00 Aligned_cols=34 Identities=21% Similarity=0.418 Sum_probs=29.0
Q ss_pred ccHHHHHHHhHHcCCCCHHHHHHHHHHHHHHcCCCc
Q 031969 110 FSKQEFIGGLQSLGIDSLDKFRERISFMRAELKDER 145 (150)
Q Consensus 110 ~tr~eF~~g~~~l~~dsi~~lk~~l~~l~~~l~~~~ 145 (150)
.|+.+|+--+.+ |.|++.|-+.+..++..|.+++
T Consensus 6 Mtk~dyL~~fRr--css~eTLEkvie~~~~~L~~~E 39 (72)
T PRK10945 6 LTKTDYLMRLRR--CQTIDTLERVIEKNKYELSDDE 39 (72)
T ss_pred ccHHHHHHHHHh--cCcHHHHHHHHHHhhccCCHHH
Confidence 389999987776 9999999999999999987653
No 96
>PLN02222 phosphoinositide phospholipase C 2
Probab=45.15 E-value=52 Score=30.32 Aligned_cols=65 Identities=15% Similarity=0.212 Sum_probs=43.8
Q ss_pred CHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCC----CCcHHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 55 DTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVD----PQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 55 ~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~----ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
.+..|..+|.+|.+ .+.|+.+.+.+|+.+-.=+ +++...|+=.+ -....-+.++.++|..-+..-
T Consensus 23 ~~~ei~~if~~~~~--~~~mt~~~l~~FL~~~Q~~~~~~~~~~~~ii~~~-~~~~~~~~~~~~gF~~yL~s~ 91 (581)
T PLN02222 23 APREIKTIFEKYSE--NGVMTVDHLHRFLIDVQKQDKATREDAQSIINSA-SSLLHRNGLHLDAFFKYLFGD 91 (581)
T ss_pred CcHHHHHHHHHhcC--CCCcCHHHHHHHHHHhcCCccCCHHHHHHHHHhh-hhhhhccCcCHHHHHHHhcCC
Confidence 46799999999986 3589999999999875543 33333332221 111234568899999887653
No 97
>KOG4511 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.64 E-value=17 Score=30.67 Aligned_cols=66 Identities=15% Similarity=0.330 Sum_probs=40.9
Q ss_pred HHHHhCCCCchhhhhhhhccCCC---CCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHH
Q 031969 28 QALKASDWHLEGAFDVFYSQPQS---KSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSW 100 (150)
Q Consensus 28 ~~L~~~~w~le~Ai~~f~~~~~~---~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~ 100 (150)
.||....|++ .|..|-+..+. ...-+......+-..|+.- | --=+.-||+++|++|+.++.-|...
T Consensus 18 ~Fl~gpiWsi--Pi~~FIEqks~VFD~~qe~~~~y~~IH~EYk~L----V-d~lle~f~eevgi~p~qf~~Ac~~~ 86 (335)
T KOG4511|consen 18 EFLTGPIWSI--PIASFIEQKSVVFDRQQEETDVYIMIHKEYKQL----V-DTLLECFCEEVGITPTQFVAACQLF 86 (335)
T ss_pred HHHhCccccc--hHHHHHHHhhhccChhhcccchHHHHHHHHHHH----H-HHHHHHHHHHhCCCHHHHHHHHhcc
Confidence 4677888987 66777765432 0011223445555666541 1 1235679999999999888766655
No 98
>PLN02952 phosphoinositide phospholipase C
Probab=41.81 E-value=96 Score=28.74 Aligned_cols=67 Identities=7% Similarity=0.045 Sum_probs=44.2
Q ss_pred cCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcC----CCCCcHHHHHHHHhhcc----cc--cccccHHHHHHHhHH
Q 031969 53 LTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQ----VDPQDIVMLVVSWHMKA----AT--MCEFSKQEFIGGLQS 121 (150)
Q Consensus 53 ~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLg----v~ped~~~LvLa~~l~a----~~--~g~~tr~eF~~g~~~ 121 (150)
...+..+..+|.+|... .+.|+.+.+.+|+.+-. +++++..-|+-. ++.. .. -..++.++|...+..
T Consensus 34 ~~~r~ei~~lf~~~~~~-~~~mt~~~l~~FL~~~Q~e~~~~~~~~~~i~~~-~~~~~~~~~~~~~~~l~~~~F~~~l~s 110 (599)
T PLN02952 34 AEPPDDVKDVFCKFSVG-GGHMGADQLRRFLVLHQDELDCTLAEAQRIVEE-VINRRHHVTRYTRHGLNLDDFFHFLLY 110 (599)
T ss_pred CCChHHHHHHHHHHhCC-CCccCHHHHHHHHHHhCCCcCCCHHHHHHHHHH-HHhhccccccccccCcCHHHHHHHHcC
Confidence 44689999999999874 36899999999997644 344444433221 1111 11 134788999988764
No 99
>PLN02964 phosphatidylserine decarboxylase
Probab=41.79 E-value=1.4e+02 Score=27.97 Aligned_cols=64 Identities=5% Similarity=-0.212 Sum_probs=46.4
Q ss_pred HHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 59 LEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 59 l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
+..+|..|-.+.+..|+.+-...++..+|-.+.+-.+.-+-..+....-|.||.+||.+.|...
T Consensus 181 i~~mf~~~D~DgdG~IdfdEFl~lL~~lg~~~seEEL~eaFk~fDkDgdG~Is~dEL~~vL~~~ 244 (644)
T PLN02964 181 ARRILAIVDYDEDGQLSFSEFSDLIKAFGNLVAANKKEELFKAADLNGDGVVTIDELAALLALQ 244 (644)
T ss_pred HHHHHHHhCCCCCCeEcHHHHHHHHHHhccCCCHHHHHHHHHHhCCCCCCcCCHHHHHHHHHhc
Confidence 7889998733233699999999999999854433333333344555567999999999998883
No 100
>cd07025 Peptidase_S66 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein. LD-carboxypeptidase (Muramoyltetrapeptide carboxypeptidase; EC 3.4.17.13; Merops family S66; initially described as Carboxypeptidase II) family also includes the microcin c7 self-immunity protein (MccF) as well as uncharacterized proteins including hypothetical proteins. LD-carboxypeptidase hydrolyzes the amide bond that links the dibasic amino acids to C-terminal D-amino acids. The physiological substrates of LD-carboxypeptidase are tetrapeptide fragments (such as UDP-MurNAc-tetrapeptides) that are produced when bacterial cell walls are degraded; they contain an L-configured residue (L-lysine or meso-diaminopimelic acid residue) as the penultimate residue and D-alanine as the ultimate residue. A possible role of LD-carboxypeptidase is in peptidoglycan recycling whereby the resulting tripeptide (precursor for murein synthesis) can be reconverted into peptidoglycan by attachment o
Probab=41.67 E-value=48 Score=27.19 Aligned_cols=82 Identities=20% Similarity=0.144 Sum_probs=58.6
Q ss_pred HHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCC----ccchHHHHHHHhhcCCCC---------
Q 031969 24 KAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLD----MILVDGITLLCNDLQVDP--------- 90 (150)
Q Consensus 24 ~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d----~I~~dG~~~~~edLgv~p--------- 90 (150)
..|+..|++.++++...=+.+-... ..+..+..+.+.|=+-++||+-+ .+|-.|..++++.|..+.
T Consensus 17 ~~~~~~L~~~G~~v~~~~~~~~~~~-~~a~s~~~Ra~dL~~a~~d~~i~aI~~~rGG~ga~rlL~~ld~~~~~~~pK~~i 95 (282)
T cd07025 17 ERAIARLESLGLEVVVGPHVLARDG-YLAGTDEERAADLNAAFADPEIKAIWCARGGYGANRLLPYLDYDLIRANPKIFV 95 (282)
T ss_pred HHHHHHHHhCCCEEEeccchhhhcC-ccCCCHHHHHHHHHHHhhCCCCCEEEEcCCcCCHHHhhhhCCHHHHhhCCeEEE
Confidence 5689999998888755544443222 23556788889999999998654 689999999999987772
Q ss_pred --CcHHHHHHHH--hhcccc
Q 031969 91 --QDIVMLVVSW--HMKAAT 106 (150)
Q Consensus 91 --ed~~~LvLa~--~l~a~~ 106 (150)
+|+..|-++- +.+..+
T Consensus 96 GySDiTaL~~~l~~~~g~~t 115 (282)
T cd07025 96 GYSDITALHLALYAKTGLVT 115 (282)
T ss_pred EecHHHHHHHHHHHhcCceE
Confidence 5777776653 325554
No 101
>PF00486 Trans_reg_C: Transcriptional regulatory protein, C terminal; InterPro: IPR001867 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents a domain that is almost always found associated with the response regulator receiver domain (see IPR001789 from INTERPRO). It may play a role in DNA binding [].; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2K4J_A 2JPB_A 1ODD_A 1OPC_A 1KGS_A 2PMU_E 2JZY_A 1GXP_B 1QQI_A 2Z33_A ....
Probab=41.44 E-value=59 Score=20.40 Aligned_cols=49 Identities=18% Similarity=0.176 Sum_probs=35.4
Q ss_pred HHHHHHHhhcccccccccHHHHHHH-hHHcCCCCHHHHHHHHHHHHHHcCC
Q 031969 94 VMLVVSWHMKAATMCEFSKQEFIGG-LQSLGIDSLDKFRERISFMRAELKD 143 (150)
Q Consensus 94 ~~LvLa~~l~a~~~g~~tr~eF~~g-~~~l~~dsi~~lk~~l~~l~~~l~~ 143 (150)
..-+|..++..+. -.+||++..+. |..-.-.+-..+..+|..||+.|.+
T Consensus 10 e~~lL~~L~~~~~-~~vs~~~l~~~~w~~~~~~~~~~l~~~I~rLR~kL~~ 59 (77)
T PF00486_consen 10 EFRLLELLLRNPG-RVVSREELIEALWGDEEDVSDNSLDVHISRLRKKLED 59 (77)
T ss_dssp HHHHHHHHHHTTT-SEEEHHHHHHHHTSSSSTTCTHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHhCCC-CCCCHHHhCChhhhcccccchhhHHHHHHHHHHHHhh
Confidence 4445566665543 37899999985 4443447888999999999999944
No 102
>PF10036 RLL: Putative carnitine deficiency-associated protein; InterPro: IPR019265 This family of proteins conserved from nematodes to humans is of approximately 250 amino acids. It is purported to be carnitine deficiency-associated protein but this could not be confirmed. It carries a characteristic RLL sequence-motif. The function is unknown.
Probab=41.10 E-value=31 Score=28.15 Aligned_cols=29 Identities=10% Similarity=0.158 Sum_probs=23.9
Q ss_pred hHHHHHHHhhcCCC-CCcHHHHHHHHhhcc
Q 031969 76 VDGITLLCNDLQVD-PQDIVMLVVSWHMKA 104 (150)
Q Consensus 76 ~dG~~~~~edLgv~-ped~~~LvLa~~l~a 104 (150)
++++.+||.|||.. ...-..-+|-|+++-
T Consensus 57 ~~~~~kYl~dl~cP~~~~~~~~~ldWLL~~ 86 (249)
T PF10036_consen 57 PKAFEKYLKDLGCPFSSESRQEQLDWLLGL 86 (249)
T ss_pred HHHHHHHHHhcCCCCcchhHHHHHHHHHHH
Confidence 67999999999999 466778888888763
No 103
>PLN02228 Phosphoinositide phospholipase C
Probab=40.99 E-value=1.1e+02 Score=28.15 Aligned_cols=68 Identities=12% Similarity=0.130 Sum_probs=45.5
Q ss_pred CcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCC-CcH-HHHHHHHhhccc----ccccccHHHHHHHhHH
Q 031969 52 SLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDP-QDI-VMLVVSWHMKAA----TMCEFSKQEFIGGLQS 121 (150)
Q Consensus 52 ~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~p-ed~-~~LvLa~~l~a~----~~g~~tr~eF~~g~~~ 121 (150)
....++.|..||.+|... +.|+.+++.+|+.+..=+. .+. .+.-|-..+... .-|.++.++|..-+..
T Consensus 19 ~~~~~~ei~~if~~~s~~--~~~t~~~~~~FL~~~Q~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~gF~~yl~s 92 (567)
T PLN02228 19 TREPPVSIKRLFEAYSRN--GKMSFDELLRFVSEVQGERHAGLDYVQDIFHSVKHHNVFHHHGLVHLNAFYRYLFS 92 (567)
T ss_pred CCCCcHHHHHHHHHhcCC--CccCHHHHHHHHHHhcCCccCCHHHHHHHHHHhccchhhcccCccCHHHHHHHhcC
Confidence 344689999999999863 4799999999998764322 111 122223333321 2367999999988765
No 104
>PF13348 Y_phosphatase3C: Tyrosine phosphatase family C-terminal region; PDB: 1YWF_A 2OZ5_B.
Probab=40.69 E-value=12 Score=23.73 Aligned_cols=36 Identities=19% Similarity=0.313 Sum_probs=22.0
Q ss_pred CHHHHHHHHHHhcCCCCCccchHHHHHHH-hhcCCCCCcHHHH
Q 031969 55 DTRHLEELYNRYKDPYLDMILVDGITLLC-NDLQVDPQDIVML 96 (150)
Q Consensus 55 ~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~-edLgv~ped~~~L 96 (150)
.+.-|...|+.-...- -|+..|+ +-||++++++.-|
T Consensus 27 ~~e~l~~~l~~i~~~y------Gs~e~Yl~~~lgl~~~~i~~L 63 (68)
T PF13348_consen 27 RPEYLEAALDAIDERY------GSVENYLREELGLSEEDIERL 63 (68)
T ss_dssp -HHHHHHHHHHHHHHH------SSHHHHHHHT-T--HHHHHHH
T ss_pred cHHHHHHHHHHHHHHc------CCHHHHHHHcCCCCHHHHHHH
Confidence 4566677776655422 2788999 7789999888765
No 105
>PF10384 Scm3: Centromere protein Scm3; InterPro: IPR018465 The centromere protein Scm3 is a non-histone component of centromeric chromatin that binds to CenH3-H4 histones, which are required for kinetochore assembly. Scm3 is required for Cse4 localisation and is required for its centromeric association [, ]. The histone H3 variant Cse4 replaces conventional histone H3 in centromeric chromatin and helps direct the assembly of the kinetochore. In addition, Scm3 has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for G2/M progression []. Scm3 is required to maintain kinetochore function throughout the cell cycle. Scm3 contains a nuclear export signal (NES). The N-terminal region of Scm3 is well conserved and functions as the CenH3-interacting domain, while the C-terminal region is variable in size and sometimes consists of DNA binding motifs [].; GO: 0005634 nucleus; PDB: 3R45_C 2YFV_C 2L5A_A.
Probab=40.15 E-value=23 Score=22.69 Aligned_cols=21 Identities=24% Similarity=0.347 Sum_probs=15.5
Q ss_pred HHHHHHHHHHhcCC---C-CCccch
Q 031969 56 TRHLEELYNRYKDP---Y-LDMILV 76 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~---~-~d~I~~ 76 (150)
.+.++.||+||..+ + +|.|+.
T Consensus 15 k~~~e~I~~KY~~~d~~~~~DeIDL 39 (58)
T PF10384_consen 15 KSRWESIIEKYGQPDFEDQGDEIDL 39 (58)
T ss_dssp HHHHHHHHHHHCSG-TCCSSEBCTT
T ss_pred HHHHHHHHHHhcCcccCCccceeec
Confidence 46789999999975 2 267765
No 106
>COG3252 Methenyltetrahydromethanopterin cyclohydrolase [Coenzyme metabolism]
Probab=39.58 E-value=9 Score=31.96 Aligned_cols=81 Identities=15% Similarity=0.345 Sum_probs=46.1
Q ss_pred HHHHHH--HhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHH--hcCC--------CCCccchHHHHHHH-hhcCCCCC
Q 031969 25 AALQAL--KASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNR--YKDP--------YLDMILVDGITLLC-NDLQVDPQ 91 (150)
Q Consensus 25 ~A~~~L--~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~--Y~d~--------~~d~I~~dG~~~~~-edLgv~pe 91 (150)
-|+..| ++.+|.+ ++..||.-.|+.+.+-..+=.+.|+. |.|. +.+..--+-...|+ +..||+||
T Consensus 84 Paia~lgaQkAGW~v--~VgdyfamGSGPARAL~lkpketyeeI~YeDdadvAvL~lEs~~LP~e~vae~vA~ecgV~~E 161 (314)
T COG3252 84 PAIATLGAQKAGWQV--SVGDYFAMGSGPARALALKPKETYEEIGYEDDADVAVLTLESDKLPDEKVAEYVAKECGVEPE 161 (314)
T ss_pred cHHHHhhhhhcCceE--eecceeeccCchhhhhhcCcchhhhhcCcccccceEEEEEecCCCCchHHHHHHHHHcCCChh
Confidence 344444 6799987 89999988776332221111234443 4442 12334344455554 89999999
Q ss_pred cHHHHH--HHHhhccccc
Q 031969 92 DIVMLV--VSWHMKAATM 107 (150)
Q Consensus 92 d~~~Lv--La~~l~a~~~ 107 (150)
++-.|| -|...|+-++
T Consensus 162 nVyllvapTASivGSvqi 179 (314)
T COG3252 162 NVYLLVAPTASIVGSVQI 179 (314)
T ss_pred heEEEeccchheeeeEEe
Confidence 976544 3455555443
No 107
>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport]
Probab=39.56 E-value=46 Score=29.99 Aligned_cols=51 Identities=22% Similarity=0.330 Sum_probs=42.8
Q ss_pred HHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcH--HHHHHHHhhcccc
Q 031969 56 TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDI--VMLVVSWHMKAAT 106 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~--~~LvLa~~l~a~~ 106 (150)
...|+.|-++--|+..+.-+...|.-|||-+.-+|+++ .+-.||+++++|+
T Consensus 6 ~~sle~wlnrATdp~~~eedw~ai~~fceqinkdp~gp~lAv~LlaHKiqSPq 58 (594)
T KOG1086|consen 6 VESLEYWLNRATDPSNDEEDWKAIDGFCEQINKDPEGPLLAVRLLAHKIQSPQ 58 (594)
T ss_pred cccHHHHHHhccCccchHHHHHHHHHHHHHHhcCCCCchhHHHHHHhhcCChh
Confidence 35677788887787667888999999999999999985 5778999999987
No 108
>COG1619 LdcA Uncharacterized proteins, homologs of microcin C7 resistance protein MccF [Defense mechanisms]
Probab=38.46 E-value=1e+02 Score=26.16 Aligned_cols=80 Identities=24% Similarity=0.271 Sum_probs=55.9
Q ss_pred HHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCC----ccchHHHHHHHhhcCCC-----C----
Q 031969 24 KAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLD----MILVDGITLLCNDLQVD-----P---- 90 (150)
Q Consensus 24 ~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d----~I~~dG~~~~~edLgv~-----p---- 90 (150)
..|.+.|++.+.++...-.-+ ......++...++++.|=+-+.|++-+ .||-.|..+++.+|..+ |
T Consensus 29 ~~a~~~L~~~G~~v~~~~~i~-~~~~~~a~s~~~R~~dL~~af~d~~vk~Il~~rGGygs~rlLp~ld~~~i~~~pKifi 107 (313)
T COG1619 29 KRAIQRLENLGFEVVFGEHIL-RRDQYFAGSDEERAEDLMSAFSDPDVKAILCVRGGYGSNRLLPYLDYDLIRNHPKIFI 107 (313)
T ss_pred HHHHHHHHHcCCEEEechhhh-hccccccCCHHHHHHHHHHHhcCCCCeEEEEcccCCChhhhhhhcchHHHhcCCceEE
Confidence 468899999997663322222 222223445578888888888887654 78999999999999984 3
Q ss_pred --CcHHHHHHHHhhcc
Q 031969 91 --QDIVMLVVSWHMKA 104 (150)
Q Consensus 91 --ed~~~LvLa~~l~a 104 (150)
+|+..|.+|-.-+.
T Consensus 108 GySDiTall~ai~~k~ 123 (313)
T COG1619 108 GYSDITALLLAILAKT 123 (313)
T ss_pred EecHHHHHHHHHHHhc
Confidence 68888877766554
No 109
>PF12244 DUF3606: Protein of unknown function (DUF3606); InterPro: IPR022037 This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 85 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=38.33 E-value=81 Score=19.80 Aligned_cols=42 Identities=14% Similarity=0.219 Sum_probs=34.0
Q ss_pred CCCcchHHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhh
Q 031969 3 KLSRSNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFY 45 (150)
Q Consensus 3 ~l~~~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~ 45 (150)
+++..+.-.|+-++.-.|+|++..+...++.|- --.+|..|.
T Consensus 14 ~I~~~e~~ev~ywa~~~gvt~~~L~~AV~~vG~-~~~~V~~~L 55 (57)
T PF12244_consen 14 RIDLSEPYEVRYWAKRFGVTEEQLREAVRAVGN-SRAAVRAYL 55 (57)
T ss_pred hcCCCCHHHHHHHHHHHCcCHHHHHHHHHHHCc-CHHHHHHHH
Confidence 456677788999999999999999999999884 456676664
No 110
>smart00549 TAFH TAF homology. Domain in Drosophila nervy, CBFA2T1, human TAF105, human TAF130, and Drosophila TAF110. Also known as nervy homology region 1 (NHR1).
Probab=38.24 E-value=1.1e+02 Score=21.44 Aligned_cols=61 Identities=20% Similarity=0.279 Sum_probs=40.3
Q ss_pred HHHHHhhcC-CCC-CcHHHHHHHHhhcccccccccHHHHHHHhHHc-C----CCCHHHHHHHHHHHHHHcCCC
Q 031969 79 ITLLCNDLQ-VDP-QDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL-G----IDSLDKFRERISFMRAELKDE 144 (150)
Q Consensus 79 ~~~~~edLg-v~p-ed~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l-~----~dsi~~lk~~l~~l~~~l~~~ 144 (150)
+++|-.+.+ .+. +.|..||++-.- |.++-|||..-++.. + =.=++=||+.||-||+++.+-
T Consensus 12 Li~ls~~~~qpe~~~~Vr~LV~~L~~-----~~i~~EeF~~~Lq~~lns~~qP~lvPFLK~slp~Lr~~l~~~ 79 (92)
T smart00549 12 LIQLSNDISQPEVAERVRTLVLGLVN-----GTITAEEFTSRLQEALNSPLQPYLIPFLKNSLPLLRRELLHC 79 (92)
T ss_pred HHHHhcCCCcchHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHcCCCCchhHHHHHHhhHHHHHHHHHH
Confidence 455555555 332 456777765433 678999999988873 2 234777888888888877543
No 111
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=37.85 E-value=38 Score=17.76 Aligned_cols=17 Identities=29% Similarity=0.595 Sum_probs=14.0
Q ss_pred CHHHHHHHHHHHHHHcC
Q 031969 126 SLDKFRERISFMRAELK 142 (150)
Q Consensus 126 si~~lk~~l~~l~~~l~ 142 (150)
.++.+|.+|.+|+.+|.
T Consensus 2 E~~rlr~rI~dLer~L~ 18 (23)
T PF04508_consen 2 EMNRLRNRISDLERQLS 18 (23)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 36788999999999884
No 112
>COG3655 Predicted transcriptional regulator [Transcription]
Probab=37.49 E-value=18 Score=24.36 Aligned_cols=27 Identities=26% Similarity=0.557 Sum_probs=23.1
Q ss_pred CCccchHHHHHHHhhcCCCCCcHHHHH
Q 031969 71 LDMILVDGITLLCNDLQVDPQDIVMLV 97 (150)
Q Consensus 71 ~d~I~~dG~~~~~edLgv~ped~~~Lv 97 (150)
.+.|-.+-+.+.|..|+.+|.|+..++
T Consensus 40 ~k~I~~~tL~~iC~~LeCqpgDiley~ 66 (73)
T COG3655 40 VKAIRLSTLEKICKALECQPGDILEYV 66 (73)
T ss_pred cceeeHHHHHHHHHHcCCChhheeEEe
Confidence 357999999999999999999986543
No 113
>PF14327 CSTF2_hinge: Hinge domain of cleavage stimulation factor subunit 2; PDB: 4EBA_G.
