Query 026120
Match_columns 243
No_of_seqs 164 out of 1168
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 04:01:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026120.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026120hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK12426 elongation factor P; 100.0 4.7E-76 1E-80 505.2 24.8 185 58-242 1-185 (185)
2 PRK14578 elongation factor P; 100.0 1.1E-73 2.3E-78 491.7 25.1 185 58-242 1-187 (187)
3 PRK04542 elongation factor P; 100.0 1.3E-73 2.8E-78 491.8 24.5 186 58-243 1-189 (189)
4 TIGR02178 yeiP elongation fact 100.0 1.9E-72 4E-77 483.5 24.6 182 61-242 2-186 (186)
5 PRK00529 elongation factor P; 100.0 1.4E-71 3E-76 478.6 24.8 186 58-243 1-186 (186)
6 TIGR00038 efp translation elon 100.0 4.8E-71 1E-75 474.6 24.5 184 59-242 1-184 (184)
7 COG0231 Efp Translation elonga 100.0 1.6E-45 3.4E-50 301.3 16.6 130 57-186 2-131 (131)
8 TIGR00037 eIF_5A translation i 100.0 2.4E-37 5.3E-42 252.7 15.9 120 58-179 6-126 (130)
9 PRK03999 translation initiatio 100.0 2.1E-35 4.6E-40 241.0 16.0 117 58-176 5-122 (129)
10 PLN03107 eukaryotic translatio 100.0 4.3E-32 9.3E-37 228.5 16.1 122 56-177 18-148 (159)
11 PF09285 Elong-fact-P_C: Elong 99.9 6.7E-27 1.5E-31 165.2 7.4 56 186-241 1-56 (56)
12 cd05794 S1_EF-P_repeat_2 S1_EF 99.9 4.8E-27 1E-31 166.0 6.5 56 186-241 1-56 (56)
13 smart00841 Elong-fact-P_C Elon 99.9 4.8E-27 1E-31 165.9 6.4 56 186-241 1-56 (56)
14 cd04470 S1_EF-P_repeat_1 S1_EF 99.9 3.5E-23 7.6E-28 148.7 7.3 61 123-183 1-61 (61)
15 PF08207 EFP_N: Elongation fac 99.8 3.3E-21 7.3E-26 137.1 8.3 58 60-117 1-58 (58)
16 PF01132 EFP: Elongation facto 99.8 9.1E-21 2E-25 133.5 6.6 55 124-178 1-55 (55)
17 PTZ00328 eukaryotic initiation 99.8 1.1E-19 2.5E-24 153.3 13.8 118 57-174 21-150 (166)
18 cd04463 S1_EF_like S1_EF_like: 99.7 2.7E-17 5.7E-22 115.1 6.0 55 125-180 1-55 (55)
19 KOG3271 Translation initiation 99.6 3.7E-15 8E-20 122.7 9.5 112 59-170 21-136 (156)
20 cd04467 S1_aIF5A S1_aIF5A: Arc 98.7 5.5E-08 1.2E-12 69.2 5.6 54 122-177 1-54 (57)
21 COG1499 NMD3 NMD protein affec 98.1 4.7E-05 1E-09 72.0 11.7 109 57-181 240-352 (355)
22 PF01287 eIF-5a: Eukaryotic el 97.1 0.0026 5.7E-08 46.9 6.8 56 121-177 1-63 (69)
23 cd04468 S1_eIF5A S1_eIF5A: Euk 93.2 0.32 6.9E-06 35.9 5.9 51 122-172 1-54 (69)
24 PF00900 Ribosomal_S4e: Riboso 78.0 3.8 8.2E-05 30.7 4.0 66 166-237 4-75 (77)
25 PF08605 Rad9_Rad53_bind: Fung 75.8 6.6 0.00014 32.4 5.2 39 59-97 55-103 (131)
26 cd04469 S1_Hex1 S1_Hex1: Hex1, 70.0 22 0.00048 26.6 6.3 52 125-176 3-61 (75)
27 KOG1999 RNA polymerase II tran 63.9 72 0.0016 34.5 10.8 170 61-235 337-545 (1024)
28 PF02941 FeThRed_A: Ferredoxin 60.5 4.5 9.7E-05 29.8 1.0 18 172-189 39-56 (67)
29 PRK05338 rplS 50S ribosomal pr 58.7 50 0.0011 26.8 6.9 66 59-125 14-88 (116)
30 PRK14560 putative RNA-binding 54.5 33 0.00072 28.6 5.5 72 162-240 38-125 (160)
31 TIGR00523 eIF-1A eukaryotic/ar 53.8 66 0.0014 25.2 6.7 51 176-234 7-69 (99)
32 PF01245 Ribosomal_L19: Riboso 53.5 47 0.001 26.7 5.9 68 58-126 13-89 (113)
33 PF13275 S4_2: S4 domain; PDB: 51.9 16 0.00035 26.6 2.8 19 62-80 47-65 (65)
34 TIGR01024 rplS_bact ribosomal 51.8 64 0.0014 26.0 6.4 67 57-124 12-87 (113)
35 PF08292 RNA_pol_Rbc25: RNA po 51.0 90 0.002 25.3 7.3 66 127-194 9-75 (122)
36 CHL00084 rpl19 ribosomal prote 49.8 84 0.0018 25.5 6.9 67 58-125 17-92 (117)
37 PRK11507 ribosome-associated p 46.2 23 0.00049 26.3 2.8 19 62-80 51-69 (70)
38 PRK04012 translation initiatio 45.2 1.2E+02 0.0026 23.8 6.9 46 184-237 21-74 (100)
39 PF13509 S1_2: S1 domain; PDB: 44.0 30 0.00064 24.3 3.1 37 136-175 15-51 (61)
40 PF13785 DUF4178: Domain of un 44.0 43 0.00094 26.6 4.5 22 64-85 1-22 (140)
41 PF15415 DUF4622: Protein of u 43.7 2E+02 0.0043 26.6 9.0 73 160-239 38-128 (310)
42 cd02786 MopB_CT_3 The MopB_CT_ 43.7 17 0.00037 27.8 2.0 21 222-242 44-64 (116)
43 PRK04313 30S ribosomal protein 42.7 55 0.0012 29.7 5.3 33 205-237 131-165 (237)
44 PRK12366 replication factor A; 42.6 4E+02 0.0086 27.4 12.7 55 58-113 63-120 (637)
45 TIGR00451 unchar_dom_2 unchara 41.8 56 0.0012 25.2 4.6 29 213-241 45-80 (107)
46 cd02779 MopB_CT_Arsenite-Ox Th 40.6 19 0.00042 27.9 1.8 23 221-243 45-67 (115)
47 PF04014 Antitoxin-MazE: Antid 40.6 43 0.00094 22.0 3.3 31 146-178 7-38 (47)
48 PF01079 Hint: Hint module; I 40.4 46 0.001 29.5 4.4 46 54-99 22-72 (217)
49 TIGR03170 flgA_cterm flagella 40.2 1.8E+02 0.0038 22.6 7.7 24 95-118 98-121 (122)
50 KOG0267 Microtubule severing p 39.6 55 0.0012 34.3 5.3 154 58-218 135-304 (825)
51 PF05521 Phage_H_T_join: Phage 39.3 60 0.0013 23.2 4.3 24 63-86 62-85 (95)
52 PRK08572 rps17p 30S ribosomal 38.7 2.1E+02 0.0044 23.0 7.8 78 148-232 7-87 (108)
53 cd02790 MopB_CT_Formate-Dh_H F 37.6 23 0.00051 26.9 1.9 21 222-242 48-68 (116)
54 PLN00036 40S ribosomal protein 37.6 65 0.0014 29.7 5.0 30 208-237 138-168 (261)
55 PRK10377 PTS system glucitol/s 37.4 46 0.001 27.0 3.6 22 61-82 49-70 (120)
56 PRK07018 flgA flagellar basal 37.3 82 0.0018 27.9 5.6 25 95-119 209-233 (235)
57 PF06988 NifT: NifT/FixU prote 37.2 1.6E+02 0.0036 21.4 6.2 51 166-222 1-52 (64)
58 PRK13480 3'-5' exoribonuclease 36.9 94 0.002 29.1 6.1 54 58-115 2-55 (314)
59 smart00652 eIF1a eukaryotic tr 36.8 1.4E+02 0.0031 22.4 6.0 44 184-235 5-56 (83)
60 PF03829 PTSIIA_gutA: PTS syst 36.3 43 0.00092 27.0 3.2 22 61-82 49-70 (117)
61 PF13144 SAF_2: SAF-like 36.1 2.2E+02 0.0048 23.9 7.9 24 95-118 172-195 (196)
62 COG0335 RplS Ribosomal protein 35.8 1.2E+02 0.0026 24.7 5.6 70 55-125 12-90 (115)
63 COG1153 FwdD Formylmethanofura 35.5 27 0.00058 28.7 1.9 23 221-243 43-65 (128)
64 cd05706 S1_Rrp5_repeat_sc10 S1 35.5 1.5E+02 0.0033 20.5 6.1 55 162-232 1-57 (73)
65 cd02787 MopB_CT_ydeP The MopB_ 35.4 24 0.00053 27.1 1.6 22 221-242 43-64 (112)
66 TIGR00849 gutA PTS system, glu 35.3 53 0.0011 26.7 3.6 21 62-82 50-70 (121)
67 COG2501 S4-like RNA binding pr 34.7 41 0.00089 25.1 2.7 21 62-82 51-71 (73)
68 cd02778 MopB_CT_Thiosulfate-R- 34.4 30 0.00064 26.7 2.0 21 222-242 43-63 (123)
69 COG2996 Predicted RNA-bindinin 33.5 4.1E+02 0.0088 24.9 10.6 86 135-232 18-124 (287)
70 COG4043 Preprotein translocase 33.5 60 0.0013 26.0 3.5 23 61-83 31-55 (111)
71 cd02792 MopB_CT_Formate-Dh-Na- 32.8 34 0.00073 26.3 2.1 21 222-242 48-68 (122)
72 PF09465 LBR_tudor: Lamin-B re 31.9 1.5E+02 0.0032 21.0 5.0 38 102-139 7-49 (55)
73 PF09262 PEX-1N: Peroxisome bi 31.9 36 0.00078 25.6 2.0 62 144-219 13-78 (80)
74 TIGR01646 vgr_GE Rhs element V 31.1 2.1E+02 0.0045 27.8 7.7 117 60-176 277-422 (483)
75 PF10665 Minor_capsid_1: Minor 31.0 66 0.0014 25.8 3.5 25 62-86 75-99 (114)
76 PF13856 Gifsy-2: ATP-binding 31.0 67 0.0015 24.3 3.5 31 55-85 54-87 (95)
77 smart00359 PUA Putative RNA-bi 30.9 66 0.0014 22.5 3.2 26 217-242 25-50 (77)
78 PTZ00118 40S ribosomal protein 30.6 1.1E+02 0.0023 28.2 5.2 29 209-237 139-168 (262)
79 PF01568 Molydop_binding: Moly 30.1 31 0.00066 26.0 1.4 20 223-242 44-63 (110)
80 cd02788 MopB_CT_NDH-1_NuoG2-N7 29.6 36 0.00078 25.6 1.7 21 222-242 42-62 (96)
81 PF05096 Glu_cyclase_2: Glutam 29.4 2.2E+02 0.0048 26.2 7.1 83 57-149 39-124 (264)
82 cd02783 MopB_CT_2 The MopB_CT_ 29.3 39 0.00084 27.9 2.0 20 223-242 46-65 (156)
83 cd02794 MopB_CT_DmsA-EC The Mo 29.3 42 0.0009 26.1 2.1 20 223-242 44-63 (121)
84 COG3173 Predicted aminoglycosi 29.3 61 0.0013 30.5 3.5 37 52-89 194-230 (321)
85 PF01176 eIF-1a: Translation i 29.2 1.9E+02 0.0041 20.5 5.3 44 186-237 5-56 (65)
86 KOG3297 DNA-directed RNA polym 28.6 4.2E+02 0.009 23.5 12.2 102 76-193 48-156 (202)
87 KOG1708 Mitochondrial/chloropl 28.4 85 0.0019 28.1 4.0 52 173-239 122-173 (236)
88 COG0090 RplB Ribosomal protein 28.3 1.4E+02 0.0031 27.6 5.6 56 95-151 129-185 (275)
89 PF02839 CBM_5_12: Carbohydrat 28.0 67 0.0014 20.3 2.6 20 64-83 10-29 (41)
90 COG2016 Predicted RNA-binding 27.7 90 0.002 26.7 3.9 71 160-237 36-122 (161)
91 PF07076 DUF1344: Protein of u 27.3 2.2E+02 0.0047 20.6 5.3 39 185-232 4-47 (61)
92 PTZ00241 40S ribosomal protein 27.2 3.3E+02 0.0071 23.3 7.2 61 166-232 64-126 (158)
93 PF12158 DUF3592: Protein of u 27.0 1.5E+02 0.0032 23.2 5.0 27 157-183 87-113 (148)
94 PRK15199 fimH fimbrial-like ad 27.0 5.6E+02 0.012 24.4 9.7 69 161-233 139-211 (335)
95 PF02470 MCE: mce related prot 27.0 2.4E+02 0.0051 20.2 5.7 40 59-99 10-50 (81)
96 PRK12442 translation initiatio 26.8 2.2E+02 0.0048 22.0 5.6 41 186-234 9-58 (87)
97 PTZ00223 40S ribosomal protein 26.5 1.3E+02 0.0027 28.0 4.9 30 110-140 78-109 (273)
98 cd02785 MopB_CT_4 The MopB_CT_ 26.1 49 0.0011 25.8 2.0 21 222-242 45-65 (124)
99 PF05836 Chorion_S16: Chorion 25.4 57 0.0012 25.8 2.1 38 180-219 68-107 (110)
100 smart00676 DM10 Domains in hyp 25.2 47 0.001 26.0 1.7 28 57-84 67-94 (104)
101 smart00466 SRA SET and RING fi 25.0 2.7E+02 0.0058 23.6 6.3 40 61-102 113-153 (155)
102 cd02793 MopB_CT_DMSOR-BSOR-TMA 24.9 51 0.0011 26.0 1.9 21 222-242 46-66 (129)
103 cd02781 MopB_CT_Acetylene-hydr 24.5 58 0.0013 25.4 2.1 20 223-242 47-66 (130)
104 PF02182 SAD_SRA: SAD/SRA doma 24.5 1.5E+02 0.0032 24.9 4.7 36 65-101 117-152 (155)
105 PF01472 PUA: PUA domain; Int 24.2 90 0.002 22.4 3.0 25 218-242 26-50 (74)
106 TIGR03784 marine_sortase sorta 23.8 61 0.0013 27.7 2.3 17 223-239 109-125 (174)
107 cd04458 CSP_CDS Cold-Shock Pro 23.8 2.5E+02 0.0054 19.2 5.2 45 131-175 8-54 (65)
108 cd02782 MopB_CT_1 The MopB_CT_ 23.7 60 0.0013 25.4 2.1 21 222-242 46-66 (129)
109 cd07387 MPP_PolD2_C PolD2 (DNA 23.6 1.1E+02 0.0023 27.9 3.9 40 199-238 210-252 (257)
110 cd02776 MopB_CT_Nitrate-R-NarG 23.2 56 0.0012 26.7 1.9 21 222-242 44-64 (141)
111 TIGR03361 VI_Rhs_Vgr type VI s 23.1 5.2E+02 0.011 25.3 8.9 113 60-176 285-433 (513)
112 PRK06005 flgA flagellar basal 23.0 1.9E+02 0.004 24.4 5.0 24 95-118 133-156 (160)
113 TIGR03684 arCOG00985 arCOG0415 22.6 2.2E+02 0.0048 23.3 5.3 29 212-240 83-118 (150)
114 PF11871 DUF3391: Domain of un 22.6 41 0.00089 26.2 0.9 21 57-77 3-23 (128)
115 PF11948 DUF3465: Protein of u 22.5 85 0.0019 26.0 2.8 31 59-89 81-116 (131)
116 PRK11835 hypothetical protein; 22.4 79 0.0017 25.6 2.5 44 48-97 54-98 (114)
117 cd06530 S26_SPase_I The S26 Ty 22.2 1.2E+02 0.0026 21.8 3.3 37 205-242 9-54 (85)
118 COG0361 InfA Translation initi 22.0 3.5E+02 0.0075 20.3 5.9 32 205-236 20-60 (75)
119 PRK04980 hypothetical protein; 21.9 1.3E+02 0.0028 23.9 3.5 36 203-242 16-52 (102)
120 PF00207 A2M: Alpha-2-macroglo 21.9 69 0.0015 23.8 2.0 17 216-232 59-75 (92)
121 TIGR01363 strep_his_triad stre 21.8 36 0.00078 32.2 0.5 22 61-82 118-139 (348)
122 PF11694 DUF3290: Protein of u 21.8 1.1E+02 0.0024 25.7 3.3 29 55-83 97-125 (149)
123 PF13989 YejG: YejG-like prote 21.4 80 0.0017 25.2 2.3 34 62-101 63-97 (106)
124 cd00508 MopB_CT_Fdh-Nap-like T 21.3 66 0.0014 24.4 1.9 21 222-242 48-68 (120)
125 cd02777 MopB_CT_DMSOR-like The 21.2 69 0.0015 25.0 2.0 20 223-242 48-67 (127)
126 cd01771 Faf1_UBX Faf1 UBX doma 20.7 88 0.0019 23.3 2.3 30 88-120 1-30 (80)
127 smart00166 UBX Domain present 20.3 82 0.0018 22.9 2.1 48 90-142 3-50 (80)
128 PF06905 FAIM1: Fas apoptotic 20.2 4.2E+02 0.0092 22.9 6.7 7 138-144 112-118 (177)
129 PRK11354 kil FtsZ inhibitor pr 20.2 1.1E+02 0.0024 22.9 2.6 23 60-82 12-34 (73)
No 1
>PRK12426 elongation factor P; Provisional
Probab=100.00 E-value=4.7e-76 Score=505.21 Aligned_cols=185 Identities=22% Similarity=0.441 Sum_probs=183.5
Q ss_pred eEEcCCCCCccEEEECCeEEEEEEeEEecCCCCCeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCCEE
Q 026120 58 KVNASHVRPGNVIEKSGKMYQVIDAEHKQRGRGGAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTENDTA 137 (243)
Q Consensus 58 ~i~a~diKkG~~I~~dG~py~V~~~~h~KpGKG~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd~~ 137 (243)
|+++||||+|++|++||+||+|++++|+|||||+|++|+|||||.||++++++|+++|++|.|+++++++||||.|||.|
T Consensus 1 m~~~~dik~G~~i~~~g~~~~V~~~~h~kPGkg~A~vr~klknl~tG~~~e~tf~s~ek~e~a~ve~~~~qylY~dg~~~ 80 (185)
T PRK12426 1 MVLSSQLSVGMFISTKDGLYKVVSVSKVTGPKGETFIKVSLQAADSDVVVERNFKAGQEVKEAQFEPRNLEYLYLEGDEY 80 (185)
T ss_pred CCchhhcCCCCEEEECCEEEEEEEEEEecCCCCceEEEEEEEEcCCCCeEEEEECCCCeEEEeEEEeeEeEEEEECCCeE
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeCCCccccccCchhhhhhhhccCCCCEEEEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCceeEEeecCcEE
Q 026120 138 FVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYRRALLDNGVTV 217 (243)
Q Consensus 138 ~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v 217 (243)
+|||+|||||++|+++.+||+.+||+|||+|.+++|||+||+|+||++|+|+|+||+|++|||||++++|||+||||++|
T Consensus 81 ~FMd~etyeQi~i~~~~lgd~~~fL~e~~~v~v~~~~~~~i~v~lP~~V~l~V~etep~~kgdTat~~~KpAtLeTG~~V 160 (185)
T PRK12426 81 LFLDLGNYDKIYIPKEIMKDNFLFLKAGVTVSALVYDGTVFSVELPHFLELMVSKTDFPGDSLSLSGGAKKALLETGVEV 160 (185)
T ss_pred EEecCCCceEEEeCHHHhhhHHhhccCCCEEEEEEECCEEEEEECCCEEEEEEEECCCCCCCcccCCCcccEEEcCCCEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EccccccCCCEEEEECCCCceeecc
Q 026120 218 MVPSYLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 218 ~VP~FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
+||+||++||+|+||||+|+|++||
T Consensus 161 ~VP~FI~~Gd~IkVdT~~geY~~R~ 185 (185)
T PRK12426 161 LVPPFVEIGDVIKVDTRTCEYIQRV 185 (185)
T ss_pred EeCCcccCCCEEEEECCCCeEEeeC
Confidence 9999999999999999999999997
No 2
>PRK14578 elongation factor P; Provisional
Probab=100.00 E-value=1.1e-73 Score=491.73 Aligned_cols=185 Identities=28% Similarity=0.488 Sum_probs=182.2
Q ss_pred eEEcCCCCCccEEEECCeEEEEEEeEEecCCCC--CeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCC
Q 026120 58 KVNASHVRPGNVIEKSGKMYQVIDAEHKQRGRG--GAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTEND 135 (243)
Q Consensus 58 ~i~a~diKkG~~I~~dG~py~V~~~~h~KpGKG--~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd 135 (243)
|+++||||+|++|++||+||+|++++|+|||+| +|++|+|||||.||++++++|+++|++|.|+++++++||||.||+
T Consensus 1 m~~~~dik~G~~i~~dg~~~~V~~~~~~kpg~~g~~a~vr~klknl~tG~~~e~tf~s~d~ve~a~ve~~~~qylY~dg~ 80 (187)
T PRK14578 1 MYTTSDFKKGLVIQLDGAPCLLLDVTFQSPSARGANTMVKTKYRNLLTGQVLEKTFRSGDKVEEADFERHKGQFLYADGD 80 (187)
T ss_pred CCchhhcCCCCEEEECCEEEEEEEEEEEcCCCCCCceEEEEEEEECCCCCEEEEEECCCCEEEEeEEEEeEeEEEEeCCC
Confidence 678999999999999999999999999999987 569999999999999999999999999999999999999999999
Q ss_pred EEEEEeCCCccccccCchhhhhhhhccCCCCEEEEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCceeEEeecCc
Q 026120 136 TAFVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYRRALLDNGV 215 (243)
Q Consensus 136 ~~~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~ 215 (243)
.|+|||+|||||++|+++.+|++.+||+|||+|.+++|||+||+|+||++|+|+|++|+|++||||+++++|||+||||+
T Consensus 81 ~~~FMD~etyEQ~~i~~~~~g~~~~fL~e~~~v~v~~~~~~~i~v~lP~~V~l~V~~tep~~KGdT~t~~~KpA~leTG~ 160 (187)
T PRK14578 81 RGVFMDLETYEQFEMEEDAFSAIAPFLLDGTEVQLGLFQGRMVNVDLPMTVELTVTDTAPVMKNATATAQTKEAVLETGL 160 (187)
T ss_pred EEEEecCCCcEEEEecHHHhhhHHhhccCCCEEEEEEECCEEEEEECCCEEEEEEEECCCccccCccCCCcceEEEcCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEccccccCCCEEEEECCCCceeecc
Q 026120 216 TVMVPSYLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 216 ~v~VP~FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
+|+||+||++||+|+||||||+|++||
T Consensus 161 ~v~VP~FI~~Gd~I~VdT~~g~Y~~R~ 187 (187)
T PRK14578 161 RLQVPPYLESGEKIKVDTRDGRFISRA 187 (187)
T ss_pred EEEeCCcccCCCEEEEECCCCcEEeeC
Confidence 999999999999999999999999997
No 3
>PRK04542 elongation factor P; Provisional
Probab=100.00 E-value=1.3e-73 Score=491.76 Aligned_cols=186 Identities=28% Similarity=0.506 Sum_probs=182.8
Q ss_pred eEEcCCCCCccEEEECCeEEEEEEeEEecC-CCC-CeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCC
Q 026120 58 KVNASHVRPGNVIEKSGKMYQVIDAEHKQR-GRG-GAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTEND 135 (243)
Q Consensus 58 ~i~a~diKkG~~I~~dG~py~V~~~~h~Kp-GKG-~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd 135 (243)
|+++||||+|++|++||+||+|++++|+|| ||| +|++|+|||||.||++++++|+++|+||.|++++++|||||.||+
T Consensus 1 mi~~~dik~G~~i~~~g~~~~V~~~~h~kp~Gkg~~a~vr~klknl~tG~~~e~tfrs~ekve~a~~~~~~~qylY~dg~ 80 (189)
T PRK04542 1 MPKANEIKKGMVVEYNGKLLLVKDIDRQSPSGRGGATLYKMRFYDVRTGLKVEERFKGDDILDTVDLTRRPVTFSYIDGD 80 (189)
T ss_pred CCchhhcCCCCEEEECCEEEEEEEEEEECCCCCCcceEEEEEEEEcCCCCeEEEEECCCCeEEEEEEEEeEeEEEEeCCC
Confidence 688999999999999999999999999999 798 559999999999999999999999999999999999999999999
Q ss_pred EEEEEeCCCccccccCchhhhhhhhccCCCCE-EEEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCceeEEeecC
Q 026120 136 TAFVIESETFEQLEVPLDVFGKAGAYLQEGMK-VWLQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYRRALLDNG 214 (243)
Q Consensus 136 ~~~FMD~etyEQi~l~~~~lgd~~~~L~eg~~-v~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~LetG 214 (243)
.|+|||+|||||++|+++.+|++.+||+|||+ |++++|||+||+|+||++|+|+|++|+|++||||+++++|||+||||
T Consensus 81 ~~~FMd~etyEQ~~i~~~~lgd~~~~L~e~~~~v~v~~~~~~~i~v~lP~~V~l~V~etep~~kGdT~~~~~KpAtLetG 160 (189)
T PRK04542 81 EYVFMDNEDYTPYTFKKDQIEDELLFIPEGMPGMQVLTVDGQPVALELPQTVDLEIVETAPSIKGASASARTKPATLSTG 160 (189)
T ss_pred EEEEecCCCceEEEECHHHhhhHhhhhhcCCEEEEEEEECCEEEEEECCCEEEEEEEECCCCccccccCCCCccEEEcCC
Confidence 99999999999999999999999999999998 99999999999999999999999999999999999999999999999
Q ss_pred cEEEccccccCCCEEEEECCCCceeeccC
Q 026120 215 VTVMVPSYLEIGEEIFINPQDDSYIGRAK 243 (243)
Q Consensus 215 ~~v~VP~FI~~Gd~I~VdT~~g~Yv~R~k 243 (243)
++|+||+||++||+|+||||+|+|++||.
