Query 026550
Match_columns 237
No_of_seqs 120 out of 1256
Neff 8.6
Searched_HMMs 46136
Date Fri Mar 29 09:28:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026550.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026550hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10334 mechanosensitive chan 100.0 1.4E-49 2.9E-54 337.9 28.5 216 3-229 68-284 (286)
2 PRK10929 putative mechanosensi 100.0 2.5E-44 5.5E-49 346.1 29.3 216 3-227 874-1090(1109)
3 PRK11281 hypothetical protein; 100.0 3.3E-44 7.1E-49 346.4 28.0 216 3-227 877-1093(1113)
4 PF00924 MS_channel: Mechanose 100.0 1.8E-42 3.8E-47 282.8 20.9 204 5-211 1-205 (206)
5 PRK11465 putative mechanosensi 100.0 3.9E-41 8.5E-46 312.3 29.3 213 2-227 511-727 (741)
6 COG3264 Small-conductance mech 100.0 9.4E-42 2E-46 314.3 23.7 213 3-224 599-812 (835)
7 COG0668 MscS Small-conductance 100.0 1.2E-38 2.6E-43 275.4 27.6 212 3-225 86-300 (316)
8 KOG4629 Predicted mechanosensi 100.0 3.1E-31 6.8E-36 244.5 14.6 232 1-235 480-712 (714)
9 TIGR00739 yajC preprotein tran 90.2 1.3 2.7E-05 30.7 5.8 39 63-101 35-74 (84)
10 PRK05585 yajC preprotein trans 89.9 1.1 2.3E-05 32.6 5.5 42 63-104 50-92 (106)
11 PF14801 GCD14_N: tRNA methylt 88.9 0.28 6E-06 30.7 1.5 24 63-86 3-26 (54)
12 PF09953 DUF2187: Uncharacteri 87.1 1.3 2.8E-05 28.2 3.8 26 66-91 4-30 (57)
13 smart00739 KOW KOW (Kyprides, 86.5 1.4 3.1E-05 23.1 3.4 21 65-85 1-26 (28)
14 PRK05886 yajC preprotein trans 84.5 3.9 8.5E-05 29.8 5.8 38 64-101 37-75 (109)
15 COG4873 Uncharacterized protei 82.2 1.7 3.6E-05 28.5 2.7 44 43-90 5-49 (81)
16 PRK06531 yajC preprotein trans 78.4 7.2 0.00016 28.6 5.4 42 64-106 35-79 (113)
17 PF00467 KOW: KOW motif; Inte 77.1 5.5 0.00012 22.0 3.5 18 68-85 1-23 (32)
18 PF02699 YajC: Preprotein tran 76.4 0.76 1.6E-05 31.7 -0.2 40 62-101 33-73 (82)
19 COG1862 YajC Preprotein transl 76.1 9.3 0.0002 27.2 5.3 42 65-106 43-85 (97)
20 PF09926 DUF2158: Uncharacteri 73.9 4 8.7E-05 25.6 2.6 20 66-85 1-22 (53)
21 PRK08559 nusG transcription an 73.0 13 0.00029 28.6 6.0 43 64-106 93-145 (153)
22 cd04466 S1_YloQ_GTPase S1_YloQ 69.9 9.4 0.0002 24.6 4.0 29 64-92 36-67 (68)
23 PF06107 DUF951: Bacterial pro 67.3 18 0.00038 23.1 4.5 42 66-107 2-49 (57)
24 PRK13889 conjugal transfer rel 65.2 11 0.00024 38.0 5.1 44 63-106 598-651 (988)
25 TIGR00405 L26e_arch ribosomal 63.6 25 0.00053 26.7 5.7 43 64-106 85-137 (145)
26 PRK03999 translation initiatio 63.5 29 0.00062 26.0 5.9 22 65-86 10-31 (129)
27 PF09870 DUF2097: Uncharacteri 62.9 24 0.00052 24.5 4.9 32 62-93 15-50 (86)
28 PRK12281 rplX 50S ribosomal pr 62.7 12 0.00026 25.3 3.4 24 65-88 6-34 (76)
29 PF00677 Lum_binding: Lumazine 62.1 18 0.00038 24.9 4.2 47 64-118 32-78 (85)
30 PF13452 MaoC_dehydrat_N: N-te 61.3 23 0.0005 26.0 5.1 47 54-100 76-130 (132)
31 TIGR02768 TraA_Ti Ti-type conj 61.0 15 0.00032 36.0 4.9 43 64-106 606-658 (744)
32 PF12961 DUF3850: Domain of Un 60.5 19 0.0004 24.2 3.9 14 61-74 24-37 (72)
33 cd03454 YdeM YdeM is a Bacillu 59.9 34 0.00073 25.4 5.9 42 59-100 82-131 (140)
34 cd04461 S1_Rrp5_repeat_hs8_sc7 59.6 39 0.00085 22.6 5.7 44 66-114 12-55 (83)
35 CHL00141 rpl24 ribosomal prote 59.4 15 0.00032 25.3 3.4 23 65-87 8-35 (83)
36 PF01835 A2M_N: MG2 domain; I 58.8 57 0.0012 22.5 6.6 43 58-100 2-51 (99)
37 cd07687 IgC_TCR_delta Immunogl 58.1 25 0.00055 23.6 4.1 49 81-132 21-69 (80)
38 PF02559 CarD_CdnL_TRCF: CarD- 57.2 54 0.0012 22.9 6.2 42 66-107 2-52 (98)
39 PF04156 IncA: IncA protein; 55.6 45 0.00097 26.4 6.2 8 36-43 42-49 (191)
40 PRK13692 (3R)-hydroxyacyl-ACP 54.7 52 0.0011 25.4 6.2 17 60-76 91-107 (159)
41 PF09871 DUF2098: Uncharacteri 53.6 19 0.0004 25.4 3.2 21 64-84 1-23 (91)
42 PF03829 PTSIIA_gutA: PTS syst 53.5 17 0.00036 26.8 3.1 24 63-86 49-72 (117)
43 cd03701 IF2_IF5B_II IF2_IF5B_I 53.2 15 0.00033 25.8 2.8 24 60-83 21-44 (95)
44 TIGR00527 gcvH glycine cleavag 52.9 26 0.00056 26.2 4.1 43 66-109 44-86 (127)
45 PRK05609 nusG transcription an 52.8 49 0.0011 25.9 6.0 44 63-106 124-177 (181)
46 PRK10377 PTS system glucitol/s 52.2 20 0.00044 26.5 3.4 24 63-86 49-72 (120)
47 cd05698 S1_Rrp5_repeat_hs6_sc5 50.8 38 0.00082 21.7 4.3 37 77-113 4-40 (70)
48 PRK00004 rplX 50S ribosomal pr 50.7 24 0.00052 25.5 3.5 24 65-88 4-32 (105)
49 cd03702 IF2_mtIF2_II This fami 50.4 16 0.00035 25.8 2.5 24 60-83 21-44 (95)
50 PF01545 Cation_efflux: Cation 50.4 1.5E+02 0.0032 24.8 8.9 62 141-208 206-267 (284)
51 cd01854 YjeQ_engC YjeQ/EngC. 50.2 30 0.00066 29.5 4.7 32 64-95 33-67 (287)
52 TIGR00849 gutA PTS system, glu 48.9 25 0.00054 26.1 3.4 24 63-86 49-72 (121)
53 cd03451 FkbR2 FkbR2 is a Strep 48.7 62 0.0013 24.0 5.8 18 59-76 85-102 (146)
54 PRK01191 rpl24p 50S ribosomal 47.7 22 0.00047 26.4 2.9 22 65-86 45-71 (120)
55 PF02470 MCE: mce related prot 47.5 59 0.0013 21.6 5.0 22 65-86 14-36 (81)
56 COG2139 RPL21A Ribosomal prote 47.1 32 0.0007 24.3 3.5 36 63-98 30-80 (98)
57 PRK11507 ribosome-associated p 46.9 26 0.00056 23.4 2.9 20 63-82 50-69 (70)
58 PRK01202 glycine cleavage syst 46.7 46 0.001 24.8 4.6 64 46-113 28-92 (127)
59 PLN03094 Substrate binding sub 46.5 1.5E+02 0.0033 26.5 8.5 24 65-88 129-153 (370)
60 TIGR00922 nusG transcription t 46.3 70 0.0015 24.8 5.9 41 64-104 118-168 (172)
61 TIGR01080 rplX_A_E ribosomal p 46.2 37 0.0008 24.9 3.9 21 65-85 41-66 (114)
62 cd03703 aeIF5B_II aeIF5B_II: T 46.0 18 0.0004 26.3 2.3 21 59-79 20-40 (110)
63 PRK02289 4-oxalocrotonate taut 45.8 75 0.0016 20.0 5.4 47 125-171 4-50 (60)
64 PF08566 Pam17: Mitochondrial 45.1 84 0.0018 24.9 5.9 32 23-54 71-102 (173)
65 TIGR01956 NusG_myco NusG famil 44.9 74 0.0016 26.9 6.0 34 65-98 205-246 (258)
66 TIGR00038 efp translation elon 44.9 64 0.0014 25.7 5.5 32 64-95 4-44 (184)
67 cd03449 R_hydratase (R)-hydrat 44.8 99 0.0021 22.1 6.2 43 58-100 75-120 (128)
68 PF11356 Pilus_PilP: Type IV p 44.8 30 0.00065 23.5 3.2 35 63-100 52-86 (87)
69 PRK00624 glycine cleavage syst 44.6 50 0.0011 24.2 4.4 68 46-117 23-91 (114)
70 PRK13691 (3R)-hydroxyacyl-ACP 44.4 82 0.0018 24.6 5.9 15 62-76 93-107 (166)
71 cd06555 ASCH_PF0470_like ASC-1 44.4 31 0.00068 25.1 3.3 13 65-77 31-43 (109)
72 cd03441 R_hydratase_like (R)-h 44.1 97 0.0021 22.0 6.1 44 56-99 71-119 (127)
73 COG5346 Predicted membrane pro 44.0 69 0.0015 23.8 4.9 22 4-25 86-107 (136)
74 PF05641 Agenet: Agenet domain 44.0 30 0.00066 22.5 2.9 9 66-74 1-9 (68)
75 COG2332 CcmE Cytochrome c-type 44.0 90 0.0019 24.1 5.7 66 29-96 10-81 (153)
76 cd03447 FAS_MaoC FAS_MaoC, the 44.0 1E+02 0.0022 22.7 6.2 17 59-75 74-90 (126)
77 TIGR01079 rplX_bact ribosomal 44.0 32 0.0007 24.7 3.3 23 65-87 3-30 (104)
78 COG2100 Predicted Fe-S oxidore 43.9 51 0.0011 29.0 4.9 35 62-105 348-387 (414)
79 PF03147 FDX-ACB: Ferredoxin-f 43.7 1.1E+02 0.0023 21.3 5.9 83 120-211 5-92 (94)
80 TIGR02286 PaaD phenylacetic ac 43.6 85 0.0018 22.3 5.6 46 56-101 60-106 (114)
81 COG4043 Preprotein translocase 43.5 48 0.001 23.7 3.9 25 63-87 31-55 (111)
82 cd04486 YhcR_OBF_like YhcR_OBF 43.3 26 0.00056 23.7 2.6 25 56-83 33-59 (78)
83 PF06068 TIP49: TIP49 C-termin 43.3 14 0.0003 33.0 1.5 50 63-112 168-220 (398)
84 TIGR03077 not_gcvH glycine cle 42.9 54 0.0012 23.8 4.4 68 46-117 21-89 (110)
85 cd05692 S1_RPS1_repeat_hs4 S1_ 42.6 82 0.0018 19.5 5.1 37 77-113 4-40 (69)
86 PRK00529 elongation factor P; 42.1 74 0.0016 25.4 5.5 23 64-86 5-27 (186)
87 PTZ00328 eukaryotic initiation 41.8 30 0.00066 27.1 3.0 25 63-87 25-49 (166)
88 PF13275 S4_2: S4 domain; PDB: 41.5 30 0.00066 22.6 2.6 20 63-82 46-65 (65)
89 PF01302 CAP_GLY: CAP-Gly doma 41.4 47 0.001 21.8 3.5 20 68-87 1-23 (69)
90 PF15057 DUF4537: Domain of un 40.2 45 0.00097 24.8 3.6 44 63-106 53-109 (124)
91 cd03446 MaoC_like MoaC_like 40.0 1.1E+02 0.0023 22.5 5.9 20 59-78 84-103 (140)
92 PF08207 EFP_N: Elongation fac 39.9 59 0.0013 20.5 3.7 22 65-86 4-25 (58)
93 PRK03955 hypothetical protein; 39.9 22 0.00047 26.8 1.9 20 64-83 109-128 (131)
94 PF01941 AdoMet_Synthase: S-ad 39.8 1.9E+02 0.0041 26.1 7.9 84 124-208 156-244 (396)
95 cd03453 SAV4209_like SAV4209_l 39.5 1.3E+02 0.0027 21.9 6.1 17 60-76 75-91 (127)
96 PRK00409 recombination and DNA 39.5 52 0.0011 32.5 4.9 44 64-107 635-680 (782)
97 COG1463 Ttg2C ABC-type transpo 39.5 98 0.0021 27.3 6.3 40 66-106 53-98 (359)
98 PF04156 IncA: IncA protein; 38.8 1.2E+02 0.0027 23.8 6.4 13 6-18 5-17 (191)
99 PRK10694 acyl-CoA esterase; Pr 38.7 43 0.00093 25.1 3.4 29 59-90 61-89 (133)
100 TIGR00996 Mtu_fam_mce virulenc 38.7 1.8E+02 0.004 24.5 7.8 86 66-151 45-145 (291)
101 cd03452 MaoC_C MaoC_C The C-t 38.5 1.4E+02 0.0031 22.3 6.3 18 59-76 82-99 (142)
102 PRK09459 pspG phage shock prot 38.0 1E+02 0.0023 20.7 4.7 27 12-38 5-31 (76)
103 cd03455 SAV4209 SAV4209 is a S 38.0 95 0.0021 22.4 5.2 42 58-99 72-115 (123)
104 PRK09014 rfaH transcriptional 37.7 81 0.0018 24.2 5.0 23 63-85 107-134 (162)
105 PRK00098 GTPase RsgA; Reviewed 37.5 50 0.0011 28.3 4.1 31 65-95 37-70 (298)
106 PF13726 Na_H_antiport_2: Na+- 37.5 77 0.0017 22.1 4.1 45 13-58 5-50 (88)
107 TIGR01955 RfaH transcriptional 37.4 90 0.0019 23.8 5.2 23 63-85 106-133 (159)
108 PRK04439 S-adenosylmethionine 35.7 2E+02 0.0043 26.0 7.5 84 124-208 156-244 (399)
109 PRK08655 prephenate dehydrogen 35.4 3.4E+02 0.0074 24.7 9.3 65 77-148 314-385 (437)
110 COG2030 MaoC Acyl dehydratase 35.3 1.4E+02 0.0031 22.9 6.0 21 56-76 97-117 (159)
111 PF11674 DUF3270: Protein of u 34.1 1.7E+02 0.0036 20.6 6.6 9 27-35 63-71 (90)
112 PF00575 S1: S1 RNA binding do 34.1 1.1E+02 0.0023 19.7 4.5 37 77-113 8-44 (74)
113 PF08940 DUF1918: Domain of un 34.0 55 0.0012 20.9 2.7 18 67-84 4-28 (58)
114 PF12704 MacB_PCD: MacB-like p 34.0 54 0.0012 25.6 3.6 69 68-147 160-231 (232)
115 cd00491 4Oxalocrotonate_Tautom 33.9 1.1E+02 0.0024 18.6 6.2 46 125-170 3-48 (58)
116 COG0198 RplX Ribosomal protein 33.9 69 0.0015 23.1 3.6 25 64-88 3-32 (104)
117 COG1153 FwdD Formylmethanofura 33.6 93 0.002 23.1 4.2 75 66-148 45-124 (128)
118 PRK13826 Dtr system oriT relax 33.5 79 0.0017 32.5 5.2 42 63-104 631-685 (1102)
119 PTZ00194 60S ribosomal protein 33.1 49 0.0011 25.3 2.9 24 65-88 46-74 (143)
120 COG0234 GroS Co-chaperonin Gro 32.8 54 0.0012 23.2 2.8 20 65-84 58-77 (96)
121 TIGR00037 eIF_5A translation i 32.8 71 0.0015 23.9 3.7 24 64-87 10-33 (130)
122 PF02736 Myosin_N: Myosin N-te 32.7 1.1E+02 0.0023 17.9 4.5 28 77-104 14-41 (42)
123 COG0250 NusG Transcription ant 32.2 51 0.0011 26.2 3.0 24 65-88 123-151 (178)
124 PF14545 DBB: Dof, BCAP, and B 32.2 2.3E+02 0.005 21.7 8.6 79 58-147 15-99 (142)
125 cd00164 S1_like S1_like: Ribos 31.8 1.2E+02 0.0026 18.2 5.1 34 78-111 2-35 (65)
126 cd05691 S1_RPS1_repeat_ec6 S1_ 31.4 1.4E+02 0.003 18.9 4.7 35 77-111 4-38 (73)
127 TIGR01448 recD_rel helicase, p 31.1 78 0.0017 30.9 4.7 23 63-85 584-616 (720)
128 PF01157 Ribosomal_L21e: Ribos 31.1 63 0.0014 23.1 3.0 23 64-86 31-68 (99)
129 PRK08582 hypothetical protein; 31.0 2.3E+02 0.005 21.3 7.0 43 66-113 3-45 (139)
130 cd05687 S1_RPS1_repeat_ec1_hs1 30.9 1.4E+02 0.0031 18.9 4.8 38 77-114 4-41 (70)
131 PF13375 RnfC_N: RnfC Barrel s 30.8 99 0.0021 22.0 4.0 11 66-76 46-56 (101)
132 PF01472 PUA: PUA domain; Int 30.8 17 0.00037 24.1 0.1 33 52-85 18-50 (74)
133 COG3215 PilZ Tfp pilus assembl 30.6 28 0.0006 25.0 1.1 23 48-73 28-50 (117)
134 PF02933 CDC48_2: Cell divisio 30.5 48 0.0011 21.2 2.2 15 61-75 14-28 (64)
135 PRK12585 putative monovalent c 30.0 1.3E+02 0.0028 24.3 4.9 10 56-65 73-82 (197)
136 PF13856 Gifsy-2: ATP-binding 29.9 80 0.0017 22.0 3.4 19 66-84 66-84 (95)
137 PF09583 Phageshock_PspG: Phag 29.7 1.6E+02 0.0036 19.2 4.7 28 12-39 5-32 (65)
138 PRK12288 GTPase RsgA; Reviewed 29.7 64 0.0014 28.5 3.5 31 65-95 72-109 (347)
139 TIGR02266 gmx_TIGR02266 Myxoco 29.4 37 0.0008 23.3 1.6 28 47-74 18-45 (96)
140 TIGR00157 ribosome small subun 29.3 60 0.0013 27.0 3.2 27 67-93 2-31 (245)
141 PRK07252 hypothetical protein; 29.3 1.6E+02 0.0035 21.6 5.1 37 77-113 7-43 (120)
142 cd06848 GCS_H Glycine cleavage 29.1 1.6E+02 0.0034 20.5 4.9 66 46-115 20-86 (96)
143 PF09378 HAS-barrel: HAS barre 29.0 77 0.0017 21.4 3.2 23 65-87 22-49 (91)
144 smart00538 POP4 A domain found 28.6 1.5E+02 0.0032 20.8 4.6 29 76-104 28-56 (92)
145 PF01709 Transcrip_reg: Transc 28.3 3.5E+02 0.0075 22.4 8.0 58 143-211 60-119 (234)
146 COG2524 Predicted transcriptio 28.2 86 0.0019 26.7 3.7 61 63-135 124-191 (294)
147 PRK08059 general stress protei 28.2 2.4E+02 0.0052 20.6 5.9 41 66-111 5-45 (123)
148 CHL00084 rpl19 ribosomal prote 27.9 96 0.0021 22.9 3.6 14 61-74 17-31 (117)
149 PRK11111 hypothetical protein; 27.9 2.3E+02 0.0051 23.1 6.3 34 12-45 59-92 (214)
150 PRK01889 GTPase RsgA; Reviewed 27.8 95 0.0021 27.4 4.3 32 64-95 67-99 (356)
151 PF04246 RseC_MucC: Positive r 27.5 1.5E+02 0.0032 22.0 4.8 21 29-49 96-116 (135)
152 PF10844 DUF2577: Protein of u 27.5 1E+02 0.0022 21.8 3.6 24 60-83 71-98 (100)
153 PRK06302 acetyl-CoA carboxylas 27.3 94 0.002 24.0 3.7 40 66-105 102-143 (155)
154 TIGR02975 phageshock_pspG phag 27.3 1.8E+02 0.0038 19.0 4.2 27 12-38 4-30 (64)
155 PRK04306 50S ribosomal protein 27.1 1.2E+02 0.0025 21.7 3.8 30 64-93 33-77 (98)
156 PF11127 DUF2892: Protein of u 26.9 1.8E+02 0.0038 18.6 6.0 37 3-39 7-43 (66)
157 PF07177 Neuralized: Neuralize 26.8 46 0.001 21.9 1.6 20 54-74 28-47 (69)
158 PRK13254 cytochrome c-type bio 26.8 2.2E+02 0.0049 21.8 5.6 15 61-76 44-58 (148)
159 TIGR00427 membrane protein, Ma 26.7 2.6E+02 0.0056 22.6 6.3 32 13-44 57-88 (201)
160 cd05685 S1_Tex S1_Tex: The C-t 26.7 1.6E+02 0.0035 18.1 4.4 37 77-113 4-40 (68)
161 COG2501 S4-like RNA binding pr 26.4 84 0.0018 21.1 2.8 20 64-83 51-70 (73)
162 PF01361 Tautomerase: Tautomer 26.3 1.7E+02 0.0036 18.1 5.6 47 125-171 3-49 (60)
163 PF03780 Asp23: Asp23 family; 26.2 2.3E+02 0.005 19.7 7.1 47 120-166 59-106 (108)
164 PF10842 DUF2642: Protein of u 25.8 2E+02 0.0043 18.9 5.3 39 68-107 20-62 (66)
165 COG0511 AccB Biotin carboxyl c 25.7 98 0.0021 23.4 3.5 35 66-100 86-120 (140)
166 cd05697 S1_Rrp5_repeat_hs5 S1_ 25.7 1.8E+02 0.0039 18.4 4.9 35 77-111 4-38 (69)
167 PF01914 MarC: MarC family int 25.5 3E+02 0.0064 22.2 6.5 30 15-44 56-85 (203)
168 TIGR00531 BCCP acetyl-CoA carb 25.3 1.1E+02 0.0023 23.7 3.7 40 66-105 103-144 (156)
169 cd06850 biotinyl_domain The bi 25.2 1.3E+02 0.0027 18.6 3.6 24 64-87 13-36 (67)
170 TIGR03784 marine_sortase sorta 25.2 1.3E+02 0.0029 23.7 4.2 36 64-99 107-142 (174)
171 PF03061 4HBT: Thioesterase su 25.0 1.2E+02 0.0026 19.3 3.5 28 58-88 36-63 (79)
172 PRK00745 4-oxalocrotonate taut 24.8 1.8E+02 0.0039 18.0 5.4 46 125-170 4-49 (62)
173 PHA02909 hypothetical protein; 24.7 1.9E+02 0.0041 18.3 4.5 20 5-24 33-52 (72)
174 KOG1484 Putative Zn2+ transpor 24.7 4.9E+02 0.011 23.0 8.0 68 133-211 270-338 (354)
175 smart00316 S1 Ribosomal protei 24.7 1.8E+02 0.0038 17.8 4.3 34 77-110 6-39 (72)
176 PF02298 Cu_bind_like: Plastoc 24.7 38 0.00083 23.2 1.0 24 62-85 15-40 (85)
177 PF05113 DUF693: Protein of un 24.3 74 0.0016 27.1 2.7 35 59-93 260-294 (314)
178 cd00288 Pyruvate_Kinase Pyruva 24.2 99 0.0021 28.7 3.8 84 64-147 116-211 (480)
179 PF01868 UPF0086: Domain of un 23.9 1.3E+02 0.0028 20.8 3.6 29 76-104 29-57 (89)
180 PLN03148 Blue copper-like prot 23.9 72 0.0016 25.1 2.5 24 62-85 42-67 (167)
181 cd05707 S1_Rrp5_repeat_sc11 S1 23.7 2E+02 0.0043 18.1 4.6 37 77-113 4-40 (68)
182 PRK10739 putative antibiotic t 23.7 3.2E+02 0.0068 22.0 6.2 31 14-44 55-85 (197)
183 PLN03107 eukaryotic translatio 23.6 1.2E+02 0.0027 23.5 3.7 25 63-87 23-47 (159)
184 COG1607 Acyl-CoA hydrolase [Li 23.6 92 0.002 24.2 3.0 29 60-91 64-92 (157)
185 PF03658 Ub-RnfH: RnfH family 23.6 42 0.0009 23.2 1.0 15 60-74 56-70 (84)
186 PF07076 DUF1344: Protein of u 23.4 1.3E+02 0.0028 19.5 3.1 30 75-104 3-32 (61)
187 cd04465 S1_RPS1_repeat_ec2_hs2 23.2 2E+02 0.0044 18.0 4.8 35 77-112 4-38 (67)
188 PF11247 DUF2675: Protein of u 23.1 2.3E+02 0.005 20.2 4.6 86 122-221 6-95 (98)
189 PF03471 CorC_HlyC: Transporte 23.0 1.3E+02 0.0028 20.0 3.4 34 54-87 35-70 (81)
190 PF14326 DUF4384: Domain of un 23.0 2.3E+02 0.0049 19.0 4.6 38 65-108 2-43 (83)
191 PRK13380 glycine cleavage syst 22.9 3.5E+02 0.0075 20.6 6.8 69 45-117 34-103 (144)
192 cd05706 S1_Rrp5_repeat_sc10 S1 22.8 2.2E+02 0.0047 18.2 6.8 35 77-111 7-41 (73)
193 PF09465 LBR_tudor: Lamin-B re 22.7 2.1E+02 0.0046 18.1 6.1 42 63-105 3-53 (55)
194 cd04453 S1_RNase_E S1_RNase_E: 22.7 2.6E+02 0.0056 19.1 5.5 40 64-108 3-44 (88)
195 smart00743 Agenet Tudor-like d 22.6 2E+02 0.0044 17.8 5.4 22 65-86 2-29 (61)
196 PF07444 Ycf66_N: Ycf66 protei 22.6 2.7E+02 0.0058 19.2 6.4 42 7-48 39-80 (84)
197 PRK09509 fieF ferrous iron eff 22.6 3.4E+02 0.0075 23.1 6.7 61 141-204 214-274 (299)
198 PRK08225 acetyl-CoA carboxylas 22.6 94 0.002 20.0 2.5 37 63-99 14-50 (70)
199 PRK06739 pyruvate kinase; Vali 22.4 1.2E+02 0.0027 26.8 3.9 80 64-147 108-202 (352)
200 PRK12399 tagatose 1,6-diphosph 22.3 1.7E+02 0.0038 25.6 4.7 42 166-211 116-157 (324)
201 KOG4112 Signal peptidase subun 22.1 1.4E+02 0.0029 21.2 3.2 20 30-49 30-49 (101)
202 PF06645 SPC12: Microsomal sig 22.0 2.6E+02 0.0055 18.8 5.7 19 31-49 16-34 (76)
203 PLN02518 pheophorbide a oxygen 22.0 2.3E+02 0.005 26.7 5.8 12 62-73 524-535 (539)
204 PRK05338 rplS 50S ribosomal pr 22.0 1.5E+02 0.0033 21.8 3.7 10 65-74 18-27 (116)
205 PF01597 GCV_H: Glycine cleava 21.9 1.3E+02 0.0028 22.1 3.4 66 48-117 24-90 (122)
206 cd04452 S1_IF2_alpha S1_IF2_al 21.8 2.3E+02 0.005 18.1 4.9 39 77-115 7-47 (76)
207 TIGR01232 lacD tagatose 1,6-di 21.7 1.9E+02 0.0041 25.4 4.8 42 166-211 117-158 (325)
208 COG4063 MtrA Tetrahydromethano 21.6 28 0.0006 28.0 -0.3 56 111-167 114-170 (238)
209 PRK14533 groES co-chaperonin G 21.6 1.3E+02 0.0028 21.1 3.2 16 65-80 53-68 (91)
210 PRK04161 tagatose 1,6-diphosph 21.5 1.8E+02 0.004 25.5 4.7 42 166-211 118-159 (329)
211 PRK12378 hypothetical protein; 21.4 4.3E+02 0.0092 22.0 6.7 58 143-211 62-120 (235)
212 COG1563 Predicted subunit of t 21.4 2.9E+02 0.0063 19.2 5.7 36 12-47 16-51 (87)
213 PRK13892 conjugal transfer pro 21.2 3.7E+02 0.008 20.3 5.6 38 22-59 77-116 (134)
214 PF14221 DUF4330: Domain of un 21.1 2.5E+02 0.0055 21.9 5.1 39 66-104 72-117 (168)
215 KOG3207 Beta-tubulin folding c 21.1 1E+02 0.0022 28.3 3.1 20 66-85 3-22 (505)
216 PF10112 Halogen_Hydrol: 5-bro 20.7 3.9E+02 0.0084 21.2 6.3 15 141-155 109-123 (199)
217 PRK00872 hypothetical protein; 20.7 2.1E+02 0.0045 22.1 4.5 22 84-106 72-93 (157)
218 COG1585 Membrane protein impli 20.6 2.2E+02 0.0047 21.6 4.5 24 44-68 47-70 (140)
219 PF06341 DUF1056: Protein of u 20.6 2.6E+02 0.0056 18.2 7.3 26 29-54 31-56 (63)
220 PF13550 Phage-tail_3: Putativ 20.5 1.3E+02 0.0028 22.6 3.3 21 65-85 139-163 (164)
221 PF08605 Rad9_Rad53_bind: Fung 20.5 1.1E+02 0.0024 23.0 2.8 22 66-87 60-83 (131)
222 TIGR01024 rplS_bact ribosomal 20.3 3.6E+02 0.0077 19.8 6.3 10 65-74 18-27 (113)
223 COG3557 Uncharacterized domain 20.1 1.6E+02 0.0035 23.1 3.6 39 64-103 2-42 (177)
No 1
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=100.00 E-value=1.4e-49 Score=337.93 Aligned_cols=216 Identities=19% Similarity=0.244 Sum_probs=202.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHhhHHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEEEE
Q 026550 3 ELNKLFTGIVMVLIIIVWLLIVGLLTTKALLLILSQVVLAVFLFGNTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMVVE 82 (237)
Q Consensus 3 ~l~~i~~~~~~~i~~~~~l~~~g~~~~~ll~~~g~~~~~igla~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V~ 82 (237)
.+.+++++++++++++.++..+|++.+++++++|++|+++|||+|++++|++ ||++|+++|||++||||+++|..|+|+
T Consensus 68 ~~~~~~~~~i~~~~~~~~l~~lGi~~~~l~a~~G~~glaiG~a~q~~l~N~~-sGi~i~~~rpf~vGD~I~i~~~~G~V~ 146 (286)
T PRK10334 68 FLSALVRYGIIAFTLIAALGRVGVQTASVIAVLGAAGLAVGLALQGSLSNLA-AGVLLVMFRPFRAGEYVDLGGVAGTVL 146 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhcCCCCCCCEEEECCEEEEEE
Confidence 5678899999999999999999999999999999999999999999999955 889999999999999999999999999
Q ss_pred EEEeEEEEEEEeCCcEEEEecccccCCcEEEEEcCCcceeEEEEEEEecCCCHHHHHHHHHHHHHHHhhCCCCC-CCCcE
Q 026550 83 EMHILTTTFLRYDNEKIFYPNSVLATKPISNFYRSTVDMRDAVEFAIDVFTPIEKISYLKSTIKNYLESKPRHW-SPTHS 161 (237)
Q Consensus 83 ~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~-~~~~~ 161 (237)
+|+||+|+++++||+.++|||+++.+++++|||+.+ .++..+.++++|++|+++ +++.+++.++++|.+. +|+|.
T Consensus 147 ~I~~r~T~i~t~d~~~v~IPNs~~~~~~i~N~s~~~-~rr~~~~v~V~y~~d~~~---~~~il~~~~~~~~~vl~~p~p~ 222 (286)
T PRK10334 147 SVQIFSTTMRTADGKIIVIPNGKIIAGNIINFSREP-VRRNEFIIGVAYDSDIDQ---VKQILTNIIQSEDRILKDREMT 222 (286)
T ss_pred EEEeEEEEEEcCCCCEEEEcchHhcCCeeEEcCCCC-eEEEEEEEEecCCCCHHH---HHHHHHHHHHhCCceecCCCCE
Confidence 999999999999999999999999999999999988 788999999999999887 8899999999999998 78999
Q ss_pred EEEEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCcccccCCceEEEeeecCCC
Q 026550 162 VVVKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIRIYHVLPQEVQVSYVVSAT 229 (237)
Q Consensus 162 v~~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~~~~~p~~~v~~~~~~~~~ 229 (237)
+.+.+++|+++++++++|++ ..++++.+++++.+++++|+++||+ +|+|+++++..+.++.+
T Consensus 223 v~~~~~~dssi~~~v~~wv~-----~~~~~~~~~~~~~~I~~~f~~~gI~-ip~p~~~v~~~~~~~~~ 284 (286)
T PRK10334 223 VRLNELGASSINFVVRVWSN-----SGDLQNVYWDVLERIKREFDAAGIS-FPYPQMDVNFKRVKEDK 284 (286)
T ss_pred EEEEeeeCceEEEEEEEEEe-----cchhHHHHHHHHHHHHHHHHHCCCc-CCCCCeEEEeccCCccc
Confidence 99999999999999999873 3467889999999999999999999 99999999987666544
No 2
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=100.00 E-value=2.5e-44 Score=346.10 Aligned_cols=216 Identities=16% Similarity=0.200 Sum_probs=203.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHhhHHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEEEE
Q 026550 3 ELNKLFTGIVMVLIIIVWLLIVGLLTTKALLLILSQVVLAVFLFGNTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMVVE 82 (237)
Q Consensus 3 ~l~~i~~~~~~~i~~~~~l~~~g~~~~~ll~~~g~~~~~igla~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V~ 82 (237)
.+.+++++++++++++.+++.+|++.+++.+.+|++|+++|||+|++++|++ ||++|+++|||++||+|+++|..|+|+
T Consensus 874 ~i~~l~~y~I~~ig~l~~L~~lGI~~t~l~al~galGVgIGfAlQ~ilsNfi-SGIiIL~erPfrVGD~I~I~~~~GtV~ 952 (1109)
T PRK10929 874 AITTITKYLLMLIGGLVGFSMIGIEWSKLQWLVAALGVGLGFGLQEIFANFI-SGLIILFEKPIRIGDTVTIRDLTGSVT 952 (1109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhCCCCCCCEEEECCEEEEEE
Confidence 4678999999999999999999999999999999999999999999999955 999999999999999999999999999
Q ss_pred EEEeEEEEEEEeCCcEEEEecccccCCcEEEEEcCCcceeEEEEEEEecCCCHHHHHHHHHHHHHHHhhCCCCC-CCCcE
Q 026550 83 EMHILTTTFLRYDNEKIFYPNSVLATKPISNFYRSTVDMRDAVEFAIDVFTPIEKISYLKSTIKNYLESKPRHW-SPTHS 161 (237)
Q Consensus 83 ~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~-~~~~~ 161 (237)
+|++|+|+++++||+.++|||+.+.+++|+|||+++..++..+.++|+|++|+++ +++.+.+++++++.+. +|+|.
T Consensus 953 ~I~lRsT~Irt~Dg~~IiIPNs~~it~~IiN~S~~d~~~Rv~i~VgV~Y~sDie~---v~~iL~eaa~~~~~VL~~P~P~ 1029 (1109)
T PRK10929 953 KINTRATTISDWDRKEIIVPNKAFITEQFINWSLSDSVTRVVLTIPAPADANSEE---VTEILLTAARRCSLVLDNPAPE 1029 (1109)
T ss_pred EEeeeEEEEEeCCCCEEEEEChhhhcCceEecCCCCcceEEEEEEEeCCCCCHHH---HHHHHHHHHHhCccccCCCCCE
Confidence 9999999999999999999999999999999999985568999999999999877 9999999999999997 89999
Q ss_pred EEEEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCcccccCCceEEEeeecC
Q 026550 162 VVVKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIRIYHVLPQEVQVSYVVS 227 (237)
Q Consensus 162 v~~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~~~~~p~~~v~~~~~~~ 227 (237)
|.+.+++++++++.+++|+ .++.+++.+++++..+++++|+++||+ +|+|++++|..+.+.
T Consensus 1030 V~~~~fgdssi~~elr~wv----~~~~~~~~v~~el~~~I~~~F~~~GIe-IPfPq~~v~i~~~~~ 1090 (1109)
T PRK10929 1030 VFLVDLQQGIQIFELRIYA----AEMGHRMPLRHEIHQLILAGFREHGID-MPFPPFQMRLESLGG 1090 (1109)
T ss_pred EEEEecCCCceEEEEEEEE----cChhhHHHHHHHHHHHHHHHHHHCCCc-CCCCCeEEEeecCCC
Confidence 9999999999999999987 456788999999999999999999999 999999999986533
No 3
>PRK11281 hypothetical protein; Provisional
Probab=100.00 E-value=3.3e-44 Score=346.40 Aligned_cols=216 Identities=18% Similarity=0.243 Sum_probs=203.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHhhHHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEEEE
Q 026550 3 ELNKLFTGIVMVLIIIVWLLIVGLLTTKALLLILSQVVLAVFLFGNTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMVVE 82 (237)
Q Consensus 3 ~l~~i~~~~~~~i~~~~~l~~~g~~~~~ll~~~g~~~~~igla~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V~ 82 (237)
.+.+++++++++++++++++.+|++.+++.+.+|++|+++|||+|++++|++ ||++|+++|||++||+|++||..|+|+
T Consensus 877 ~i~~li~y~I~~i~iliaL~~lGi~~t~L~~l~gaLgVgIGfglQ~ilsNfI-SGiiIl~eRPfrIGD~I~I~~~~G~V~ 955 (1113)
T PRK11281 877 AITTLLTYIIIAVGAVTAFSTLGVSWDKLQWLVAALSVGLGFGLQEIFANFV-SGLIILFERPVRIGDTVTIGTFSGTVS 955 (1113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHcCCcCCCCEEEECCEEEEEE
Confidence 4678899999999999999999999999999999999999999999999955 889999999999999999999999999
Q ss_pred EEEeEEEEEEEeCCcEEEEecccccCCcEEEEEcCCcceeEEEEEEEecCCCHHHHHHHHHHHHHHHhhCCCCC-CCCcE
Q 026550 83 EMHILTTTFLRYDNEKIFYPNSVLATKPISNFYRSTVDMRDAVEFAIDVFTPIEKISYLKSTIKNYLESKPRHW-SPTHS 161 (237)
Q Consensus 83 ~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~-~~~~~ 161 (237)
+|++|+|+++++||+.|+|||+.+.++.|+|||.++...+..++++|+|++|+++ +++.+.+++++++.+. +|+|.