Probab=37.09 E-value=36 Score=23.03 Aligned_cols=32 Identities=22% Similarity=0.233 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhh
Q 031969 9 RDKLQQFVSITGASEKAALQALKASDWHLEGAF 41 (150)
Q Consensus 9 ~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai 41 (150)
-+.+.++..+..-++..|+.+|.+|- .|-+|+
T Consensus 32 ~ell~~mK~l~~~~p~~ar~lL~~nP-qLa~Al 63 (84)
T PF14327_consen 32 YELLSQMKQLAQQNPEQARQLLQQNP-QLAYAL 63 (84)
T ss_dssp HHHHHHHHHHHC----HHHHHHHS-T-HHHHHH
T ss_pred HHHHHHHHHHHHhCHHHHHHHHHHCc-HHHHHH
Confidence 35678999999999999999999988 666655
No 114
>PF01023 S_100: S-100/ICaBP type calcium binding domain; InterPro: IPR013787 The calcium-binding domain found in S100 and CaBP-9k proteins is a subfamily of the EF-hand calcium-binding domain []. S100s are small dimeric acidic calcium and zinc-binding proteins abundant in the brain, with S100B playing an important role in modulating the proliferation and differentiation of neurons and glia cells []. S100 proteins have two different types of calcium-binding sites: a low affinity one with a special structure, and a 'normal' EF-hand type high-affinity site. Calbindin-D9k (CaBP-9k) also belong to this family of proteins, but it does not form dimers. CaBP-9k is a cytosolic protein expressed in a variety of tissues. Although its precise function is unknown, it appears to be under the control of the steroid hormones oestrogen and progesterone in the female reproductive system []. In the intestine, CaBP-9k may be involved in calcium absorption by mediating intracellular diffusion []. This entry represents a subdomain of the calcium-binding domain found in S100, CaBP-9k, and related proteins.; PDB: 2RGI_A 4DUQ_B 2KAY_B 2KAX_A 2CNP_A 1CNP_A 1A03_A 1JWD_B 2JTT_A 1XK4_B ....
Probab=36.95 E-value=61 Score=19.28 Aligned_cols=28 Identities=11% Similarity=0.265 Sum_probs=21.1
Q ss_pred HHHHHHHHHhcCCC--CCccchHHHHHHHh
Q 031969 57 RHLEELYNRYKDPY--LDMILVDGITLLCN 84 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~--~d~I~~dG~~~~~e 84 (150)
..|..+|.+|+..+ .+.+.-..+-++++
T Consensus 6 ~~iI~vFhkYa~~~Gd~~~Lsk~Elk~Ll~ 35 (44)
T PF01023_consen 6 ETIIDVFHKYAGKEGDKDTLSKKELKELLE 35 (44)
T ss_dssp HHHHHHHHHHHTSSSSTTSEEHHHHHHHHH
T ss_pred HHHHHHHHHHhccCCCCCeEcHHHHHHHHH
Confidence 45788999999543 46888888877774
No 115
>PF12238 MSA-2c: Merozoite surface antigen 2c; InterPro: IPR021060 This family of proteins are restricted to the apicomplexan Babesia bovis. Proteins in this entry are typically between 263 and 318 amino acids in length and plasma membrane glycoproteins. These antigens present on the merozoite surface (MSA) and are involved in the parasite invasion of the bovine erythrocyte. MSA-2c has been suggested as a possible antigen for a vaccine candidate [].
Probab=36.83 E-value=62 Score=25.94 Aligned_cols=58 Identities=10% Similarity=0.174 Sum_probs=37.8
Q ss_pred hhhhhhhccCCC-CCcCCHHHHHHHHHHhcCCCCCcc-chHHHHHHHhhcCCCCCcHHHH
Q 031969 39 GAFDVFYSQPQS-KSLTDTRHLEELYNRYKDPYLDMI-LVDGITLLCNDLQVDPQDIVML 96 (150)
Q Consensus 39 ~Ai~~f~~~~~~-~~~~~~~~l~~lFd~Y~d~~~d~I-~~dG~~~~~edLgv~ped~~~L 96 (150)
.++|.|....+. -..-.+.++++.|-+-.-.++..+ +.+++.+||.+-=-+-....-|
T Consensus 65 ~~~n~fl~~~~~~~~~~~~~~~~~YyKkhIy~~d~~v~d~~~lv~~ck~Fl~~~s~f~~l 124 (205)
T PF12238_consen 65 SHMNAFLNDWPPHMLEEGREKMTKYYKKHIYKEDSEVKDYNGLVKFCKDFLDSESPFMKL 124 (205)
T ss_pred HHHHHHHccCchhhhhccHHHHHHHHHHhccCcccccccHHHHHHHHHHHhccccHHHHH
Confidence 366777763222 223467888888888665444566 9999999999875444444444
No 116
>PF11527 ARL2_Bind_BART: The ARF-like 2 binding protein BART; InterPro: IPR023379 This domain is found in ADP-ribosylation factor-like 2 (ARF2) binding protein, also known as BART, and in uncharacterised proteins. BART binds specifically to ARF2.GTP with a high affinity. However, it does not bind to ARF2.GDP. It is thought that this specific interaction is due to BART being the first identified ARF2-specific effector. The function is not completely characterised []. BART is predominantly cytosolic but can also be found to be associated with mitochondria. BART is also involved in binding to the adenine nucleotide transporter ANT1 []. ; PDB: 2K0S_A 2K9A_A 3DOF_B 3DOE_B.
Probab=36.09 E-value=24 Score=25.29 Aligned_cols=39 Identities=13% Similarity=0.202 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHH
Q 031969 56 TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVS 99 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa 99 (150)
.-.-..+|.+|++- =-.=+..|+.++|++++.....|+.
T Consensus 43 kley~~i~~ey~~l-----vE~~le~~l~~~g~s~e~f~~~~~~ 81 (121)
T PF11527_consen 43 KLEYTEIHQEYKEL-----VEKLLEEFLEELGISMEEFEEACLS 81 (121)
T ss_dssp STTHHHHHHHHHHH-----HHHHHHHHHHSTTSSHHCHHHHH--
T ss_pred cHHHHHHHHHHHHH-----HHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 34567789999862 2235678888999999999988833
No 117
>PRK06771 hypothetical protein; Provisional
Probab=36.02 E-value=49 Score=23.27 Aligned_cols=25 Identities=16% Similarity=0.036 Sum_probs=21.3
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHh
Q 031969 8 NRDKLQQFVSITGASEKAALQALKA 32 (150)
Q Consensus 8 ~~~~i~~F~~iT~~~~~~A~~~L~~ 32 (150)
.-++|+..++.||++-..|.+|..+
T Consensus 68 ki~AIK~~Re~tG~~L~eAK~yVD~ 92 (93)
T PRK06771 68 TVTAVKRVREAFGFSLLEAKQYVDK 92 (93)
T ss_pred chHHHHHHHHHcCCCHHHHHHHHhc
Confidence 3467999999999999999998753
No 118
>PRK03980 flap endonuclease-1; Provisional
Probab=35.91 E-value=1.1e+02 Score=25.47 Aligned_cols=76 Identities=16% Similarity=0.272 Sum_probs=49.4
Q ss_pred HHHHHHHHHhCC---------CHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCC----C----C
Q 031969 10 DKLQQFVSITGA---------SEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPY----L----D 72 (150)
Q Consensus 10 ~~i~~F~~iT~~---------~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~----~----d 72 (150)
+.+-.|+-+.|+ -++.|..++++++ +|+..+...-.+ ..+-..+.++ |.+|+ . .
T Consensus 177 ~q~id~~iL~G~Dy~~GI~GIG~ktA~kLi~~~~-sle~i~~~~~~~-----~~~~~~~r~~---f~~p~v~~~~~~~~~ 247 (292)
T PRK03980 177 EQLIDIAILVGTDYNPGIKGIGPKTALKLIKKHG-DLEKVLEERGFE-----IENYDEIREF---FLNPPVTDDYELKWK 247 (292)
T ss_pred HHHHHHHHhcCCCCCCCCCCccHHHHHHHHHHCC-CHHHHHHhccCC-----CCCHHHHHHH---hcCCCCCCCCCccCC
Confidence 345566666654 5899999999998 777776633111 1122444444 44442 1 2
Q ss_pred ccchHHHHHHH-hhcCCCCCcHH
Q 031969 73 MILVDGITLLC-NDLQVDPQDIV 94 (150)
Q Consensus 73 ~I~~dG~~~~~-edLgv~ped~~ 94 (150)
.++.||+.+|+ +..|.+++-+.
T Consensus 248 ~pd~~~l~~fl~~e~~f~~~rv~ 270 (292)
T PRK03980 248 EPDKEGIIEFLVEEHDFSEERVK 270 (292)
T ss_pred CCCHHHHHHHHhccCCCCHHHHH
Confidence 68999999987 78999987554
No 119
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=35.87 E-value=1.6e+02 Score=20.96 Aligned_cols=65 Identities=8% Similarity=-0.004 Sum_probs=38.6
Q ss_pred HHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCC
Q 031969 12 LQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQ 91 (150)
Q Consensus 12 i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~pe 91 (150)
|.+|...||+|..+-+.| ++-+- +..+. ..+++...-++.. |.-=-+++.+.++|++++
T Consensus 2 I~e~a~~~gvs~~tlR~Y-e~~GL-l~~~~----r~~~g~R~Y~~~~---------------l~~l~~I~~l~~~G~sl~ 60 (124)
T TIGR02051 2 IGELAKAAGVNVETIRYY-ERKGL-LPEPD----RPEGGYRRYPEET---------------VKRLRFIKRAQELGFSLE 60 (124)
T ss_pred HHHHHHHHCcCHHHHHHH-HHCCC-CCCCc----cCCCCCEeECHHH---------------HHHHHHHHHHHHCCCCHH
Confidence 789999999999988777 33331 21110 1111111111222 222267888899999999
Q ss_pred cHHHHH
Q 031969 92 DIVMLV 97 (150)
Q Consensus 92 d~~~Lv 97 (150)
++..++
T Consensus 61 eI~~~l 66 (124)
T TIGR02051 61 EIGGLL 66 (124)
T ss_pred HHHHHH
Confidence 988765
No 120
>PF13624 SurA_N_3: SurA N-terminal domain; PDB: 3NRK_A.
Probab=35.83 E-value=47 Score=24.00 Aligned_cols=60 Identities=18% Similarity=0.189 Sum_probs=24.0
Q ss_pred cchHHHHHHHhhcCCCCCcHHHHHHHHhhcc-cccccccHHHHHHHhHHcCCCCHHHHHHHH
Q 031969 74 ILVDGITLLCNDLQVDPQDIVMLVVSWHMKA-ATMCEFSKQEFIGGLQSLGIDSLDKFRERI 134 (150)
Q Consensus 74 I~~dG~~~~~edLgv~ped~~~LvLa~~l~a-~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l 134 (150)
|.-.=+.+..+++||.++|-.+--.-....+ ..-|.|+++.|.+.++..|.+ .+.+++.|
T Consensus 84 I~~~ll~q~A~~~gi~vsd~ev~~~i~~~~~f~~~g~~~~~~f~~~L~~~g~t-~~~~~~~l 144 (154)
T PF13624_consen 84 IDQKLLLQEAKKLGISVSDAEVDDAIKQIPAFQENGKFDKEAFEEFLKQQGMT-EEEFKEEL 144 (154)
T ss_dssp HHHHHHHHHHHHTT----HHHHHHHHHH--HHHHH----HHHHHHHHH--------------
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhhcc-ccccchhh
Confidence 5555566788999999877554433333211 123889999999999998874 55555554
No 121
>PF02289 MCH: Cyclohydrolase (MCH); InterPro: IPR003209 Methenyltetrahydromethanopterin cyclohydrolase catalyses the interconversion of methenyltetrahydromethanopterin and N(5)formyltetrahydromethanopterin, and is found in both archaea and bacteria. In methanogenic archaea, such as Methanobacterium thermoautotrophicum (strain Marburg / DSM 2133), this enzyme is involved in the production of methane from carbon dioxide []. In the sulphate-reducer Archaeoglobus fulgidus, this enzyme is involved in the tetrahydromethanopterin-dependent oxidation of lactate []. In Gram-negative methylotrophic bacteria this enzyme is involved in the tetrahydromethanopterin-dependent oxidation of formaldehyde to formate [].; GO: 0018759 methenyltetrahydromethanopterin cyclohydrolase activity, 0006730 one-carbon metabolic process; PDB: 1QLM_A.
Probab=35.41 E-value=2.1 Score=36.29 Aligned_cols=64 Identities=22% Similarity=0.462 Sum_probs=30.7
Q ss_pred HhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHH--hcCCC--------CCccchHHHH-HHHhhcCCCCCcHHHH
Q 031969 31 KASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNR--YKDPY--------LDMILVDGIT-LLCNDLQVDPQDIVML 96 (150)
Q Consensus 31 ~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~--Y~d~~--------~d~I~~dG~~-~~~edLgv~ped~~~L 96 (150)
+..+|.|. .+.||.-.++...+-..+=+.||++ |+|.. .+++=++.+. +..++.||+|+++..|
T Consensus 91 QyAGW~l~--~~~ffamGSGPaRALa~kpe~lf~~l~Y~D~~d~aVl~lEs~~lP~~~v~~~IA~~cgv~p~~l~ll 165 (313)
T PF02289_consen 91 QYAGWSLS--VGDFFAMGSGPARALARKPEELFEELGYRDDADFAVLVLESDKLPPEEVAEKIAEACGVDPENLYLL 165 (313)
T ss_dssp TS--EEEE--ETTEEEEEESTTHHHHTSSHHHHHHHT-----S-EEEEEE-SS---HHHHHHHHHHHTS-GGGEEEE
T ss_pred cccCcccc--cCCEeEecCcHHHHhhcCcHHHHHHcCccccCCcEEEEEEcCCCCCHHHHHHHHHHcCCCHHHEEEE
Confidence 45899984 7779877665332111111445554 56642 2344445544 4559999999998643
No 122
>COG3710 CadC DNA-binding winged-HTH domains [Transcription]
Probab=35.39 E-value=50 Score=24.75 Aligned_cols=57 Identities=18% Similarity=0.100 Sum_probs=42.1
Q ss_pred cCCCCCcHHHHHHHHhhcccccccccHHHHHH-HhHHcCCCCHHHHHHHHHHHHHHcCCC
Q 031969 86 LQVDPQDIVMLVVSWHMKAATMCEFSKQEFIG-GLQSLGIDSLDKFRERISFMRAELKDE 144 (150)
Q Consensus 86 Lgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~-g~~~l~~dsi~~lk~~l~~l~~~l~~~ 144 (150)
--|..+....-||..+++ ..-..++|+++++ -|..-.+..-. |-+.|..||..|.+.
T Consensus 28 ~~v~l~~~~~~lL~~L~e-~~geVvsk~eL~~~VW~~~~v~~~~-Ltq~I~~LRr~L~d~ 85 (148)
T COG3710 28 EVVKLGPRELKLLSLLLE-RAGEVVSKDELLDAVWPGRIVTVNT-LTQAISALRRALRDI 85 (148)
T ss_pred eEEEecHHHHHHHHHHHh-ccCceecHHHHHHHhCCCceEccCh-HHHHHHHHHHHHhcc
Confidence 344556667778888888 3345699999999 68886554333 999999999999655
No 123
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=34.78 E-value=88 Score=24.47 Aligned_cols=92 Identities=10% Similarity=0.090 Sum_probs=53.3
Q ss_pred CCcchHHHHHHHHHHhCCCHHHHHHHHHhCCCCc-hhhhhhhhccC---CCCCcCCHHHHHH----HHHHhcCC----C-
Q 031969 4 LSRSNRDKLQQFVSITGASEKAALQALKASDWHL-EGAFDVFYSQP---QSKSLTDTRHLEE----LYNRYKDP----Y- 70 (150)
Q Consensus 4 l~~~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~l-e~Ai~~f~~~~---~~~~~~~~~~l~~----lFd~Y~d~----~- 70 (150)
.+..+++..+.++++-|.-++.|...|...+.+- -.||.. ++. ..-+...++..++ |-++.... .
T Consensus 64 ~~~~Er~lF~~Li~V~GIGpK~Al~ILs~~~~~~l~~aI~~--~D~~~L~~vpGIGkKtAerIilELk~Ki~~~~~~~~~ 141 (194)
T PRK14605 64 ATTEELSLFETLIDVSGIGPKLGLAMLSAMNAEALASAIIS--GNAELLSTIPGIGKKTASRIVLELKDKIAKNWEAGVL 141 (194)
T ss_pred CCHHHHHHHHHHhCCCCCCHHHHHHHHHhCCHHHHHHHHHh--CCHHHHHhCCCCCHHHHHHHHHHHHHHHHhhhhcccc
Confidence 5678889999999999999999999999876532 334411 111 1123344444444 44444210 0
Q ss_pred CC-ccchHHHHHHHhhcCCCCCcHHHHH
Q 031969 71 LD-MILVDGITLLCNDLQVDPQDIVMLV 97 (150)
Q Consensus 71 ~d-~I~~dG~~~~~edLgv~ped~~~Lv 97 (150)
.. .-..+-++..+..||+++..+.-.+
T Consensus 142 ~~~~~~~~e~~~aL~~LGy~~~~a~~ai 169 (194)
T PRK14605 142 SQVTEANSDILATLTALGYSSSEAAKAI 169 (194)
T ss_pred ccccchHHHHHHHHHHcCCCHHHHHHHH
Confidence 00 0012345566777888876555433
No 124
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=34.72 E-value=1e+02 Score=28.78 Aligned_cols=67 Identities=13% Similarity=0.268 Sum_probs=41.2
Q ss_pred HHHHHHHhCCCCchhh-hhhhhccCCCCCcCCHHHHHHHHHHhc-------------CCCC-CccchHHHHHHHh----h
Q 031969 25 AALQALKASDWHLEGA-FDVFYSQPQSKSLTDTRHLEELYNRYK-------------DPYL-DMILVDGITLLCN----D 85 (150)
Q Consensus 25 ~A~~~L~~~~w~le~A-i~~f~~~~~~~~~~~~~~l~~lFd~Y~-------------d~~~-d~I~~dG~~~~~e----d 85 (150)
++..|.+--++.++.| +.+| ......||++|- ||.. ...++|.++++++ -
T Consensus 475 ~~~eY~e~i~~Evq~A~l~s~-----------~e~~~~Lf~rYvd~a~a~i~~~k~rDp~TGe~~~pd~~~~~lrsIEe~ 543 (644)
T PRK15455 475 LAPRYAEFIGKEIQTAYLESY-----------SEYGQNIFDRYVTYADFWIQDQEYRDPDTGQLFDREALNAELEKIEKP 543 (644)
T ss_pred HHHHHHHHHHHHHHHHHHhhH-----------HHHHHHHHHHHHHHHHHHhccCeecCCccccccChhHHHHHHHHHHhh
Confidence 4455556566666665 3333 455678999994 4432 5789998888875 5
Q ss_pred cCCC-CCcHHHHHHHHhh
Q 031969 86 LQVD-PQDIVMLVVSWHM 102 (150)
Q Consensus 86 Lgv~-ped~~~LvLa~~l 102 (150)
.||+ |-|.+-=++.|.+
T Consensus 544 ~gI~~~kdFR~ei~~~i~ 561 (644)
T PRK15455 544 AGISNPKDFRNEIVNFVL 561 (644)
T ss_pred cCCCCchhHHHHHHHHHH
Confidence 6786 6565444444443
No 125
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=34.66 E-value=58 Score=25.19 Aligned_cols=33 Identities=18% Similarity=0.406 Sum_probs=28.7
Q ss_pred HHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhh
Q 031969 12 LQQFVSITGASEKAALQALKASDWHLEGAFDVF 44 (150)
Q Consensus 12 i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f 44 (150)
+..|..+.|.++..|..+.-.++|..+.|...-
T Consensus 135 ~~D~A~FlGl~~ddAtk~ilEnGWqaDaasqMa 167 (197)
T KOG4414|consen 135 ADDFAAFLGLPEDDATKGILENGWQADAASQMA 167 (197)
T ss_pred HHHHHHHhCCCHHHHHHHHHHcccchhhHHHHh
Confidence 468999999999999999999999988776543
No 126
>PF04957 RMF: Ribosome modulation factor; InterPro: IPR007040 This entry contains ribosome modulation factors (RMF). They associate with 70s ribosomes and converts them to a dimeric form (100S ribosomes) which appear during the transition from the exponential growth phase to the stationary phase of Escherichia colicells [, ]. It has been proposed that RMF mediates the formation of a 'storage ribosome', the 100S particle, in stationary phase by inactivating excess ribosomes to protect them from degradation and to maintain the required balance between the concentrations of ribosomes and protein synthesis factors in order to maintain translational elongation efficiency [, ]. ; PDB: 2JRM_A 3V24_V 3V22_V.
Probab=34.65 E-value=29 Score=22.09 Aligned_cols=18 Identities=11% Similarity=0.292 Sum_probs=12.9
Q ss_pred ccccccccHHHHHHHhHH
Q 031969 104 AATMCEFSKQEFIGGLQS 121 (150)
Q Consensus 104 a~~~g~~tr~eF~~g~~~ 121 (150)
||-...-.|+.|+.||..
T Consensus 29 CPy~~~~~r~~Wl~GWre 46 (55)
T PF04957_consen 29 CPYQDGDARSQWLGGWRE 46 (55)
T ss_dssp --SSSCHHHHHHHHHHHH
T ss_pred CCCCCcHHHHHHHHHHHH
Confidence 555656669999999986
No 127
>PF12174 RST: RCD1-SRO-TAF4 (RST) plant domain; InterPro: IPR022003 This domain is found in many plant proteins including SROs and RCD1s; it is required for interaction with multiple plant transcription factors.
Probab=34.31 E-value=28 Score=23.04 Aligned_cols=17 Identities=24% Similarity=0.487 Sum_probs=14.3
Q ss_pred ccccccHHHHHHHhHHc
Q 031969 106 TMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 106 ~~g~~tr~eF~~g~~~l 122 (150)
.-++|||++|+.-++.+
T Consensus 38 k~~kIsR~~fvr~lR~I 54 (70)
T PF12174_consen 38 KKKKISREEFVRKLRQI 54 (70)
T ss_pred HHCCCCHHHHHHHHHHH
Confidence 45889999999988873
No 128
>cd03022 DsbA_HCCA_Iso DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1,2-dihydroxynapthalene by a dioxygenase, into cis-o-hydroxybenzylidenepyruvate (cHBPA). This is the fourth reaction in a six-step pathway that converts napthalene into salicylate. HCCA isomerase is unique to bacteria that degrade polycyclic aromatic compounds. It is closely related to the eukaryotic protein, GSH transferase kappa (GSTK).
Probab=34.01 E-value=56 Score=24.15 Aligned_cols=39 Identities=8% Similarity=0.111 Sum_probs=28.6
Q ss_pred CHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcH
Q 031969 55 DTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDI 93 (150)
Q Consensus 55 ~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~ 93 (150)
..+-+..||..|-..+.+.-+.+-+.+.+.++|++++.+
T Consensus 102 ~~~~~~~lf~a~~~~~~~i~~~~~l~~~a~~~Gld~~~~ 140 (192)
T cd03022 102 AEAFARAVFRALWGEGLDIADPAVLAAVAAAAGLDADEL 140 (192)
T ss_pred HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHcCCCHHHH
Confidence 456677888887654445556678899999999998644
No 129
>COG0177 Nth Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]
Probab=33.94 E-value=34 Score=27.48 Aligned_cols=34 Identities=15% Similarity=0.171 Sum_probs=27.8
Q ss_pred HHHHHHHHHHhcCCCC-CccchHHHHHHHhhcCCC
Q 031969 56 TRHLEELYNRYKDPYL-DMILVDGITLLCNDLQVD 89 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~-d~I~~dG~~~~~edLgv~ 89 (150)
.+...+||.+|.+|+. -.++.+++..++...|+-
T Consensus 48 n~at~~Lf~~~~t~e~l~~a~~~~l~~~I~~iGly 82 (211)
T COG0177 48 NKATPALFKRYPTPEDLLNADEEELEELIKSIGLY 82 (211)
T ss_pred HHHHHHHHHHcCCHHHHHcCCHHHHHHHHHhcCCc
Confidence 5677889999998755 478889999988888874
No 130
>cd04752 Commd4 COMM_Domain containing protein 4. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=33.84 E-value=1.5e+02 Score=22.61 Aligned_cols=55 Identities=20% Similarity=0.322 Sum_probs=41.6
Q ss_pred CccchHHHHHHHhhcCCCCCcHH--HHHHHHhhcccccccccHHHHHHHhHHcCCCC
Q 031969 72 DMILVDGITLLCNDLQVDPQDIV--MLVVSWHMKAATMCEFSKQEFIGGLQSLGIDS 126 (150)
Q Consensus 72 d~I~~dG~~~~~edLgv~ped~~--~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~ds 126 (150)
+.|+.+-+.++..|+|++..++. +=+|.+.|....---.+.+.|.+-+..+|.+.