T Consensus 161 ~~v~VP~FI~~Gd~I~VdT~tgeYv~R~~ 189 (189)
T PRK04542 161 LVIQVPEYISTGEKIRINTEERKFMGRAD 189 (189)
T ss_pred CEEEeCCcccCCCEEEEECCCCcEEeecC
Confidence 99999999999999999999999999984
No 4
>TIGR02178 yeiP elongation factor P-like protein YeiP. This model represents the family of Escherichia coli protein YeiP, a close homolog of elongation factor P (TIGR00038) and probably itself a translation factor. Member of this family are found only in some Gammaproteobacteria, including E. coli and Vibrio cholerae.
Probab=100.00 E-value=1.9e-72 Score=483.48 Aligned_cols=182 Identities=26% Similarity=0.492 Sum_probs=178.8
Q ss_pred cCCCCCccEEEECCeEEEEEEeEEecCCCCCe--EEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCCEEE
Q 026120 61 ASHVRPGNVIEKSGKMYQVIDAEHKQRGRGGA--MMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTENDTAF 138 (243)
Q Consensus 61 a~diKkG~~I~~dG~py~V~~~~h~KpGKG~A--~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd~~~ 138 (243)
+||||+|++|++||+||+|++++|+|||+|+| ++|+|||||.||++++++|+++|++|.|+++++++||||.||+.|+
T Consensus 2 ~~~lk~G~~i~~dg~~~~V~~~~~~kpg~~ga~~~vk~klknl~tG~~~e~tf~s~e~ve~a~le~~~~qylY~dg~~~~ 81 (186)
T TIGR02178 2 ASEMKKGSIVEYNGKTLLIKDIQRSSPQGRGGNVRYKFRMYDVPTGSKVEERFKADDMLDTVELLRREASFSYKDGEEYV 81 (186)
T ss_pred cccccCCCEEEECCEEEEEEEEEEECCCCCCCcEEEEEEEeEcCCCCeEEEEECCCCeEEEEEEEEeEeEEEEeCCCeEE
Confidence 79999999999999999999999999987666 8999999999999999999999999999999999999999999999
Q ss_pred EEeCCCccccccCchhhhhhhhccCCCCE-EEEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCceeEEeecCcEE
Q 026120 139 VIESETFEQLEVPLDVFGKAGAYLQEGMK-VWLQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYRRALLDNGVTV 217 (243)
Q Consensus 139 FMD~etyEQi~l~~~~lgd~~~~L~eg~~-v~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v 217 (243)
|||+|||||++|+++.+|++.+||+|||+ |.+++|||+||+|+||++|+|+|++|+|++||||+++++|||+||||++|
T Consensus 82 FMD~etyEQ~~i~~~~lgd~~~fL~e~~~~v~v~~~~~~~i~v~lP~~V~l~V~etep~~KGdT~~~~~KpA~LeTG~~v 161 (186)
T TIGR02178 82 FMDEEDYTPYTFDKDAIEDELLFISEGLSGMYVQLIDGSPVALELPQHVVLEIVETPPEIKGASASKRPKPAKLITGLVV 161 (186)
T ss_pred EccCCCcEEEEeCHHHhhhhhhhhhCCCEEEEEEEECCEEEEEECCCEEEEEEEECCCCcccccCCCCcccEEEcCCCEE
Confidence 99999999999999999999999999997 99999999999999999999999999999999999999999999999999
Q ss_pred EccccccCCCEEEEECCCCceeecc
Q 026120 218 MVPSYLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 218 ~VP~FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
+||+||++||+|+||||||+|++||
T Consensus 162 ~VP~FI~~Gd~IkVdTrtg~Y~~R~ 186 (186)
T TIGR02178 162 QVPEYITTGERILINTTERAFMGRA 186 (186)
T ss_pred EeCCeecCCCEEEEECCCCcEEccC
Confidence 9999999999999999999999997
No 5
>PRK00529 elongation factor P; Validated
Probab=100.00 E-value=1.4e-71 Score=478.57 Aligned_cols=186 Identities=34% Similarity=0.602 Sum_probs=184.3
Q ss_pred eEEcCCCCCccEEEECCeEEEEEEeEEecCCCCCeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCCEE
Q 026120 58 KVNASHVRPGNVIEKSGKMYQVIDAEHKQRGRGGAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTENDTA 137 (243)
Q Consensus 58 ~i~a~diKkG~~I~~dG~py~V~~~~h~KpGKG~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd~~ 137 (243)
|+++|+||+|++|+++|+||+|++++|+|||||+|++|+++|||.||++++++|+++|+++.+.++++++||||.|||.|
T Consensus 1 ~~~a~~ik~G~~I~~~g~~~~V~~~~~~kpGkg~A~vrvk~knL~tG~~~e~~f~~~e~ve~~~ve~~~~q~ly~dgd~~ 80 (186)
T PRK00529 1 MISANDLRKGLVIEIDGEPYVVLEFEHVKPGKGQAFVRTKLKNLLTGSVVEKTFKAGDKVERADVERREMQYLYNDGDGY 80 (186)
T ss_pred CcchhhcCCCCEEEECCEEEEEEEEEEeeCCCCceEEEEEEEECCCCCeEEEEeCCCCEEEeccEEeEEEEEEEECCCEE
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeCCCccccccCchhhhhhhhccCCCCEEEEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCceeEEeecCcEE
Q 026120 138 FVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYRRALLDNGVTV 217 (243)
Q Consensus 138 ~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v 217 (243)
+|||+|||||++||.+.+|++.+||+|||+|++++|||+||+|+||++|+|+|++|+|++||||+++++|||+||||++|
T Consensus 81 ~fMD~etyeq~~l~~~~lg~~~~~L~eg~~v~v~~~~~~~i~v~lP~~v~l~V~~t~p~~kg~t~~~~~K~A~letG~~v 160 (186)
T PRK00529 81 VFMDTETYEQIEVPADQVGDAAKFLKEGMEVTVVFYNGEPISVELPNFVELEVTETEPGVKGDTASGGTKPATLETGAVV 160 (186)
T ss_pred EEecCCCceeeEcCHHHhHHHHhhccCCCEEEEEEECCEEEEEECCCEEEEEEEECCCCccCcccCCCcccEEEcCCCEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EccccccCCCEEEEECCCCceeeccC
Q 026120 218 MVPSYLEIGEEIFINPQDDSYIGRAK 243 (243)
Q Consensus 218 ~VP~FI~~Gd~I~VdT~~g~Yv~R~k 243 (243)
+||+||++||+|+|||++|+|++|||
T Consensus 161 ~VP~fI~~Gd~I~v~T~~g~y~~R~~ 186 (186)
T PRK00529 161 QVPLFINEGEKIKVDTRTGEYVERAK 186 (186)
T ss_pred EeCCeecCCCEEEEECCCCcEEeecC
Confidence 99999999999999999999999996
No 6
>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=100.00 E-value=4.8e-71 Score=474.61 Aligned_cols=184 Identities=33% Similarity=0.614 Sum_probs=182.2
Q ss_pred EEcCCCCCccEEEECCeEEEEEEeEEecCCCCCeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCCEEE
Q 026120 59 VNASHVRPGNVIEKSGKMYQVIDAEHKQRGRGGAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTENDTAF 138 (243)
Q Consensus 59 i~a~diKkG~~I~~dG~py~V~~~~h~KpGKG~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd~~~ 138 (243)
+++|+||+|++|+++|+||+|++++|+|||||+|++|+++|||.||++++++|+++|+++.+.++++++||||.|||.|+
T Consensus 1 ~~a~~ik~G~~I~~~g~~~~V~~~~~~kpGkg~A~~rvk~knL~tG~~~e~~f~~~~kve~~~~e~~~~q~ly~dgd~~~ 80 (184)
T TIGR00038 1 ISANDLRKGLVIELDGEPYVVLEFEHVKPGKGQAFVRVKLKNLLTGKVLEKTFRSGEKVEKADVEEREMQYLYKDGDSYV 80 (184)
T ss_pred CchhhccCCCEEEECCEEEEEEEEEEeeCCCCceEEEEEEEECCCCCEEEEEeCCCCEEEcccEEeEEEEEEEECCCEEE
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeCCCccccccCchhhhhhhhccCCCCEEEEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCceeEEeecCcEEE
Q 026120 139 VIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYRRALLDNGVTVM 218 (243)
Q Consensus 139 FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~ 218 (243)
|||+|||||++|+++.+|++.+||+|||+|.+.+|+|+||+|+||++|+|+|++|+|++||||+++++|||+||||++|+
T Consensus 81 fMD~etyeq~~i~~~~l~~~~~~L~eg~~v~v~~~~~~~i~v~lP~~v~l~V~~t~p~~kg~t~~~~~K~A~letG~~v~ 160 (184)
T TIGR00038 81 FMDTETYEQIELPKDLLGDAAKFLKENMEVSVTFYNGEPIGVELPNFVELEVTETEPGVKGDTASGGTKPATLETGAVVQ 160 (184)
T ss_pred EeCCCCccceEcCHHHHHHHHhhcCCCCEEEEEEECCEEEEEECCCEEEEEEEECCCCccccccCCCcccEEEcCCCEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCEEEEECCCCceeecc
Q 026120 219 VPSYLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 219 VP~FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
||+||++||+|+|||++|+|++||
T Consensus 161 VP~fi~~Gd~I~v~T~~g~y~~R~ 184 (184)
T TIGR00038 161 VPLFIEEGEKIKVDTRTGEYVERA 184 (184)
T ss_pred eCCcccCCCEEEEECCCCcEEecC
Confidence 999999999999999999999997
No 7
>COG0231 Efp Translation elongation factor P (EF-P)/translation initiation factor 5A (eIF-5A) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.6e-45 Score=301.34 Aligned_cols=130 Identities=35% Similarity=0.619 Sum_probs=128.2
Q ss_pred eeEEcCCCCCccEEEECCeEEEEEEeEEecCCCCCeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCCE
Q 026120 57 VKVNASHVRPGNVIEKSGKMYQVIDAEHKQRGRGGAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTENDT 136 (243)
Q Consensus 57 ~~i~a~diKkG~~I~~dG~py~V~~~~h~KpGKG~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd~ 136 (243)
.|+++++||+|++|++||+||+|++++|+|||||+|++|+++|||+||++++.+|+++|++|.|.++++++||||.||+.
T Consensus 2 ~~i~~~~lr~G~~i~~dg~~~~V~~~~~~KpGKg~a~vrvk~k~l~tG~~~e~~f~~~~kve~a~ie~~~~q~lY~dg~~ 81 (131)
T COG0231 2 AMISASELRKGLYIVIDGEPYVVVEISHVKPGKGGAFVRVKLKNLFTGKKVEKTFKADDKVEVAIVERKTAQYLYIDGDF 81 (131)
T ss_pred ceeeHHHccCCCEEEECCeEEEEEEEEEccCCCCCcEEEEEEEEccCCCEEEEEEcCCCEEEEeEEeeeeEEEEEcCCCe
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEeCCCccccccCchhhhhhhhccCCCCEEEEEEECCEEEEEeCCCeE
Q 026120 137 AFVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDGRALSGSIPKRV 186 (243)
Q Consensus 137 ~~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg~~i~v~lP~~V 186 (243)
|+|||+|||||++++++.+||+.+||+|||+|++++|+|++++++||++|
T Consensus 82 ~~FMD~etyeq~~v~~~~~~d~~~~l~eg~~v~v~~~~g~~i~v~lP~~v 131 (131)
T COG0231 82 YVFMDLETYEQYELPKDQIGDAAKFLKEGMEVEVLLYNGEPIAVELPNFV 131 (131)
T ss_pred EEEccCCCceEEEecchhhhhHHHhcCCCCEEEEEEECCEEEEEECCCCC
Confidence 99999999999999999999999999999999999999999999999975
No 8
>TIGR00037 eIF_5A translation initiation factor eIF-5A. Observed in eukaryotes and archaea.
Probab=100.00 E-value=2.4e-37 Score=252.69 Aligned_cols=120 Identities=22% Similarity=0.320 Sum_probs=114.9
Q ss_pred eEEcCCCCCccEEEECCeEEEEEEeEEecCCC-CCeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCCE
Q 026120 58 KVNASHVRPGNVIEKSGKMYQVIDAEHKQRGR-GGAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTENDT 136 (243)
Q Consensus 58 ~i~a~diKkG~~I~~dG~py~V~~~~h~KpGK-G~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd~ 136 (243)
.+++++||+|++|+++|+||+|++++|+|||| |+|++|+++|||+||+++|.+|+++|++|.|.++++++||||.|||.
T Consensus 6 ~~~~~~irkG~~i~~~g~p~~V~e~~~~kpGkhG~A~vr~k~knl~tG~~~e~~f~s~~~ve~~~ve~~~~qylY~dg~~ 85 (130)
T TIGR00037 6 QVQVSALRVGGYVVIDGRPCKIVDISTSKPGKHGHAKARVVAIGIFTGKKLEFVSPSTSKVEVPIVDRREYQVLAIMGGM 85 (130)
T ss_pred eccHHHccCCCEEEECCEEEEEEEEEecCCCCCCcEEEEEEEEECCCCCEEEEEECCCCEEEEeEEEEEEEEEEEecCCE
Confidence 46799999999999999999999999999999 99999999999999999999999999999999999999999999999
Q ss_pred EEEEeCCCccccccCchhhhhhhhccCCCCEEEEEEECCEEEE
Q 026120 137 AFVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDGRALS 179 (243)
Q Consensus 137 ~~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg~~i~ 179 (243)
|+|||+|||||++|+.+. ++.+||+||++|.++-..|+..-
T Consensus 86 ~~fMd~etyeq~~i~~~~--~~~~~Lke~~~V~v~~~~g~~~~ 126 (130)
T TIGR00037 86 VQLMDLDTYETDELPIPE--ELGDSLEPGFEVEYIEAMGQEKI 126 (130)
T ss_pred EEEEcCCCcEEEEecCCh--hHHHHhhcCCEEEEEecCCeEEE
Confidence 999999999999999985 88999999999999998887543
No 9
>PRK03999 translation initiation factor IF-5A; Provisional
Probab=100.00 E-value=2.1e-35 Score=240.98 Aligned_cols=117 Identities=23% Similarity=0.341 Sum_probs=111.8
Q ss_pred eEEcCCCCCccEEEECCeEEEEEEeEEecCCC-CCeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCCE
Q 026120 58 KVNASHVRPGNVIEKSGKMYQVIDAEHKQRGR-GGAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTENDT 136 (243)
Q Consensus 58 ~i~a~diKkG~~I~~dG~py~V~~~~h~KpGK-G~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd~ 136 (243)
.+++++||+|++|+++|+||+|++++|+|||| |+|++|+++|||.||++++.+|+++|++|.+.++++++||||.||+.
T Consensus 5 ~~~~~~lrkG~~i~~~g~p~~V~~~~~~kpGkhg~a~vr~k~knL~tG~~~e~~~~s~d~~e~~~ve~~~~qylY~dg~~ 84 (129)
T PRK03999 5 QVEVGELKEGSYVVIDGEPCKIVEISKSKPGKHGSAKARIVAIGIFDGQKRSLVQPVDAKVEVPIIEKKTGQVLSIMGDV 84 (129)
T ss_pred cccHHHccCCCEEEECCEEEEEEEEEeecCCCCCcEEEEEEEEECCCCCEEEEEecCCCceeeeeEEeEEEEEEEecCCE
Confidence 36789999999999999999999999999999 99999999999999999999999999999999999999999999999
Q ss_pred EEEEeCCCccccccCchhhhhhhhccCCCCEEEEEEECCE
Q 026120 137 AFVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDGR 176 (243)
Q Consensus 137 ~~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg~ 176 (243)
|+|||+|||||++|+.+ +++..||+||++|.|+--.|+
T Consensus 85 ~~fMd~eTyeq~~i~~~--~d~~~~l~eg~~v~v~~~~g~ 122 (129)
T PRK03999 85 VQLMDLETYETFEIPIP--EELKDKLEPGVEVEYWEAMGR 122 (129)
T ss_pred EEEecCCCceEEEecCC--hhHHhhCcCCCEEEEEhhCCe
Confidence 99999999999999998 889999999999998765555
No 10
>PLN03107 eukaryotic translation initiation factor 5A; Provisional
Probab=100.00 E-value=4.3e-32 Score=228.53 Aligned_cols=122 Identities=18% Similarity=0.276 Sum_probs=107.5
Q ss_pred eeeEEcCCCCCccEEEECCeEEEEEEeEEecCCC-CCeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeC
Q 026120 56 AVKVNASHVRPGNVIEKSGKMYQVIDAEHKQRGR-GGAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTEN 134 (243)
Q Consensus 56 ~~~i~a~diKkG~~I~~dG~py~V~~~~h~KpGK-G~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dg 134 (243)
.+|+++++||+|++|+++|+||+|++++|+|||| |+|++|+++|||+||++++.+|+++++++.|+++++++||||.||
T Consensus 18 t~m~~~~~lKkG~~I~~~g~pc~V~e~~~~KpGKHG~A~vr~k~knl~TG~k~e~~f~s~~~ve~~~ve~~~~qyly~dg 97 (159)
T PLN03107 18 TYPQQAGTIRKGGYIVIKGRPCKVVEVSTSKTGKHGHAKCHFVAIDIFTGKKLEDIVPSSHNCDVPHVNRTDYQLIDISE 97 (159)
T ss_pred eeccchHhccCCCEEEECCEEEEEEEEEecCCCCCCcEEEEEEEEECCCCCEEEEEecCCCEEEEEEEEEEEEEEEEEcC
Confidence 3589999999999999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred CEE-EEEeC--CCccccccCc---hhhhhhhhccCCCCEEEEEEE--CCEE
Q 026120 135 DTA-FVIES--ETFEQLEVPL---DVFGKAGAYLQEGMKVWLQLY--DGRA 177 (243)
Q Consensus 135 d~~-~FMD~--etyEQi~l~~---~~lgd~~~~L~eg~~v~v~~~--dg~~ 177 (243)
|.| +|||+ ++|||+.||. ++......+..+|+++.|..| .|+.
T Consensus 98 d~y~~fMD~~get~eqi~v~~~~~el~~~i~~~f~~g~~~~v~v~~~mg~e 148 (159)
T PLN03107 98 DGFVSLMDESGNTKDDLKLPTEDDTLAEQIKDGFDEGKDLVVTVMSAMGEE 148 (159)
T ss_pred CceEEEEcCCCCcceeEEccCcchHHHHHHHHHHhCCCeEEEEEEecCCeE
Confidence 995 99999 6999999986 333333445577998555444 3654
No 11
>PF09285 Elong-fact-P_C: Elongation factor P, C-terminal; InterPro: IPR015365 These nucleic acid binding domains are predominantly found in elongation factor P, where they adopt an OB-fold, with five beta-strands forming a beta-barrel in a Greek-key topology []. ; GO: 0043043 peptide biosynthetic process, 0005737 cytoplasm; PDB: 1YBY_A 3OYY_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H.
Probab=99.94 E-value=6.7e-27 Score=165.19 Aligned_cols=56 Identities=32% Similarity=0.629 Sum_probs=50.3
Q ss_pred EEEEEEEecCCCCCcCCCCCceeEEeecCcEEEccccccCCCEEEEECCCCceeec
Q 026120 186 VACTIKEIHASTKGPTVTPRYRRALLDNGVTVMVPSYLEIGEEIFINPQDDSYIGR 241 (243)
Q Consensus 186 V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~VP~FI~~Gd~I~VdT~~g~Yv~R 241 (243)
|+|+|+||+|++||||+++++|+|+||||++|+||+||++||+|+|||++|+|++|
T Consensus 1 V~l~V~etep~~kg~t~~~~~K~A~letG~~i~VP~FI~~Gd~I~VdT~~g~Yv~R 56 (56)
T PF09285_consen 1 VELEVVETEPAVKGDTASSSYKPATLETGAEIQVPLFIEEGDKIKVDTRDGSYVER 56 (56)
T ss_dssp EEEEEEEE-SSSTTSSSSTTEEEEEETTS-EEEEETT--TT-EEEEETTTTEEEEE
T ss_pred CEEEEEECCCCccCcccCCCccEEEEcCCCEEEccceecCCCEEEEECCCCeEeCC
Confidence 78999999999999999999999999999999999999999999999999999998
No 12
>cd05794 S1_EF-P_repeat_2 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-tRNA and puromycine in vitro. EF-P binds to both the 30S and 50S ribosomal subunits. EF-P binds near the streptomycine binding site of the 16S rRNA in the 30S subunit. EF-P interacts with domains 2 and 5 of the 23S rRNA. The L16 ribosomal protein of the 50S or its N-terminal fragment are required for EF-P mediated peptide bond synthesis, whereas L11, L15, and L7/L12 are not required in this reaction, suggesting that EF-P may function at a different ribosomal site than most other translation factors. EF-P is essential for cell viability and is required for protein synthesis. EF-P is mainly present in bacteria. The EF-P homologs in archaea and eukaryotes are the initiation factors aIF5A and eIF5A, respectively. EF-P
Probab=99.94 E-value=4.8e-27 Score=165.95 Aligned_cols=56 Identities=29% Similarity=0.526 Sum_probs=55.0
Q ss_pred EEEEEEEecCCCCCcCCCCCceeEEeecCcEEEccccccCCCEEEEECCCCceeec
Q 026120 186 VACTIKEIHASTKGPTVTPRYRRALLDNGVTVMVPSYLEIGEEIFINPQDDSYIGR 241 (243)
Q Consensus 186 V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~VP~FI~~Gd~I~VdT~~g~Yv~R 241 (243)
|+|+|+||+|++||||+++++|||+||||++|+||+||++||+|+|||++|+|++|
T Consensus 1 v~l~V~etep~~kG~T~~~~~K~A~letG~~i~VP~FI~~Gd~I~V~T~~g~Y~~R 56 (56)
T cd05794 1 VELEVTETEPGVKGDTASSGTKPATLETGAEVQVPLFIKEGEKIKVDTRTGEYVER 56 (56)
T ss_pred CEEEEEECCCCccccccCCCcceEEECCCCEEEcCCeecCCCEEEEECCCCcEecC
Confidence 58999999999999999999999999999999999999999999999999999998
No 13
>smart00841 Elong-fact-P_C Elongation factor P, C-terminal. These nucleic acid binding domains are predominantly found in elongation factor P, where they adopt an OB-fold, with five beta-strands forming a beta-barrel in a Greek-key topology PUBMED:15210970.