T Consensus 956 ~I~lRsT~Irt~D~~~ViIPNs~~~t~~IiN~S~~~~~~Rv~i~vgV~Y~sDi~~---v~~iL~eaa~~~p~Vl~~P~P~ 1032 (1113)
T PRK11281 956 KIRIRATTITDFDRKEVIVPNKAFVTERLINWSLSDTVTRVVIKVGVAYGSDLEK---VRELLLQAATENPRVMKEPEPQ 1032 (1113)
T ss_pred EEEeEEEEEEcCCCCEEEEechhhhcCceEeCCCCCcceEEEEEEEeCCCCCHHH---HHHHHHHHHHcCcccccCCCCE
Confidence 9999999999999999999999999999999999985578999999999999887 9999999999999998 89999
Q ss_pred EEEEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCcccccCCceEEEeeecC
Q 026550 162 VVVKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIRIYHVLPQEVQVSYVVS 227 (237)
Q Consensus 162 v~~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~~~~~p~~~v~~~~~~~ 227 (237)
|.+.+++++++++.+++|+ .++.+++.+++++..+|+++|+++||+ +|||+++++..++.+
T Consensus 1033 V~~~~fgdssi~~~lr~wv----~~~~~~~~v~s~L~~~I~~~f~e~GIe-IpfPq~~V~i~~~~~ 1093 (1113)
T PRK11281 1033 VFFLNFGASTLDHELRLYV----RELGDRSPTVDELNRRIDRLFRENDIN-IAFNQLDVFLKNQKG 1093 (1113)
T ss_pred EEEEeccCceEEEEEEEEE----cCHhhHHHHHHHHHHHHHHHHHHCCCc-CCCCCeeEEecCCCc
Confidence 9999999999999999997 466789999999999999999999999 999999999876543
No 4
>PF00924 MS_channel: Mechanosensitive ion channel; InterPro: IPR006685 Mechanosensitive (MS) channels provide protection against hypo-osmotic shock, responding both to stretching of the cell membrane and to membrane depolarisation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, and eukarya []. There are two families of MS channels: large-conductance MS channels (MscL) and small-conductance MS channels (MscS or YGGB). The pressure threshold for MscS opening is 50% that of MscL []. The MscS family is much larger and more variable in size and sequence than the MscL family. Much of the diversity in MscS proteins occurs in the size of the transmembrane regions, which ranges from three to eleven transmembrane helices, although the three C-terminal helices are conserved. This family contains sequences form the MscS family of proteins. MscS folds as a homo-heptamer with a cylindrical shape, and can be divided into transmembrane and extramembrane regions: an N-terminal periplasmic region, a transmembrane region, and a C-terminal cytoplasmic region (middle and C-terminal domains). The transmembrane region forms a channel through the membrane that opens into a chamber enclosed by the extramembrane portion, the latter connecting to the cytoplasm through distinct portals [].; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 2OAU_E 2VV5_F.
Probab=100.00 E-value=1.8e-42 Score=282.75 Aligned_cols=204 Identities=30% Similarity=0.416 Sum_probs=169.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHhhHHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEEEEEE
Q 026550 5 NKLFTGIVMVLIIIVWLLIVGLLTTKALLLILSQVVLAVFLFGNTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMVVEEM 84 (237)
Q Consensus 5 ~~i~~~~~~~i~~~~~l~~~g~~~~~ll~~~g~~~~~igla~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V~~I 84 (237)
++++++++++++++.++..+|.+.+++++++|++|+++||++|+.++|++ ||++++++|||++||||+++|..|+|+||
T Consensus 1 ~~i~~~~~~~~~~~~~l~~~g~~~~~l~~~~g~~~~~i~f~~~~~~~n~~-~gi~i~~~~pf~vGD~I~i~~~~G~V~~I 79 (206)
T PF00924_consen 1 NKIIRIVIIIVGILIILSILGIDVSSLLASLGVLGLAIGFAFQDIISNFI-SGIIILFERPFKVGDRIEIGGVEGRVEEI 79 (206)
T ss_dssp --HHHHHHHHHHHHHHHHCCT--SCCHHHHHHHHHHHHHHHHCHHHHHHH-HHHHHHCC-SS-TT-EEESSS-EEEEEEE
T ss_pred ChHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhccCCccCCCEEEEEEeehHHHhc
Confidence 36889999999999999999999999999999999999999999999976 77899999999999999999999999999
Q ss_pred EeEEEEEEEeCCcEEEEecccccCCcEEEEEcCCcceeEEEEEEEecCCCHHHHHHHHHHHHHHHhhCCCCC-CCCcEEE
Q 026550 85 HILTTTFLRYDNEKIFYPNSVLATKPISNFYRSTVDMRDAVEFAIDVFTPIEKISYLKSTIKNYLESKPRHW-SPTHSVV 163 (237)
Q Consensus 85 ~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~-~~~~~v~ 163 (237)
+||+|+++++||+.++|||+++.++++.|||+..+..+..+.+.+++++|+++++++.+.+.+.+++++... .++|.+.
T Consensus 80 ~l~~t~l~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~v~~~v~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~ 159 (206)
T PF00924_consen 80 GLRSTRLRTWDGEIVIIPNSKLISSPIVNYSRSSPYRRVVVEIPVDYDTDPEKIEELREKIEEALRSNPYIFKEPEPRVV 159 (206)
T ss_dssp -SSEEEEEETTS-EEEEEHHHHHCS-EEETTT-SSEEEEEEEEEE-TTS----HHHHHHHHHHHHHH-TTC-TTS-EEEE
T ss_pred CcceeeeecCCCCEEEEEchheeeEEEEEeeccCCceeeeeeeeEecCCCchHHHHHHHHHHHHHhcCchhhcCCCCeEE
Confidence 999999999999999999999999999999993338899999999999998888999999999999999887 6889999
Q ss_pred EEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCc
Q 026550 164 VKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIR 211 (237)
Q Consensus 164 ~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~ 211 (237)
+..++++++.+++++++.. .++.+++..|++++.+++++|+++||+
T Consensus 160 ~~~~~~~~~~~~i~~~~~~--~~~~~~~~~~~~i~~~i~~~~~~~gI~ 205 (206)
T PF00924_consen 160 VDEIGDSSLEFRIRVYVKN--QDPEKYWEIRSEIRKRILEILEEHGIE 205 (206)
T ss_dssp EEEE-SSSEEEEEEEEEEC-----CCHHHHHHHHHHHHHHHHHHHT--
T ss_pred EccccCCceEEEEEEEEEe--CchhhHHHHHHHHHHHHHHHHHHccCC
Confidence 9999999999999998753 347889999999999999999999997
No 5
>PRK11465 putative mechanosensitive channel protein; Provisional
Probab=100.00 E-value=3.9e-41 Score=312.26 Aligned_cols=213 Identities=15% Similarity=0.134 Sum_probs=182.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHhhHHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEEE
Q 026550 2 QELNKLFTGIVMVLIIIVWLLIVGLLTTKALLLILSQVVLAVFLFGNTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMVV 81 (237)
Q Consensus 2 ~~l~~i~~~~~~~i~~~~~l~~~g~~~~~ll~~~g~~~~~igla~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V 81 (237)
..+.+++++++++++++.+++.+|++++++++++|++|+++|||+|++++|++ ||++|+++|||++||||+++|..|+|
T Consensus 511 ~ll~~~~~~~i~~i~~l~vL~~lGi~it~LlA~aGi~GlaiGfaaQ~~l~N~i-sGi~Il~e~pf~vGD~I~v~g~~GtV 589 (741)
T PRK11465 511 TLFRNALAVIISTITIMIVLSEIGVNIAPLLAGAGALGLAISFGSQTLVKDII-TGVFIQFENGMNTGDLVTIGPLTGTV 589 (741)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHcCCcCCCCEEEECCeEEEE
Confidence 35778889999999999999999999999999999999999999999999966 88999999999999999999999999
Q ss_pred EEEEeEEEEEEEeCCcEEEEecccccCCcEEEEEcCCcceeEEEEEEEecCCCHHHHHHHHHHHHHHHhhCCC----CCC
Q 026550 82 EEMHILTTTFLRYDNEKIFYPNSVLATKPISNFYRSTVDMRDAVEFAIDVFTPIEKISYLKSTIKNYLESKPR----HWS 157 (237)
Q Consensus 82 ~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~----~~~ 157 (237)
++|++|+|++|++||+.++|||+++.+ ++|||+.. .+..+++.|+|++|.+++.++.+.+.+.+.++|. +.+
T Consensus 590 e~I~lRsT~iRt~dg~~i~IPNs~i~~--v~N~Sr~~--~~~~v~v~V~Y~~Didka~~iL~ev~~el~~dpe~~~~il~ 665 (741)
T PRK11465 590 ERMSIRSVGVRQDTGAYHIIPWSSITT--FANFVRGI--GSVVANYDVDRHEDADKANQALKDAVAELMENEEIRGLIIG 665 (741)
T ss_pred EEEeeeEEEEEcCCCCEEEEECCccee--eEEeccCc--eEEEEEEEeCCCCCHHHHHHHHHHHHHHhhcCccccccccC
Confidence 999999999999999999999999974 99999875 4678899999999998855543333333444554 233
Q ss_pred CCcEEEEEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCcccccCCceEEEeeecC
Q 026550 158 PTHSVVVKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIRIYHVLPQEVQVSYVVS 227 (237)
Q Consensus 158 ~~~~v~~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~~~~~p~~~v~~~~~~~ 227 (237)
+++.+.+.+++++++.+++++|+ ++.++|.++.+++++++++|+++||+ +|+|+.+ ..+.++
T Consensus 666 ~p~~vgV~~lgdSsi~lrvr~~t-----~p~~qw~v~rel~~~IK~~Fde~GIe-IP~~tv~--v~~~~~ 727 (741)
T PRK11465 666 EPNFAGIVGLTNTAFTLRVSFTT-----LPLKQWTVRFALDSQVKKHFDLAGVR-APVQTYQ--VLPAPG 727 (741)
T ss_pred CCCeEEEEEecCceEEEEEEEEE-----CcchHHHHHHHHHHHHHHHHHHCCCC-CCCCceE--eecCCC
Confidence 44567889999999999999975 67889999999999999999999999 6655544 444433
No 6
>COG3264 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=9.4e-42 Score=314.34 Aligned_cols=213 Identities=19% Similarity=0.250 Sum_probs=203.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHhhHHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEEEE
Q 026550 3 ELNKLFTGIVMVLIIIVWLLIVGLLTTKALLLILSQVVLAVFLFGNTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMVVE 82 (237)
Q Consensus 3 ~l~~i~~~~~~~i~~~~~l~~~g~~~~~ll~~~g~~~~~igla~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V~ 82 (237)
.+.+++.|.+..++.+..++..|++.+++....|++|+++||++|++++| |.||+.|+++|||||||||++++.+|+|.
T Consensus 599 ~I~t~~~Y~~~~i~~l~~lS~~Gi~lssL~~~~gALsvGiGFGLQ~I~~N-FVSGlIiL~ErpvkvGD~It~g~~~G~V~ 677 (835)
T COG3264 599 SITTLLGYLLIAIGGLVGLSTLGIDLSSLQWLAGALSVGLGFGLQEIVSN-FVSGLIILFERPVKVGDTVTIGTVSGTVR 677 (835)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCcChHHHHHHHHHhhhhhchhHHHHHHH-hhhhhhhheecCcccCCEEEECCceEEEE
Confidence 46789999999999999999999999999999999999999999999999 56999999999999999999999999999
Q ss_pred EEEeEEEEEEEeCCcEEEEecccccCCcEEEEEcCCcceeEEEEEEEecCCCHHHHHHHHHHHHHHHhhCCCCC-CCCcE
Q 026550 83 EMHILTTTFLRYDNEKIFYPNSVLATKPISNFYRSTVDMRDAVEFAIDVFTPIEKISYLKSTIKNYLESKPRHW-SPTHS 161 (237)
Q Consensus 83 ~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~-~~~~~ 161 (237)
+|+.|.|+++++||+.+++||+.|.++.+.|||.++...|..+.++++|++|+++ +++.+.+.++.||.+. +|+|.
T Consensus 678 ~I~vRAT~I~~fd~~~vIVPNs~fI~~qV~NWs~~~~~~R~~i~v~vay~sD~~~---V~~~Ll~~A~~~p~Vl~~P~P~ 754 (835)
T COG3264 678 KISVRATTIRTFDRKEVIVPNSAFITEQVINWSLRDTTTRLVIPVGVAYGSDPEL---VRELLLEAAREHPRVLKDPAPE 754 (835)
T ss_pred EEEeeEEEEEeCCCCeEEeccHHHHhhheeeeeccCceEEEEEEecccCCCCHHH---HHHHHHHHHHhCCCccCCCCCe
Confidence 9999999999999999999999999999999999998889999999999999888 9999999999999998 89999
Q ss_pred EEEEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCcccccCCceEEEee
Q 026550 162 VVVKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIRIYHVLPQEVQVSY 224 (237)
Q Consensus 162 v~~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~~~~~p~~~v~~~~ 224 (237)
|.+.+++++++++++++|+ .+..+...+++++...|.+.|+++||+ +|+|+.++++++
T Consensus 755 v~f~~fg~s~L~fELr~~v----~~~~~~~~~~~~l~~~I~~~fre~gI~-ipfpq~~v~l~~ 812 (835)
T COG3264 755 VFFTAFGASSLDFELRVYV----AELGDRMPVRSELNRAILDRFRENGIE-IPFPQREVRLKN 812 (835)
T ss_pred eEeecccccceeEEEEEEe----eccccccchHHHHHHHHHHHHHHcCCC-CCCchHheEecC
Confidence 9999999999999999997 456666679999999999999999999 999999999997
No 7
>COG0668 MscS Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=1.2e-38 Score=275.44 Aligned_cols=212 Identities=26% Similarity=0.337 Sum_probs=196.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHhhHHHHHHHHhhhheeeeCCCCCCcEEEEc-CeeEEE
Q 026550 3 ELNKLFTGIVMVLIIIVWLLIVGLLTTKALLLILSQVVLAVFLFGNTAKNVFEAIIFLFVTHPFDVGDRCVID-GVQMVV 81 (237)
Q Consensus 3 ~l~~i~~~~~~~i~~~~~l~~~g~~~~~ll~~~g~~~~~igla~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~-~~~G~V 81 (237)
.+.++.++++++++++.++..+|++.+++++++|+.|+++|||+|++++|++ +|++++++|||++||||+++ +..|+|
T Consensus 86 ~~~~~~~~~~~~~~~~~~l~~~g~~~~~lla~~G~~glaigla~q~~~~n~~-~Gi~il~~~~f~vGD~I~i~~~~~G~V 164 (316)
T COG0668 86 FLSNLLRILILVVALLIVLSVLGVQVTSLLAGLGALGLAIGLALQDLLSNLI-AGIFLLLERPFKVGDWIEIGSGVEGTV 164 (316)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHhhHHHHHHHHHHHHHHHHHH-hhhHhheecCcCcCCEEEECCCceEEE
Confidence 3678899999999999999999999999999999999999999999999966 88999999999999999999 799999
Q ss_pred EEEEeEEEEEEEeCCcEEEEecccccCCcEEEEEcCCcceeEEEEEEEecCCCHHHHHHHHHHHHHHHhhCCCCC--CCC
Q 026550 82 EEMHILTTTFLRYDNEKIFYPNSVLATKPISNFYRSTVDMRDAVEFAIDVFTPIEKISYLKSTIKNYLESKPRHW--SPT 159 (237)
Q Consensus 82 ~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~--~~~ 159 (237)
++|++|+|+++++||+.+++||+++.++.+.|||+.+ .++..+.+.++|++|+++ +++.+++.+++.+... +|+
T Consensus 165 ~~i~~~~T~ir~~dg~~v~iPNs~i~~~~i~N~s~~~-~~~~~~~v~v~~~~~~~~---~~~i~~~~~~~~~~~~~~~~~ 240 (316)
T COG0668 165 EDIGLRSTTIRTLDGRIVTIPNSKLFTANVVNYSREP-GRRVEVKVGVAYDSDLEK---ALKILKEVLEELPEVLKIEPE 240 (316)
T ss_pred EEEEEEEEEEEcCCCCEEEccchhhccCceEeCCCCC-cEEEEEEEeeccCCCHHH---HHHHHHHHHHhcccccccCCC
Confidence 9999999999999999999999999999999999999 688999999999999888 7788888887777764 788
Q ss_pred cEEEEEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCcccccCCceEEEeee
Q 026550 160 HSVVVKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIRIYHVLPQEVQVSYV 225 (237)
Q Consensus 160 ~~v~~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~~~~~p~~~v~~~~~ 225 (237)
|.+.+.+++++++.+.+++|+ +..+++..++++...++++++++||+ +|+|++.++..+.
T Consensus 241 ~~v~~~~~~~~~~~i~v~~~t-----~~~~~~~~~~~~~~~i~~~~~~~gi~-i~~p~~~~~~~~~ 300 (316)
T COG0668 241 PVIGVSELGDSGINIRVRFWT-----NPEDLWSVQRELNLRIKEALEEAGIE-IPYPQQSVLLGEL 300 (316)
T ss_pred cEEEEeeccCCceEEEEEEEe-----cchhHHHHHHHHHHHHHHHHHHcCCC-CCCCCeeEECcCC
Confidence 999999999999999999975 55568999999999999999999999 9999999994433
No 8
>KOG4629 consensus Predicted mechanosensitive ion channel [Cell wall/membrane/envelope biogenesis]
Probab=99.97 E-value=3.1e-31 Score=244.52 Aligned_cols=232 Identities=45% Similarity=0.769 Sum_probs=220.3
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHhhHHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEE
Q 026550 1 MQELNKLFTGIVMVLIIIVWLLIVGLLTTKALLLILSQVVLAVFLFGNTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMV 80 (237)
Q Consensus 1 i~~l~~i~~~~~~~i~~~~~l~~~g~~~~~ll~~~g~~~~~igla~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~ 80 (237)
|+++.+++.+++.++++++.+-.+|++...+++..+...+++.|+++++.++++.|.+|++..+||++||+|.+||+.-.
T Consensus 480 V~kL~~il~~Iv~vv~~~i~lil~~i~~~~~l~~~~sq~v~l~fif~~~~k~~~esiIFlfv~HPyDvGDRv~VDg~~~v 559 (714)
T KOG4629|consen 480 VNKLDRILNFIVAVVLLVIWLILLGINTSKLLLVISSQLVGLAFIFGNIVKELLESIIFLFVMHPYDVGDRVVVDGVNLV 559 (714)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcccceeeeeeecccceeeeeehhhHHHHHHHHHhheeecCCCCCCCeEEEeceEEE
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEeEEEEEEEeCCcEEEEecccccCCcEEEEEcCCcceeEEEEEEEecCCCHHHHHHHHHHHHHHHhhCCCCCCCCc
Q 026550 81 VEEMHILTTTFLRYDNEKIFYPNSVLATKPISNFYRSTVDMRDAVEFAIDVFTPIEKISYLKSTIKNYLESKPRHWSPTH 160 (237)
Q Consensus 81 V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~~~~~ 160 (237)
|+++++++|.+..+||+.+++||+.+.+++|.||.|++ .+...+++.++..++.++++++++.+.+++++.|..+.|.+
T Consensus 560 VeemnLlsTvF~~~dg~kI~~PNS~L~~k~I~N~rRS~-~~~~~v~f~i~~~T~~~Ki~~Lk~rI~~ylks~~~~~~p~~ 638 (714)
T KOG4629|consen 560 VEEMNLLSTVFLRVDGRKIFIPNSVLWTKAISNYRRSP-DMGDEVEFLISSSTPFEKIERLKERIAEYLKSSPDDYYPDL 638 (714)
T ss_pred EEEeccceEEEEEECCeEEEeecHHHHhhhhhhhhcCc-cccccEEEEecCCCCHHHHHHHHHHHHHHHhcCccccccch
Confidence 99999999999999999999999999999999999999 88999999999999999999999999999999999998899
Q ss_pred EEEEEeeeC-ceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCcccccCCceEEEeeecCCCCCCCCC
Q 026550 161 SVVVKHIKD-EKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIRIYHVLPQEVQVSYVVSATSTVPLP 235 (237)
Q Consensus 161 ~v~~~~~~~-~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~~~~~p~~~v~~~~~~~~~~~~~~~ 235 (237)
.+.+.++++ +.+.+.+++.|+.+|||...+|..|.++..++.+.+++.||+ +..+|+++...+.+ +...+.+|
T Consensus 639 ~~~i~~~e~~n~v~i~v~~~h~~n~Qd~~~~~~Rr~~~~~~l~~~~~eLdI~-y~l~p~~in~~~~~-~~~~d~~~ 712 (714)
T KOG4629|consen 639 MVVIEEIEDLNSVKICVVVQHKINFQDMKERWSRRTEFVSALTKIMRELDIE-YTLYPLDINLKNLP-PVSSDRSP 712 (714)
T ss_pred hhHHHhhhhcCcceEEEEEEeecchhhHHHHHhhHHHHHHHHHHHHHHcCcc-eeecCcchhhhcCC-CcccCCCC
Confidence 999999998 889999999999999999999999999999999999999999 99999999988877 44444444
No 9
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=90.18 E-value=1.3 Score=30.74 Aligned_cols=39 Identities=21% Similarity=0.293 Sum_probs=30.2
Q ss_pred eCCCCCCcEEEE-cCeeEEEEEEEeEEEEEEEeCCcEEEE
Q 026550 63 THPFDVGDRCVI-DGVQMVVEEMHILTTTFLRYDNEKIFY 101 (237)
Q Consensus 63 ~~pf~vGD~I~i-~~~~G~V~~I~l~~T~i~~~~g~~v~I 101 (237)
....++||+|.. +|..|+|.+++=-+..++..+|..+.+
T Consensus 35 ~~~L~~Gd~VvT~gGi~G~V~~i~d~~v~vei~~g~~i~~ 74 (84)
T TIGR00739 35 IESLKKGDKVLTIGGIIGTVTKIAENTIVIELNDNTEITF 74 (84)
T ss_pred HHhCCCCCEEEECCCeEEEEEEEeCCEEEEEECCCeEEEE
Confidence 455789999987 889999999987666666666666554
No 10
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=89.90 E-value=1.1 Score=32.60 Aligned_cols=42 Identities=19% Similarity=0.144 Sum_probs=32.1
Q ss_pred eCCCCCCcEEEE-cCeeEEEEEEEeEEEEEEEeCCcEEEEecc
Q 026550 63 THPFDVGDRCVI-DGVQMVVEEMHILTTTFLRYDNEKIFYPNS 104 (237)
Q Consensus 63 ~~pf~vGD~I~i-~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs 104 (237)
.+..++||+|.. +|..|+|.+++=-...++..+|..+.+--+
T Consensus 50 ~~~Lk~Gd~VvT~gGi~G~Vv~i~~~~v~lei~~g~~i~~~r~ 92 (106)
T PRK05585 50 LSSLAKGDEVVTNGGIIGKVTKVSEDFVIIELNDDTEIKIQKS 92 (106)
T ss_pred HHhcCCCCEEEECCCeEEEEEEEeCCEEEEEECCCeEEEEEhH
Confidence 456789999965 899999999987666677777766665433
No 11
>PF14801 GCD14_N: tRNA methyltransferase complex GCD14 subunit N-term; PDB: 1I9G_A.
Probab=88.86 E-value=0.28 Score=30.73 Aligned_cols=24 Identities=21% Similarity=0.390 Sum_probs=12.4
Q ss_pred eCCCCCCcEEEEcCeeEEEEEEEe
Q 026550 63 THPFDVGDRCVIDGVQMVVEEMHI 86 (237)
Q Consensus 63 ~~pf~vGD~I~i~~~~G~V~~I~l 86 (237)
..||+.||+|++-+..|+-.-+.|
T Consensus 3 ~Gpf~~GdrVQlTD~Kgr~~Ti~L 26 (54)
T PF14801_consen 3 RGPFRAGDRVQLTDPKGRKHTITL 26 (54)
T ss_dssp --S--TT-EEEEEETT--EEEEE-
T ss_pred cCCCCCCCEEEEccCCCCeeeEEE
Confidence 579999999999887776544433
No 12
>PF09953 DUF2187: Uncharacterized protein conserved in bacteria (DUF2187); InterPro: IPR018690 This family consists of various hypothetical bacterial proteins with known function. It includes the uncharacterised YkvS protein from Bacillus subtilis.
Probab=87.08 E-value=1.3 Score=28.17 Aligned_cols=26 Identities=27% Similarity=0.289 Sum_probs=20.6
Q ss_pred CCCCcEEEE-cCeeEEEEEEEeEEEEE
Q 026550 66 FDVGDRCVI-DGVQMVVEEMHILTTTF 91 (237)
Q Consensus 66 f~vGD~I~i-~~~~G~V~~I~l~~T~i 91 (237)
-++||+|++ +|..|+|+++.=.|..+
T Consensus 4 a~vGdiIefk~g~~G~V~kv~eNSVIV 30 (57)
T PF09953_consen 4 AKVGDIIEFKDGFTGIVEKVYENSVIV 30 (57)
T ss_pred cccCcEEEEcCCcEEEEEEEecCcEEE
Confidence 479999999 78999999987555443
No 13
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=86.52 E-value=1.4 Score=23.10 Aligned_cols=21 Identities=33% Similarity=0.458 Sum_probs=15.9
Q ss_pred CCCCCcEEEE-c----CeeEEEEEEE
Q 026550 65 PFDVGDRCVI-D----GVQMVVEEMH 85 (237)
Q Consensus 65 pf~vGD~I~i-~----~~~G~V~~I~ 85 (237)
+|++||.|+| + |..|.|.++.
T Consensus 1 ~~~~G~~V~I~~G~~~g~~g~i~~i~ 26 (28)
T smart00739 1 KFEVGDTVRVIAGPFKGKVGKVLEVD 26 (28)
T ss_pred CCCCCCEEEEeECCCCCcEEEEEEEc
Confidence 5789999998 2 3668887764
No 14
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=84.50 E-value=3.9 Score=29.78 Aligned_cols=38 Identities=16% Similarity=0.138 Sum_probs=28.5
Q ss_pred CCCCCCcEEEE-cCeeEEEEEEEeEEEEEEEeCCcEEEE
Q 026550 64 HPFDVGDRCVI-DGVQMVVEEMHILTTTFLRYDNEKIFY 101 (237)
Q Consensus 64 ~pf~vGD~I~i-~~~~G~V~~I~l~~T~i~~~~g~~v~I 101 (237)
...++||.|.. +|..|+|.+|+=-+..++..+|..+.+
T Consensus 37 ~~Lk~GD~VvT~gGi~G~V~~I~d~~v~leia~gv~i~~ 75 (109)
T PRK05886 37 ESLQPGDRVHTTSGLQATIVGITDDTVDLEIAPGVVTTW 75 (109)
T ss_pred HhcCCCCEEEECCCeEEEEEEEeCCEEEEEECCCeEEEE
Confidence 45789999976 889999999986555555555655554
No 15
>COG4873 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=82.22 E-value=1.7 Score=28.47 Aligned_cols=44 Identities=18% Similarity=0.161 Sum_probs=29.9
Q ss_pred HHHhhHHHHHHHHhhhheeeeCCCCCCcEEEE-cCeeEEEEEEEeEEEE
Q 026550 43 VFLFGNTAKNVFEAIIFLFVTHPFDVGDRCVI-DGVQMVVEEMHILTTT 90 (237)
Q Consensus 43 gla~q~~~~n~~~~gi~i~~~~pf~vGD~I~i-~~~~G~V~~I~l~~T~ 90 (237)
.+.+|....+ +.+ . ..-.--+|||.|++ ||..|.|++++=-|..
T Consensus 5 ~~~~~~a~~~-~~~-~--~~m~~a~vgniief~dgl~g~vek~nensvi 49 (81)
T COG4873 5 AKYFQKALLC-LKE-R--KLMKIAKVGNIIEFKDGLTGVVEKVNENSVI 49 (81)
T ss_pred HHHHHhhhhh-hce-e--eEeeeeeccceEEEcccceeeeeeecCCcEE
Confidence 3455555556 423 3 22345689999999 8999999998866644
No 16
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=78.39 E-value=7.2 Score=28.59 Aligned_cols=42 Identities=19% Similarity=0.264 Sum_probs=28.6
Q ss_pred CCCCCCcEEEE-cCeeEEEEEEEeE--EEEEEEeCCcEEEEecccc
Q 026550 64 HPFDVGDRCVI-DGVQMVVEEMHIL--TTTFLRYDNEKIFYPNSVL 106 (237)
Q Consensus 64 ~pf~vGD~I~i-~~~~G~V~~I~l~--~T~i~~~~g~~v~IPNs~l 106 (237)
...++||.|.- +|..|+|.+|+-- ...+.. +|..+.+--+.+
T Consensus 35 ~sLk~GD~VvT~GGi~G~V~~I~~~~~~v~le~-~gv~i~v~r~AI 79 (113)
T PRK06531 35 NAIQKGDEVVTIGGLYGTVDEVDTEAKTIVLDV-DGVYLTFELAAI 79 (113)
T ss_pred HhcCCCCEEEECCCcEEEEEEEecCCCEEEEEE-CCEEEEEEhhHh
Confidence 35689999975 8999999998852 344444 666665544433
No 17
>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and the bacterial transcription antitermination proteins NusG []. ; PDB: 3BBO_W 2HGJ_X 2HGQ_X 2HGU_X 1NPP_B 1M1G_D 1NPR_A 2XHC_A 2KVQ_G 2JVV_A ....
Probab=77.13 E-value=5.5 Score=21.95 Aligned_cols=18 Identities=28% Similarity=0.407 Sum_probs=15.2
Q ss_pred CCcEEEE-----cCeeEEEEEEE
Q 026550 68 VGDRCVI-----DGVQMVVEEMH 85 (237)
Q Consensus 68 vGD~I~i-----~~~~G~V~~I~ 85 (237)
+||+|.| -|..|+|.++.
T Consensus 1 ~Gd~V~V~~G~~~G~~G~I~~i~ 23 (32)
T PF00467_consen 1 VGDTVKVISGPFKGKIGKIVEID 23 (32)
T ss_dssp TTSEEEESSSTTTTEEEEEEEEE
T ss_pred CCCEEEEeEcCCCCceEEEEEEE
Confidence 6999999 45889999875
No 18
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=76.39 E-value=0.76 Score=31.67 Aligned_cols=40 Identities=20% Similarity=0.141 Sum_probs=1.7
Q ss_pred eeCCCCCCcEEEE-cCeeEEEEEEEeEEEEEEEeCCcEEEE
Q 026550 62 VTHPFDVGDRCVI-DGVQMVVEEMHILTTTFLRYDNEKIFY 101 (237)
Q Consensus 62 ~~~pf~vGD~I~i-~~~~G~V~~I~l~~T~i~~~~g~~v~I 101 (237)
+....++||+|.. +|..|+|.+++=-+..++..+|..+.+
T Consensus 33 m~~~Lk~Gd~VvT~gGi~G~V~~i~~~~v~lei~~g~~i~v 73 (82)
T PF02699_consen 33 MLASLKPGDEVVTIGGIYGTVVEIDDDTVVLEIAPGVEITV 73 (82)
T ss_dssp GGG--------------------------------------
T ss_pred HHHcCCCCCEEEECCcEEEEEEEEeCCEEEEEECCCeEEEE
Confidence 4577899999986 889999999977777777777765554
No 19
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=76.10 E-value=9.3 Score=27.22 Aligned_cols=42 Identities=21% Similarity=0.234 Sum_probs=31.7
Q ss_pred CCCCCcEEEE-cCeeEEEEEEEeEEEEEEEeCCcEEEEecccc
Q 026550 65 PFDVGDRCVI-DGVQMVVEEMHILTTTFLRYDNEKIFYPNSVL 106 (237)
Q Consensus 65 pf~vGD~I~i-~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l 106 (237)
..+.||.|.- +|..|+|.+++=....+.--+|..+.+--+.+
T Consensus 43 sL~kGD~VvT~gGi~G~V~~v~d~~v~I~l~~~~~i~~~k~aI 85 (97)
T COG1862 43 SLKKGDEVVTIGGIVGTVTKVGDDTVEIELGDGTKIKFEKEAI 85 (97)
T ss_pred hccCCCEEEEcCCeEEEEEEEecCcEEEEECCCeEEEEEHHHH
Confidence 3689999976 78999999999877666665777776644443
No 20
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=73.87 E-value=4 Score=25.63 Aligned_cols=20 Identities=35% Similarity=0.650 Sum_probs=17.3
Q ss_pred CCCCcEEEE--cCeeEEEEEEE
Q 026550 66 FDVGDRCVI--DGVQMVVEEMH 85 (237)
Q Consensus 66 f~vGD~I~i--~~~~G~V~~I~ 85 (237)
|++||.|+. +|..-+|.+++
T Consensus 1 f~~GDvV~LKSGGp~MTV~~v~ 22 (53)
T PF09926_consen 1 FKIGDVVQLKSGGPRMTVTEVG 22 (53)
T ss_pred CCCCCEEEEccCCCCeEEEEcc
Confidence 789999998 78889998774
No 21
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=72.99 E-value=13 Score=28.63 Aligned_cols=43 Identities=12% Similarity=0.066 Sum_probs=29.0
Q ss_pred CCCCCCcEEEE-c----CeeEEEEEEEeEE--EEEEEeC-CcE--EEEecccc
Q 026550 64 HPFDVGDRCVI-D----GVQMVVEEMHILT--TTFLRYD-NEK--IFYPNSVL 106 (237)
Q Consensus 64 ~pf~vGD~I~i-~----~~~G~V~~I~l~~--T~i~~~~-g~~--v~IPNs~l 106 (237)
.+|++||+|+| + |..|.|.+++-.. .++.-.+ ... +++|++.+
T Consensus 93 ~~~~~G~~V~I~~Gpf~g~~g~V~~vd~~k~~v~v~ll~~~~~~pv~v~~~~~ 145 (153)
T PRK08559 93 EGIKEGDIVELIAGPFKGEKARVVRVDESKEEVTVELLEAAVPIPVTVRGDQV 145 (153)
T ss_pred cCCCCCCEEEEeccCCCCceEEEEEEcCCCCEEEEEEECCcceeeEEEeccEE
Confidence 46999999998 3 4779999986332 2233322 333 78888877
No 22
>cd04466 S1_YloQ_GTPase S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of three domains: an N-terminal S1 domain, a central GTPase domain, and a C-terminal zinc finger domain. This N-terminal S1 domain binds ssRNA. The central GTPase domain contains nucleotide-binding signature motifs: G1 (walker A), G3 (walker B) and G4 motifs. Experiments show that the bacterial YloQ and YjeQ proteins have low intrinsic GTPase activity. The C-terminal zinc-finger domain has structural similarity to a portion of the DNA-repair protein Rad51. This suggests a possible role for this GTPase as a regulator of translation, perhaps as a translation initiation factor. This family is classified based on the N-terminal S1 domain.
Probab=69.92 E-value=9.4 Score=24.59 Aligned_cols=29 Identities=28% Similarity=0.398 Sum_probs=20.4
Q ss_pred CCCCCCcEEEEc---CeeEEEEEEEeEEEEEE
Q 026550 64 HPFDVGDRCVID---GVQMVVEEMHILTTTFL 92 (237)
Q Consensus 64 ~pf~vGD~I~i~---~~~G~V~~I~l~~T~i~ 92 (237)
...-+||||.++ +..|.|+++--|.+.+.
T Consensus 36 ~~~~VGD~V~~~~~~~~~~~I~~vl~R~s~l~ 67 (68)
T cd04466 36 NPPAVGDRVEFEPEDDGEGVIEEILPRKNLLI 67 (68)
T ss_pred CCCCCCcEEEEEECCCCcEEEEEEeccceEEE
Confidence 346899999874 35577778777776653
No 23
>PF06107 DUF951: Bacterial protein of unknown function (DUF951); InterPro: IPR009296 This family consists of several short hypothetical bacterial proteins of unknown function.