T Consensus 20 ~~~~~~~~~kl~~~~~~~~~~lk~~va~l~fiL~~A~k~n~~~~~l~~eL~~lglp~ 76 (174)
T cd04752 20 EGIDYEKVLKLTADAKFESGDVKASIAVLSFILSSAAKYNVDGESLSSELQQLGLPK 76 (174)
T ss_pred ccCCHHHHHHHHHHhCCCHhhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHcCCCH
Confidence 34889999999999999998876 33466667433333488999999999888753
No 131
>cd07311 terB_like_1 tellurium resistance terB-like protein, subgroup 1. This family includes several uncharacterized bacterial proteins. The prototype of this CD is tellurite resistance protein from Nostoc punctiforme that belongs to COG3793. Its precise biological function and its mechanism responsible for tellurium resistance still remains rather poorly understood.
Probab=33.81 E-value=1.7e+02 Score=21.97 Aligned_cols=91 Identities=10% Similarity=0.052 Sum_probs=52.4
Q ss_pred CCCcchHHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHH-HHHHHHHhcCCCCCccchHHHHH
Q 031969 3 KLSRSNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRH-LEELYNRYKDPYLDMILVDGITL 81 (150)
Q Consensus 3 ~l~~~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~-l~~lFd~Y~d~~~d~I~~dG~~~ 81 (150)
+.+..+.+.++.++.-.|.++......++. .-+.+++.|...-.......... ++.+-=-|+|..-+.-.-+=+.+
T Consensus 39 ~Vse~Ei~~~~~~m~~~~L~~e~~~~aie~---~~~~~L~~~~~~~~~~~~~~~~ll~~~l~vA~ADG~l~~~E~~lL~~ 115 (150)
T cd07311 39 VISPEERDWAIGYAAARGGDADMVEELKEY---TADEDLEEVDFRSPNIKSSRRALLYDAIQVCAADGELSPGEVAAVRK 115 (150)
T ss_pred CCCHHHHHHHHHHHHHcCCCHHHHHHHHHh---CccccHHHHHHHHHhcchhHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 356677788888888778888877777777 33455555532211101111122 22222234453324455566788
Q ss_pred HHhhcCCCCCcHHHH
Q 031969 82 LCNDLQVDPQDIVML 96 (150)
Q Consensus 82 ~~edLgv~ped~~~L 96 (150)
.|.-||+++.++.-|
T Consensus 116 iA~~LGis~~~~~~l 130 (150)
T cd07311 116 AASLLGISEDEVQKL 130 (150)
T ss_pred HHHHcCCCHHHHHHH
Confidence 999999998766543
No 132
>cd00383 trans_reg_C Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and a response regulator. The former autophosphorylates in a histidine residue on detecting an external stimulus. The phosphate is then transferred to an invariant aspartate residue in a highly conserved receiver domain of the response regulator. Phosphorylation activates a variable effector domain of the response regulator, which triggers the cellular response. The C-terminal effector domain contains DNA and RNA polymerase binding sites. Several dimers or monomers bind head to tail to small tandem repeats upstream of the genes. The RNA polymerase binding sites interact with the alpha or sigma subunite of RNA polymerase.
Probab=33.34 E-value=94 Score=20.20 Aligned_cols=57 Identities=12% Similarity=0.094 Sum_probs=38.6
Q ss_pred cCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCC-CCHHHHHHHHHHHHHHcCC
Q 031969 86 LQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGI-DSLDKFRERISFMRAELKD 143 (150)
Q Consensus 86 Lgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~-dsi~~lk~~l~~l~~~l~~ 143 (150)
--|.+..-...+|+.++..+. -.+||++..+-+-.-.- .+-..++..|..||+.|..
T Consensus 20 ~~v~Lt~~e~~lL~~L~~~~~-~~vs~~~l~~~lw~~~~~~~~~~l~~~I~rLRkkl~~ 77 (95)
T cd00383 20 EPVELTPKEFELLELLARNPG-RVLSREQLLEAVWGDDYDVDDRTVDVHISRLRKKLED 77 (95)
T ss_pred EEEEeCHHHHHHHHHHHhCCC-CcCCHHHHHHHhcCCCCCCCcccHHHHHHHHHHHhcc
Confidence 334455555666777776654 36899999886433222 3567799999999999954
No 133
>PF14518 Haem_oxygenas_2: Iron-containing redox enzyme; PDB: 3BJD_B.
Probab=33.34 E-value=98 Score=20.96 Aligned_cols=32 Identities=13% Similarity=0.149 Sum_probs=15.2
Q ss_pred HHHHHHhcCCCCCccchHHHHHHHhhcCCCCC
Q 031969 60 EELYNRYKDPYLDMILVDGITLLCNDLQVDPQ 91 (150)
Q Consensus 60 ~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~pe 91 (150)
..++|.+-+.+++..=+.=..+|+..+|++++
T Consensus 3 ~nl~dE~G~G~~~~~H~~Lf~~~L~~~Gi~~~ 34 (106)
T PF14518_consen 3 ENLWDEMGNGDPERSHPELFRRFLRALGIDDE 34 (106)
T ss_dssp HHHHHHTTTT-GGG-HHHHHHHHHHHTT----
T ss_pred HHHHHHhCCCCccccHHHHHHHHHHHcCCCCc
Confidence 34555554333333444556788888888876
No 134
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=33.17 E-value=42 Score=22.56 Aligned_cols=86 Identities=14% Similarity=0.151 Sum_probs=51.9
Q ss_pred HHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCC
Q 031969 12 LQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQ 91 (150)
Q Consensus 12 i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~pe 91 (150)
|.+++.++|++..+-+.|-+ .++=- + . ..+.+...-++. |.--..-+..+..|+|++++
T Consensus 4 i~e~A~~~gvs~~tLr~ye~-~Gli~--p---~-r~~~g~R~y~~~--------------dv~~l~~i~~L~~d~g~~l~ 62 (91)
T cd04766 4 ISVAAELSGMHPQTLRLYER-LGLLS--P---S-RTDGGTRRYSER--------------DIERLRRIQRLTQELGVNLA 62 (91)
T ss_pred HHHHHHHHCcCHHHHHHHHH-CCCcC--C---C-cCCCCCeeECHH--------------HHHHHHHHHHHHHHcCCCHH
Confidence 67899999999999888855 56521 1 0 111110000111 22233456667778999999
Q ss_pred cHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHHHHHHHHHcC
Q 031969 92 DIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRERISFMRAELK 142 (150)
Q Consensus 92 d~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l~~l~~~l~ 142 (150)
++..+.- =.+-++.|++.|..|++.++
T Consensus 63 ~i~~~l~------------------------l~~~~~~l~~~l~~l~~~~~ 89 (91)
T cd04766 63 GVKRILE------------------------LEEELAELRAELDELRARLR 89 (91)
T ss_pred HHHHHHH------------------------HHHHHHHHHHHHHHHHHHhc
Confidence 8766553 12347778888888877764
No 135
>cd03019 DsbA_DsbA DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol oxidant known, due to the unusual stability of the thiolate anion form of the first cysteine in the CXXC motif. The highly unstable oxidized form of DsbA directly donates disulfide bonds to reduced proteins secreted into the bacterial periplasm. This rapid and unidirectional process helps to catalyze the folding of newly-synthesized polypeptides. To regain catalytic activity, reduced DsbA is then reoxidized by the membrane protein DsbB, which generates its disulfides from oxidized quinones, which in turn are reoxidized by the electron transport chain.
Probab=33.00 E-value=42 Score=24.45 Aligned_cols=35 Identities=14% Similarity=0.155 Sum_probs=26.7
Q ss_pred HHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCc
Q 031969 58 HLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQD 92 (150)
Q Consensus 58 ~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped 92 (150)
-...+|..+...+.+..+.+.+.++++++|++++.
T Consensus 81 ~~~~lf~~~~~~~~~~~~~~~l~~~a~~~Gl~~~~ 115 (178)
T cd03019 81 LHAALFEAIHEKRKRLLDPDDIRKIFLSQGVDKKK 115 (178)
T ss_pred hhHHHHHHHHHhCCCCCCHHHHHHHHHHhCCCHHH
Confidence 35668888776555556688999999999998764
No 136
>KOG0041 consensus Predicted Ca2+-binding protein, EF-Hand protein superfamily [General function prediction only]
Probab=32.94 E-value=1.6e+02 Score=23.96 Aligned_cols=64 Identities=11% Similarity=0.146 Sum_probs=46.8
Q ss_pred HHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhH
Q 031969 57 RHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQ 120 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~ 120 (150)
+.+...|.+|-...+..|+.--+-+++|.||..-..+..=-+--.+--..-|.+|-.+|+--..
T Consensus 99 k~~~~~Fk~yDe~rDgfIdl~ELK~mmEKLgapQTHL~lK~mikeVded~dgklSfreflLIfr 162 (244)
T KOG0041|consen 99 KDAESMFKQYDEDRDGFIDLMELKRMMEKLGAPQTHLGLKNMIKEVDEDFDGKLSFREFLLIFR 162 (244)
T ss_pred HHHHHHHHHhcccccccccHHHHHHHHHHhCCchhhHHHHHHHHHhhcccccchhHHHHHHHHH
Confidence 5677889999765556999999999999999887766554444444455568888777765443
No 137
>cd03518 Link_domain_HAPLN_module_1 Link_domain_HAPLN_module_1; this link domain is found in the first link module of proteins similar to the vertebrate HAPLN (hyaluronan/HA and proteoglycan binding link) protein family which includes cartilage link protein. The link domain is a HA-binding domain. HAPLNs contain two contiguous link modules. Both link modules of cartilage link protein are involved in interaction with HA. In cartilage, a chondroitin sulfate proteoglycan core protein (CSPG) aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates with other CSPGs substituting for aggregan may contribute to the structural integrity of many different tissues. Members of the vertebrate HAPLN gene family are physically linked adjacent to CSPG genes.
Probab=32.72 E-value=77 Score=22.31 Aligned_cols=40 Identities=10% Similarity=0.161 Sum_probs=33.2
Q ss_pred hcCCCCC-ccchHHHHHHHhhcCCCCCcHHHHHHHHhhccc
Q 031969 66 YKDPYLD-MILVDGITLLCNDLQVDPQDIVMLVVSWHMKAA 105 (150)
Q Consensus 66 Y~d~~~d-~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~ 105 (150)
|+.+.+. .+.-+...+.|+.+|..+..+.-|-.||+.|=.
T Consensus 5 ~~~~~grY~l~f~eA~~aC~~~ga~lAs~~QL~~Aw~~Gld 45 (95)
T cd03518 5 YQPRLGRYNLNFHEAQQACEEQDATLASFEQLYQAWTEGLD 45 (95)
T ss_pred eeCCCCccccCHHHHHHHHHHcCCeeCCHHHHHHHHHcCcc
Confidence 4554442 688899999999999999999999999997754
No 138
>PF12636 DUF3781: Protein of unknown function (DUF3781); InterPro: IPR024229 This family of functionally uncharacterised proteins is found in bacteria and archaea. These proteins are typically between 82 and 98 amino acids in length and have two conserved sequence motifs: GKNWY and ITA.
Probab=32.59 E-value=44 Score=22.48 Aligned_cols=37 Identities=14% Similarity=0.224 Sum_probs=27.2
Q ss_pred hHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHH
Q 031969 76 VDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQE 114 (150)
Q Consensus 76 ~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~e 114 (150)
.-|.+|.=..||++.+|++-.|-.-.+. .-+.|+|.|
T Consensus 12 ~lG~~RIkrNL~l~~~dvVe~ck~~I~~--~~a~I~rkG 48 (73)
T PF12636_consen 12 ELGVVRIKRNLGLDTSDVVEWCKNKILD--PNAKITRKG 48 (73)
T ss_pred HHHHHHHHhcCCCCcccHHHHHHHHHcC--chhhhhcCC
Confidence 3588999999999999997766665554 445566654
No 139
>PF14788 EF-hand_10: EF hand; PDB: 1DJW_B 1DJI_B 1DJG_B 1QAS_B 2ISD_B 1DJZ_B 1DJY_B 1DJX_B 1QAT_A 1DJH_A ....
Probab=32.41 E-value=1.3e+02 Score=18.78 Aligned_cols=48 Identities=8% Similarity=0.043 Sum_probs=31.7
Q ss_pred cchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHH
Q 031969 74 ILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQS 121 (150)
Q Consensus 74 I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~ 121 (150)
+...-+.+++.-++|++++--...|-..+--..-|....+||+.-.+.
T Consensus 2 msf~Evk~lLk~~NI~~~~~yA~~LFq~~D~s~~g~Le~~Ef~~Fy~~ 49 (51)
T PF14788_consen 2 MSFKEVKKLLKMMNIEMDDEYARQLFQECDKSQSGRLEGEEFEEFYKR 49 (51)
T ss_dssp BEHHHHHHHHHHTT----HHHHHHHHHHH-SSSSSEBEHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHccCcCHHHHHHHHHHhcccCCCCccHHHHHHHHHH
Confidence 344567788888888888877777777777777788888888876554
No 140
>COG5296 Transcription factor involved in TATA site selection and in elongation by RNA polymerase II [Transcription]
Probab=32.28 E-value=72 Score=28.41 Aligned_cols=36 Identities=17% Similarity=0.297 Sum_probs=32.2
Q ss_pred cccccHHHHHHHhHHcCCC-----CHHHHHHHHHHHHHHcC
Q 031969 107 MCEFSKQEFIGGLQSLGID-----SLDKFRERISFMRAELK 142 (150)
Q Consensus 107 ~g~~tr~eF~~g~~~l~~d-----si~~lk~~l~~l~~~l~ 142 (150)
=|.|.+++|-.-|..+..+ |+.++++++..|++-+.
T Consensus 298 n~pf~~~eyQr~~r~~~~~kl~~PS~~~v~~k~~~l~d~~~ 338 (521)
T COG5296 298 NSPFLREEYQRVWRSFKVGKLSMPSIAKVKEKYDKLVDTMG 338 (521)
T ss_pred CCcccHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHhC
Confidence 4779999999999999998 99999999999988663
No 141
>COG5503 Uncharacterized conserved small protein [Function unknown]
Probab=32.19 E-value=33 Score=22.72 Aligned_cols=18 Identities=33% Similarity=0.403 Sum_probs=15.3
Q ss_pred CHHHHHHHHHhCCCCchh
Q 031969 22 SEKAALQALKASDWHLEG 39 (150)
Q Consensus 22 ~~~~A~~~L~~~~w~le~ 39 (150)
++..|+++|+.+++|+|-
T Consensus 29 se~~vR~ll~e~~yniEF 46 (69)
T COG5503 29 SETKVRQLLKENNYNIEF 46 (69)
T ss_pred hHHHHHHHHhccCcceEE
Confidence 567799999999999863
No 142
>PF07299 FBP: Fibronectin-binding protein (FBP); InterPro: IPR010841 This entry consists of several bacterial fibronectin-binding proteins which are thought to be involved in virulence in Listeria species [,].; PDB: 4ADO_B 4ADN_B 2YB5_F.
Probab=31.80 E-value=24 Score=28.30 Aligned_cols=52 Identities=15% Similarity=0.247 Sum_probs=33.3
Q ss_pred CCCcchHHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhc
Q 031969 3 KLSRSNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYK 67 (150)
Q Consensus 3 ~l~~~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~ 67 (150)
.++.+|++++.++..++ +.+.|.+||+.-. .-|-. .+..+.+.|.+||-+=|
T Consensus 47 ~~~~eq~~ll~~i~~i~--~~~~~~~~L~~L~----~yV~p-------F~~~t~~qi~kLF~K~K 98 (208)
T PF07299_consen 47 ELTEEQKELLEQIMDIK--TREEAEKYLEELK----PYVIP-------FPPITEKQIKKLFPKAK 98 (208)
T ss_dssp TTTHHHCCHHHHHTSTT---HHHHHHHHHHHH----CCB--------------HHHHHHHTTTSS
T ss_pred cCCHHHHHHHHHHhccC--CHHHHHHHHHHHH----HHhcC-------CCCCCHHHHHHHhhhhh
Confidence 46778888888888887 8888999998522 22222 24567899999997654
No 143
>TIGR02384 RelB_DinJ addiction module antitoxin, RelB/DinJ family. Plasmids may be maintained stably in bacterial populations through the action of addiction modules, in which a toxin and antidote are encoded in a cassette on the plasmid. In any daughter cell that lacks the plasmid, the toxin persists and is lethal after the antidote protein is depleted. Toxin/antitoxin pairs are also found on main chromosomes, and likely represent selfish DNA. Sequences in the seed for this alignment all were found adjacent to toxin genes. The resulting model appears to describe a narrower set of proteins than Pfam model pfam04221, although many in the scope of this model are not obviously paired with toxin proteins. Several toxin/antitoxin pairs may occur in a single species.
Probab=31.46 E-value=44 Score=22.60 Aligned_cols=30 Identities=7% Similarity=0.223 Sum_probs=24.7
Q ss_pred HHHHHHhhcCCCCCcHHHHHHHHhhccccc
Q 031969 78 GITLLCNDLQVDPQDIVMLVVSWHMKAATM 107 (150)
Q Consensus 78 G~~~~~edLgv~ped~~~LvLa~~l~a~~~ 107 (150)
-..+.|++||+++.+.+-+.+.+...-..+
T Consensus 16 ~a~~i~~~lGl~~s~ai~~fl~qvv~~~~l 45 (83)
T TIGR02384 16 EAYAVFEELGLTPSTAIRMFLKQVIREQGL 45 (83)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHHHhCCC
Confidence 456779999999999999999988766553
No 144
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=31.36 E-value=1.5e+02 Score=21.22 Aligned_cols=60 Identities=15% Similarity=0.321 Sum_probs=41.9
Q ss_pred HHHHHHhhcCCCCCcHH-HHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHH-HHHHHHHc
Q 031969 78 GITLLCNDLQVDPQDIV-MLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRER-ISFMRAEL 141 (150)
Q Consensus 78 G~~~~~edLgv~ped~~-~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~-l~~l~~~l 141 (150)
|=.++...+|+++..+. .-.+|.++..+.|| ..|..=+..-|++|+++|.+. -.+|.+.+
T Consensus 31 ~r~~La~~~~i~~~~l~~w~~~AdL~ri~gi~----~~~a~LL~~AGv~Tv~~LA~~~p~~L~~~l 92 (122)
T PF14229_consen 31 GRKALAKKLGISERNLLKWVNQADLMRIPGIG----PQYAELLEHAGVDTVEELAQRNPQNLHQKL 92 (122)
T ss_pred HHHHHHHhcCCCHHHHHHHHhHHHhhhcCCCC----HHHHHHHHHhCcCcHHHHHhCCHHHHHHHH
Confidence 44558999999998765 44577777777774 567777888899998877663 34444433
No 145
>PF08986 DUF1889: Domain of unknown function (DUF1889); InterPro: IPR015079 This family consist of hypothetical bacterial proteins. ; PDB: 2JN8_A 2ES9_A.
Probab=31.07 E-value=24 Score=25.25 Aligned_cols=20 Identities=25% Similarity=0.247 Sum_probs=14.1
Q ss_pred CccchHHHHHHHhhcCCCCC
Q 031969 72 DMILVDGITLLCNDLQVDPQ 91 (150)
Q Consensus 72 d~I~~dG~~~~~edLgv~pe 91 (150)
|+-...||.+|+.+|||...
T Consensus 46 dESTAKGi~KyL~elGvPas 65 (119)
T PF08986_consen 46 DESTAKGIFKYLKELGVPAS 65 (119)
T ss_dssp CCHHHHHHHHHHHHCT----
T ss_pred chHHHHHHHHHHHHcCCCCC
Confidence 45678899999999999754
No 146
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=30.95 E-value=1.8e+02 Score=20.14 Aligned_cols=67 Identities=10% Similarity=-0.020 Sum_probs=38.4
Q ss_pred HHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCC
Q 031969 12 LQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQ 91 (150)
Q Consensus 12 i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~pe 91 (150)
|.++...+|+|..+-+.| ++.+ -+..+. .+.++ |+.=+++.|.-=-.++.+.++|++++
T Consensus 3 i~e~a~~~gvs~~tlr~y-e~~g-ll~~~~----r~~~g---------------yR~Y~~~~l~~l~~I~~lr~~G~sL~ 61 (113)
T cd01109 3 IKEVAEKTGLSADTLRYY-EKEG-LLPPVK----RDENG---------------IRDFTEEDLEWLEFIKCLRNTGMSIK 61 (113)
T ss_pred HHHHHHHHCcCHHHHHHH-HHCC-CCCCCC----cCCCC---------------CccCCHHHHHHHHHHHHHHHcCCCHH
Confidence 788999999999987766 4433 221110 11111 11001112222256778889999999
Q ss_pred cHHHHHHH
Q 031969 92 DIVMLVVS 99 (150)
Q Consensus 92 d~~~LvLa 99 (150)
++..+.-.
T Consensus 62 eI~~~l~~ 69 (113)
T cd01109 62 DIKEYAEL 69 (113)
T ss_pred HHHHHHHH
Confidence 98876543
No 147
>CHL00173 cpeA phycoerythrin alpha subunit; Provisional
Probab=30.73 E-value=1.8e+02 Score=22.31 Aligned_cols=90 Identities=16% Similarity=0.102 Sum_probs=56.4
Q ss_pred CCcchHHHHHHHHHHhCCCHHHHHHHHHhCCCCc-hhhhhhhhcc-C-----CCCC--cCCHHHHHHHHHHhc-------
Q 031969 4 LSRSNRDKLQQFVSITGASEKAALQALKASDWHL-EGAFDVFYSQ-P-----QSKS--LTDTRHLEELYNRYK------- 67 (150)
Q Consensus 4 l~~~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~l-e~Ai~~f~~~-~-----~~~~--~~~~~~l~~lFd~Y~------- 67 (150)
||..+-+.|+.|.+--++.-+.|. .|..+-=.+ +.|.+..|.. | .+.. .....++..=++.|-
T Consensus 19 ls~~eL~~l~~~~~~a~~rl~aa~-~L~~na~~iV~~A~~~l~~~~P~l~~pGG~~y~~~r~aaC~RD~~~yLR~itY~l 97 (164)
T CHL00173 19 PSSSDLESVQGNIQRAAARLEAAE-KLASNHEAVVKEAGDACFAKYSYLKNPGEAGDSQEKVNKCYRDVDHYMRLVNYCL 97 (164)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCccchHHHHHHHHHHHHHHHHHHHH
Confidence 556666667777655444444444 455544444 8888888864 2 1111 112356666666652
Q ss_pred ---CCCC-CccchHHHHHHHhhcCCCCCcHH
Q 031969 68 ---DPYL-DMILVDGITLLCNDLQVDPQDIV 94 (150)
Q Consensus 68 ---d~~~-d~I~~dG~~~~~edLgv~ped~~ 94 (150)
+..+ |.+++.|+-..-..|||.+...+
T Consensus 98 ~aG~~~~lde~gl~Glre~Y~sLgVP~~~~v 128 (164)
T CHL00173 98 VVGGTGPVDEWGIAGAREVYRTLNLPTSAYV 128 (164)
T ss_pred hcCCCccccHHHHhHHHHHHHHhCCCHHHHH
Confidence 3344 78999999999999999987654
No 148
>PRK03430 hypothetical protein; Validated
Probab=30.00 E-value=48 Score=25.39 Aligned_cols=36 Identities=19% Similarity=0.104 Sum_probs=28.5
Q ss_pred HHHHHHHhcCCCC-CccchHHHHHHHhhcCCCCCcHH
Q 031969 59 LEELYNRYKDPYL-DMILVDGITLLCNDLQVDPQDIV 94 (150)
Q Consensus 59 l~~lFd~Y~d~~~-d~I~~dG~~~~~edLgv~ped~~ 94 (150)
|-=||+.|...+. -..+.+.+.+-+.+.|.+.+++-
T Consensus 5 L~YLFEnY~~~d~~~~pd~~~L~~~L~~aGF~~~eI~ 41 (157)
T PRK03430 5 LMYLFETYIHNEAELRVDQDKLEDDLTDAGFHREDIY 41 (157)
T ss_pred hhHHHHHhhccccccCCCHHHHHHHHHHcCCCHHHHH
Confidence 3448999995444 37889999999999999998765
No 149
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=29.87 E-value=91 Score=16.85 Aligned_cols=20 Identities=15% Similarity=0.190 Sum_probs=16.0
Q ss_pred ccchHHHHHHHhhcCCCCCc
Q 031969 73 MILVDGITLLCNDLQVDPQD 92 (150)
Q Consensus 73 ~I~~dG~~~~~edLgv~ped 92 (150)
.+..+-+.++|+-+|++|+.