Probab=99.94 E-value=4.8e-27 Score=165.92 Aligned_cols=56 Identities=27% Similarity=0.515 Sum_probs=55.0
Q ss_pred EEEEEEEecCCCCCcCCCCCceeEEeecCcEEEccccccCCCEEEEECCCCceeec
Q 026120 186 VACTIKEIHASTKGPTVTPRYRRALLDNGVTVMVPSYLEIGEEIFINPQDDSYIGR 241 (243)
Q Consensus 186 V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~VP~FI~~Gd~I~VdT~~g~Yv~R 241 (243)
|+|+|+||+|++||||+++++|||+||||++|+||+||++||+|+|||++|+|++|
T Consensus 1 V~l~V~etep~vkG~T~~~~~K~A~letG~~i~VP~FI~~Gd~I~V~T~~g~Y~~R 56 (56)
T smart00841 1 VELEVTETEPGVKGDTASGGTKPATLETGAVVQVPLFINEGDKIKVDTRTGEYVSR 56 (56)
T ss_pred CEEEEEECCCCccccccCCCcceEEECCCCEEEcCCcccCCCEEEEECCCCcEEcC
Confidence 58999999999999999999999999999999999999999999999999999998
No 14
>cd04470 S1_EF-P_repeat_1 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-tRNA and puromycine in vitro. EF-P binds to both the 30S and 50S ribosomal subunits. EF-P binds near the streptomycine binding site of the 16S rRNA in the 30S subunit. EF-P interacts with domains 2 and 5 of the 23S rRNA. The L16 ribosomal protein of the 50S or its N-terminal fragment are required for EF-P mediated peptide bond synthesis, whereas L11, L15, and L7/L12 are not required in this reaction, suggesting that EF-P may function at a different ribosomal site than most other translation factors. EF-P is essential for cell viability and is required for protein synthesis. EF-P is mainly present in bacteria. The EF-P homologs in archaea and eukaryotes are the initiation factors aIF5A and eIF5A, respectively. EF-P
Probab=99.89 E-value=3.5e-23 Score=148.71 Aligned_cols=61 Identities=33% Similarity=0.758 Sum_probs=59.8
Q ss_pred eeeEEEEEEEeCCEEEEEeCCCccccccCchhhhhhhhccCCCCEEEEEEECCEEEEEeCC
Q 026120 123 EDKSFTCLYTENDTAFVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDGRALSGSIP 183 (243)
Q Consensus 123 er~~~qylY~Dgd~~~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg~~i~v~lP 183 (243)
+++++||||.||+.|+|||++||||++|+++.+|++.+||+|||+|++++|+|+||+|+||
T Consensus 1 e~~~~qylY~dg~~~~FMd~etyeQ~~i~~~~igd~~~~L~e~~~v~v~~~~~~~i~v~lP 61 (61)
T cd04470 1 EEREMQYLYKDGDNYVFMDTETYEQIELPKEALGDAAKFLKEGMEVIVLFYNGEPIGVELP 61 (61)
T ss_pred CCceEEEEEeCCCEEEEeCCCCceEEEECHHHhhhHHhhCcCCCEEEEEEECCEEEEEECc
Confidence 5789999999999999999999999999999999999999999999999999999999999
No 15
>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=99.85 E-value=3.3e-21 Score=137.07 Aligned_cols=58 Identities=40% Similarity=0.708 Sum_probs=53.6
Q ss_pred EcCCCCCccEEEECCeEEEEEEeEEecCCCCCeEEeEEEeeCCCCCeEEEEeCCCCcE
Q 026120 60 NASHVRPGNVIEKSGKMYQVIDAEHKQRGRGGAMMQMELRDIDTGNKVSLRFGTEEAV 117 (243)
Q Consensus 60 ~a~diKkG~~I~~dG~py~V~~~~h~KpGKG~A~vriklknL~TG~k~e~tf~s~dkv 117 (243)
+|+|||+|++|++||+||+|++++|+|||||+|++|+|||||.||+++|++|+++|+|
T Consensus 1 sa~dlr~G~~i~~~g~~~~V~~~~~~k~gkg~a~v~~klknl~tG~~~e~tf~s~d~v 58 (58)
T PF08207_consen 1 SASDLRKGMVIEIDGEPYVVLDFQHVKPGKGGAFVRVKLKNLRTGSKVEKTFRSGDKV 58 (58)
T ss_dssp EGGG--TTSEEEETTEEEEEEEEEEECCTTSSSEEEEEEEETTTTEEEEEEEETT-EE
T ss_pred CHHHccCCCEEEECCEEEEEEEEEEECCCCCCeEEEEEEEECCCCCEEEEEECCCCcC
Confidence 5899999999999999999999999999999999999999999999999999999986
No 16
>PF01132 EFP: Elongation factor P (EF-P) OB domain; InterPro: IPR001059 Elongation factor P (EF-P) is a prokaryotic protein translation factor required for efficient peptide bond synthesis on 70S ribosomes from fMet-tRNAfMet []. Probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase. This entry reresents the central domain of elongation factor P and its homologues. It forms an oligonucleotide-binding (OB) fold, though it is not clear if this region is involved in binding nucleic acids [].; GO: 0003746 translation elongation factor activity, 0006414 translational elongation; PDB: 1YBY_A 3A5Z_H 3TRE_A 1UEB_B 3HUW_V 3HUY_V 3OYY_B.
Probab=99.83 E-value=9.1e-21 Score=133.49 Aligned_cols=55 Identities=36% Similarity=0.748 Sum_probs=49.9
Q ss_pred eeEEEEEEEeCCEEEEEeCCCccccccCchhhhhhhhccCCCCEEEEEEECCEEE
Q 026120 124 DKSFTCLYTENDTAFVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDGRAL 178 (243)
Q Consensus 124 r~~~qylY~Dgd~~~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg~~i 178 (243)
+|++||||.||+.|+|||++||||++|+++.+|++.+||+||++|+|.+|+|+||
T Consensus 1 ~r~~qylY~dgd~~~FMd~etyeQi~v~~~~~g~~~~~L~eg~~v~v~~~~~~~I 55 (55)
T PF01132_consen 1 RREMQYLYKDGDNYVFMDTETYEQIEVPKDQLGDALKFLKEGMEVQVLFYEGKPI 55 (55)
T ss_dssp EEEEEEEEEESSEEEEEETTT--EEEEEHHHHTTTGCC--TTEEEEEEEETTEEE
T ss_pred CceEEEEEeCCCEEEEecCCCceEEEecHHHhChHHhhCcCCCEEEEEEECCEEC
Confidence 6899999999999999999999999999999999999999999999999999997
No 17
>PTZ00328 eukaryotic initiation factor 5a; Provisional
Probab=99.83 E-value=1.1e-19 Score=153.26 Aligned_cols=118 Identities=19% Similarity=0.306 Sum_probs=103.7
Q ss_pred eeEEcCCCCCccEEEECCeEEEEEEeEEecCCC-CCeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCC
Q 026120 57 VKVNASHVRPGNVIEKSGKMYQVIDAEHKQRGR-GGAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTEND 135 (243)
Q Consensus 57 ~~i~a~diKkG~~I~~dG~py~V~~~~h~KpGK-G~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd 135 (243)
+-++++.||+|.+|.++|+||+|+++..+|||| |+|++++...+|+||++.+...++.++++.|.++|++||++..++|
T Consensus 21 ~p~q~~~LkkG~yvvIkGrPCKIveistSKtGKHGhAK~~ivaidIFTgkK~edi~Ps~hnv~VP~V~r~~yqli~I~~d 100 (166)
T PTZ00328 21 YPLPAGALKKGGYVCINGRPCKVIDLSVSKTGKHGHAKVSIVATDIFTGNRLEDQAPSTHNVEVPFVKTFTYSVLDIQPN 100 (166)
T ss_pred ecccccceeECCEEEECCeeeEEEEEecCCCCcCCceEEEEEEEecCCCCEEeeecCccceeEeeeEEeeEEEEEEEcCC
Confidence 557899999999999999999999999999999 9999999999999999999999999999999999999999999876
Q ss_pred -------EEEEEeCCCcccccc--Cc-hhhhh-hhhccCCCCEEEEEEEC
Q 026120 136 -------TAFVIESETFEQLEV--PL-DVFGK-AGAYLQEGMKVWLQLYD 174 (243)
Q Consensus 136 -------~~~FMD~etyEQi~l--~~-~~lgd-~~~~L~eg~~v~v~~~d 174 (243)
...+||.+.|+-..| |. +.++. ....+.+|.+|.|.+|.
T Consensus 101 ~~~~~~g~v~LMd~~g~~k~dl~lp~~~el~~~ik~~f~~g~ev~v~vi~ 150 (166)
T PTZ00328 101 EDPSLPAHLSLMDDEGESREDLDMPPDAALATQIKEQFDSGKEVLVVVVS 150 (166)
T ss_pred CcccccceEEEEcCCCCeeecccCCChhHHHHHHHHHhcCCCeEEEEEEh
Confidence 478999998876665 43 23332 35677999999977775
No 18
>cd04463 S1_EF_like S1_EF_like: EF-like, S1-like RNA-binding domain. The EF-like superfamily contains the bacterial translation elongation factor P and its archeal and eukaryotic homologs, aIF5A and eIF5A. All proteins in this superfamily contain an S1 domain, which binds RNA or single-stranded DNA and often interacts with the ribosome. Hex-1, the SI-like domain of which is also found in this group, is structurally homologous to eIF5A and might have evolved from an ancestral eIF5A through gene duplication.
Probab=99.70 E-value=2.7e-17 Score=115.10 Aligned_cols=55 Identities=18% Similarity=0.269 Sum_probs=51.5
Q ss_pred eEEEEEEEeCCEEEEEeCCCccccccCchhhhhhhhccCCCCEEEEEEECCEEEEE
Q 026120 125 KSFTCLYTENDTAFVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDGRALSG 180 (243)
Q Consensus 125 ~~~qylY~Dgd~~~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg~~i~v 180 (243)
+++||||.||+.|+|||+|||||++++++.. ++.+||+||++|.|++|+|+||++
T Consensus 1 ~~~qylY~dg~~~~fMd~etyeq~~v~~~~~-~~~~~l~eg~~v~v~~~~g~~i~~ 55 (55)
T cd04463 1 RELQVLDIQGSKPVTMDLETYEVVQVPPPVD-QSFESFEPGEVVLVDTRTGQYVGV 55 (55)
T ss_pred CCEEEEEcCCCEeEEecCCCceEEEeCHHHh-hHHhhCCCCCEEEEEEECCEEEeC
Confidence 5799999999999999999999999999985 589999999999999999999874
No 19
>KOG3271 consensus Translation initiation factor 5A (eIF-5A) [Translation, ribosomal structure and biogenesis]
Probab=99.60 E-value=3.7e-15 Score=122.68 Aligned_cols=112 Identities=17% Similarity=0.279 Sum_probs=99.4
Q ss_pred EEcCCCCCccEEEECCeEEEEEEeEEecCCC-CCeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCCEE
Q 026120 59 VNASHVRPGNVIEKSGKMYQVIDAEHKQRGR-GGAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTENDTA 137 (243)
Q Consensus 59 i~a~diKkG~~I~~dG~py~V~~~~h~KpGK-G~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd~~ 137 (243)
.+++.||++-+|.++|+||+|+++..+|.|| |+|++.+..++|+||++.|.-++++++++++.++|.+||.+-.+++..
T Consensus 21 ~q~salrkNG~vviK~rpckivEmSTsKtGKHGhAKvh~vaidifTgkk~edI~psthn~dVp~vkr~~yqLidIsd~~~ 100 (156)
T KOG3271|consen 21 MQCSALRKNGHVVIKGRPCKIVEMSTSKTGKHGHAKVHIVAIDIFTGKKLEDICPSTHNMDVPVVKRVDYQLIDISDGYL 100 (156)
T ss_pred chhhheeeCCEEEEcCCCceEEEeecccCCcCCceEEEEEEEEeecCcccccccCCCCccccCccccceeEEEEecCCeE
Confidence 3578999999999999999999999999999 999999999999999999999999999999999999999999999988
Q ss_pred EEEeC--CCccccccCchhhhhhhh-ccCCCCEEEE
Q 026120 138 FVIES--ETFEQLEVPLDVFGKAGA-YLQEGMKVWL 170 (243)
Q Consensus 138 ~FMD~--etyEQi~l~~~~lgd~~~-~L~eg~~v~v 170 (243)
.|||+ ++-+++.+|...+++... -..+|..+.+
T Consensus 101 sl~t~sG~~kdDlklp~~el~~~i~~~~e~g~dl~v 136 (156)
T KOG3271|consen 101 SLMTDSGETKDDLKLPEGELGNQIRQGFEEGKDLLV 136 (156)
T ss_pred EEEcCCCCcchhccCcchhHHHHHHHhhcCCCcEEE
Confidence 89998 577888999877776643 3455554444
No 20
>cd04467 S1_aIF5A S1_aIF5A: Archaeal translation Initiation Factor 5A (aIF5A), S1-like RNA-binding domain. aIF5A is a homolog of eukaryotic eIF5A. IF5A is the only protein known to have the unusual amino acid hypusine. Hypusine is a post-translationally modified lysine and is essential for IF5A function. In yeast, eIF5A interacts with components of the 80S ribosome and translation elongation factors 2 (eEF2) in a hypusine-dependent manner. This C-terminal S1 domain resembles the cold-shock domain which binds RNA. Moreover, IF5A prefers binding to the actively translating ribosome. This evidence suggests that IF5A plays a role in translation elongation instead of translation initiation as previously proposed.
Probab=98.66 E-value=5.5e-08 Score=69.20 Aligned_cols=54 Identities=26% Similarity=0.319 Sum_probs=46.6
Q ss_pred EeeeEEEEEEEeCCEEEEEeCCCccccccCchhhhhhhhccCCCCEEEEEEECCEE
Q 026120 122 VEDKSFTCLYTENDTAFVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDGRA 177 (243)
Q Consensus 122 ver~~~qylY~Dgd~~~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg~~ 177 (243)
++|+.+|.++.+||..++||+||||.++++.. .+...-+++|.+|.++-..|+.
T Consensus 1 i~k~~aqVisi~g~~vQlMD~eTYeT~ev~~p--~~~~~~i~~G~eV~y~~~~g~~ 54 (57)
T cd04467 1 IERKTGQVLSIMGDVVQLMDLETYETFEVPIP--EEIKDKLEPGKEVEYWESMGKR 54 (57)
T ss_pred CcceEEEEEEEcCCEEEEeccccceeEEEecc--hhhcccCCCCCEEEEEeecCeE
Confidence 58999999999999999999999999999986 2233458999999998887864
No 21
>COG1499 NMD3 NMD protein affecting ribosome stability and mRNA decay [Translation, ribosomal structure and biogenesis]
Probab=98.06 E-value=4.7e-05 Score=72.04 Aligned_cols=109 Identities=21% Similarity=0.298 Sum_probs=86.8
Q ss_pred eeEEcCCCCCccEEEECCeEEEEEEeEEecCCCCCeEEeEEEeeCCCCCeEEEEeCCCCcEE----eeeEeeeEEEEEEE
Q 026120 57 VKVNASHVRPGNVIEKSGKMYQVIDAEHKQRGRGGAMMQMELRDIDTGNKVSLRFGTEEAVE----RVFVEDKSFTCLYT 132 (243)
Q Consensus 57 ~~i~a~diKkG~~I~~dG~py~V~~~~h~KpGKG~A~vriklknL~TG~k~e~tf~s~dkve----~~~ver~~~qylY~ 132 (243)
+.+.+-++++|++|.++|..+.++... |+ .+.++|+.||...+.+|.....-+ ...-+-+.+.++..
T Consensus 240 ~Svrip~~~~gDiV~~~~~~~~~v~~~----~~-----~~~~~dl~t~e~~~~~~~~~~~~~~~~~~~~~~~~~~~vvs~ 310 (355)
T COG1499 240 YSVRIPEFRPGDIVSVRGRQLVLVRSI----GK-----GIVVLDLETGEPVEITWSVYKRNEGKVAVKEPRLKKAVVVSR 310 (355)
T ss_pred EEEECCCCCCCCEEEECCCeEEEEEEe----cC-----ceEEEecccCCccccChhhcccCcceeeeccccceEEEEEec
Confidence 567789999999999999666555544 45 589999999988888775544433 23333368889999
Q ss_pred eCCEEEEEeCCCccccccCchhhhhhhhccCCCCEEEEEEECCEEEEEe
Q 026120 133 ENDTAFVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDGRALSGS 181 (243)
Q Consensus 133 Dgd~~~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg~~i~v~ 181 (243)
+++..+|||++|||-+++..+ =|.+|.+|.++.++|....++
T Consensus 311 ~~~~~~v~d~et~e~~~~~~~-------~~~~g~~v~v~~~~~~~~~~~ 352 (355)
T COG1499 311 DPSAIQVLDPETYEARTVKGP-------SLEEGDEVKVFKVRGRNYVVE 352 (355)
T ss_pred CCCceEEEecceEEEEeccCC-------CCCCCCEEEEEEEeceEEeec
Confidence 999999999999999999876 378999999999999876543
No 22
>PF01287 eIF-5a: Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold; InterPro: IPR020189 A five-stranded beta-barrel was first noted as a common structure among four proteins binding single-stranded nucleic acids (staphylococcal nuclease and aspartyl-tRNA synthetase) or oligosaccharides (B subunits of enterotoxin and verotoxin-1), and has been termed the oligonucleotide/oligosaccharide binding motif, or OB fold, a five-stranded beta-sheet coiled to form a closed beta-barrel capped by an alpha helix located between the third and fourth strands []. Two ribosomal proteins, S17 and S1, are members of this class, and have different variations of the OB fold theme. Comparisons with other OB fold nucleic acid binding proteins suggest somewhat different mechanisms of nucleic acid recognition in each case []. There are many nucleic acid-binding proteins that contain domains with this OB-fold structure, including anticodon-binding tRNA synthetases, ssDNA-binding proteins (CDC13, telomere-end binding proteins), phage ssDNA-binding proteins (gp32, gp2.5, gpV), cold shock proteins, DNA ligases, RNA-capping enzymes, DNA replication initiators and RNA polymerase subunit RBP8 []. This entry represents the RNA-binding domain of translation elongation factor IF5A [].; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0043022 ribosome binding, 0006452 translational frameshifting, 0045901 positive regulation of translational elongation, 0045905 positive regulation of translational termination; PDB: 1IZ6_B 3CPF_A 1KHI_A 1BKB_A 1XTD_A 3ER0_A 3HKS_B 1X6O_A 2EIF_A 1EIF_A.
Probab=97.06 E-value=0.0026 Score=46.86 Aligned_cols=56 Identities=23% Similarity=0.298 Sum_probs=39.7
Q ss_pred eEeeeEEEEEEEeCC-EEEEEeCCCccccc---cCchhhhhh-hhccCCCCE--EEEEEECCEE
Q 026120 121 FVEDKSFTCLYTEND-TAFVIESETFEQLE---VPLDVFGKA-GAYLQEGMK--VWLQLYDGRA 177 (243)
Q Consensus 121 ~ver~~~qylY~Dgd-~~~FMD~etyEQi~---l~~~~lgd~-~~~L~eg~~--v~v~~~dg~~ 177 (243)
.|+|++||.+..++| ...+|| ++||..+ +|...+++. ...+.+|.+ |+|+-..|+-
T Consensus 1 ~V~r~eyqli~I~~Dg~lsLMd-e~get~eDl~lP~~el~~ei~~~~~~g~~~~Vtv~~amG~e 63 (69)
T PF01287_consen 1 IVKRKEYQLIDIDGDGFLSLMD-EDGETREDLKLPDGELGEEIKAKFEEGKEVLVTVLSAMGEE 63 (69)
T ss_dssp -EEEEEEEEEEEETTTEEEEEE-TTS-EEEEEECCSHHHHHHHHHHHHTTCEEEEEEEEETTEE
T ss_pred CeEEEEEEEEEEccCcEEEEEc-CCCCeeccEEecccchhHHHHhhccCCCeEEEEEEeeCCcE
Confidence 478999999999987 778999 6655555 885555544 455689988 6666556653
No 23
>cd04468 S1_eIF5A S1_eIF5A: Eukaryotic translation Initiation Factor 5A (eIF5A), S1-like RNA-binding domain. eIF5A is an evolutionarily conserved protein found in eukaryotes. eIF5A is the only protein known to have the unusual amino acid hypusine. Hypusine is essential for eIF5A function and is a post-translationally modified lysine. eIF5A interacts with components of the 80S ribosome and translation elongation factors 2 (eEF2) in a hypusine-dependent manner. This C-terminal S1 domain resembles the oligonucleotides-binding fold (OB fold) which binds RNA. Moreover, eIF5A prefers binding to the actively translating ribosome. This evidence suggests that eIF5A plays a role in translation elongation instead of translation initiation as previously proposed.
Probab=93.23 E-value=0.32 Score=35.95 Aligned_cols=51 Identities=22% Similarity=0.357 Sum_probs=39.0
Q ss_pred EeeeEEEEEEEeCCEEEEEeC--CCccccccCchhhhhhhh-ccCCCCEEEEEE
Q 026120 122 VEDKSFTCLYTENDTAFVIES--ETFEQLEVPLDVFGKAGA-YLQEGMKVWLQL 172 (243)
Q Consensus 122 ver~~~qylY~Dgd~~~FMD~--etyEQi~l~~~~lgd~~~-~L~eg~~v~v~~ 172 (243)
|.|++||.+..+++...+|+. ++-|++.||.+.++.... ...+|..+.+..
T Consensus 1 V~R~eYqLidI~dGflsLm~e~G~~k~DlklP~~elg~~I~~~f~~gk~~~vtV 54 (69)
T cd04468 1 VKRTEYQLIDIDDGFLSLMDDDGETREDLKLPEGELGKEIREKFDEGKDVLVTV 54 (69)
T ss_pred CcceeEEEEeecCCeEEEEcCCCCcccCCcCCcHHHHHHHHHHHhCCCcEEEEE
Confidence 468999999998788899976 689999999988886642 336676655543
No 24
>PF00900 Ribosomal_S4e: Ribosomal family S4e; InterPro: IPR013845 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 [, ]. A number of eukaryotic and archaeal ribosomal proteins can be grouped on the basis of sequence similarities. One of these families includes yeast S7 (YS6); archaeal S4e; and mammalian and plant cytoplasmic S4 []. Two highly similar isoforms of mammalian S4 exist, one coded by a gene on chromosome Y, and the other on chromosome X. These proteins have 233 to 264 amino acids. This entry represents the central region of these proteins.; PDB: 2XZM_W 2XZN_W 3IZ6_D 3KBG_A 3U5G_E 3U5C_E 3IZB_D.
Probab=78.02 E-value=3.8 Score=30.70 Aligned_cols=66 Identities=12% Similarity=0.190 Sum_probs=39.3
Q ss_pred CEEEEEEEC-CEEEEEeCCCe----EEEEEEEecCCCCCcCCCCCceeEEeecCcEEEcc-ccccCCCEEEEECCCCc
Q 026120 166 MKVWLQLYD-GRALSGSIPKR----VACTIKEIHASTKGPTVTPRYRRALLDNGVTVMVP-SYLEIGEEIFINPQDDS 237 (243)
Q Consensus 166 ~~v~v~~~d-g~~i~v~lP~~----V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~VP-~FI~~Gd~I~VdT~~g~ 237 (243)
...-+++.. |+..-++++.. =-|+|..-- +..++-=...|..|..|.+| +-|++||-|+|+..+++
T Consensus 4 e~yRvl~d~kgr~~l~~I~~eea~~KLckV~~k~------~~~gG~~ql~~hDGrni~~~~~~~k~~Dtv~i~l~~~k 75 (77)
T PF00900_consen 4 EHYRVLYDTKGRFVLHPISEEEAKYKLCKVRNKT------TGKGGKPQLNTHDGRNIRYPDPDIKTNDTVVIDLPTQK 75 (77)
T ss_dssp EEEEEEE-TTS-EEEEEE-TTGGGEEEEEEEEEE------EEGGGEEEEEETTTEEEES-SST--TTEEEEEETTTTE
T ss_pred cEEEEEECCCCcEEEEECCHHHccCeEEEEeEEE------EecCCcEEEEecCceEEEcCcCCccCCCEEEEECCCCc
Confidence 334444432 55554444433 245555542 23334446788999999999 99999999999999886
No 25
>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=75.79 E-value=6.6 Score=32.38 Aligned_cols=39 Identities=26% Similarity=0.405 Sum_probs=30.8
Q ss_pred EEcCCCCCccEEEECCe--EEEEEEeEEec--CC------CCCeEEeEE
Q 026120 59 VNASHVRPGNVIEKSGK--MYQVIDAEHKQ--RG------RGGAMMQME 97 (243)
Q Consensus 59 i~a~diKkG~~I~~dG~--py~V~~~~h~K--pG------KG~A~vrik 97 (243)
+..=|||.|+.|.+++. +|.|+.+++.- +. ||.+.|.+|
T Consensus 55 v~~LDlRIGD~Vkv~~~k~~yiV~Gl~~~~~~~~~~i~cirGy~tV~Lk 103 (131)
T PF08605_consen 55 VKYLDLRIGDTVKVDGPKVTYIVVGLECKISSEDNIITCIRGYNTVYLK 103 (131)
T ss_pred EeeeeeecCCEEEECCCCccEEEEEeeecCCCCCCceEEcCCCcEEEEE
Confidence 34568999999999998 99999999872 33 477777764
No 26
>cd04469 S1_Hex1 S1_Hex1: Hex1, S1-like RNA-binding domain. Hex1 protein is the major component of the Woronin body in filamentous fungi. The Woronin body is a dense vesicle and plays a vital role in filamentous fungi cell integrity. When cell damage occurs, Woronin bodies seal the septal pore to prevent further cytoplasmic bleeding. Hex1 protein self-assembles to form the solid core of the Woronin body vesicle. The Hex1 sequence and structure are similar to eukaryotic initiation factor 5A (eIF5A), suggesting they share a common ancestor during evolution. All members of the EF superfamily to which Hex1 belongs, contain an S1 domain, which has been shown to bind RNA or single-stranded DNA and often interacts with the ribosome.