Probab=67.33 E-value=18 Score=23.06 Aligned_cols=42 Identities=14% Similarity=0.144 Sum_probs=30.0
Q ss_pred CCCCcEEEE------cCeeEEEEEEEeEEEEEEEeCCcEEEEeccccc
Q 026550 66 FDVGDRCVI------DGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLA 107 (237)
Q Consensus 66 f~vGD~I~i------~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~ 107 (237)
|++||.|+. |+..-+|..+|.=.=.=..--|..+.+|-++|-
T Consensus 2 ~~vgDiV~mKK~HPCG~~~Wei~R~GaDikikC~gCg~~imlpR~~fe 49 (57)
T PF06107_consen 2 YEVGDIVEMKKPHPCGSNEWEIIRIGADIKIKCLGCGRQIMLPRSKFE 49 (57)
T ss_pred ccCCCEEEEcCCCCCCCCEEEEEEccCcEEEEECCCCCEEEEeHHHHH
Confidence 789999998 557788887775432223345888999877764
No 24
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=65.22 E-value=11 Score=37.95 Aligned_cols=44 Identities=16% Similarity=0.279 Sum_probs=33.9
Q ss_pred eCCCCCCcEEEE----------cCeeEEEEEEEeEEEEEEEeCCcEEEEecccc
Q 026550 63 THPFDVGDRCVI----------DGVQMVVEEMHILTTTFLRYDNEKIFYPNSVL 106 (237)
Q Consensus 63 ~~pf~vGD~I~i----------~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l 106 (237)
.+.|.+||+|.+ ||..|+|++|.=....++..+|+.|.+|...+
T Consensus 598 ~r~~~vGDrVm~~rNd~~lgV~NGd~GtV~~I~~~~i~V~~d~gr~V~~~~~~~ 651 (988)
T PRK13889 598 ERSFASGDRVMFLQNERGLGVKNGTLGTIEQVSAQSMSVRLDDGRSVAFDLKDY 651 (988)
T ss_pred CccccCCCEEEEeecCCcCCEeCCCeEEEEEecCCeEEEEECCCeEEEecHHHc
Confidence 357999999965 56789999998766667766788888876544
No 25
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=63.58 E-value=25 Score=26.67 Aligned_cols=43 Identities=14% Similarity=0.067 Sum_probs=27.5
Q ss_pred CCCCCCcEEEE-c----CeeEEEEEEEeEE--EEEEE-eCCcE--EEEecccc
Q 026550 64 HPFDVGDRCVI-D----GVQMVVEEMHILT--TTFLR-YDNEK--IFYPNSVL 106 (237)
Q Consensus 64 ~pf~vGD~I~i-~----~~~G~V~~I~l~~--T~i~~-~~g~~--v~IPNs~l 106 (237)
..|++||+|+| + |..|.|.+++-.. .++.- .-+.. +.+|++.+
T Consensus 85 ~~~~~Gd~V~I~~GPf~G~~g~v~~~d~~k~~v~v~l~~~~~~~~v~v~~~~l 137 (145)
T TIGR00405 85 ESIKKGDIVEIISGPFKGERAKVIRVDESKEEVTLELIEAAVPIPVTVKGDQV 137 (145)
T ss_pred cccCCCCEEEEeecCCCCCeEEEEEEcCCCCEEEEEEEEcCccceEEEeeeEE
Confidence 45999999998 3 4779999885311 11111 12445 77777766
No 26
>PRK03999 translation initiation factor IF-5A; Provisional
Probab=63.55 E-value=29 Score=26.03 Aligned_cols=22 Identities=27% Similarity=0.371 Sum_probs=19.8
Q ss_pred CCCCCcEEEEcCeeEEEEEEEe
Q 026550 65 PFDVGDRCVIDGVQMVVEEMHI 86 (237)
Q Consensus 65 pf~vGD~I~i~~~~G~V~~I~l 86 (237)
-++.|+.|+++|..+.|.++..
T Consensus 10 ~lrkG~~i~~~g~p~~V~~~~~ 31 (129)
T PRK03999 10 ELKEGSYVVIDGEPCKIVEISK 31 (129)
T ss_pred HccCCCEEEECCEEEEEEEEEe
Confidence 3789999999999999999974
No 27
>PF09870 DUF2097: Uncharacterized protein conserved in archaea (DUF2097); InterPro: IPR019208 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=62.95 E-value=24 Score=24.51 Aligned_cols=32 Identities=19% Similarity=0.077 Sum_probs=24.5
Q ss_pred eeCCCCCCcEEEEc-C---eeEEEEEEEeEEEEEEE
Q 026550 62 VTHPFDVGDRCVID-G---VQMVVEEMHILTTTFLR 93 (237)
Q Consensus 62 ~~~pf~vGD~I~i~-~---~~G~V~~I~l~~T~i~~ 93 (237)
+.+-+++||++++. | .+|+|..++-...++..
T Consensus 15 i~~nV~e~D~lEisygRv~vpG~V~~~~~~~~~l~~ 50 (86)
T PF09870_consen 15 IKNNVKEGDYLEISYGRVHVPGEVLSIEDGFLRLQL 50 (86)
T ss_pred HHhcCCCCCEEEEEeeEEEeeeEEEEeeeeEEEEEE
Confidence 35779999999993 3 67999999885555554
No 28
>PRK12281 rplX 50S ribosomal protein L24; Reviewed
Probab=62.71 E-value=12 Score=25.30 Aligned_cols=24 Identities=17% Similarity=0.075 Sum_probs=19.0
Q ss_pred CCCCCcEEEE-----cCeeEEEEEEEeEE
Q 026550 65 PFDVGDRCVI-----DGVQMVVEEMHILT 88 (237)
Q Consensus 65 pf~vGD~I~i-----~~~~G~V~~I~l~~ 88 (237)
+++.||.|.+ -|..|+|.++.-..
T Consensus 6 ~I~kGD~V~Vi~G~dKGK~G~V~~V~~~~ 34 (76)
T PRK12281 6 KVKKGDMVKVIAGDDKGKTGKVLAVLPKK 34 (76)
T ss_pred cccCCCEEEEeEcCCCCcEEEEEEEEcCC
Confidence 7899999998 34779999886543
No 29
>PF00677 Lum_binding: Lumazine binding domain; InterPro: IPR001783 The following proteins have been shown [, ] to be structurally and evolutionary related: Riboflavin synthase alpha chain (2.5.1.9 from EC) (RS-alpha) (gene ribC in Escherichia coli, ribB in Bacillus subtilis and Photobacterium leiognathi, RIB5 in yeast. This enzyme synthesises riboflavin from two moles of 6,7- dimethyl-8-(1'-D-ribityl)lumazine (Lum), a pteridine-derivative. Photobacterium phosphoreum lumazine protein (LumP) (gene luxL). LumP is a protein that modulates the colour of the bioluminescence emission of bacterial luciferase. In the presence of LumP, light emission is shifted to higher energy values (shorter wavelength). LumP binds non-covalently to 6,7-dimethyl-8-(1'-D-ribityl)lumazine. Vibrio fischeri yellow fluorescent protein (YFP) (gene luxY). Like LumP, YFP modulates light emission but towards a longer wavelength. YFP binds non-covalently to FMN. These proteins seem to have evolved from the duplication of a domain of about 100 residues. In its C-terminal section, this domain contains a conserved motif [KR]-V-N-[LI]-E which has been proposed to be the binding site for lumazine (Lum) and some of its derivatives. RS-alpha which binds two molecules of Lum has two perfect copies of this motif, while LumP which binds one molecule of Lum, has a Glu instead of Lys/Arg in the first position of the second copy of the motif. Similarly, YFP, which binds to one molecule of FMN, also seems to have a potentially dysfunctional binding site by substitution of Gly for Glu in the last position of the first copy of the motif.; GO: 0004746 riboflavin synthase activity, 0009231 riboflavin biosynthetic process; PDB: 3DDY_A 1KZL_A 3A3G_B 3A35_B 3A3B_B 1I8D_C 1PKV_B 1HZE_B 1I18_B.
Probab=62.10 E-value=18 Score=24.94 Aligned_cols=47 Identities=15% Similarity=0.252 Sum_probs=32.4
Q ss_pred CCCCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcEEEEEcCC
Q 026550 64 HPFDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPISNFYRST 118 (237)
Q Consensus 64 ~pf~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~s~~~ 118 (237)
..+.+||.|.+||.+-+|.++. .+.-.+-+....+....+.++...+
T Consensus 32 ~~~~~g~SIavnGvcLTV~~~~--------~~~f~~~l~~eTl~~T~l~~~~~G~ 78 (85)
T PF00677_consen 32 SDLKIGGSIAVNGVCLTVTDIN--------EDWFEVDLIPETLRRTTLGNLKVGD 78 (85)
T ss_dssp GTG-TTSEEEETTEEEEEEEEE--------TTEEEEEEEHHHHHCSSGGG--TTS
T ss_pred hhCccCcEEEECCeeeEEEEec--------CCEEEEechHHHhhhchhccCCCCC
Confidence 4688999999999999999987 3444456666666666666665554
No 30
>PF13452 MaoC_dehydrat_N: N-terminal half of MaoC dehydratase; PDB: 3HMJ_H 2UV8_I 2VKZ_G 1S9C_K 3OML_A 3KHP_A.
Probab=61.30 E-value=23 Score=25.97 Aligned_cols=47 Identities=15% Similarity=0.103 Sum_probs=26.7
Q ss_pred HHhhhheeeeCCCCCCcEEEEcCeeEEEEEE-E-------eEEEEEEEeCCcEEE
Q 026550 54 FEAIIFLFVTHPFDVGDRCVIDGVQMVVEEM-H-------ILTTTFLRYDNEKIF 100 (237)
Q Consensus 54 ~~~gi~i~~~~pf~vGD~I~i~~~~G~V~~I-~-------l~~T~i~~~~g~~v~ 100 (237)
+.++--+.+.+|.++||.+......-.|.+- + -..+++++.||+.|.
T Consensus 76 vh~~~~~~~h~Pl~~Gd~l~~~~~v~~v~~k~g~G~~~~v~~~~~~~~~~Ge~v~ 130 (132)
T PF13452_consen 76 VHGEQDIEFHRPLRPGDTLTATSRVTDVYDKRGAGKGVFVTVETEYTDQDGELVA 130 (132)
T ss_dssp EEEEEEEEESS--BSSEEEEEEEEEEEEEEES-TTSEEEEEEEEEEE-CTTEEEE
T ss_pred EecCcEEEEeCCCCCCCEEEEEEEEEEEEEecCCCCEEEEEEEEEEECCCCCEEE
Confidence 3355667889999999999986643333333 1 122445566777653
No 31
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=61.05 E-value=15 Score=36.03 Aligned_cols=43 Identities=26% Similarity=0.327 Sum_probs=32.7
Q ss_pred CCCCCCcEEEE----------cCeeEEEEEEEeEEEEEEEeCCcEEEEecccc
Q 026550 64 HPFDVGDRCVI----------DGVQMVVEEMHILTTTFLRYDNEKIFYPNSVL 106 (237)
Q Consensus 64 ~pf~vGD~I~i----------~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l 106 (237)
+.|++||+|.. ||..|+|.+++=....++..+|+.+.+|...+
T Consensus 606 ~~~~~GDrV~~~~N~~~~gv~NGd~g~V~~i~~~~i~v~~~~G~~v~~~~~~~ 658 (744)
T TIGR02768 606 RKFAAGDRIVFLENNRDLGVKNGMLGTVEEIEDGRLVVQLDSGELVIIPQAEY 658 (744)
T ss_pred ceecCCCEEEEEecccccCCcCCCEEEEEEecCCeEEEEECCCCEEEECHHHh
Confidence 57999999965 56779999997666666666778888876554
No 32
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=60.50 E-value=19 Score=24.18 Aligned_cols=14 Identities=36% Similarity=0.460 Sum_probs=11.9
Q ss_pred eeeCCCCCCcEEEE
Q 026550 61 FVTHPFDVGDRCVI 74 (237)
Q Consensus 61 ~~~~pf~vGD~I~i 74 (237)
.-+|.|+|||.+..
T Consensus 24 kNDRdf~VGD~L~L 37 (72)
T PF12961_consen 24 KNDRDFQVGDILVL 37 (72)
T ss_pred ecCCCCCCCCEEEE
Confidence 34789999999987
No 33
>cd03454 YdeM YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit.
Probab=59.94 E-value=34 Score=25.40 Aligned_cols=42 Identities=17% Similarity=0.153 Sum_probs=26.6
Q ss_pred heeeeCCCCCCcEEEEcCeeEEEEE--------EEeEEEEEEEeCCcEEE
Q 026550 59 FLFVTHPFDVGDRCVIDGVQMVVEE--------MHILTTTFLRYDNEKIF 100 (237)
Q Consensus 59 ~i~~~~pf~vGD~I~i~~~~G~V~~--------I~l~~T~i~~~~g~~v~ 100 (237)
-.-+.+|..+||.+.+......+.+ +=...+.+++.+|+.+.
T Consensus 82 ~~~f~~pv~~Gd~l~~~~~v~~~~~~~~~~~~~~v~~~~~~~nq~g~~v~ 131 (140)
T cd03454 82 ELRWPRPVRPGDTLSVEVEVLDKRPSRSRPDRGIVTLRSETLNQRGEVVL 131 (140)
T ss_pred eeEeCCCCCCCCEEEEEEEEEEEeecCCCCCCeEEEEEEEEEcCCCCEEE
Confidence 5678999999999988664433332 22334445566676543
No 34
>cd04461 S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp5 Homo sapiens S1 repeat 8 (hs8) and Saccharomyces cerevisiae S1 repeat 7 (sc7)-like domains. Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in S. cerevisiae Rrp5 and 14 S1 repeats in H. sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 8 and S. cerevisiae S1 repeat 7. Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=59.63 E-value=39 Score=22.65 Aligned_cols=44 Identities=9% Similarity=0.009 Sum_probs=33.0
Q ss_pred CCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcEEEE
Q 026550 66 FDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPISNF 114 (237)
Q Consensus 66 f~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~ 114 (237)
+++|+.+ .|+|..+.=....+.-.+|..-.+|.+.+....+.+.
T Consensus 12 ~~~G~i~-----~g~V~~v~~~G~fv~l~~~~~g~v~~~el~~~~~~~~ 55 (83)
T cd04461 12 LKPGMVV-----HGYVRNITPYGVFVEFLGGLTGLAPKSYISDEFVTDP 55 (83)
T ss_pred CCCCCEE-----EEEEEEEeeceEEEEcCCCCEEEEEHHHCCcccccCH
Confidence 5677665 5888888877777776678888999999987766543
No 35
>CHL00141 rpl24 ribosomal protein L24; Validated
Probab=59.39 E-value=15 Score=25.33 Aligned_cols=23 Identities=22% Similarity=0.176 Sum_probs=18.6
Q ss_pred CCCCCcEEEE-----cCeeEEEEEEEeE
Q 026550 65 PFDVGDRCVI-----DGVQMVVEEMHIL 87 (237)
Q Consensus 65 pf~vGD~I~i-----~~~~G~V~~I~l~ 87 (237)
+++.||.|++ -|..|+|.++.-.
T Consensus 8 ~I~~GD~V~Vi~G~dKGK~G~V~~V~~~ 35 (83)
T CHL00141 8 HVKIGDTVKIISGSDKGKIGEVLKIIKK 35 (83)
T ss_pred cccCCCEEEEeEcCCCCcEEEEEEEEcC
Confidence 6899999998 3577999988654
No 36
>PF01835 A2M_N: MG2 domain; InterPro: IPR002890 The proteinase-binding alpha-macroglobulins (A2M) [] are large glycoproteins found in the plasma of vertebrates, in the hemolymph of some invertebrates and in reptilian and avian egg white. A2M-like proteins are able to inhibit all four classes of proteinases by a 'trapping' mechanism. They have a peptide stretch, called the 'bait region', which contains specific cleavage sites for different proteinases. When a proteinase cleaves the bait region, a conformational change is induced in the protein, thus trapping the proteinase. The entrapped enzyme remains active against low molecular weight substrates, whilst its activity toward larger substrates is greatly reduced, due to steric hindrance. Following cleavage in the bait region, a thiol ester bond, formed between the side chains of a cysteine and a glutamine, is cleaved and mediates the covalent binding of the A2M-like protein to the proteinase. This family includes the N-terminal region of the alpha-2-macroglobulin family. The inhibitor domains belong to MEROPS inhibitor family I39.; GO: 0004866 endopeptidase inhibitor activity; PDB: 2B39_B 3KLS_B 3PRX_C 3KM9_B 3PVM_C 3CU7_A 4E0S_A 4A5W_A 4ACQ_C 2P9R_B ....
Probab=58.80 E-value=57 Score=22.53 Aligned_cols=43 Identities=16% Similarity=0.332 Sum_probs=26.7
Q ss_pred hheeeeCC-CCCCcEEEEcCeeEEEE------EEEeEEEEEEEeCCcEEE
Q 026550 58 IFLFVTHP-FDVGDRCVIDGVQMVVE------EMHILTTTFLRYDNEKIF 100 (237)
Q Consensus 58 i~i~~~~p-f~vGD~I~i~~~~G~V~------~I~l~~T~i~~~~g~~v~ 100 (237)
+++..+|| |+.||.|.+.+..-.-. .=.-.+..+.+.+|..+.
T Consensus 2 ~~i~TDr~iYrPGetV~~~~~~~~~~~~~~~~~~~~~~v~i~dp~g~~v~ 51 (99)
T PF01835_consen 2 IFIQTDRPIYRPGETVHFRAIVRDLDNDFKPPANSPVTVTIKDPSGNEVF 51 (99)
T ss_dssp EEEEESSSEE-TTSEEEEEEEEEEECTTCSCESSEEEEEEEEETTSEEEE
T ss_pred EEEECCccCcCCCCEEEEEEEEeccccccccccCCceEEEEECCCCCEEE
Confidence 46888999 99999999866421111 112334667777777664
No 37
>cd07687 IgC_TCR_delta Immunoglobulin Constant domain. IgC_TCR_delta: Constant domain of the delta chain of delta/gamma T-cell antigen receptors (TCRs). TCRs mediate antigen recognition by T lymphocytes, and are composed of alpha and beta, or gamma and delta, polypeptide chains with variable (V) and constant (C) regions. The majority of T cells contain alpha-beta TCRs but a small subset contain gamma-delta TCRs. Alpha-beta TCRs recognize antigen as peptide fragments presented by major histocompatibility complex (MHC) molecules. Gamma-delta TCRs recognize intact protein antigens; they recognize protein antigens directly and without antigen processing, and MHC independently of the bound peptide. Gamma-delta T cells can also be stimulated by non-peptide antigens such as small phosphate- or amine-containing compounds.
Probab=58.06 E-value=25 Score=23.62 Aligned_cols=49 Identities=4% Similarity=0.062 Sum_probs=39.2
Q ss_pred EEEEEeEEEEEEEeCCcEEEEecccccCCcEEEEEcCCcceeEEEEEEEecC
Q 026550 81 VEEMHILTTTFLRYDNEKIFYPNSVLATKPISNFYRSTVDMRDAVEFAIDVF 132 (237)
Q Consensus 81 V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~~~~~v~~~ 132 (237)
=++|+|.++++...+-..+.-||++...-++--|+... .++.+++.+..
T Consensus 21 ~I~i~l~sski~e~~~a~vVs~nGkysaVKlgqy~~~~---~VTCtv~h~n~ 69 (80)
T cd07687 21 SISINLSSSKIVEEPPAIVVTPNGKYSAVKLGQYTDLE---SVTCTVQHNNQ 69 (80)
T ss_pred ceEEEecccceeccCCceEEccCCcEEEEEEEeecCcc---ccEEEEEECCC
Confidence 35789999999999999999999999988888888866 35555555544
No 38
>PF02559 CarD_CdnL_TRCF: CarD-like/TRCF domain; InterPro: IPR003711 The bacterium Myxococcus xanthus responds to blue light by producing carotenoids. It also responds to starvation conditions by developing fruiting bodies, where the cells differentiate into myxospores. Each response entails the transcriptional activation of a separate set of genes. A single gene, carD, is required for the activation of both light- and starvation-inducible genes []. The predicted protein contains four repeats of a DNA-binding domain present in mammalian high mobility group I(Y) proteins and other nuclear proteins from animals and plants. Other peptide stretches on CarD also resemble functional domains typical of eukaryotic transcription factors, including a very acidic region and a leucine zipper. High mobility group yI(Y) proteins are known to bind the minor groove of A+T-rich DNA [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3MLQ_H 2EYQ_A.
Probab=57.16 E-value=54 Score=22.87 Aligned_cols=42 Identities=19% Similarity=0.261 Sum_probs=27.2
Q ss_pred CCCCcEEEEcC-eeEEEEEEEeEE--------EEEEEeCCcEEEEeccccc
Q 026550 66 FDVGDRCVIDG-VQMVVEEMHILT--------TTFLRYDNEKIFYPNSVLA 107 (237)
Q Consensus 66 f~vGD~I~i~~-~~G~V~~I~l~~--------T~i~~~~g~~v~IPNs~l~ 107 (237)
|++||+|.=.+ =-|+|++|.-+. -.++-.++..+++|=++.-
T Consensus 2 f~~GD~VVh~~~Gv~~i~~i~~~~~~~~~~~yy~L~~~~~~~i~vPv~~~~ 52 (98)
T PF02559_consen 2 FKIGDYVVHPNHGVGRIEGIEEIEFGGEKQEYYVLEYADDDTIYVPVDNAD 52 (98)
T ss_dssp --TTSEEEETTTEEEEEEEEEEEECTTEEEEEEEEEECCCEEEEEECCCGG
T ss_pred CCCCCEEEECCCceEEEEEEEEEeeCCeeEEEEEEEECCCCEEEEEcCChh
Confidence 78999998744 446666665544 3455556668889887753
No 39
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=55.59 E-value=45 Score=26.38 Aligned_cols=8 Identities=0% Similarity=-0.350 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 026550 36 LSQVVLAV 43 (237)
Q Consensus 36 g~~~~~ig 43 (237)
|++.+|+|
T Consensus 42 g~~~lAlg 49 (191)
T PF04156_consen 42 GIALLALG 49 (191)
T ss_pred HHHHHHHH
Confidence 33333333
No 40
>PRK13692 (3R)-hydroxyacyl-ACP dehydratase subunit HadA; Provisional
Probab=54.66 E-value=52 Score=25.45 Aligned_cols=17 Identities=29% Similarity=0.370 Sum_probs=14.6
Q ss_pred eeeeCCCCCCcEEEEcC
Q 026550 60 LFVTHPFDVGDRCVIDG 76 (237)
Q Consensus 60 i~~~~pf~vGD~I~i~~ 76 (237)
+-+-+|.++||.+....
T Consensus 91 ~~f~~PV~~GDtL~~~~ 107 (159)
T PRK13692 91 LKFEKPIVAGDKLYCDV 107 (159)
T ss_pred EEEeCCccCCCEEEEEE
Confidence 67889999999998755
No 41
>PF09871 DUF2098: Uncharacterized protein conserved in archaea (DUF2098); InterPro: IPR019209 This family of proteins have no known function.
Probab=53.59 E-value=19 Score=25.36 Aligned_cols=21 Identities=24% Similarity=0.355 Sum_probs=18.4
Q ss_pred CCCCCCcEEEE--cCeeEEEEEE
Q 026550 64 HPFDVGDRCVI--DGVQMVVEEM 84 (237)
Q Consensus 64 ~pf~vGD~I~i--~~~~G~V~~I 84 (237)
+|+.+|+.|+- -|..|+|.+|
T Consensus 1 k~I~vGs~VRY~~TGT~G~V~di 23 (91)
T PF09871_consen 1 KPIKVGSYVRYINTGTVGKVVDI 23 (91)
T ss_pred CcceeCCEEEECCCCeEEEEEEE
Confidence 58899999997 5699999986
No 42
>PF03829 PTSIIA_gutA: PTS system glucitol/sorbitol-specific IIA component; InterPro: IPR004716 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The Man family is unique in several respects among PTS permease families: It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. This family consists only of glucitol-specific transporters, and occur both in Gram-negative and Gram-positive bacteria. The system in Escherichia coli consists of a IIA protein, and a IIBC protein. This family is specific for the IIA component.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2F9H_A.
Probab=53.45 E-value=17 Score=26.84 Aligned_cols=24 Identities=17% Similarity=0.314 Sum_probs=16.2
Q ss_pred eCCCCCCcEEEEcCeeEEEEEEEe
Q 026550 63 THPFDVGDRCVIDGVQMVVEEMHI 86 (237)
Q Consensus 63 ~~pf~vGD~I~i~~~~G~V~~I~l 86 (237)
...+++||.+.+|+...+|..+|=
T Consensus 49 ~~~i~~Gd~l~i~~~~y~ItaVG~ 72 (117)
T PF03829_consen 49 KGDIKPGDTLIIGGQEYTITAVGS 72 (117)
T ss_dssp G----TT-EEEETTEEEEEEEE-T
T ss_pred cCCcCCCCEEEECCeEEEEEEEhH
Confidence 456899999999999999998873
No 43
>cd03701 IF2_IF5B_II IF2_IF5B_II: This family represents the domain II of prokaryotic Initiation Factor 2 (IF2) and its archeal and eukaryotic homologue aeIF5B. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of the 60S ribosomal subunit. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains in EF1A, eEF1A and aeIF2gamma.
Probab=53.25 E-value=15 Score=25.84 Aligned_cols=24 Identities=17% Similarity=0.216 Sum_probs=21.3
Q ss_pred eeeeCCCCCCcEEEEcCeeEEEEE
Q 026550 60 LFVTHPFDVGDRCVIDGVQMVVEE 83 (237)
Q Consensus 60 i~~~~pf~vGD~I~i~~~~G~V~~ 83 (237)
|.-+.-+++||++..+...|+|..
T Consensus 21 iV~~GtL~~Gd~iv~G~~~GkVr~ 44 (95)
T cd03701 21 IVQNGTLKKGDVIVAGGTYGKIRT 44 (95)
T ss_pred EEEcCeEecCCEEEECCccceEEE
Confidence 566788999999999999999976
No 44
>TIGR00527 gcvH glycine cleavage system H protein. The genome of Aquifex aeolicus contains one protein scoring above the trusted cutoff and clustering with other bacterial H proteins, and four more proteins clustering together and scoring below the trusted cutoff; it seems doubtful that all of these homologs are authentic H protein. The Chlamydial homolog of H protein is nearly as divergent as the Aquifex outgroup, is not accompanied by P and T proteins, is not included in the seed alignment, and consequently also scores below the trusted cutoff.
Probab=52.91 E-value=26 Score=26.16 Aligned_cols=43 Identities=14% Similarity=0.115 Sum_probs=35.5
Q ss_pred CCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEEEecccccCC
Q 026550 66 FDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLATK 109 (237)
Q Consensus 66 f~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~ 109 (237)
-++|+.|+-|+..|.|+.....+...--.+|+++-+ |..+.++
T Consensus 44 p~~G~~v~~g~~~~~IEs~K~~~~i~sPvsG~Vv~v-N~~l~~~ 86 (127)
T TIGR00527 44 PEVGAEVSAGESCGSVESVKAASDIYAPVSGTVVEV-NDALEDS 86 (127)
T ss_pred CCCCCEecCCCEEEEEEEeeeeeeeecCCcEEEEEe-hHhhhhC
Confidence 378999999999999999998887777788988887 6666553
No 45
>PRK05609 nusG transcription antitermination protein NusG; Validated
Probab=52.84 E-value=49 Score=25.86 Aligned_cols=44 Identities=18% Similarity=0.209 Sum_probs=29.8
Q ss_pred eCCCCCCcEEEE-c----CeeEEEEEEE---eEEEEEEEeCCcE--EEEecccc
Q 026550 63 THPFDVGDRCVI-D----GVQMVVEEMH---ILTTTFLRYDNEK--IFYPNSVL 106 (237)
Q Consensus 63 ~~pf~vGD~I~i-~----~~~G~V~~I~---l~~T~i~~~~g~~--v~IPNs~l 106 (237)
..+|++||.|+| + |..|.|.++. -+.+...+.-|+. +.++.+.+
T Consensus 124 ~~~~~~Gd~VrI~~GPf~G~~g~v~~i~~~~~r~~v~l~~~G~~~~v~l~~~~l 177 (181)
T PRK05609 124 KVDFEVGEMVRVIDGPFADFNGTVEEVDYEKSKLKVLVSIFGRETPVELEFSQV 177 (181)
T ss_pred ccCCCCCCEEEEeccCCCCCEEEEEEEeCCCCEEEEEEEECCCceEEEEchHHE
Confidence 356999999999 3 4889999986 3555556666654 44444433
No 46
>PRK10377 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional
Probab=52.19 E-value=20 Score=26.52 Aligned_cols=24 Identities=8% Similarity=0.039 Sum_probs=20.9
Q ss_pred eCCCCCCcEEEEcCeeEEEEEEEe
Q 026550 63 THPFDVGDRCVIDGVQMVVEEMHI 86 (237)
Q Consensus 63 ~~pf~vGD~I~i~~~~G~V~~I~l 86 (237)
...+++||.+.+|+...+|..+|=
T Consensus 49 ~~~i~~Gd~l~i~~~~Y~ItaVG~ 72 (120)
T PRK10377 49 KGALQPGLQFELGQHRYPVTAVGS 72 (120)
T ss_pred cCccCCCCEEEECCEEEEEEEEhH
Confidence 566899999999999999998763
No 47
>cd05698 S1_Rrp5_repeat_hs6_sc5 S1_Rrp5_repeat_hs6_sc5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 6 (hs6) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=50.81 E-value=38 Score=21.69 Aligned_cols=37 Identities=22% Similarity=0.206 Sum_probs=26.8
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcEEE
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPISN 113 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N 113 (237)
+.|+|.++.=.-..+.-.++-.-.+|.+.+....+.|
T Consensus 4 ~~g~V~~v~~~G~~V~l~~~~~gli~~s~l~~~~~~~ 40 (70)
T cd05698 4 THGTIVKVKPNGCIVSFYNNVKGFLPKSELSEAFIKD 40 (70)
T ss_pred EEEEEEEEecCcEEEEECCCCEEEEEHHHcChhhcCC
Confidence 5688888876666666666777899999887665554
No 48
>PRK00004 rplX 50S ribosomal protein L24; Reviewed
Probab=50.69 E-value=24 Score=25.46 Aligned_cols=24 Identities=17% Similarity=0.212 Sum_probs=19.0
Q ss_pred CCCCCcEEEE-----cCeeEEEEEEEeEE
Q 026550 65 PFDVGDRCVI-----DGVQMVVEEMHILT 88 (237)
Q Consensus 65 pf~vGD~I~i-----~~~~G~V~~I~l~~ 88 (237)
+++.||.|+| -|..|+|.++.-..
T Consensus 4 ~i~kGD~V~Vi~G~dKGk~G~V~~V~~~~ 32 (105)
T PRK00004 4 KIKKGDTVIVIAGKDKGKRGKVLKVLPKK 32 (105)
T ss_pred cccCCCEEEEeEcCCCCcEEEEEEEEcCC
Confidence 7899999998 34779999886443
No 49
>cd03702 IF2_mtIF2_II This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Bacterial IF-2 is structurally and functionally related to eukaryotic mitochondrial mtIF-2.
Probab=50.37 E-value=16 Score=25.82 Aligned_cols=24 Identities=25% Similarity=0.196 Sum_probs=20.6
Q ss_pred eeeeCCCCCCcEEEEcCeeEEEEE
Q 026550 60 LFVTHPFDVGDRCVIDGVQMVVEE 83 (237)
Q Consensus 60 i~~~~pf~vGD~I~i~~~~G~V~~ 83 (237)
|.-+.-+++||++..+...|+|..
T Consensus 21 iV~~GtL~~Gd~iv~G~~~gkVr~ 44 (95)
T cd03702 21 LVQNGTLKVGDVLVAGTTYGKVRA 44 (95)
T ss_pred EEEcCeEeCCCEEEEcccccEEEE
Confidence 455777999999999999998876
No 50
>PF01545 Cation_efflux: Cation efflux family; InterPro: IPR002524 Members of this family are integral membrane proteins, that are found to increase tolerance to divalent metal ions such as cadmium, zinc, and cobalt. These proteins are considered to be efflux pumps that remove these ions from cells [, ], however others are implicated in ion uptake []. The family has six predicted transmembrane domains. Members of the family are variable in length because of variably sized inserts, often containing low-complexity sequence.; GO: 0008324 cation transmembrane transporter activity, 0006812 cation transport, 0055085 transmembrane transport, 0016021 integral to membrane; PDB: 3BYP_B 3BYR_A 3H90_B 2QFI_B 2ZZT_A.
Probab=50.36 E-value=1.5e+02 Score=24.81 Aligned_cols=62 Identities=18% Similarity=0.226 Sum_probs=33.6
Q ss_pred HHHHHHHHHhhCCCCCCCCcEEEEEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHc
Q 026550 141 LKSTIKNYLESKPRHWSPTHSVVVKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEA 208 (237)
Q Consensus 141 ~~~~i~~~l~~~~~~~~~~~~v~~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 208 (237)
..+.+++.+++.+++. .-..+++.+.+.+...+.+.+.++.++ +.++..+ ..+++.+.+++.
T Consensus 206 ~~~~i~~~i~~~~~v~-~v~~~~~~~~g~~~~~v~i~v~v~~~~-~v~~~~~----i~~~i~~~l~~~ 267 (284)
T PF01545_consen 206 LVEKIRRIIESVPGVI-EVHDLRVWQVGRNKYVVEIHVQVDPDM-SVEEAHE----IRERIEKRLREK 267 (284)
T ss_dssp HHHHHHHHHHHTSS-S-EEEEEEEEEETT-EEEEEEEEEETTTS-BHHHHHH----HHHHHHHHHHHH
T ss_pred chhHHHHhhccCCceE-eccceEEEEecCCcEEEEEEEEeCCCC-CHHHHHH----HHHHHHHHHHHh
Confidence 3456666666666664 334677778887677777777653322 2333334 445555555444
No 51
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=50.20 E-value=30 Score=29.49 Aligned_cols=32 Identities=16% Similarity=0.033 Sum_probs=26.4
Q ss_pred CCCCCCcEEEEc---CeeEEEEEEEeEEEEEEEeC
Q 026550 64 HPFDVGDRCVID---GVQMVVEEMHILTTTFLRYD 95 (237)
Q Consensus 64 ~pf~vGD~I~i~---~~~G~V~~I~l~~T~i~~~~ 95 (237)
.+.-|||||.+. +..|.|++|-=|.+.+...+
T Consensus 33 ~~~~vGD~V~~~~~~~~~~~i~~i~~R~~~l~R~~ 67 (287)
T cd01854 33 IKPVVGDWVEVEPDDDGEGVIVRVLPRKNLLSRPA 67 (287)
T ss_pred CCccCCCEEEEEecCCCcEEEEEEECCCceEEccC
Confidence 468899999884 35699999999999987755
No 52
>TIGR00849 gutA PTS system, glucitol/sorbitol-specific IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. This family consists only of glucitol-specific transporters, and occur both in Gram-negative and Gram-positive bacteria.The system in E.Coli consists of a IIA protein, and a IIBC protein. This family is specific for the IIA component.
Probab=48.89 E-value=25 Score=26.10 Aligned_cols=24 Identities=17% Similarity=0.239 Sum_probs=20.9
Q ss_pred eCCCCCCcEEEEcCeeEEEEEEEe
Q 026550 63 THPFDVGDRCVIDGVQMVVEEMHI 86 (237)
Q Consensus 63 ~~pf~vGD~I~i~~~~G~V~~I~l 86 (237)
...+++||.+.+|+...+|..+|=
T Consensus 49 ~~~i~~Gd~l~i~~~~Y~ItaVG~ 72 (121)
T TIGR00849 49 KGTLKPGQVFMIGGIAYPVTAVGD 72 (121)
T ss_pred cCCcCCCCEEEECCEEEEEEEEhH
Confidence 457899999999999999998763
No 53
>cd03451 FkbR2 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. The function of FkbR2 is unknown.
Probab=48.66 E-value=62 Score=24.03 Aligned_cols=18 Identities=17% Similarity=0.115 Sum_probs=15.2
Q ss_pred heeeeCCCCCCcEEEEcC
Q 026550 59 FLFVTHPFDVGDRCVIDG 76 (237)
Q Consensus 59 ~i~~~~pf~vGD~I~i~~ 76 (237)
-+-+.+|..+||.+.+..
T Consensus 85 ~~~f~~pv~~GDtl~~~~ 102 (146)
T cd03451 85 EVRFPAPVFHGDTLYAES 102 (146)
T ss_pred EEEecCCCCCCCEEEEEE
Confidence 467889999999998755
No 54
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated
Probab=47.66 E-value=22 Score=26.38 Aligned_cols=22 Identities=27% Similarity=0.453 Sum_probs=18.0
Q ss_pred CCCCCcEEEE-----cCeeEEEEEEEe
Q 026550 65 PFDVGDRCVI-----DGVQMVVEEMHI 86 (237)
Q Consensus 65 pf~vGD~I~i-----~~~~G~V~~I~l 86 (237)
+++.||.|+| -|..|+|.++.-
T Consensus 45 ~IkkGD~V~VisG~~KGk~GkV~~V~~ 71 (120)
T PRK01191 45 PVRKGDTVKVMRGDFKGEEGKVVEVDL 71 (120)
T ss_pred eEeCCCEEEEeecCCCCceEEEEEEEc
Confidence 7899999998 347799998753
No 55
>PF02470 MCE: mce related protein; InterPro: IPR003399 This domain is found in all 24 mce genes associated with the four mammalian cell entry (mce) operons of Mycobacterium tuberculosis and their homologs in other Actinomycetales [, ]. The archetype (mce1A, Rv0169), was isolated as being necessary for colonisation of, and survival within, the macrophage []. The domain is also found in: Chloroplast Ycf22 and related cyanobacterial homologs, the majority of which have an N-terminal transmembrane domain and are putative ABC transporters. Proteobacterial homologs, which include YrbD, YebT, VpsC and Ttg2C, the latter being annotated as a toluene tolerance proteins, belong to the periplasmic substrate-binding ABC transporter superfamily.
Probab=47.46 E-value=59 Score=21.65 Aligned_cols=22 Identities=23% Similarity=0.353 Sum_probs=19.0
Q ss_pred CCCCCcEEEEcCee-EEEEEEEe
Q 026550 65 PFDVGDRCVIDGVQ-MVVEEMHI 86 (237)
Q Consensus 65 pf~vGD~I~i~~~~-G~V~~I~l 86 (237)
-..+|.-|.+.|+. |+|.+|.+
T Consensus 14 GL~~gs~V~~~Gv~VG~V~~i~l 36 (81)
T PF02470_consen 14 GLSVGSPVRYRGVEVGKVTSIEL 36 (81)
T ss_pred CCCCcCEEEECCEEEEEEEEEEE
Confidence 37899999999966 99999976
No 56
>COG2139 RPL21A Ribosomal protein L21E [Translation, ribosomal structure and biogenesis]
Probab=47.06 E-value=32 Score=24.34 Aligned_cols=36 Identities=25% Similarity=0.316 Sum_probs=27.5
Q ss_pred eCCCCCCcEEEE---------------cCeeEEEEEEEeEEEEEEEeCCcE
Q 026550 63 THPFDVGDRCVI---------------DGVQMVVEEMHILTTTFLRYDNEK 98 (237)
Q Consensus 63 ~~pf~vGD~I~i---------------~~~~G~V~~I~l~~T~i~~~~g~~ 98 (237)
-+-|++||.|.| .|..|+|+...=++-.+.-.+|..