T Consensus 36 ~~~~~~~~~i~~~~~~~~~~ 55 (56)
T smart00530 36 KPSLETLKKLAKALGVSLDE 55 (56)
T ss_pred CCCHHHHHHHHHHhCCChhh
Confidence 45777888899999998864
No 150
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=29.86 E-value=2e+02 Score=20.18 Aligned_cols=67 Identities=10% Similarity=0.011 Sum_probs=37.8
Q ss_pred HHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCC
Q 031969 12 LQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQ 91 (150)
Q Consensus 12 i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~pe 91 (150)
|.+|...||++..+-+. -++-+ =|.-+. .++.+...-+.. .|..=-.++++.++|++++
T Consensus 3 I~eva~~~gvs~~tLRy-Ye~~G-Ll~p~~----r~~~gyR~Y~~~---------------~i~~l~~I~~lr~~G~sl~ 61 (123)
T cd04770 3 IGELAKAAGVSPDTIRY-YERIG-LLPPPQ----RSENGYRLYGEA---------------DLARLRFIRRAQALGFSLA 61 (123)
T ss_pred HHHHHHHHCcCHHHHHH-HHHCC-CCCCCC----CCCCCCccCCHH---------------HHHHHHHHHHHHHCCCCHH
Confidence 78999999999986554 44433 111000 011110011112 2333367788899999999
Q ss_pred cHHHHHHH
Q 031969 92 DIVMLVVS 99 (150)
Q Consensus 92 d~~~LvLa 99 (150)
++..+.=.
T Consensus 62 eI~~~l~~ 69 (123)
T cd04770 62 EIRELLSL 69 (123)
T ss_pred HHHHHHHh
Confidence 98876533
No 151
>TIGR03685 L21P_arch 50S ribosomal protein L12P. This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome.
Probab=29.85 E-value=79 Score=22.51 Aligned_cols=36 Identities=6% Similarity=0.093 Sum_probs=31.9
Q ss_pred CccchHHHHHHHhhcCCCCCcHHHHHHHHhhccccc
Q 031969 72 DMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATM 107 (150)
Q Consensus 72 d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~ 107 (150)
..|+.+.|.+.++.-||+++...+..|+-.|.-..+
T Consensus 15 ~~iT~e~I~~IL~AAGv~ve~~~~~~la~~L~gk~i 50 (105)
T TIGR03685 15 KEINEENLKAVLEAAGVEVDEARVKALVAALEGVNI 50 (105)
T ss_pred CCCCHHHHHHHHHHhCCcccHHHHHHHHHHHcCCCH
Confidence 479999999999999999999999999988876554
No 152
>PRK14563 ribosome modulation factor; Provisional
Probab=29.84 E-value=40 Score=21.44 Aligned_cols=19 Identities=11% Similarity=0.268 Sum_probs=14.0
Q ss_pred ccccccccHHHHHHHhHHc
Q 031969 104 AATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 104 a~~~g~~tr~eF~~g~~~l 122 (150)
||-...-.|..|+.||..=
T Consensus 29 CPy~~~~~r~~Wl~GWReg 47 (55)
T PRK14563 29 CPYQTLDARSQWLGGWREA 47 (55)
T ss_pred CCCCCcHHHHHHHHHHHHH
Confidence 4545455699999999874
No 153
>PRK13288 pyrophosphatase PpaX; Provisional
Probab=29.29 E-value=1.4e+02 Score=22.58 Aligned_cols=63 Identities=6% Similarity=0.003 Sum_probs=39.2
Q ss_pred ccchHHHHHHHhhcCCCCCcHH-------HHHHHHhhccccccc----ccHHHHHHHhHHcCCCCHHHHHHHHH
Q 031969 73 MILVDGITLLCNDLQVDPQDIV-------MLVVSWHMKAATMCE----FSKQEFIGGLQSLGIDSLDKFRERIS 135 (150)
Q Consensus 73 ~I~~dG~~~~~edLgv~ped~~-------~LvLa~~l~a~~~g~----~tr~eF~~g~~~l~~dsi~~lk~~l~ 135 (150)
+-.++.+.+.++.+|++|++.. =+.-|...|.+..|. -++++...--...-++++.++-..+.
T Consensus 138 Kp~p~~~~~~~~~~~~~~~~~~~iGDs~~Di~aa~~aG~~~i~v~~g~~~~~~l~~~~~~~~i~~~~~l~~~i~ 211 (214)
T PRK13288 138 KPDPEPVLKALELLGAKPEEALMVGDNHHDILAGKNAGTKTAGVAWTIKGREYLEQYKPDFMLDKMSDLLAIVG 211 (214)
T ss_pred CCCcHHHHHHHHHcCCCHHHEEEECCCHHHHHHHHHCCCeEEEEcCCCCCHHHHhhcCcCEEECCHHHHHHHHh
Confidence 4567889999999999886654 455677778876643 23444332212234566766655443
No 154
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=29.19 E-value=41 Score=22.57 Aligned_cols=60 Identities=18% Similarity=0.262 Sum_probs=37.5
Q ss_pred HHHHHHHhCCCHHHHHHHHHhCCCCchhhh--hhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCC
Q 031969 12 LQQFVSITGASEKAALQALKASDWHLEGAF--DVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVD 89 (150)
Q Consensus 12 i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai--~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ 89 (150)
+.+||..+|.+++.-. -|-..+|=-..-. ..||+. .+.--..-+.++..|||++
T Consensus 3 ~~e~~~~~~i~~~~l~-~lve~Gli~p~~~~~~~~f~~-----------------------~~l~rl~~~~rL~~Dl~in 58 (84)
T PF13591_consen 3 LEEFCEACGIEPEFLR-ELVEEGLIEPEGEEEEWYFSE-----------------------EDLARLRRIRRLHRDLGIN 58 (84)
T ss_pred HHHHHHHHCcCHHHHH-HHHHCCCeeecCCCCeeeECH-----------------------HHHHHHHHHHHHHHHcCCC
Confidence 6899999999988744 4566777221100 111111 1233456788899999999
Q ss_pred CCcHHH
Q 031969 90 PQDIVM 95 (150)
Q Consensus 90 ped~~~ 95 (150)
++.+.+
T Consensus 59 ~~gi~l 64 (84)
T PF13591_consen 59 LEGIAL 64 (84)
T ss_pred HHHHHH
Confidence 987553
No 155
>PF04337 DUF480: Protein of unknown function, DUF480; InterPro: IPR007432 This family consists of several proteins of uncharacterised function.; PDB: 3BZ6_A.
Probab=28.95 E-value=45 Score=25.40 Aligned_cols=55 Identities=18% Similarity=0.322 Sum_probs=39.0
Q ss_pred HHHhhcCCCCCcHHHHHHHHhhccccccccc-HHHHHHHhHHcCCCCHHHHHHHHHHHHHH
Q 031969 81 LLCNDLQVDPQDIVMLVVSWHMKAATMCEFS-KQEFIGGLQSLGIDSLDKFRERISFMRAE 140 (150)
Q Consensus 81 ~~~edLgv~ped~~~LvLa~~l~a~~~g~~t-r~eF~~g~~~l~~dsi~~lk~~l~~l~~~ 140 (150)
+||+-|++++....+|++..+=|..+.|++- |.+=+ ...++++.....|..|...
T Consensus 79 r~~~~l~l~~~e~All~~LlLRGpQT~GELR~Rs~Rl-----~~F~d~~~Ve~~L~~L~~r 134 (148)
T PF04337_consen 79 RFCNTLQLSPQELALLCLLLLRGPQTPGELRTRSERL-----HEFADVAEVEAVLERLAER 134 (148)
T ss_dssp -HHHHHT--HHHHHHHHHHHHH-SB-HHHHHHHHTTT-----S--SSHHHHHHHHHHHHHT
T ss_pred hhhhhcCCCHHHHHHHHHHHHcCCCchhHHHhhhccc-----cCCCCHHHHHHHHHHHHhc
Confidence 6888999999999999999999999998863 54422 2468899999998888664
No 156
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=28.81 E-value=1.1e+02 Score=19.36 Aligned_cols=36 Identities=8% Similarity=0.202 Sum_probs=22.3
Q ss_pred HHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcH
Q 031969 57 RHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDI 93 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~ 93 (150)
..|++.|++-.=- -..++.+-...||.+|||+..-+
T Consensus 14 ~~Le~~fe~~~y~-~~~~~~~~r~~la~~lgl~~~vv 49 (58)
T TIGR01565 14 EKMRDFAEKLGWK-LKDKRREEVREFCEEIGVTRKVF 49 (58)
T ss_pred HHHHHHHHHcCCC-CCCCCHHHHHHHHHHhCCCHHHe
Confidence 4455555542210 01256778899999999987644
No 157
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=28.78 E-value=32 Score=31.78 Aligned_cols=19 Identities=32% Similarity=0.265 Sum_probs=16.2
Q ss_pred hCCCHHHHHHHHHhCCCCc
Q 031969 19 TGASEKAALQALKASDWHL 37 (150)
Q Consensus 19 T~~~~~~A~~~L~~~~w~l 37 (150)
|.-|-++|+.+|+.+||.|
T Consensus 288 TddSvevaI~flkecGakL 306 (739)
T KOG2140|consen 288 TDDSVEVAIAFLKECGAKL 306 (739)
T ss_pred CCchHHHHHHHHHHHHHHH
Confidence 4556789999999999988
No 158
>PF07647 SAM_2: SAM domain (Sterile alpha motif); InterPro: IPR011510 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents a second domain related to the SAM domain. ; GO: 0005515 protein binding; PDB: 1B0X_A 1X9X_B 1OW5_A 1V38_A 3BS7_A 3BS5_A 3TAD_A 3TAC_B 2K60_A 2DL0_A ....
Probab=28.51 E-value=1.5e+02 Score=18.19 Aligned_cols=59 Identities=12% Similarity=0.216 Sum_probs=37.9
Q ss_pred cchHHHHHHHhhcCCCCCcHHHHHHHHhhcc-cccccccHHHHHHHhHHcCCCCHHHHHHHHHHHH
Q 031969 74 ILVDGITLLCNDLQVDPQDIVMLVVSWHMKA-ATMCEFSKQEFIGGLQSLGIDSLDKFRERISFMR 138 (150)
Q Consensus 74 I~~dG~~~~~edLgv~ped~~~LvLa~~l~a-~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l~~l~ 138 (150)
-+++.+.+++..+|+ +...-.....-+.- ..+-.+|.+.. .++|+.+...-++-+..++
T Consensus 4 w~~~~v~~WL~~~gl--~~y~~~f~~~~i~g~~~L~~l~~~~L----~~lGI~~~~~r~kll~~i~ 63 (66)
T PF07647_consen 4 WSPEDVAEWLKSLGL--EQYADNFRENGIDGLEDLLQLTEEDL----KELGITNLGHRRKLLSAIQ 63 (66)
T ss_dssp HCHHHHHHHHHHTTC--GGGHHHHHHTTCSHHHHHTTSCHHHH----HHTTTTHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHCCc--HHHHHHHHHcCCcHHHHHhhCCHHHH----HHcCCCCHHHHHHHHHHHH
Confidence 456788889998888 44444444443333 55667777755 4788888777665555443
No 159
>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.
Probab=27.90 E-value=2.2e+02 Score=20.02 Aligned_cols=76 Identities=14% Similarity=0.147 Sum_probs=47.5
Q ss_pred hHHHHHHHHHH-hCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcC------CCCCccchHHH-
Q 031969 8 NRDKLQQFVSI-TGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKD------PYLDMILVDGI- 79 (150)
Q Consensus 8 ~~~~i~~F~~i-T~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d------~~~d~I~~dG~- 79 (150)
+...+..|..+ ..|+.+....+|++++ ....=+.-|+.... .++.| +++.+..+ .++...|+.-+
T Consensus 13 ~~~~l~~llr~~N~C~~~~~e~~L~~~~-~~~eL~~lY~~kg~-----h~~AL-~ll~~l~~~~~~~~~~~~~~~~~~~i 85 (108)
T PF10366_consen 13 NPSLLGPLLRLPNYCDLEEVEEVLKEHG-KYQELVDLYQGKGL-----HRKAL-ELLKKLADEEDSDEEDPFLSGVKETI 85 (108)
T ss_pred CHHHHHHHHccCCcCCHHHHHHHHHHcC-CHHHHHHHHHccCc-----cHHHH-HHHHHHhcccccccccccccCchhHH
Confidence 45678888888 5678888999999887 56444444443332 34444 44444444 12234555555
Q ss_pred HHHHhhcCCCC
Q 031969 80 TLLCNDLQVDP 90 (150)
Q Consensus 80 ~~~~edLgv~p 90 (150)
++|+..||-+-
T Consensus 86 v~yL~~L~~~~ 96 (108)
T PF10366_consen 86 VQYLQKLGNED 96 (108)
T ss_pred HHHHHhCChhh
Confidence 99999998543
No 160
>COG5424 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]
Probab=27.89 E-value=62 Score=26.60 Aligned_cols=67 Identities=16% Similarity=0.101 Sum_probs=42.7
Q ss_pred HHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHH---HHHHHHhhcccccccccHHHHHHHhHHcC
Q 031969 56 TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIV---MLVVSWHMKAATMCEFSKQEFIGGLQSLG 123 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~---~LvLa~~l~a~~~g~~tr~eF~~g~~~l~ 123 (150)
...++.+.+.+....+ .=.+|=..++.+.|||+|+.+. ++-.+...-..-++.-+++-|+.|+..+.
T Consensus 75 ~~~leni~de~~g~~e-~~hidlwlr~aeAlGvs~eei~s~eplp~~~~av~~~~~~a~~~s~~~~~asly 144 (242)
T COG5424 75 REWLENIMDEDNGYNE-PNHIDLWLRLAEALGVSREEILSHEPLPSTRFAVDTWVRFATEKSWLEGAASLY 144 (242)
T ss_pred HHHHHHHHHHhcCCCC-ccHHHHHHHHHHHcCCCHHHHhhcCCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence 4556777777765433 3445777899999999997654 33333333333345667788888877653
No 161
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=27.80 E-value=69 Score=22.57 Aligned_cols=70 Identities=10% Similarity=0.054 Sum_probs=39.9
Q ss_pred HHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCC
Q 031969 12 LQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQ 91 (150)
Q Consensus 12 i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~pe 91 (150)
|.+|..+||+|..+-+.|=+.-=..- . -.++ + |-.|-. +.+..=-.++.+.++|++++
T Consensus 3 ige~a~~~gvs~~tLryYe~~GLi~p--~----~~~~-~------------yR~Y~~---~d~~~l~~I~~lr~~G~sl~ 60 (116)
T cd04769 3 IGELAQQTGVTIKAIRLYEEKGLLPS--P----KRSG-N------------YRVYDA---QHVECLRFIKEARQLGFTLA 60 (116)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCCCCC--C----CCCC-C------------ceeeCH---HHHHHHHHHHHHHHcCCCHH
Confidence 78899999999998777755411100 0 0000 1 111111 11222245777899999999
Q ss_pred cHHHHHHHHhhc
Q 031969 92 DIVMLVVSWHMK 103 (150)
Q Consensus 92 d~~~LvLa~~l~ 103 (150)
++..+.=.+-.+
T Consensus 61 eI~~~l~~~~~~ 72 (116)
T cd04769 61 ELKAIFAGHEGR 72 (116)
T ss_pred HHHHHHhccccC
Confidence 998765444433
No 162
>PF01323 DSBA: DSBA-like thioredoxin domain; InterPro: IPR001853 DSBA is a sub-family of the Thioredoxin family []. The efficient and correct folding of bacterial disulphide bonded proteins in vivo is dependent upon a class of periplasmic oxidoreductase proteins called DsbA, after the Escherichia coli enzyme. The bacterial protein-folding factor DsbA is the most oxidizing of the thioredoxin family. DsbA catalyses disulphide-bond formation during the folding of secreted proteins. The extremely oxidizing nature of DsbA has been proposed to result from either domain motion or stabilising active-site interactions in the reduced form. DsbA's highly oxidizing nature is a result of hydrogen bond, electrostatic and helix-dipole interactions that favour the thiolate over the disulphide at the active site []. In the pathogenic bacterium Vibrio cholerae, the DsbA homologue (TcpG) is responsible for the folding, maturation and secretion of virulence factors. While the overall architecture of TcpG and DsbA is similar and the surface features are retained in TcpG, there are significant differences. For example, the kinked active site helix results from a three-residue loop in DsbA, but is caused by a proline in TcpG (making TcpG more similar to thioredoxin in this respect). Furthermore, the proposed peptide binding groove of TcpG is substantially shortened compared with that of DsbA due to a six-residue deletion. Also, the hydrophobic pocket of TcpG is more shallow and the acidic patch is much less extensive than that of E. coli DsbA [].; GO: 0015035 protein disulfide oxidoreductase activity; PDB: 3GL5_A 3DKS_D 3RPP_C 3RPN_B 1YZX_A 3L9V_C 2IMD_A 2IME_A 2IMF_A 2B3S_B ....
Probab=27.71 E-value=97 Score=22.81 Aligned_cols=40 Identities=15% Similarity=0.218 Sum_probs=27.7
Q ss_pred HHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHH
Q 031969 56 TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVM 95 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~ 95 (150)
..-...+|..|-....+.-+.+-+...++++|++++.+..
T Consensus 103 ~~~~~al~~a~~~~~~~i~~~~vl~~~~~~~Gld~~~~~~ 142 (193)
T PF01323_consen 103 DAFADALFRAYFVEGRDISDPDVLAEIAEEAGLDPDEFDA 142 (193)
T ss_dssp HHHHHHHHHHHHTSST-TSSHHHHHHHHHHTT--HHHHHH
T ss_pred hHHHHHHHHHHHhcccCCCCHHHHHHHHHHcCCcHHHHHH
Confidence 3556778888877555667777899999999998876543
No 163
>PRK05883 acyl carrier protein; Validated
Probab=27.49 E-value=1.6e+02 Score=19.96 Aligned_cols=71 Identities=14% Similarity=0.225 Sum_probs=45.0
Q ss_pred HHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHHHH
Q 031969 56 TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRERIS 135 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l~ 135 (150)
..+|..++..+-+-+++.|.++- .|.++||+|=-+.+.++. .+.-.--=.|+-+++. ++.|+.++..+|.
T Consensus 16 ~~~l~~iia~~l~v~~~~I~~d~--~l~~dlg~DSL~~v~lv~--~lE~~fgI~i~~ee~~------~~~TV~dl~~~v~ 85 (91)
T PRK05883 16 SATLLSILRDDLNVDLTRVTPDA--RLVDDVGLDSVAFAVGMV--AIEERLGVALSEEDLL------SCDTVGDLEAAIA 85 (91)
T ss_pred HHHHHHHHHHHhCCChhhCCCCC--chhhccCCChHHHHHHHH--HHHHHHCCCcCHHHHH------hCCCHHHHHHHHH
Confidence 45666777776665556676654 777999998766554444 2222212245555543 3788999998886
Q ss_pred H
Q 031969 136 F 136 (150)
Q Consensus 136 ~ 136 (150)
.
T Consensus 86 ~ 86 (91)
T PRK05883 86 A 86 (91)
T ss_pred H
Confidence 5
No 164
>KOG0037 consensus Ca2+-binding protein, EF-Hand protein superfamily [Signal transduction mechanisms]
Probab=27.11 E-value=3.4e+02 Score=22.06 Aligned_cols=67 Identities=10% Similarity=0.032 Sum_probs=52.7
Q ss_pred CHHHHHHHHHHhcCCCC-CccchHHHHHHHhhcCCCCCc-HHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 55 DTRHLEELYNRYKDPYL-DMILVDGITLLCNDLQVDPQD-IVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 55 ~~~~l~~lFd~Y~d~~~-d~I~~dG~~~~~edLgv~ped-~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
....+..+|..= |.+. ..|..+-+++-+...+.+|=+ -.+-.+-.++..+..|.+--+||..=|+.+
T Consensus 55 ~~~~~~~~f~~v-D~d~sg~i~~~eLq~aLsn~~~~~Fs~~TcrlmI~mfd~~~~G~i~f~EF~~Lw~~i 123 (221)
T KOG0037|consen 55 TFPQLAGWFQSV-DRDRSGRILAKELQQALSNGTWSPFSIETCRLMISMFDRDNSGTIGFKEFKALWKYI 123 (221)
T ss_pred ccHHHHHHHHhh-CccccccccHHHHHHHhhcCCCCCCCHHHHHHHHHHhcCCCCCccCHHHHHHHHHHH
Confidence 345777777763 4333 689999999999989999844 456677789999999999999998877775
No 165
>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type.
Probab=27.03 E-value=63 Score=17.00 Aligned_cols=17 Identities=18% Similarity=0.217 Sum_probs=14.0
Q ss_pred CCccchHHHHHHHhhcC
Q 031969 71 LDMILVDGITLLCNDLQ 87 (150)
Q Consensus 71 ~d~I~~dG~~~~~edLg 87 (150)
.+.|+.+|+..+|+-|.
T Consensus 11 ~N~i~~~G~~~L~~~L~ 27 (28)
T smart00368 11 NNKLGDEGARALAEALK 27 (28)
T ss_pred CCCCCHHHHHHHHHHhc
Confidence 46899999999998763
No 166
>PF11219 DUF3014: Protein of unknown function (DUF3014); InterPro: IPR021382 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=26.84 E-value=2.7e+02 Score=21.31 Aligned_cols=78 Identities=14% Similarity=0.175 Sum_probs=54.9
Q ss_pred cCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCC---CcHHHHHHHHhhccccc-ccccH-HHH------------
Q 031969 53 LTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDP---QDIVMLVVSWHMKAATM-CEFSK-QEF------------ 115 (150)
Q Consensus 53 ~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~p---ed~~~LvLa~~l~a~~~-g~~tr-~eF------------ 115 (150)
+.+...+.++|.+|.- =+++-..+||+.. +|..+-+|..+|.+|.. |.+.- ..+
T Consensus 60 s~d~~~~v~~Y~~~~P---------L~qqAy~ElGyp~~~F~d~l~~aid~lL~aP~~~~pi~l~~~~v~Y~yaDp~LE~ 130 (158)
T PF11219_consen 60 SVDADALVALYRRLYP---------LFQQAYAELGYPDRYFNDRLLAAIDHLLAAPEPEGPIELVRPSVRYKYADPELEA 130 (158)
T ss_pred cCCHHHHHHHHHHHHH---------HHHHHHHHhCCCcccHHHHHHHHHHHHHcCCCCCCCceeecCceEEEEcChhhhc
Confidence 4567788888888875 3455567899875 56778899999999875 54432 111
Q ss_pred ----HHHhHHcCCCCHHHHHHHHHHHHH
Q 031969 116 ----IGGLQSLGIDSLDKFRERISFMRA 139 (150)
Q Consensus 116 ----~~g~~~l~~dsi~~lk~~l~~l~~ 139 (150)
-+-|-++|=++...+|++|.+|++
T Consensus 131 Ls~~QK~LlRmGP~N~r~vKakLrelr~ 158 (158)
T PF11219_consen 131 LSAAQKQLLRMGPENARRVKAKLRELRQ 158 (158)
T ss_pred CCHHHHHHHHcCHHHHHHHHHHHHHHhC
Confidence 123556677888999999988863
No 167
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=26.76 E-value=84 Score=28.36 Aligned_cols=37 Identities=24% Similarity=0.271 Sum_probs=31.1
Q ss_pred hHHHHHHHHHHh----CCCHHHHHHHHHhCCCCchhhhhhh
Q 031969 8 NRDKLQQFVSIT----GASEKAALQALKASDWHLEGAFDVF 44 (150)
Q Consensus 8 ~~~~i~~F~~iT----~~~~~~A~~~L~~~~w~le~Ai~~f 44 (150)
+.+++++|+++. |.+..+|.+.|-.|+.|++.|+..-
T Consensus 140 ~D~kL~EYI~~A~~rY~i~ieqAL~iL~~h~~d~d~A~~~l 180 (534)
T KOG1194|consen 140 QDDKLEEYISEAKERYGIPIEQALFILFWHKHDFDLAHADL 180 (534)
T ss_pred cHHHHHHHHHHHHHhcCCcHHHHHHHHHhhcccchHHHHHH
Confidence 345788887765 7899999999999999999998764
No 168
>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin. Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.