Probab=69.97 E-value=22 Score=26.65 Aligned_cols=52 Identities=15% Similarity=0.165 Sum_probs=36.0
Q ss_pred eEEEEEEEeCCEEEEEeC--CCccccccC-chhhhhhhh-ccCCCC-E--EEEEEECCE
Q 026120 125 KSFTCLYTENDTAFVIES--ETFEQLEVP-LDVFGKAGA-YLQEGM-K--VWLQLYDGR 176 (243)
Q Consensus 125 ~~~qylY~Dgd~~~FMD~--etyEQi~l~-~~~lgd~~~-~L~eg~-~--v~v~~~dg~ 176 (243)
++||.+..|++...+||. ++-+++.|| ...++.... -..+|. + |.|+--.|+
T Consensus 3 ~eYqLidI~DG~lsLM~e~G~~kdDl~lP~~~~l~~~I~~~f~~gk~~v~VtVlsAmGe 61 (75)
T cd04469 3 KQYRVLDIQDGSIVAMTETGDVKQGLPVIDQSNLWTRLKTAFESGRGSVRVLVVNDGGR 61 (75)
T ss_pred eEEEEEEecCCeEEEEcCCCCcccCccCCCcchHHHHHHHHHHCCCCcEEEEEEccCCe
Confidence 589999997677889976 679999999 666665532 226676 4 444444454
No 27
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=63.94 E-value=72 Score=34.47 Aligned_cols=170 Identities=13% Similarity=0.140 Sum_probs=103.8
Q ss_pred cCCCCCccEEEE-------CCeEEEEEEeEE-----ecCCC----------CCeEEeEEEeeCCCCCeEEEEeCCCCcEE
Q 026120 61 ASHVRPGNVIEK-------SGKMYQVIDAEH-----KQRGR----------GGAMMQMELRDIDTGNKVSLRFGTEEAVE 118 (243)
Q Consensus 61 a~diKkG~~I~~-------dG~py~V~~~~h-----~KpGK----------G~A~vriklknL~TG~k~e~tf~s~dkve 118 (243)
..+-+.|+++++ ||-+|+=+.+.+ ++|-. ...-+.... -+.+.++.+..|..+|.+|
T Consensus 337 ~~~~~~Gd~l~~~gn~~~~dGFLyK~v~i~sI~t~gV~PT~dELekF~~~~e~~Dl~~~s-t~~~~r~~~~~F~~GD~Ve 415 (1024)
T KOG1999|consen 337 RRDHSRGDYLEFEGNELFKDGFLYKDVSISSIITDGVKPTLDELEKFNPSNEEGDLEWVS-TLKSNRKKKHLFSPGDAVE 415 (1024)
T ss_pred ccccccCceEEecCCceeccceeeeeeecceeeecCcccCHHHHHhhcCCCccccceeee-eeccccccccccCCCCeEE
Confidence 344456777765 556776655554 34421 111111222 5678888888999999999
Q ss_pred eeeEeeeEEEEEE--EeCCEEEEEeC--CCccccccCchhhhhhhhccCCCCEEEEEE--EC---CEEEEEeCCCeE---
Q 026120 119 RVFVEDKSFTCLY--TENDTAFVIES--ETFEQLEVPLDVFGKAGAYLQEGMKVWLQL--YD---GRALSGSIPKRV--- 186 (243)
Q Consensus 119 ~~~ver~~~qylY--~Dgd~~~FMD~--etyEQi~l~~~~lgd~~~~L~eg~~v~v~~--~d---g~~i~v~lP~~V--- 186 (243)
+..-|-+.++=.- .||+..+.|-. .--+.++++...| .+|.++|.-|+|.- |+ |-++-|+==.-+
T Consensus 416 V~~Gel~glkG~ve~vdg~~vti~~~~e~l~~pl~~~~~eL---rKyF~~GDhVKVi~G~~eG~tGlVvrVe~~~vi~~S 492 (1024)
T KOG1999|consen 416 VIVGELKGLKGKVESVDGTIVTIMSKHEDLKGPLEVPASEL---RKYFEPGDHVKVIAGRYEGDTGLVVRVEQGDVILLS 492 (1024)
T ss_pred EeeeeeccceeEEEeccCceEEEeeccccCCCccccchHhh---hhhccCCCeEEEEeccccCCcceEEEEeCCeEEEEe
Confidence 9998888876544 58887777765 3456777777655 78999999998874 44 344554432221
Q ss_pred -----EEEEEEecCCCCCcCCCCCceeEEeecCcEEEccccccCCCEEEEECCC
Q 026120 187 -----ACTIKEIHASTKGPTVTPRYRRALLDNGVTVMVPSYLEIGEEIFINPQD 235 (243)
Q Consensus 187 -----~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~VP~FI~~Gd~I~VdT~~ 235 (243)
+++|.-.+-..--+.++...|---.|=+-.|+.+.+ +.|-+|++.-++
T Consensus 493 d~t~eel~Vf~~dlq~c~ev~~gv~~~ge~e~hdlVqLd~~-~vgvI~rle~e~ 545 (1024)
T KOG1999|consen 493 DLTMEELKVFARDLQLCSEVTLGVEKSGEYELHDLVQLDNQ-NVGVIVRLERET 545 (1024)
T ss_pred cCccceeeEEehhcccchheeecccccccccccceeecCCC-cEEEEEEecchh
Confidence 344433332222223333334445556667788888 888888876543
No 28
>PF02941 FeThRed_A: Ferredoxin thioredoxin reductase variable alpha chain; InterPro: IPR004207 Ferredoxin thioredoxin reductase is a [4FE-4S] protein which plays an important role in the ferredoxin/thioredoxin regulatory chain. It converts an electron signal (photoreduced ferredoxin) to a thiol signal (reduced thioredoxin), regulating enzymes by reduction of specific disulphide groups. It catalyses the light-dependent activation of several photosynthetis enzymes. Ferredoxin thioredoxin reductase is a heterodimer of subunit a and subunit b. Subunit a is the variable subunit, and b is the catalytic chain. This family is the alpha chain.; GO: 0008937 ferredoxin-NAD(P) reductase activity, 0015979 photosynthesis, 0009536 plastid; PDB: 2PUK_B 2PVO_B 2PVG_B 1DJ7_B 2PVD_B 2PU9_B 2PUO_B.
Probab=60.48 E-value=4.5 Score=29.78 Aligned_cols=18 Identities=28% Similarity=0.600 Sum_probs=12.1
Q ss_pred EECCEEEEEeCCCeEEEE
Q 026120 172 LYDGRALSGSIPKRVACT 189 (243)
Q Consensus 172 ~~dg~~i~v~lP~~V~l~ 189 (243)
.|+|+|||..||-.|.+.
T Consensus 39 ~wkGr~iSanlP~~V~F~ 56 (67)
T PF02941_consen 39 DWKGRPISANLPVKVQFD 56 (67)
T ss_dssp EETTEE---SS-EEEEET
T ss_pred ecCCcEecCCCcEEEEEe
Confidence 599999999999988874
No 29
>PRK05338 rplS 50S ribosomal protein L19; Provisional
Probab=58.69 E-value=50 Score=26.77 Aligned_cols=66 Identities=23% Similarity=0.362 Sum_probs=44.7
Q ss_pred EEcCCCCCccEEEE-----CCeEEEEEEeEEe---cCCCCCeEEeEEEeeCCCCCeEEEEeCCCC-cEEeeeEeee
Q 026120 59 VNASHVRPGNVIEK-----SGKMYQVIDAEHK---QRGRGGAMMQMELRDIDTGNKVSLRFGTEE-AVERVFVEDK 125 (243)
Q Consensus 59 i~a~diKkG~~I~~-----dG~py~V~~~~h~---KpGKG~A~vriklknL~TG~k~e~tf~s~d-kve~~~ver~ 125 (243)
-+..+++.||+|.. +|.-.++..++-+ +.++|- .-.+.+||+..|--+|..|+-.. .++.+.+.++
T Consensus 14 ~~~p~f~~GD~V~V~~~i~eg~k~R~q~f~GvvI~~~~~G~-~~tftvRki~~gvGVEr~fpl~SP~I~~IeV~r~ 88 (116)
T PRK05338 14 KDIPEFRPGDTVRVHVKVVEGNKERIQAFEGVVIARRGRGL-NETFTVRKISYGVGVERTFPLHSPRIDSIEVVRR 88 (116)
T ss_pred cCCCCcCCCCEEEEEEEEccCCceEeccEEEEEEEEeCCCC-CceEEEEEcccCccEEEEecCCCCcccEEEEEEe
Confidence 45789999999975 5655554444432 223333 33689999999999999998644 3555655554
No 30
>PRK14560 putative RNA-binding protein; Provisional
Probab=54.49 E-value=33 Score=28.62 Aligned_cols=72 Identities=21% Similarity=0.363 Sum_probs=40.6
Q ss_pred cCCCCEEEEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCC-ceeEEe--------ecCcEEEcccc------ccCC
Q 026120 162 LQEGMKVWLQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPR-YRRALL--------DNGVTVMVPSY------LEIG 226 (243)
Q Consensus 162 L~eg~~v~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~-~K~A~L--------etG~~v~VP~F------I~~G 226 (243)
...+..+.+.+.||+|+-++.=..+ -|.+.|.-.-+. .+.+++ ..|+.++.|-. ++.|
T Consensus 38 ~~~~~~~~~~~~~~~p~~f~~d~~~-------~Ptl~~~~~~~~~~~~v~Vd~~a~~~i~~Ga~lm~pGV~~~~~~~~~G 110 (160)
T PRK14560 38 VETDKKEEIYLVDGEPLFFKVDDEL-------FPTLRGALKLKPEKRRVVVDAGAVKFVSNGADVMAPGIVEADEDIKEG 110 (160)
T ss_pred EEcCCcEEEEEECCEEEEEEeCCcc-------cccHHHHHhCCccCCEEEEeccHHHHHHCCCceecCeeeeCCCCCCCC
Confidence 3445677777778888877541122 222222111111 122222 36788877744 5779
Q ss_pred CEEEEECCC-Cceee
Q 026120 227 EEIFINPQD-DSYIG 240 (243)
Q Consensus 227 d~I~VdT~~-g~Yv~ 240 (243)
|.|.|-++. |+.+.
T Consensus 111 d~V~I~~~~~~~~va 125 (160)
T PRK14560 111 DIVFVVEETHGKPLA 125 (160)
T ss_pred CEEEEEECCCCeEEE
Confidence 999998876 87764
No 31
>TIGR00523 eIF-1A eukaryotic/archaeal initiation factor 1A. Recommended nomenclature: eIF-1A for eukaryotes, aIF-1A for Archaea. Also called eIF-4C
Probab=53.75 E-value=66 Score=25.20 Aligned_cols=51 Identities=14% Similarity=0.330 Sum_probs=36.1
Q ss_pred EEEEEeCCC----eEEEEEEEecCCCCCcCCCCCceeEEeecCcEEEc--c------ccccCCCEEEEECC
Q 026120 176 RALSGSIPK----RVACTIKEIHASTKGPTVTPRYRRALLDNGVTVMV--P------SYLEIGEEIFINPQ 234 (243)
Q Consensus 176 ~~i~v~lP~----~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~V--P------~FI~~Gd~I~VdT~ 234 (243)
+...++||. .+..+|++.-+ +..-.+.+++|.++.+ | ..|..||.|.|+..
T Consensus 7 ~~~~~~~p~~~e~e~~g~V~~~lG--------~~~~~V~~~dG~~~la~i~GK~Rk~iwI~~GD~VlVsp~ 69 (99)
T TIGR00523 7 QQIRVRLPRKEEGEILGVIEQMLG--------AGRVKVRCLDGKTRLGRIPGKLKKRIWIREGDVVIVKPW 69 (99)
T ss_pred CcceeeCCCCCCCEEEEEEEEEcC--------CCEEEEEeCCCCEEEEEEchhhcccEEecCCCEEEEEEc
Confidence 445677774 68888888743 3455677888987754 4 46899999999543
No 32
>PF01245 Ribosomal_L19: Ribosomal protein L19; InterPro: IPR001857 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L19 is one of the proteins from the large ribosomal subunit [, ]. In Escherichia coli, L19 is known to be located at the 30S-50S ribosomal subunit interface [] and may play a role in the structure and function of the aminoacyl-tRNA binding site. It belongs to a family of ribosomal proteins, including L19 from bacteria and the chloroplasts of red algae. L19 is a protein of 120 to 130 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3HUZ_T 3V2D_T 3I8I_R 2XG2_T 2V49_T 2XUX_T 3HUX_T 3I9C_R 3V25_T 3UZ2_R ....
Probab=53.46 E-value=47 Score=26.65 Aligned_cols=68 Identities=22% Similarity=0.275 Sum_probs=45.2
Q ss_pred eEEcCCCCCccEEEE-----CCeEEEEEEeEEe---cCCCCCeEEeEEEeeCCCCCeEEEEeCCCCc-EEeeeEeeeE
Q 026120 58 KVNASHVRPGNVIEK-----SGKMYQVIDAEHK---QRGRGGAMMQMELRDIDTGNKVSLRFGTEEA-VERVFVEDKS 126 (243)
Q Consensus 58 ~i~a~diKkG~~I~~-----dG~py~V~~~~h~---KpGKG~A~vriklknL~TG~k~e~tf~s~dk-ve~~~ver~~ 126 (243)
..+..+++.||+|.. +|....+..++-+ +-++|- .-.+.+||+..|.-+|..|+-... ++.+.+-++.
T Consensus 13 ~~~~p~f~~GD~v~V~~~i~e~~k~r~q~f~GvvIa~~~~g~-~ssftlR~~~~g~gVE~~f~l~SP~I~~IeV~~~~ 89 (113)
T PF01245_consen 13 KKDIPEFRVGDTVRVTYKISEGNKERIQVFEGVVIARRRRGL-NSSFTLRNISQGVGVERVFPLYSPLIKSIEVLRRG 89 (113)
T ss_dssp SSSSSSSSSSSEEEEEEEEESSSSEEEEEEEEEEEEEEBSST-SSEEEEEEEETTEEEEEEEETTSTTEEEEEEEEEB
T ss_pred hcCCCCcCCCCEEEEEEEEecCCCceeEEEEEEEEEEECCCC-CeeEEEEEEecCccEEEEEEcCCCCeEEEEEEEec
Confidence 467889999999965 3544444444421 123322 336788999999999999987554 6666666654
No 33
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=51.94 E-value=16 Score=26.57 Aligned_cols=19 Identities=42% Similarity=0.941 Sum_probs=14.0
Q ss_pred CCCCCccEEEECCeEEEEE
Q 026120 62 SHVRPGNVIEKSGKMYQVI 80 (243)
Q Consensus 62 ~diKkG~~I~~dG~py~V~ 80 (243)
..|++|++|+++|..|+|+
T Consensus 47 ~Kl~~GD~V~~~~~~~~Vv 65 (65)
T PF13275_consen 47 KKLRPGDVVEIDGEEYRVV 65 (65)
T ss_dssp ----SSEEEEETTEEEEEE
T ss_pred CcCCCCCEEEECCEEEEEC
Confidence 4689999999999999885
No 34
>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=51.82 E-value=64 Score=26.01 Aligned_cols=67 Identities=22% Similarity=0.281 Sum_probs=43.6
Q ss_pred eeEEcCCCCCccEEEE-----CCeEEEEEEeEE---ecCCCCCeEEeEEEeeCCCCCeEEEEeCCCC-cEEeeeEee
Q 026120 57 VKVNASHVRPGNVIEK-----SGKMYQVIDAEH---KQRGRGGAMMQMELRDIDTGNKVSLRFGTEE-AVERVFVED 124 (243)
Q Consensus 57 ~~i~a~diKkG~~I~~-----dG~py~V~~~~h---~KpGKG~A~vriklknL~TG~k~e~tf~s~d-kve~~~ver 124 (243)
+..+..++++||+|.. +|...++..++- .+.++|- .-.+.+||+..|--+|.+|+-.. .++.+.+.+
T Consensus 12 ~~~~ip~f~~GD~v~V~~~i~eg~k~R~q~f~GvvI~~~~~G~-~~tftvR~i~~gvGVEr~fpl~SP~I~~IeVl~ 87 (113)
T TIGR01024 12 LKKDLPDFRVGDTVRVHVKIVEGKKERIQVFEGVVIARRGGGI-GETFTVRKISYGVGVERIFPLHSPNIDSIEVVR 87 (113)
T ss_pred hhcCCCccCCCCEEEEEEEEccCCceEcccEEEEEEEEeCCCC-ceEEEEEEeccCccEEEEEEcCCCccceEEEEE
Confidence 3456889999999976 444444443432 1224443 33689999999999999997644 355555544
No 35
>PF08292 RNA_pol_Rbc25: RNA polymerase III subunit Rpc25; InterPro: IPR013238 Rpc25 is a strongly conserved subunit of RNA polymerase III and has homology to Rpa43 in RNA polymerase I, Rpb7 in RNA polymerase II and the archaeal RpoE subunit. Rpc25 is required for transcription initiation and is not essential for the elongating properties of RNA polymerase III [].; PDB: 2CKZ_D 3AYH_B.
Probab=50.98 E-value=90 Score=25.25 Aligned_cols=66 Identities=12% Similarity=0.207 Sum_probs=48.2
Q ss_pred EEEEEEeCCEEEEEeCCCccccccCchhhhhhhhccCCCCEEEEEEE-CCEEEEEeCCCeEEEEEEEec
Q 026120 127 FTCLYTENDTAFVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLY-DGRALSGSIPKRVACTIKEIH 194 (243)
Q Consensus 127 ~qylY~Dgd~~~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~-dg~~i~v~lP~~V~l~V~et~ 194 (243)
......+.+..++ ...-|++|.||++.|-+...| .++..+-++.| ++.-+-+++-..|-++|.+..
T Consensus 9 g~I~~~~~~Gi~v-slgFFddI~IP~~~L~~ps~f-d~~~~~W~W~~~~~~~l~~d~ge~IRFRV~~~~ 75 (122)
T PF08292_consen 9 GKIKSSTAEGIRV-SLGFFDDIFIPPSLLPEPSRF-DEEEQAWVWEYDEEQELFFDIGEEIRFRVESEI 75 (122)
T ss_dssp EEEEEEETTEEEE-EECCEEEEEEECCCC-TTEEE-ECCCTEEEEEESSSEEEEE-TT-EEEEEEEEEE
T ss_pred EEEEecCCCcEEE-EecccccEEECHHHCCCCCcc-CccCCEEEEECCCCceeEccCCCEEEEEEeEEE
Confidence 3455566555433 447799999999999887777 44566888888 899999999999999998764
No 36
>CHL00084 rpl19 ribosomal protein L19
Probab=49.84 E-value=84 Score=25.50 Aligned_cols=67 Identities=19% Similarity=0.217 Sum_probs=44.1
Q ss_pred eEEcCCCCCccEEEE-----CCeEEEEEEeEE---ecCCCCCeEEeEEEeeCCCCCeEEEEeCCCC-cEEeeeEeee
Q 026120 58 KVNASHVRPGNVIEK-----SGKMYQVIDAEH---KQRGRGGAMMQMELRDIDTGNKVSLRFGTEE-AVERVFVEDK 125 (243)
Q Consensus 58 ~i~a~diKkG~~I~~-----dG~py~V~~~~h---~KpGKG~A~vriklknL~TG~k~e~tf~s~d-kve~~~ver~ 125 (243)
..+..++++||+|.. +|.-.++..++- ..-|+|- .-.+.+|++..|--+|..|+-.. .++.+.+-++
T Consensus 17 ~~~~p~f~~GDtV~V~~~i~eg~k~R~q~F~GvvI~~r~~G~-~~tftvRki~~gvGVEr~fpl~SP~I~~IeV~r~ 92 (117)
T CHL00084 17 KKNLPKIRVGDTVKVGVLIQEGNKERVQFYEGTVIAKKNSGL-NTTITVRKVFQGIGVERVFLLHSPKLASIEVLRR 92 (117)
T ss_pred hcCCCccCCCCEEEEEEEEecCCeeEeceEEEEEEEEeCCCC-CeeEEEEEeccCccEEEEEecCCCccceEEEEEe
Confidence 457889999999974 565444443432 1224443 23689999999999999997644 3555555543
No 37
>PRK11507 ribosome-associated protein; Provisional
Probab=46.22 E-value=23 Score=26.30 Aligned_cols=19 Identities=21% Similarity=0.429 Sum_probs=16.9
Q ss_pred CCCCCccEEEECCeEEEEE
Q 026120 62 SHVRPGNVIEKSGKMYQVI 80 (243)
Q Consensus 62 ~diKkG~~I~~dG~py~V~ 80 (243)
-.|++|++|+++|+-++|.
T Consensus 51 kKl~~GD~V~~~g~~~~v~ 69 (70)
T PRK11507 51 CKIVAGQTVSFAGHSVQVV 69 (70)
T ss_pred CCCCCCCEEEECCEEEEEe
Confidence 4689999999999998875
No 38
>PRK04012 translation initiation factor IF-1A; Provisional
Probab=45.19 E-value=1.2e+02 Score=23.80 Aligned_cols=46 Identities=20% Similarity=0.305 Sum_probs=32.0
Q ss_pred CeEEEEEEEecCCCCCcCCCCCceeEEeecCcEEEc--c------ccccCCCEEEEECCCCc
Q 026120 184 KRVACTIKEIHASTKGPTVTPRYRRALLDNGVTVMV--P------SYLEIGEEIFINPQDDS 237 (243)
Q Consensus 184 ~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~V--P------~FI~~Gd~I~VdT~~g~ 237 (243)
..+...|++.-+ +..-.+.+++|.++.+ | ..|..||.|.|......
T Consensus 21 ~e~~g~V~~~lG--------~~~~~V~~~dG~~~la~i~GK~Rk~IwI~~GD~VlVe~~~~~ 74 (100)
T PRK04012 21 GEVFGVVEQMLG--------ANRVRVRCMDGVERMGRIPGKMKKRMWIREGDVVIVAPWDFQ 74 (100)
T ss_pred CEEEEEEEEEcC--------CCEEEEEeCCCCEEEEEEchhhcccEEecCCCEEEEEecccC
Confidence 566777777643 3455677788877644 4 57899999999865443
No 39
>PF13509 S1_2: S1 domain; PDB: 3GO5_A.
Probab=44.04 E-value=30 Score=24.27 Aligned_cols=37 Identities=14% Similarity=0.173 Sum_probs=22.8
Q ss_pred EEEEEeCCCccccccCchhhhhhhhccCCCCEEEEEEECC
Q 026120 136 TAFVIESETFEQLEVPLDVFGKAGAYLQEGMKVWLQLYDG 175 (243)
Q Consensus 136 ~~~FMD~etyEQi~l~~~~lgd~~~~L~eg~~v~v~~~dg 175 (243)
.-.|+|.+.-+.+.||...+. .=+++|.+|.++.|.|
T Consensus 15 ~g~fL~~~~~~~vlLp~~e~~---~~~~~Gd~v~VFvY~D 51 (61)
T PF13509_consen 15 FGYFLDDGEGKEVLLPKSEVP---EPLKVGDEVEVFVYLD 51 (61)
T ss_dssp SEEEEEETT-EEEEEEGGG---------TTSEEEEEEEE-
T ss_pred CEEEEECCCCCEEEechHHcC---CCCCCCCEEEEEEEEC
Confidence 345567777788888877553 3389999999998853
No 40
>PF13785 DUF4178: Domain of unknown function (DUF4178)
Probab=44.03 E-value=43 Score=26.59 Aligned_cols=22 Identities=27% Similarity=0.381 Sum_probs=19.5
Q ss_pred CCCccEEEECCeEEEEEEeEEe
Q 026120 64 VRPGNVIEKSGKMYQVIDAEHK 85 (243)
Q Consensus 64 iKkG~~I~~dG~py~V~~~~h~ 85 (243)
|++|+++.++|++|.|+...+-
T Consensus 1 L~~G~~~~~~g~~~~ViG~~~~ 22 (140)
T PF13785_consen 1 LQLGDIGRIDGKDYTVIGRIQY 22 (140)
T ss_pred CCCCCEEEECCeEEEEEEEEEE
Confidence 6899999999999999887653
No 41
>PF15415 DUF4622: Protein of unknown function (DUF4622)
Probab=43.72 E-value=2e+02 Score=26.62 Aligned_cols=73 Identities=21% Similarity=0.281 Sum_probs=46.9
Q ss_pred hccCCCCEEEEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCceeEEe-ecCcEEEc---cccccCCCE-------
Q 026120 160 AYLQEGMKVWLQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYRRALL-DNGVTVMV---PSYLEIGEE------- 228 (243)
Q Consensus 160 ~~L~eg~~v~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~L-etG~~v~V---P~FI~~Gd~------- 228 (243)
..|.+|..+-+.++++.-=+.+--. .--|+.| |+...+..-|.+. |||..|.+ |+|.++|-.