T Consensus 30 l~ey~~Gd~V~I~IdpSv~kGmPh~rf~G~TG~Vvg~~g~ay~V~v~~G~k 80 (98)
T COG2139 30 LQEYKVGDKVHIDIDPSVHKGMPHPRFQGKTGTVVGVRGRAYKVEVYDGNK 80 (98)
T ss_pred HhhccCCCEEEEEeCcccccCCCCccccCcceEEEeccCCEEEEEEecCCc
Confidence 356999999976 246699999988888777767654
No 57
>PRK11507 ribosome-associated protein; Provisional
Probab=46.89 E-value=26 Score=23.37 Aligned_cols=20 Identities=15% Similarity=0.160 Sum_probs=16.2
Q ss_pred eCCCCCCcEEEEcCeeEEEE
Q 026550 63 THPFDVGDRCVIDGVQMVVE 82 (237)
Q Consensus 63 ~~pf~vGD~I~i~~~~G~V~ 82 (237)
.|..+.||.|+++|..-.|.
T Consensus 50 gkKl~~GD~V~~~g~~~~v~ 69 (70)
T PRK11507 50 RCKIVAGQTVSFAGHSVQVV 69 (70)
T ss_pred CCCCCCCCEEEECCEEEEEe
Confidence 46789999999999776664
No 58
>PRK01202 glycine cleavage system protein H; Provisional
Probab=46.69 E-value=46 Score=24.78 Aligned_cols=64 Identities=22% Similarity=0.308 Sum_probs=43.9
Q ss_pred hhHHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEEEecccccCC-cEEE
Q 026550 46 FGNTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLATK-PISN 113 (237)
Q Consensus 46 ~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~-~i~N 113 (237)
+.+..++.+ | =..+++=| ++||.|+-|+..|.|+.....++..--.+|+++-+ |..+.++ ...|
T Consensus 28 it~~a~~~l-G-~i~~v~lp-~~G~~v~~g~~~~~IEs~K~~~~i~sPvsG~Vv~v-N~~l~~~p~~ln 92 (127)
T PRK01202 28 ITDHAQEQL-G-DIVFVELP-EVGDEVKAGETFGVVESVKAASDIYAPVSGEVVEV-NEALEDSPELVN 92 (127)
T ss_pred eCHHHHhhc-C-CeeEEEcC-CCCCEecCCCEEEEEEEcceeeeeecCCCeEEEEE-hHHhhhCcHhhc
Confidence 344555544 3 22454545 89999999999999999998777666688888877 5555543 3334
No 59
>PLN03094 Substrate binding subunit of ER-derived-lipid transporter; Provisional
Probab=46.52 E-value=1.5e+02 Score=26.45 Aligned_cols=24 Identities=25% Similarity=0.133 Sum_probs=20.8
Q ss_pred CCCCCcEEEEcCee-EEEEEEEeEE
Q 026550 65 PFDVGDRCVIDGVQ-MVVEEMHILT 88 (237)
Q Consensus 65 pf~vGD~I~i~~~~-G~V~~I~l~~ 88 (237)
=+++|+-|++.|+. |+|++|.+-.
T Consensus 129 GL~~Gs~Vr~~GV~VG~V~~I~l~~ 153 (370)
T PLN03094 129 GICVGTPVRIRGVTVGNVVRVRPSL 153 (370)
T ss_pred CCCCCCceEEcCEEeeEEEEEEecC
Confidence 38999999999966 9999998754
No 60
>TIGR00922 nusG transcription termination/antitermination factor NusG. Archaeal proteins once termed NusG share the KOW domain but are actually a ribosomal protein corresponding to L24p in bacterial and L26e in eukaryotes (TIGR00405).
Probab=46.35 E-value=70 Score=24.82 Aligned_cols=41 Identities=20% Similarity=0.203 Sum_probs=28.4
Q ss_pred CCCCCCcEEEE-c----CeeEEEEEEE---eEEEEEEEeCCcE--EEEecc
Q 026550 64 HPFDVGDRCVI-D----GVQMVVEEMH---ILTTTFLRYDNEK--IFYPNS 104 (237)
Q Consensus 64 ~pf~vGD~I~i-~----~~~G~V~~I~---l~~T~i~~~~g~~--v~IPNs 104 (237)
.+|++||.|+| + |..|.|.+++ =|.+...+.-|+. +.++..
T Consensus 118 ~~~~~G~~V~I~~Gpf~G~~g~v~~~~~~~~r~~V~v~~~g~~~~v~v~~~ 168 (172)
T TIGR00922 118 IDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVSVSIFGRETPVELEFS 168 (172)
T ss_pred cCCCCCCEEEEeecCCCCcEEEEEEEcCCCCEEEEEEEECCCceEEEEcHH
Confidence 45899999999 4 4789999986 3556666666654 444433
No 61
>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic. This model represents the archaeal and eukaryotic branch of the ribosomal protein L24p/L26e family. Bacterial and organellar forms are represented by the related TIGR01079.
Probab=46.24 E-value=37 Score=24.92 Aligned_cols=21 Identities=29% Similarity=0.479 Sum_probs=18.2
Q ss_pred CCCCCcEEEE-----cCeeEEEEEEE
Q 026550 65 PFDVGDRCVI-----DGVQMVVEEMH 85 (237)
Q Consensus 65 pf~vGD~I~i-----~~~~G~V~~I~ 85 (237)
+++.||.|.| .|..|+|.++.
T Consensus 41 ~IkkGD~V~Vi~Gk~KGk~GkV~~V~ 66 (114)
T TIGR01080 41 PVRKGDKVRIMRGDFKGHEGKVSKVD 66 (114)
T ss_pred eeecCCEEEEecCCCCCCEEEEEEEE
Confidence 7899999998 45889999986
No 62
>cd03703 aeIF5B_II aeIF5B_II: This family represents the domain II of archeal and eukaryotic aeIF5B. aeIF5B is a homologue of prokaryotic Initiation Factor 2 (IF2). Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of joining of 60S subunits. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains of EF1A, eEF1A and aeIF2gamma.
Probab=46.00 E-value=18 Score=26.34 Aligned_cols=21 Identities=19% Similarity=0.338 Sum_probs=18.3
Q ss_pred heeeeCCCCCCcEEEEcCeeE
Q 026550 59 FLFVTHPFDVGDRCVIDGVQM 79 (237)
Q Consensus 59 ~i~~~~pf~vGD~I~i~~~~G 79 (237)
.|+.+.-.++||.|-+++..|
T Consensus 20 vIl~~GtL~~GD~Iv~g~~~G 40 (110)
T cd03703 20 VILYDGTLREGDTIVVCGLNG 40 (110)
T ss_pred EEEECCeEecCCEEEEccCCC
Confidence 367788999999999999887
No 63
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=45.81 E-value=75 Score=19.96 Aligned_cols=47 Identities=9% Similarity=0.062 Sum_probs=33.3
Q ss_pred EEEEEecCCCHHHHHHHHHHHHHHHhhCCCCCCCCcEEEEEeeeCce
Q 026550 125 VEFAIDVFTPIEKISYLKSTIKNYLESKPRHWSPTHSVVVKHIKDEK 171 (237)
Q Consensus 125 ~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~~~~~~v~~~~~~~~~ 171 (237)
+.+.+..+-+.++.+++.+.+.+++.+.-+.......|.+.++..++
T Consensus 4 i~i~~~~Grs~EqK~~L~~~it~a~~~~~~~p~~~v~V~i~ev~~~~ 50 (60)
T PRK02289 4 VRIDLFEGRSQEQKNALAREVTEVVSRIAKAPKEAIHVFINDMPEGT 50 (60)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHHhCcCcceEEEEEEEeChhh
Confidence 34555556677777888888888888876665555677788887643
No 64
>PF08566 Pam17: Mitochondrial import protein Pam17; InterPro: IPR013875 The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase []. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins [].
Probab=45.12 E-value=84 Score=24.86 Aligned_cols=32 Identities=22% Similarity=0.106 Sum_probs=26.0
Q ss_pred HHccchhhHHHHHHHHHHHHHHHhhHHHHHHH
Q 026550 23 IVGLLTTKALLLILSQVVLAVFLFGNTAKNVF 54 (237)
Q Consensus 23 ~~g~~~~~ll~~~g~~~~~igla~q~~~~n~~ 54 (237)
++|+|+--++++.++.+.++|+.....+.|.+
T Consensus 71 I~GlDP~~~~g~~t~a~g~lG~L~GP~~G~~v 102 (173)
T PF08566_consen 71 IMGLDPFMVYGLATLACGALGWLVGPSLGNQV 102 (173)
T ss_pred ccCcCHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence 34777777778888888999999999999844
No 65
>TIGR01956 NusG_myco NusG family protein. This model represents a family of Mycoplasma proteins orthologous to the bacterial transcription termination/antitermination factor NusG. These sequences from Mycoplasma are notably diverged (long branches in a Neighbor-joining phylogenetic tree) from the bacterial species. And although NusA and ribosomal protein S10 (NusE) appear to be present, NusB may be absent in Mycoplasmas calling into question whether these species have a functional Nus system including this family as a member.
Probab=44.91 E-value=74 Score=26.89 Aligned_cols=34 Identities=18% Similarity=0.245 Sum_probs=24.3
Q ss_pred CCCCCcEEEE-c----CeeEEEEEEEe---EEEEEEEeCCcE
Q 026550 65 PFDVGDRCVI-D----GVQMVVEEMHI---LTTTFLRYDNEK 98 (237)
Q Consensus 65 pf~vGD~I~i-~----~~~G~V~~I~l---~~T~i~~~~g~~ 98 (237)
+|++||.|+| + |..|.|.++.- |.+...+.-|+.
T Consensus 205 ~f~vGd~VrI~dGPF~GfeG~I~eid~~k~Rv~VlV~IfGR~ 246 (258)
T TIGR01956 205 KFRVGNFVKIVDGPFKGIVGKIKKIDQEKKKAIVEVEILGKS 246 (258)
T ss_pred CCCCCCEEEEEecCCCCcEEEEEEEeCCCCEEEEEEEecCCc
Confidence 4999999998 3 48899999975 444444555544
No 66
>TIGR00038 efp translation elongation factor P. function: involved in peptide bond synthesis. stimulate efficient translation and peptide-bond synthesis on native or reconstituted 70S ribosomes in vitro. probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase (by similarity). The trusted cutoff of this model is set high enough to exclude members of TIGR02178, an EFP-like protein of certain Gammaproteobacteria.
Probab=44.90 E-value=64 Score=25.70 Aligned_cols=32 Identities=19% Similarity=0.120 Sum_probs=25.5
Q ss_pred CCCCCCcEEEEcCeeEEEEEEEe----E-----EEEEEEeC
Q 026550 64 HPFDVGDRCVIDGVQMVVEEMHI----L-----TTTFLRYD 95 (237)
Q Consensus 64 ~pf~vGD~I~i~~~~G~V~~I~l----~-----~T~i~~~~ 95 (237)
.-++.||.|..+|..+.|.++.. + .+++++..
T Consensus 4 ~~ik~G~~I~~~g~~~~V~~~~~~kpGkg~A~~rvk~knL~ 44 (184)
T TIGR00038 4 NDLRKGLVIELDGEPYVVLEFEHVKPGKGQAFVRVKLKNLL 44 (184)
T ss_pred hhccCCCEEEECCEEEEEEEEEEeeCCCCceEEEEEEEECC
Confidence 45899999999999999999865 3 56666643
No 67
>cd03449 R_hydratase (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase II, and beta-hydroxydecanoyl-ACP dehydratase, MaoC dehydratase, Hydratase-Dehydrogenase-Epimerase protein (HDE), and the fatty acid synthase beta subunit. The active site lies within a substrate-binding tunnel formed by the (R)-hydratase homodimer. A subset of the bacterial (R)-hydratases contain a C-terminal phosphotransacetylase (PTA) domain.
Probab=44.79 E-value=99 Score=22.07 Aligned_cols=43 Identities=19% Similarity=0.113 Sum_probs=25.6
Q ss_pred hheeeeCCCCCCcEEEEcCeeEEEEE---EEeEEEEEEEeCCcEEE
Q 026550 58 IFLFVTHPFDVGDRCVIDGVQMVVEE---MHILTTTFLRYDNEKIF 100 (237)
Q Consensus 58 i~i~~~~pf~vGD~I~i~~~~G~V~~---I~l~~T~i~~~~g~~v~ 100 (237)
.=+-+.+|...||.+.+....-.+.+ +-.....+.+.+|+.+.
T Consensus 75 ~~~~f~~Pv~~gd~l~~~~~v~~~~~~~~~v~~~~~~~~~~g~~v~ 120 (128)
T cd03449 75 QSLRFLRPVFIGDTVTATVTVTEKREDKKRVTLETVCTNQNGEVVI 120 (128)
T ss_pred EEEEECCCccCCCEEEEEEEEEEEecCCCEEEEEEEEEeCCCCEEE
Confidence 45678899999999988663322222 22233444555666554
No 68
>PF11356 Pilus_PilP: Type IV pilus biogenesis; InterPro: IPR022753 Type IV pili are required for auto-agglutination, twitching motility, biofilm formation, adherence and DNA uptake during transformation []. PilP is an inner membrane protein, required for pilus expression and transformation []. PilP interacts with PilQ which suggests that the two proteins may have coordinated activity in functions such as pilus extrusion/retraction []. ; PDB: 3OSS_C 2LNV_A.
Probab=44.79 E-value=30 Score=23.52 Aligned_cols=35 Identities=14% Similarity=0.226 Sum_probs=25.5
Q ss_pred eCCCCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEE
Q 026550 63 THPFDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIF 100 (237)
Q Consensus 63 ~~pf~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~ 100 (237)
.+.+++||.| +|.-++|.+|...+..+ +.+|+...
T Consensus 52 ~~~~~~Gd~i--~~~g~~v~~I~~d~Vvl-~~~G~~~~ 86 (87)
T PF11356_consen 52 QRTYRVGDTI--PGSGWTVKSISPDRVVL-ERNGRRET 86 (87)
T ss_dssp EEEE-TTEE---SSSSEEEEEEETTEEEE-EETTEEEE
T ss_pred EEEEECcCEe--CCCCEEEEEEeCCEEEE-eeCCEEEE
Confidence 3468899984 44478999999999999 55887654
No 69
>PRK00624 glycine cleavage system protein H; Provisional
Probab=44.56 E-value=50 Score=24.18 Aligned_cols=68 Identities=19% Similarity=0.198 Sum_probs=46.7
Q ss_pred hhHHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEEEecccccCCc-EEEEEcC
Q 026550 46 FGNTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKP-ISNFYRS 117 (237)
Q Consensus 46 ~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~-i~N~s~~ 117 (237)
+.+.+++.+ |=+ .+++=| ++||+|+-|+..|.|+.........--.+|+++-+ |..+..++ ..|-+..
T Consensus 23 iT~~a~~~l-G~i-~~v~lp-~~G~~V~~g~~i~~IEs~K~~~~i~sPvsG~Vv~v-N~~l~~~P~lln~dpy 91 (114)
T PRK00624 23 LTSKMQENL-GNI-LHIDLP-SVGSFCKEGEVLVILESSKSAIEVLSPVSGEVIEV-NTALEDDIQPINNAPE 91 (114)
T ss_pred eCHHHHHhc-CCE-EEEECC-CCCCEEeCCCEEEEEEeccEEEEEeCCCCEEEEEE-HHHhhhChHhhcCCCC
Confidence 345555644 322 344444 99999999999999999999887777788888877 66665533 3354433
No 70
>PRK13691 (3R)-hydroxyacyl-ACP dehydratase subunit HadC; Provisional
Probab=44.41 E-value=82 Score=24.57 Aligned_cols=15 Identities=20% Similarity=0.213 Sum_probs=13.3
Q ss_pred eeCCCCCCcEEEEcC
Q 026550 62 VTHPFDVGDRCVIDG 76 (237)
Q Consensus 62 ~~~pf~vGD~I~i~~ 76 (237)
+.+|..+||.+....
T Consensus 93 f~rPV~~GDtL~~~~ 107 (166)
T PRK13691 93 FHKPVLAGDKLWARM 107 (166)
T ss_pred EeCCcCCCCEEEEEE
Confidence 889999999998755
No 71
>cd06555 ASCH_PF0470_like ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=44.37 E-value=31 Score=25.07 Aligned_cols=13 Identities=23% Similarity=0.629 Sum_probs=11.0
Q ss_pred CCCCCcEEEEcCe
Q 026550 65 PFDVGDRCVIDGV 77 (237)
Q Consensus 65 pf~vGD~I~i~~~ 77 (237)
.|++||.|.+.+.
T Consensus 31 ~ikvGD~I~f~~~ 43 (109)
T cd06555 31 QIKVGDKILFNDL 43 (109)
T ss_pred cCCCCCEEEEEEc
Confidence 4999999999664
No 72
>cd03441 R_hydratase_like (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel beta-sheet wrapped around a central alpha helix, referred to as a hot dog fold. The active site lies within a substrate-binding tunnel formed by the homodimer. Other enzymes with this fold include MaoC dehydratase, Hydratase-Dehydrogenase-Epimerase protein (HDE), and the fatty acid synthase beta subunit.
Probab=44.10 E-value=97 Score=21.98 Aligned_cols=44 Identities=11% Similarity=-0.005 Sum_probs=26.2
Q ss_pred hhhheeeeCCCCCCcEEEEcCeeEEEEE-----EEeEEEEEEEeCCcEE
Q 026550 56 AIIFLFVTHPFDVGDRCVIDGVQMVVEE-----MHILTTTFLRYDNEKI 99 (237)
Q Consensus 56 ~gi~i~~~~pf~vGD~I~i~~~~G~V~~-----I~l~~T~i~~~~g~~v 99 (237)
+..=+-+.+|..+||.+.+....-.+.+ +-...+...+.+|+.+
T Consensus 71 ~~~~~~f~~Pv~~Gd~l~~~~~v~~~~~~~~~~~v~~~~~~~n~~g~~v 119 (127)
T cd03441 71 GSQSVRFLAPVFPGDTLRVEVEVLGKRPSKGRGVVTVRTEARNQGGEVV 119 (127)
T ss_pred EEeEEEEeCCcCCCCEEEEEEEEEEeeccCCCcEEEEEEEEEeCCCCEE
Confidence 3445678999999999998663322221 2334444455555544
No 73
>COG5346 Predicted membrane protein [Function unknown]
Probab=44.02 E-value=69 Score=23.79 Aligned_cols=22 Identities=18% Similarity=0.220 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHc
Q 026550 4 LNKLFTGIVMVLIIIVWLLIVG 25 (237)
Q Consensus 4 l~~i~~~~~~~i~~~~~l~~~g 25 (237)
..++-++++.++++.++.++|-
T Consensus 86 ~~~~tril~liFgi~LVvsi~~ 107 (136)
T COG5346 86 YAKLTRILLLIFGIFLVVSIFP 107 (136)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666666666666666553
No 74
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=44.02 E-value=30 Score=22.54 Aligned_cols=9 Identities=33% Similarity=0.693 Sum_probs=5.8
Q ss_pred CCCCcEEEE
Q 026550 66 FDVGDRCVI 74 (237)
Q Consensus 66 f~vGD~I~i 74 (237)
|+.||.|++
T Consensus 1 F~~G~~VEV 9 (68)
T PF05641_consen 1 FKKGDEVEV 9 (68)
T ss_dssp --TT-EEEE
T ss_pred CCCCCEEEE
Confidence 789999999
No 75
>COG2332 CcmE Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]
Probab=43.98 E-value=90 Score=24.08 Aligned_cols=66 Identities=14% Similarity=0.153 Sum_probs=39.6
Q ss_pred hhHHHHHHHHHHHHHHHhhHHHHHHHHhhhhe---eeeCCCCCCcEEEEcC--eeEEEEE-EEeEEEEEEEeCC
Q 026550 29 TKALLLILSQVVLAVFLFGNTAKNVFEAIIFL---FVTHPFDVGDRCVIDG--VQMVVEE-MHILTTTFLRYDN 96 (237)
Q Consensus 29 ~~ll~~~g~~~~~igla~q~~~~n~~~~gi~i---~~~~pf~vGD~I~i~~--~~G~V~~-I~l~~T~i~~~~g 96 (237)
..+++.+.++++++++.+-..=+| + ..++. +.+..-.-|-+++++| ..|.|++ .+-+.+++.-.|+
T Consensus 10 ~~il~~~a~l~~a~~l~Lyal~~n-i-~~fy~Psel~~~~~~~G~rlR~GGlV~~GSv~R~~~~~~v~F~vtD~ 81 (153)
T COG2332 10 WIILAGLAGLALAVGLVLYALRSN-I-DYFYTPSELLEGKVETGQRLRLGGLVEAGSVQRDPGSLKVSFVVTDG 81 (153)
T ss_pred HHHHHHHHHHHHHHHHHHhhhccC-c-eEEECHHHhccccccCCcEEEEeeeEeeceEEecCCCcEEEEEEecC
Confidence 445566666667777776666666 3 21111 1233344589999999 5588876 6666666655454
No 76
>cd03447 FAS_MaoC FAS_MaoC, the MaoC-like hot dog fold of the fatty acid synthase, beta subunit. Other enzymes with this fold include MaoC dehydratase, Hydratase-Dehydrogenase-Epimerase protein (HDE), and 17-beta-hydroxysteriod dehydrogenase (HSD).
Probab=43.97 E-value=1e+02 Score=22.66 Aligned_cols=17 Identities=6% Similarity=-0.207 Sum_probs=14.2
Q ss_pred heeeeCCCCCCcEEEEc
Q 026550 59 FLFVTHPFDVGDRCVID 75 (237)
Q Consensus 59 ~i~~~~pf~vGD~I~i~ 75 (237)
-+-+.+|..+||.+.+.
T Consensus 74 ~~rf~~PV~~gdtl~~~ 90 (126)
T cd03447 74 TASFVGMVLPNDELEVR 90 (126)
T ss_pred EEEEcccCcCCCEEEEE
Confidence 45688999999999873
No 77
>TIGR01079 rplX_bact ribosomal protein L24, bacterial/organelle. This model recognizes bacterial and organellar forms of ribosomal protein L24. It excludes eukaryotic and archaeal forms, designated L26 in eukaryotes.
Probab=43.95 E-value=32 Score=24.74 Aligned_cols=23 Identities=17% Similarity=0.150 Sum_probs=18.5
Q ss_pred CCCCCcEEEE-----cCeeEEEEEEEeE
Q 026550 65 PFDVGDRCVI-----DGVQMVVEEMHIL 87 (237)
Q Consensus 65 pf~vGD~I~i-----~~~~G~V~~I~l~ 87 (237)
+++.||.|+| -|..|+|.++.-.
T Consensus 3 ~ikkGD~V~Vi~G~dKGK~G~V~~V~~~ 30 (104)
T TIGR01079 3 KIKKGDTVKVISGKDKGKRGKVLKVLPK 30 (104)
T ss_pred cccCCCEEEEeEcCCCCcEEEEEEEEcC
Confidence 6899999998 3477999998543
No 78
>COG2100 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=43.94 E-value=51 Score=29.02 Aligned_cols=35 Identities=20% Similarity=0.251 Sum_probs=24.9
Q ss_pred eeCCCCCCcEEEE----cC-eeEEEEEEEeEEEEEEEeCCcEEEEeccc
Q 026550 62 VTHPFDVGDRCVI----DG-VQMVVEEMHILTTTFLRYDNEKIFYPNSV 105 (237)
Q Consensus 62 ~~~pf~vGD~I~i----~~-~~G~V~~I~l~~T~i~~~~g~~v~IPNs~ 105 (237)
+.+||+.||.|+. .| ..|...... -++.+.++|+.
T Consensus 348 lp~PF~rGevv~aevV~~Gr~kGEmlavA---------rdRvIav~~~~ 387 (414)
T COG2100 348 LPKPFKRGEVVKAEVVLPGRLKGEMLAVA---------RDRVIAVINSN 387 (414)
T ss_pred CCCccccCcEEEEEEEecceecceEEEEe---------cccEEEEecCc
Confidence 5789999999976 33 556655432 27778888876
No 79
>PF03147 FDX-ACB: Ferredoxin-fold anticodon binding domain; InterPro: IPR005121 Aminoacyl-tRNA synthetases (aaRSs) play a crucial role in the translation of the genetic code by means of covalent attachment of amino acids to their cognate tRNAs. Phenylalanine-tRNA synthetase (PheRS) is known to be among the most complex enzymes of the aaRS family. Bacterial and mitochondrial PheRSs share a ferredoxin-fold anticodon binding (FDX-ACB) domain, which represents a canonical double split alpha+beta motif having no insertions. The FDX-ACB domain displays a typical RNA recognition fold (RRM) (see PDOC00030 from PROSITEDOC) formed by the four-stranded antiparallel beta sheet, with two helices packed against it [, , , , ].; GO: 0000049 tRNA binding, 0000287 magnesium ion binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation, 0008033 tRNA processing; PDB: 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 3PCO_D 2RHS_D 2RHQ_B 2AKW_B 1B70_B ....
Probab=43.69 E-value=1.1e+02 Score=21.25 Aligned_cols=83 Identities=10% Similarity=0.107 Sum_probs=41.4
Q ss_pred ceeEEEEEEEecCCCHHHHHHHHHHHHHHHhhCCCCCC-CCcEEEEE-eeeC--ceEEEEEEEEEeecccchHHHHHHHH
Q 026550 120 DMRDAVEFAIDVFTPIEKISYLKSTIKNYLESKPRHWS-PTHSVVVK-HIKD--EKMIMGLYITHIIIFENYEEKINRRS 195 (237)
Q Consensus 120 ~~~~~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~~-~~~~v~~~-~~~~--~~v~~~v~~~~~~~~~~~~~~~~~~~ 195 (237)
.....+.|.++.+.+... +.+.+++.... .+.+ .-..++-. ++++ .++.+++.+.. .+-..-.+--+
T Consensus 5 ~~~RDiS~~v~~~~~~~~---i~~~i~~~~~~--~l~~v~l~D~y~~~~l~~g~kS~~~rl~~~~----~~~TLt~~ev~ 75 (94)
T PF03147_consen 5 SVERDISFVVPEDVPFAD---IEEVIRSAGGP--LLESVELFDVYRGEKLPEGKKSLTYRLTYQS----PDRTLTDEEVN 75 (94)
T ss_dssp -EEEEEEEEEETTS-HHH---HHHHHHHHHTT--TEEEEEEEEEEESTTSGTTEEEEEEEEEE------SSS---HHHHH
T ss_pred CccccEEEEECCCCCHHH---HHHHHHHhCcc--ceeEEEEEEEEcCCCCCCCcEEEEEEEEEEC----CCCCCCHHHHH
Confidence 556689999999988777 76777666522 2211 00011111 2222 45666666543 12222334456
Q ss_pred HHHHHHHHHHH-HcCCc
Q 026550 196 ELVLELKRIFE-EAAIR 211 (237)
Q Consensus 196 ~l~~~i~~~l~-~~gI~ 211 (237)
++...+.+++. +.|++
T Consensus 76 ~~~~~i~~~l~~~~~~~ 92 (94)
T PF03147_consen 76 EIHDKIIKALEKKLGAE 92 (94)
T ss_dssp HHHHHHHHHHHHTCT-B
T ss_pred HHHHHHHHHHHHHhCcE
Confidence 67777777774 45765
No 80
>TIGR02286 PaaD phenylacetic acid degradation protein PaaD. Sequences scoring between trusted and noise include those from archaea and other species not known to catabolize phenylacetic acid and which are not adjacent to other genes potentially involved with such a pathway.
Probab=43.64 E-value=85 Score=22.34 Aligned_cols=46 Identities=13% Similarity=0.122 Sum_probs=29.5
Q ss_pred hhhheeeeCCCCCCcEEEEcCeeEEEE-EEEeEEEEEEEeCCcEEEE
Q 026550 56 AIIFLFVTHPFDVGDRCVIDGVQMVVE-EMHILTTTFLRYDNEKIFY 101 (237)
Q Consensus 56 ~gi~i~~~~pf~vGD~I~i~~~~G~V~-~I~l~~T~i~~~~g~~v~I 101 (237)
..+-+.+-||.+.||++.+.+..-..- ........+.+.+|+.+-.
T Consensus 60 ~~~~i~f~rp~~~G~~l~~~a~v~~~g~~~~~~~~~i~~~~~~~va~ 106 (114)
T TIGR02286 60 AQCTIDFLRPGRAGERLEAEAVEVSRGGRTGTYDVEVVNQEGELVAL 106 (114)
T ss_pred EEEEEEEecCCCCCCEEEEEEEEEEeCCcEEEEEEEEEcCCCCEEEE
Confidence 344678899999999998865332221 2445666667666766543
No 81
>COG4043 Preprotein translocase subunit Sec61beta [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.47 E-value=48 Score=23.72 Aligned_cols=25 Identities=20% Similarity=0.458 Sum_probs=17.5
Q ss_pred eCCCCCCcEEEEcCeeEEEEEEEeE
Q 026550 63 THPFDVGDRCVIDGVQMVVEEMHIL 87 (237)
Q Consensus 63 ~~pf~vGD~I~i~~~~G~V~~I~l~ 87 (237)
.|..++||.|.++|..-.|+=+.+|
T Consensus 31 rr~ik~GD~IiF~~~~l~v~V~~vr 55 (111)
T COG4043 31 RRQIKPGDKIIFNGDKLKVEVIDVR 55 (111)
T ss_pred hcCCCCCCEEEEcCCeeEEEEEEEe
Confidence 3678999999999855555444444
No 82
>cd04486 YhcR_OBF_like YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate nucleosides. YhcR appears to be the major Ca2+ activated nuclease of B. subtilis. YhcR may be localized in the cell wall.
Probab=43.30 E-value=26 Score=23.69 Aligned_cols=25 Identities=28% Similarity=0.369 Sum_probs=17.0
Q ss_pred hhhheeee--CCCCCCcEEEEcCeeEEEEE
Q 026550 56 AIIFLFVT--HPFDVGDRCVIDGVQMVVEE 83 (237)
Q Consensus 56 ~gi~i~~~--~pf~vGD~I~i~~~~G~V~~ 83 (237)
.|+|+... ...++||+|++. |+|.|
T Consensus 33 ~gifV~~~~~~~~~~Gd~V~vt---G~v~e 59 (78)
T cd04486 33 EGIFVYTGSGADVAVGDLVRVT---GTVTE 59 (78)
T ss_pred ceEEEecCCCCCCCCCCEEEEE---EEEEe
Confidence 35655543 348899999996 56665
No 83
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=43.28 E-value=14 Score=33.04 Aligned_cols=50 Identities=18% Similarity=0.147 Sum_probs=33.6
Q ss_pred eCCCCCCcEEEEcCeeEEEEEEEeEEEEEEEeC---CcEEEEecccccCCcEE
Q 026550 63 THPFDVGDRCVIDGVQMVVEEMHILTTTFLRYD---NEKIFYPNSVLATKPIS 112 (237)
Q Consensus 63 ~~pf~vGD~I~i~~~~G~V~~I~l~~T~i~~~~---g~~v~IPNs~l~~~~i~ 112 (237)
..-.++||.|.|+...|.|..+|=-.+.-+++| -+.|-+|.+.+.+.+=.
T Consensus 168 kekV~~GDVI~Id~~tG~V~k~Grs~~~~~~~D~~~~~~V~~P~Gev~K~KEi 220 (398)
T PF06068_consen 168 KEKVRVGDVIYIDKNTGRVKKVGRSDSYAKDYDLEATKFVPCPKGEVHKRKEI 220 (398)
T ss_dssp HTT--TTCEEEEETTTTEEEEEEEECCCS-TTSECCTTEE---SS-SEEEEEE
T ss_pred HhCCccCcEEEEECCCCeEEEEecccchhhccccccceEeeCCCCcceEEEEE
Confidence 456899999999999999999987766666554 57788999998875433
No 84
>TIGR03077 not_gcvH glycine cleavage protein H-like protein, Chlamydial. The H protein (GcvH) of the glycine cleavage system shuttles the methylamine group of glycine from the P protein to the T protein. Most Chlamydia but lack the P and T proteins, and have a single homolog of GcvH that appears deeply split from canonical GcvH in molecular phylogenetic trees. The protein family modeled here is observed the Chlamydial GcvH homolog, so far always seen as part of a two-gene operon, downstream of a member of the uncharacterized protein family TIGR03076. The function of this protein is unknown.
Probab=42.92 E-value=54 Score=23.82 Aligned_cols=68 Identities=19% Similarity=0.223 Sum_probs=46.1
Q ss_pred hhHHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEEEecccccCC-cEEEEEcC
Q 026550 46 FGNTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLATK-PISNFYRS 117 (237)
Q Consensus 46 ~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~-~i~N~s~~ 117 (237)
+.+.+++.+ |=+ .+++=| ++||+|+-|+..|.|+.....+...--.+|+++-+ |..+..+ ...|-+..
T Consensus 21 iT~~aq~~l-G~i-~~v~lp-~~G~~V~~g~~i~~IEs~K~~~ei~sP~sG~Vv~v-N~~l~~~P~lln~~py 89 (110)
T TIGR03077 21 LTSRMQENL-GNI-LHIDLP-SVGSSCKEGEVLVILESSKSAIEVLSPVSGEVIEV-NIALEDDTQPINHSPE 89 (110)
T ss_pred eCHHHHHhc-CCE-EEEECC-CCCCEEcCCCEEEEEEeccEEEEEeCCCCEEEEEE-HHHhhhChHhhcCCCC
Confidence 345555544 322 344444 88999999999999999998777777788888777 5555543 34454443
No 85
>cd05692 S1_RPS1_repeat_hs4 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 4 (hs4) of the H. sapiens RPS1 homolog. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=42.60 E-value=82 Score=19.54 Aligned_cols=37 Identities=14% Similarity=0.004 Sum_probs=27.4
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcEEE
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPISN 113 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N 113 (237)
+.|+|.++.=....+.-.++..-.+|.+.+....+.|
T Consensus 4 ~~g~V~~i~~~g~~v~i~~~~~g~l~~~~l~~~~~~~ 40 (69)
T cd05692 4 VEGTVTRLKPFGAFVELGGGISGLVHISQIAHKRVKD 40 (69)
T ss_pred EEEEEEEEEeeeEEEEECCCCEEEEEhHHcCCcccCC
Confidence 4688888886666666666888899999887665543
No 86
>PRK00529 elongation factor P; Validated
Probab=42.14 E-value=74 Score=25.37 Aligned_cols=23 Identities=30% Similarity=0.270 Sum_probs=20.7
Q ss_pred CCCCCCcEEEEcCeeEEEEEEEe
Q 026550 64 HPFDVGDRCVIDGVQMVVEEMHI 86 (237)
Q Consensus 64 ~pf~vGD~I~i~~~~G~V~~I~l 86 (237)
.-+|.||.|.++|..+.|.++..
T Consensus 5 ~~ik~G~~I~~~g~~~~V~~~~~ 27 (186)
T PRK00529 5 NDLRKGLVIEIDGEPYVVLEFEH 27 (186)
T ss_pred hhcCCCCEEEECCEEEEEEEEEE
Confidence 46899999999999999999875
No 87
>PTZ00328 eukaryotic initiation factor 5a; Provisional
Probab=41.82 E-value=30 Score=27.12 Aligned_cols=25 Identities=16% Similarity=0.271 Sum_probs=21.8
Q ss_pred eCCCCCCcEEEEcCeeEEEEEEEeE
Q 026550 63 THPFDVGDRCVIDGVQMVVEEMHIL 87 (237)
Q Consensus 63 ~~pf~vGD~I~i~~~~G~V~~I~l~ 87 (237)
-+.+|.|++|.++|..++|.+|+.-
T Consensus 25 ~~~LkkG~yvvIkGrPCKIveistS 49 (166)
T PTZ00328 25 AGALKKGGYVCINGRPCKVIDLSVS 49 (166)
T ss_pred ccceeECCEEEECCeeeEEEEEecC
Confidence 4568999999999999999999654
No 88
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=41.53 E-value=30 Score=22.63 Aligned_cols=20 Identities=30% Similarity=0.345 Sum_probs=13.0
Q ss_pred eCCCCCCcEEEEcCeeEEEE
Q 026550 63 THPFDVGDRCVIDGVQMVVE 82 (237)
Q Consensus 63 ~~pf~vGD~I~i~~~~G~V~ 82 (237)
.+..+.||.|++++..-+|+
T Consensus 46 g~Kl~~GD~V~~~~~~~~Vv 65 (65)
T PF13275_consen 46 GKKLRPGDVVEIDGEEYRVV 65 (65)
T ss_dssp S----SSEEEEETTEEEEEE
T ss_pred CCcCCCCCEEEECCEEEEEC
Confidence 46789999999998776663
No 89
>PF01302 CAP_GLY: CAP-Gly domain; InterPro: IPR000938 Cytoskeleton-associated proteins (CAP) are made of three distinct parts, an N-terminal section that is most probably globular and contains the CAP-Gly domain, a large central region predicted to be in an alpha-helical coiled-coil conformation and, finally, a short C-terminal globular domain. The CAP-Gly domain is a conserved, glycine-rich domain of about 42 residues found in some CAPs []. Proteins known to contain this domain include restin (also known as cytoplasmic linker protein-170 or CLIP-170), a 160 kDa protein associated with intermediate filaments and that links endocytic vesicles to microtubules; vertebrate dynactin (150 kDa dynein-associated polypeptide; DAP) and Drosophila glued, a major component of activator I; yeast protein BIK1, which seems to be required for the formation or stabilisation of microtubules during mitosis and for spindle pole body fusion during conjugation; yeast protein NIP100 (NIP80); human protein CKAP1/TFCB; Schizosaccharomyces pombe protein alp11 and Caenorhabditis elegans hypothetical protein F53F4.3. The latter proteins contain a N-terminal ubiquitin domain and a C-terminal CAP-Gly domain. The crystal structure of the CAP-Gly domain of C. elegans F53F4.3 protein, solved by single wavelength sulphur-anomalous phasing, revealed a novel protein fold containing three beta-sheets. The most conserved sequence, GKNDG, is located in two consecutive sharp turns on the surface, forming the entrance to a groove. Residues in the groove are highly conserved as measured from the information content of the aligned sequences. The C-terminal tail of another molecule in the crystal is bound in this groove []. ; PDB: 2CP6_A 2E4H_A 2E3H_A 3E2U_B 2HL3_B 3TQ7_Q 2HKQ_B 2HQH_A 2HKN_B 2HL5_C ....