Probab=26.75 E-value=1.7e+02 Score=18.29 Aligned_cols=40 Identities=18% Similarity=0.279 Sum_probs=30.4
Q ss_pred hHHHHHHHHHHh-CCCHHHHHHHHHhCCCCchhhhhhhhcc
Q 031969 8 NRDKLQQFVSIT-GASEKAALQALKASDWHLEGAFDVFYSQ 47 (150)
Q Consensus 8 ~~~~i~~F~~iT-~~~~~~A~~~L~~~~w~le~Ai~~f~~~ 47 (150)
..++|.|-..+. |-|..+-++=|++.|-+++.|+|...+.
T Consensus 9 PedlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsR 49 (53)
T PF11547_consen 9 PEDLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSR 49 (53)
T ss_dssp -HHHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhcc
Confidence 367787777765 5578899999999999999999987643
No 169
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=26.69 E-value=1.3e+02 Score=20.09 Aligned_cols=32 Identities=22% Similarity=0.344 Sum_probs=23.7
Q ss_pred cccccccHHHHHHHhHHcCCCCHHHHHHHHHHHHHHc
Q 031969 105 ATMCEFSKQEFIGGLQSLGIDSLDKFRERISFMRAEL 141 (150)
Q Consensus 105 ~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l~~l~~~l 141 (150)
..|+..||+||=---. -+.+.+.+|..|+.+|
T Consensus 42 ~kldlVtREEFd~q~~-----~L~~~r~kl~~LEarl 73 (79)
T PF04380_consen 42 SKLDLVTREEFDAQKA-----VLARTREKLEALEARL 73 (79)
T ss_pred HHCCCCcHHHHHHHHH-----HHHHHHHHHHHHHHHH
Confidence 4589999999964322 3677888888887776
No 170
>PF06992 Phage_lambda_P: Replication protein P; InterPro: IPR009731 This family consists of several Bacteriophage lambda replication protein P like proteins. The bacteriophage lambda P protein promoters replication of the phage chromosome by recruiting a key component of the cellular replication machinery to the viral origin. Specifically, P protein delivers one or more molecules of Escherichia coli DnaB helicase to a nucleoprotein structure formed by the lambda O initiator at the lambda replication origin [].; GO: 0006270 DNA-dependent DNA replication initiation
Probab=26.58 E-value=1.1e+02 Score=25.05 Aligned_cols=31 Identities=23% Similarity=0.424 Sum_probs=28.0
Q ss_pred cHHHHHHHhHHcCCCCHHHHHHHHHHHHHHc
Q 031969 111 SKQEFIGGLQSLGIDSLDKFRERISFMRAEL 141 (150)
Q Consensus 111 tr~eF~~g~~~l~~dsi~~lk~~l~~l~~~l 141 (150)
.|.+|+.++.+.|+.|+++++.=|...+..-
T Consensus 66 aKr~Wi~~f~engI~t~eQv~~Gm~~aR~~~ 96 (233)
T PF06992_consen 66 AKRQWIKAFAENGITTMEQVRAGMRRARASE 96 (233)
T ss_pred HHHHHHHHHHHcCCCcHHHHHHHHHHHHhcC
Confidence 3999999999999999999999998888763
No 171
>cd03024 DsbA_FrnE DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins.
Probab=25.78 E-value=83 Score=23.52 Aligned_cols=39 Identities=18% Similarity=0.188 Sum_probs=28.5
Q ss_pred CHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcH
Q 031969 55 DTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDI 93 (150)
Q Consensus 55 ~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~ 93 (150)
...-+..+|..|-..+.+.-+.+.+..+++.+|++++.+
T Consensus 110 ~~~~~~~lf~a~~~~~~~i~~~~~l~~~a~~~Gld~~~~ 148 (201)
T cd03024 110 QDALVEALFRAYFTEGKDIGDRDVLVDLAEEAGLDAAEA 148 (201)
T ss_pred HHHHHHHHHHHHHccCCCCCCHHHHHHHHHHcCCCHHHH
Confidence 456677888887654335556778999999999998643
No 172
>PF09432 THP2: Tho complex subunit THP2; InterPro: IPR018557 The THO complex plays a role in coupling transcription elongation to mRNA export. It is composed of subunits THP2, HPR1, THO2 and MFT1 [].
Probab=25.71 E-value=1.8e+02 Score=21.73 Aligned_cols=84 Identities=13% Similarity=0.304 Sum_probs=50.1
Q ss_pred CCHHHHHHHHHHhcCCCCCc-cchHHHHHHHhhcCCCCCcHH---HHHHHHhhcccccccccH--HHHHHHhHHc-----
Q 031969 54 TDTRHLEELYNRYKDPYLDM-ILVDGITLLCNDLQVDPQDIV---MLVVSWHMKAATMCEFSK--QEFIGGLQSL----- 122 (150)
Q Consensus 54 ~~~~~l~~lFd~Y~d~~~d~-I~~dG~~~~~edLgv~ped~~---~LvLa~~l~a~~~g~~tr--~eF~~g~~~l----- 122 (150)
+.|..|..+-++|.+++.|. ---+-+.+|+.++-..-.-.. -..|...| -.+|+ ..|.+-|-.+
T Consensus 35 ~pP~el~~iLe~y~~~~~d~~~lr~~L~~YLD~IKm~RAkY~lENky~L~~tL-----~~LtkEVn~Wr~ewd~iE~~mF 109 (132)
T PF09432_consen 35 NPPKELQSILEKYNTPSTDTEELRAQLDRYLDDIKMERAKYSLENKYSLQDTL-----NQLTKEVNYWRKEWDNIEMLMF 109 (132)
T ss_pred CCCHHHHHHHHHHcCCCccHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHh
Confidence 45789999999999987652 223456778876643321110 12233333 33443 3566666654
Q ss_pred --CCCCHHHHHHHHHHHHHHcC
Q 031969 123 --GIDSLDKFRERISFMRAELK 142 (150)
Q Consensus 123 --~~dsi~~lk~~l~~l~~~l~ 142 (150)
|-.|+.+|=+.+..|+..|.
T Consensus 110 GD~pnSmkkMl~nveslk~~lt 131 (132)
T PF09432_consen 110 GDGPNSMKKMLQNVESLKSKLT 131 (132)
T ss_pred cCChHHHHHHHHHHHHHHHHhc
Confidence 45677777778888887764
No 173
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=25.67 E-value=1.3e+02 Score=18.18 Aligned_cols=25 Identities=12% Similarity=0.266 Sum_probs=19.7
Q ss_pred HHHHHHhCCC-HHHHHHHHHhCCCCc
Q 031969 13 QQFVSITGAS-EKAALQALKASDWHL 37 (150)
Q Consensus 13 ~~F~~iT~~~-~~~A~~~L~~~~w~l 37 (150)
.+..++||.. .+.=.++|++++|..
T Consensus 6 ~El~elTG~k~~~~Q~~~L~~~Gi~~ 31 (47)
T PF13986_consen 6 EELQELTGYKRPSKQIRWLRRNGIPF 31 (47)
T ss_pred HHHHHHHCCCCHHHHHHHHHHCCCee
Confidence 4567889997 556778999999954
No 174
>cd03515 Link_domain_TSG_6_like This is the extracellular link domain of the type found in human TSG-6. The link domain is a hyaluronan (HA)-binding domain. TSG-6 is the protein product of tumor necrosis factor-stimulated gene-6. TSG-6 is up-regulated in inflammatory lesions and in the ovary during ovulation. It has a strong anti-inflammatory and chondroprotective effect in models of acute inflammation and autoimmune arthritis and plays an essential role in female fertility. Also included in this group are the stabilins: stabilin-1 (FEEL-1, CLEVER-1) and stabilin-2 (FEEL-2). Stabilin-2 functions as the major liver and lymph node-scavenging receptor for HA and related glycosaminoglycans. Stabilin-2 is a scavenger receptor with a broad range of ligands including advanced glycation end (AGE) products, acetylated low density lipoprotein and procollagen peptides. In contrast, stabilin-1 does not bind HA, but binds acetylated low density lipoprotein and AGEs with lower affinity. As AGEs accum
Probab=25.63 E-value=1.3e+02 Score=21.03 Aligned_cols=33 Identities=6% Similarity=0.003 Sum_probs=29.8
Q ss_pred ccchHHHHHHHhhcCCCCCcHHHHHHHHhhccc
Q 031969 73 MILVDGITLLCNDLQVDPQDIVMLVVSWHMKAA 105 (150)
Q Consensus 73 ~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~ 105 (150)
.+..+...+.|++.|..+..+.-|-.||+.|=.
T Consensus 13 ~l~f~eA~~aC~~~ga~lAs~~QL~~Aw~~G~d 45 (93)
T cd03515 13 KLTYTEAKAACEAEGAHLATYSQLSAAQQLGFH 45 (93)
T ss_pred ccCHHHHHHHHHHcCCccCCHHHHHHHHHcCcc
Confidence 688899999999999999999999999997643
No 175
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=25.58 E-value=1.2e+02 Score=18.08 Aligned_cols=35 Identities=14% Similarity=0.219 Sum_probs=25.2
Q ss_pred HHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHH
Q 031969 57 RHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVML 96 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~L 96 (150)
..|++.|+. + ..++.+-+..+...||+++..|...
T Consensus 13 ~~L~~~f~~--~---~~p~~~~~~~la~~l~l~~~~V~~W 47 (57)
T PF00046_consen 13 KVLEEYFQE--N---PYPSKEEREELAKELGLTERQVKNW 47 (57)
T ss_dssp HHHHHHHHH--S---SSCHHHHHHHHHHHHTSSHHHHHHH
T ss_pred HHHHHHHHH--h---ccccccccccccccccccccccccC
Confidence 455666664 2 3567788899999999999877543
No 176
>PRK08406 transcription elongation factor NusA-like protein; Validated
Probab=25.51 E-value=55 Score=24.33 Aligned_cols=23 Identities=39% Similarity=0.452 Sum_probs=20.1
Q ss_pred CCCcchHHHHHHHHHHhCCCHHH
Q 031969 3 KLSRSNRDKLQQFVSITGASEKA 25 (150)
Q Consensus 3 ~l~~~~~~~i~~F~~iT~~~~~~ 25 (150)
+|+.++...|..|.++||++...
T Consensus 4 ~l~~~~~~~i~~fe~~t~~~~~d 26 (140)
T PRK08406 4 KLTTEEIRYIALFESITGATVKD 26 (140)
T ss_pred EECHHHHHHHHHHHHHhCCCceE
Confidence 57888899999999999998655
No 177
>PF12844 HTH_19: Helix-turn-helix domain; PDB: 3LIS_B 3LFP_A 2XIU_B 2GZU_B 2XJ3_A 1UTX_A 2XI8_B 3F6W_C 3EUS_B.
Probab=25.48 E-value=75 Score=19.39 Aligned_cols=21 Identities=14% Similarity=0.199 Sum_probs=15.4
Q ss_pred ccchHHHHHHHhhcCCCCCcH
Q 031969 73 MILVDGITLLCNDLQVDPQDI 93 (150)
Q Consensus 73 ~I~~dG~~~~~edLgv~ped~ 93 (150)
.+.++=+.++|+-+||+++.+
T Consensus 38 ~~~~~~l~~i~~~~~v~~~~l 58 (64)
T PF12844_consen 38 KPSVSTLKKIAEALGVSLDEL 58 (64)
T ss_dssp --BHHHHHHHHHHHTS-HHHH
T ss_pred CCCHHHHHHHHHHhCCCHHHH
Confidence 677888999999999998754
No 178
>PHA00680 hypothetical protein
Probab=25.18 E-value=1.6e+02 Score=21.33 Aligned_cols=54 Identities=17% Similarity=0.338 Sum_probs=35.4
Q ss_pred HHHhhcC-CCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHHH
Q 031969 81 LLCNDLQ-VDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRERI 134 (150)
Q Consensus 81 ~~~edLg-v~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l 134 (150)
-+|+-|. ++..|+.+=.||.++.+--+|.-.-...++.+..-..|..+.||..|
T Consensus 59 vlcetldtldahdiepgalaqlcdamligpantaallnalaaadldapeslkael 113 (143)
T PHA00680 59 VLCETLDTLDAHDIEPGALAQLCDAMLIGPANTAALLNALAAADLDAPESLKAEL 113 (143)
T ss_pred HHHHhhccchhhcCCchHHHHHhHHHhcCcccHHHHHHHHHhhccCChHHHHHHH
Confidence 3555554 34455555566666665556666666777777777888888888776
No 179
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=24.76 E-value=1.3e+02 Score=17.70 Aligned_cols=36 Identities=14% Similarity=0.294 Sum_probs=25.8
Q ss_pred HHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHH
Q 031969 56 TRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVML 96 (150)
Q Consensus 56 ~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~L 96 (150)
...|+++|.. ++ ..+.+-+..+...+|+++..|...
T Consensus 12 ~~~Le~~f~~--~~---~P~~~~~~~la~~~~l~~~qV~~W 47 (59)
T cd00086 12 LEELEKEFEK--NP---YPSREEREELAKELGLTERQVKIW 47 (59)
T ss_pred HHHHHHHHHh--CC---CCCHHHHHHHHHHHCcCHHHHHHH
Confidence 4567777777 22 456778888999999988766543
No 180
>TIGR02054 MerD mercuric resistence transcriptional repressor protein MerD. This model represents a transcriptional repressor protein of the MerR family (pfam00376) whose expression is regulated by the mercury-sensitive transcriptional activator, MerR. MerD has been shown to repress the transcription of the mer operon.
Probab=24.75 E-value=2.7e+02 Score=20.04 Aligned_cols=69 Identities=9% Similarity=-0.019 Sum_probs=40.9
Q ss_pred HHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCC
Q 031969 11 KLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDP 90 (150)
Q Consensus 11 ~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~p 90 (150)
.|.++...||+|..+=+.|-+. + =|.. -..++.+ |+-=+++.+.-=-+++.+.++|+++
T Consensus 5 tI~elA~~~gvs~~tlR~Ye~~-G-LL~p----~~r~~~g---------------yR~Y~~~~l~rL~~I~~lr~~G~~L 63 (120)
T TIGR02054 5 TISRLAEDAGVSVHVVRDYLLR-G-LLHP----VRRTTSG---------------YGIFDDASLQRLRFVRAAFEAGIGL 63 (120)
T ss_pred cHHHHHHHHCcCHHHHHHHHHC-C-CCCC----CccCCCC---------------CeeCCHHHHHHHHHHHHHHHcCCCH
Confidence 3889999999999886666544 3 1211 0111111 1100111233336778889999999
Q ss_pred CcHHHHHHHH
Q 031969 91 QDIVMLVVSW 100 (150)
Q Consensus 91 ed~~~LvLa~ 100 (150)
+++..++-++
T Consensus 64 ~eI~~ll~~~ 73 (120)
T TIGR02054 64 GELARLCRAL 73 (120)
T ss_pred HHHHHHHHhh
Confidence 9998776554
No 181
>cd05832 Ribosomal_L12p Ribosomal protein L12p. This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly intera
Probab=24.64 E-value=1.2e+02 Score=21.77 Aligned_cols=36 Identities=3% Similarity=0.077 Sum_probs=31.8
Q ss_pred CccchHHHHHHHhhcCCCCCcHHHHHHHHhhccccc
Q 031969 72 DMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATM 107 (150)
Q Consensus 72 d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~ 107 (150)
..|+.+.|.+.++.-||+.++..+..|+-.|.-..+
T Consensus 15 ~eITae~I~~IL~AAGveVd~~~~~ala~aL~gkdI 50 (106)
T cd05832 15 KEINEENLKKVLEAAGIEVDEARVKALVAALEEVNI 50 (106)
T ss_pred CCCCHHHHHHHHHHhCCcccHHHHHHHHHHHcCCCH
Confidence 479999999999999999999999999988876554
No 182
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=24.62 E-value=81 Score=20.26 Aligned_cols=25 Identities=12% Similarity=0.440 Sum_probs=11.5
Q ss_pred CCCCCcchHHH---HHHHHHHhCCCHHH
Q 031969 1 MHKLSRSNRDK---LQQFVSITGASEKA 25 (150)
Q Consensus 1 m~~l~~~~~~~---i~~F~~iT~~~~~~ 25 (150)
|..|++.|++. |.+|..-+|.+++.
T Consensus 1 M~~LT~rQ~~vL~~I~~~~~~~G~~Pt~ 28 (65)
T PF01726_consen 1 MKELTERQKEVLEFIREYIEENGYPPTV 28 (65)
T ss_dssp -----HHHHHHHHHHHHHHHHHSS---H
T ss_pred CCCCCHHHHHHHHHHHHHHHHcCCCCCH
Confidence 67788877765 45677777777644
No 183
>PF08360 TetR_C_5: QacR-like protein, C-terminal region; InterPro: IPR013571 This entry represents the C-terminal domain found in the multidrug-binding transcription regulator QacR (P23217 from SWISSPROT) from Staphylococcus aureus, which is a member of the TetR (tetracycline-resistance) transcriptional regulator family of proteins. QacR is able to bind various environmental agents, which include a number of cationic lipophilic compounds, and thus regulate the transcription of QacA (P23215 from SWISSPROT), a multidrug efflux pump []. The C-terminal region of QacR contains a multifaceted, expansive drug-binding pocket, which is composed of several separate, but linked, binding sites []. The C-terminal domains of QacR and TetR share a multi-helical, interlocking structure.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G0E_E 1JUM_A 1RPW_D 1QVT_B 2HQ5_D 1JT0_B 2DTZ_E 1JUP_D 1JT6_D 1JUS_E ....
Probab=24.55 E-value=64 Score=23.57 Aligned_cols=43 Identities=23% Similarity=0.259 Sum_probs=31.8
Q ss_pred HHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcC
Q 031969 25 AALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKD 68 (150)
Q Consensus 25 ~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d 68 (150)
-|..+|...+-.+..|++.||.++.. +....+++.+++++|.+
T Consensus 26 ~a~~~~~~i~~pl~~a~~EF~~~~~~-~~ev~~~l~~i~~~~~~ 68 (131)
T PF08360_consen 26 MAEHMLDDIQTPLSKAGEEFYSNQSK-NPEVLEKLNEIRRKYLE 68 (131)
T ss_dssp HHHHHHHSSSGGGHHHHHHHHHHCSS-SHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhccHHHHHHHHHHHcccC-CHHHHHHHHHHHHHHHH
Confidence 47788888999999999999987643 22345667777777754
No 184
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=24.40 E-value=2.7e+02 Score=19.98 Aligned_cols=67 Identities=13% Similarity=0.099 Sum_probs=39.6
Q ss_pred HHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCC
Q 031969 12 LQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQ 91 (150)
Q Consensus 12 i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~pe 91 (150)
|.++...||++..+-+.|=+. + =+..+. ..+.+ +-.|- ++.|.-=-.++.+.++|++++
T Consensus 4 I~e~a~~~gvs~~tlR~Ye~~-G-Ll~p~~----r~~~g------------yR~Y~---~~~l~~l~~I~~lr~~G~sl~ 62 (131)
T TIGR02043 4 IGELAKLCGVTSDTLRFYEKN-G-LIKPAG----RTDSG------------YRLYT---DEDQKRLRFILKAKELGFTLD 62 (131)
T ss_pred HHHHHHHHCcCHHHHHHHHHC-C-CCCCCC----cCCCC------------ceecC---HHHHHHHHHHHHHHHcCCCHH
Confidence 789999999999988877665 2 111110 01111 00111 112333356777889999999
Q ss_pred cHHHHHHH
Q 031969 92 DIVMLVVS 99 (150)
Q Consensus 92 d~~~LvLa 99 (150)
++..+.-.
T Consensus 63 eI~~~l~~ 70 (131)
T TIGR02043 63 EIKELLSI 70 (131)
T ss_pred HHHHHHHh
Confidence 98876643
No 185
>PF11116 DUF2624: Protein of unknown function (DUF2624); InterPro: IPR020277 This entry contains proteins with no known function.
Probab=24.33 E-value=2.5e+02 Score=19.39 Aligned_cols=66 Identities=8% Similarity=0.055 Sum_probs=49.6
Q ss_pred CccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHHHHHH
Q 031969 72 DMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRERISFM 137 (150)
Q Consensus 72 d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l~~l 137 (150)
..|.++-+.+||..-||+.+....-.++..|...+...|..++=..-++.+.--|=++.-+.+..|
T Consensus 13 n~iT~~eLlkyskqy~i~it~~QA~~I~~~lr~k~inIfn~~~r~~llkeia~iT~p~ta~~vn~L 78 (85)
T PF11116_consen 13 NNITAKELLKYSKQYNISITKKQAEQIANILRGKNINIFNEQERKKLLKEIAKITSPQTAKQVNEL 78 (85)
T ss_pred hcCCHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 358999999999999999999999999999999999999877766655564333323333344443
No 186
>COG2815 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.01 E-value=54 Score=27.66 Aligned_cols=30 Identities=20% Similarity=0.254 Sum_probs=25.8
Q ss_pred HHhCCCHHHHHHHHHhCCCCchhhhhhhhccC
Q 031969 17 SITGASEKAALQALKASDWHLEGAFDVFYSQP 48 (150)
Q Consensus 17 ~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~ 48 (150)
.++|.+-..|..+|++++|+++ ...+|.++
T Consensus 166 dl~G~t~~~A~~~L~~~G~~~~--~~~~~ss~ 195 (303)
T COG2815 166 DLVGMTYDEASSNLKAAGLTVN--SKEYVSSD 195 (303)
T ss_pred ccccccHHHHHHHHHHhCCCcc--cccccCCC
Confidence 4689999999999999999998 67777664
No 187
>PRK09849 putative oxidoreductase; Provisional
Probab=23.97 E-value=66 Score=30.32 Aligned_cols=31 Identities=10% Similarity=-0.098 Sum_probs=27.2
Q ss_pred HHHHhhcCCCCCcHHHHHHHHhhcccccccccH
Q 031969 80 TLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSK 112 (150)
Q Consensus 80 ~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr 112 (150)
..+|.+||+|. +. --+|||.+.+-.-|.+++
T Consensus 370 n~Lcn~lGlDt-S~-G~tIA~amEl~ekGil~~ 400 (702)
T PRK09849 370 LNLFDDYGLWC-NY-GQLHRDFTYCYSKGVFKR 400 (702)
T ss_pred HHHHHHhCCcc-cH-HHHHHHHHHHHHCCCCCc
Confidence 38899999999 66 448999999999999987
No 188
>KOG0034 consensus Ca2+/calmodulin-dependent protein phosphatase (calcineurin subunit B), EF-Hand superfamily protein [Signal transduction mechanisms]
Probab=23.91 E-value=3.5e+02 Score=21.07 Aligned_cols=53 Identities=9% Similarity=0.004 Sum_probs=32.4
Q ss_pred cchHHHHHHHhhcCCCCCcHHHHHHHHhhc-ccccccccHHHHHHHhHHcCCCC
Q 031969 74 ILVDGITLLCNDLQVDPQDIVMLVVSWHMK-AATMCEFSKQEFIGGLQSLGIDS 126 (150)
Q Consensus 74 I~~dG~~~~~edLgv~ped~~~LvLa~~l~-a~~~g~~tr~eF~~g~~~l~~ds 126 (150)
|+.+..++++.-.-..-..-.=+-+|..+= -...|.|+|+++..-+..+-..+
T Consensus 84 v~F~~Fv~~ls~f~~~~~~~~Kl~faF~vYD~~~~G~I~reel~~iv~~~~~~~ 137 (187)
T KOG0034|consen 84 VDFEEFVRLLSVFSPKASKREKLRFAFRVYDLDGDGFISREELKQILRMMVGEN 137 (187)
T ss_pred cCHHHHHHHHhhhcCCccHHHHHHHHHHHhcCCCCCcCcHHHHHHHHHHHHccC
Confidence 777777777765544432222444555444 34458888888888887764433
No 189
>cd01102 Link_Domain The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor necrosis factor-stimulated gene-6. TSG-6 has a strong anti-inflammatory effect in models of acute inflammation and autoimmune arthritis and plays an essential role in female fertility. This group also contains the link domains of the chondroitin sulfate proteoglycan core proteins (CSPG) including aggrecan, versican, neurocan, and brevican and the link domains of the vertebrate HAPLN (HA and proteoglycan binding link) protein family. In cartilage, aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates in which other CSPGs substitute for aggregan might contribute to the structural integrity of many different tissues. Members of
Probab=23.80 E-value=1.1e+02 Score=21.24 Aligned_cols=34 Identities=12% Similarity=0.108 Sum_probs=30.5
Q ss_pred CccchHHHHHHHhhcCCCCCcHHHHHHHHhhccc
Q 031969 72 DMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAA 105 (150)
Q Consensus 72 d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~ 105 (150)
-.++.+...+.|..+|..+..+.-|--||+.|-.