T Consensus 38 ~lL~~GSTlwL~~~~~ak~gtt~~t--qgYvVrt-----gtgG~~~LYPC~~deNG~~i~~s~tPLyl~aGtY~F~~iSP 110 (310)
T PF15415_consen 38 FLLPIGSTLWLFYYDQAKNGTTYYT--QGYVVRT-----GTGGYNSLYPCQFDENGKYINSSSTPLYLNAGTYYFRMISP 110 (310)
T ss_pred EEccCCCEEEEEEeccccccceeee--eEEEEEe-----cCCCcceeeeeEEcCCCcEEeccCCceEEecceEEEEEecc
Confidence 3568899999988875432221111 1223333 3444567789888 79988765 999999963
Q ss_pred -------EEEECCCCcee
Q 026120 229 -------IFINPQDDSYI 239 (243)
Q Consensus 229 -------I~VdT~~g~Yv 239 (243)
-+++..+|+|+
T Consensus 111 Aka~~~dgk~~I~NGeYl 128 (310)
T PF15415_consen 111 AKASNSDGKMNIDNGEYL 128 (310)
T ss_pred ccccccCceEEeCCceEE
Confidence 35666677775
No 42
>cd02786 MopB_CT_3 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=43.70 E-value=17 Score=27.84 Aligned_cols=21 Identities=19% Similarity=0.124 Sum_probs=17.9
Q ss_pred cccCCCEEEEECCCCceeecc
Q 026120 222 YLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 222 FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
=|+.||+|+|.++.|+..-+|
T Consensus 44 gi~~Gd~V~v~s~~G~~~~~v 64 (116)
T cd02786 44 GIADGDLVVVFNDRGSVTLRA 64 (116)
T ss_pred CCCCCCEEEEEcCCeEEEEEE
Confidence 467899999999999987665
No 43
>PRK04313 30S ribosomal protein S4e; Validated
Probab=42.71 E-value=55 Score=29.70 Aligned_cols=33 Identities=15% Similarity=0.314 Sum_probs=23.3
Q ss_pred CceeEEeecCcEEEcc--ccccCCCEEEEECCCCc
Q 026120 205 RYRRALLDNGVTVMVP--SYLEIGEEIFINPQDDS 237 (243)
Q Consensus 205 ~~K~A~LetG~~v~VP--~FI~~Gd~I~VdT~~g~ 237 (243)
+--...|..|..|.+| .-+++||-|+|+-.+++
T Consensus 131 G~~ql~~hDGrni~~~~~~~~k~~Dtv~i~l~~~k 165 (237)
T PRK04313 131 GKIQLNLHDGRNILVDVEDDYKTGDSLLISLPEQE 165 (237)
T ss_pred CEEEEEecCCceEEccCccccccCCEEEEECCCCc
Confidence 3445667777777777 57778888888777765
No 44
>PRK12366 replication factor A; Reviewed
Probab=42.64 E-value=4e+02 Score=27.41 Aligned_cols=55 Identities=18% Similarity=0.426 Sum_probs=36.3
Q ss_pred eEEcCCCCCccE-EEECCeEEEEEEeEEecCCCC--CeEEeEEEeeCCCCCeEEEEeCC
Q 026120 58 KVNASHVRPGNV-IEKSGKMYQVIDAEHKQRGRG--GAMMQMELRDIDTGNKVSLRFGT 113 (243)
Q Consensus 58 ~i~a~diKkG~~-I~~dG~py~V~~~~h~KpGKG--~A~vriklknL~TG~k~e~tf~s 113 (243)
.+.+++|.+|+. +.+.++...+-+...-.-.+| +-...+.+-| .||...---|..
T Consensus 63 ~~~I~dl~p~~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~D-etG~Ir~t~W~~ 120 (637)
T PRK12366 63 DFKISDIEEGQINVEITGRIIEISNIKTFTRKDGSTGKLANITIAD-NTGTIRLTLWND 120 (637)
T ss_pred eeEHHHCcCCCcceEEEEEEEEccCCeEEECCCCCccEEEEEEEEc-CCCEEEEEEEch
Confidence 346889999985 888787776666554433334 3345777777 888766666653
No 45
>TIGR00451 unchar_dom_2 uncharacterized domain 2. This uncharacterized domain is found a number of enzymes and uncharacterized proteins, often at the C-terminus. It is found in some but not all members of a family of related tRNA-guanine transglycosylases (tgt), which exchange a guanine base for some modified base without breaking the phosphodiester backbone of the tRNA. It is also found in rRNA pseudouridine synthase, another enzyme of RNA base modification not otherwise homologous to tgt. It is found, again at the C-terminus, in two putative glutamate 5-kinases. It is also found in a family of small, uncharacterized archaeal proteins consisting mostly of this domain.
Probab=41.76 E-value=56 Score=25.21 Aligned_cols=29 Identities=24% Similarity=0.512 Sum_probs=22.7
Q ss_pred cCcEEEcc------ccccCCCEEEEECCC-Cceeec
Q 026120 213 NGVTVMVP------SYLEIGEEIFINPQD-DSYIGR 241 (243)
Q Consensus 213 tG~~v~VP------~FI~~Gd~I~VdT~~-g~Yv~R 241 (243)
+|+.++.| .-++.||.|.|-+.+ |+.+.+
T Consensus 45 ~Ga~L~~pGV~~~~~~~~~gd~V~I~~~~~~~~iav 80 (107)
T TIGR00451 45 NGADVMRPGIVDADEDIKEGDDVVVVDENKDRPLAV 80 (107)
T ss_pred CCccccCCeeEeCCCCcCCCCEEEEEECCCCeEEEE
Confidence 68888888 445789999998776 888754
No 46
>cd02779 MopB_CT_Arsenite-Ox This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of Arsenite oxidase (Arsenite-Ox) and related proteins. Arsenite oxidase oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin.
Probab=40.62 E-value=19 Score=27.88 Aligned_cols=23 Identities=17% Similarity=0.033 Sum_probs=19.1
Q ss_pred ccccCCCEEEEECCCCceeeccC
Q 026120 221 SYLEIGEEIFINPQDDSYIGRAK 243 (243)
Q Consensus 221 ~FI~~Gd~I~VdT~~g~Yv~R~k 243 (243)
+=|+.||.|+|.++.|+..-||+
T Consensus 45 lgi~~Gd~V~v~s~~G~i~~~~~ 67 (115)
T cd02779 45 EGLKNGDLVEVYNDYGSTTAMAY 67 (115)
T ss_pred cCCCCCCEEEEEeCCEEEEEEEE
Confidence 45778999999999999887763
No 47
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=40.59 E-value=43 Score=22.04 Aligned_cols=31 Identities=19% Similarity=0.307 Sum_probs=23.1
Q ss_pred cccccCchhhhhhhhccCCCCEEEEEEECC-EEE
Q 026120 146 EQLEVPLDVFGKAGAYLQEGMKVWLQLYDG-RAL 178 (243)
Q Consensus 146 EQi~l~~~~lgd~~~~L~eg~~v~v~~~dg-~~i 178 (243)
-++.||++.... .-|++|+++.+...+| +.+
T Consensus 7 ~~v~iPk~~~~~--l~l~~Gd~v~i~~~~~g~i~ 38 (47)
T PF04014_consen 7 GQVTIPKEIREK--LGLKPGDEVEIEVEGDGKIV 38 (47)
T ss_dssp SEEEE-HHHHHH--TTSSTTTEEEEEEETTSEEE
T ss_pred ceEECCHHHHHH--cCCCCCCEEEEEEeCCCEEE
Confidence 478899887643 3689999999999887 443
No 48
>PF01079 Hint: Hint module; InterPro: IPR001767 This domain identifies a group of cysteine peptidases correspond to MEROPS peptidase family C46 (clan CH). The type example is the Hedgehog protein from Drosophila melanogaster (Fruit fly). These are involved in intracellular signalling required for a variety of patterning events during development. The hedgehog family of proteins self process by a cysteine-dependent mechanism, which is a one-time autolytic cleavage. It is differentiated from a typical peptidase reaction by the fact that the newly-formed carboxyl group is esterified with cholesterol, rather than being left free. The three-dimensional structure of the autolytic domain of the hedgehog protein of D. melanogaster shows that it is formed from two divergent copies of a module that also occurs in inteins, called a Hint domain [,].; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 3K7H_B 3K7I_B 3K7G_B 1AT0_A 3MXW_A 3M1N_B 3HO5_H 2WFR_A 2WFQ_A 2WG3_B ....
Probab=40.36 E-value=46 Score=29.55 Aligned_cols=46 Identities=17% Similarity=0.245 Sum_probs=32.1
Q ss_pred cceeeEEcCCCCCccEEEE---CCe--EEEEEEeEEecCCCCCeEEeEEEe
Q 026120 54 QRAVKVNASHVRPGNVIEK---SGK--MYQVIDAEHKQRGRGGAMMQMELR 99 (243)
Q Consensus 54 ~R~~~i~a~diKkG~~I~~---dG~--py~V~~~~h~KpGKG~A~vriklk 99 (243)
..|-.+.+.||+.|+.|.- +|+ ...|+-+.|..|..-+-|++++..
T Consensus 22 ~~G~~k~m~~L~iGD~Vla~d~~G~~~yS~V~~flhr~~~~~~~F~~i~te 72 (217)
T PF01079_consen 22 EDGGRKRMSDLKIGDRVLAVDSDGKLVYSPVIMFLHRDPEQRAEFVVIETE 72 (217)
T ss_dssp TTS-EEEGGG--TT-EEEEE-TTS-EEEEEEEEEEEEEEEEEEEEEEEEET
T ss_pred CCCCEeEHHHCCCCCEEEEecCCCcEEEEeEEEEeccCccccEEEEEEEcC
Confidence 3455678999999998875 554 559999999999887778888654
No 49
>TIGR03170 flgA_cterm flagella basal body P-ring formation protein FlgA. This model describes a conserved C-terminal region of the flagellar basal body P-ring formation protein FlgA. This sequence region contains a SAF domain, now described by Pfam model pfam08666.
Probab=40.18 E-value=1.8e+02 Score=22.62 Aligned_cols=24 Identities=25% Similarity=0.378 Sum_probs=19.4
Q ss_pred eEEEeeCCCCCeEEEEeCCCCcEE
Q 026120 95 QMELRDIDTGNKVSLRFGTEEAVE 118 (243)
Q Consensus 95 riklknL~TG~k~e~tf~s~dkve 118 (243)
.++++|+.+|+.+.-+.-+...++
T Consensus 98 ~I~V~N~~s~k~i~~~V~~~g~V~ 121 (122)
T TIGR03170 98 QIRVRNLSSGKIISGIVTGPGTVE 121 (122)
T ss_pred EEEEEECCCCCEEEEEEeCCCEEE
Confidence 789999999999988876655543
No 50
>KOG0267 consensus Microtubule severing protein katanin p80 subunit B (contains WD40 repeats) [Cell cycle control, cell division, chromosome partitioning]
Probab=39.63 E-value=55 Score=34.34 Aligned_cols=154 Identities=19% Similarity=0.206 Sum_probs=96.1
Q ss_pred eEEcCCCC-CccEEEECCeEEEEEEeEEecCCC----CCeEEeEEEeeCCCCCeEEEEeCC-CCcEEeeeEeeeEEEEEE
Q 026120 58 KVNASHVR-PGNVIEKSGKMYQVIDAEHKQRGR----GGAMMQMELRDIDTGNKVSLRFGT-EEAVERVFVEDKSFTCLY 131 (243)
Q Consensus 58 ~i~a~diK-kG~~I~~dG~py~V~~~~h~KpGK----G~A~vriklknL~TG~k~e~tf~s-~dkve~~~ver~~~qylY 131 (243)
-..+.|+| +|..-.++|.++.|--.++..-|| |+--.-+++=|+.-|+.. ..|++ ..++. .+|-.+..||-
T Consensus 135 d~~iwD~Rk~Gc~~~~~s~~~vv~~l~lsP~Gr~v~~g~ed~tvki~d~~agk~~-~ef~~~e~~v~--sle~hp~e~Ll 211 (825)
T KOG0267|consen 135 DLKIWDIRKKGCSHTYKSHTRVVDVLRLSPDGRWVASGGEDNTVKIWDLTAGKLS-KEFKSHEGKVQ--SLEFHPLEVLL 211 (825)
T ss_pred cceehhhhccCceeeecCCcceeEEEeecCCCceeeccCCcceeeeecccccccc-ccccccccccc--ccccCchhhhh
Confidence 35578998 888889999777666666666676 444467888888888766 55653 22333 33355666666
Q ss_pred EeC---CEEEEEeCCCccccccCchhhhhh--hhccCCCCEE----EEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCC
Q 026120 132 TEN---DTAFVIESETFEQLEVPLDVFGKA--GAYLQEGMKV----WLQLYDGRALSGSIPKRVACTIKEIHASTKGPTV 202 (243)
Q Consensus 132 ~Dg---d~~~FMD~etyEQi~l~~~~lgd~--~~~L~eg~~v----~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa 202 (243)
.-| ...-|-|.||||-|.=.+....+. ..|=-+|+.+ ++.+-+.+ .--.+|..++..+||-.-|+++
T Consensus 212 a~Gs~d~tv~f~dletfe~I~s~~~~~~~v~~~~fn~~~~~~~~G~q~sl~~~~----~a~ah~~~~~~~~Ep~~~~~~v 287 (825)
T KOG0267|consen 212 APGSSDRTVRFWDLETFEVISSGKPETDGVRSLAFNPDGKIVLSGEQISLSESR----TASAHVRKTLARWEPEMDGAVV 287 (825)
T ss_pred ccCCCCceeeeeccceeEEeeccCCccCCceeeeecCCceeeecCchhhhhhhh----cccceeecccccccccccccee
Confidence 655 356789999998876543322222 2233333321 11111122 2238999999999999999987
Q ss_pred C-CCceeEEeecCcEEE
Q 026120 203 T-PRYRRALLDNGVTVM 218 (243)
Q Consensus 203 ~-~~~K~A~LetG~~v~ 218 (243)
. +..|+..+.-|..=+
T Consensus 288 qs~~~~ek~v~v~~d~~ 304 (825)
T KOG0267|consen 288 QSNSHKEKVVAVGRDPQ 304 (825)
T ss_pred eecCCcccccccccCcc
Confidence 4 577777775554433
No 51
>PF05521 Phage_H_T_join: Phage head-tail joining protein ; InterPro: IPR008767 This entry describes the head-tail adaptor protein of bacteriophage SPP1 and related proteins in other bacteriophage and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg7 (RCAP_rcc01689) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2KCA_A 2KZ4_A.
Probab=39.29 E-value=60 Score=23.24 Aligned_cols=24 Identities=21% Similarity=0.473 Sum_probs=18.6
Q ss_pred CCCCccEEEECCeEEEEEEeEEec
Q 026120 63 HVRPGNVIEKSGKMYQVIDAEHKQ 86 (243)
Q Consensus 63 diKkG~~I~~dG~py~V~~~~h~K 86 (243)
+|..++.|.++|+.|.|..+....
T Consensus 62 ~I~~~~ri~~~g~~y~I~~i~~~~ 85 (95)
T PF05521_consen 62 DITPDMRIKYDGKVYNIKSIDPDD 85 (95)
T ss_dssp TSSTTEEEEECTEEEEE-S--EE-
T ss_pred CCCcceEEEECCEEEEEEEECCCC
Confidence 799999999999999999977654
No 52
>PRK08572 rps17p 30S ribosomal protein S17P; Reviewed
Probab=38.66 E-value=2.1e+02 Score=22.97 Aligned_cols=78 Identities=17% Similarity=0.236 Sum_probs=51.8
Q ss_pred cccCchhhhhh-hhccCCCCEEEEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCceeEEeecCcEEEccc-c-cc
Q 026120 148 LEVPLDVFGKA-GAYLQEGMKVWLQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYRRALLDNGVTVMVPS-Y-LE 224 (243)
Q Consensus 148 i~l~~~~lgd~-~~~L~eg~~v~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~VP~-F-I~ 224 (243)
|..|++...|. .+|=- ...+.-....|.+++-.+..+|+.+|...-. ..--.|-..-.+-.-+.-|. + .+
T Consensus 7 ~~~p~~~~~d~~cP~~g-~l~irgk~l~G~VvS~Km~KTvvV~v~r~~~------hpkY~K~i~r~kky~aHDe~cn~~k 79 (108)
T PRK08572 7 VKPPEEECDDPNCPFHG-TLPVRGQVLEGTVVSDKMHKTVVVEREYLHY------VPKYERYEKRRSRIHAHNPPCIDAK 79 (108)
T ss_pred CCCCcccccCCCCCCcc-eeeeeeEEEEEEEEecCCCceEEEEEEEEEe------cCCccEEEEEeeeEEEECCCCCCCC
Confidence 44455544432 33322 2556667889999999999999999988742 11233444445666677777 5 89
Q ss_pred CCCEEEEE
Q 026120 225 IGEEIFIN 232 (243)
Q Consensus 225 ~Gd~I~Vd 232 (243)
+||.|.|.
T Consensus 80 vGD~V~I~ 87 (108)
T PRK08572 80 VGDKVKIA 87 (108)
T ss_pred CCCEEEEE
Confidence 99999986
No 53
>cd02790 MopB_CT_Formate-Dh_H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a Mo active site region and a [4Fe-4S] center. This CD (MopB_CT_Formate-Dh_H) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=37.63 E-value=23 Score=26.90 Aligned_cols=21 Identities=29% Similarity=0.284 Sum_probs=15.9
Q ss_pred cccCCCEEEEECCCCceeecc
Q 026120 222 YLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 222 FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
=|+.||+|+|.+..|+..-+|
T Consensus 48 gi~~Gd~V~v~~~~G~~~~~v 68 (116)
T cd02790 48 GIEDGEKVRVSSRRGSVEVRA 68 (116)
T ss_pred CCCCCCEEEEEcCCEEEEEEE
Confidence 467888888888888766554
No 54
>PLN00036 40S ribosomal protein S4; Provisional
Probab=37.58 E-value=65 Score=29.66 Aligned_cols=30 Identities=17% Similarity=0.286 Sum_probs=16.1
Q ss_pred eEEeecCcEEEccc-cccCCCEEEEECCCCc
Q 026120 208 RALLDNGVTVMVPS-YLEIGEEIFINPQDDS 237 (243)
Q Consensus 208 ~A~LetG~~v~VP~-FI~~Gd~I~VdT~~g~ 237 (243)
...|..|..|..|. -|++||-|+||..+++
T Consensus 138 ql~~hDGrni~~~d~~~k~~Dtv~i~l~~~k 168 (261)
T PLN00036 138 YLNTHDGRTIRYPDPLIKANDTIKIDLETNK 168 (261)
T ss_pred EEEecCCceeccCCCccccCCEEEEeCCCCc
Confidence 44555555555442 4555666666655554
No 55
>PRK10377 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional
Probab=37.40 E-value=46 Score=26.98 Aligned_cols=22 Identities=23% Similarity=0.353 Sum_probs=20.3
Q ss_pred cCCCCCccEEEECCeEEEEEEe
Q 026120 61 ASHVRPGNVIEKSGKMYQVIDA 82 (243)
Q Consensus 61 a~diKkG~~I~~dG~py~V~~~ 82 (243)
-.+|++|+.+.++|+-|.|..+
T Consensus 49 ~~~i~~Gd~l~i~~~~Y~ItaV 70 (120)
T PRK10377 49 KGALQPGLQFELGQHRYPVTAV 70 (120)
T ss_pred cCccCCCCEEEECCEEEEEEEE
Confidence 4679999999999999999988
No 56
>PRK07018 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=37.33 E-value=82 Score=27.92 Aligned_cols=25 Identities=28% Similarity=0.364 Sum_probs=21.2
Q ss_pred eEEEeeCCCCCeEEEEeCCCCcEEe
Q 026120 95 QMELRDIDTGNKVSLRFGTEEAVER 119 (243)
Q Consensus 95 riklknL~TG~k~e~tf~s~dkve~ 119 (243)
.+++||+.||+.+.-+..+...++.
T Consensus 209 ~IrVrN~~Sgk~i~g~V~~~g~V~V 233 (235)
T PRK07018 209 QIRVRNMASGQVVSGIVTGDGEVEV 233 (235)
T ss_pred eEEEEECCCCCEEEEEEeCCCEEEE
Confidence 7899999999999988877777664
No 57
>PF06988 NifT: NifT/FixU protein; InterPro: IPR009727 This family consists of several NifT and FixU bacterial proteins. The function of NifT is unknown although it is thought that the protein may be involved in biosynthesis of the FeMo cofactor of nitrogenase although perturbation of nifT expression in Klebsiella pneumoniae has only a limited effect on nitrogen fixation [].; GO: 0009399 nitrogen fixation; PDB: 2JN4_A.
Probab=37.21 E-value=1.6e+02 Score=21.44 Aligned_cols=51 Identities=22% Similarity=0.308 Sum_probs=28.5
Q ss_pred CEEEEEEECCEEEEEeCCCe-EEEEEEEecCCCCCcCCCCCceeEEeecCcEEEcccc
Q 026120 166 MKVWLQLYDGRALSGSIPKR-VACTIKEIHASTKGPTVTPRYRRALLDNGVTVMVPSY 222 (243)
Q Consensus 166 ~~v~v~~~dg~~i~v~lP~~-V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~VP~F 222 (243)
|.|.+...+.=-+++-+|.. ++=.|++.| +...-..-++|.||.+..+|..
T Consensus 1 MkVmiR~~~~G~ls~YVpKKDLEE~Vv~~E------~~~~wGG~v~L~NGw~l~lp~~ 52 (64)
T PF06988_consen 1 MKVMIRKNGAGGLSAYVPKKDLEEPVVSME------KPELWGGEVTLANGWELYLPPL 52 (64)
T ss_dssp --EEEEE-SS--EEEEETTTTEEEEEEEES------SSSS-SSEEEETTS-EEE----
T ss_pred CeEEEEeCCCcCEEEEEeCCccccceeeee------ccCccCCEEEECCcCEEEeCCC
Confidence 33444433333778888865 677888885 3344567899999999999875
No 58
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=36.93 E-value=94 Score=29.14 Aligned_cols=54 Identities=11% Similarity=0.244 Sum_probs=41.8
Q ss_pred eEEcCCCCCccEEEECCeEEEEEEeEEecCCCCCeEEeEEEeeCCCCCeEEEEeCCCC
Q 026120 58 KVNASHVRPGNVIEKSGKMYQVIDAEHKQRGRGGAMMQMELRDIDTGNKVSLRFGTEE 115 (243)
Q Consensus 58 ~i~a~diKkG~~I~~dG~py~V~~~~h~KpGKG~A~vriklknL~TG~k~e~tf~s~d 115 (243)
|..+++++.|+.|.. +|.|.+.+-...-.|..+..+.+.| .||...-+-|...+
T Consensus 2 m~~i~~l~~g~~v~~---~~lv~~~~~~~~knG~~yl~l~l~D-~tG~I~ak~W~~~~ 55 (314)
T PRK13480 2 MKGIEELEVGEQVDH---FLLIKSATKGVASNGKPFLTLILQD-KSGDIEAKLWDVSP 55 (314)
T ss_pred cchHhhcCCCCEeeE---EEEEEEceeeecCCCCeEEEEEEEc-CCcEEEEEeCCCCh
Confidence 446889999987654 7888877765443488999999999 99998888887653
No 59
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=36.84 E-value=1.4e+02 Score=22.42 Aligned_cols=44 Identities=11% Similarity=0.331 Sum_probs=29.5
Q ss_pred CeEEEEEEEecCCCCCcCCCCCceeEEeecCcEEEc--c------ccccCCCEEEEECCC
Q 026120 184 KRVACTIKEIHASTKGPTVTPRYRRALLDNGVTVMV--P------SYLEIGEEIFINPQD 235 (243)
Q Consensus 184 ~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~V--P------~FI~~Gd~I~VdT~~ 235 (243)
..+..+|++.-+ +..-.+.+++|.++.+ | ..|..||.|.|+..+
T Consensus 5 ~q~~g~V~~~lG--------~~~~~V~~~dG~~~la~ipgK~Rk~iwI~~GD~VlVe~~~ 56 (83)
T smart00652 5 GQEIAQVVKMLG--------NGRLEVMCADGKERLARIPGKMRKKVWIRRGDIVLVDPWD 56 (83)
T ss_pred CcEEEEEEEEcC--------CCEEEEEECCCCEEEEEEchhhcccEEEcCCCEEEEEecC
Confidence 445566666642 3455677778877644 3 368899999998665
No 60
>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=36.34 E-value=43 Score=27.02 Aligned_cols=22 Identities=18% Similarity=0.564 Sum_probs=16.0
Q ss_pred cCCCCCccEEEECCeEEEEEEe
Q 026120 61 ASHVRPGNVIEKSGKMYQVIDA 82 (243)
Q Consensus 61 a~diKkG~~I~~dG~py~V~~~ 82 (243)
..+|++|+.+.++|+.|.|..+
T Consensus 49 ~~~i~~Gd~l~i~~~~y~ItaV 70 (117)
T PF03829_consen 49 KGDIKPGDTLIIGGQEYTITAV 70 (117)
T ss_dssp G----TT-EEEETTEEEEEEEE
T ss_pred cCCcCCCCEEEECCeEEEEEEE
Confidence 4689999999999999999988
No 61
>PF13144 SAF_2: SAF-like
Probab=36.08 E-value=2.2e+02 Score=23.94 Aligned_cols=24 Identities=21% Similarity=0.340 Sum_probs=19.8
Q ss_pred eEEEeeCCCCCeEEEEeCCCCcEE
Q 026120 95 QMELRDIDTGNKVSLRFGTEEAVE 118 (243)
Q Consensus 95 riklknL~TG~k~e~tf~s~dkve 118 (243)
.++++|+.||+.+.-+.-+..+++
T Consensus 172 ~I~V~N~~S~k~v~g~V~~~~~V~ 195 (196)
T PF13144_consen 172 TIRVKNLSSGKIVQGRVIGPGTVE 195 (196)
T ss_pred EEEEEECCCCCEEEEEEecCCEEE
Confidence 789999999999988877666654
No 62
>COG0335 RplS Ribosomal protein L19 [Translation, ribosomal structure and biogenesis]
Probab=35.77 E-value=1.2e+02 Score=24.68 Aligned_cols=70 Identities=26% Similarity=0.364 Sum_probs=47.6
Q ss_pred ceeeEEcCCCCCccEEEE-----CCeEEEEEEeEEe---cCCCCCeEEeEEEeeCCCCCeEEEEeCCCC-cEEeeeEeee
Q 026120 55 RAVKVNASHVRPGNVIEK-----SGKMYQVIDAEHK---QRGRGGAMMQMELRDIDTGNKVSLRFGTEE-AVERVFVEDK 125 (243)
Q Consensus 55 R~~~i~a~diKkG~~I~~-----dG~py~V~~~~h~---KpGKG~A~vriklknL~TG~k~e~tf~s~d-kve~~~ver~ 125 (243)
...+-++.++++||.|.. +|.-+.+..|+-+ ..|+|- .=-..++.+..|.=+|.+|+-.. .+|.+++-++
T Consensus 12 ~q~~~~iP~f~~GDtvrv~vki~Eg~keR~Q~FeGvVia~r~~G~-~~tftvRkis~G~GVEr~Fp~~SP~Ie~IeV~rr 90 (115)
T COG0335 12 EQIKKDIPSFRPGDTVRVHVKIVEGSKERVQAFEGVVIARRGRGI-SETFTVRKISYGVGVERVFPLHSPLIESIEVVRR 90 (115)
T ss_pred HHHHhhCCCCCCCCEEEEEEEEEeCCeEEEeeeeEEEEEECCCCc-cceEEEEEeecCceEEEEeecCCCceeEEEEEec
Confidence 334445889999998853 6777888777753 234433 23567788899999999998643 3666666553
No 63
>COG1153 FwdD Formylmethanofuran dehydrogenase subunit D [Energy production and conversion]
Probab=35.49 E-value=27 Score=28.70 Aligned_cols=23 Identities=13% Similarity=0.180 Sum_probs=19.5
Q ss_pred ccccCCCEEEEECCCCceeeccC
Q 026120 221 SYLEIGEEIFINPQDDSYIGRAK 243 (243)
Q Consensus 221 ~FI~~Gd~I~VdT~~g~Yv~R~k 243 (243)
+=+.+||.|+|.++-|+-+=|||
T Consensus 43 Lgv~EGD~VkVkse~GeVVV~Ak 65 (128)
T COG1153 43 LGVSEGDKVKVKSEFGEVVVKAK 65 (128)
T ss_pred hCCCcCCeEEEEecCccEEEEEe
Confidence 45789999999999999887774
No 64
>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=35.48 E-value=1.5e+02 Score=20.52 Aligned_cols=55 Identities=13% Similarity=0.073 Sum_probs=33.5
Q ss_pred cCCCCEEE--EEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCceeEEeecCcEEEccccccCCCEEEEE
Q 026120 162 LQEGMKVW--LQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYRRALLDNGVTVMVPSYLEIGEEIFIN 232 (243)
Q Consensus 162 L~eg~~v~--v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~VP~FI~~Gd~I~Vd 232 (243)
|+.|+.+. |.-..+.-+.++|+..++--|--++-.- .+ .-..+.+++.||.|++.