Probab=41.38 E-value=47 Score=21.82 Aligned_cols=20 Identities=30% Similarity=0.411 Sum_probs=16.1
Q ss_pred CCcEEEE---cCeeEEEEEEEeE
Q 026550 68 VGDRCVI---DGVQMVVEEMHIL 87 (237)
Q Consensus 68 vGD~I~i---~~~~G~V~~I~l~ 87 (237)
|||+|++ +...|+|.-|+-.
T Consensus 1 VG~rV~v~~~~~~~G~vryiG~~ 23 (69)
T PF01302_consen 1 VGDRVRVDDPGGRRGTVRYIGPV 23 (69)
T ss_dssp TTSEEEESSTTTEEEEEEEEEE-
T ss_pred CCCEEEEeeCCCCEEEEEEEeeC
Confidence 7999999 6688999988743
No 90
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=40.22 E-value=45 Score=24.77 Aligned_cols=44 Identities=18% Similarity=0.181 Sum_probs=29.2
Q ss_pred eCCCCCCcEEEEc----C---eeEEEEE------EEeEEEEEEEeCCcEEEEecccc
Q 026550 63 THPFDVGDRCVID----G---VQMVVEE------MHILTTTFLRYDNEKIFYPNSVL 106 (237)
Q Consensus 63 ~~pf~vGD~I~i~----~---~~G~V~~------I~l~~T~i~~~~g~~v~IPNs~l 106 (237)
.+|.++||.|-.- + ..|+|.. -.-...+++-+||+...+|-+.+
T Consensus 53 ~~~L~~GD~VLA~~~~~~~~Y~Pg~V~~~~~~~~~~~~~~~V~f~ng~~~~vp~~~~ 109 (124)
T PF15057_consen 53 RHSLQVGDKVLAPWEPDDCRYGPGTVIAGPERRASEDKEYTVRFYNGKTAKVPRGEV 109 (124)
T ss_pred cCcCCCCCEEEEecCcCCCEEeCEEEEECccccccCCceEEEEEECCCCCccchhhE
Confidence 8899999999772 2 4599984 34444556666776665554443
No 91
>cd03446 MaoC_like MoaC_like Similar to the MaoC (monoamine oxidase C) dehydratase regulatory protein but without the N-terminal PutA domain. This protein family has a hot-dog fold similar to that of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit.
Probab=40.04 E-value=1.1e+02 Score=22.49 Aligned_cols=20 Identities=20% Similarity=0.185 Sum_probs=16.1
Q ss_pred heeeeCCCCCCcEEEEcCee
Q 026550 59 FLFVTHPFDVGDRCVIDGVQ 78 (237)
Q Consensus 59 ~i~~~~pf~vGD~I~i~~~~ 78 (237)
-+-+.+|..+||.+.+....
T Consensus 84 ~~~f~~pv~~GD~l~~~~~v 103 (140)
T cd03446 84 NLRFLNPVFIGDTIRAEAEV 103 (140)
T ss_pred eEEEcCCCCCCCEEEEEEEE
Confidence 45689999999999886643
No 92
>PF08207 EFP_N: Elongation factor P (EF-P) KOW-like domain; InterPro: IPR013185 This entry represents the N-terminal domain of homologues of elongation factor P, which probably are translation initiation factors. ; PDB: 3TRE_A 1YBY_A 1IZ6_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H 3OYY_B.
Probab=39.92 E-value=59 Score=20.50 Aligned_cols=22 Identities=27% Similarity=0.277 Sum_probs=17.8
Q ss_pred CCCCCcEEEEcCeeEEEEEEEe
Q 026550 65 PFDVGDRCVIDGVQMVVEEMHI 86 (237)
Q Consensus 65 pf~vGD~I~i~~~~G~V~~I~l 86 (237)
-++.|..|+++|....|.++..
T Consensus 4 dlr~G~~i~~~g~~~~V~~~~~ 25 (58)
T PF08207_consen 4 DLRKGMVIEIDGEPYVVLDFQH 25 (58)
T ss_dssp G--TTSEEEETTEEEEEEEEEE
T ss_pred HccCCCEEEECCEEEEEEEEEE
Confidence 4789999999999999999843
No 93
>PRK03955 hypothetical protein; Reviewed
Probab=39.92 E-value=22 Score=26.80 Aligned_cols=20 Identities=40% Similarity=0.506 Sum_probs=17.4
Q ss_pred CCCCCCcEEEEcCeeEEEEE
Q 026550 64 HPFDVGDRCVIDGVQMVVEE 83 (237)
Q Consensus 64 ~pf~vGD~I~i~~~~G~V~~ 83 (237)
.-++-||+|++|+..|+|+-
T Consensus 109 ~~l~~G~~V~Vdg~~G~V~i 128 (131)
T PRK03955 109 SKLKDGDRVVVDGDEGEVEI 128 (131)
T ss_pred eecCCCCEEEEeCCCCEEEE
Confidence 35889999999999999874
No 94
>PF01941 AdoMet_Synthase: S-adenosylmethionine synthetase (AdoMet synthetase); InterPro: IPR002795 A highly diverged class of S-adenosylmethionine synthetases have been identified in the archaea. S-adenosylmethionine is the primary alkylating agent in all known organisms. ATP:L-methionine S-adenosyltransferase (MAT) catalyses the only known biosynthetic route to this central metabolite. Although the amino acid sequence of MAT is strongly conserved among bacteria and eukarya (see IPR002133 from INTERPRO) no homologues had been recognised in the completed genome sequences of any archaea. The identification of a second major class of MAT emphasises the long evolutionary history of the archaeal lineage and the structural diversity found even in crucial metabolic enzymes []. Three bacterial genomes encode both the archaeal and eukaryotic/bacterial types of MAT [].; GO: 0004478 methionine adenosyltransferase activity, 0005524 ATP binding, 0006730 one-carbon metabolic process
Probab=39.81 E-value=1.9e+02 Score=26.11 Aligned_cols=84 Identities=14% Similarity=0.220 Sum_probs=58.3
Q ss_pred EEEEEEecCCCHHHHHHHHHHHHHHHhhCCCCC---CCCcEEEEEeeeC-ceEEEEEEEE-EeecccchHHHHHHHHHHH
Q 026550 124 AVEFAIDVFTPIEKISYLKSTIKNYLESKPRHW---SPTHSVVVKHIKD-EKMIMGLYIT-HIIIFENYEEKINRRSELV 198 (237)
Q Consensus 124 ~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~---~~~~~v~~~~~~~-~~v~~~v~~~-~~~~~~~~~~~~~~~~~l~ 198 (237)
...+.+.|. +....+++.-.+++++.+..... .-...+.++++-+ +.+++++-+. +.....+.++|...+.++.
T Consensus 156 DTS~gVGyA-PlS~~E~~Vl~~Er~lns~~fk~~~p~~GeDiKVMG~R~g~~i~LTvA~a~v~r~v~~~~~Y~~~k~~v~ 234 (396)
T PF01941_consen 156 DTSFGVGYA-PLSETEKLVLETERYLNSPEFKKKFPEVGEDIKVMGLREGDKITLTVAMAFVDRYVSSLDEYFERKEEVK 234 (396)
T ss_pred CccceeccC-CccHHHHHHHHHHHHhccccccccCCCcCCCeEEEEEEeCCEEEEEEEhhhhhhhcCCHHHHHHHHHHHH
Confidence 345666664 44555667777777777753221 2234688898886 8899998873 4455577888999999999
Q ss_pred HHHHHHHHHc
Q 026550 199 LELKRIFEEA 208 (237)
Q Consensus 199 ~~i~~~l~~~ 208 (237)
..+.+...+.
T Consensus 235 ~~v~~~a~~~ 244 (396)
T PF01941_consen 235 EEVEDYAAKY 244 (396)
T ss_pred HHHHHHHHHh
Confidence 9988877664
No 95
>cd03453 SAV4209_like SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit.
Probab=39.55 E-value=1.3e+02 Score=21.91 Aligned_cols=17 Identities=29% Similarity=0.376 Sum_probs=14.5
Q ss_pred eeeeCCCCCCcEEEEcC
Q 026550 60 LFVTHPFDVGDRCVIDG 76 (237)
Q Consensus 60 i~~~~pf~vGD~I~i~~ 76 (237)
+-+.+|..+||.+.+..
T Consensus 75 ~rf~~Pv~~Gdtl~~~~ 91 (127)
T cd03453 75 VRFTKPVPVPDTLTCTG 91 (127)
T ss_pred EEECCcCcCCCEEEEEE
Confidence 46789999999998865
No 96
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=39.54 E-value=52 Score=32.49 Aligned_cols=44 Identities=18% Similarity=0.061 Sum_probs=33.2
Q ss_pred CCCCCCcEEEEcC--eeEEEEEEEeEEEEEEEeCCcEEEEeccccc
Q 026550 64 HPFDVGDRCVIDG--VQMVVEEMHILTTTFLRYDNEKIFYPNSVLA 107 (237)
Q Consensus 64 ~pf~vGD~I~i~~--~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~ 107 (237)
++|++||+|.+.+ ..|+|.++.=-.......++-.+.+|=+.+.
T Consensus 635 ~~~~~Gd~V~v~~~~~~g~v~~i~~~~~~~V~~g~~k~~v~~~~l~ 680 (782)
T PRK00409 635 EELKVGDEVKYLSLGQKGEVLSIPDDKEAIVQAGIMKMKVPLSDLE 680 (782)
T ss_pred cCCCCCCEEEEccCCceEEEEEEcCCCeEEEEECCEEEEEeHHHce
Confidence 5699999999955 8899999952123334557888888888884
No 97
>COG1463 Ttg2C ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=39.47 E-value=98 Score=27.35 Aligned_cols=40 Identities=20% Similarity=0.236 Sum_probs=27.3
Q ss_pred CCCCcEEEEcCee-EEEEEEEe----EEEEE-EEeCCcEEEEecccc
Q 026550 66 FDVGDRCVIDGVQ-MVVEEMHI----LTTTF-LRYDNEKIFYPNSVL 106 (237)
Q Consensus 66 f~vGD~I~i~~~~-G~V~~I~l----~~T~i-~~~~g~~v~IPNs~l 106 (237)
.++|+.|++.|+. |+|.+|.+ ...++ .+.|.+. .||...-
T Consensus 53 L~~gs~V~~~GV~VG~V~~I~~~~~~~~~~v~~~id~~~-~Ip~~s~ 98 (359)
T COG1463 53 LYVGSPVRYRGVKVGKVASISLDPKPNGARVTLEIDSDY-PIPADST 98 (359)
T ss_pred CCCCCceEEcCEEeEEEEEEEecCCCCceEEEEEecCCc-ccCCCce
Confidence 6889999999966 99999998 22332 3344443 6665544
No 98
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=38.82 E-value=1.2e+02 Score=23.77 Aligned_cols=13 Identities=23% Similarity=0.544 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHH
Q 026550 6 KLFTGIVMVLIII 18 (237)
Q Consensus 6 ~i~~~~~~~i~~~ 18 (237)
+++.++.++++++
T Consensus 5 ~i~~i~~iilgil 17 (191)
T PF04156_consen 5 RIISIILIILGIL 17 (191)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444444444
No 99
>PRK10694 acyl-CoA esterase; Provisional
Probab=38.73 E-value=43 Score=25.11 Aligned_cols=29 Identities=14% Similarity=0.086 Sum_probs=19.5
Q ss_pred heeeeCCCCCCcEEEEcCeeEEEEEEEeEEEE
Q 026550 59 FLFVTHPFDVGDRCVIDGVQMVVEEMHILTTT 90 (237)
Q Consensus 59 ~i~~~~pf~vGD~I~i~~~~G~V~~I~l~~T~ 90 (237)
-+.|.+|.++||.+++.. +|..++=.+..
T Consensus 61 ~i~F~~Pv~~Gd~l~~~a---~V~~~g~sS~~ 89 (133)
T PRK10694 61 GMTFLRPVAVGDVVCCYA---RCVKTGTTSIS 89 (133)
T ss_pred ceEECCCcccCcEEEEEE---EEEEccCceEE
Confidence 457889999999996543 45544444433
No 100
>TIGR00996 Mtu_fam_mce virulence factor Mce family protein. Members of this paralogous family are found as six tandem homologous proteins in the same orientation per cassette, in four separate cassettes in Mycobacterium tuberculosis. The six members of each cassette represent six subfamilies. One subfamily includes the protein mce (mycobacterial cell entry), a virulence protein required for invasion of non-phagocytic cells.
Probab=38.66 E-value=1.8e+02 Score=24.48 Aligned_cols=86 Identities=12% Similarity=0.089 Sum_probs=47.0
Q ss_pred CCCCcEEEEcCee-EEEEEEEeEEEEEE---EeC-------CcEEEEecccccCCcEEEEEcCCc----ceeEEEEEEEe
Q 026550 66 FDVGDRCVIDGVQ-MVVEEMHILTTTFL---RYD-------NEKIFYPNSVLATKPISNFYRSTV----DMRDAVEFAID 130 (237)
Q Consensus 66 f~vGD~I~i~~~~-G~V~~I~l~~T~i~---~~~-------g~~v~IPNs~l~~~~i~N~s~~~~----~~~~~~~~~v~ 130 (237)
..+|+-|++.|+. |+|.+|.+-...++ ..| +..+.|-...+.......++..+. ....-=.+...
T Consensus 45 L~~g~~V~~~Gv~VG~V~~i~~~~~~v~v~~~i~~~~~i~~~~~a~i~~~~l~G~~~i~l~~~~~~~~~~L~~g~~ip~~ 124 (291)
T TIGR00996 45 LYPGSKVRVRGVPVGKVTAISLPGNGARVTFSLDRGVTIPANATAAIRSTTLLGSRYVELTPPKGPGGPPLPPGGVIPLA 124 (291)
T ss_pred CCCCCceEEcceEEEEEEEEEecCCEEEEEEEecCCcccCCCCEEEEeeccccceeEEEeeCCCCCCCCcCCCcCEeChh
Confidence 7899999999966 99999998543332 112 334444444566666666665421 11111223333
Q ss_pred cCCCHHHHHHHHHHHHHHHhh
Q 026550 131 VFTPIEKISYLKSTIKNYLES 151 (237)
Q Consensus 131 ~~~~~~~i~~~~~~i~~~l~~ 151 (237)
...++..++.+.+.+.+.+++
T Consensus 125 ~t~~~~~l~~ll~~~~~ll~~ 145 (291)
T TIGR00996 125 RTSVPPEIDDLLGSLTRLLNG 145 (291)
T ss_pred hCCCCccHHHHHHHHHHHHhc
Confidence 333343444455555555543
No 101
>cd03452 MaoC_C MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid degradation. The C-terminal domain of MaoC has sequence similarity to (R)-specific enoyl-CoA hydratase,Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. MaoC also has an N-terminal PutA domain like that found in the E. coli PutA proline dehydrogenase and other members of the aldehyde dehydrogenase family.
Probab=38.49 E-value=1.4e+02 Score=22.25 Aligned_cols=18 Identities=22% Similarity=0.130 Sum_probs=15.2
Q ss_pred heeeeCCCCCCcEEEEcC
Q 026550 59 FLFVTHPFDVGDRCVIDG 76 (237)
Q Consensus 59 ~i~~~~pf~vGD~I~i~~ 76 (237)
-+-+.+|..+||.+.+..
T Consensus 82 ~~rf~~PV~~GDtl~~~~ 99 (142)
T cd03452 82 NLRFLEPVYPGDTIQVRL 99 (142)
T ss_pred eEEECCCCCCCCEEEEEE
Confidence 467889999999998755
No 102
>PRK09459 pspG phage shock protein G; Reviewed
Probab=38.04 E-value=1e+02 Score=20.74 Aligned_cols=27 Identities=19% Similarity=0.261 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHccchhhHHHHHHHH
Q 026550 12 VMVLIIIVWLLIVGLLTTKALLLILSQ 38 (237)
Q Consensus 12 ~~~i~~~~~l~~~g~~~~~ll~~~g~~ 38 (237)
+++++.+..+..-|+++-+.+++.++.
T Consensus 5 lFvl~F~~~LlvTGiSllgv~aAl~va 31 (76)
T PRK09459 5 LFVIGFFVMLLVTGISLLGIIAALGVA 31 (76)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 445555666666677766666655553
No 103
>cd03455 SAV4209 SAV4209 is a Streptomyces avermitilis protein with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. The alpha- and gamma-proteobacterial members of this CD have, in addition to a hot dog fold, an N-terminal extension.
Probab=38.04 E-value=95 Score=22.39 Aligned_cols=42 Identities=10% Similarity=0.131 Sum_probs=25.4
Q ss_pred hheeeeCCCCCCcEEEEcCeeEEEEE--EEeEEEEEEEeCCcEE
Q 026550 58 IFLFVTHPFDVGDRCVIDGVQMVVEE--MHILTTTFLRYDNEKI 99 (237)
Q Consensus 58 i~i~~~~pf~vGD~I~i~~~~G~V~~--I~l~~T~i~~~~g~~v 99 (237)
+-+-+.+|..+||.+.+...--.+.+ +--..+.+++.+|+.+
T Consensus 72 ~~~rf~~pv~~Gdtl~~~~~v~~~~~~~~v~~~~~~~nq~G~~v 115 (123)
T cd03455 72 FAFRLGAPLYAGDTLRFGGRVTAKRDDEVVTVELWARNSEGDHV 115 (123)
T ss_pred EEEEeeccccCCCEEEEEEEEEeeccCcEEEEEEEEEcCCCCEE
Confidence 35678999999999988653211111 1123455556667654
No 104
>PRK09014 rfaH transcriptional activator RfaH; Provisional
Probab=37.72 E-value=81 Score=24.21 Aligned_cols=23 Identities=26% Similarity=0.482 Sum_probs=18.9
Q ss_pred eCCCCCCcEEEE-c----CeeEEEEEEE
Q 026550 63 THPFDVGDRCVI-D----GVQMVVEEMH 85 (237)
Q Consensus 63 ~~pf~vGD~I~i-~----~~~G~V~~I~ 85 (237)
..+|+.||.|.| + |..|.|.+++
T Consensus 107 ~~~~~~G~~V~I~~Gp~~g~eg~v~~~~ 134 (162)
T PRK09014 107 PETPKPGDKVIITEGAFEGLQAIYTEPD 134 (162)
T ss_pred ccCCCCCCEEEEecCCCCCcEEEEEEeC
Confidence 456999999999 3 4889999886
No 105
>PRK00098 GTPase RsgA; Reviewed
Probab=37.50 E-value=50 Score=28.31 Aligned_cols=31 Identities=26% Similarity=0.277 Sum_probs=24.9
Q ss_pred CCCCCcEEEEc---CeeEEEEEEEeEEEEEEEeC
Q 026550 65 PFDVGDRCVID---GVQMVVEEMHILTTTFLRYD 95 (237)
Q Consensus 65 pf~vGD~I~i~---~~~G~V~~I~l~~T~i~~~~ 95 (237)
+.-|||||.++ +..|.++++.=|.+.+...+
T Consensus 37 ~~~vGD~V~~~~~~~~~g~i~~i~~R~~~l~R~~ 70 (298)
T PRK00098 37 TPAVGDRVEFSAENNDEGVILEIHERKNLLVRPP 70 (298)
T ss_pred CcCCCCEEEEEECCCCcEEEEEEeCCCceEECCC
Confidence 46799999984 35589999999999887655
No 106
>PF13726 Na_H_antiport_2: Na+-H+ antiporter family
Probab=37.46 E-value=77 Score=22.13 Aligned_cols=45 Identities=13% Similarity=0.222 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHccc-hhhHHHHHHHHHHHHHHHhhHHHHHHHHhhh
Q 026550 13 MVLIIIVWLLIVGLL-TTKALLLILSQVVLAVFLFGNTAKNVFEAII 58 (237)
Q Consensus 13 ~~i~~~~~l~~~g~~-~~~ll~~~g~~~~~igla~q~~~~n~~~~gi 58 (237)
..+.++.+|..+.++ .-+++.+.-+.|+.-|+.++++++- |.+|+
T Consensus 5 iaV~vm~~L~LlR~nVvlalliaalvgGl~~Gl~l~~t~~~-~~~Gm 50 (88)
T PF13726_consen 5 IAVLVMIVLSLLRVNVVLALLIAALVGGLVGGLGLGETMSA-FIDGM 50 (88)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHhhcCCCHHHHHHH-HHHHh
Confidence 344555566666666 3456666667777788888888888 44654
No 107
>TIGR01955 RfaH transcriptional activator RfaH. This model represents the transcriptional activator protein, RfaH. This protein is most closely related to the transcriptional termination/antitermination protein NusG (TIGR00922) and contains the KOW motif (pfam00467). This protein appears to be limited to the gamma proteobacteria. In E. coli, this gene appears to control the expression of haemolysin, sex factor and lipopolysaccharide genes.
Probab=37.42 E-value=90 Score=23.77 Aligned_cols=23 Identities=30% Similarity=0.320 Sum_probs=18.5
Q ss_pred eCCCCCCcEEEE-c----CeeEEEEEEE
Q 026550 63 THPFDVGDRCVI-D----GVQMVVEEMH 85 (237)
Q Consensus 63 ~~pf~vGD~I~i-~----~~~G~V~~I~ 85 (237)
...|+.||.|.| + |..|.|.++.
T Consensus 106 ~~~~~~G~~V~V~~GPf~g~~g~v~~~~ 133 (159)
T TIGR01955 106 TTLPYKGDKVRITDGAFAGFEAIFLEPD 133 (159)
T ss_pred ccCCCCCCEEEEeccCCCCcEEEEEEEC
Confidence 345999999999 3 4789999975
No 108
>PRK04439 S-adenosylmethionine synthetase; Provisional
Probab=35.73 E-value=2e+02 Score=25.97 Aligned_cols=84 Identities=12% Similarity=0.236 Sum_probs=57.0
Q ss_pred EEEEEEecCCCHHHHHHHHHHHHHHHhhCCCCC-CC--CcEEEEEeeeC-ceEEEEEEEE-EeecccchHHHHHHHHHHH
Q 026550 124 AVEFAIDVFTPIEKISYLKSTIKNYLESKPRHW-SP--THSVVVKHIKD-EKMIMGLYIT-HIIIFENYEEKINRRSELV 198 (237)
Q Consensus 124 ~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~-~~--~~~v~~~~~~~-~~v~~~v~~~-~~~~~~~~~~~~~~~~~l~ 198 (237)
...+.+.|. +....+++.-.+++++++.+... .| ...+.++++-+ +.+++++-+. +.....+.++|...+.++.
T Consensus 156 DTS~gVGyA-PlS~~E~~Vl~~E~~lns~~~k~~~P~~GeDiKVMG~R~g~~i~lTVa~a~v~r~v~~~~~Y~~~k~~v~ 234 (399)
T PRK04439 156 DTSFGVGYA-PLSETERLVLETERYLNSEEFKKRFPEVGEDIKVMGLRNGDEITLTIAMALVDRYVNDVDEYFEVKEEVK 234 (399)
T ss_pred cccceeecC-CCCHHHHHHHHHHHHhcCcchhhcCCCcCCCeEEEEEEcCCEEEEEEEhHHhhhhcCCHHHHHHHHHHHH
Confidence 455666665 44556667777777775432221 12 24688898886 8899988863 3444568888999999999
Q ss_pred HHHHHHHHHc
Q 026550 199 LELKRIFEEA 208 (237)
Q Consensus 199 ~~i~~~l~~~ 208 (237)
..+.+...+.
T Consensus 235 ~~v~~~a~~~ 244 (399)
T PRK04439 235 EKVEDLAQKY 244 (399)
T ss_pred HHHHHHHHhh
Confidence 9988877554
No 109
>PRK08655 prephenate dehydrogenase; Provisional
Probab=35.42 E-value=3.4e+02 Score=24.70 Aligned_cols=65 Identities=11% Similarity=0.036 Sum_probs=42.9
Q ss_pred eeEEEEEEEeEEEEEEEeCCcE-EEEecccccCC------cEEEEEcCCcceeEEEEEEEecCCCHHHHHHHHHHHHHH
Q 026550 77 VQMVVEEMHILTTTFLRYDNEK-IFYPNSVLATK------PISNFYRSTVDMRDAVEFAIDVFTPIEKISYLKSTIKNY 148 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~-v~IPNs~l~~~------~i~N~s~~~~~~~~~~~~~v~~~~~~~~i~~~~~~i~~~ 148 (237)
..|.|++++-.+.++++.+++. ..+-|-.+++. +..||... ..++.+-++.+.+.+. +.+.+++.
T Consensus 314 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fp~~----~RDis~~v~~~~~~~~---i~~~i~~~ 385 (437)
T PRK08655 314 HVGILKKVTPDYVTLKKNNKEIKLKISNIRLLSEKELREWKKKNLEKY----VRDISVLFPKGADPEV---ILDLLDNL 385 (437)
T ss_pred EEEEEEEecCCeEEEeeCCcEEEEEeeeeecCCHHHHHHHHHhcCCcc----ceeEEEEECCCCCHHH---HHHHHhcC
Confidence 5699999999999999955333 23444333332 23344433 4689999999999777 66666554
No 110
>COG2030 MaoC Acyl dehydratase [Lipid metabolism]
Probab=35.30 E-value=1.4e+02 Score=22.90 Aligned_cols=21 Identities=14% Similarity=-0.121 Sum_probs=17.2
Q ss_pred hhhheeeeCCCCCCcEEEEcC
Q 026550 56 AIIFLFVTHPFDVGDRCVIDG 76 (237)
Q Consensus 56 ~gi~i~~~~pf~vGD~I~i~~ 76 (237)
++--+-+-+|..+||.+...-
T Consensus 97 g~~~vRF~~PV~~Gdtl~~~~ 117 (159)
T COG2030 97 GGDEVRFVKPVFPGDTLRARV 117 (159)
T ss_pred cccceEecCCCCCCCEEEEEE
Confidence 555688999999999998744
No 111
>PF11674 DUF3270: Protein of unknown function (DUF3270); InterPro: IPR021688 This family of proteins with unknown function appears to be restricted to Streptococcus.
Probab=34.08 E-value=1.7e+02 Score=20.56 Aligned_cols=9 Identities=0% Similarity=-0.278 Sum_probs=3.6
Q ss_pred chhhHHHHH
Q 026550 27 LTTKALLLI 35 (237)
Q Consensus 27 ~~~~ll~~~ 35 (237)
.+..++|..
T Consensus 63 kl~t~~Af~ 71 (90)
T PF11674_consen 63 KLNTFWAFP 71 (90)
T ss_pred hhhHHHHHH
Confidence 344444433
No 112
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site []. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein []. More information about these proteins can be found at Protein of the Month: RNA Exosomes []. This entry does not include translation initiation factor IF-1 S1 domains.; GO: 0003723 RNA binding; PDB: 3L7Z_F 2JE6_I 2JEA_I 2JEB_I 1E3P_A 2Y0S_E 1WI5_A 2BH8_A 2CQO_A 2EQS_A ....
Probab=34.07 E-value=1.1e+02 Score=19.67 Aligned_cols=37 Identities=19% Similarity=0.089 Sum_probs=28.8
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcEEE
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPISN 113 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N 113 (237)
+.|+|.++.=....+.-.+|-.-.+|.+.+......+
T Consensus 8 v~g~V~~v~~~g~~V~l~~~~~g~ip~~~l~~~~~~~ 44 (74)
T PF00575_consen 8 VEGKVTSVEDFGVFVDLGNGIEGFIPISELSDDRIDD 44 (74)
T ss_dssp EEEEEEEEETTEEEEEESTSSEEEEEGGGSSSSEESS
T ss_pred EEEEEEEEECCEEEEEECCcEEEEEEeehhcCccccc
Confidence 4689999988666666656999999999999874433
No 113
>PF08940 DUF1918: Domain of unknown function (DUF1918); InterPro: IPR015035 This domain is found in various hypothetical bacterial proteins, and has no known function. ; PDB: 2A7Y_A.
Probab=34.04 E-value=55 Score=20.94 Aligned_cols=18 Identities=39% Similarity=0.595 Sum_probs=11.3
Q ss_pred CCCcEEEEcC-------eeEEEEEE
Q 026550 67 DVGDRCVIDG-------VQMVVEEM 84 (237)
Q Consensus 67 ~vGD~I~i~~-------~~G~V~~I 84 (237)
++|||+.+.+ ..|+|.|+
T Consensus 4 ~vGD~lvv~g~~vg~~~r~GeIveV 28 (58)
T PF08940_consen 4 SVGDRLVVHGRTVGQPDRHGEIVEV 28 (58)
T ss_dssp -TTEEEEES-TTTS--EEEEEEEE-
T ss_pred CCCCEEEEcCCcCCCCCcEeEEEEE
Confidence 6899999965 34776663
No 114
>PF12704 MacB_PCD: MacB-like periplasmic core domain; PDB: 3FTJ_A 3IS6_B.
Probab=33.99 E-value=54 Score=25.62 Aligned_cols=69 Identities=20% Similarity=0.288 Sum_probs=35.6
Q ss_pred CCcEEEEcCeeEEEEEEEeEEEEE---EEeCCcEEEEecccccCCcEEEEEcCCcceeEEEEEEEecCCCHHHHHHHHHH
Q 026550 68 VGDRCVIDGVQMVVEEMHILTTTF---LRYDNEKIFYPNSVLATKPISNFYRSTVDMRDAVEFAIDVFTPIEKISYLKST 144 (237)
Q Consensus 68 vGD~I~i~~~~G~V~~I~l~~T~i---~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~~~~~v~~~~~~~~i~~~~~~ 144 (237)
+||.|.+++...+|.-|- ...- ...++..+++|-..+. +....+ .....+.+.+....+.++ +++.
T Consensus 160 iGd~i~l~~~~~~VvGi~--~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~-~~~~~i~v~~~~~~~~~~---~~~~ 228 (232)
T PF12704_consen 160 IGDTITLNGQPFTVVGIV--EDPGSNFFFSDDPSIFIPLSTAQ-----QLFGNN-NGYSQIYVRLKDGADIEA---VKEE 228 (232)
T ss_dssp TT-EEEETTEEEEEEEEE----TTC----S---CEEEEHHHCH-----HHCCTS-SB-CEEEEEE-TTS-CHH---HHHH
T ss_pred cceEEEECCEEEEEEEEE--CCCCcccccCcCcEEEEEHHHHH-----HHhCCC-CceEEEEEEECCcCCHHH---HHHH
Confidence 799999998664444322 1110 1234567888887775 211111 235678888888877666 6666
Q ss_pred HHH
Q 026550 145 IKN 147 (237)
Q Consensus 145 i~~ 147 (237)
+++
T Consensus 229 i~~ 231 (232)
T PF12704_consen 229 IKA 231 (232)
T ss_dssp HHH
T ss_pred Hhc
Confidence 654
No 115
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=33.93 E-value=1.1e+02 Score=18.56 Aligned_cols=46 Identities=15% Similarity=0.032 Sum_probs=31.1
Q ss_pred EEEEEecCCCHHHHHHHHHHHHHHHhhCCCCCCCCcEEEEEeeeCc
Q 026550 125 VEFAIDVFTPIEKISYLKSTIKNYLESKPRHWSPTHSVVVKHIKDE 170 (237)
Q Consensus 125 ~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~~~~~~v~~~~~~~~ 170 (237)
+.+.+....+.++-+++.+.+.+.+.+.-+.......+.+.+....
T Consensus 3 i~i~~~~grt~eqk~~l~~~i~~~l~~~~g~~~~~v~V~i~e~~~~ 48 (58)
T cd00491 3 VQIYILEGRTDEQKRELIERVTEAVSEILGAPEATIVVIIDEMPKE 48 (58)
T ss_pred EEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcCcccEEEEEEEeCch
Confidence 4455555556777777888888888877666545566777776653
No 116
>COG0198 RplX Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]
Probab=33.90 E-value=69 Score=23.12 Aligned_cols=25 Identities=16% Similarity=0.113 Sum_probs=21.3
Q ss_pred CCCCCCcEEEE-----cCeeEEEEEEEeEE
Q 026550 64 HPFDVGDRCVI-----DGVQMVVEEMHILT 88 (237)
Q Consensus 64 ~pf~vGD~I~i-----~~~~G~V~~I~l~~ 88 (237)
-+++.||.|.+ .|..|.|.++....
T Consensus 3 ~~IrkGD~V~Vi~GkdKGk~GkVl~v~~k~ 32 (104)
T COG0198 3 MKVKKGDTVKVIAGKDKGKEGKVLKVLPKK 32 (104)
T ss_pred cceecCCEEEEEecCCCCcceEEEEEecCe
Confidence 47899999998 35889999998887
No 117
>COG1153 FwdD Formylmethanofuran dehydrogenase subunit D [Energy production and conversion]
Probab=33.55 E-value=93 Score=23.07 Aligned_cols=75 Identities=17% Similarity=0.170 Sum_probs=45.2
Q ss_pred CCCCcEEEEcCeeEEEEEEEeEEEEEEEeC---CcEEEEecccccCCcEEEEEcCCcce--eEEEEEEEecCCCHHHHHH
Q 026550 66 FDVGDRCVIDGVQMVVEEMHILTTTFLRYD---NEKIFYPNSVLATKPISNFYRSTVDM--RDAVEFAIDVFTPIEKISY 140 (237)
Q Consensus 66 f~vGD~I~i~~~~G~V~~I~l~~T~i~~~~---g~~v~IPNs~l~~~~i~N~s~~~~~~--~~~~~~~v~~~~~~~~i~~ 140 (237)
.+.||.+++....|.|.= +-...| -..++||++--++..+--.|.+. .. ..-+.+.+... |-+++-.
T Consensus 45 v~EGD~VkVkse~GeVVV------~Ak~~~~~~pG~vfiPmgpWaN~vi~P~T~sT-G~P~fKgipv~ie~t-dee~vl~ 116 (128)
T COG1153 45 VSEGDKVKVKSEFGEVVV------KAKEADGVQPGMVFIPMGPWANVVIDPDTDST-GMPGFKGIPVEVEPT-DEEEVLS 116 (128)
T ss_pred CCcCCeEEEEecCccEEE------EEeeCCCCCCCeEEecCCcccceeeCCCCCCc-CCcccCCceEEEEeC-CCcccCc
Confidence 568999999888886541 122222 26799999999887776666554 22 23355555544 2232344
Q ss_pred HHHHHHHH
Q 026550 141 LKSTIKNY 148 (237)
Q Consensus 141 ~~~~i~~~ 148 (237)
+++++++.
T Consensus 117 ~~~lm~k~ 124 (128)
T COG1153 117 MEELMRKY 124 (128)
T ss_pred HHHHHHHH
Confidence 66666554
No 118
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=33.45 E-value=79 Score=32.51 Aligned_cols=42 Identities=17% Similarity=0.131 Sum_probs=27.8
Q ss_pred eCCCCCCcEEEE----------cCeeEEEEEEEeEEEEEEEeCC---cEEEEecc
Q 026550 63 THPFDVGDRCVI----------DGVQMVVEEMHILTTTFLRYDN---EKIFYPNS 104 (237)
Q Consensus 63 ~~pf~vGD~I~i----------~~~~G~V~~I~l~~T~i~~~~g---~~v~IPNs 104 (237)
.+.|.+||+|.+ ||..|+|.++.=-...++..+| +.|.++..
T Consensus 631 ~r~f~vGDrV~f~rNd~~lgV~NGd~GtV~~i~~~~i~v~~d~g~~~r~V~~~~~ 685 (1102)
T PRK13826 631 ERRFAAGDQIVFLKNEGSLGVKNGMIGKVVEAAPNRIVAEIGEGEHRRQVTVEQR 685 (1102)
T ss_pred CccccCCCEEEEeeecCccCccCCCeEEEEEecCCeEEEEEcCCCCceEEEechh
Confidence 367999999976 6678999988644444444344 45555543
No 119
>PTZ00194 60S ribosomal protein L26; Provisional
Probab=33.14 E-value=49 Score=25.31 Aligned_cols=24 Identities=17% Similarity=0.217 Sum_probs=19.2
Q ss_pred CCCCCcEEEE-----cCeeEEEEEEEeEE
Q 026550 65 PFDVGDRCVI-----DGVQMVVEEMHILT 88 (237)
Q Consensus 65 pf~vGD~I~i-----~~~~G~V~~I~l~~ 88 (237)
|++.||.|.| -|..|+|.++....
T Consensus 46 ~IkkGD~V~Vi~Gk~KGk~GkV~~V~~k~ 74 (143)
T PTZ00194 46 PVRKDDEVMVVRGHHKGREGKVTAVYRKK 74 (143)
T ss_pred eeecCCEEEEecCCCCCCceEEEEEEcCC
Confidence 7999999998 34779999985443
No 120
>COG0234 GroS Co-chaperonin GroES (HSP10) [Posttranslational modification, protein turnover, chaperones]
Probab=32.78 E-value=54 Score=23.24 Aligned_cols=20 Identities=20% Similarity=0.272 Sum_probs=16.8
Q ss_pred CCCCCcEEEEcCeeEEEEEE
Q 026550 65 PFDVGDRCVIDGVQMVVEEM 84 (237)
Q Consensus 65 pf~vGD~I~i~~~~G~V~~I 84 (237)
.+++||.|-++...|+-.++
T Consensus 58 ~VkvGD~Vlf~ky~G~evk~ 77 (96)
T COG0234 58 DVKVGDRVLFGKYAGTEVKI 77 (96)
T ss_pred ccccCCEEEECccCCcEEEE
Confidence 48999999999999976665
No 121
>TIGR00037 eIF_5A translation initiation factor eIF-5A. Observed in eukaryotes and archaea.