T Consensus 12 y~l~f~eA~~aC~~~ga~lAs~~QL~~Aw~~G~~ 45 (92)
T cd01102 12 YKLTFAEAALACKARGAHLATPGQLEAAWQDGFD 45 (92)
T ss_pred cccCHHHHHHHHHHcCCEeCCHHHHHHHHHcchh
Confidence 4788999999999999999999999999998643
No 190
>PF07739 TipAS: TipAS antibiotic-recognition domain; InterPro: IPR012925 TipAL is a bacterial transcriptional regulator of the MerR family. The tipA gene can be expressed as a long form, TipAL, and a short form, TipAS, which constitutes the C-terminal part of TipAL. TipAS forms the antibiotic-recognition domain []. This domain, which has an alpha-helical globin-like fold, is also found at the C terminus of other MerR family transcription factors, including Mta, a central regulator of multidrug resistance in Bacillus subtilis [], and SkgA from Caulobacter crescentus []. ; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1NY9_A 3HH0_A 3QAO_A.
Probab=23.78 E-value=1.3e+02 Score=20.50 Aligned_cols=50 Identities=16% Similarity=0.246 Sum_probs=30.0
Q ss_pred HhhcCCCCCcHHHHHHHHhhcccccccccH--HHHHHHhHHcCCCCHHHHHHHH
Q 031969 83 CNDLQVDPQDIVMLVVSWHMKAATMCEFSK--QEFIGGLQSLGIDSLDKFRERI 134 (150)
Q Consensus 83 ~edLgv~ped~~~LvLa~~l~a~~~g~~tr--~eF~~g~~~l~~dsi~~lk~~l 134 (150)
+-.-|++|+++.+-.|+.....--. .|+. .+...+|..+..+. +.++..+
T Consensus 47 ~~~~g~~p~s~evq~l~~~~~~~~~-~~~~~~~~~~~~l~~~y~~~-~~~~~~~ 98 (118)
T PF07739_consen 47 LMEEGVDPDSPEVQELAERWMELIN-QFTGGDPELLRGLAQMYVED-PRFAAMY 98 (118)
T ss_dssp HHHHT--TT-HHHHHHHHHHHHHHH-HSS---HHHHHHHHHHTTST-HHHHHHH
T ss_pred HHHcCCCcCCHHHHHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHcC-HHHHhhc
Confidence 4567899999887777765544333 4443 66788888887766 5555544
No 191
>COG3793 TerB Tellurite resistance protein [Inorganic ion transport and metabolism]
Probab=23.77 E-value=1.6e+02 Score=22.37 Aligned_cols=73 Identities=15% Similarity=0.105 Sum_probs=51.7
Q ss_pred CCHHHHHHHHHHhcCCCC--CccchHHHHHHHhhcCCCCCcHHHHHHHHhhccccccccc---HHHHHHHhHHcCCCC
Q 031969 54 TDTRHLEELYNRYKDPYL--DMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFS---KQEFIGGLQSLGIDS 126 (150)
Q Consensus 54 ~~~~~l~~lFd~Y~d~~~--d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~t---r~eF~~g~~~l~~ds 126 (150)
.....+..+|+++...-+ -.++--+.++++++|+=+++-....+.+-.+-|..=|.|. |.=-.+-++.||.+.
T Consensus 62 f~~~~i~~~~~~~~~~~~~d~~~gk~ea~~~I~~lk~d~e~Ae~vL~vAv~VA~aDG~~d~~E~avl~eI~~aLGL~p 139 (144)
T COG3793 62 FDSNEINEIFETLVGSFDTDFEIGKREAMKEIEDLKHDTEAAEDVLRVAVAVAEADGEFEAEERAVLREIAGALGLSP 139 (144)
T ss_pred ccHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHhcCChHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHhCCCH
Confidence 355688999999986422 2677789999999999999866666666666788888888 333344455555443
No 192
>PF09312 SurA_N: SurA N-terminal domain; InterPro: IPR015391 The correct folding of outer membrane proteins in Gram negative bacteria is facilitated by the survival protein SurA []. This entry represents the domain found at the N terminus of the chaperone SurA. It is a helical domain of unknown function. The C terminus of the SurA protein folds back and forms part of this domain also but is not included in the current alignment. ; PDB: 3RGC_B 2PV3_B 1M5Y_A.
Probab=23.75 E-value=2.6e+02 Score=19.56 Aligned_cols=53 Identities=21% Similarity=0.268 Sum_probs=30.4
Q ss_pred HHHHHhhcCCCCCcHHH-HHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHHHH
Q 031969 79 ITLLCNDLQVDPQDIVM-LVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRERIS 135 (150)
Q Consensus 79 ~~~~~edLgv~ped~~~-LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l~ 135 (150)
+.+..+.+||.++|-.+ =.++...+...+ |.++|..-+..-|. |.+.+|..|.
T Consensus 56 ~~q~ak~~gI~vsd~evd~~i~~ia~~n~l---s~~ql~~~L~~~G~-s~~~~r~~ir 109 (118)
T PF09312_consen 56 QLQEAKRLGIKVSDEEVDEAIANIAKQNNL---SVEQLRQQLEQQGI-SYEEYREQIR 109 (118)
T ss_dssp HHHHHHHCT----HHHHHHHHHHHHHHTT-----HHHHHHHCHHCT---HHHHHHHHH
T ss_pred HHHHHHHcCCCCCHHHHHHHHHHHHHHcCC---CHHHHHHHHHHcCC-CHHHHHHHHH
Confidence 45566788888765443 455555544444 88999999888887 6777777663
No 193
>smart00145 PI3Ka Phosphoinositide 3-kinase family, accessory domain (PIK domain). PIK domain is conserved in all PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation.
Probab=23.70 E-value=2.1e+02 Score=22.21 Aligned_cols=62 Identities=18% Similarity=0.155 Sum_probs=37.6
Q ss_pred CCCcchHHHHHHHHHHhCC-CHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHH
Q 031969 3 KLSRSNRDKLQQFVSITGA-SEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYN 64 (150)
Q Consensus 3 ~l~~~~~~~i~~F~~iT~~-~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd 64 (150)
.|+.+++..+-+|+...-. .++.-..+|..-+|+-...+...|.--..=+..++...-.|++
T Consensus 22 ~l~~eek~llW~~R~~~l~~~p~aL~~~L~sv~W~~~~e~~e~~~ll~~W~~~~~~~aL~LL~ 84 (184)
T smart00145 22 ELTAEEKDLIWKFRHYYLTNNPKALPKFLLSVNWSDADEVAQALSLLKKWAPLDPEDALELLS 84 (184)
T ss_pred cCCHHHHHHHHHChHHHHhcChHHHHHHHhcCCCCCHHHHHHHHHHHHcCCCCCHHHHHHHhC
Confidence 5778888999888855433 3444557888999988776666554321112234444444444
No 194
>PHA00442 host recBCD nuclease inhibitor
Probab=23.63 E-value=1.6e+02 Score=18.81 Aligned_cols=25 Identities=24% Similarity=0.617 Sum_probs=16.6
Q ss_pred cHHHHHHHhHHcCCCCHHHHHHHHH
Q 031969 111 SKQEFIGGLQSLGIDSLDKFRERIS 135 (150)
Q Consensus 111 tr~eF~~g~~~l~~dsi~~lk~~l~ 135 (150)
++.+|++.+.+-|+|+.+.....+.
T Consensus 27 k~~~~L~~Lea~GVDNW~Gy~eA~e 51 (59)
T PHA00442 27 KDNEFLKALRACGVDNWDGYMDAVE 51 (59)
T ss_pred HhhHHHHHHHHcCCcchhhHHHHHH
Confidence 3556677777777777776665543
No 195
>KOG0455 consensus Homoserine dehydrogenase [Amino acid transport and metabolism]
Probab=23.59 E-value=1.7e+02 Score=24.73 Aligned_cols=66 Identities=18% Similarity=0.260 Sum_probs=49.9
Q ss_pred HHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHH-----------HHHHHHhhccc--cc--------------cc
Q 031969 57 RHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIV-----------MLVVSWHMKAA--TM--------------CE 109 (150)
Q Consensus 57 ~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~-----------~LvLa~~l~a~--~~--------------g~ 109 (150)
..|.=+|+.+.+..+......-+.+-.+.||+.--||+ +++|+..+|.. +| +.
T Consensus 178 GTLsYifne~s~gk~~~~sfsdvVk~AKklGYTEPDPRDDLnGmDVARKvtIl~Ri~Gv~ves~~Sfpv~SLiPepl~s~ 257 (364)
T KOG0455|consen 178 GTLSYIFNELSDGKPGTLSFSDVVKAAKKLGYTEPDPRDDLNGMDVARKVTILARILGVRVESMDSFPVESLIPEPLPSL 257 (364)
T ss_pred ccHHHHHHHhhcCCCCcccHHHHHHHHHHcCCCCCCcccccccchhhhhhhhhhhhccceeecccccchhhcCCcccccc
Confidence 34566899988876677888889999999999755554 78888888853 22 55
Q ss_pred ccHHHHHHHhHHc
Q 031969 110 FSKQEFIGGLQSL 122 (150)
Q Consensus 110 ~tr~eF~~g~~~l 122 (150)
.+-+||+.|+..+
T Consensus 258 ~sadeFL~gl~~~ 270 (364)
T KOG0455|consen 258 MSADEFLHGLVKL 270 (364)
T ss_pred ccHHHHHhhhhhh
Confidence 6788999987764
No 196
>PF03469 XH: XH domain; InterPro: IPR005379 The XH (rice gene X Homology) domain is found in a family of plant proteins including Oryza sativa (Rice) Q9SBW2 from SWISSPROT. The molecular function of these proteins is unknown, however these proteins usually contain an XS domain (IPR005380 from INTERPRO) that is also found in the PTGS protein SGS3. As the XS and XH domains are fused in most of these proteins, these two domains may interact. The XH domain is between 124 and 145 residues in length and contains a conserved glutamate residue that may be functionally important [].
Probab=23.58 E-value=1.7e+02 Score=21.83 Aligned_cols=44 Identities=16% Similarity=0.234 Sum_probs=32.9
Q ss_pred cccccccHHHHHHHhHHcCCCCHHHHHH--HHHHHHHHcCCCc--ccc
Q 031969 105 ATMCEFSKQEFIGGLQSLGIDSLDKFRE--RISFMRAELKDER--TCT 148 (150)
Q Consensus 105 ~~~g~~tr~eF~~g~~~l~~dsi~~lk~--~l~~l~~~l~~~~--~Fk 148 (150)
..||++....|+..|++--...-...+. .+..+.++|.||. .||
T Consensus 1 KrMGeLd~kpF~~Ack~k~~~eeae~~A~~LcS~Wqe~ikdp~WhPFk 48 (132)
T PF03469_consen 1 KRMGELDEKPFLNACKRKYPEEEAEVKAAELCSLWQEEIKDPEWHPFK 48 (132)
T ss_pred CcccccChHHHHHHHHHhcChhHHHHHHHHHHHHHHHHhhCCCccceE
Confidence 4699999999999999855544344444 4588899999985 576
No 197
>PF09066 B2-adapt-app_C: Beta2-adaptin appendage, C-terminal sub-domain; InterPro: IPR015151 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. AP (adaptor protein) complexes are found in coated vesicles and clathrin-coated pits. AP complexes connect cargo proteins and lipids to clathrin at vesicle budding sites, as well as binding accessory proteins that regulate coat assembly and disassembly (such as AP180, epsins and auxilin). There are different AP complexes in mammals. AP1 is responsible for the transport of lysosomal hydrolases between the TGN and endosomes []. AP2 associates with the plasma membrane and is responsible for endocytosis []. AP3 is responsible for protein trafficking to lysosomes and other related organelles []. AP4 is less well characterised. AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). For example, in AP1 these subunits are gamma-1-adaptin, beta-1-adaptin, mu-1 and sigma-1, while in AP2 they are alpha-adaptin, beta-2-adaptin, mu-2 and sigma-2. Each subunit has a specific function. Adaptins recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal ear (appendage) domains. Mu recognises tyrosine-based sorting signals within the cytoplasmic domains of transmembrane cargo proteins []. One function of clathrin and AP2 complex-mediated endocytosis is to regulate the number of GABA(A) receptors available at the cell surface []. This entry represents a subdomain of the appendage (ear) domain of beta-adaptin from AP clathrin adaptor complexes. This domain has a three-layer arrangement, alpha-beta-alpha, with a bifurcated antiparallel beta-sheet []. This domain is required for binding to clathrin, and its subsequent polymerisation. Furthermore, a hydrophobic patch present in the domain also binds to a subset of D-phi-F/W motif-containing proteins that are bound by the alpha-adaptin appendage domain (epsin, AP180, eps15) []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030131 clathrin adaptor complex; PDB: 1E42_B 2G30_A 2IV9_B 2IV8_A 3HS9_A 3H1Z_A.
Probab=23.57 E-value=54 Score=22.81 Aligned_cols=17 Identities=24% Similarity=0.147 Sum_probs=11.2
Q ss_pred ccccHHHHHHHhHHcCC
Q 031969 108 CEFSKQEFIGGLQSLGI 124 (150)
Q Consensus 108 g~~tr~eF~~g~~~l~~ 124 (150)
|.++|++|.+-|+.+..
T Consensus 5 ~~~~~~~F~~~W~sl~~ 21 (114)
T PF09066_consen 5 GSMDPEEFQEMWKSLPD 21 (114)
T ss_dssp ----HHHHHHHHHHS-G
T ss_pred CccCHHHHHHHHHhCCc
Confidence 78999999999999854
No 198
>PF11198 DUF2857: Protein of unknown function (DUF2857); InterPro: IPR021364 This is a bacterial family of uncharacterised proteins.
Probab=23.46 E-value=34 Score=26.52 Aligned_cols=19 Identities=26% Similarity=0.522 Sum_probs=16.5
Q ss_pred HHHHHHhhcCCCCCcHHHH
Q 031969 78 GITLLCNDLQVDPQDIVML 96 (150)
Q Consensus 78 G~~~~~edLgv~ped~~~L 96 (150)
|=++.|+.||++|+.+..|
T Consensus 17 G~~~~c~~lG~~~eel~~L 35 (180)
T PF11198_consen 17 GNIRRCEALGFSPEELDAL 35 (180)
T ss_pred ccHHHHHHcCCCHHHHHHH
Confidence 7789999999999987754
No 199
>COG3888 Predicted transcriptional regulator [Transcription]
Probab=23.45 E-value=1e+02 Score=26.04 Aligned_cols=31 Identities=16% Similarity=0.297 Sum_probs=27.4
Q ss_pred chHHHHHHHHHHhCCCHHHHHHHHHhCCCCc
Q 031969 7 SNRDKLQQFVSITGASEKAALQALKASDWHL 37 (150)
Q Consensus 7 ~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~l 37 (150)
.++..++-|.+.|+++..++..-|++++|++
T Consensus 265 i~~~v~d~lskl~~~s~~~v~~S~esY~f~~ 295 (321)
T COG3888 265 IRRDVIDSLSKLTNISYNIVKESLESYEFDY 295 (321)
T ss_pred hhhHHHHHHHHHhCCCHHHHHHHHhccccch
Confidence 4566778999999999999999999999976
No 200
>COG5642 Uncharacterized conserved protein [Function unknown]
Probab=23.33 E-value=1.7e+02 Score=22.04 Aligned_cols=30 Identities=23% Similarity=0.317 Sum_probs=21.6
Q ss_pred CCCcchHHHHHHHHHHhCC------CHHHHHHHHHh
Q 031969 3 KLSRSNRDKLQQFVSITGA------SEKAALQALKA 32 (150)
Q Consensus 3 ~l~~~~~~~i~~F~~iT~~------~~~~A~~~L~~ 32 (150)
+||+++...|..|..+-+. +++.|+.||..
T Consensus 78 ~ls~ees~R~arfarV~~~AvDvfgse~eA~~wl~r 113 (149)
T COG5642 78 RLSPEESERIARFARVWDLAVDVFGSEEEARDWLFR 113 (149)
T ss_pred CCChhhhHHHHHHHHHHHHHHHHhcCHHHHHHHHhC
Confidence 5889999999999887654 44566666554
No 201
>PF01406 tRNA-synt_1e: tRNA synthetases class I (C) catalytic domain; InterPro: IPR015803 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Cysteinyl-tRNA synthetase (6.1.1.16 from EC) is an alpha monomer and belongs to class Ia.; GO: 0000166 nucleotide binding, 0004817 cysteine-tRNA ligase activity, 0005524 ATP binding, 0006423 cysteinyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3SP1_B 3TQO_A 3C8Z_B 1LI5_B 1LI7_B 1U0B_B.
Probab=23.27 E-value=1.1e+02 Score=25.92 Aligned_cols=67 Identities=12% Similarity=0.200 Sum_probs=44.1
Q ss_pred cchHHHHHHHhhcCCCCCcH--------HHHHHHHhhccc--ccccccHHHHHHHhHHcCC----------CCHHHHHHH
Q 031969 74 ILVDGITLLCNDLQVDPQDI--------VMLVVSWHMKAA--TMCEFSKQEFIGGLQSLGI----------DSLDKFRER 133 (150)
Q Consensus 74 I~~dG~~~~~edLgv~ped~--------~~LvLa~~l~a~--~~g~~tr~eF~~g~~~l~~----------dsi~~lk~~ 133 (150)
|-.|=+.|+++.+|++..-+ .++-=|...|.+ .+.....++|.+-|..||| +.|+.|.+.
T Consensus 31 v~~D~l~R~L~~~g~~V~~V~NiTDiDDKii~~A~~~g~~~~ela~~y~~~f~~dm~~Lnv~~p~~~prate~i~~ii~~ 110 (300)
T PF01406_consen 31 VFFDVLRRYLEYLGYDVTYVMNITDIDDKIIKRAREEGVSPQELARRYEEEFFEDMKALNVLPPDHYPRATEHIPEIIEL 110 (300)
T ss_dssp HHHHHHHHHHHHTT-EEEEEEEEB-SSHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHTT----SEEEEGGGGHHHHHHH
T ss_pred eeHHHHHHHHHHcCCeEEEEEeccccchHHHHHHHhccCCHHHHHHHHHHHHHHHHHHcCCCCCccccchhccHHHHHHH
Confidence 55566777777777754222 144444444433 2355668899999999999 469999999
Q ss_pred HHHHHHH
Q 031969 134 ISFMRAE 140 (150)
Q Consensus 134 l~~l~~~ 140 (150)
|..|.++
T Consensus 111 i~~Li~~ 117 (300)
T PF01406_consen 111 IEKLIDK 117 (300)
T ss_dssp HHHHHHT
T ss_pred HHHHHHC
Confidence 9988775
No 202
>PF09724 DUF2036: Uncharacterized conserved protein (DUF2036); InterPro: IPR019128 Sister chromatid cohesion protein DCC1 is a component of the RFC-like complex CTF18-RFC. This complex is required for the efficient establishment of chromosome cohesion during S-phase and may load or unload POL30/PCNA. During a clamp loading circle, the RFC:clamp complex binds to DNA and the recognition of the double-stranded/single-stranded junction stimulates ATP hydrolysis by RFC. The complex presumably provides bipartite ATP sites in which one subunit supplies a catalytic site for hydrolysis of ATP bound to the neighbouring subunit. Dissociation of RFC from the clamp leaves the clamp encircling DNA [, ].
Probab=23.18 E-value=3.9e+02 Score=22.11 Aligned_cols=54 Identities=19% Similarity=0.182 Sum_probs=31.9
Q ss_pred CHHHHHHHHHHhcCCCCC-----ccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 55 DTRHLEELYNRYKDPYLD-----MILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 55 ~~~~l~~lFd~Y~d~~~d-----~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
...-+.+++.+|....++ .++.+-+.+++ =...|.+..-+.|..++|+.-|+..
T Consensus 202 p~~v~~~vl~~~~~~~~~~~~~~~Ld~~ki~~~~--------------a~~lL~~~~~~~~~~~eFl~~Wk~~ 260 (325)
T PF09724_consen 202 PREVVEHVLRKFGTREDDDDSWWKLDEDKICRWF--------------AIQLLKAHASSSFPLDEFLEAWKSS 260 (325)
T ss_pred CHHHHHHHHHHhCCCccCCCceEEcCHHHHHHHH--------------HHHHHHhcccCCCCHHHHHHHHHHh
Confidence 456677777888654332 23333333332 2334444444488999999999984
No 203
>cd03021 DsbA_GSTK DsbA family, Glutathione (GSH) S-transferase Kappa (GSTK) subfamily; GSTK is a member of the GST family of enzymes which catalyzes the transfer of the thiol of GSH to electrophilic substrates. It is specifically located in the mitochondria and peroxisomes, unlike other members of the canonical GST family, which are mainly cytosolic. The biological substrates of GSTK are not yet known. It is presumed to have a protective role during respiration when large amounts of reactive oxygen species are generated. GSTK has the same general fold as DsbA, consisting of a thioredoxin domain interrupted by an alpha-helical domain and its biological unit is a homodimer. GSTK is closely related to the bacterial enzyme, 2-hydroxychromene-2-carboxylate (HCCA) isomerase. It shows little sequence similarity to the other members of the GST family.
Probab=23.14 E-value=1.5e+02 Score=22.72 Aligned_cols=35 Identities=11% Similarity=0.064 Sum_probs=22.9
Q ss_pred HHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHHH
Q 031969 62 LYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVML 96 (150)
Q Consensus 62 lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~L 96 (150)
.|....+-..+....+-+.+.++++|++++++..+
T Consensus 118 ~f~~g~~i~~~~~l~~vL~~~a~~~Gld~~~~~~~ 152 (209)
T cd03021 118 FWVRPWSLTEPITESQSISVAADKLGGSAEQAEKL 152 (209)
T ss_pred HHHHhccCCCchhhHHHHHHHHHHcCCCcccHHHH
Confidence 34444443334555566789999999998877533
No 204
>PF10391 DNA_pol_lambd_f: Fingers domain of DNA polymerase lambda; InterPro: IPR018944 DNA polymerases catalyse the addition of dNMPs onto the 3-prime ends of DNA chains. There is a general polymerase fold consisting of three subdomains that have been likened to the fingers, palm, and thumb of a right hand. This entry represents the central three-helical region of DNA polymerase lambda referred to as the F and G helices of the fingers domain. Contacts with DNA involve this conserved helix-hairpin-helix motif in the fingers region which interacts with the primer strand. This motif is common to several DNA binding proteins and confers a sequence-independent interaction with the DNA backbone []. ; GO: 0016779 nucleotidyltransferase activity; PDB: 1KDH_A 1KEJ_A 1JMS_A 2IHM_A 3OGU_A 1MQ2_A 2P66_A 7ICI_A 1ZQN_A 1ZQK_A ....