T Consensus 1 ~~~G~iv~g~V~~v~~~gi~v~l~~~~~g~v~~s~l~~-------~~---------~~~~~~~~~~Gd~v~~~ 57 (73)
T cd05706 1 LKVGDILPGRVTKVNDRYVLVQLGNKVTGPSFITDALD-------DY---------SEALPYKFKKNDIVRAC 57 (73)
T ss_pred CCCCCEEEEEEEEEeCCeEEEEeCCCcEEEEEhhhccC-------cc---------ccccccccCCCCEEEEE
Confidence 45677664 4445667788888887776666553210 01 00126778999998874
No 65
>cd02787 MopB_CT_ydeP The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=35.35 E-value=24 Score=27.05 Aligned_cols=22 Identities=18% Similarity=0.172 Sum_probs=17.8
Q ss_pred ccccCCCEEEEECCCCceeecc
Q 026120 221 SYLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 221 ~FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
+=|+.||+|+|.++.|+-.-||
T Consensus 43 lgI~dGd~V~v~s~~G~i~~~a 64 (112)
T cd02787 43 LGLKAGDRVDLESAFGDGQGRI 64 (112)
T ss_pred hCCCCCCEEEEEecCCCCeEEE
Confidence 3467999999999999876655
No 66
>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=35.27 E-value=53 Score=26.70 Aligned_cols=21 Identities=29% Similarity=0.544 Sum_probs=19.7
Q ss_pred CCCCCccEEEECCeEEEEEEe
Q 026120 62 SHVRPGNVIEKSGKMYQVIDA 82 (243)
Q Consensus 62 ~diKkG~~I~~dG~py~V~~~ 82 (243)
.+|++|+.+.++|+-|.|..+
T Consensus 50 ~~i~~Gd~l~i~~~~Y~ItaV 70 (121)
T TIGR00849 50 GTLKPGQVFMIGGIAYPVTAV 70 (121)
T ss_pred CCcCCCCEEEECCEEEEEEEE
Confidence 479999999999999999988
No 67
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=34.73 E-value=41 Score=25.14 Aligned_cols=21 Identities=38% Similarity=0.740 Sum_probs=18.2
Q ss_pred CCCCCccEEEECCeEEEEEEe
Q 026120 62 SHVRPGNVIEKSGKMYQVIDA 82 (243)
Q Consensus 62 ~diKkG~~I~~dG~py~V~~~ 82 (243)
..||.|++|++.|..|.|...
T Consensus 51 kKlr~gd~V~i~~~~~~v~~~ 71 (73)
T COG2501 51 KKLRDGDVVEIPGQRYQVVAQ 71 (73)
T ss_pred CEeecCCEEEECCEEEEEEec
Confidence 358999999999999999764
No 68
>cd02778 MopB_CT_Thiosulfate-R-like The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Also included in this CD is the phenylacetyl-CoA:acceptor oxidoreductase, large subunit (PadB2), which has been characterized as a membrane-bound molybdenum-iron-sulfur enzyme involved in anaerobic metabolism of phenylalanine in the denitrifying bacterium Thauera aromatica. The MopB_CT_Thiosulfate-R-like CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=34.39 E-value=30 Score=26.74 Aligned_cols=21 Identities=14% Similarity=0.306 Sum_probs=17.6
Q ss_pred cccCCCEEEEECCCCceeecc
Q 026120 222 YLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 222 FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
=|+.||+|+|.++.|+..-+|
T Consensus 43 gi~~Gd~V~v~s~~G~i~~~v 63 (123)
T cd02778 43 GIKDGDRVEVSSARGKVTGKA 63 (123)
T ss_pred CCCCCCEEEEEeCCCcEEEEE
Confidence 467899999999999887665
No 69
>COG2996 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]
Probab=33.54 E-value=4.1e+02 Score=24.89 Aligned_cols=86 Identities=19% Similarity=0.344 Sum_probs=54.6
Q ss_pred CEEEEEeCCCcc-ccccCchhhhhhhhccCCCCEEEEEEE---CCEEEE-EeCC-----CeEEEEEEEecCCCCCcCCCC
Q 026120 135 DTAFVIESETFE-QLEVPLDVFGKAGAYLQEGMKVWLQLY---DGRALS-GSIP-----KRVACTIKEIHASTKGPTVTP 204 (243)
Q Consensus 135 d~~~FMD~etyE-Qi~l~~~~lgd~~~~L~eg~~v~v~~~---dg~~i~-v~lP-----~~V~l~V~et~p~~KGdTa~~ 204 (243)
+.-+|++.++++ .+-+++....+ .=+++|.+|+++.| +++++. -..| ..=-++|+++.+..
T Consensus 18 ~~g~fL~~~~~~~~ilL~k~~~~~--~e~evGdev~vFiY~D~~~rl~aTt~~p~~tvg~~g~~~Vv~v~~~l------- 88 (287)
T COG2996 18 DFGYFLDAGEDGTTILLPKSEPEE--DELEVGDEVTVFIYVDSEDRLIATTREPKATVGEYGWLKVVEVNKDL------- 88 (287)
T ss_pred ceeEEEecCCCceEEeccccCCcC--CccccCcEEEEEEEECCCCceeheeecceEeecceeEEEEEEEcCCc-------
Confidence 566788887776 66666653322 34899999999887 566653 2333 34468899886521
Q ss_pred CceeEEeecCcE--EEcc---------ccccCCCEEEEE
Q 026120 205 RYRRALLDNGVT--VMVP---------SYLEIGEEIFIN 232 (243)
Q Consensus 205 ~~K~A~LetG~~--v~VP---------~FI~~Gd~I~Vd 232 (243)
-|-|++|+. +.|| +-.++||+..|-
T Consensus 89 ---GaFlD~Gl~KDl~vp~~elp~~~~~wpq~Gd~l~v~ 124 (287)
T COG2996 89 ---GAFLDWGLPKDLLVPLDELPTLKSLWPQKGDKLLVY 124 (287)
T ss_pred ---ceEEecCCCcceeeehhhcccccccCCCCCCEEEEE
Confidence 255566643 3332 337889988765
No 70
>COG4043 Preprotein translocase subunit Sec61beta [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.51 E-value=60 Score=25.98 Aligned_cols=23 Identities=30% Similarity=0.561 Sum_probs=16.3
Q ss_pred cCCCCCccEEEECCe--EEEEEEeE
Q 026120 61 ASHVRPGNVIEKSGK--MYQVIDAE 83 (243)
Q Consensus 61 a~diKkG~~I~~dG~--py~V~~~~ 83 (243)
--.+|+|++|+.+|. +.+|+++.
T Consensus 31 rr~ik~GD~IiF~~~~l~v~V~~vr 55 (111)
T COG4043 31 RRQIKPGDKIIFNGDKLKVEVIDVR 55 (111)
T ss_pred hcCCCCCCEEEEcCCeeEEEEEEEe
Confidence 357899999999974 34555544
No 71
>cd02792 MopB_CT_Formate-Dh-Na-like Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the major electron donor to the nitrate respiratory chain. Also included in this CD is the Desulfovibrio gigas tungsten formate dehydrogenase, DgW-FDH. In contrast to Fdh-N, which is a functional heterotrimer, DgW-FDH is a heterodimer. The DgW-FDH complex is composed of a large subunit carrying the W active site and one [4Fe-4S] center, and a small subunit that harbors a series of three [4Fe-4S] clusters as well as a putative vacant binding site for a fourth cluster. The smaller subunit is not included in this alignment. This CD (MopB_CT_Formate-Dh-Na-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=32.79 E-value=34 Score=26.31 Aligned_cols=21 Identities=10% Similarity=0.229 Sum_probs=16.5
Q ss_pred cccCCCEEEEECCCCceeecc
Q 026120 222 YLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 222 FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
=|+.||+|+|.+..|+..-+|
T Consensus 48 gi~~Gd~V~v~s~~G~~~~~v 68 (122)
T cd02792 48 GIKNGDMVWVSSPRGKIKVKA 68 (122)
T ss_pred CCCCCCEEEEEcCCceEEEEE
Confidence 357799999999999876555
No 72
>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=31.92 E-value=1.5e+02 Score=21.04 Aligned_cols=38 Identities=18% Similarity=0.212 Sum_probs=24.3
Q ss_pred CCCCeEEEEeCCCCcEEeeeEe-----eeEEEEEEEeCCEEEE
Q 026120 102 DTGNKVSLRFGTEEAVERVFVE-----DKSFTCLYTENDTAFV 139 (243)
Q Consensus 102 ~TG~k~e~tf~s~dkve~~~ve-----r~~~qylY~Dgd~~~F 139 (243)
..|..+.-+|+.+...-++.|. .+.++.+|.||+..-+
T Consensus 7 ~~Ge~V~~rWP~s~lYYe~kV~~~d~~~~~y~V~Y~DGtel~l 49 (55)
T PF09465_consen 7 AIGEVVMVRWPGSSLYYEGKVLSYDSKSDRYTVLYEDGTELEL 49 (55)
T ss_dssp -SS-EEEEE-TTTS-EEEEEEEEEETTTTEEEEEETTS-EEEE
T ss_pred cCCCEEEEECCCCCcEEEEEEEEecccCceEEEEEcCCCEEEe
Confidence 4688888999988776444443 5788999999987443
No 73
>PF09262 PEX-1N: Peroxisome biogenesis factor 1, N-terminal ; InterPro: IPR015342 This domain adopts a double psi beta-barrel fold, similar in structure to the Cdc48 N-terminal domain. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation []. ; GO: 0005524 ATP binding, 0007031 peroxisome organization, 0005777 peroxisome; PDB: 1WLF_A.
Probab=31.92 E-value=36 Score=25.62 Aligned_cols=62 Identities=16% Similarity=0.156 Sum_probs=31.7
Q ss_pred CccccccCchhhhhh----hhccCCCCEEEEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCceeEEeecCcEEEc
Q 026120 144 TFEQLEVPLDVFGKA----GAYLQEGMKVWLQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYRRALLDNGVTVMV 219 (243)
Q Consensus 144 tyEQi~l~~~~lgd~----~~~L~eg~~v~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~V 219 (243)
++|-+++..+.+++. ...+.+|+.+.++..++ ..+.++|+.++|....+ -.|.|++|.+|-|
T Consensus 13 DWEIlEl~A~~lE~~lL~QiRvv~~~~~~~v~v~~~--------~~i~~~V~~i~p~~~~~------~~~~L~~~TEv~V 78 (80)
T PF09262_consen 13 DWEILELHAEFLEDQLLSQIRVVFPGQVFPVWVSQN--------TVIKFKVVSIEPSSSAE------GCARLSPDTEVIV 78 (80)
T ss_dssp HHHHHHHS-SSHHHHHHHH--EE-TT-EEEEESSSS---------EEEEEEEEEES--S---------SEE--TT-EEEE
T ss_pred HHHHHHHhHHHHHHHHHHhheeecCCCEEEEEEcCC--------eEEEEEEEEccCCCCce------eEEEeCCCcEEEE
Confidence 467777777766653 22334555554444333 34578899998842221 3799999999876
No 74
>TIGR01646 vgr_GE Rhs element Vgr protein. This model represents the Vgr family of proteins, associated with some classes of Rhs elements. This model does not include a large octapeptide repeat region, VGXXXXXX, found in the Vgr of Rhs classes G and E.
Probab=31.08 E-value=2.1e+02 Score=27.81 Aligned_cols=117 Identities=18% Similarity=0.147 Sum_probs=61.8
Q ss_pred EcCCCCCccEEEECCeE-------EEEEEeEEecC------CCCCeEEeEEEeeCCCCCeEEEE---eCCCCcEEeeeEe
Q 026120 60 NASHVRPGNVIEKSGKM-------YQVIDAEHKQR------GRGGAMMQMELRDIDTGNKVSLR---FGTEEAVERVFVE 123 (243)
Q Consensus 60 ~a~diKkG~~I~~dG~p-------y~V~~~~h~Kp------GKG~A~vriklknL~TG~k~e~t---f~s~dkve~~~ve 123 (243)
.+-.|+.|..|.+.|.| |.|+++.|.-- +-..+.++..+.-+..+...--. .+.-.-+..+.|.
T Consensus 277 ~~~~L~~G~~~~l~~~~~~~~~~~~~v~~v~h~~~~~~~~~~~~~~~y~~~f~~~p~~~~~rp~~~~~p~i~G~~~a~V~ 356 (483)
T TIGR01646 277 NAAGLAPGQLFVLSGHPRNDQNNGYLIVSAIHSIVQLGWDTGIQGYELPNQFIAIEVDVIWRPAATPLPKVNGPQIAVVV 356 (483)
T ss_pred CCCeecCCCEEEecCCCCcccCCCEEEEEEEEEEEcCccccCCCCceEEEEEEEEECCCccCCCCCCCCCCCCcceEEEE
Confidence 45679999999997753 99999999621 11124455555555444321110 1111113344555
Q ss_pred eeEEEEEEEeCCE---EEEE-eCCCc------cccccCchhhhhhh--h-ccCCCCEEEEEEECCE
Q 026120 124 DKSFTCLYTENDT---AFVI-ESETF------EQLEVPLDVFGKAG--A-YLQEGMKVWLQLYDGR 176 (243)
Q Consensus 124 r~~~qylY~Dgd~---~~FM-D~ety------EQi~l~~~~lgd~~--~-~L~eg~~v~v~~~dg~ 176 (243)
.-.-.+.|.|+.. ..|. |.... -=+.+....-|... - .+..|++|-|-|.+|.
T Consensus 357 g~~~~~~~~d~~GRvkV~f~wd~~~~~~~~~S~W~Rvaqp~AG~~~G~~f~PrvG~EVlV~F~~GD 422 (483)
T TIGR01646 357 GAQGEEIHTDKYGRIRVHFHWDRYGQSNDYSSCWIRVAQPWAGKNWGSLAIPRVGQEVIVGFLDGD 422 (483)
T ss_pred CCCCCeeccCCCCcEEEEeecCCCCCCCCCCceEEEEeccccCCCccccccCCCCCEEEEEEeCCC
Confidence 4333477777642 2232 22111 11333333223221 2 2489999999999865
No 75
>PF10665 Minor_capsid_1: Minor capsid protein; InterPro: IPR019612 This entry is represented by Bacteriophage A118, Gp9. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a putative tail-knob protein from Listeria phage A118.
Probab=31.03 E-value=66 Score=25.78 Aligned_cols=25 Identities=24% Similarity=0.311 Sum_probs=22.4
Q ss_pred CCCCCccEEEECCeEEEEEEeEEec
Q 026120 62 SHVRPGNVIEKSGKMYQVIDAEHKQ 86 (243)
Q Consensus 62 ~diKkG~~I~~dG~py~V~~~~h~K 86 (243)
-+++.|+.|.+||+.|.|.++...-
T Consensus 75 ~~~~~~skI~fdG~ey~V~~v~~~y 99 (114)
T PF10665_consen 75 PDFTEGSKIVFDGKEYTVTKVNPNY 99 (114)
T ss_pred cccCCCCEEEECCceEEEEEEEecc
Confidence 4889999999999999999998754
No 76
>PF13856 Gifsy-2: ATP-binding sugar transporter from pro-phage; PDB: 2PP6_A.
Probab=30.96 E-value=67 Score=24.33 Aligned_cols=31 Identities=23% Similarity=0.319 Sum_probs=20.2
Q ss_pred ceeeEEcCC---CCCccEEEECCeEEEEEEeEEe
Q 026120 55 RAVKVNASH---VRPGNVIEKSGKMYQVIDAEHK 85 (243)
Q Consensus 55 R~~~i~a~d---iKkG~~I~~dG~py~V~~~~h~ 85 (243)
+.+.+..++ .++|+.|.++|+-|.|.+++.-
T Consensus 54 ~~L~v~~~d~~~P~~gd~v~~dG~~y~V~~~~~~ 87 (95)
T PF13856_consen 54 PTLYVFSSDYPKPRRGDRVVIDGESYTVTRFQEE 87 (95)
T ss_dssp EEEEE--SS-----TT-EEEETTEEEEEEEEEEE
T ss_pred eEEEEEcCCCCCCCCCCEEEECCeEEEEeEEecC
Confidence 334444444 5699999999999999998754
No 77
>smart00359 PUA Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase.
Probab=30.89 E-value=66 Score=22.52 Aligned_cols=26 Identities=19% Similarity=0.267 Sum_probs=21.3
Q ss_pred EEccccccCCCEEEEECCCCceeecc
Q 026120 217 VMVPSYLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 217 v~VP~FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
+.++.-++.||.|.|-+++|+++.++
T Consensus 25 ~~~~~~~~~g~~V~v~~~~g~~vg~G 50 (77)
T smart00359 25 VRVDGGIKEGDVVVIVDEKGEPLGIG 50 (77)
T ss_pred EEEeCCcCCCCEEEEEcCCCCEEEEE
Confidence 45555577899999999999999874
No 78
>PTZ00118 40S ribosomal protein S4; Provisional
Probab=30.58 E-value=1.1e+02 Score=28.24 Aligned_cols=29 Identities=14% Similarity=0.322 Sum_probs=15.6
Q ss_pred EEeecCcEEEccc-cccCCCEEEEECCCCc
Q 026120 209 ALLDNGVTVMVPS-YLEIGEEIFINPQDDS 237 (243)
Q Consensus 209 A~LetG~~v~VP~-FI~~Gd~I~VdT~~g~ 237 (243)
..|..|..|..|. -|++||-|+||..+++
T Consensus 139 l~~hDGrni~~~d~~ik~~Dtv~i~l~~~k 168 (262)
T PTZ00118 139 AVTHDGRTIRYVHPDVKVGDSLRLDLETGK 168 (262)
T ss_pred EEecCcceeccCCCcccCCCEEEEECCCCc
Confidence 3455555555442 4556666666655553
No 79
>PF01568 Molydop_binding: Molydopterin dinucleotide binding domain; InterPro: IPR006657 A domain in this entry corresponds to the C-terminal domain IV in dimethyl sulphoxide (DMSO)reductase which interacts with the 2-amino pyrimidone ring of both molybdopterin guanine dinucleotide molecules [].; GO: 0016491 oxidoreductase activity, 0030151 molybdenum ion binding, 0055114 oxidation-reduction process; PDB: 2IVF_A 1OGY_G 3ML1_A 3O5A_A 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E ....
Probab=30.10 E-value=31 Score=26.03 Aligned_cols=20 Identities=15% Similarity=0.152 Sum_probs=15.8
Q ss_pred ccCCCEEEEECCCCceeecc
Q 026120 223 LEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 223 I~~Gd~I~VdT~~g~Yv~R~ 242 (243)
|+.||+|+|.++.|+-.-+|
T Consensus 44 i~~Gd~V~v~s~~G~v~~~v 63 (110)
T PF01568_consen 44 IKDGDWVRVSSPRGSVEVRV 63 (110)
T ss_dssp --TTCEEEEEETTEEEEEEE
T ss_pred CcCCCEEEEEeccceEeeee
Confidence 78899999999999877665
No 80
>cd02788 MopB_CT_NDH-1_NuoG2-N7 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as a redox pump that uses the redox energy to translocate H+ ions across the membrane, resulting in a significant contribution to energy production. In Escherichia coli NDH-1, the largest subunit is encoded by the nuoG gene, and is part of the 14 distinct subunits constituting the functional enzyme. The NuoG subunit is made of two domains: the first contains three binding sites for FeS clusters (the fer2 domain), the second domain, is of unknown function or, as postulated, has lost an ancestral formate dehydrogenase activity that became redundant during the evolution of the complex I enzyme. Unique to this group, compared to the other prokaryotic and eukaryotic groups
Probab=29.57 E-value=36 Score=25.62 Aligned_cols=21 Identities=14% Similarity=0.018 Sum_probs=15.7
Q ss_pred cccCCCEEEEECCCCceeecc
Q 026120 222 YLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 222 FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
=|+.||+|+|.++.|+-.-+|
T Consensus 42 Gi~~Gd~V~v~s~~G~i~~~v 62 (96)
T cd02788 42 GLADGDLVEFSLGDGTLTLPV 62 (96)
T ss_pred CCCCCCEEEEEECCeEEEEEE
Confidence 357799999999888865444
No 81
>PF05096 Glu_cyclase_2: Glutamine cyclotransferase; InterPro: IPR007788 This family of enzymes 2.3.2.5 from EC catalyse the cyclization of free L-glutamine and N-terminal glutaminyl residues in proteins to pyroglutamate (5-oxoproline) and pyroglutamyl residues respectively []. This family includes plant and bacterial enzymes and seems unrelated to the mammalian enzymes.; PDB: 3NOK_B 2FAW_A 2IWA_A 3NOM_A 3NOL_A 3MBR_X.