Probab=32.77 E-value=71 Score=23.93 Aligned_cols=24 Identities=25% Similarity=0.383 Sum_probs=20.8
Q ss_pred CCCCCCcEEEEcCeeEEEEEEEeE
Q 026550 64 HPFDVGDRCVIDGVQMVVEEMHIL 87 (237)
Q Consensus 64 ~pf~vGD~I~i~~~~G~V~~I~l~ 87 (237)
.-+|.|..|.++|..+.|.++...
T Consensus 10 ~~irkG~~i~~~g~p~~V~e~~~~ 33 (130)
T TIGR00037 10 SALRVGGYVVIDGRPCKIVDISTS 33 (130)
T ss_pred HHccCCCEEEECCEEEEEEEEEec
Confidence 347899999999999999998753
No 122
>PF02736 Myosin_N: Myosin N-terminal SH3-like domain; InterPro: IPR004009 This domain has an SH3-like fold. It is found at the N terminus of many but not all myosins. The function of this domain is unknown.; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 2EC6_A 2W4H_M 1O1E_P 1O1D_D 1O18_A 1O1C_P 1O1B_D 1O1F_A 2W4A_M 2W4G_M ....
Probab=32.71 E-value=1.1e+02 Score=17.90 Aligned_cols=28 Identities=14% Similarity=-0.008 Sum_probs=23.8
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecc
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNS 104 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs 104 (237)
+.|.|.+..=-..++++.+|+.+++|..
T Consensus 14 v~g~I~~~~g~~vtV~~~~G~~~tv~~d 41 (42)
T PF02736_consen 14 VKGEIIEEEGDKVTVKTEDGKEVTVKKD 41 (42)
T ss_dssp EEEEEEEEESSEEEEEETTTEEEEEEGG
T ss_pred EEEEEEEEcCCEEEEEECCCCEEEeCCC
Confidence 5688998888889999999999998754
No 123
>COG0250 NusG Transcription antiterminator [Transcription]
Probab=32.21 E-value=51 Score=26.17 Aligned_cols=24 Identities=38% Similarity=0.504 Sum_probs=19.1
Q ss_pred CCCCCcEEEE-cC----eeEEEEEEEeEE
Q 026550 65 PFDVGDRCVI-DG----VQMVVEEMHILT 88 (237)
Q Consensus 65 pf~vGD~I~i-~~----~~G~V~~I~l~~ 88 (237)
-|++||.|+| +| ..|+|++++-=.
T Consensus 123 ~~e~Gd~VrI~~GpFa~f~g~V~evd~ek 151 (178)
T COG0250 123 DFEPGDVVRIIDGPFAGFKAKVEEVDEEK 151 (178)
T ss_pred cCCCCCEEEEeccCCCCccEEEEEEcCcC
Confidence 4899999999 33 779999987653
No 124
>PF14545 DBB: Dof, BCAP, and BANK (DBB) motif,
Probab=32.17 E-value=2.3e+02 Score=21.65 Aligned_cols=79 Identities=11% Similarity=0.141 Sum_probs=43.5
Q ss_pred hheeeeCCCCCCcEEEE--cCeeEE--EEEEEeEEEEEEEeCCcEEEEecccccCCcEEEEE--cCCcceeEEEEEEEec
Q 026550 58 IFLFVTHPFDVGDRCVI--DGVQMV--VEEMHILTTTFLRYDNEKIFYPNSVLATKPISNFY--RSTVDMRDAVEFAIDV 131 (237)
Q Consensus 58 i~i~~~~pf~vGD~I~i--~~~~G~--V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~s--~~~~~~~~~~~~~v~~ 131 (237)
++|++..|+..||++++ ....+. .....|+.=.. -.+..|+--+--.-..|.+ ..+ ...-.-.+.|
T Consensus 15 vfIiL~~~l~~~~~~eVef~~~n~~~~~~~~~~~N~yt-----~~~~aPd~~~~pag~V~v~v~~~g---~~~~~~~iky 86 (142)
T PF14545_consen 15 VFIILRDPLDEEDTVEVEFESNNKPIRRVPAKWENPYT-----LQFKAPDFCLEPAGSVNVRVYCDG---VSLGTRQIKY 86 (142)
T ss_pred EEEEEeCCCCCCCeEEEEEEeCCCeeEeccceEECCEE-----EEEECchhcCCCCceEEEEEEECC---EEEEEEeEEE
Confidence 67889999999999987 222222 22333322111 1245666633333344433 333 4566678888
Q ss_pred CCCHHHHHHHHHHHHH
Q 026550 132 FTPIEKISYLKSTIKN 147 (237)
Q Consensus 132 ~~~~~~i~~~~~~i~~ 147 (237)
.++.+. +.+.+.+
T Consensus 87 ys~~~e---l~~lL~~ 99 (142)
T PF14545_consen 87 YSRMRE---LEQLLRK 99 (142)
T ss_pred EecHHH---HHHHHHh
Confidence 888666 4444443
No 125
>cd00164 S1_like S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains are members of the Oligonucleotide/oligosaccharide Binding (OB) fold.
Probab=31.78 E-value=1.2e+02 Score=18.23 Aligned_cols=34 Identities=15% Similarity=-0.071 Sum_probs=25.7
Q ss_pred eEEEEEEEeEEEEEEEeCCcEEEEecccccCCcE
Q 026550 78 QMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPI 111 (237)
Q Consensus 78 ~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i 111 (237)
.|+|.++.=....++..++..-.+|.+.+.....
T Consensus 2 ~g~V~~v~~~g~~v~l~~~~~g~~~~~~~~~~~~ 35 (65)
T cd00164 2 TGKVVSITKFGVFVELEDGVEGLVHISELSDKFV 35 (65)
T ss_pred EEEEEEEEeeeEEEEecCCCEEEEEHHHCCCccc
Confidence 5888888766666666668888999999887654
No 126
>cd05691 S1_RPS1_repeat_ec6 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 6 (ec6) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=31.43 E-value=1.4e+02 Score=18.92 Aligned_cols=35 Identities=20% Similarity=0.102 Sum_probs=22.9
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcE
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPI 111 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i 111 (237)
+.|+|.++.=..-.+.-.++-.-.+|.+.+....+
T Consensus 4 v~g~V~~v~~~g~~v~l~~~~~g~i~~~~~~~~~~ 38 (73)
T cd05691 4 VTGKVTEVDAKGATVKLGDGVEGFLRAAELSRDRV 38 (73)
T ss_pred EEEEEEEEECCeEEEEeCCCCEEEEEHHHCCCccc
Confidence 45778877655555555456667788888776554
No 127
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=31.14 E-value=78 Score=30.94 Aligned_cols=23 Identities=17% Similarity=0.356 Sum_probs=18.0
Q ss_pred eCCCCCCcEEEE----------cCeeEEEEEEE
Q 026550 63 THPFDVGDRCVI----------DGVQMVVEEMH 85 (237)
Q Consensus 63 ~~pf~vGD~I~i----------~~~~G~V~~I~ 85 (237)
.+.|++||.|.. ||..|.|.++.
T Consensus 584 ~~~~~~GDkVm~~~N~~~~~v~NGdiG~I~~i~ 616 (720)
T TIGR01448 584 EGEYRKGDRVMQTKNDYNNEIFNGDLGMIVKIE 616 (720)
T ss_pred CceecCCCEEEEeeecchhccccCCeeEEEecc
Confidence 467999999965 56778888874
No 128
>PF01157 Ribosomal_L21e: Ribosomal protein L21e; InterPro: IPR001147 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. L21E family contains proteins from a number of eukaryotic and archaebacterial organisms which include; mammalian L2, Entamoeba histolytica L21, Caenorhabditis elegans L21 (C14B9.7), Saccharomyces cerevisiae (Baker's yeast) L21E (URP1) and Haloarcula marismortui HL31.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZR_U 1S1I_Q 3O58_T 3IZS_U 3O5H_T 1Q82_R 1KQS_P 3CCJ_Q 3CCQ_Q 1VQ5_Q ....
Probab=31.13 E-value=63 Score=23.09 Aligned_cols=23 Identities=22% Similarity=0.193 Sum_probs=11.7
Q ss_pred CCCCCCcEEEEcC---------------eeEEEEEEEe
Q 026550 64 HPFDVGDRCVIDG---------------VQMVVEEMHI 86 (237)
Q Consensus 64 ~pf~vGD~I~i~~---------------~~G~V~~I~l 86 (237)
+.|++||.|.|.. -.|+|..++=
T Consensus 31 ~~yk~GD~V~I~id~sv~kGmPh~~yHGkTG~V~~v~~ 68 (99)
T PF01157_consen 31 QEYKVGDKVDIKIDPSVHKGMPHKRYHGKTGRVFNVTK 68 (99)
T ss_dssp ----TT-EEEE---TTSSSSS--GGGTTEEEEEEEE-S
T ss_pred HHccCCCEEEEEecCccccCCCcceECCCceeEEEeCC
Confidence 7899999998832 4588886554
No 129
>PRK08582 hypothetical protein; Provisional
Probab=31.04 E-value=2.3e+02 Score=21.33 Aligned_cols=43 Identities=14% Similarity=0.110 Sum_probs=29.2
Q ss_pred CCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcEEE
Q 026550 66 FDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPISN 113 (237)
Q Consensus 66 f~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N 113 (237)
+++|+. +.|+|.+|.=.--.+.-.++..-.+|.+.+....+.+
T Consensus 3 ~kvG~i-----v~G~V~~I~~fG~fV~L~~~~~GlVhiSels~~~v~~ 45 (139)
T PRK08582 3 IEVGSK-----LQGKVTGITNFGAFVELPEGKTGLVHISEVADNYVKD 45 (139)
T ss_pred CcCCCE-----EEEEEEEEECCeEEEEECCCCEEEEEeeccCcccccc
Confidence 456655 5688888776666555556667788888887655544
No 130
>cd05687 S1_RPS1_repeat_ec1_hs1 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 1 of the Escherichia coli and Homo sapiens RPS1 (ec1 and hs1, respectively). Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=30.87 E-value=1.4e+02 Score=18.87 Aligned_cols=38 Identities=18% Similarity=0.002 Sum_probs=25.0
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcEEEE
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPISNF 114 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~ 114 (237)
+.|+|.++.=....+.-..+..-++|.+.+....+.|.
T Consensus 4 v~g~V~~i~~~~~~v~l~~~~~g~l~~~e~~~~~~~~~ 41 (70)
T cd05687 4 VKGTVVSVDDDEVLVDIGYKSEGIIPISEFSDDPIENG 41 (70)
T ss_pred EEEEEEEEeCCEEEEEeCCCceEEEEHHHhCccccCCH
Confidence 46788887655554444446667888888877655543
No 131
>PF13375 RnfC_N: RnfC Barrel sandwich hybrid domain
Probab=30.84 E-value=99 Score=22.05 Aligned_cols=11 Identities=27% Similarity=0.404 Sum_probs=8.2
Q ss_pred CCCCcEEEEcC
Q 026550 66 FDVGDRCVIDG 76 (237)
Q Consensus 66 f~vGD~I~i~~ 76 (237)
.++||+|+.+.
T Consensus 46 V~~Gd~V~~GQ 56 (101)
T PF13375_consen 46 VKVGDKVKKGQ 56 (101)
T ss_pred EcCCCEEcCCC
Confidence 67899987654
No 132
>PF01472 PUA: PUA domain; InterPro: IPR002478 The PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was named after the proteins in which it was first found []. PUA is a highly conserved RNA-binding motif found in a wide range of archaeal, bacterial and eukaryotic proteins, including enzymes that catalyse tRNA and rRNA post-transcriptional modifications, proteins involved in ribosome biogenesis and translation, as well as in enzymes involved in proline biosynthesis [, ]. The structures of several PUA-RNA complexes reveal a common RNA recognition surface, but also some versatility in the way in which the motif binds to RNA []. PUA motifs are involved in dyskeratosis congenita and cancer, pointing to links between RNA metabolism and human diseases [].; GO: 0003723 RNA binding; PDB: 1ZE2_A 1ZE1_A 1R3E_A 2AB4_A 3R90_D 2J5T_A 2J5V_B 1Q7H_A 2APO_A 2RFK_A ....
Probab=30.79 E-value=17 Score=24.12 Aligned_cols=33 Identities=21% Similarity=0.207 Sum_probs=21.1
Q ss_pred HHHHhhhheeeeCCCCCCcEEEEcCeeEEEEEEE
Q 026550 52 NVFEAIIFLFVTHPFDVGDRCVIDGVQMVVEEMH 85 (237)
Q Consensus 52 n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V~~I~ 85 (237)
+++..|+ +-.+.-|+.||.|.+-+..|...-++
T Consensus 18 ~L~~~GV-~~~~~~f~~gd~V~i~~~~g~~ia~G 50 (74)
T PF01472_consen 18 SLFAPGV-VEVDGDFRKGDEVAIVDEDGEVIAVG 50 (74)
T ss_dssp EEEGGGE-EEEETT--TTSEEEEEETTSSEEEEE
T ss_pred CcchHHh-EECCCCcCCCCEEEEEcCCCeEEEEE
Confidence 5566776 67788899999999844445544443
No 133
>COG3215 PilZ Tfp pilus assembly protein PilZ [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=30.60 E-value=28 Score=25.04 Aligned_cols=23 Identities=13% Similarity=0.325 Sum_probs=19.5
Q ss_pred HHHHHHHHhhhheeeeCCCCCCcEEE
Q 026550 48 NTAKNVFEAIIFLFVTHPFDVGDRCV 73 (237)
Q Consensus 48 ~~~~n~~~~gi~i~~~~pf~vGD~I~ 73 (237)
..++| ||+|+-..|+|++||-|-
T Consensus 28 pfl~n---GglFVpTnk~y~iG~evf 50 (117)
T COG3215 28 PFLEN---GGLFVPTNKVYSIGEEVF 50 (117)
T ss_pred HHHhc---CcEEcccCCccccchhhh
Confidence 45666 889999999999999884
No 134
>PF02933 CDC48_2: Cell division protein 48 (CDC48), domain 2; InterPro: IPR004201 This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C terminus. The VAT-N domain found in AAA ATPases (IPR003959 from INTERPRO) is a substrate 185-residue recognition domain [].; GO: 0005524 ATP binding; PDB: 1QDN_B 1QCS_A 1CR5_C 3QQ8_A 3HU2_A 3HU1_E 3HU3_A 3QWZ_A 3TIW_B 3QQ7_A ....
Probab=30.55 E-value=48 Score=21.17 Aligned_cols=15 Identities=27% Similarity=0.430 Sum_probs=11.7
Q ss_pred eeeCCCCCCcEEEEc
Q 026550 61 FVTHPFDVGDRCVID 75 (237)
Q Consensus 61 ~~~~pf~vGD~I~i~ 75 (237)
+.++|+..||.|.++
T Consensus 14 l~~~pv~~Gd~i~~~ 28 (64)
T PF02933_consen 14 LEGRPVTKGDTIVFP 28 (64)
T ss_dssp HTTEEEETT-EEEEE
T ss_pred HcCCCccCCCEEEEE
Confidence 457999999999884
No 135
>PRK12585 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=29.96 E-value=1.3e+02 Score=24.26 Aligned_cols=10 Identities=50% Similarity=1.221 Sum_probs=4.5
Q ss_pred hhhheeeeCC
Q 026550 56 AIIFLFVTHP 65 (237)
Q Consensus 56 ~gi~i~~~~p 65 (237)
..+|+++..|
T Consensus 73 iIvFllLTaP 82 (197)
T PRK12585 73 AVLFIFLTTP 82 (197)
T ss_pred HHHHHHHHHH
Confidence 3344454444
No 136
>PF13856 Gifsy-2: ATP-binding sugar transporter from pro-phage; PDB: 2PP6_A.
Probab=29.92 E-value=80 Score=22.01 Aligned_cols=19 Identities=42% Similarity=0.562 Sum_probs=14.1
Q ss_pred CCCCcEEEEcCeeEEEEEE
Q 026550 66 FDVGDRCVIDGVQMVVEEM 84 (237)
Q Consensus 66 f~vGD~I~i~~~~G~V~~I 84 (237)
-+.||.|.++|...+|.+.
T Consensus 66 P~~gd~v~~dG~~y~V~~~ 84 (95)
T PF13856_consen 66 PRRGDRVVIDGESYTVTRF 84 (95)
T ss_dssp --TT-EEEETTEEEEEEEE
T ss_pred CCCCCEEEECCeEEEEeEE
Confidence 6799999999988888764
No 137
>PF09583 Phageshock_PspG: Phage shock protein G (Phageshock_PspG); InterPro: IPR014318 This protein previously was designated yjbO in Escherichia coli. It is found only in genomes that have the phage shock operon (psp), but it is only rarely encoded near other psp genes. The psp regulon is upregulated in response to a number of stress conditions, including ethanol, expression of the filamentous phage secretin protein IV and other secretins and heat shock.
Probab=29.69 E-value=1.6e+02 Score=19.18 Aligned_cols=28 Identities=21% Similarity=0.294 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHccchhhHHHHHHHHH
Q 026550 12 VMVLIIIVWLLIVGLLTTKALLLILSQV 39 (237)
Q Consensus 12 ~~~i~~~~~l~~~g~~~~~ll~~~g~~~ 39 (237)
+++++.+..+..-|++.-+.+++.++..
T Consensus 5 iFvl~F~~~Ll~TGvsllgv~aA~~va~ 32 (65)
T PF09583_consen 5 IFVLGFFAMLLVTGVSLLGVLAALAVAF 32 (65)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 4455555666666777666666655544
No 138
>PRK12288 GTPase RsgA; Reviewed
Probab=29.68 E-value=64 Score=28.47 Aligned_cols=31 Identities=35% Similarity=0.399 Sum_probs=23.8
Q ss_pred CCCCCcEEEEc---Ce----eEEEEEEEeEEEEEEEeC
Q 026550 65 PFDVGDRCVID---GV----QMVVEEMHILTTTFLRYD 95 (237)
Q Consensus 65 pf~vGD~I~i~---~~----~G~V~~I~l~~T~i~~~~ 95 (237)
..-|||||.+. +. .|.|++|-=|.+.+...+
T Consensus 72 ~~~vGD~V~~~~~~~~~~~~~~~I~~il~R~n~L~R~~ 109 (347)
T PRK12288 72 SLVTGDRVVWRPGKEALEGVSGVVEAVHPRTSVLTRPD 109 (347)
T ss_pred CCCCCcEEEEEeCCCcccccceEEEEEecccceEECCC
Confidence 46899999984 22 389999999998887533
No 139
>TIGR02266 gmx_TIGR02266 Myxococcus xanthus paralogous domain TIGR02266. This domain is related to Type IV pilus assembly protein PilZ (Pfam model pfam07238). It is found in at least 12 copies in Myxococcus xanthus DK 1622.
Probab=29.43 E-value=37 Score=23.28 Aligned_cols=28 Identities=21% Similarity=0.394 Sum_probs=22.8
Q ss_pred hHHHHHHHHhhhheeeeCCCCCCcEEEE
Q 026550 47 GNTAKNVFEAIIFLFVTHPFDVGDRCVI 74 (237)
Q Consensus 47 q~~~~n~~~~gi~i~~~~pf~vGD~I~i 74 (237)
.....|+=.+|+++....|+.+||.+.+
T Consensus 18 ~~~~~diS~gG~~~~~~~~~~~g~~v~l 45 (96)
T TIGR02266 18 RDYSINLSKGGLFIRTRKPLAVGTRVEL 45 (96)
T ss_pred HHHhhhcCCceEEEecCCCcCCCCEEEE
Confidence 4556775558899999999999998876
No 140
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=29.33 E-value=60 Score=26.97 Aligned_cols=27 Identities=26% Similarity=0.267 Sum_probs=21.2
Q ss_pred CCCcEEEEc---CeeEEEEEEEeEEEEEEE
Q 026550 67 DVGDRCVID---GVQMVVEEMHILTTTFLR 93 (237)
Q Consensus 67 ~vGD~I~i~---~~~G~V~~I~l~~T~i~~ 93 (237)
-|||||.+. +..|.|++|-=|+..+..
T Consensus 2 ~vGD~V~~~~~~~~~~~i~~i~eR~~~L~r 31 (245)
T TIGR00157 2 VVGDRVVWEPGNVVKVYGGAIAERKNELTR 31 (245)
T ss_pred CCCcEEEEEecCCCceEEEEEecccceEEC
Confidence 489999884 356899999888877754
No 141
>PRK07252 hypothetical protein; Provisional
Probab=29.26 E-value=1.6e+02 Score=21.60 Aligned_cols=37 Identities=11% Similarity=-0.016 Sum_probs=27.6
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcEEE
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPISN 113 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N 113 (237)
+.|+|.++.=.-..+.-.++..-.+|.+.+....+.|
T Consensus 7 v~G~V~~V~~~G~fVei~~~~~GllhiseLs~~~~~~ 43 (120)
T PRK07252 7 LKGTITGIKPYGAFVALENGTTGLIHISEIKTGFIDN 43 (120)
T ss_pred EEEEEEEEeCcEEEEEECCCCEEEEEHHHcCCccccC
Confidence 5788888877666666556777889999988766654
No 142
>cd06848 GCS_H Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and L-proteins) which catalyzes the oxidative cleavage of glycine. The H-protein shuttles the methylamine group of glycine from the P-protein (glycine dehydrogenase) to the T-protein (aminomethyltransferase) via a lipoyl group, attached to a completely conserved lysine residue.
Probab=29.13 E-value=1.6e+02 Score=20.48 Aligned_cols=66 Identities=18% Similarity=0.196 Sum_probs=42.5
Q ss_pred hhHHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEEEecccccCCc-EEEEE
Q 026550 46 FGNTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKP-ISNFY 115 (237)
Q Consensus 46 ~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~-i~N~s 115 (237)
+.+..++.+ + -...+. .-++||.|+-|...+.|+....-.+...-.+|+++-+ |..+.+++ ..|-+
T Consensus 20 lt~~~~~~l-G-~i~~i~-~~~~G~~v~~g~~l~~iEs~k~~~~i~sP~~G~v~~~-n~~l~~~p~~ln~~ 86 (96)
T cd06848 20 ITDYAQDLL-G-DIVFVE-LPEVGTEVKKGDPFGSVESVKAASDLYSPVSGEVVEV-NEALLDNPELINSD 86 (96)
T ss_pred eCHHHHhhC-C-CEEEEE-ecCCCCEEeCCCEEEEEEEccEEEEEeCCCCEEEEEE-hhhhhcChHHHhCC
Confidence 344555544 3 223333 3366999999999999998888766666677777655 66665544 44433
No 143
>PF09378 HAS-barrel: HAS barrel domain; InterPro: IPR018538 The HAS barrel is named after HerA-ATP Synthase. In ATP synthases, this domain is implicated in the assembly of the catalytic toroid and docking of accessory subunits, such as the subunit of the ATP synthase complex. Similar roles in docking of the functional partner, the NurA nuclease, and assembly of the HerA toroid complex appear likely for the HAS-barrel of the HerA family []. ; PDB: 3OAA_I.
Probab=29.02 E-value=77 Score=21.41 Aligned_cols=23 Identities=26% Similarity=0.219 Sum_probs=17.7
Q ss_pred CCCCCcEEEEcC-----eeEEEEEEEeE
Q 026550 65 PFDVGDRCVIDG-----VQMVVEEMHIL 87 (237)
Q Consensus 65 pf~vGD~I~i~~-----~~G~V~~I~l~ 87 (237)
+.++||+|.+.. +.|.|.++...
T Consensus 22 ~v~~GeyV~i~~~~~~~vlG~V~~i~~~ 49 (91)
T PF09378_consen 22 DVRVGEYVVIEYDDGEKVLGMVTSISRG 49 (91)
T ss_dssp T-BTTEEEEES----TTEEEEEEEEES-
T ss_pred CCCcCeEEEEEEechhhhhhhhheeEEc
Confidence 899999999942 66999998875
No 144
>smart00538 POP4 A domain found in a protein subunit of human RNase MRP and RNase P ribonucleoprotein complexes and archaeal proteins.
Probab=28.64 E-value=1.5e+02 Score=20.75 Aligned_cols=29 Identities=14% Similarity=0.117 Sum_probs=24.4
Q ss_pred CeeEEEEEEEeEEEEEEEeCCcEEEEecc
Q 026550 76 GVQMVVEEMHILTTTFLRYDNEKIFYPNS 104 (237)
Q Consensus 76 ~~~G~V~~I~l~~T~i~~~~g~~v~IPNs 104 (237)
|..|.|.+=+-.+-.+.+.+|+..+||=+
T Consensus 28 Gi~GiVv~ET~nt~~I~t~~~~~~~IpK~ 56 (92)
T smart00538 28 GIEGIVVDETRNTLKIETKEGRVKTVPKD 56 (92)
T ss_pred CcEEEEEEeeeeEEEEEeCCCcEEEEECC
Confidence 58899999888888899988888888854
No 145
>PF01709 Transcrip_reg: Transcriptional regulator; InterPro: IPR002876 This entry represents the core region of several hypothetical proteins found in bacteria, plants, and yeast proteins. This core region can be subdivided into three domains: a 3-helical bundle domain, and two alpha+beta domains with different folds, where domain 3 (ferredoxin-like fold) is inserted within domain 2. This core region is found in the following hypothetical proteins: YebC from Escherichia coli, HP0162 from Helicobacter pylori (Campylobacter pylori) and aq1575 from Aquifex aeolicus []. The crystal structure of a conserved hypothetical protein, Aq1575, from Aquifex aeolicus has been determined. A structural homology search reveals that this protein has a new fold with no obvious similarity to those of other proteins of known three-dimensional structure. The protein reveals a monomer consisting of three domains arranged along a pseudo threefold symmetry axis. There is a large cleft with approximate dimensions of 10 A x 10 A x 20 A in the centre of the three domains along the symmetry axis. Two possible active sites are suggested based on the structure and multiple sequence alignment. There are several highly conserved residues in these putative active sites [].; PDB: 1LFP_A 1MW7_A 1KON_A.
Probab=28.29 E-value=3.5e+02 Score=22.44 Aligned_cols=58 Identities=7% Similarity=0.104 Sum_probs=40.7
Q ss_pred HHHHHHHhhCCCC-C-CCCcEEEEEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCc
Q 026550 143 STIKNYLESKPRH-W-SPTHSVVVKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIR 211 (237)
Q Consensus 143 ~~i~~~l~~~~~~-~-~~~~~v~~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~ 211 (237)
+.|++++++..+. . .+.-.+...+++++++-+.+.+.+ +.+++....+...|+++|-.
T Consensus 60 ~~IerAIkk~~~~~~~~~~~~~~yEg~gP~Gvaiive~lT-----------DN~nRt~~~ir~~~~K~gg~ 119 (234)
T PF01709_consen 60 DNIERAIKKASGKSDGANYEEITYEGYGPGGVAIIVECLT-----------DNKNRTVSDIRSIFKKNGGS 119 (234)
T ss_dssp HHHHHHHHHCCSTSST---EEEEEEEEETTTEEEEEEEEE-----------S-HHHHHHHHHHHHHTTT-E
T ss_pred HHHHHHHHhcCcCCCCcCceEEEEEEEcCCCcEEEEEEeC-----------CCHhHHHHHHHHHHHHcCce
Confidence 5566777776664 2 345678889999999999998864 44555677888899988876
No 146
>COG2524 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]
Probab=28.21 E-value=86 Score=26.67 Aligned_cols=61 Identities=11% Similarity=0.110 Sum_probs=34.3
Q ss_pred eCCCCCCcEEEEcC-------eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcEEEEEcCCcceeEEEEEEEecCCCH
Q 026550 63 THPFDVGDRCVIDG-------VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPISNFYRSTVDMRDAVEFAIDVFTPI 135 (237)
Q Consensus 63 ~~pf~vGD~I~i~~-------~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~~~~~v~~~~~~ 135 (237)
-|+|.+||.|+++- ..|+|..-.=..-.+.-.=...+.+||.+. .|+-..+ -+.+..+.+.
T Consensus 124 i~~~~~gD~VrVGPtP~~klvv~G~V~g~Dd~~~~ilidi~~m~siPk~~V-----~~~~s~~-------~i~v~~d~tl 191 (294)
T COG2524 124 IRKINIGDSVRVGPTPVNKLVVEGKVIGRDDTANEILIDISKMVSIPKEKV-----KNLMSKK-------LITVRPDDTL 191 (294)
T ss_pred cccCCCCCeEEECCcccceEEEEeEEecccccCCeEEEEEeeeeecCcchh-----hhhccCC-------ceEecCCccH
Confidence 47899999999976 457777544222222211234456666554 3433333 2456677663
No 147
>PRK08059 general stress protein 13; Validated
Probab=28.17 E-value=2.4e+02 Score=20.61 Aligned_cols=41 Identities=10% Similarity=0.043 Sum_probs=28.2
Q ss_pred CCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcE
Q 026550 66 FDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPI 111 (237)
Q Consensus 66 f~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i 111 (237)
+++||.+ .|+|.++.=..-.+.-.++..-.+|.+.+....+
T Consensus 5 ~k~G~iv-----~G~V~~i~~~G~fV~i~~~~~Gli~~sel~~~~~ 45 (123)
T PRK08059 5 YEVGSVV-----TGKVTGIQPYGAFVALDEETQGLVHISEITHGFV 45 (123)
T ss_pred CCCCCEE-----EEEEEEEecceEEEEECCCCEEEEEHHHCCcccc
Confidence 6677654 6788887766666665667777888888765544
No 148
>CHL00084 rpl19 ribosomal protein L19
Probab=27.91 E-value=96 Score=22.88 Aligned_cols=14 Identities=29% Similarity=0.425 Sum_probs=10.5
Q ss_pred eeeCC-CCCCcEEEE
Q 026550 61 FVTHP-FDVGDRCVI 74 (237)
Q Consensus 61 ~~~~p-f~vGD~I~i 74 (237)
-.+-| |++||.|.+
T Consensus 17 ~~~~p~f~~GDtV~V 31 (117)
T CHL00084 17 KKNLPKIRVGDTVKV 31 (117)
T ss_pred hcCCCccCCCCEEEE
Confidence 33444 999999987
No 149
>PRK11111 hypothetical protein; Provisional
Probab=27.91 E-value=2.3e+02 Score=23.11 Aligned_cols=34 Identities=12% Similarity=-0.016 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHH
Q 026550 12 VMVLIIIVWLLIVGLLTTKALLLILSQVVLAVFL 45 (237)
Q Consensus 12 ~~~i~~~~~l~~~g~~~~~ll~~~g~~~~~igla 45 (237)
++.+..-.++..||+++.++-.+.|++-+.+|+-
T Consensus 59 ~f~~~G~~iL~~fGIsl~afrIaGGiiL~~ial~ 92 (214)
T PRK11111 59 ISLFLGDFILNLFGISIDSFRIAGGILVVTIAMS 92 (214)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 3334444566788999999999999887755543
No 150
>PRK01889 GTPase RsgA; Reviewed
Probab=27.83 E-value=95 Score=27.43 Aligned_cols=32 Identities=19% Similarity=0.200 Sum_probs=25.2
Q ss_pred CCCCCCcEEEEc-CeeEEEEEEEeEEEEEEEeC
Q 026550 64 HPFDVGDRCVID-GVQMVVEEMHILTTTFLRYD 95 (237)
Q Consensus 64 ~pf~vGD~I~i~-~~~G~V~~I~l~~T~i~~~~ 95 (237)
.+.-+||||.++ +..|.++++-=|.+.+...+
T Consensus 67 ~~~~vGD~V~~~~~~~g~I~~i~pR~~~L~R~~ 99 (356)
T PRK01889 67 DRPAVGDWVLLDNEKKARIVRLLPRRSLFSRKA 99 (356)
T ss_pred CCCccCcEEEEecCCceEEEEEECCCceEEcCC
Confidence 346889999997 34689999999998877654
No 151
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=27.49 E-value=1.5e+02 Score=22.02 Aligned_cols=21 Identities=14% Similarity=-0.209 Sum_probs=10.7
Q ss_pred hhHHHHHHHHHHHHHHHhhHH
Q 026550 29 TKALLLILSQVVLAVFLFGNT 49 (237)
Q Consensus 29 ~~ll~~~g~~~~~igla~q~~ 49 (237)
....+..|+++++++|..--.
T Consensus 96 e~~~~l~~l~~l~~~~~~~~~ 116 (135)
T PF04246_consen 96 ELWAILGGLLGLALGFLILRL 116 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334445555556666554333
No 152
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=27.46 E-value=1e+02 Score=21.84 Aligned_cols=24 Identities=25% Similarity=0.548 Sum_probs=18.2
Q ss_pred eeeeCCCCCCcEEEE----cCeeEEEEE
Q 026550 60 LFVTHPFDVGDRCVI----DGVQMVVEE 83 (237)
Q Consensus 60 i~~~~pf~vGD~I~i----~~~~G~V~~ 83 (237)
+.+.+.+++||+|.+ +|....|.+
T Consensus 71 i~~~~~Lk~GD~V~ll~~~~gQ~yiVlD 98 (100)
T PF10844_consen 71 ITFTDGLKVGDKVLLLRVQGGQKYIVLD 98 (100)
T ss_pred EEEecCCcCCCEEEEEEecCCCEEEEEE
Confidence 677889999999987 556655554
No 153
>PRK06302 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=27.28 E-value=94 Score=23.98 Aligned_cols=40 Identities=15% Similarity=0.187 Sum_probs=31.7
Q ss_pred CCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEE--EEeccc
Q 026550 66 FDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKI--FYPNSV 105 (237)
Q Consensus 66 f~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v--~IPNs~ 105 (237)
.++||.|+-|+..|.|+.+.+..-.--..+|.+. .+.|+.
T Consensus 102 v~~Gd~V~~Gq~l~~iEamK~~~eI~a~~~G~i~~i~v~~g~ 143 (155)
T PRK06302 102 VEVGDTVKEGQTLCIIEAMKVMNEIEADKSGVVTEILVENGQ 143 (155)
T ss_pred cCCCCEeCCCCEEEEEEecccceEEecCCCeEEEEEEcCCCC
Confidence 8999999999999999999987766666778754 444443
No 154
>TIGR02975 phageshock_pspG phage shock protein G. This protein previously was designated yjbO in E. coli. It is found only in genomes that have the phage shock operon (psp), but only rarely is encoded near other psp genes. The psp regulon is upregulated in response to a number of stress conditions, including ethanol, expression of the filamentous phage secretin protein IV and other secretins, and heat shock.
Probab=27.28 E-value=1.8e+02 Score=19.00 Aligned_cols=27 Identities=22% Similarity=0.303 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHccchhhHHHHHHHH
Q 026550 12 VMVLIIIVWLLIVGLLTTKALLLILSQ 38 (237)
Q Consensus 12 ~~~i~~~~~l~~~g~~~~~ll~~~g~~ 38 (237)
+++++....+..-|++.-+.+++.++.
T Consensus 4 iFvl~F~~~Ll~TGisllgv~aA~~va 30 (64)
T TIGR02975 4 IFVLGFFVMLMVTGISLLGVLAALGVA 30 (64)
T ss_pred hHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 345555566666677766666655553
No 155
>PRK04306 50S ribosomal protein L21e; Reviewed
Probab=27.13 E-value=1.2e+02 Score=21.71 Aligned_cols=30 Identities=17% Similarity=0.018 Sum_probs=21.3
Q ss_pred CCCCCCcEEEEc--C-------------eeEEEEEEEeEEEEEEE
Q 026550 64 HPFDVGDRCVID--G-------------VQMVVEEMHILTTTFLR 93 (237)
Q Consensus 64 ~pf~vGD~I~i~--~-------------~~G~V~~I~l~~T~i~~ 93 (237)
+.|++||.|.|. + ..|+|...+=+.-.+.-
T Consensus 33 ~~y~~Gd~V~I~~d~sv~kGmPh~~yhGkTG~V~~v~~~A~~V~v 77 (98)
T PRK04306 33 QEFEEGDKVHIVIDPSVHKGMPHPRFHGKTGTVVGKRGRAYIVEV 77 (98)
T ss_pred HhccCCCEEEEEecCceecCCccccccCCCEEEEeecCeEEEEEE
Confidence 569999999873 2 35888887776655443
No 156
>PF11127 DUF2892: Protein of unknown function (DUF2892); InterPro: IPR021309 This family is conserved in bacteria. The function is not known.
Probab=26.92 E-value=1.8e+02 Score=18.58 Aligned_cols=37 Identities=11% Similarity=-0.004 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHH
Q 026550 3 ELNKLFTGIVMVLIIIVWLLIVGLLTTKALLLILSQV 39 (237)
Q Consensus 3 ~l~~i~~~~~~~i~~~~~l~~~g~~~~~ll~~~g~~~ 39 (237)
..++++++++.++.++..+.........+++.+|+..
T Consensus 7 ~~dR~~R~~~G~~l~~~~~~~~~~~~~~~~~~~g~~l 43 (66)
T PF11127_consen 7 TTDRIVRIIIGIVLLALGLLGLFGSWGWLLGFVGAML 43 (66)
T ss_pred hHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence 4567777777666665555444333333344444443
No 157
>PF07177 Neuralized: Neuralized; InterPro: IPR006573 NEUZ is a domain of unknown function found in neuralized proteins, i.e. proteins involved in the specification of the neuroblast during cellular differentiation. ; PDB: 2YUE_A 2E63_A.