Probab=22.84 E-value=79 Score=19.53 Aligned_cols=23 Identities=26% Similarity=0.267 Sum_probs=17.3
Q ss_pred HHHHHHHhCCCHHHHHHHHHhCCC
Q 031969 12 LQQFVSITGASEKAALQALKASDW 35 (150)
Q Consensus 12 i~~F~~iT~~~~~~A~~~L~~~~w 35 (150)
++.|++|-|+-+.+|+++-. .++
T Consensus 1 l~~f~~I~GVG~~tA~~w~~-~G~ 23 (52)
T PF10391_consen 1 LKLFTGIWGVGPKTARKWYA-KGI 23 (52)
T ss_dssp HHHHHTSTT--HHHHHHHHH-TT-
T ss_pred CcchhhcccccHHHHHHHHH-hCC
Confidence 57899999999999999987 555
No 205
>KOG0037 consensus Ca2+-binding protein, EF-Hand protein superfamily [Signal transduction mechanisms]
Probab=22.84 E-value=4.2e+02 Score=21.52 Aligned_cols=113 Identities=14% Similarity=0.135 Sum_probs=71.7
Q ss_pred HHHHHHHHHHh-----CCCHHHHHHHHHhCCCC---ch--hhhhhhhccCCCCCcCCHHHHHHH----------HHHhcC
Q 031969 9 RDKLQQFVSIT-----GASEKAALQALKASDWH---LE--GAFDVFYSQPQSKSLTDTRHLEEL----------YNRYKD 68 (150)
Q Consensus 9 ~~~i~~F~~iT-----~~~~~~A~~~L~~~~w~---le--~Ai~~f~~~~~~~~~~~~~~l~~l----------Fd~Y~d 68 (150)
.++...|+++= .++.+.-+..|.+..|+ ++ .++-.-|+++.. .....++..+| |.+|--
T Consensus 57 ~~~~~~f~~vD~d~sg~i~~~eLq~aLsn~~~~~Fs~~TcrlmI~mfd~~~~-G~i~f~EF~~Lw~~i~~Wr~vF~~~D~ 135 (221)
T KOG0037|consen 57 PQLAGWFQSVDRDRSGRILAKELQQALSNGTWSPFSIETCRLMISMFDRDNS-GTIGFKEFKALWKYINQWRNVFRTYDR 135 (221)
T ss_pred HHHHHHHHhhCccccccccHHHHHHHhhcCCCCCCCHHHHHHHHHHhcCCCC-CccCHHHHHHHHHHHHHHHHHHHhccc
Confidence 35666776653 34566777777777773 32 222333344322 23444444443 333322
Q ss_pred CCCCccchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 69 PYLDMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 69 ~~~d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
.....|+..-+..=+..||+-+.....=.|..+.--..-|.+.-+.|++.+-.|
T Consensus 136 D~SG~I~~sEL~~Al~~~Gy~Lspq~~~~lv~kyd~~~~g~i~FD~FI~ccv~L 189 (221)
T KOG0037|consen 136 DRSGTIDSSELRQALTQLGYRLSPQFYNLLVRKYDRFGGGRIDFDDFIQCCVVL 189 (221)
T ss_pred CCCCcccHHHHHHHHHHcCcCCCHHHHHHHHHHhccccCCceeHHHHHHHHHHH
Confidence 233699999999999999999876666666666644448999999999988774
No 206
>PF14174 YycC: YycC-like protein
Probab=22.75 E-value=52 Score=20.63 Aligned_cols=23 Identities=17% Similarity=0.141 Sum_probs=19.8
Q ss_pred CccchHHHHHHHhhcCCCCCcHH
Q 031969 72 DMILVDGITLLCNDLQVDPQDIV 94 (150)
Q Consensus 72 d~I~~dG~~~~~edLgv~ped~~ 94 (150)
-.|.+|-..++.+.|||.+|.+.
T Consensus 4 lqIS~eTA~kLs~~L~vPlE~lM 26 (53)
T PF14174_consen 4 LQISPETAVKLSKKLGVPLEQLM 26 (53)
T ss_pred cccCHHHHHHHHHHHCCcHHHHh
Confidence 36899999999999999988653
No 207
>PF00536 SAM_1: SAM domain (Sterile alpha motif); InterPro: IPR021129 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents type 1 SAM domains. ; PDB: 2KIV_A 3HIL_B 3KKA_A 3K1R_B 3SEN_B 3SEI_B 1V85_A 2KE7_A 2EAM_A 1WWV_A ....
Probab=22.65 E-value=1.9e+02 Score=17.55 Aligned_cols=58 Identities=10% Similarity=0.184 Sum_probs=37.5
Q ss_pred cchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHHHHHH
Q 031969 74 ILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRERISFM 137 (150)
Q Consensus 74 I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l~~l 137 (150)
-+++-+..+++.+|+ +......-....--+..-.+|.+++. .+|+..+...++-+..+
T Consensus 3 W~~~~V~~WL~~~~l--~~y~~~F~~~~i~g~~L~~lt~~dL~----~lgi~~~ghr~ki~~~i 60 (64)
T PF00536_consen 3 WSVEDVSEWLKSLGL--EQYAENFEKNYIDGEDLLSLTEEDLE----ELGITKLGHRKKILRAI 60 (64)
T ss_dssp TSHHHHHHHHHHTTG--GGGHHHHHHTTSSHHHHTTSCHHHHH----HTT-SSHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHCCC--HHHHHHHHcCCchHHHHHhcCHHHHH----HcCCCCHHHHHHHHHHH
Confidence 456778888888877 33333336666667777788888844 58888766555544443
No 208
>smart00054 EFh EF-hand, calcium binding motif. EF-hands are calcium-binding motifs that occur at least in pairs. Links between disease states and genes encoding EF-hands, particularly the S100 subclass, are emerging. Each motif consists of a 12 residue loop flanked on either side by a 12 residue alpha-helix. EF-hands undergo a conformational change unpon binding calcium ions.
Probab=22.63 E-value=99 Score=14.22 Aligned_cols=15 Identities=20% Similarity=0.155 Sum_probs=7.9
Q ss_pred cccccHHHHHHHhHH
Q 031969 107 MCEFSKQEFIGGLQS 121 (150)
Q Consensus 107 ~g~~tr~eF~~g~~~ 121 (150)
-|.++..+|...++.
T Consensus 14 ~g~i~~~e~~~~~~~ 28 (29)
T smart00054 14 DGKIDFEEFKDLLKA 28 (29)
T ss_pred CCcEeHHHHHHHHHh
Confidence 355555555555543
No 209
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=22.49 E-value=3.1e+02 Score=24.50 Aligned_cols=34 Identities=24% Similarity=0.238 Sum_probs=21.6
Q ss_pred ccccHHHHHHHhHHcCC-CCHHHHHHHHHHHHHHc
Q 031969 108 CEFSKQEFIGGLQSLGI-DSLDKFRERISFMRAEL 141 (150)
Q Consensus 108 g~~tr~eF~~g~~~l~~-dsi~~lk~~l~~l~~~l 141 (150)
-+++-..|..-++++-- .+-.+.+.++..+.+++
T Consensus 82 ~EVsSr~F~~el~al~~~~~h~kV~~k~~~lv~eW 116 (462)
T KOG2199|consen 82 LEVSSRDFTTELRALIESKAHPKVCEKMRDLVKEW 116 (462)
T ss_pred HHHhhhhHHHHHHHHHhhcccHHHHHHHHHHHHHH
Confidence 56777789999988755 34445555555544444
No 210
>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding
Probab=22.32 E-value=1.3e+02 Score=20.71 Aligned_cols=27 Identities=15% Similarity=0.391 Sum_probs=24.1
Q ss_pred HHHHHHHHhCCCHHHHHHHHHhCCCCc
Q 031969 11 KLQQFVSITGASEKAALQALKASDWHL 37 (150)
Q Consensus 11 ~i~~F~~iT~~~~~~A~~~L~~~~w~l 37 (150)
.|++|+.+.|.++..-..+|..++|=.
T Consensus 26 ti~~~AK~L~i~~~~l~~~Lr~~g~l~ 52 (111)
T PF03374_consen 26 TIREAAKLLGIGRNKLFQWLREKGWLY 52 (111)
T ss_pred cHHHHHHHhCCCHHHHHHHHHhCCceE
Confidence 478999999999999999999999944
No 211
>KOG4070 consensus Putative signal transduction protein p25 [General function prediction only; Signal transduction mechanisms]
Probab=22.31 E-value=1.2e+02 Score=23.49 Aligned_cols=71 Identities=21% Similarity=0.242 Sum_probs=51.0
Q ss_pred cCCHHHHHHHHHHhc---CC--CCCccchHHHHHHHhhcCCCC-CcHHHH---HHHHhhcccccccccHHHHHHHhHHcC
Q 031969 53 LTDTRHLEELYNRYK---DP--YLDMILVDGITLLCNDLQVDP-QDIVML---VVSWHMKAATMCEFSKQEFIGGLQSLG 123 (150)
Q Consensus 53 ~~~~~~l~~lFd~Y~---d~--~~d~I~~dG~~~~~edLgv~p-ed~~~L---vLa~~l~a~~~g~~tr~eF~~g~~~l~ 123 (150)
++....+++-|.+|. |+ .+..|.-....++|.|.+|=- -.|... +.--++.+++.+.||-++|...+..|.
T Consensus 8 s~~~a~~~~~f~~Fa~fGd~~asg~em~gkn~~KlcKdc~V~DgK~vT~tdt~i~fsKvkg~~~~~~tf~~fkkal~ela 87 (180)
T KOG4070|consen 8 SPDMAGLEESFRAFAKFGDSKASGTEMNGKNWDKLCKDCKVIDGKSVTGTDTDIVFSKVKGKKARTITFEEFKKALEELA 87 (180)
T ss_pred CcchhhHHHHHHHHHHcCCccccccccccccHHHHHhhcCcccCCcccccccceeeeeccccccccccHHHHHHHHHHHH
Confidence 455677888888887 44 235788888999999999854 233321 223378888999999999988777765
No 212
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=22.30 E-value=66 Score=25.58 Aligned_cols=39 Identities=28% Similarity=0.395 Sum_probs=32.5
Q ss_pred CCcchHHHHHHHHHHhCCCHHHHHHHHHhCCCC-chhhhh
Q 031969 4 LSRSNRDKLQQFVSITGASEKAALQALKASDWH-LEGAFD 42 (150)
Q Consensus 4 l~~~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~-le~Ai~ 42 (150)
++.+.++..+.+.++.|.-++.|...|...+|+ +-.||+
T Consensus 64 ~~~~ER~lF~~LisVnGIGpK~ALaiLs~~~~~~l~~aI~ 103 (201)
T COG0632 64 LTEEERELFRLLISVNGIGPKLALAILSNLDPEELAQAIA 103 (201)
T ss_pred CCHHHHHHHHHHHccCCccHHHHHHHHcCCCHHHHHHHHH
Confidence 567889999999999999999999999997773 445553
No 213
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=22.21 E-value=76 Score=18.73 Aligned_cols=16 Identities=25% Similarity=0.370 Sum_probs=13.7
Q ss_pred CHHHHHHHHHhCCCCc
Q 031969 22 SEKAALQALKASDWHL 37 (150)
Q Consensus 22 ~~~~A~~~L~~~~w~l 37 (150)
||+.|..||+...|.=
T Consensus 2 ~e~~c~~~l~~~RW~~ 17 (46)
T PF12760_consen 2 DEEACREYLEEIRWPD 17 (46)
T ss_pred CHHHHHHHHHHhcCCC
Confidence 6889999999999953
No 214
>PRK11239 hypothetical protein; Provisional
Probab=22.08 E-value=90 Score=25.23 Aligned_cols=56 Identities=14% Similarity=0.297 Sum_probs=44.8
Q ss_pred HHHHh----hcCCCCCcHHHHHHHHhhcccccccc-cHHHHHHHhHHcCCCCHHHHHHHHHHHHHH
Q 031969 80 TLLCN----DLQVDPQDIVMLVVSWHMKAATMCEF-SKQEFIGGLQSLGIDSLDKFRERISFMRAE 140 (150)
Q Consensus 80 ~~~~e----dLgv~ped~~~LvLa~~l~a~~~g~~-tr~eF~~g~~~l~~dsi~~lk~~l~~l~~~ 140 (150)
-+||. +|++++..+.+||+..+=|..+.|++ ||.+=+ -..++++.....|.+|...
T Consensus 83 Hr~~~~ef~~l~l~~~~~All~~LlLRGPQT~gELRtRs~Rl-----~~F~dv~~Ve~~L~~L~~r 143 (215)
T PRK11239 83 QRFCNSEFGDLKLSAAEVALITTLLLRGAQTPGELRSRAARM-----YEFSDMAEVESTLEQLANR 143 (215)
T ss_pred HhcccccccccCCCHHHHHHHHHHHhcCCCChHHHHHhHhcC-----CcCCCHHHHHHHHHHHHhc
Confidence 45676 79999999999999999999999986 355432 2567899999988888765
No 215
>TIGR02277 PaaX_trns_reg phenylacetic acid degradation operon negative regulatory protein PaaX. This transcriptional regulator is always found in association with operons believed to be involved in the degradation of phenylacetic acid. The gene product has been shown to bind to the promoter sites and repress their transcription.
Probab=21.98 E-value=1e+02 Score=25.45 Aligned_cols=35 Identities=14% Similarity=0.184 Sum_probs=29.4
Q ss_pred HHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHHH
Q 031969 61 ELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIVM 95 (150)
Q Consensus 61 ~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~~ 95 (150)
.+|-.|.-+.+..|.+..++++|+.+||+...+.+
T Consensus 5 T~~Gd~~~~~gg~i~~~~Li~l~~~~gi~~~~vr~ 39 (280)
T TIGR02277 5 TLYGDAIRPRGGAIWLGSLIEFLAGLGINERLVRT 39 (280)
T ss_pred EehhhhccCCCCceeHHHHHHHHHhcCCCcchHHH
Confidence 46777777777899999999999999999886554
No 216
>PF04221 RelB: RelB antitoxin; InterPro: IPR007337 Plasmids may be maintained stably in bacterial populations through the action of addiction modules, in which a toxin and antidote are encoded in a cassette on the plasmid. In any daughter cell that lacks the plasmid, the toxin persists and is lethal after the antidote protein is depleted. Toxin/antitoxin pairs are also found on main chromosomes, and likely represent selfish DNA. Sequences in the seed for this alignment all were found adjacent to toxin genes. Several toxin/antitoxin pairs may occur in a single species. RelE and RelB form a toxin-antitoxin system; RelE represses translation, probably through binding ribosomes [, ]. RelB stably binds RelE, presumably deactivating it.; PDB: 2KC8_B 2K29_A.
Probab=21.98 E-value=78 Score=21.10 Aligned_cols=24 Identities=25% Similarity=0.325 Sum_probs=19.4
Q ss_pred HHHHHHHHhCCCCchhhhhhhhcc
Q 031969 24 KAALQALKASDWHLEGAFDVFYSQ 47 (150)
Q Consensus 24 ~~A~~~L~~~~w~le~Ai~~f~~~ 47 (150)
..|...|++.|=++..||+.||..
T Consensus 14 ~~a~~il~~~Glt~s~ai~~fl~q 37 (83)
T PF04221_consen 14 EEAEAILEELGLTLSDAINMFLKQ 37 (83)
T ss_dssp HHHHHHHHHTT--HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 468899999999999999999965
No 217
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=21.94 E-value=67 Score=22.58 Aligned_cols=20 Identities=20% Similarity=0.232 Sum_probs=15.4
Q ss_pred cchHHHHHHHhhcCCCCCcH
Q 031969 74 ILVDGITLLCNDLQVDPQDI 93 (150)
Q Consensus 74 I~~dG~~~~~edLgv~ped~ 93 (150)
=.++...+.++.+|++|+++
T Consensus 134 p~~~~~~~~~~~~~~~p~~~ 153 (176)
T PF13419_consen 134 PDPDAYRRALEKLGIPPEEI 153 (176)
T ss_dssp TSHHHHHHHHHHHTSSGGGE
T ss_pred hHHHHHHHHHHHcCCCcceE
Confidence 34678888888899988764
No 218
>cd06577 PASTA_pknB PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis. PknB is a receptor-like transmembrane protein with an extracellular signal sensor domain (containing multiple PASTA domains) and an intracellular, eukaryotic serine/threonine kinase-like domain. The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain.
Probab=21.87 E-value=78 Score=18.30 Aligned_cols=22 Identities=23% Similarity=0.318 Sum_probs=19.4
Q ss_pred HHhCCCHHHHHHHHHhCCCCch
Q 031969 17 SITGASEKAALQALKASDWHLE 38 (150)
Q Consensus 17 ~iT~~~~~~A~~~L~~~~w~le 38 (150)
.++|.+...|...|++.+|.+.
T Consensus 4 ~~~g~~~~~a~~~l~~~g~~~~ 25 (62)
T cd06577 4 DVVGMTLDEAKAALEAAGLKVG 25 (62)
T ss_pred CcCCCCHHHHHHHHHHCCCcee
Confidence 3578999999999999999886
No 219
>PF08455 SNF2_assoc: Bacterial SNF2 helicase associated; InterPro: IPR013663 This domain is found in bacterial proteins of the SWF/SNF/SWI helicase family to the N terminus of the SNF2 family N-terminal domain (IPR000330 from INTERPRO) and together with the Helicase conserved C-terminal domain (IPR001650 from INTERPRO). The function of the domain is not clear [].
Probab=21.70 E-value=2.9e+02 Score=23.29 Aligned_cols=60 Identities=15% Similarity=0.340 Sum_probs=39.8
Q ss_pred CCHHHHHHHHHHhcCC-------CCCc--c---chHHHHHHHhhcCCCCCcHH----------HHHHHHhhccccccccc
Q 031969 54 TDTRHLEELYNRYKDP-------YLDM--I---LVDGITLLCNDLQVDPQDIV----------MLVVSWHMKAATMCEFS 111 (150)
Q Consensus 54 ~~~~~l~~lFd~Y~d~-------~~d~--I---~~dG~~~~~edLgv~ped~~----------~LvLa~~l~a~~~g~~t 111 (150)
.++..|..++..|+.- ++.- + ..+.+.+++++||+++.++. .+.|...| -..++.++
T Consensus 276 i~~~El~~iL~a~~~kkkY~rLknG~~l~L~~~~l~~l~~ll~~l~l~~~~~~~g~i~lp~~ra~~ld~~l-~~~~~~~~ 354 (377)
T PF08455_consen 276 IDPEELADILKAYREKKKYYRLKNGSFLDLEDEELEELSELLDDLGLSNKDLKNGKIQLPKYRALYLDELL-EEELINVE 354 (377)
T ss_pred CCHHHHHHHHHHHHhCCCEEECCCCCEEecChHHHHHHHHHHHHhCCChhhccCCeEEeehhHHHHHHHHH-HhcCCcee
Confidence 4578999999999853 2332 2 34456778899999887655 45566656 45555566
Q ss_pred HHH
Q 031969 112 KQE 114 (150)
Q Consensus 112 r~e 114 (150)
|++
T Consensus 355 ~~~ 357 (377)
T PF08455_consen 355 RDE 357 (377)
T ss_pred hhH
Confidence 544
No 220
>cd01111 HTH_MerD Helix-Turn-Helix DNA binding domain of the MerD transcription regulator. Helix-turn-helix (HTH) transcription regulator MerD. The putative secondary regulator of mercury resistance (mer) operons, MerD, has been shown to down-regulate the expression of this operon in gram-negative bacteria. It binds to the same operator DNA as MerR that activates transcription of the operon in the presence of mercury ions. The MerD protein shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily, which promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are conserved and contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules such as metal ions, drugs,
Probab=21.65 E-value=2.9e+02 Score=19.24 Aligned_cols=101 Identities=11% Similarity=0.093 Sum_probs=52.5
Q ss_pred HHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcCCCCC
Q 031969 12 LQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQVDPQ 91 (150)
Q Consensus 12 i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLgv~pe 91 (150)
|.++...||+|..+=+.|-+ .|- |.. --..+.+...-++. .+.-=..++.+.++|+++.
T Consensus 3 Ige~A~~~gvs~~tlR~ye~-~GL-l~p----~~r~~~g~R~Y~~~---------------~l~~l~~I~~lr~~G~~l~ 61 (107)
T cd01111 3 ISQLALDAGVSVHIVRDYLL-RGL-LHP----VARTEGGYGLFDDC---------------ALQRLRFVRAAFEAGIGLD 61 (107)
T ss_pred HHHHHHHHCcCHHHHHHHHH-CCC-CCC----CCcCCCCCeecCHH---------------HHHHHHHHHHHHHcCCCHH
Confidence 67899999999887665544 341 100 00011110001111 2333366788889999999
Q ss_pred cHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHHHHHHHHHc
Q 031969 92 DIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRERISFMRAEL 141 (150)
Q Consensus 92 d~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l~~l~~~l 141 (150)
++..+.=++..+.... -.+-...+.. .++...+.|..++..|
T Consensus 62 ~I~~~l~~~~~~~~~~----~~~~~~~~~~----~l~~~~~~L~~l~~~L 103 (107)
T cd01111 62 ELARLCRALDAGDGKQ----PEACLAQLRQ----KIEVRRAALNALTTQL 103 (107)
T ss_pred HHHHHHHHHhCCChhh----HHHHHHHHHH----HHHHHHHHHHHHHHHH
Confidence 8887775554332211 1122222222 2566666666666655
No 221
>KOG3389 consensus NADH:ubiquinone oxidoreductase, NDUFS4/18 kDa subunit [Energy production and conversion]
Probab=21.51 E-value=53 Score=25.18 Aligned_cols=22 Identities=9% Similarity=0.219 Sum_probs=17.8
Q ss_pred HhCCCHHHHHHHHHhCCCCchh
Q 031969 18 ITGASEKAALQALKASDWHLEG 39 (150)
Q Consensus 18 iT~~~~~~A~~~L~~~~w~le~ 39 (150)
++=.+.+.|+.|-++|+|+.+.
T Consensus 129 L~F~tkEdA~sFaEkngW~ydv 150 (178)
T KOG3389|consen 129 LAFDTKEDAKSFAEKNGWDYDV 150 (178)
T ss_pred eeeccHHHHHHHHHHcCCcccc
Confidence 3446789999999999998754
No 222
>PF02831 gpW: gpW; InterPro: IPR004174 GpW is a 68 residue protein known to be present in phage particles. Extracts of phage-infected cells lacking GpW contain DNA-filled heads, and active tails, but no infectious virions. GpW is required for the addition of GpFII to the head, which is, in turn, required for the attachment of tails. Since GpFII and tails are known to be attached at the connector, GpW is also likely to assemble at this site. The addition of GpW to filled heads increases the DNase resistance of the packaged DNA, suggesting that GpW either forms a plug at the connector to prevent ejection of the DNA, or binds directly to the DNA. The large number of positively charged residues in GpW (its calculated pI is 10.8) is consistent with a role in DNA interaction [].; GO: 0019067 viral assembly, maturation, egress, and release; PDB: 2L6Q_A 2L6R_A 1HYW_A.
Probab=21.31 E-value=93 Score=20.49 Aligned_cols=18 Identities=22% Similarity=0.385 Sum_probs=16.2
Q ss_pred CCHHHHHHHHHHHHHHcC
Q 031969 125 DSLDKFRERISFMRAELK 142 (150)
Q Consensus 125 dsi~~lk~~l~~l~~~l~ 142 (150)
.++.+|+.+|.+|+..|.
T Consensus 38 a~i~~L~~yI~~L~~~Lg 55 (68)
T PF02831_consen 38 ANIGDLRAYIQQLEAQLG 55 (68)
T ss_dssp GGHHHHHHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHHHHHhC
Confidence 579999999999999983
No 223
>PF03250 Tropomodulin: Tropomodulin; InterPro: IPR004934 Actin filaments have an intrinsic polarity, each with a fast-growing (barbed) end and a slow-growing (pointed) end. To regulate the dynamics at these ends, capping proteins have evolved that specifically bind to either the barbed or the pointed ends of the filament, where they block the association and dissociation of monomers. Pointed ends, for which actin monomers have significantly lower association and dissociation rate-constants than for barbed, are capped by either the Arp2/3 complex or tropomodulins []. Tropomodulin is a novel tropomyosin regulatory protein that binds to the end of erythrocyte tropomyosin and blocks head-to-tail association of tropomyosin along actin filaments []. Limited proteolysis shows this protein is composed of two domains. The unstructured tropomyosin-binding region at the N terminus has an actin pointed-end-capping activity that is dramatically up-regulated by tropomyosin coating of the actin filament[]. The second region is found near the C terminus. This tropomyosin-independent capping-domain caps pure actin. ; GO: 0005523 tropomyosin binding, 0005856 cytoskeleton
Probab=21.29 E-value=1.1e+02 Score=23.27 Aligned_cols=58 Identities=17% Similarity=0.318 Sum_probs=39.5
Q ss_pred HHhcCCCCC----ccchHHHHHHHhhc-CCCCCc-HHHHHHHHhhcccc--cccccHHHHHHHhHH
Q 031969 64 NRYKDPYLD----MILVDGITLLCNDL-QVDPQD-IVMLVVSWHMKAAT--MCEFSKQEFIGGLQS 121 (150)
Q Consensus 64 d~Y~d~~~d----~I~~dG~~~~~edL-gv~ped-~~~LvLa~~l~a~~--~g~~tr~eF~~g~~~ 121 (150)
.+|.|.+.| .+.++-+..+-..| .++|++ ....-+-.+=++.+ .|.|.|+.-+.-|..