Probab=29.39 E-value=2.2e+02 Score=26.21 Aligned_cols=83 Identities=16% Similarity=0.263 Sum_probs=53.7
Q ss_pred eeEEcCCCCCccEEEECCeEEEEEEeEEecCCC-CCeEEeEEEeeCCCCCeEEE-EeCCCCcEE-eeeEeeeEEEEEEEe
Q 026120 57 VKVNASHVRPGNVIEKSGKMYQVIDAEHKQRGR-GGAMMQMELRDIDTGNKVSL-RFGTEEAVE-RVFVEDKSFTCLYTE 133 (243)
Q Consensus 57 ~~i~a~diKkG~~I~~dG~py~V~~~~h~KpGK-G~A~vriklknL~TG~k~e~-tf~s~dkve-~~~ver~~~qylY~D 133 (243)
..-+.+.+-.|..+..+|.+|+= .|. |.+.+ .-.|+.||+.... .++..--=| ...+..+=+|..+++
T Consensus 39 ypHd~~aFTQGL~~~~~g~LyES-------TG~yG~S~l--~~~d~~tg~~~~~~~l~~~~FgEGit~~~d~l~qLTWk~ 109 (264)
T PF05096_consen 39 YPHDPTAFTQGLEFLDDGTLYES-------TGLYGQSSL--RKVDLETGKVLQSVPLPPRYFGEGITILGDKLYQLTWKE 109 (264)
T ss_dssp EE--TT-EEEEEEEEETTEEEEE-------ECSTTEEEE--EEEETTTSSEEEEEE-TTT--EEEEEEETTEEEEEESSS
T ss_pred CCCCCcccCccEEecCCCEEEEe-------CCCCCcEEE--EEEECCCCcEEEEEECCccccceeEEEECCEEEEEEecC
Confidence 33457888899999899987753 255 66655 4679999998755 444433333 255566778888888
Q ss_pred CCEEEEEeCCCccccc
Q 026120 134 NDTAFVIESETFEQLE 149 (243)
Q Consensus 134 gd~~~FMD~etyEQi~ 149 (243)
+-.+++ |.+||+++.
T Consensus 110 ~~~f~y-d~~tl~~~~ 124 (264)
T PF05096_consen 110 GTGFVY-DPNTLKKIG 124 (264)
T ss_dssp SEEEEE-ETTTTEEEE
T ss_pred CeEEEE-ccccceEEE
Confidence 776655 888887653
No 82
>cd02783 MopB_CT_2 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=29.31 E-value=39 Score=27.93 Aligned_cols=20 Identities=15% Similarity=0.405 Sum_probs=17.3
Q ss_pred ccCCCEEEEECCCCceeecc
Q 026120 223 LEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 223 I~~Gd~I~VdT~~g~Yv~R~ 242 (243)
|+.||+|+|.++.|+-.-||
T Consensus 46 I~dGd~V~v~s~~G~~~~~a 65 (156)
T cd02783 46 IKDGDWVWVESVNGRVKGQA 65 (156)
T ss_pred CCCCCEEEEEcCCeeEEEEE
Confidence 67899999999999877766
No 83
>cd02794 MopB_CT_DmsA-EC The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-terminal iron-sulfur [4Fe-4S] cluster binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=29.28 E-value=42 Score=26.09 Aligned_cols=20 Identities=10% Similarity=0.268 Sum_probs=15.6
Q ss_pred ccCCCEEEEECCCCceeecc
Q 026120 223 LEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 223 I~~Gd~I~VdT~~g~Yv~R~ 242 (243)
|+.||+|+|.+..|+-.-||
T Consensus 44 i~~Gd~V~v~s~~g~i~~~a 63 (121)
T cd02794 44 IKDGDRVLVFNDRGKVIRPV 63 (121)
T ss_pred CCCCCEEEEEcCCceEEEEE
Confidence 56799999999888776555
No 84
>COG3173 Predicted aminoglycoside phosphotransferase [General function prediction only]
Probab=29.28 E-value=61 Score=30.53 Aligned_cols=37 Identities=32% Similarity=0.395 Sum_probs=29.8
Q ss_pred eecceeeEEcCCCCCccEEEECCeEEEEEEeEEecCCC
Q 026120 52 TQQRAVKVNASHVRPGNVIEKSGKMYQVIDAEHKQRGR 89 (243)
Q Consensus 52 ~~~R~~~i~a~diKkG~~I~~dG~py~V~~~~h~KpGK 89 (243)
++.+.+.+. +|++.|++|..++++-=|++++-+..|=
T Consensus 194 ~~~~~~lvH-GD~~~gNlii~~~~~~gVlDwe~~~lGD 230 (321)
T COG3173 194 WAGPPVLVH-GDYRPGNLIIDPGRPTGVLDWELATLGD 230 (321)
T ss_pred cCCCceeee-CCcccCCEEEeCCCeeEEEeccccccCC
Confidence 344445555 9999999999999999999999877663
No 85
>PF01176 eIF-1a: Translation initiation factor 1A / IF-1; InterPro: IPR006196 The S1 domain of around 70 amino acids, originally identified in ribosomal protein S1, is found in a large number of RNA-associated proteins. It has been shown that S1 proteins bind RNA through their S1 domains with some degree of sequence specificity. This type of S1 domain is found in translation initiation factor 1. The solution structure of one S1 RNA-binding domain from Escherichia coli polynucleotide phosphorylase has been determined []. It displays some similarity with the cold shock domain (CSD) (IPR002059 from INTERPRO). Both the S1 and the CSD domain consist of an antiparallel beta barrel of the same topology with 5 beta strands. This fold is also shared by many other proteins of unrelated function and is known as the OB fold. However, the S1 and CSD fold can be distinguished from the other OB folds by the presence of a short 3(10) helix at the end of strand 3. This unique feature is likely to form a part of the DNA/RNA-binding site. This entry is specific for bacterial, chloroplastic and eukaryotic IF-1 type S1 domains.; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1JT8_A 3I4O_A 1AH9_A 1ZO1_W 1D7Q_A 2OQK_A 2DGY_A 1HR0_W.
Probab=29.19 E-value=1.9e+02 Score=20.47 Aligned_cols=44 Identities=14% Similarity=0.319 Sum_probs=26.8
Q ss_pred EEEEEEEecCCCCCcCCCCCceeEEeecCcEEEc--c------ccccCCCEEEEECCCCc
Q 026120 186 VACTIKEIHASTKGPTVTPRYRRALLDNGVTVMV--P------SYLEIGEEIFINPQDDS 237 (243)
Q Consensus 186 V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~V--P------~FI~~Gd~I~VdT~~g~ 237 (243)
+...|++.-+ +..-.+.+++|.++.+ | ..|+.||.|.|+.....
T Consensus 5 ~~~~V~~~lG--------~~~~~V~~~dg~~~l~~i~gK~r~~iwI~~GD~V~V~~~~~d 56 (65)
T PF01176_consen 5 VIGRVTEMLG--------NNLFEVECEDGEERLARIPGKFRKRIWIKRGDFVLVEPSPYD 56 (65)
T ss_dssp EEEEEEEEES--------SSEEEEEETTSEEEEEEE-HHHHTCC---TTEEEEEEESTTC
T ss_pred EEEEEEEECC--------CCEEEEEeCCCCEEEEEeccceeeeEecCCCCEEEEEecccC
Confidence 4455665532 3456677788877654 3 58999999999976543
No 86
>KOG3297 consensus DNA-directed RNA polymerase subunit E' [Transcription]
Probab=28.65 E-value=4.2e+02 Score=23.48 Aligned_cols=102 Identities=15% Similarity=0.265 Sum_probs=64.0
Q ss_pred EEEEEEeE--EecCCCCCeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCCEEEEEeCCCccccccCch
Q 026120 76 MYQVIDAE--HKQRGRGGAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTENDTAFVIESETFEQLEVPLD 153 (243)
Q Consensus 76 py~V~~~~--h~KpGKG~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd~~~FMD~etyEQi~l~~~ 153 (243)
.|-|+++. .++||-|++..++.+|=+. .+.=-|+-+. ..+.-.+.+..++-= --|++|-||++
T Consensus 48 vyDi~~v~e~~v~pGDGas~~~V~FR~vV------FrPF~gEVi~--------gki~~cs~eG~rvtl-~FFdDI~IP~~ 112 (202)
T KOG3297|consen 48 VYDILEVEEGIVLPGDGASYARVWFRVVV------FRPFVGEVIT--------GKIKECSEEGLRVTL-GFFDDIFIPKE 112 (202)
T ss_pred EeEeeeecceEEecCCCceEEEEEEEEEE------EecccceEEE--------EEeecCCccceEEEE-Eeeeceeechh
Confidence 35666665 4889999999999988542 1111122222 122222222222211 14888999999
Q ss_pred hhhhhhhccCCCCEEEEEEEC-----CEEEEEeCCCeEEEEEEEe
Q 026120 154 VFGKAGAYLQEGMKVWLQLYD-----GRALSGSIPKRVACTIKEI 193 (243)
Q Consensus 154 ~lgd~~~~L~eg~~v~v~~~d-----g~~i~v~lP~~V~l~V~et 193 (243)
.|-+...|- +...+-|+-|+ +.-+-+..-..|.+.|.+-
T Consensus 113 ~L~~p~~f~-~~e~vWVWey~~Edg~~~~Ly~D~~e~IRFRV~~e 156 (202)
T KOG3297|consen 113 MLPEPCVFE-PDEQVWVWEYEQEDGPGTKLYFDVGEEIRFRVEDE 156 (202)
T ss_pred hCCCCcccc-cccEEEEEEecccCCCCceeEecCCCeEEEEEeee
Confidence 998876654 44778888887 5567788888888888765
No 87
>KOG1708 consensus Mitochondrial/chloroplast ribosomal protein L24 [Translation, ribosomal structure and biogenesis]
Probab=28.43 E-value=85 Score=28.12 Aligned_cols=52 Identities=13% Similarity=0.204 Sum_probs=33.1
Q ss_pred ECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCceeEEeecCcEEEccccccCCCEEEEECCCCcee
Q 026120 173 YDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYRRALLDNGVTVMVPSYLEIGEEIFINPQDDSYI 239 (243)
Q Consensus 173 ~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~VP~FI~~Gd~I~VdT~~g~Yv 239 (243)
+.|..+..|-|-+|.-.|.=.+|.- ...-|-+.. |-+.|++|+|.||+|.-+
T Consensus 122 ~pgtivk~EaPlhvsk~VmLvdp~d----------~q~te~~wr-----~~e~GekVRvstrSG~iI 173 (236)
T KOG1708|consen 122 EPGTIVKSEAPLHVSKQVMLVDPED----------DQPTEVEWR-----FTEDGEKVRVSTRSGRII 173 (236)
T ss_pred CCceEEeecCCceecceeEEECccc----------cCCceeeEE-----EcCCCcEEEEEecccccc
Confidence 4677778888888776666666631 111122222 567788888888888643
No 88
>COG0090 RplB Ribosomal protein L2 [Translation, ribosomal structure and biogenesis]
Probab=28.26 E-value=1.4e+02 Score=27.63 Aligned_cols=56 Identities=13% Similarity=0.077 Sum_probs=24.6
Q ss_pred eEEEeeCCCCCeEEE-EeCCCCcEEeeeEeeeEEEEEEEeCCEEEEEeCCCccccccC
Q 026120 95 QMELRDIDTGNKVSL-RFGTEEAVERVFVEDKSFTCLYTENDTAFVIESETFEQLEVP 151 (243)
Q Consensus 95 riklknL~TG~k~e~-tf~s~dkve~~~ver~~~qylY~Dgd~~~FMD~etyEQi~l~ 151 (243)
-+.|+||--|..+.. -.+.++-=..+.-.--.+|.+-.|++ |+.+-.-+-|.-.++
T Consensus 129 ~lpL~~IP~Gt~VhNVE~~pG~GGq~aRSaGtyA~vv~~~~~-y~~vrLpSGe~r~v~ 185 (275)
T COG0090 129 ALPLGNIPEGTIVHNVELKPGDGGQLARSAGTYAQVVGKEGN-YVIVRLPSGEMRKVL 185 (275)
T ss_pred eeeeccCCCCceEEeeeeccCCCceEEEeCCceEEEEEccCC-EEEEECCCCCeEeec
Confidence 345555555554433 23333333333334444555555533 444444444444443
No 89
>PF02839 CBM_5_12: Carbohydrate binding domain; InterPro: IPR003610 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This entry represents CBM5 from CAZY and CBM12 from CAZY. These modules have a core structure consisting of a 3-stranded meander beta-sheet, which contain six aromatic groups that may be important for binding. CBM5/12 is found in proteins such as chitinase A1, chitinase B [], and endoglucanase Z []. The overall topology of the CBM is structurally similar to the C-terminal chitin-binding domains (ChBD) of chitinase A1 and chitinase B, however the binding mechanism for the ChBD may be different from that of the CBM [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0030246 carbohydrate binding, 0005975 carbohydrate metabolic process, 0005576 extracellular region; PDB: 1ED7_A 1W1V_A 1E15_B 1UR8_A 1E6Z_B 1E6P_A 1W1T_A 1W1P_B 1UR9_A 1E6R_A ....
Probab=28.01 E-value=67 Score=20.33 Aligned_cols=20 Identities=25% Similarity=0.345 Sum_probs=14.5
Q ss_pred CCCccEEEECCeEEEEEEeE
Q 026120 64 VRPGNVIEKSGKMYQVIDAE 83 (243)
Q Consensus 64 iKkG~~I~~dG~py~V~~~~ 83 (243)
-..|++|.++|..|+..-..
T Consensus 10 Y~~Gd~V~~~g~~y~a~~~~ 29 (41)
T PF02839_consen 10 YNAGDRVSYNGKLYQAKWWT 29 (41)
T ss_dssp E-TT-EEEETTEEEEESSSC
T ss_pred EcCCCEEEECCCEEEEeecc
Confidence 46799999999999985443
No 90
>COG2016 Predicted RNA-binding protein (contains PUA domain) [Translation, ribosomal structure and biogenesis]
Probab=27.67 E-value=90 Score=26.75 Aligned_cols=71 Identities=20% Similarity=0.204 Sum_probs=41.7
Q ss_pred hccCCCCEEEEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCce-eEE--------eecCcEEEccccc------c
Q 026120 160 AYLQEGMKVWLQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYR-RAL--------LDNGVTVMVPSYL------E 224 (243)
Q Consensus 160 ~~L~eg~~v~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K-~A~--------LetG~~v~VP~FI------~ 224 (243)
...+...+..+.+.||+|+-++.-..+.-+| ++--..+..+ .++ +-||+-|+.|-.+ +
T Consensus 36 ~v~~~~~~~~ii~vdG~pl~f~~~~~~iPTl-------~~l~~~~~~~~~V~VD~GAvk~v~nGADvM~PGIv~~~~~ik 108 (161)
T COG2016 36 EVAKCDDKFEIILVDGEPLLFQRDDRLIPTL-------RLLLKLPPGKYVVVVDEGAVKFVLNGADVMAPGIVSADGEIK 108 (161)
T ss_pred EEEecCCcEEEEEECCEEEEEEeCCeechhh-------HHHHhCCCCccEEEEcCccHhhhcCCCceeccceeecCCCcc
Confidence 3445556888888999999887665333222 2211111111 222 3578889999765 5
Q ss_pred CCCEEEEECCC-Cc
Q 026120 225 IGEEIFINPQD-DS 237 (243)
Q Consensus 225 ~Gd~I~VdT~~-g~ 237 (243)
.||.|.|.-+. |.
T Consensus 109 ~Gd~VvV~~e~~~~ 122 (161)
T COG2016 109 EGDIVVVVDEKKGR 122 (161)
T ss_pred CCCEEEEEEcCCCC
Confidence 67877776444 44
No 91
>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=27.27 E-value=2.2e+02 Score=20.60 Aligned_cols=39 Identities=28% Similarity=0.373 Sum_probs=30.6
Q ss_pred eEEEEEEEecCCCCCcCCCCCceeEEeecCcEEEcccc-----ccCCCEEEEE
Q 026120 185 RVACTIKEIHASTKGPTVTPRYRRALLDNGVTVMVPSY-----LEIGEEIFIN 232 (243)
Q Consensus 185 ~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~VP~F-----I~~Gd~I~Vd 232 (243)
.++=+|.+.+| .+...+|+.|..-++|.= +++|.+|+|-
T Consensus 4 ~veG~I~~id~---------~~~titLdDGksy~lp~ef~~~~L~~G~kV~V~ 47 (61)
T PF07076_consen 4 DVEGTIKSIDP---------ETMTITLDDGKSYKLPEEFDFDGLKPGMKVVVF 47 (61)
T ss_pred cceEEEEEEcC---------CceEEEecCCCEEECCCcccccccCCCCEEEEE
Confidence 45566777765 367899999999999863 7889999885
No 92
>PTZ00241 40S ribosomal protein S11; Provisional
Probab=27.24 E-value=3.3e+02 Score=23.32 Aligned_cols=61 Identities=11% Similarity=0.209 Sum_probs=44.9
Q ss_pred CEEEEEEECCEEEEEeCCCeEEEEEEEecCCCCCcCCCCCceeEEeecCcEEEcccc--ccCCCEEEEE
Q 026120 166 MKVWLQLYDGRALSGSIPKRVACTIKEIHASTKGPTVTPRYRRALLDNGVTVMVPSY--LEIGEEIFIN 232 (243)
Q Consensus 166 ~~v~v~~~dg~~i~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~VP~F--I~~Gd~I~Vd 232 (243)
..|.-....|.+++-.+..+|+.+|...-. ...-.|-..-.+-..+..|+- +++||.|.|-
T Consensus 64 ~~iRgril~G~VvS~KM~KTIVV~ve~~~~------h~kY~K~~kr~kk~~aHd~~~~~~kvGD~V~I~ 126 (158)
T PTZ00241 64 VSIRGRILRGVVISTKMKRTIIIRRDYLHY------VKKYNRYEKRHKNIPVHCSPCFDVKEGDIVVVG 126 (158)
T ss_pred eeEcceEEEEEEEEccCCccEEEEEEEEEe------cCccceEEEeeecEEEeCCccCCCCCCCEEEEE
Confidence 445556788999999999999999998853 223344555566777777532 7899999985
No 93
>PF12158 DUF3592: Protein of unknown function (DUF3592); InterPro: IPR021994 This family of proteins is functionally uncharacterised.This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 150 and 242 amino acids in length.
Probab=27.04 E-value=1.5e+02 Score=23.22 Aligned_cols=27 Identities=7% Similarity=-0.098 Sum_probs=17.5
Q ss_pred hhhhccCCCCEEEEEEECCEEEEEeCC
Q 026120 157 KAGAYLQEGMKVWLQLYDGRALSGSIP 183 (243)
Q Consensus 157 d~~~~L~eg~~v~v~~~dg~~i~v~lP 183 (243)
+..+....|.+|+|.+.-++|=...++
T Consensus 87 ~~~~~~~~G~~V~V~Y~P~~P~~~~l~ 113 (148)
T PF12158_consen 87 SYWPKYPIGDTVTVYYNPNNPEEARLE 113 (148)
T ss_pred cCCccCCCcCEEEEEECCcCCCeEEEe
Confidence 333346788999998777776554333
No 94
>PRK15199 fimH fimbrial-like adhesin; Provisional
Probab=27.00 E-value=5.6e+02 Score=24.42 Aligned_cols=69 Identities=17% Similarity=0.108 Sum_probs=47.0
Q ss_pred ccCCCCEEEEEEECCEEE--EEeCCCeEEEEEEEecCCCCCcCCCCCceeEEeecCcEEEcc--ccccCCCEEEEEC
Q 026120 161 YLQEGMKVWLQLYDGRAL--SGSIPKRVACTIKEIHASTKGPTVTPRYRRALLDNGVTVMVP--SYLEIGEEIFINP 233 (243)
Q Consensus 161 ~L~eg~~v~v~~~dg~~i--~v~lP~~V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~VP--~FI~~Gd~I~VdT 233 (243)
|=.-|....+.++=-+|+ .+.+|......+--+ +|.+..+..-.|.|.=-..|.+| .-|+.|+.|.||=
T Consensus 139 ~~~~g~~~~~~l~i~kpfig~v~Ip~t~i~~ly~~----~~~~~~~~~P~a~v~isGtI~~Pp~CtIN~G~~I~VdF 211 (335)
T PRK15199 139 FGVMDSKLIFRLKVIRPFINMVEIPRQTMFTVYVT----TTPYDPLVTPVYTISYSGRVEVPQNCELNAGQVVEFDF 211 (335)
T ss_pred cceeCCceEEEEEEeCCEeceeecCcceEEEEEEE----cCCCCCCCCceEEEEEEEEEecCCCCEECCCceEEEEC
Confidence 433567777777766776 799999888777643 33333334455566433388888 7888999999885
No 95
>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=26.97 E-value=2.4e+02 Score=20.19 Aligned_cols=40 Identities=13% Similarity=0.161 Sum_probs=27.9
Q ss_pred EEcCCCCCccEEEECCeEE-EEEEeEEecCCCCCeEEeEEEe
Q 026120 59 VNASHVRPGNVIEKSGKMY-QVIDAEHKQRGRGGAMMQMELR 99 (243)
Q Consensus 59 i~a~diKkG~~I~~dG~py-~V~~~~h~KpGKG~A~vriklk 99 (243)
-+++-|.+|+-|.+.|-.- +|.+++. .+..+++.+.+++.
T Consensus 10 ~~~~GL~~gs~V~~~Gv~VG~V~~i~l-~~~~~~v~v~~~i~ 50 (81)
T PF02470_consen 10 DDAGGLSVGSPVRYRGVEVGKVTSIEL-DPDGNRVRVTLRID 50 (81)
T ss_pred CCcCCCCCcCEEEECCEEEEEEEEEEE-cCCCCEEEEEEEEc
Confidence 3568899999999999655 8888866 44445555555554
No 96
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=26.82 E-value=2.2e+02 Score=21.99 Aligned_cols=41 Identities=20% Similarity=0.266 Sum_probs=27.3
Q ss_pred EEEEEEEecCCCCCcCCCCCceeEEeecCcEEEc---------cccccCCCEEEEECC
Q 026120 186 VACTIKEIHASTKGPTVTPRYRRALLDNGVTVMV---------PSYLEIGEEIFINPQ 234 (243)
Q Consensus 186 V~l~V~et~p~~KGdTa~~~~K~A~LetG~~v~V---------P~FI~~Gd~I~VdT~ 234 (243)
++-+|+|+=| +..-.+.||||.+|.. =.-|.+||+|+|.-.
T Consensus 9 ~~G~V~e~Lp--------~~~frV~LenG~~vla~isGKmR~~rIrIl~GD~V~VE~s 58 (87)
T PRK12442 9 LDGIVDEVLP--------DSRFRVTLENGVEVGAYASGRMRKHRIRILAGDRVTLELS 58 (87)
T ss_pred EEEEEEEECC--------CCEEEEEeCCCCEEEEEeccceeeeeEEecCCCEEEEEEC
Confidence 3456666644 3466788899988753 234667999998744
No 97
>PTZ00223 40S ribosomal protein S4; Provisional
Probab=26.50 E-value=1.3e+02 Score=27.99 Aligned_cols=30 Identities=13% Similarity=0.280 Sum_probs=14.8
Q ss_pred EeCCCCcEEeeeEe--eeEEEEEEEeCCEEEEE
Q 026120 110 RFGTEEAVERVFVE--DKSFTCLYTENDTAFVI 140 (243)
Q Consensus 110 tf~s~dkve~~~ve--r~~~qylY~Dgd~~~FM 140 (243)
+|+.| -++++.++ ...|..+|.....|.+.
T Consensus 78 ~~PvG-lMDVIsI~kt~e~yRvl~D~kGrf~l~ 109 (273)
T PTZ00223 78 KYPAG-FMDVVEIPKTGDRFRILYDVKGRFALV 109 (273)
T ss_pred CCCCc-eeEEEEEcCCCCeEEEEECCCCcEEEE
Confidence 44433 23444442 24556666665555553
No 98
>cd02785 MopB_CT_4 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=26.13 E-value=49 Score=25.79 Aligned_cols=21 Identities=14% Similarity=0.178 Sum_probs=16.9
Q ss_pred cccCCCEEEEECCCCceeecc
Q 026120 222 YLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 222 FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
=|+.||+|+|.++.|+-.-||
T Consensus 45 gi~~Gd~V~v~s~~G~i~~~a 65 (124)
T cd02785 45 GIAHGDLVEVYNDRGSVVCKA 65 (124)
T ss_pred CCCCCCEEEEEeCCCEEEEEE
Confidence 467899999999999876655
No 99
>PF05836 Chorion_S16: Chorion protein S16; InterPro: IPR008450 Correct eggshell formation relies on a complex series of events that relies on expression, cleavage and transport of various proteins at appropriate times. In Drosophila, the eggshell framework is laid down between the developing oocyte and the overlying follicle cells during late oogenesis. Five distinct layers are observed in Drosophila eggshells: the oocyte proximal vitelline membrane, a lipid wax layer, the inner chorion layer, the endochorion and exochorion layers []. The inner chorion layer is continuous and characterised by its periodic structure. Genes encoding chorion proteins are expressed from oocyte development stage 11 onwards. Chorion synthesis occurs during the last 5-6 hours of oogenesis and demands the production of large amounts of protein. Amplification of the two chorion gene clusters meets demand for large scale protein production and expression is precisely regulated through tight transcriptional control of the chorion genes. Chorion proteins may be described according to the times at which they are expressed in the follicular cells: developmentally early (s36, s38), middle (s19, s16) or late (s18, s15). This family consists of several examples of the Drosophila melanogaster specific chorion protein S16. The chorion genes of Drosophila are amplified in response to developmental signals in the follicle cells of the ovary [].; GO: 0007275 multicellular organismal development, 0042600 chorion
Probab=25.38 E-value=57 Score=25.76 Aligned_cols=38 Identities=21% Similarity=0.347 Sum_probs=28.0
Q ss_pred EeCCCeEEEEEEEecCCCCCcCCCC--CceeEEeecCcEEEc
Q 026120 180 GSIPKRVACTIKEIHASTKGPTVTP--RYRRALLDNGVTVMV 219 (243)
Q Consensus 180 v~lP~~V~l~V~et~p~~KGdTa~~--~~K~A~LetG~~v~V 219 (243)
..||.. --|.|++|.+|.+.-.+ +-|.++|.||.++-|
T Consensus 68 aalppR--sFVaeiDPvFkks~yGg~yg~k~~~l~t~sklav 107 (110)
T PF05836_consen 68 AALPPR--SFVAEIDPVFKKSSYGGSYGEKKVTLNTGSKLAV 107 (110)
T ss_pred hcCCch--hhhhhcChhhcccccCccccceeEEEecCCeEEE
Confidence 445543 23678899999888665 448999999999876
No 100
>smart00676 DM10 Domains in hypothetical proteins in Drosophila, C. elegans and mammals. Occurs singly in some nucleoside diphosphate kinases.