Probab=26.81 E-value=46 Score=21.93 Aligned_cols=20 Identities=25% Similarity=0.697 Sum_probs=12.5
Q ss_pred HHhhhheeeeCCCCCCcEEEE
Q 026550 54 FEAIIFLFVTHPFDVGDRCVI 74 (237)
Q Consensus 54 ~~~gi~i~~~~pf~vGD~I~i 74 (237)
|..|+ ++.+||+++|+.+++
T Consensus 28 f~~gi-VFS~rPl~~~E~~~v 47 (69)
T PF07177_consen 28 FNNGI-VFSSRPLRIGEKFEV 47 (69)
T ss_dssp SSS-E-EEESS-B-TT-EEEE
T ss_pred CCceE-EEecCCccCCCEEEE
Confidence 33454 789999999999977
No 158
>PRK13254 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=26.76 E-value=2.2e+02 Score=21.83 Aligned_cols=15 Identities=20% Similarity=0.279 Sum_probs=10.1
Q ss_pred eeeCCCCCCcEEEEcC
Q 026550 61 FVTHPFDVGDRCVIDG 76 (237)
Q Consensus 61 ~~~~pf~vGD~I~i~~ 76 (237)
.-.++ ..|..++++|
T Consensus 44 ~~~~~-~~g~~vrvgG 58 (148)
T PRK13254 44 AEGEA-PAGRRFRLGG 58 (148)
T ss_pred hcCCc-cCCCeEEEeE
Confidence 33444 6788888877
No 159
>TIGR00427 membrane protein, MarC family. MarC is a protein that spans the plasma membrane multiple times and once was thought to be a multiple antibiotic resistance protein. The function for this family is unknown.
Probab=26.74 E-value=2.6e+02 Score=22.56 Aligned_cols=32 Identities=6% Similarity=-0.065 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHccchhhHHHHHHHHHHHHHH
Q 026550 13 MVLIIIVWLLIVGLLTTKALLLILSQVVLAVF 44 (237)
Q Consensus 13 ~~i~~~~~l~~~g~~~~~ll~~~g~~~~~igl 44 (237)
+.+..-.++..+|++..++-.+.|++-+.+|+
T Consensus 57 f~~~G~~iL~~fgIsl~afrIaGGiiL~~ia~ 88 (201)
T TIGR00427 57 FLVFGDTILKLFGISIDAFRIAGGILLFTIAM 88 (201)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 33344456678899999999988888765554
No 160
>cd05685 S1_Tex S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression. Tex has two functional domains, an N-terminal domain homologous to the Escherichia coli maltose repression protein, which is a poorly defined transcriptional factor, and a C-terminal S1 RNA-binding domain. Tex is found in prokaryotes, eukaryotes, and archaea.
Probab=26.67 E-value=1.6e+02 Score=18.08 Aligned_cols=37 Identities=14% Similarity=-0.014 Sum_probs=25.5
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcEEE
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPISN 113 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N 113 (237)
+.|+|.++.-.-..+.-.++..-.+|.+.+....+.|
T Consensus 4 ~~g~V~~i~~~G~fv~l~~~~~g~~~~~~l~~~~~~~ 40 (68)
T cd05685 4 LEGVVTNVTDFGAFVDIGVKQDGLIHISKMADRFVSH 40 (68)
T ss_pred EEEEEEEEecccEEEEcCCCCEEEEEHHHCCCccccC
Confidence 5688888876555555555666788888887655544
No 161
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=26.35 E-value=84 Score=21.10 Aligned_cols=20 Identities=25% Similarity=0.267 Sum_probs=16.3
Q ss_pred CCCCCCcEEEEcCeeEEEEE
Q 026550 64 HPFDVGDRCVIDGVQMVVEE 83 (237)
Q Consensus 64 ~pf~vGD~I~i~~~~G~V~~ 83 (237)
+-.+.||.|+++|..-.|..
T Consensus 51 kKlr~gd~V~i~~~~~~v~~ 70 (73)
T COG2501 51 KKLRDGDVVEIPGQRYQVVA 70 (73)
T ss_pred CEeecCCEEEECCEEEEEEe
Confidence 45889999999998877754
No 162
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=26.32 E-value=1.7e+02 Score=18.09 Aligned_cols=47 Identities=17% Similarity=0.093 Sum_probs=29.5
Q ss_pred EEEEEecCCCHHHHHHHHHHHHHHHhhCCCCCCCCcEEEEEeeeCce
Q 026550 125 VEFAIDVFTPIEKISYLKSTIKNYLESKPRHWSPTHSVVVKHIKDEK 171 (237)
Q Consensus 125 ~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~~~~~~v~~~~~~~~~ 171 (237)
+++.+....+.++-+++.+.+.+++.+.-+.......+.+.++..+.
T Consensus 3 I~i~~~~g~~~e~K~~l~~~it~~~~~~lg~~~~~i~V~i~E~~~~~ 49 (60)
T PF01361_consen 3 ITIKIPEGRTAEQKRELAEAITDAVVEVLGIPPERISVVIEEVPPEN 49 (60)
T ss_dssp EEEEEESTS-HHHHHHHHHHHHHHHHHHHTS-GGGEEEEEEEE-CCC
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHHhCcCCCeEEEEEEEEChhh
Confidence 45666666677776777777777777765554334677777777643
No 163
>PF03780 Asp23: Asp23 family; InterPro: IPR005531 This entry represents the alkaline shock protein 23 family. These small proteins are involved in alkaline pH tolerance of Staphylococcus aureus [,].
Probab=26.18 E-value=2.3e+02 Score=19.75 Aligned_cols=47 Identities=11% Similarity=0.092 Sum_probs=33.8
Q ss_pred ceeEEEEEEEecCCCHHH-HHHHHHHHHHHHhhCCCCCCCCcEEEEEe
Q 026550 120 DMRDAVEFAIDVFTPIEK-ISYLKSTIKNYLESKPRHWSPTHSVVVKH 166 (237)
Q Consensus 120 ~~~~~~~~~v~~~~~~~~-i~~~~~~i~~~l~~~~~~~~~~~~v~~~~ 166 (237)
.....+.+.+.|+.+..+ .+++++.+++.++...+..-....+.+.+
T Consensus 59 ~i~v~l~v~v~~g~~i~~v~~~iq~~V~~~v~~~tg~~v~~V~V~V~~ 106 (108)
T PF03780_consen 59 GITVDLHVVVEYGVNIPEVAEEIQEKVKEAVEEMTGIEVSEVNVHVED 106 (108)
T ss_pred ceEEEEEEEEECCccHHHHHHHHHHHHHHHHHHHHCCeeEEEEEEEEe
Confidence 567788899999998665 56688888888888776643344555444
No 164
>PF10842 DUF2642: Protein of unknown function (DUF2642); InterPro: IPR020139 This entry contains proteins with no known function.
Probab=25.83 E-value=2e+02 Score=18.88 Aligned_cols=39 Identities=13% Similarity=0.242 Sum_probs=30.5
Q ss_pred CCcEEEE----cCeeEEEEEEEeEEEEEEEeCCcEEEEeccccc
Q 026550 68 VGDRCVI----DGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLA 107 (237)
Q Consensus 68 vGD~I~i----~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~ 107 (237)
+|.++.+ |...|.+.++.-=+..++.. |+..+|..+++.
T Consensus 20 iG~~vvV~T~~g~v~G~L~~V~pDhIvl~~~-~~~~~IR~~~IV 62 (66)
T PF10842_consen 20 IGQRVVVQTTRGSVRGILVDVKPDHIVLEEN-GTPFFIRIAQIV 62 (66)
T ss_pred cCCEEEEEEcCCcEEEEEEeecCCEEEEEeC-CcEEEEEeeeEE
Confidence 6888887 45788888888888877775 888888877663
No 165
>COG0511 AccB Biotin carboxyl carrier protein [Lipid metabolism]
Probab=25.74 E-value=98 Score=23.41 Aligned_cols=35 Identities=17% Similarity=0.127 Sum_probs=30.0
Q ss_pred CCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEE
Q 026550 66 FDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIF 100 (237)
Q Consensus 66 f~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~ 100 (237)
.++||.|+-|..-+.|+.+.+....--..+|.+.-
T Consensus 86 V~vGd~V~~Gq~l~IiEAMKmeneI~A~~~G~V~~ 120 (140)
T COG0511 86 VEVGDTVKAGQTLAIIEAMKMENEIEAPADGVVKE 120 (140)
T ss_pred eccCCEEcCCCEEEEEEeeeccceecCCCCcEEEE
Confidence 68999999999999999999988877777777643
No 166
>cd05697 S1_Rrp5_repeat_hs5 S1_Rrp5_repeat_hs5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 5 (hs5) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=25.71 E-value=1.8e+02 Score=18.37 Aligned_cols=35 Identities=17% Similarity=0.074 Sum_probs=24.0
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcE
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPI 111 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i 111 (237)
+.|+|.++.=.-..+.-.+|-.-.+|-+.+.....
T Consensus 4 v~g~V~~v~~~Gv~V~l~~~v~g~i~~~~l~~~~~ 38 (69)
T cd05697 4 VKGTIRKLRPSGIFVKLSDHIKGLVPPMHLADVRL 38 (69)
T ss_pred EEEEEEEEeccEEEEEecCCcEEEEEHHHCCCccc
Confidence 56888888766666665566677888777766544
No 167
>PF01914 MarC: MarC family integral membrane protein; InterPro: IPR002771 Members of this family are integral membrane proteins that includes the antibiotic resistance protein MarC. These proteins may be transporters. ; GO: 0016021 integral to membrane
Probab=25.46 E-value=3e+02 Score=22.22 Aligned_cols=30 Identities=10% Similarity=-0.041 Sum_probs=22.1
Q ss_pred HHHHHHHHHHccchhhHHHHHHHHHHHHHH
Q 026550 15 LIIIVWLLIVGLLTTKALLLILSQVVLAVF 44 (237)
Q Consensus 15 i~~~~~l~~~g~~~~~ll~~~g~~~~~igl 44 (237)
+..-.++..+|+++.++-.+.|++-+.+|+
T Consensus 56 ~~G~~iL~~fgIsl~af~IaGGiiL~~ia~ 85 (203)
T PF01914_consen 56 FFGQLILNFFGISLPAFRIAGGIILFLIAL 85 (203)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 333455677899999999999988775554
No 168
>TIGR00531 BCCP acetyl-CoA carboxylase, biotin carboxyl carrier protein. The gene name is accB or fabE.
Probab=25.25 E-value=1.1e+02 Score=23.71 Aligned_cols=40 Identities=18% Similarity=0.306 Sum_probs=33.0
Q ss_pred CCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEE--EEeccc
Q 026550 66 FDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKI--FYPNSV 105 (237)
Q Consensus 66 f~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v--~IPNs~ 105 (237)
.++||.|+-|..-+.|+.+.+....--..+|.+. .+.|+.
T Consensus 103 v~~Gd~V~~Gq~l~iiEamK~~~eI~A~~~G~v~~i~v~~g~ 144 (156)
T TIGR00531 103 VEVGDKVKKGQIVCIVEAMKLMNEIEAEVAGKVVEILVENGQ 144 (156)
T ss_pred ccCCCEeCCCCEEEEEEecccceEEecCCCcEEEEEEeCCCC
Confidence 6999999999999999999998877777888764 555544
No 169
>cd06850 biotinyl_domain The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase, oxaloacetate decarboxylase, methylmalonyl-CoA decarboxylase, transcarboxylase and urea amidolyase. This domain functions in transferring CO2 from one subsite to another, allowing carboxylation, decarboxylation, or transcarboxylation. During this process, biotin is covalently attached to a specific lysine.
Probab=25.23 E-value=1.3e+02 Score=18.58 Aligned_cols=24 Identities=21% Similarity=0.198 Sum_probs=18.8
Q ss_pred CCCCCCcEEEEcCeeEEEEEEEeE
Q 026550 64 HPFDVGDRCVIDGVQMVVEEMHIL 87 (237)
Q Consensus 64 ~pf~vGD~I~i~~~~G~V~~I~l~ 87 (237)
-..+.||.|+-+...+.++.....
T Consensus 13 ~~v~~G~~v~~g~~l~~i~~~~~~ 36 (67)
T cd06850 13 VLVKEGDKVEAGQPLAVLEAMKME 36 (67)
T ss_pred EEeCCCCEECCCCEEEEEEcccEE
Confidence 346789999999999998876543
No 170
>TIGR03784 marine_sortase sortase, marine proteobacterial type. Members of this protein family are sortase enzymes, cysteine transpeptidases involved in protein sorting activities. Members of this family tend to be found in proteobacteria, rather than in Gram-positive bacteria where sortases attach proteins to the Gram-positive cell wall or participate in pilin cross-linking. Many species with this sortase appear to contain a signal target sequence, a protein with a Vault protein inter-alpha-trypsin domain (pfam08487) and a von Willebrand factor type A domain (pfam00092), encoded by an adjacent gene. These sortases are designated subfamily 6 according to Comfort and Clubb (2004).
Probab=25.15 E-value=1.3e+02 Score=23.69 Aligned_cols=36 Identities=8% Similarity=0.099 Sum_probs=19.6
Q ss_pred CCCCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEE
Q 026550 64 HPFDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKI 99 (237)
Q Consensus 64 ~pf~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v 99 (237)
+-.++||.|.+....|+...=....+++.+.+...+
T Consensus 107 ~~L~~GD~I~v~~~~g~~~~Y~V~~~~iV~~~d~~v 142 (174)
T TIGR03784 107 QELRPGDVIRLQTPDGQWQSYQVTATRVVDESETGL 142 (174)
T ss_pred hhCCCCCEEEEEECCCeEEEEEEeEEEEECCcccee
Confidence 357899999995544443322233334455444333
No 171
>PF03061 4HBT: Thioesterase superfamily; InterPro: IPR006683 This family contains a wide variety of enzymes, principally thioesterases. This family includes 4HBT (3.1.2.23 from EC) which catalyses the final step in the biosynthesis of 4-hydroxybenzoate from 4-chlorobenzoate in the soil dwelling microbe Pseudomonas CBS-3. This family includes various cytosolic long-chain acyl-CoA thioester hydrolases. Long-chain acyl-CoA hydrolases hydrolyse palmitoyl-CoA to CoA and palmitate, they also catalyse the hydrolysis of other long chain fatty acyl-CoA thioesters. ; PDB: 3F5O_F 2F0X_D 2H4U_C 2PRX_A 2OV9_D 1YLI_B 3BJK_F 1IXL_A 3DKZ_B 2EIS_B ....
Probab=25.03 E-value=1.2e+02 Score=19.32 Aligned_cols=28 Identities=14% Similarity=0.172 Sum_probs=19.2
Q ss_pred hheeeeCCCCCCcEEEEcCeeEEEEEEEeEE
Q 026550 58 IFLFVTHPFDVGDRCVIDGVQMVVEEMHILT 88 (237)
Q Consensus 58 i~i~~~~pf~vGD~I~i~~~~G~V~~I~l~~ 88 (237)
+-+-+-+|.+.||.+.+.. +|.+++=++
T Consensus 36 ~~i~f~~p~~~gd~l~~~~---~v~~~g~~~ 63 (79)
T PF03061_consen 36 LSIDFLRPVRPGDTLRVEA---RVVRVGRKS 63 (79)
T ss_dssp EEEEESS-BBTTSEEEEEE---EEEEEESSE
T ss_pred EEEEEccccCCCeEEEEEE---EEEEECCEE
Confidence 4567889999999999866 444444443
No 172
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=24.83 E-value=1.8e+02 Score=17.99 Aligned_cols=46 Identities=11% Similarity=0.067 Sum_probs=31.6
Q ss_pred EEEEEecCCCHHHHHHHHHHHHHHHhhCCCCCCCCcEEEEEeeeCc
Q 026550 125 VEFAIDVFTPIEKISYLKSTIKNYLESKPRHWSPTHSVVVKHIKDE 170 (237)
Q Consensus 125 ~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~~~~~~v~~~~~~~~ 170 (237)
+.+.+...-+.++-+++-+.+.+.+.+.-+.......+.+.+..++
T Consensus 4 i~I~~~~grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~ 49 (62)
T PRK00745 4 FHIELFEGRTVEQKRKLVEEITRVTVETLGCPPESVDIIITDVKRE 49 (62)
T ss_pred EEEEEcCCCCHHHHHHHHHHHHHHHHHHcCCChhHEEEEEEEcChH
Confidence 4455555556777777888888888887776544567777777653
No 173
>PHA02909 hypothetical protein; Provisional
Probab=24.73 E-value=1.9e+02 Score=18.27 Aligned_cols=20 Identities=20% Similarity=0.355 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 026550 5 NKLFTGIVMVLIIIVWLLIV 24 (237)
Q Consensus 5 ~~i~~~~~~~i~~~~~l~~~ 24 (237)
.-+.+++++++..+..+.++
T Consensus 33 cimvsfilfviiflsmftil 52 (72)
T PHA02909 33 CIMVSFILFVIIFLSMFTIL 52 (72)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 33445555555444444433
No 174
>KOG1484 consensus Putative Zn2+ transporter MSC2 (cation diffusion facilitator superfamily) [Inorganic ion transport and metabolism]
Probab=24.68 E-value=4.9e+02 Score=23.03 Aligned_cols=68 Identities=13% Similarity=0.137 Sum_probs=40.7
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCC-CCCcEEEEEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCc
Q 026550 133 TPIEKISYLKSTIKNYLESKPRHW-SPTHSVVVKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIR 211 (237)
Q Consensus 133 ~~~~~i~~~~~~i~~~l~~~~~~~-~~~~~v~~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~ 211 (237)
+|++....+++.+++..+ .+++. -..|.++-.+.+...=.+.+++. .|.+++ .++..+.+.+++.|++
T Consensus 270 tPp~~~~~l~~cl~~Is~-~~gV~~v~~~hFWt~~~g~~vGtlhl~V~-----~dade~-----~vl~~V~~~~~~~gV~ 338 (354)
T KOG1484|consen 270 TPPHLENSLKQCLRQIST-LDGVTSVQNPHFWTLESGSVVGTLHLQVS-----SDADEQ-----SVLAHVTRKLEDAGVK 338 (354)
T ss_pred CChhhhhHHHHHHHHhhc-cccceeeccCceeeccCCceEEEEEEEEe-----cCcchh-----HHHHHHHHHHHhccee
Confidence 444444456665554433 55555 46677777666664444455553 344333 3667888999999987
No 175
>smart00316 S1 Ribosomal protein S1-like RNA-binding domain.
Probab=24.68 E-value=1.8e+02 Score=17.84 Aligned_cols=34 Identities=21% Similarity=0.086 Sum_probs=26.5
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCc
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKP 110 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~ 110 (237)
+.|+|.+++-....+.-..+..-.+|.+.+....
T Consensus 6 v~g~V~~v~~~g~~v~i~~~~~g~l~~~~~~~~~ 39 (72)
T smart00316 6 VEGTVTEITPFGAFVDLGNGVEGLIPISELSDKR 39 (72)
T ss_pred EEEEEEEEEccEEEEEeCCCCEEEEEHHHCCccc
Confidence 4688998888777777665778899999887653
No 176
>PF02298 Cu_bind_like: Plastocyanin-like domain; InterPro: IPR003245 Blue (type 1) copper proteins are small proteins which bind a single copper atom and which are characterised by an intense electronic absorption band near 600 nm [, ]. The most well known members of this class of proteins are the plant chloroplastic plastocyanins, which exchange electrons with cytochrome c6, and the distantly related bacterial azurins, which exchange electrons with cytochrome c551. This family of proteins also includes amicyanin from bacteria such as Methylobacterium extorquens or Paracoccus versutus (Thiobacillus versutus) that can grow on methylamine; auracyanins A and B from Chloroflexus aurantiacus []; blue copper protein from Alcaligenes faecalis; cupredoxin (CPC) from Cucumis sativus (Cucumber) peelings []; cusacyanin (basic blue protein; plantacyanin, CBP) from cucumber; halocyanin from Natronomonas pharaonis (Natronobacterium pharaonis) [], a membrane associated copper-binding protein; pseudoazurin from Pseudomonas; rusticyanin from Thiobacillus ferrooxidans []; stellacyanin from Rhus vernicifera (Japanese lacquer tree); umecyanin from the roots of Armoracia rusticana (Horseradish); and allergen Ra3 from ragweed. Although there is an appreciable amount of divergence in the sequences of all these proteins, the copper ligand sites are conserved. This domain is found in a variety of plant cyanins and pollern allergen. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Amb a 3.; GO: 0005507 copper ion binding, 0009055 electron carrier activity; PDB: 1JER_A 1WS7_A 1WS8_D 1F56_B 1X9R_B 1X9U_A 2CBP_A.
Probab=24.67 E-value=38 Score=23.24 Aligned_cols=24 Identities=33% Similarity=0.403 Sum_probs=14.7
Q ss_pred eeCCCCCCcEEEEc--CeeEEEEEEE
Q 026550 62 VTHPFDVGDRCVID--GVQMVVEEMH 85 (237)
Q Consensus 62 ~~~pf~vGD~I~i~--~~~G~V~~I~ 85 (237)
..+.|++||.+.+. .-.-.|.+++
T Consensus 15 ~~~~F~vGD~LvF~y~~~~h~V~~V~ 40 (85)
T PF02298_consen 15 SGKTFRVGDTLVFNYDSGQHSVVEVS 40 (85)
T ss_dssp CTS-BETTEEEEEE--TTTB-EEEES
T ss_pred cCCcEeCCCEEEEEecCCCCeEEecC
Confidence 36899999999882 2234555544
No 177
>PF05113 DUF693: Protein of unknown function (DUF693); InterPro: IPR007800 This family consists of uncharacterised proteins from Borrelia burgdorferi.
Probab=24.28 E-value=74 Score=27.14 Aligned_cols=35 Identities=20% Similarity=0.134 Sum_probs=29.4
Q ss_pred heeeeCCCCCCcEEEEcCeeEEEEEEEeEEEEEEE
Q 026550 59 FLFVTHPFDVGDRCVIDGVQMVVEEMHILTTTFLR 93 (237)
Q Consensus 59 ~i~~~~pf~vGD~I~i~~~~G~V~~I~l~~T~i~~ 93 (237)
.+++.+-.+|||-+.+-+-.|.+.+-+...|..|-
T Consensus 260 ~i~yTHklkVGDkvSFiD~~Gn~Ik~tI~~TSA~L 294 (314)
T PF05113_consen 260 QIMYTHKLKVGDKVSFIDRLGNMIKTTIKETSARL 294 (314)
T ss_pred EEEEEeeeecCCceEEecccCcEEeeeEecceeee
Confidence 57899999999999998878888887777777664
No 178
>cd00288 Pyruvate_Kinase Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low affinity T state. PK exists as several different isozymes, depending on organism and tissue type. In mammals, there are four PK isozymes: R, found in red blood cells, L, found in liver, M1, found in skeletal muscle, and M2, found in kidney, adipose tissue, and lung. PK forms a homotetramer, with each subunit containing three domains. The T state to R state transition of PK is more complex than in most allosteric enzymes, involving a concerted rotation of all 3 domains of each monomer in the homotetramer.
Probab=24.20 E-value=99 Score=28.69 Aligned_cols=84 Identities=8% Similarity=0.131 Sum_probs=46.9
Q ss_pred CCCCCCcEEEEcC--eeEEEEEEEeE---EEEEEE----eCCcEEEEecccccCCcEEEEEcCCcc--eeEEE-EEEEec
Q 026550 64 HPFDVGDRCVIDG--VQMVVEEMHIL---TTTFLR----YDNEKIFYPNSVLATKPISNFYRSTVD--MRDAV-EFAIDV 131 (237)
Q Consensus 64 ~pf~vGD~I~i~~--~~G~V~~I~l~---~T~i~~----~~g~~v~IPNs~l~~~~i~N~s~~~~~--~~~~~-~~~v~~ 131 (237)
+.+++||.|-+|+ ..-+|++++=. .+++.+ .+++-+.+|+..+.-..++..-+.+-. ....+ .+.+++
T Consensus 116 ~~v~~Gd~i~idDG~i~l~V~~~~~~~~i~~~v~~~G~l~~~kgin~p~~~~~~p~ltekD~~di~f~~~~~vD~ia~SF 195 (480)
T cd00288 116 KDVSPGNTILVDDGLLSLKVLSKDDDKTLVCEVLNGGVLGSRKGVNLPGTDVDLPALSEKDKADLRFGVEQGVDMIFASF 195 (480)
T ss_pred hhcCCCCEEEEeCCEEEEEEEEEcCCceEEEEEEeCeEEcCCCceEeeCcccCCCCCCHHHHHHHHHHHHcCCCEEEECC
Confidence 4589999999954 66778777532 333332 124446688876543333222111100 00111 266777
Q ss_pred CCCHHHHHHHHHHHHH
Q 026550 132 FTPIEKISYLKSTIKN 147 (237)
Q Consensus 132 ~~~~~~i~~~~~~i~~ 147 (237)
-.+.++++.+++.+.+
T Consensus 196 V~~~~di~~~r~~l~~ 211 (480)
T cd00288 196 VRKASDVLEIREVLGE 211 (480)
T ss_pred CCCHHHHHHHHHHHHh
Confidence 7778887777777654
No 179
>PF01868 UPF0086: Domain of unknown function UPF0086; InterPro: IPR002730 The p29 subunit (also known as Rpp29 or Pop4) of the related ribonucleoproteins ribonuclease (RNase) P and RNase MRP can be found in both eukaryotes and arachea []. The structure of the RNase P subunit, Rpp29, from Methanobacterium thermoautotrophicum has been determined. Mth Rpp29 is a member of the oligonucleotide/oligosaccharide binding fold family. It contains a structured beta-barrel core and unstructured N- and C-terminal extensions bearing several highly conserved amino acid residues that could be involved in RNA contacts in the protein-RNA complex []. Rpp29 (3.1.26.5 from EC) catalyses the endonucleolytic cleavage of RNA, removing 5'-extranucleotides from tRNA precursor. It interacts with the Rpp25 and Pop5 subunits. RNase P is a ubiquitous ribonucleoprotein enzyme primarily responsible for cleaving the 5' leader sequence during maturation of tRNAs in all three domains of life. In eubacteria, this enzyme is made up of two subunits: a large RNA (approximately 120 kDa) responsible for mediating catalysis, and a small protein cofactor (approximately 15 kDa) that modulates substrate recognition and is required for efficient in vivo catalysis. In contrast, multiple proteins are associated with eukaryotic and archaeal RNase P, and these proteins exhibit no recognizable homology to the conserved bacterial protein subunit. In reconstitution experiments with recombinantly expressed and purified protein subunits Mth Rpp29, a homologue of the Rpp29 protein subunit from eukaryotic RNase P, is an essential protein component of the archaeal holoenzyme []. In Saccharomyces cerevisiae (Baker's yeast), RNase P consists of 9 protein subunits (Pop1, Pop3-8, Rpr2 and Rpp1), while in humans there are 10 subunits (Rpp14, 20, 21, 25, 29, 30, 38, 40, hPop1, 5). RNase MRP (mitochondrial RNA processing) is an rRNA processing enzyme that cleaves a specific site within precursor rRNA to generate the mature 5'-end of 5.8S rRNA []. RNase MRP also cleaves primers for mitochondrial DNA replication and CLB2 mRNA. In yeast, RNase MRP possesses one putatively catalytic RNA and at least 9 protein subunits and is highly related to RNase P (Pop1, Pop3-Pop8, Rpp1, Snm1 and Rmp1).; GO: 0003723 RNA binding, 0004540 ribonuclease activity, 0006364 rRNA processing, 0006379 mRNA cleavage, 0008033 tRNA processing, 0000172 ribonuclease MRP complex, 0030677 ribonuclease P complex; PDB: 1V76_B 2ZAE_C 1OQK_A 2KI7_A 1TSF_A 1TS9_A 1PC0_A.
Probab=23.95 E-value=1.3e+02 Score=20.84 Aligned_cols=29 Identities=17% Similarity=0.198 Sum_probs=25.1
Q ss_pred CeeEEEEEEEeEEEEEEEeCCcEEEEecc
Q 026550 76 GVQMVVEEMHILTTTFLRYDNEKIFYPNS 104 (237)
Q Consensus 76 ~~~G~V~~I~l~~T~i~~~~g~~v~IPNs 104 (237)
|..|.|.+=+-.+-.+.+.+|+..+||-+
T Consensus 29 G~~GiVV~ETknt~~I~t~~~~~~~IpK~ 57 (89)
T PF01868_consen 29 GIEGIVVDETKNTFVIVTEDGKVKTIPKA 57 (89)
T ss_dssp TEEEEEEEEETTEEEEEETTEEEEEEEST
T ss_pred CCEEEEEEcccceEEEEecCCcEEEEecC
Confidence 58899999888888899999989999864
No 180
>PLN03148 Blue copper-like protein; Provisional
Probab=23.93 E-value=72 Score=25.11 Aligned_cols=24 Identities=29% Similarity=0.279 Sum_probs=16.6
Q ss_pred eeCCCCCCcEEEEc--CeeEEEEEEE
Q 026550 62 VTHPFDVGDRCVID--GVQMVVEEMH 85 (237)
Q Consensus 62 ~~~pf~vGD~I~i~--~~~G~V~~I~ 85 (237)
-.+.|++||++.+. .....|.+++
T Consensus 42 ~~k~F~VGD~LvF~Y~~~~hnV~~V~ 67 (167)
T PLN03148 42 NNQTFYVGDLISFRYQKTQYNVFEVN 67 (167)
T ss_pred cCCCCccCCEEEEEecCCCceEEEEC
Confidence 46899999999873 3334565553
No 181
>cd05707 S1_Rrp5_repeat_sc11 S1_Rrp5_repeat_sc11: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 11 (sc11). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=23.75 E-value=2e+02 Score=18.12 Aligned_cols=37 Identities=11% Similarity=-0.086 Sum_probs=25.2
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcEEE
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPISN 113 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~N 113 (237)
+.|+|.++.=.-..+.-.++-.-.+|.+.+....+.+
T Consensus 4 v~g~V~~v~~~Gv~V~l~~~~~G~v~~s~l~~~~~~~ 40 (68)
T cd05707 4 VRGFVKNIANNGVFVTLGRGVDARVRVSELSDSYLKD 40 (68)
T ss_pred EEEEEEEEECccEEEEeCCCCEEEEEHHHCCchhhcC
Confidence 4678888765555555555666788888887666655
No 182
>PRK10739 putative antibiotic transporter; Provisional
Probab=23.73 E-value=3.2e+02 Score=22.04 Aligned_cols=31 Identities=13% Similarity=-0.052 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHccchhhHHHHHHHHHHHHHH
Q 026550 14 VLIIIVWLLIVGLLTTKALLLILSQVVLAVF 44 (237)
Q Consensus 14 ~i~~~~~l~~~g~~~~~ll~~~g~~~~~igl 44 (237)
.+..-.++..||+++.++-.+.|++-+.+|+
T Consensus 55 ~~~G~~iL~~fGIsl~afrIAGGilL~~ial 85 (197)
T PRK10739 55 LFAGEKILAFLNLRTETVSISGGIILFLIAI 85 (197)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 3333455678899999999888888765554
No 183
>PLN03107 eukaryotic translation initiation factor 5A; Provisional
Probab=23.63 E-value=1.2e+02 Score=23.54 Aligned_cols=25 Identities=24% Similarity=0.210 Sum_probs=21.7
Q ss_pred eCCCCCCcEEEEcCeeEEEEEEEeE
Q 026550 63 THPFDVGDRCVIDGVQMVVEEMHIL 87 (237)
Q Consensus 63 ~~pf~vGD~I~i~~~~G~V~~I~l~ 87 (237)
..-+|.|..|.++|..+.|.++...
T Consensus 23 ~~~lKkG~~I~~~g~pc~V~e~~~~ 47 (159)
T PLN03107 23 AGTIRKGGYIVIKGRPCKVVEVSTS 47 (159)
T ss_pred hHhccCCCEEEECCEEEEEEEEEec
Confidence 4568999999999999999998663
No 184
>COG1607 Acyl-CoA hydrolase [Lipid metabolism]
Probab=23.60 E-value=92 Score=24.23 Aligned_cols=29 Identities=17% Similarity=0.120 Sum_probs=20.9
Q ss_pred eeeeCCCCCCcEEEEcCeeEEEEEEEeEEEEE
Q 026550 60 LFVTHPFDVGDRCVIDGVQMVVEEMHILTTTF 91 (237)
Q Consensus 60 i~~~~pf~vGD~I~i~~~~G~V~~I~l~~T~i 91 (237)
+.|.+|.++||.|.+.+ .|.++|=.|.++
T Consensus 64 v~F~~Pv~vGd~v~~~a---~v~~~GrTSm~V 92 (157)
T COG1607 64 VDFKKPVRVGDIVCLYA---RVVYTGRTSMEV 92 (157)
T ss_pred EEEccccccCcEEEEEE---EEeecCcccEEE
Confidence 57899999999999754 566555544443
No 185
>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function.; PDB: 2HJ1_B.
Probab=23.58 E-value=42 Score=23.23 Aligned_cols=15 Identities=27% Similarity=0.337 Sum_probs=8.1
Q ss_pred eeeeCCCCCCcEEEE
Q 026550 60 LFVTHPFDVGDRCVI 74 (237)
Q Consensus 60 i~~~~pf~vGD~I~i 74 (237)
.-.+.+.+.||+|+|
T Consensus 56 ~~~d~~L~~GDRVEI 70 (84)
T PF03658_consen 56 VKLDTVLRDGDRVEI 70 (84)
T ss_dssp --TT-B--TT-EEEE
T ss_pred cCCCCcCCCCCEEEE
Confidence 456888999999998
No 186
>PF07076 DUF1344: Protein of unknown function (DUF1344); InterPro: IPR009780 This family consists of several short, hypothetical bacterial proteins of around 80 residues in length. Members of this family are found in Rhizobium, Agrobacterium and Brucella species. The function of this family is unknown.
Probab=23.35 E-value=1.3e+02 Score=19.46 Aligned_cols=30 Identities=17% Similarity=0.153 Sum_probs=25.7
Q ss_pred cCeeEEEEEEEeEEEEEEEeCCcEEEEecc
Q 026550 75 DGVQMVVEEMHILTTTFLRYDNEKIFYPNS 104 (237)
Q Consensus 75 ~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs 104 (237)
+..+|+|.+|+--.-++.-.||+....|-.
T Consensus 3 ~~veG~I~~id~~~~titLdDGksy~lp~e 32 (61)
T PF07076_consen 3 ADVEGTIKSIDPETMTITLDDGKSYKLPEE 32 (61)
T ss_pred ccceEEEEEEcCCceEEEecCCCEEECCCc
Confidence 457899999999998998889998888754
No 187
>cd04465 S1_RPS1_repeat_ec2_hs2 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain.While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 2 of the Escherichia coli and Homo sapiens RPS1 (ec2 and hs2, respectively). Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=23.16 E-value=2e+02 Score=18.03 Aligned_cols=35 Identities=20% Similarity=0.188 Sum_probs=24.4
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcEE
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPIS 112 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i~ 112 (237)
+.|+|+++.-.--.+.- +|-.-++|++.+....+.
T Consensus 4 v~g~V~~v~~~G~~v~l-~g~~gfip~s~~~~~~~~ 38 (67)
T cd04465 4 VEGKVTEKVKGGLIVDI-EGVRAFLPASQVDLRPVE 38 (67)
T ss_pred EEEEEEEEECCeEEEEE-CCEEEEEEHHHCCCcccC
Confidence 46788887655544443 788889999988765543
No 188
>PF11247 DUF2675: Protein of unknown function (DUF2675) ; InterPro: IPR022611 Members in this family of proteins include Bacteriophage T7 gene 5.5; they have no known function.
Probab=23.11 E-value=2.3e+02 Score=20.16 Aligned_cols=86 Identities=14% Similarity=0.153 Sum_probs=48.0
Q ss_pred eEEEEEEEecCCCHHHHHHHHHHHHHHHhhCCCCCCCCcEEEEEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHH
Q 026550 122 RDAVEFAIDVFTPIEKISYLKSTIKNYLESKPRHWSPTHSVVVKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLEL 201 (237)
Q Consensus 122 ~~~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~~~~~~v~~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i 201 (237)
+..++|.+....+-+.-+.+.+.+.+.+++...-.. + +.+...-+. ....+ -.+.-....+|+-++..|
T Consensus 6 rfKVSF~vtav~~se~e~~~~e~ll~Lak~v~~GE~----~--~~~~re~l~--qaLT~---G~egav~f~~k~g~R~~I 74 (98)
T PF11247_consen 6 RFKVSFDVTAVIDSEQEEEFEEDLLELAKKVGAGEK----V--SGFQREMLV--QALTH---GPEGAVAFVVKQGIREAI 74 (98)
T ss_pred eEEEEEEEEEEeCHHHHHHHHHHHHHHHhhcCCccc----c--CHHHHHHHH--HHHhc---ChHHHHHHHHHHHHHHHH
Confidence 456667776666666666788888888876543210 0 111111000 00111 123334457788899999
Q ss_pred HHHHHHcC----CcccccCCceEE
Q 026550 202 KRIFEEAA----IRIYHVLPQEVQ 221 (237)
Q Consensus 202 ~~~l~~~g----I~~~~~p~~~v~ 221 (237)
.+.+++.+ ++ +.|-+++
T Consensus 75 Ke~~~E~s~k~~~~---~sPatvR 95 (98)
T PF11247_consen 75 KEMLSEYSDKESFK---FSPATVR 95 (98)
T ss_pred HHHHHHhcccccee---ecCceEE
Confidence 99998887 54 4555443
No 189
>PF03471 CorC_HlyC: Transporter associated domain; InterPro: IPR005170 This small domain is found in a family of proteins with the CBS IPR002550 from INTERPRO domain and two CBS domains with this domain found at the C terminus of the proteins, the domain is also found at the C terminus of some Na+/H+ antiporters. This domain is also found in CorC that is involved in Magnesium and cobalt efflux. The function of this domain is uncertain but might be involved in modulating transport of ion substrates.; PDB: 3DED_F 2PLI_C 2R2Z_A 2P4P_A 2O3G_A 2P3H_A 3LLB_A 3LAE_A 2P13_B 2NQW_A ....