T Consensus 10 ~~y~DiDeDelL~~LS~EEL~~L~~el~e~DPd~~~lP~g~Rq~dQT~K~pTG~fdRe~Ll~~lek 75 (147)
T PF03250_consen 10 EKYEDIDEDELLAKLSPEELEELENELEEMDPDNSLLPAGMRQRDQTEKPPTGPFDREALLDYLEK 75 (147)
T ss_pred hhcccCCHHHHHHhCCHHHHHHHHHHHHhhCCCcccCChhhhcccccCCCCCCCcCHHHHHHHHHH
Confidence 456776554 56777777777666 588987 35555555555543 599999999987744
No 224
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.20 E-value=1.6e+02 Score=25.92 Aligned_cols=43 Identities=16% Similarity=0.217 Sum_probs=39.2
Q ss_pred cchHHHHHHHHHHhCCCHHHHHHHHHhCCCCchhhhhhhhccC
Q 031969 6 RSNRDKLQQFVSITGASEKAALQALKASDWHLEGAFDVFYSQP 48 (150)
Q Consensus 6 ~~~~~~i~~F~~iT~~~~~~A~~~L~~~~w~le~Ai~~f~~~~ 48 (150)
..+.+.|.+-+++..++..+|+..|....|+-+.=+..|+..+
T Consensus 10 ~~~~~~i~~~~~~ls~~~~~~~~ll~~~~W~~~kl~~~~~~~~ 52 (444)
T KOG1815|consen 10 ALMREDIIEVSDILSLSHAVARILLAHFCWNVEKLLEEWVEDE 52 (444)
T ss_pred HHhHhhHHHHHHhhcCCHHHHHHHHHhcCcchHHHHHHHHhcC
Confidence 3567889999999999999999999999999999999999875
No 225
>cd05831 Ribosomal_P1 Ribosomal protein P1. This subfamily represents the eukaryotic large ribosomal protein P1. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P1 is located in the L12 stalk, with proteins P2, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers) and bacteria may have four or six copies (two or three homodimers), depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2A, and
Probab=21.18 E-value=1.2e+02 Score=21.41 Aligned_cols=36 Identities=14% Similarity=0.060 Sum_probs=30.4
Q ss_pred CccchHHHHHHHhhcCCCCCcHHHHHHHHhhccccc
Q 031969 72 DMILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATM 107 (150)
Q Consensus 72 d~I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~ 107 (150)
-.|+.+.|.+.++..||+.+...+-.++..|.-.++
T Consensus 16 ~~~Tae~I~~ilkAaGveve~~~~~~f~~~L~gk~i 51 (103)
T cd05831 16 IEITADNINALLKAAGVNVEPYWPGLFAKALEGKDI 51 (103)
T ss_pred CCCCHHHHHHHHHHcCCcccHHHHHHHHHHHcCCCH
Confidence 479999999999999999998888788877766554
No 226
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=21.17 E-value=89 Score=19.25 Aligned_cols=57 Identities=12% Similarity=0.099 Sum_probs=30.0
Q ss_pred HHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHHHHHHHHHc
Q 031969 79 ITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRERISFMRAEL 141 (150)
Q Consensus 79 ~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~l~~l~~~l 141 (150)
.++.+..||++.+++.-++-. +.-|.-+...+.. +-.-....+++.-+.|..++..|
T Consensus 6 ~I~~~r~lGfsL~eI~~~l~l-----~~~~~~~~~~~~~-~l~~~~~~i~~~i~~L~~~~~~L 62 (65)
T PF09278_consen 6 FIRRLRELGFSLEEIRELLEL-----YDQGDPPCADRRA-LLEEKLEEIEEQIAELQALRAQL 62 (65)
T ss_dssp HHHHHHHTT--HHHHHHHHHH-----CCSHCHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHcCCCHHHHHHHHhc-----cCCCCCCHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 567888999999998887722 1114455555552 22224444444444444444443
No 227
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=21.11 E-value=1.4e+02 Score=20.57 Aligned_cols=60 Identities=22% Similarity=0.262 Sum_probs=33.3
Q ss_pred hCCC-HHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCCCccchHHHHHHHhhcC
Q 031969 19 TGAS-EKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYLDMILVDGITLLCNDLQ 87 (150)
Q Consensus 19 T~~~-~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~d~I~~dG~~~~~edLg 87 (150)
.+|+ ...|..+|++++-.++ .-.|...+ .+...|.+|+...-.+-.+-|...|. ...+|+
T Consensus 4 ~~C~t~rka~~~L~~~gi~~~--~~d~~k~p-----~s~~el~~~l~~~~~~~~~lin~~~~--~~k~l~ 64 (110)
T PF03960_consen 4 PNCSTCRKALKWLEENGIEYE--FIDYKKEP-----LSREELRELLSKLGNGPDDLINTRSK--TYKELG 64 (110)
T ss_dssp TT-HHHHHHHHHHHHTT--EE--EEETTTS--------HHHHHHHHHHHTSSGGGGB-TTSH--HHHHTT
T ss_pred CCCHHHHHHHHHHHHcCCCeE--eehhhhCC-----CCHHHHHHHHHHhcccHHHHhcCccc--hHhhhh
Confidence 3454 4579999999987765 34444433 35788888888877533345555552 344444
No 228
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=21.03 E-value=3.5e+02 Score=19.95 Aligned_cols=88 Identities=17% Similarity=0.245 Sum_probs=47.5
Q ss_pred HHHHHhcCCCCCccchHHHHHHHhhcCCCCCcHH--HHHHHHhhcc----------------------cccccccHHHHH
Q 031969 61 ELYNRYKDPYLDMILVDGITLLCNDLQVDPQDIV--MLVVSWHMKA----------------------ATMCEFSKQEFI 116 (150)
Q Consensus 61 ~lFd~Y~d~~~d~I~~dG~~~~~edLgv~ped~~--~LvLa~~l~a----------------------~~~g~~tr~eF~ 116 (150)
++-++--++.....+.++++.+|+-+.-+|+.+. +-.|..+++. +-.-+|.+.+|+
T Consensus 4 ~~iekAT~~~l~~~dw~~ileicD~In~~~~~~k~a~rai~krl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evas~~Fl 83 (139)
T cd03567 4 AWLNKATNPSNREEDWEAIQAFCEQINKEPEGPQLAVRLLAHKIQSPQEKEALQALTVLEACMKNCGERFHSEVGKFRFL 83 (139)
T ss_pred HHHHHHcCccCCCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCHHHHHHHHhHHHH
Confidence 3344444443345666677777777666665543 2223333322 223678899999
Q ss_pred HHhHHcCC------CCHHHHHHHHHH----HHHHcCCCcccc
Q 031969 117 GGLQSLGI------DSLDKFRERISF----MRAELKDERTCT 148 (150)
Q Consensus 117 ~g~~~l~~------dsi~~lk~~l~~----l~~~l~~~~~Fk 148 (150)
+-+.++=- .+....|.++-. +...+.+...|+
T Consensus 84 ~el~kl~~~k~~~~~~~~~Vk~kil~li~~W~~~f~~~p~~~ 125 (139)
T cd03567 84 NELIKLVSPKYLGSRTSEKVKTKIIELLYSWTLELPHEPKIK 125 (139)
T ss_pred HHHHHHhccccCCCCCCHHHHHHHHHHHHHHHHHhcccchHH
Confidence 98887531 245566665544 444444433343
No 229
>PF03911 Sec61_beta: Sec61beta family; InterPro: IPR005609 This family consists of Sec61 subunit beta and homologues like archaeal SecG. This subunit is a component of the Sec61/SecYEG protein secretory system.; PDB: 2WWA_C 2WW9_C 3BO0_C 3KCR_C 3BO1_C 2YXR_C 3DKN_C 2YXQ_C 1RH5_C 1RHZ_C ....
Probab=20.90 E-value=62 Score=19.09 Aligned_cols=23 Identities=13% Similarity=0.628 Sum_probs=7.2
Q ss_pred HHHHHHHhh----cCCCCCcHHHHHHH
Q 031969 77 DGITLLCND----LQVDPQDIVMLVVS 99 (150)
Q Consensus 77 dG~~~~~ed----Lgv~ped~~~LvLa 99 (150)
.|++||.+| +-++|.-+..+.++
T Consensus 3 agl~r~y~ed~~giki~P~~Vl~~si~ 29 (41)
T PF03911_consen 3 AGLLRYYEEDAPGIKIDPKTVLIISIA 29 (41)
T ss_dssp ----------S-SS-BSCCHHHHHHHH
T ss_pred CcceeeeeccCCcceeCCeehHHHHHH
Confidence 478888865 44566655555444
No 230
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=20.89 E-value=66 Score=22.81 Aligned_cols=19 Identities=21% Similarity=0.389 Sum_probs=15.3
Q ss_pred CCHHHHHHHHHhCCCCchh
Q 031969 21 ASEKAALQALKASDWHLEG 39 (150)
Q Consensus 21 ~~~~~A~~~L~~~~w~le~ 39 (150)
.|.+.|+.|-++++|..+.
T Consensus 56 ~skE~Ai~yaer~G~~Y~V 74 (101)
T PF04800_consen 56 DSKEDAIAYAERNGWDYEV 74 (101)
T ss_dssp SSHHHHHHHHHHCT-EEEE
T ss_pred CCHHHHHHHHHHcCCeEEE
Confidence 4678999999999998755
No 231
>COG2414 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]
Probab=20.80 E-value=1.5e+02 Score=27.64 Aligned_cols=44 Identities=20% Similarity=0.268 Sum_probs=34.1
Q ss_pred CccchHHHH---HHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHH
Q 031969 72 DMILVDGIT---LLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFI 116 (150)
Q Consensus 72 d~I~~dG~~---~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~ 116 (150)
..++.+.+. .+|.+||+|+-+. =-+|||.+.+...|.|+.++.-
T Consensus 327 G~~dl~~v~~~~~~~d~lG~D~Is~-G~~~a~~~El~erG~i~~~e~g 373 (614)
T COG2414 327 GIIDLDAVLELNHLADRLGLDTISS-GGVLAWAMELVERGLIKEEEVG 373 (614)
T ss_pred ccccHHHHHHHHHHHHHhCCCeehh-hHHHHHHHHHHHcCCCChHhcc
Confidence 356666654 5789999987432 2489999999999999999864
No 232
>PF13714 PEP_mutase: Phosphoenolpyruvate phosphomutase; PDB: 1ZLP_A 3EOO_C 1UJQ_D 1O5Q_A 2DUA_A 2HJP_A 2HRW_A 2QIW_A 3KZ2_B 3IH1_B ....
Probab=20.73 E-value=1.5e+02 Score=23.90 Aligned_cols=45 Identities=9% Similarity=-0.020 Sum_probs=36.7
Q ss_pred HHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHc
Q 031969 78 GITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSL 122 (150)
Q Consensus 78 G~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l 122 (150)
...+.++..|.+.=-..-..+|+-+|-|-.|.+|.+|.+.-.+++
T Consensus 20 ~SAr~~e~~Gf~ai~~sg~~~a~s~G~pD~~~lt~~e~~~~~~~I 64 (238)
T PF13714_consen 20 LSARLAERAGFDAIATSGAGVAASLGYPDGGLLTLTEMLAAVRRI 64 (238)
T ss_dssp HHHHHHHHTT-SEEEEHHHHHHHHTTS-SSS-S-HHHHHHHHHHH
T ss_pred HHHHHHHHcCCCEEEechHHHHHHcCCCCCCCCCHHHHHHHHHHH
Confidence 678899999999887889999999999999999999999887765
No 233
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=20.63 E-value=2.5e+02 Score=23.73 Aligned_cols=68 Identities=18% Similarity=0.230 Sum_probs=42.0
Q ss_pred CCCHHHHHHHHHhCCCCchhhhhhhhccCCCCCcCCHHHHHHHHHHhcCCCC-----CccchHHHHH-HHhhcCCCCCcH
Q 031969 20 GASEKAALQALKASDWHLEGAFDVFYSQPQSKSLTDTRHLEELYNRYKDPYL-----DMILVDGITL-LCNDLQVDPQDI 93 (150)
Q Consensus 20 ~~~~~~A~~~L~~~~w~le~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d~~~-----d~I~~dG~~~-~~edLgv~ped~ 93 (150)
|+-+++|..++++++ +++..+... +... . +.+++.++|-.-.=.++ ...+.+|+.+ +|+..|.+++-+
T Consensus 243 GIG~ktA~kli~~~g-sie~il~~~-~~~~---~-~~~~~~~~f~~~~v~~~~~~~~~~pd~e~l~~fl~~e~~~~~~rv 316 (338)
T TIGR03674 243 GIGPKTALKLIKEHG-DLEKVLKAR-GEDI---E-NYDEIREFFLNPPVTDDYELKWRKPDKEGIIEFLCDEHDFSEDRV 316 (338)
T ss_pred CccHHHHHHHHHHcC-CHHHHHHhh-cCCC---C-CHHHHHHHhCCCCCCCCCCccCCCCCHHHHHHHHhhcCCCCHHHH
Confidence 445889999999998 666655442 1111 1 22455555553211011 2578899999 779999998833
No 234
>PF12728 HTH_17: Helix-turn-helix domain
Probab=20.62 E-value=1.4e+02 Score=17.35 Aligned_cols=22 Identities=9% Similarity=0.264 Sum_probs=18.7
Q ss_pred HHHHHHHhCCCHHHHHHHHHhC
Q 031969 12 LQQFVSITGASEKAALQALKAS 33 (150)
Q Consensus 12 i~~F~~iT~~~~~~A~~~L~~~ 33 (150)
+++.+++.|++..+...++++.
T Consensus 4 ~~e~a~~l~is~~tv~~~~~~g 25 (51)
T PF12728_consen 4 VKEAAELLGISRSTVYRWIRQG 25 (51)
T ss_pred HHHHHHHHCcCHHHHHHHHHcC
Confidence 5788899999999999888755
No 235
>PF11731 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria []. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed.
Probab=20.49 E-value=1.7e+02 Score=20.43 Aligned_cols=40 Identities=18% Similarity=0.213 Sum_probs=30.0
Q ss_pred CCcHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHHHHHH
Q 031969 90 PQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDKFRER 133 (150)
Q Consensus 90 ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~lk~~ 133 (150)
|.-+.-=.++.+..-|++|.=+-+.+. .||+.|+++|+.+
T Consensus 3 p~k~~~~~~~~L~~iP~IG~a~a~DL~----~LGi~s~~~L~g~ 42 (93)
T PF11731_consen 3 PAKVKRAGLSDLTDIPNIGKATAEDLR----LLGIRSPADLKGR 42 (93)
T ss_pred hHHHHHHHHHHHhcCCCccHHHHHHHH----HcCCCCHHHHhCC
Confidence 333444456777788999988777766 7999999999875
No 236
>TIGR02247 HAD-1A3-hyp Epoxide hydrolase N-terminal domain-like phosphatase. These appear to be members of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases by general homology and the conservation of all of the recognized catalytic motifs (although the first motif is unusual in the replacement of the more common aspartate with glycine...). The variable domain is found in between motifs 1 and 2, indicating membership in subfamily I and phylogeny and prediction of the alpha helical nature of the variable domain (by PSI-PRED) indicate membership in subfamily IA.
Probab=20.32 E-value=1.7e+02 Score=22.03 Aligned_cols=19 Identities=21% Similarity=0.179 Sum_probs=13.8
Q ss_pred cchHHHHHHHhhcCCCCCc
Q 031969 74 ILVDGITLLCNDLQVDPQD 92 (150)
Q Consensus 74 I~~dG~~~~~edLgv~ped 92 (150)
=+++.....++.+|++|++
T Consensus 153 P~p~~~~~~~~~~g~~~~~ 171 (211)
T TIGR02247 153 PDPRIYQLMLERLGVAPEE 171 (211)
T ss_pred CCHHHHHHHHHHcCCCHHH
Confidence 3567777777888888765
No 237
>PRK13503 transcriptional activator RhaS; Provisional
Probab=20.29 E-value=4.3e+02 Score=20.65 Aligned_cols=54 Identities=26% Similarity=0.309 Sum_probs=37.6
Q ss_pred chHHHHHHHHHHhCCCHH---------HHHHHHHhCCCCch-hhhhhhhccCCCCCcCCHHHHHHHHHHhcC
Q 031969 7 SNRDKLQQFVSITGASEK---------AALQALKASDWHLE-GAFDVFYSQPQSKSLTDTRHLEELYNRYKD 68 (150)
Q Consensus 7 ~~~~~i~~F~~iT~~~~~---------~A~~~L~~~~w~le-~Ai~~f~~~~~~~~~~~~~~l~~lFd~Y~d 68 (150)
+.....+-|.+.||.|.. .|...|...+|.+. .|...=|+ +.....+.|.++-.
T Consensus 200 S~~~l~r~Fk~~~G~S~~~yi~~~Rl~~A~~LL~~~~~sI~eIA~~~GF~--------~~s~F~r~FKk~~G 263 (278)
T PRK13503 200 SLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFG--------DSNHFSTLFRREFS 263 (278)
T ss_pred CHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHhCCC--------CHHHHHHHHHHHHC
Confidence 346678899999999864 57888888888873 33333233 34677788888765
No 238
>KOG2768 consensus Translation initiation factor 2, beta subunit (eIF-2beta) [Translation, ribosomal structure and biogenesis]
Probab=20.25 E-value=3.6e+02 Score=21.95 Aligned_cols=77 Identities=16% Similarity=0.343 Sum_probs=58.2
Q ss_pred cCCHHHHHHHHHHhcCCCCC--------cc-----chHH-------HHHHHhhcCCCCCcHHHHHHHHhhccccc-----
Q 031969 53 LTDTRHLEELYNRYKDPYLD--------MI-----LVDG-------ITLLCNDLQVDPQDIVMLVVSWHMKAATM----- 107 (150)
Q Consensus 53 ~~~~~~l~~lFd~Y~d~~~d--------~I-----~~dG-------~~~~~edLgv~ped~~~LvLa~~l~a~~~----- 107 (150)
..+..-|...|+-.++.++| .| --+| ++.+|.-|.=+|+.+.-+.||.+.-.-++
T Consensus 79 y~Y~ElL~rvf~ilreknpe~aGe~~k~v~~PPqvlRegkkT~f~Nf~Dick~mhR~pdHv~~FLlAELgTsGSidg~~r 158 (231)
T KOG2768|consen 79 YTYYELLSRVFNILREKNPELAGEKRKFVMKPPQVLREGKKTVFVNFADICKTMHRSPDHVMQFLLAELGTSGSIDGQQR 158 (231)
T ss_pred ccHHHHHHHHHHHHHhcCchhcccccceeeCCHHHHhhccceeeeeHHHHHHHhccChHHHHHHHHHHhccccccCCCce
Confidence 45678899999999865443 11 2234 77899999999999999999998766552
Q ss_pred ----ccccHHHHHHHhHHc--------CCCCHHH
Q 031969 108 ----CEFSKQEFIGGLQSL--------GIDSLDK 129 (150)
Q Consensus 108 ----g~~tr~eF~~g~~~l--------~~dsi~~ 129 (150)
|.|++.+|-+-++++ .|.|++.
T Consensus 159 LviKGrfq~kq~e~VLRrYI~eyV~C~~CkSpdt 192 (231)
T KOG2768|consen 159 LVIKGRFQQKQFENVLRRYIKEYVTCKTCKSPDT 192 (231)
T ss_pred EEEeccccHHHHHHHHHHHHHHheEeeecCChhH
Confidence 889999998887775 5566654
No 239
>COG3130 Rmf Ribosome modulation factor [Translation, ribosomal structure and biogenesis]
Probab=20.24 E-value=82 Score=19.79 Aligned_cols=15 Identities=20% Similarity=0.547 Sum_probs=11.7
Q ss_pred cHHHHHHHhHHcCCC
Q 031969 111 SKQEFIGGLQSLGID 125 (150)
Q Consensus 111 tr~eF~~g~~~l~~d 125 (150)
+|+.|+.||..-.-|
T Consensus 36 ~Rs~WLgGWRea~~D 50 (55)
T COG3130 36 QRSQWLGGWREAMAD 50 (55)
T ss_pred HHHHHHHHHHHHhhh
Confidence 499999999875443
No 240
>PRK07027 cobalamin biosynthesis protein CbiG; Provisional
Probab=20.23 E-value=2e+02 Score=20.80 Aligned_cols=50 Identities=12% Similarity=0.147 Sum_probs=24.5
Q ss_pred cchHHHHHHHhhcCCCCCcHHHHHHHHhhcccccccccHHHHHHHhHHcCCCCHHH
Q 031969 74 ILVDGITLLCNDLQVDPQDIVMLVVSWHMKAATMCEFSKQEFIGGLQSLGIDSLDK 129 (150)
Q Consensus 74 I~~dG~~~~~edLgv~ped~~~LvLa~~l~a~~~g~~tr~eF~~g~~~l~~dsi~~ 129 (150)
.+-.|+..+...||+..-=+..=-| ..-....++.++|+. +.+|+.++..
T Consensus 47 ~~E~~L~~~A~~lg~pl~~~~~~eL----~~~~~~~~~~S~~v~--~~~Gv~sVaE 96 (126)
T PRK07027 47 ADEAGLLALCARHGWPLRAFSAAQL----AASEGALSGPSDAVR--ARVGVDGVAE 96 (126)
T ss_pred cCCHHHHHHHHHhCCCeEEeCHHHH----HhccCCCCCcCHHHH--HHhCCChHHH
Confidence 3445666666666665421111111 100111255677765 5678887763
No 241
>PF12668 DUF3791: Protein of unknown function (DUF3791); InterPro: IPR024269 This entry represents proteins of unknown function.
Probab=20.19 E-value=1.7e+02 Score=18.35 Aligned_cols=24 Identities=21% Similarity=0.241 Sum_probs=21.8
Q ss_pred HHHHHHHHhCCCHHHHHHHHHhCC
Q 031969 11 KLQQFVSITGASEKAALQALKASD 34 (150)
Q Consensus 11 ~i~~F~~iT~~~~~~A~~~L~~~~ 34 (150)
.|..|+.--|.|.+.|-.+|++++
T Consensus 7 ~Ie~~A~~~~~s~~ea~~~~~~~~ 30 (62)
T PF12668_consen 7 CIEEFAKKLNISGEEAYNYFKRSG 30 (62)
T ss_pred HHHHHHHHHCcCHHHHHHHHHHcC
Confidence 578999999999999999999887
No 242
>TIGR03351 PhnX-like phosphonatase-like hydrolase. This clade of sequences are the closest homologs to the PhnX enzyme, phosphonoacetaldehyde (Pald) hydrolase (phosphonatase, TIGR01422). This phosphonatase-like enzyme and PhnX itself are members of the haloacid dehalogenase (HAD) superfamily (pfam00702) having a a number of distinctive features that set them apart from typical HAD enzymes. The typical HAD N-terminal motif DxDx(T/V) here is DxAGT and the usual conserved lysine prior to the C-terminal motif is instead an arginine. Also distinctive of phosphonatase, and particular to its bi-catalytic mechanism is a conserved lysine in the variable "cap" domain. This lysine forms a Schiff base with the aldehyde of phosphonoacetaldehyde, providing, through the resulting positive charge, a polarization of the C-P bond necesary for cleavage as well as a route to the initial product of cleavage, an ene-amine. The conservation of these elements in this phosphonatase-like enzyme suggests that the
Probab=20.02 E-value=72 Score=24.25 Aligned_cols=34 Identities=18% Similarity=-0.040 Sum_probs=24.0
Q ss_pred ccchHHHHHHHhhcCCC-CCcHH-------HHHHHHhhcccc
Q 031969 73 MILVDGITLLCNDLQVD-PQDIV-------MLVVSWHMKAAT 106 (150)
Q Consensus 73 ~I~~dG~~~~~edLgv~-ped~~-------~LvLa~~l~a~~ 106 (150)
+-.++.+.+.++.+|+. |++.. =+.-|...|.+.
T Consensus 145 KP~p~~~~~a~~~~~~~~~~~~~~igD~~~Di~aa~~aG~~~ 186 (220)
T TIGR03351 145 RPAPDLILRAMELTGVQDVQSVAVAGDTPNDLEAGINAGAGA 186 (220)
T ss_pred CCCHHHHHHHHHHcCCCChhHeEEeCCCHHHHHHHHHCCCCe
Confidence 45788899999999997 55433 345566677776
Done!