Probab=22.99 E-value=1.3e+02 Score=20.03 Aligned_cols=34 Identities=24% Similarity=0.274 Sum_probs=22.3
Q ss_pred HHhhhheeeeCCCCCCcEEEEc--CeeEEEEEEEeE
Q 026550 54 FEAIIFLFVTHPFDVGDRCVID--GVQMVVEEMHIL 87 (237)
Q Consensus 54 ~~~gi~i~~~~pf~vGD~I~i~--~~~G~V~~I~l~ 87 (237)
++|.++-.+.+.=++||.++++ +..-+|.++.=+
T Consensus 35 l~G~i~~~l~~iP~~Ge~~~i~~~~~~~~V~~~~~~ 70 (81)
T PF03471_consen 35 LGGLILEQLGRIPEVGERVEIELENYEFEVLEMDGR 70 (81)
T ss_dssp HHHHHHHHHTSS--TTSEEEEEETTEEEEEEEEETT
T ss_pred HHHHHHHHcCCCCCCCeEEEEEcCCEEEEEEEeeCC
Confidence 4444555667888899976665 988888877543
No 190
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=22.96 E-value=2.3e+02 Score=19.03 Aligned_cols=38 Identities=16% Similarity=0.363 Sum_probs=24.0
Q ss_pred CCCCCcEEEE---cCeeEEEEEEEeEEEEEEEeCCcE-EEEecccccC
Q 026550 65 PFDVGDRCVI---DGVQMVVEEMHILTTTFLRYDNEK-IFYPNSVLAT 108 (237)
Q Consensus 65 pf~vGD~I~i---~~~~G~V~~I~l~~T~i~~~~g~~-v~IPNs~l~~ 108 (237)
-|++||.+++ .+..|.|.=+ -.+.+|+. ...||..-.+
T Consensus 2 ~~~~Ge~v~~~~~~~~~~Yl~l~------~~~~~G~v~~L~Pn~~~~~ 43 (83)
T PF14326_consen 2 VYRVGERVRFRVTSNRDGYLYLF------YIDADGKVTLLFPNRYQPD 43 (83)
T ss_pred cccCCCEEEEEEEeCCCeEEEEE------EECCCCCEEEEecCccccC
Confidence 4789999987 3444544322 23567766 5788866555
No 191
>PRK13380 glycine cleavage system protein H; Provisional
Probab=22.89 E-value=3.5e+02 Score=20.61 Aligned_cols=69 Identities=13% Similarity=0.027 Sum_probs=47.0
Q ss_pred HhhHHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEEEecccccCC-cEEEEEcC
Q 026550 45 LFGNTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLATK-PISNFYRS 117 (237)
Q Consensus 45 a~q~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~-~i~N~s~~ 117 (237)
++.+.++..+ | -..+++ .-++||.|+-|+..|.|+...+-+...--.+|+++-+ |..+.++ ...|-+..
T Consensus 34 Gitd~aq~~l-G-~I~~v~-lp~~G~~V~~Gd~~~~IEs~K~~~~v~sPvsG~Vv~v-N~~l~~~P~lln~dpy 103 (144)
T PRK13380 34 GITDYAQTMA-G-DVVFVR-LKELGKKVEKGKPVATLESGKWAGPVPAPLTGEVVEV-NEALEDSPELVNEDPY 103 (144)
T ss_pred ecCHHHHHhc-C-CEEEEE-cCCCCCEeeCCCeEEEEEEcceEeeeecCcCEEEEEE-HHhhhhChHHhcCCCC
Confidence 3445566644 3 223434 3378999999999999999999877777788988887 5555543 34454443
No 192
>cd05706 S1_Rrp5_repeat_sc10 S1_Rrp5_repeat_sc10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 10 (sc10). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=22.80 E-value=2.2e+02 Score=18.18 Aligned_cols=35 Identities=3% Similarity=-0.352 Sum_probs=22.1
Q ss_pred eeEEEEEEEeEEEEEEEeCCcEEEEecccccCCcE
Q 026550 77 VQMVVEEMHILTTTFLRYDNEKIFYPNSVLATKPI 111 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~~i 111 (237)
+.|+|.++.=..-.+.-.++-.-.+|.+.+.....
T Consensus 7 v~g~V~~v~~~gi~v~l~~~~~g~v~~s~l~~~~~ 41 (73)
T cd05706 7 LPGRVTKVNDRYVLVQLGNKVTGPSFITDALDDYS 41 (73)
T ss_pred EEEEEEEEeCCeEEEEeCCCcEEEEEhhhccCccc
Confidence 36788877655555555556666777777765443
No 193
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=22.74 E-value=2.1e+02 Score=18.07 Aligned_cols=42 Identities=12% Similarity=0.181 Sum_probs=25.9
Q ss_pred eCCCCCCcEEEE---cC---eeEEEEEEEe---EEEEEEEeCCcEEEEeccc
Q 026550 63 THPFDVGDRCVI---DG---VQMVVEEMHI---LTTTFLRYDNEKIFYPNSV 105 (237)
Q Consensus 63 ~~pf~vGD~I~i---~~---~~G~V~~I~l---~~T~i~~~~g~~v~IPNs~ 105 (237)
.+-|..|+.|.. ++ ..|+|.+.+- +++.+-. ||....++-+.
T Consensus 3 ~~k~~~Ge~V~~rWP~s~lYYe~kV~~~d~~~~~y~V~Y~-DGtel~lke~d 53 (55)
T PF09465_consen 3 SRKFAIGEVVMVRWPGSSLYYEGKVLSYDSKSDRYTVLYE-DGTELELKEND 53 (55)
T ss_dssp SSSS-SS-EEEEE-TTTS-EEEEEEEEEETTTTEEEEEET-TS-EEEEECCC
T ss_pred cccccCCCEEEEECCCCCcEEEEEEEEecccCceEEEEEc-CCCEEEecccc
Confidence 366889999988 33 5688887655 5555554 77777776543
No 194
>cd04453 S1_RNase_E S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and the maturation of tRNA, 10Sa RNA and the M1 precursor of RNase P. RNase E associates with PNPase (3' to 5' exonuclease), Rhl B (DEAD-box RNA helicase) and enolase (glycolytic enzyme) to form the RNA degradosome. RNase E tends to cut mRNA within single-stranded regions that are rich in A/U nucleotides. The N-terminal region of RNase E contains the catalytic site. Within the conserved N-terminal domain of RNAse E and RNase G, there is an S1-like subdomain, which is an ancient single-stranded RNA-binding domain. S1 domain is an RNA-binding module originally identified in the ribosomal protein S1. The S1 domain is required for RNA cleavage by RNase E. RNase G is paralogous to RNase E with an N-terminal catalytic domain th
Probab=22.70 E-value=2.6e+02 Score=19.09 Aligned_cols=40 Identities=15% Similarity=0.009 Sum_probs=26.2
Q ss_pred CCCCCCcEEEEcCeeEEEEEEEeE-EEEEEEe-CCcEEEEecccccC
Q 026550 64 HPFDVGDRCVIDGVQMVVEEMHIL-TTTFLRY-DNEKIFYPNSVLAT 108 (237)
Q Consensus 64 ~pf~vGD~I~i~~~~G~V~~I~l~-~T~i~~~-~g~~v~IPNs~l~~ 108 (237)
+++++||.+ .|+|++|.=. .--+.+. +|..-++|.+.++.
T Consensus 3 ~~~~~G~iy-----~g~V~~i~~~~~GaFV~l~~g~~Gllh~seis~ 44 (88)
T cd04453 3 REPIVGNIY-----LGRVKKIVPGLQAAFVDIGLGKNGFLHLSDILP 44 (88)
T ss_pred CcCCCCCEE-----EEEEEEeccCCcEEEEEeCCCCEEEEEhHHcCc
Confidence 456667654 6788887653 2333333 47788999998865
No 195
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=22.65 E-value=2e+02 Score=17.79 Aligned_cols=22 Identities=27% Similarity=0.296 Sum_probs=15.6
Q ss_pred CCCCCcEEEEc----C--eeEEEEEEEe
Q 026550 65 PFDVGDRCVID----G--VQMVVEEMHI 86 (237)
Q Consensus 65 pf~vGD~I~i~----~--~~G~V~~I~l 86 (237)
-|++||.|++- | ..|+|.++.=
T Consensus 2 ~~~~G~~Ve~~~~~~~~W~~a~V~~~~~ 29 (61)
T smart00743 2 DFKKGDRVEVFSKEEDSWWEAVVTKVLG 29 (61)
T ss_pred CcCCCCEEEEEECCCCEEEEEEEEEECC
Confidence 48999999872 2 5577776543
No 196
>PF07444 Ycf66_N: Ycf66 protein N-terminus; InterPro: IPR010004 This entry represents Ycf66, a protein that is restricted to the chloroplasts of simple plants and algae. It is also found in the cyanobacteria. The function is unknown. As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.
Probab=22.64 E-value=2.7e+02 Score=19.23 Aligned_cols=42 Identities=17% Similarity=0.229 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHhhH
Q 026550 7 LFTGIVMVLIIIVWLLIVGLLTTKALLLILSQVVLAVFLFGN 48 (237)
Q Consensus 7 i~~~~~~~i~~~~~l~~~g~~~~~ll~~~g~~~~~igla~q~ 48 (237)
++..+..+.+++....-|..+..-++.-....+.++.|+.++
T Consensus 39 ~fs~vgLl~g~IL~~~gwRldp~ll~~Q~l~~~~~i~f~~e~ 80 (84)
T PF07444_consen 39 FFSSVGLLYGLILWFQGWRLDPILLFGQMLLVGLLIFFGWET 80 (84)
T ss_pred HHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444455555555555555555566666666554
No 197
>PRK09509 fieF ferrous iron efflux protein F; Reviewed
Probab=22.61 E-value=3.4e+02 Score=23.07 Aligned_cols=61 Identities=11% Similarity=0.030 Sum_probs=28.9
Q ss_pred HHHHHHHHHhhCCCCCCCCcEEEEEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHH
Q 026550 141 LKSTIKNYLESKPRHWSPTHSVVVKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRI 204 (237)
Q Consensus 141 ~~~~i~~~l~~~~~~~~~~~~v~~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~ 204 (237)
..+.+++.+++.+++.+ -..++....++. ..+.+.+....+. ...+..+..+++.+++.+.
T Consensus 214 ~~~~I~~~i~~~~~v~~-v~~l~~~~~G~~-~~v~v~i~v~~~~-~~~e~h~i~~~ie~~l~~~ 274 (299)
T PRK09509 214 ERQEIIDIVTSWPGVSG-AHDLRTRQSGPT-RFIQLHLEMEDNL-PLVQAHMIADQVEQALLRR 274 (299)
T ss_pred HHHHHHHHHHhCCCCcC-ceeeeeEeeCCe-EEEEEEEEECCCC-CHHHHHHHHHHHHHHHHHh
Confidence 34555666666777642 224555566653 2344444432222 1233344444444444443
No 198
>PRK08225 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=22.58 E-value=94 Score=20.02 Aligned_cols=37 Identities=14% Similarity=0.074 Sum_probs=25.9
Q ss_pred eCCCCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEE
Q 026550 63 THPFDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKI 99 (237)
Q Consensus 63 ~~pf~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v 99 (237)
.-.++.||.|+-|+..+.|+.........-..+|.+.
T Consensus 14 ~~~v~~G~~V~~g~~l~~ve~~k~~~~v~s~~~G~v~ 50 (70)
T PRK08225 14 KIVVKVGDTVEEGQDVVILESMKMEIPIVAEEAGTVK 50 (70)
T ss_pred EEEeCCCCEECCCCEEEEEEcCCCcceEeCCCCEEEE
Confidence 4468889999999999998887754443334455443
No 199
>PRK06739 pyruvate kinase; Validated
Probab=22.35 E-value=1.2e+02 Score=26.83 Aligned_cols=80 Identities=15% Similarity=0.226 Sum_probs=43.7
Q ss_pred CCCCCCcEEEEcC--eeEEEEEEEeEEEEEEEeC------CcEEEEecccccCCcEEEEEcCCcce------e-EEEEEE
Q 026550 64 HPFDVGDRCVIDG--VQMVVEEMHILTTTFLRYD------NEKIFYPNSVLATKPISNFYRSTVDM------R-DAVEFA 128 (237)
Q Consensus 64 ~pf~vGD~I~i~~--~~G~V~~I~l~~T~i~~~~------g~~v~IPNs~l~~~~i~N~s~~~~~~------~-~~~~~~ 128 (237)
+-+++||.|-+++ ..-+|++++=....-+-.+ ++-+.+|+..+.-..+ |..+ .. . .-=.+.
T Consensus 108 ~~v~~Gd~IlidDG~i~l~V~~v~~~~v~~~v~~gG~L~s~Kgvn~pg~~~~lp~l---tekD-~~di~f~~~~~vD~ia 183 (352)
T PRK06739 108 NDVKVGSRILMNDGEVELIVEKVSTDKIETKVKTGGNISSHKGVNLPGAIVRLPAI---TEKD-KKDIQFLLEEDVDFIA 183 (352)
T ss_pred hhcCCCCEEEEeCCEEEEEEEEEeCCEEEEEEeeCcEEcCCCCeecccccCCCCCC---CHHH-HHHHHHHHHcCCCEEE
Confidence 4579999999954 6677877653322222222 3335577766543322 2111 00 0 112356
Q ss_pred EecCCCHHHHHHHHHHHHH
Q 026550 129 IDVFTPIEKISYLKSTIKN 147 (237)
Q Consensus 129 v~~~~~~~~i~~~~~~i~~ 147 (237)
+++--+.+++.++++.+.+
T Consensus 184 ~SFVr~~~Dv~~~r~~l~~ 202 (352)
T PRK06739 184 CSFVRKPSHIKEIRDFIQQ 202 (352)
T ss_pred ECCCCCHHHHHHHHHHHHH
Confidence 6666677777777766655
No 200
>PRK12399 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=22.28 E-value=1.7e+02 Score=25.57 Aligned_cols=42 Identities=10% Similarity=0.090 Sum_probs=33.7
Q ss_pred eeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCc
Q 026550 166 HIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIR 211 (237)
Q Consensus 166 ~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~ 211 (237)
+.+.+.+.+-+++.. .+..+....|.++.+++-+.|+++||.
T Consensus 116 e~GadavK~Llyy~p----D~~~~in~~k~a~vervg~eC~a~dip 157 (324)
T PRK12399 116 EEGADAVKFLLYYDV----DEPDEINEQKKAYIERIGSECVAEDIP 157 (324)
T ss_pred HhCCCeEEEEEEECC----CCCHHHHHHHHHHHHHHHHHHHHCCCC
Confidence 455678888887763 345567788999999999999999987
No 201
>KOG4112 consensus Signal peptidase subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.08 E-value=1.4e+02 Score=21.18 Aligned_cols=20 Identities=10% Similarity=-0.175 Sum_probs=13.2
Q ss_pred hHHHHHHHHHHHHHHHhhHH
Q 026550 30 KALLLILSQVVLAVFLFGNT 49 (237)
Q Consensus 30 ~ll~~~g~~~~~igla~q~~ 49 (237)
.++...|++|...||+.|..
T Consensus 30 ~ilti~aiVg~i~Gf~~Qql 49 (101)
T KOG4112|consen 30 LILTIGAIVGFIYGFAQQQL 49 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45566667777777776653
No 202
>PF06645 SPC12: Microsomal signal peptidase 12 kDa subunit (SPC12); InterPro: IPR009542 This family consists of several microsomal signal peptidase 12 kDa subunit proteins. Translocation of polypeptide chains across the endoplasmic reticulum (ER) membrane is triggered by signal sequences. Subsequently, signal recognition particle interacts with its membrane receptor and the ribosome-bound nascent chain is targeted to the ER where it is transferred into a protein-conducting channel. At some point, a second signal sequence recognition event takes place in the membrane and translocation of the nascent chain through the membrane occurs. The signal sequence of most secretory and membrane proteins is cleaved off at this stage. Cleavage occurs by the signal peptidase complex (SPC) as soon as the lumenal domain of the translocating polypeptide is large enough to expose its cleavage site to the enzyme. The signal peptidase complex is possibly also involved in proteolytic events in the ER membrane other than the processing of the signal sequence, for example the further digestion of the cleaved signal peptide or the degradation of membrane proteins. Mammalian signal peptidase is as a complex of five different polypeptide chains. This family represents the 12 kDa subunit (SPC12).; GO: 0008233 peptidase activity, 0006465 signal peptide processing, 0005787 signal peptidase complex, 0016021 integral to membrane
Probab=22.05 E-value=2.6e+02 Score=18.77 Aligned_cols=19 Identities=5% Similarity=0.076 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHhhHH
Q 026550 31 ALLLILSQVVLAVFLFGNT 49 (237)
Q Consensus 31 ll~~~g~~~~~igla~q~~ 49 (237)
++...++++.++|+..|++
T Consensus 16 il~~~~iisfi~Gy~~q~~ 34 (76)
T PF06645_consen 16 ILIISAIISFIVGYITQSF 34 (76)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555543
No 203
>PLN02518 pheophorbide a oxygenase
Probab=22.00 E-value=2.3e+02 Score=26.73 Aligned_cols=12 Identities=17% Similarity=0.091 Sum_probs=6.8
Q ss_pred eeCCCCCCcEEE
Q 026550 62 VTHPFDVGDRCV 73 (237)
Q Consensus 62 ~~~pf~vGD~I~ 73 (237)
+++-|..||++.
T Consensus 524 ~~~~f~~~~~~~ 535 (539)
T PLN02518 524 LEKNFVFVDYVH 535 (539)
T ss_pred HHhhceecCccC
Confidence 355566666653
No 204
>PRK05338 rplS 50S ribosomal protein L19; Provisional
Probab=22.00 E-value=1.5e+02 Score=21.79 Aligned_cols=10 Identities=30% Similarity=0.554 Sum_probs=8.8
Q ss_pred CCCCCcEEEE
Q 026550 65 PFDVGDRCVI 74 (237)
Q Consensus 65 pf~vGD~I~i 74 (237)
.|++||.|++
T Consensus 18 ~f~~GD~V~V 27 (116)
T PRK05338 18 EFRPGDTVRV 27 (116)
T ss_pred CcCCCCEEEE
Confidence 4999999987
No 205
>PF01597 GCV_H: Glycine cleavage H-protein; InterPro: IPR002930 This is a family of glycine cleavage H-proteins, part of the glycine cleavage multienzyme complex (GCV) found in bacteria and the mitochondria of eukaryotes. GCV catalyses the catabolism of glycine in eukaryotes. A lipoyl group is attached to a completely conserved lysine residue. The H protein shuttles the methylamine group of glycine from the P protein to the T protein [].; GO: 0006546 glycine catabolic process, 0005960 glycine cleavage complex; PDB: 3KLR_A 2EDG_A 1ONL_B 2KA7_A 1ZKO_A 3TZU_C 3MXU_A 3A8I_F 3A8J_E 3A7A_B ....
Probab=21.94 E-value=1.3e+02 Score=22.15 Aligned_cols=66 Identities=12% Similarity=0.087 Sum_probs=40.0
Q ss_pred HHHHHHHHhhhheeeeCCCCCCcEEEEcCeeEEEEEEEeEEEEEEEeCCcEEEEecccccCC-cEEEEEcC
Q 026550 48 NTAKNVFEAIIFLFVTHPFDVGDRCVIDGVQMVVEEMHILTTTFLRYDNEKIFYPNSVLATK-PISNFYRS 117 (237)
Q Consensus 48 ~~~~n~~~~gi~i~~~~pf~vGD~I~i~~~~G~V~~I~l~~T~i~~~~g~~v~IPNs~l~~~-~i~N~s~~ 117 (237)
+.+.+.+ | =+..++ .-++|+.++-|+..|.|+....-++...-.+|+++-+ |..+.++ .+.|-...
T Consensus 24 ~~a~~~l-G-~i~~v~-lp~~g~~~~~g~~~~~ies~k~~~~l~sPvsG~Vv~v-N~~l~~~P~lln~~p~ 90 (122)
T PF01597_consen 24 DFAQDEL-G-DIVYVE-LPKVGTKLKKGDPFASIESSKAVSDLYSPVSGTVVEV-NEELLDNPELLNSDPY 90 (122)
T ss_dssp HHHHHHH---SEEEEE--B-TT-EE-TTSEEEEEEESSEEEEEEESSSEEEEEE--GHHHT-TTHHHHSTT
T ss_pred chHhhcC-C-ceEEEE-EccCCCEEecCCcEEEEEECceeeecccceEEEEEEE-ccccccChHHhccCCC
Confidence 4455534 3 223444 3488999999999999999876666666688998888 7777654 34454433
No 206
>cd04452 S1_IF2_alpha S1_IF2_alpha: The alpha subunit of translation Initiation Factor 2, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Eukaryotic and archaeal Initiation Factor 2 (e- and aIF2, respectively) are heterotrimeric proteins with three subunits (alpha, beta, and gamma). IF2 plays a crucial role in the process of translation initiation. The IF2 gamma subunit contains a GTP-binding site. The IF2 beta and gamma subunits together are thought to be responsible for binding methionyl-initiator tRNA. The ternary complex consisting of IF2, GTP, and the methionyl-initiator tRNA binds to the small subunit of the ribosome, as part of a pre-initiation complex that scans the mRNA to find the AUG start codon. The IF2-bound GTP is hydrolyzed to GDP when the methionyl-initiator tRNA binds the AUG start codon, at which time the IF2 is released with its bound GDP. The large ribosomal subunit then joins with the small subunit to c
Probab=21.77 E-value=2.3e+02 Score=18.11 Aligned_cols=39 Identities=15% Similarity=0.060 Sum_probs=25.7
Q ss_pred eeEEEEEEEeEEEEEEEe--CCcEEEEecccccCCcEEEEE
Q 026550 77 VQMVVEEMHILTTTFLRY--DNEKIFYPNSVLATKPISNFY 115 (237)
Q Consensus 77 ~~G~V~~I~l~~T~i~~~--~g~~v~IPNs~l~~~~i~N~s 115 (237)
+.|+|.++.=.--.+.-. .|..-.+|++.+....+.|.+
T Consensus 7 ~~g~V~~v~~~g~~v~l~~~~~~~gll~~s~l~~~~~~~~~ 47 (76)
T cd04452 7 VVVTVKSIADMGAYVSLLEYGNIEGMILLSELSRRRIRSIR 47 (76)
T ss_pred EEEEEEEEEccEEEEEEcCCCCeEEEEEhHHcCCcccCCHH
Confidence 467888776544444332 356789999999887776643
No 207
>TIGR01232 lacD tagatose 1,6-diphosphate aldolase. This family consists of Gram-positive proteins. Tagatose 1,6-diphosphate aldolase is part of the tagatose-6-phosphate pathway of galactose-6-phosphate degradation.
Probab=21.74 E-value=1.9e+02 Score=25.37 Aligned_cols=42 Identities=12% Similarity=0.078 Sum_probs=33.8
Q ss_pred eeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCc
Q 026550 166 HIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIR 211 (237)
Q Consensus 166 ~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~ 211 (237)
+.+.+.+.+-+++.. .+..+....|.++.+++-+.|+++||.
T Consensus 117 e~GadavK~Llyy~p----D~~~ein~~k~a~vervg~ec~a~dip 158 (325)
T TIGR01232 117 EQGANAVKFLLYYDV----DDAEEINIQKKAYIERIGSECVAEDIP 158 (325)
T ss_pred HhCCCeEEEEEEeCC----CCChHHHHHHHHHHHHHHHHHHHCCCC
Confidence 556688888887753 234667788999999999999999987
No 208
>COG4063 MtrA Tetrahydromethanopterin S-methyltransferase, subunit A [Coenzyme metabolism]
Probab=21.64 E-value=28 Score=28.02 Aligned_cols=56 Identities=14% Similarity=0.166 Sum_probs=35.3
Q ss_pred EEEEEcCCcceeEEEEEEEecCCCHHHHHHHHHHHHHHHhhCCCCCCCCcEE-EEEee
Q 026550 111 ISNFYRSTVDMRDAVEFAIDVFTPIEKISYLKSTIKNYLESKPRHWSPTHSV-VVKHI 167 (237)
Q Consensus 111 i~N~s~~~~~~~~~~~~~v~~~~~~~~i~~~~~~i~~~l~~~~~~~~~~~~v-~~~~~ 167 (237)
+.|.++.. -.|.+-.+.+-.-.|.++.+++.+.+++...++|+.++.+|.+ .+.+-
T Consensus 114 iENi~~ea-veRfqqqvelvdlid~eD~~~I~~~v~ecv~kdpga~~eep~vi~~~e~ 170 (238)
T COG4063 114 IENIPDEA-VERFQQQVELVDLIDVEDPDEITAKVEECVEKDPGAYEEEPMVIEVEEE 170 (238)
T ss_pred hhcCCHHH-HHHHHHHeeeehhcccCCHHHHHHHHHHHHhcCCCccCCCCEEEEecCC
Confidence 56666555 2223334444444556666779999999999999998555544 34443
No 209
>PRK14533 groES co-chaperonin GroES; Provisional
Probab=21.59 E-value=1.3e+02 Score=21.06 Aligned_cols=16 Identities=19% Similarity=0.353 Sum_probs=11.9
Q ss_pred CCCCCcEEEEcCeeEE
Q 026550 65 PFDVGDRCVIDGVQMV 80 (237)
Q Consensus 65 pf~vGD~I~i~~~~G~ 80 (237)
..++||+|-++...|.
T Consensus 53 ~Vk~GD~Vl~~~y~g~ 68 (91)
T PRK14533 53 DIKVGDKVIFSKYAGT 68 (91)
T ss_pred cccCCCEEEEccCCCe
Confidence 3788888888777664
No 210
>PRK04161 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=21.53 E-value=1.8e+02 Score=25.49 Aligned_cols=42 Identities=12% Similarity=0.136 Sum_probs=33.7
Q ss_pred eeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCc
Q 026550 166 HIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIR 211 (237)
Q Consensus 166 ~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~ 211 (237)
+.+.+.+.+-+++.. .+..+....|.++.+++-+.|+++||.
T Consensus 118 e~GadavK~Llyy~p----D~~~ein~~k~a~vervg~eC~a~dip 159 (329)
T PRK04161 118 EAGADAVKFLLYYDV----DGDEEINDQKQAYIERIGSECTAEDIP 159 (329)
T ss_pred HhCCCeEEEEEEECC----CCCHHHHHHHHHHHHHHHHHHHHCCCC
Confidence 455678888887753 335667788999999999999999987
No 211
>PRK12378 hypothetical protein; Provisional
Probab=21.44 E-value=4.3e+02 Score=22.01 Aligned_cols=58 Identities=7% Similarity=0.047 Sum_probs=40.4
Q ss_pred HHHHHHHhhCCCCC-CCCcEEEEEeeeCceEEEEEEEEEeecccchHHHHHHHHHHHHHHHHHHHHcCCc
Q 026550 143 STIKNYLESKPRHW-SPTHSVVVKHIKDEKMIMGLYITHIIIFENYEEKINRRSELVLELKRIFEEAAIR 211 (237)
Q Consensus 143 ~~i~~~l~~~~~~~-~~~~~v~~~~~~~~~v~~~v~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~gI~ 211 (237)
+.|++++++..+.. .....+...++++.++-+.+.+. + +.+++....+...|.++|-.
T Consensus 62 d~IerAIkk~~g~~~~~~~e~~YEgygPgGvaiiVe~l-----T------DN~nRt~~~vr~~f~K~gg~ 120 (235)
T PRK12378 62 DVIERAIKKAKGGGGEDYEEVRYEGFGPNGVMVIVECL-----T------DNVNRTVANVRSAFNKNGGN 120 (235)
T ss_pred HHHHHHHHhccCCCCCceEEEEEEEEcCCCcEEEEEEC-----C------CCHHHHHHHHHHHHhhcCCe
Confidence 45566666654432 23357888899999999998885 3 34555677888889888876
No 212
>COG1563 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]
Probab=21.42 E-value=2.9e+02 Score=19.17 Aligned_cols=36 Identities=19% Similarity=0.221 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHhh
Q 026550 12 VMVLIIIVWLLIVGLLTTKALLLILSQVVLAVFLFG 47 (237)
Q Consensus 12 ~~~i~~~~~l~~~g~~~~~ll~~~g~~~~~igla~q 47 (237)
.++..+..++.++-.++-.-+...|+.|+.+++...
T Consensus 16 ~~ll~l~a~~~i~qrdll~AvI~~~~lsll~ally~ 51 (87)
T COG1563 16 TILLLLSALLAIFQRDLLNAVIASGVLSLLAALLYT 51 (87)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHhHHHHHHHHHHH
Confidence 333333444455556666666667777776666543
No 213
>PRK13892 conjugal transfer protein TrbC; Provisional
Probab=21.15 E-value=3.7e+02 Score=20.27 Aligned_cols=38 Identities=18% Similarity=0.087 Sum_probs=26.6
Q ss_pred HHHccchhhHH--HHHHHHHHHHHHHhhHHHHHHHHhhhh
Q 026550 22 LIVGLLTTKAL--LLILSQVVLAVFLFGNTAKNVFEAIIF 59 (237)
Q Consensus 22 ~~~g~~~~~ll--~~~g~~~~~igla~q~~~~n~~~~gi~ 59 (237)
.+||-+.+.+. ...-++++++.++++++++.++.+|-.
T Consensus 77 LaFGge~~gf~R~li~vVl~lsi~~~A~n~~~~ffg~GA~ 116 (134)
T PRK13892 77 LIFGGELNGFFRTLIFIVLVMALLVGAQNMMSTFFGRGAE 116 (134)
T ss_pred hhcCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccc
Confidence 45677777773 344467788888888888887766653
No 214
>PF14221 DUF4330: Domain of unknown function (DUF4330)
Probab=21.15 E-value=2.5e+02 Score=21.92 Aligned_cols=39 Identities=21% Similarity=0.281 Sum_probs=28.5
Q ss_pred CCCCcEEEEcC---eeE--EEEEEEeEEEEEE--EeCCcEEEEecc
Q 026550 66 FDVGDRCVIDG---VQM--VVEEMHILTTTFL--RYDNEKIFYPNS 104 (237)
Q Consensus 66 f~vGD~I~i~~---~~G--~V~~I~l~~T~i~--~~~g~~v~IPNs 104 (237)
++.||...+.. ..| +|+++........ +.||+.+..|.-
T Consensus 72 ~~~gd~~~~~~rnqp~G~v~V~~V~~~p~~~~~~~~dG~v~~~~dP 117 (168)
T PF14221_consen 72 IKEGDKTNIVIRNQPAGQVTVKDVQVLPRTVVVPQPDGSVVEAPDP 117 (168)
T ss_pred ccCCCEEEEeccCccccceEEEEEEEEccceEEECCCCeEEEccCC
Confidence 89999998732 446 9999988775544 468887776654
No 215
>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]
Probab=21.12 E-value=1e+02 Score=28.33 Aligned_cols=20 Identities=25% Similarity=0.424 Sum_probs=17.1
Q ss_pred CCCCcEEEEcCeeEEEEEEE
Q 026550 66 FDVGDRCVIDGVQMVVEEMH 85 (237)
Q Consensus 66 f~vGD~I~i~~~~G~V~~I~ 85 (237)
+.+|+|++|+|..++|.-+|
T Consensus 3 ~~IG~RvkI~~~~~Tvr~iG 22 (505)
T KOG3207|consen 3 MEIGTRVKIGGEIATVRYIG 22 (505)
T ss_pred eeccceEEEcCEEEEEEEEE
Confidence 57899999999888887766
No 216
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=20.75 E-value=3.9e+02 Score=21.22 Aligned_cols=15 Identities=27% Similarity=0.576 Sum_probs=7.5
Q ss_pred HHHHHHHHHhhCCCC
Q 026550 141 LKSTIKNYLESKPRH 155 (237)
Q Consensus 141 ~~~~i~~~l~~~~~~ 155 (237)
+.+.+-+.++++|..
T Consensus 109 ~~~~I~~~v~~~P~~ 123 (199)
T PF10112_consen 109 IARRIFKYVEKDPER 123 (199)
T ss_pred HHHHHHHHHHHCHHh
Confidence 334444555566554
No 217
>PRK00872 hypothetical protein; Provisional
Probab=20.70 E-value=2.1e+02 Score=22.13 Aligned_cols=22 Identities=14% Similarity=0.089 Sum_probs=10.6
Q ss_pred EEeEEEEEEEeCCcEEEEecccc
Q 026550 84 MHILTTTFLRYDNEKIFYPNSVL 106 (237)
Q Consensus 84 I~l~~T~i~~~~g~~v~IPNs~l 106 (237)
+.-|++. ++.||..+++-|.=+
T Consensus 72 ldary~l-~TdDGa~I~v~~~G~ 93 (157)
T PRK00872 72 LEARYAI-ETDDGAVIYVENVGI 93 (157)
T ss_pred EEEEEEE-EeCCCCEEEEEeEEE
Confidence 3334432 455565555555443
No 218
>COG1585 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=20.60 E-value=2.2e+02 Score=21.62 Aligned_cols=24 Identities=4% Similarity=0.189 Sum_probs=13.5
Q ss_pred HHhhHHHHHHHHhhhheeeeCCCCC
Q 026550 44 FLFGNTAKNVFEAIIFLFVTHPFDV 68 (237)
Q Consensus 44 la~q~~~~n~~~~gi~i~~~~pf~v 68 (237)
+-.|-++--.+ |.+.+++-|||.-
T Consensus 47 ~~~q~v~f~~l-sv~~~~l~rr~~~ 70 (140)
T COG1585 47 WWLQLVLFAIL-SVLLALLGRRFVR 70 (140)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHh
Confidence 44555555533 6666666666544
No 219
>PF06341 DUF1056: Protein of unknown function (DUF1056); InterPro: IPR009406 This entry is represented by Bacteriophage bIL286, Orf42. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several putative head-tail joining bacteriophage proteins.
Probab=20.57 E-value=2.6e+02 Score=18.22 Aligned_cols=26 Identities=0% Similarity=-0.155 Sum_probs=16.9
Q ss_pred hhHHHHHHHHHHHHHHHhhHHHHHHH
Q 026550 29 TKALLLILSQVVLAVFLFGNTAKNVF 54 (237)
Q Consensus 29 ~~ll~~~g~~~~~igla~q~~~~n~~ 54 (237)
-.+-...|.++.+++|..-..++.++
T Consensus 31 F~~n~~~g~i~i~I~l~l~G~isE~i 56 (63)
T PF06341_consen 31 FLINQIAGLISIGITLFLAGLISEFI 56 (63)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445667777777777777777744
No 220
>PF13550 Phage-tail_3: Putative phage tail protein
Probab=20.51 E-value=1.3e+02 Score=22.63 Aligned_cols=21 Identities=14% Similarity=0.431 Sum_probs=14.2
Q ss_pred CCCCCcEEEEcC----eeEEEEEEE
Q 026550 65 PFDVGDRCVIDG----VQMVVEEMH 85 (237)
Q Consensus 65 pf~vGD~I~i~~----~~G~V~~I~ 85 (237)
.+++||.|.+.. ..++|.+|.
T Consensus 139 ~l~pGDvi~l~~~~~~~~~RI~~i~ 163 (164)
T PF13550_consen 139 ALEPGDVIALSDDGRDMRFRITEIE 163 (164)
T ss_pred cCCCCCEEEEEeCCCceEEEEEEEe
Confidence 489999999953 345555543
No 221
>PF08605 Rad9_Rad53_bind: Fungal Rad9-like Rad53-binding; InterPro: IPR013914 In Saccharomyces cerevisiae (Baker s yeast), the Rad9 is a key adaptor protein in DNA damage checkpoint pathways. DNA damage induces Rad9 phosphorylation, and Rad53 specifically associates with this region of Rad9, when phosphorylated, via the Rad53 IPR000253 from INTERPRO domain []. There is no clear higher eukaryotic ortholog to Rad9.
Probab=20.49 E-value=1.1e+02 Score=22.97 Aligned_cols=22 Identities=23% Similarity=0.462 Sum_probs=16.8
Q ss_pred CCCCcEEEEcCe--eEEEEEEEeE
Q 026550 66 FDVGDRCVIDGV--QMVVEEMHIL 87 (237)
Q Consensus 66 f~vGD~I~i~~~--~G~V~~I~l~ 87 (237)
+|+||.|++++- ...|...+-+
T Consensus 60 lRIGD~Vkv~~~k~~yiV~Gl~~~ 83 (131)
T PF08605_consen 60 LRIGDTVKVDGPKVTYIVVGLECK 83 (131)
T ss_pred eecCCEEEECCCCccEEEEEeeec
Confidence 789999999884 6677665555
No 222
>TIGR01024 rplS_bact ribosomal protein L19, bacterial type. This model describes bacterial ribosomoal protein L19 and its chloroplast equivalent. Putative mitochondrial L19 are found in several species (but not Saccharomyces cerevisiae) and score between trusted and noise cutoffs.
Probab=20.30 E-value=3.6e+02 Score=19.75 Aligned_cols=10 Identities=40% Similarity=0.720 Sum_probs=8.9
Q ss_pred CCCCCcEEEE
Q 026550 65 PFDVGDRCVI 74 (237)
Q Consensus 65 pf~vGD~I~i 74 (237)
.|++||.|++
T Consensus 18 ~f~~GD~v~V 27 (113)
T TIGR01024 18 DFRVGDTVRV 27 (113)
T ss_pred ccCCCCEEEE
Confidence 3999999987
No 223
>COG3557 Uncharacterized domain/protein associated with RNAses G and E [Translation, ribosomal structure and biogenesis]
Probab=20.10 E-value=1.6e+02 Score=23.07 Aligned_cols=39 Identities=18% Similarity=0.060 Sum_probs=26.8
Q ss_pred CCCCCCcEEEEcC--eeEEEEEEEeEEEEEEEeCCcEEEEec
Q 026550 64 HPFDVGDRCVIDG--VQMVVEEMHILTTTFLRYDNEKIFYPN 103 (237)
Q Consensus 64 ~pf~vGD~I~i~~--~~G~V~~I~l~~T~i~~~~g~~v~IPN 103 (237)
+.+++||.|+|.. ..|.... +|+.|.+.--+...++--|
T Consensus 2 ~~pkegd~I~IqsYKhnG~LhR-~W~~t~Vlk~t~~~iIg~N 42 (177)
T COG3557 2 KLPKEGDFIQIQSYKHNGSLHR-TWNETKVLKSTEQLIIGGN 42 (177)
T ss_pred CCcccCCeEEEEEEecCCceee-eecCcEEEeecCcEEEecc
Confidence 4578999999976 4477665 6777777665555555444
Done!