Probab=25.23 E-value=47 Score=26.02 Aligned_cols=28 Identities=21% Similarity=0.412 Sum_probs=24.7
Q ss_pred eeEEcCCCCCccEEEECCeEEEEEEeEE
Q 026120 57 VKVNASHVRPGNVIEKSGKMYQVIDAEH 84 (243)
Q Consensus 57 ~~i~a~diKkG~~I~~dG~py~V~~~~h 84 (243)
..++..||..|..|.+.|..+.|++.+.
T Consensus 67 ~~y~~~Dl~vG~~v~i~gr~f~I~d~D~ 94 (104)
T smart00676 67 EYYHASDLNVGTTINVFGRQFRIYDCDE 94 (104)
T ss_pred CccCHHHcCCCCEEEEeCEEEEEEECCH
Confidence 4577899999999999999999999853
No 101
>smart00466 SRA SET and RING finger associated domain. Domain of unknown function in SET domain containing proteins and in Deinococcus radiodurans DRA1533. Domain in SET domain containing proteins and in Deinococcus radiodurans DRA1533.
Probab=24.99 E-value=2.7e+02 Score=23.57 Aligned_cols=40 Identities=25% Similarity=0.426 Sum_probs=30.7
Q ss_pred cCCCCCccEEEECCeEEEEEEeEEecCCC-CCeEEeEEEeeCC
Q 026120 61 ASHVRPGNVIEKSGKMYQVIDAEHKQRGR-GGAMMQMELRDID 102 (243)
Q Consensus 61 a~diKkG~~I~~dG~py~V~~~~h~KpGK-G~A~vriklknL~ 102 (243)
.+..+++..+.+|| +|+|.++-..+ |+ |....|.+|+-+.
T Consensus 113 ~~~~~p~~gyrYDG-LY~V~~~w~e~-g~~G~~v~kfkL~R~~ 153 (155)
T smart00466 113 YSKYAPGKGYIYDG-LYRIVDYWREV-GKSGFLVFKFKLVRIP 153 (155)
T ss_pred cCCCCCCCeEEECc-EEEEEEEEEec-CCCCcEEEEEEEEeCC
Confidence 45667888999999 99999985444 55 7778899988653
No 102
>cd02793 MopB_CT_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO.This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=24.93 E-value=51 Score=26.03 Aligned_cols=21 Identities=10% Similarity=0.107 Sum_probs=16.3
Q ss_pred cccCCCEEEEECCCCceeecc
Q 026120 222 YLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 222 FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
=|+.||.|+|.++.|+-.-||
T Consensus 46 gi~~Gd~V~v~s~~G~~~~~~ 66 (129)
T cd02793 46 GIADGDIVRVFNDRGACLAGA 66 (129)
T ss_pred CCCCCCEEEEEcCCEEEEEEE
Confidence 466789999998888876555
No 103
>cd02781 MopB_CT_Acetylene-hydratase The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=24.53 E-value=58 Score=25.36 Aligned_cols=20 Identities=10% Similarity=0.230 Sum_probs=15.2
Q ss_pred ccCCCEEEEECCCCceeecc
Q 026120 223 LEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 223 I~~Gd~I~VdT~~g~Yv~R~ 242 (243)
|+.||+|+|.++.|+-.-||
T Consensus 47 i~~Gd~V~v~s~~G~~~~~v 66 (130)
T cd02781 47 IADGDWVWVETPRGRARQKA 66 (130)
T ss_pred CCCCCEEEEECCCCEEEEEE
Confidence 46788888888888766554
No 104
>PF02182 SAD_SRA: SAD/SRA domain; InterPro: IPR003105 This domain has been termed SRA-YDG, for SET and Ring finger Associated, and because of the conserved YDG motif within the domain. Further characteristics of the domain are the conservation of up to 13 evenly spaced glycine residues and a VRV(I/V)RG motif. The domain is mainly found in plants and animals and in bacteria. In animals, this domain is associated with the Np95-like ring finger protein and the related gene product Np97, which contains PHD and RING FINGER domains and which is an important determinant in cell cycle progression. Np95 is a chromatin-associated ubiquitin ligase, binding to histones is direct and shows a remarkable preference for histone H3 and its N-terminal tail. The SRA-YDG domain contained in Np95 is indispensable both for the interaction with histones and for chromatin binding in vivo [, ]. In plants the SRA-YDG domain is associated with the SET domain, found in a family of histone methyl transferases, and in bacteria it is found in association with HNH, a non-specific nuclease motif [, ].; GO: 0042393 histone binding; PDB: 2ZO1_B 2ZKD_A 2ZO0_B 2ZKF_A 2ZKG_B 3FDE_A 3F8I_A 2ZO2_B 3F8J_B 2ZKE_A ....
Probab=24.48 E-value=1.5e+02 Score=24.86 Aligned_cols=36 Identities=17% Similarity=0.371 Sum_probs=26.3
Q ss_pred CCccEEEECCeEEEEEEeEEecCCCCCeEEeEEEeeC
Q 026120 65 RPGNVIEKSGKMYQVIDAEHKQRGRGGAMMQMELRDI 101 (243)
Q Consensus 65 KkG~~I~~dG~py~V~~~~h~KpGKG~A~vriklknL 101 (243)
.++-++.+|| +|+|+++...+-..|...++.+|+-+
T Consensus 117 p~~g~yrYDG-LY~V~~~w~~~g~~G~~v~kF~L~R~ 152 (155)
T PF02182_consen 117 PKGGIYRYDG-LYKVVKYWREKGKSGFKVFKFKLVRL 152 (155)
T ss_dssp -SSS-EEEEE-EEEEEEEEEEE-TTSSEEEEEEEEE-
T ss_pred CcCCCEEeCc-EEEEEEEEEEeCCCCcEEEEEEEEEC
Confidence 4566688988 99999998876545888889998765
No 105
>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=24.24 E-value=90 Score=22.44 Aligned_cols=25 Identities=24% Similarity=0.295 Sum_probs=18.4
Q ss_pred EccccccCCCEEEEECCCCceeecc
Q 026120 218 MVPSYLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 218 ~VP~FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
.+-.-++.||.|.|-+.+|+.+.+.
T Consensus 26 ~~~~~f~~gd~V~i~~~~g~~ia~G 50 (74)
T PF01472_consen 26 EVDGDFRKGDEVAIVDEDGEVIAVG 50 (74)
T ss_dssp EEETT--TTSEEEEEETTSSEEEEE
T ss_pred ECCCCcCCCCEEEEEcCCCeEEEEE
Confidence 3334458999999999999998764
No 106
>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=23.78 E-value=61 Score=27.70 Aligned_cols=17 Identities=24% Similarity=0.405 Sum_probs=15.0
Q ss_pred ccCCCEEEEECCCCcee
Q 026120 223 LEIGEEIFINPQDDSYI 239 (243)
Q Consensus 223 I~~Gd~I~VdT~~g~Yv 239 (243)
+++||.|.|.+.+|+|.
T Consensus 109 L~~GD~I~v~~~~g~~~ 125 (174)
T TIGR03784 109 LRPGDVIRLQTPDGQWQ 125 (174)
T ss_pred CCCCCEEEEEECCCeEE
Confidence 78999999999999753
No 107
>cd04458 CSP_CDS Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.
Probab=23.76 E-value=2.5e+02 Score=19.25 Aligned_cols=45 Identities=20% Similarity=0.237 Sum_probs=32.6
Q ss_pred EEeCCEEEEEeCCC-ccccccCchhhhhh-hhccCCCCEEEEEEECC
Q 026120 131 YTENDTAFVIESET-FEQLEVPLDVFGKA-GAYLQEGMKVWLQLYDG 175 (243)
Q Consensus 131 Y~Dgd~~~FMD~et-yEQi~l~~~~lgd~-~~~L~eg~~v~v~~~dg 175 (243)
|.+...|=|+..+. -+++-+....+... ..-|++|+.|......+
T Consensus 8 ~~~~kGfGFI~~~~~g~diffh~~~~~~~~~~~~~~G~~V~f~~~~~ 54 (65)
T cd04458 8 FDDEKGFGFITPDDGGEDVFVHISALEGDGFRSLEEGDRVEFELEEG 54 (65)
T ss_pred EECCCCeEEEecCCCCcCEEEEhhHhhccCCCcCCCCCEEEEEEEEC
Confidence 44445677777665 77888888777665 56789999999877654
No 108
>cd02782 MopB_CT_1 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=23.70 E-value=60 Score=25.36 Aligned_cols=21 Identities=14% Similarity=0.154 Sum_probs=16.1
Q ss_pred cccCCCEEEEECCCCceeecc
Q 026120 222 YLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 222 FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
=|+.||.|+|.+..|+-.-||
T Consensus 46 gi~~Gd~V~v~s~~g~~~~~~ 66 (129)
T cd02782 46 GLADGDKVRVTSAAGSVEAEV 66 (129)
T ss_pred CCCCCCEEEEEcCCCeEEEEE
Confidence 357799999998888776554
No 109
>cd07387 MPP_PolD2_C PolD2 (DNA polymerase delta, subunit 2), C-terminal domain. PolD2 (DNA polymerase delta, subunit 2) is an auxiliary subunit of the eukaryotic DNA polymerase delta (PolD) complex thought to play a regulatory role and to serve as a scaffold for PolD assembly by interacting simultaneously with all of the other three subunits. PolD2 is catalytically inactive and lacks the active site residues required for phosphoesterase activity in other members of this superfamily. PolD2 is also involved in the recruitment of several proteins regulating DNA metabolism, including p21, PDIP1, PDIP38, PDIP46, and WRN. Human PolD consists of four subunits: p125 (PolD1), p50 (PolD2), p66(PolD3), and p12(PolD4). PolD is one of three major replicases in eukaryotes. PolD also plays an essential role in translesion DNA synthesis, homologous recombination, and DNA repair. Within the PolD complex, PolD2 tightly associates with PolD3. PolD2 belongs to the metallophosphatase (MPP) superfamily
Probab=23.59 E-value=1.1e+02 Score=27.92 Aligned_cols=40 Identities=20% Similarity=0.258 Sum_probs=27.8
Q ss_pred CcCCCCCceeEEeecCc---EEEccccccCCCEEEEECCCCce
Q 026120 199 GPTVTPRYRRALLDNGV---TVMVPSYLEIGEEIFINPQDDSY 238 (243)
Q Consensus 199 GdTa~~~~K~A~LetG~---~v~VP~FI~~Gd~I~VdT~~g~Y 238 (243)
|+...-.+|...-++|. -|.||.|-++|..|.||.+|-+.
T Consensus 210 Gnq~~f~t~~~~~~~~~~v~lv~vP~Fs~t~~~vlvdl~tLe~ 252 (257)
T cd07387 210 GNQPKFGTKLVEGEEGQRVLLVCVPSFSKTGTAVLVNLRTLEC 252 (257)
T ss_pred CCCcceeeeEEEcCCCCeEEEEEeCCcCcCCEEEEEECCcCcE
Confidence 34433344554444443 46889999999999999998764
No 110
>cd02776 MopB_CT_Nitrate-R-NarG-like Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to nitrite and forms part of a redox loop generating a proton-motive force. Found in prokaryotes and some archaea, NarGHI usually functions as a heterotrimer. The alpha chain contains the molybdenum cofactor-containing Mo-bisMGD catalytic subunit. This CD (MopB_CT_Nitrate-R-NarG-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=23.23 E-value=56 Score=26.69 Aligned_cols=21 Identities=10% Similarity=0.083 Sum_probs=17.2
Q ss_pred cccCCCEEEEECCCCceeecc
Q 026120 222 YLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 222 FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
=|+.||.|+|.++.|+-.-||
T Consensus 44 gI~dGd~V~v~~~~G~v~~~a 64 (141)
T cd02776 44 GIKDNDWVEVFNDNGVVVARA 64 (141)
T ss_pred CCCCCCEEEEEeCCeEEEEEE
Confidence 477899999999998877665
No 111
>TIGR03361 VI_Rhs_Vgr type VI secretion system Vgr family protein. Members of this protein family belong to the Rhs element Vgr protein family (see TIGR01646), but furthermore all are found in genomes with type VI secretion loci. However, members of this protein family, although recognizably correlated to type VI secretion according the partial phylogenetic profiling algorithm, are often found far the type VI secretion locus.
Probab=23.14 E-value=5.2e+02 Score=25.26 Aligned_cols=113 Identities=19% Similarity=0.249 Sum_probs=59.4
Q ss_pred EcCCCCCccEEEECCe-------EEEEEEeEEecC--C------CCCeEEeEEEeeCCCCCeEEEEeCCCC--------c
Q 026120 60 NASHVRPGNVIEKSGK-------MYQVIDAEHKQR--G------RGGAMMQMELRDIDTGNKVSLRFGTEE--------A 116 (243)
Q Consensus 60 ~a~diKkG~~I~~dG~-------py~V~~~~h~Kp--G------KG~A~vriklknL~TG~k~e~tf~s~d--------k 116 (243)
.+-.|+.|..|.+.|. -|.|++++|.-- + -+...++.++.=+.... .|+... -
T Consensus 285 ~~~~l~~G~~~~l~~~~~~~~~g~ylVt~v~H~~~~~~~~~~~~~~~~~y~~~f~~ip~~~----~~rp~~~~~~P~i~G 360 (513)
T TIGR03361 285 NCRRLAPGYLFTLSGHPRAALNREYLVVSVHHHGRQPQVLEESGGSGAGYRNSFQCIPADV----PFRPPRRTPKPRIDG 360 (513)
T ss_pred CcCeEcCCCEEEeCCCCCcccCCCEEEEEEEEEEEeCcccccccCCCceEEEEEEEEECCC----cccCCCCCCCCcCCC
Confidence 3568999999999775 399999999541 0 12234555544433332 222211 1
Q ss_pred EEeeeEeeeEEEEEEEeCCE---EEEE-e-C---CCcc--ccccCchhhhhh--hh-ccCCCCEEEEEEECCE
Q 026120 117 VERVFVEDKSFTCLYTENDT---AFVI-E-S---ETFE--QLEVPLDVFGKA--GA-YLQEGMKVWLQLYDGR 176 (243)
Q Consensus 117 ve~~~ver~~~qylY~Dgd~---~~FM-D-~---etyE--Qi~l~~~~lgd~--~~-~L~eg~~v~v~~~dg~ 176 (243)
+..+.|...+-+..|.|+.. ..|. | . +..+ =+.+-...-|.. .- ....|++|-|.|.+|.
T Consensus 361 ~q~A~V~g~~~~~i~~D~~GRvkV~f~wd~~~~~~~~~S~wvRvaqp~AG~~~G~~f~PrvG~EVlV~F~~GD 433 (513)
T TIGR03361 361 PQTATVVGPAGEEIYTDEYGRVKVQFHWDRYGKRDEKSSCWVRVAQPWAGNGWGSVAIPRVGQEVVVDFLEGD 433 (513)
T ss_pred CeEEEEECCCCCEEeECCCCCEEEEecccCCCCCCCCCceEEEecccccCCCcccccCCCCCCEEEEEEcCCC
Confidence 44455555444556666532 2232 1 1 1111 122322222222 22 3388999999999865
No 112
>PRK06005 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=23.05 E-value=1.9e+02 Score=24.40 Aligned_cols=24 Identities=21% Similarity=0.365 Sum_probs=19.5
Q ss_pred eEEEeeCCCCCeEEEEeCCCCcEE
Q 026120 95 QMELRDIDTGNKVSLRFGTEEAVE 118 (243)
Q Consensus 95 riklknL~TG~k~e~tf~s~dkve 118 (243)
.++.||+.+|+.+.-+..+.-.+.
T Consensus 133 ~IrVrN~~Sgkiv~g~V~~~g~V~ 156 (160)
T PRK06005 133 LIRVRNVDSGVIVSGTVLADGTIQ 156 (160)
T ss_pred EEEEEECCCCCEEEEEEecCCEEE
Confidence 899999999999988876655544
No 113
>TIGR03684 arCOG00985 arCOG04150 universal archaeal PUA-domain protein. This universal archaeal protein contains a domain possibly associated with RNA binding (pfam01472, TIGR00451).
Probab=22.62 E-value=2.2e+02 Score=23.31 Aligned_cols=29 Identities=21% Similarity=0.477 Sum_probs=21.8
Q ss_pred ecCcEEEcccc------ccCCCEEEEECCC-Cceee
Q 026120 212 DNGVTVMVPSY------LEIGEEIFINPQD-DSYIG 240 (243)
Q Consensus 212 etG~~v~VP~F------I~~Gd~I~VdT~~-g~Yv~ 240 (243)
.+|+.++.|-. ++.||.|.|-++. |+.+.
T Consensus 83 ~~Ga~lm~pGV~~~~~~~~~Gd~V~I~~~~~~~~va 118 (150)
T TIGR03684 83 INGADIMAPGIVSADPSIKEGDIVFVVDETHRKPLA 118 (150)
T ss_pred hcCcccccCceecCCCCCCCCCEEEEEECCCCeEEE
Confidence 36888777744 5779999998877 87764
No 114
>PF11871 DUF3391: Domain of unknown function (DUF3391); InterPro: IPR021812 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is typically between 122 to 139 amino acids in length. This domain is found associated with PF01966 from PFAM.
Probab=22.58 E-value=41 Score=26.22 Aligned_cols=21 Identities=14% Similarity=0.482 Sum_probs=15.9
Q ss_pred eeEEcCCCCCccEEEECCeEE
Q 026120 57 VKVNASHVRPGNVIEKSGKMY 77 (243)
Q Consensus 57 ~~i~a~diKkG~~I~~dG~py 77 (243)
.+|.+++|+.||+|..-..+|
T Consensus 3 kkI~v~~L~~GM~V~~~~~~w 23 (128)
T PF11871_consen 3 KKIPVDQLKPGMYVSRLDRSW 23 (128)
T ss_pred eEEEHHHCCCCcEEEecCCCc
Confidence 368899999999997644333
No 115
>PF11948 DUF3465: Protein of unknown function (DUF3465); InterPro: IPR021856 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 131 to 151 amino acids in length. This protein has a conserved HWTH sequence motif.
Probab=22.52 E-value=85 Score=26.02 Aligned_cols=31 Identities=19% Similarity=0.232 Sum_probs=25.6
Q ss_pred EEcCCCCCccEEEECCeEE-----EEEEeEEecCCC
Q 026120 59 VNASHVRPGNVIEKSGKMY-----QVIDAEHKQRGR 89 (243)
Q Consensus 59 i~a~diKkG~~I~~dG~py-----~V~~~~h~KpGK 89 (243)
-.+..|++|+.|+..|+++ -|+.+.|.-|+.
T Consensus 81 prip~l~~GD~V~f~GeYe~n~kggvIHWTH~dp~~ 116 (131)
T PF11948_consen 81 PRIPWLQKGDQVEFYGEYEWNPKGGVIHWTHHDPRG 116 (131)
T ss_pred ccCcCcCCCCEEEEEEEEEECCCCCEEEeeccCCCC
Confidence 3457899999999999876 589999988864
No 116
>PRK11835 hypothetical protein; Provisional
Probab=22.41 E-value=79 Score=25.55 Aligned_cols=44 Identities=18% Similarity=0.345 Sum_probs=25.7
Q ss_pred cccceecceeeEEcCCCCC-ccEEEECCeEEEEEEeEEecCCCCCeEEeEE
Q 026120 48 PWSATQQRAVKVNASHVRP-GNVIEKSGKMYQVIDAEHKQRGRGGAMMQME 97 (243)
Q Consensus 48 ~~~~~~~R~~~i~a~diKk-G~~I~~dG~py~V~~~~h~KpGKG~A~vrik 97 (243)
-|.+.|+-.-. .+||.. ..+++++|+||.-+..+ --.+|.+|+|
T Consensus 54 aw~vm~~L~~s--L~eiqv~~~ivEweGepCLFv~~~----DE~aa~CrLK 98 (114)
T PRK11835 54 AWSVMQKLSQA--LSDIQVPCSVLECEGEPCLFVNRQ----DESAATCRLK 98 (114)
T ss_pred HHHHHHHHHHH--HHhhcccceEEEecCCceEEEecc----cchhhheeec
Confidence 34444433222 445554 45779999999988765 3355554443
No 117
>cd06530 S26_SPase_I The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa
Probab=22.22 E-value=1.2e+02 Score=21.79 Aligned_cols=37 Identities=19% Similarity=0.248 Sum_probs=24.7
Q ss_pred CceeEEeecCcEEEcc---c---cccCCCEEEEECCC---Cceeecc
Q 026120 205 RYRRALLDNGVTVMVP---S---YLEIGEEIFINPQD---DSYIGRA 242 (243)
Q Consensus 205 ~~K~A~LetG~~v~VP---~---FI~~Gd~I~VdT~~---g~Yv~R~ 242 (243)
++.|. +..|-.|-|. . -++.||.|.+.... ..|+.|+
T Consensus 9 SM~P~-i~~gd~v~v~~~~~~~~~~~~GDiv~~~~~~~~~~~~vkRv 54 (85)
T cd06530 9 SMEPT-LQPGDLVLVNKLSYGFREPKRGDVVVFKSPGDPGKPIIKRV 54 (85)
T ss_pred CCcCc-ccCCCEEEEEEeecccCCCCCCCEEEEeCCCCCCCEEEEEE
Confidence 34453 5566666552 2 37889999999888 4577774
No 118
>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]
Probab=22.05 E-value=3.5e+02 Score=20.30 Aligned_cols=32 Identities=16% Similarity=0.166 Sum_probs=20.2
Q ss_pred CceeEEeecCcEEEc---------cccccCCCEEEEECCCC
Q 026120 205 RYRRALLDNGVTVMV---------PSYLEIGEEIFINPQDD 236 (243)
Q Consensus 205 ~~K~A~LetG~~v~V---------P~FI~~Gd~I~VdT~~g 236 (243)
..=.+.||||.++.. =.-|.+||+|.|.+...
T Consensus 20 ~~f~v~~edg~~~~ahI~GKmr~~~i~I~~GD~V~Ve~~~~ 60 (75)
T COG0361 20 GRFRVELENGHERLAHISGKMRKNRIRILPGDVVLVELSPY 60 (75)
T ss_pred CEEEEEecCCcEEEEEccCcchheeEEeCCCCEEEEEeccc
Confidence 445666777776632 23456788888876653
No 119
>PRK04980 hypothetical protein; Provisional
Probab=21.88 E-value=1.3e+02 Score=23.88 Aligned_cols=36 Identities=14% Similarity=0.216 Sum_probs=28.5
Q ss_pred CCCceeEEeecCcEEEccccccCCCEEEE-ECCCCceeecc
Q 026120 203 TPRYRRALLDNGVTVMVPSYLEIGEEIFI-NPQDDSYIGRA 242 (243)
Q Consensus 203 ~~~~K~A~LetG~~v~VP~FI~~Gd~I~V-dT~~g~Yv~R~ 242 (243)
-++-|.||.-+| .....++||.+.| .-++|.|+..+
T Consensus 16 LsGkKTiTiRd~----se~~~~~G~~~~V~~~e~g~~~c~i 52 (102)
T PRK04980 16 LAGRKTITIRDE----SESHFKPGDVLRVGTFEDDRYFCTI 52 (102)
T ss_pred HcCCceEEeeCC----cccCCCCCCEEEEEECCCCcEEEEE
Confidence 457899999775 4778899999999 56788887654
No 120
>PF00207 A2M: Alpha-2-macroglobulin family; InterPro: IPR001599 This entry contains serum complement C3 and C4 precursors and alpha-macrogrobulins. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; GO: 0004866 endopeptidase inhibitor activity; PDB: 3KLS_B 3PRX_C 3KM9_B 3PVM_C 3CU7_A 4E0S_A 4A5W_A 2PN5_A 3FRP_G 3HRZ_B ....
Probab=21.86 E-value=69 Score=23.85 Aligned_cols=17 Identities=29% Similarity=0.479 Sum_probs=12.7
Q ss_pred EEEccccccCCCEEEEE
Q 026120 216 TVMVPSYLEIGEEIFIN 232 (243)
Q Consensus 216 ~v~VP~FI~~Gd~I~Vd 232 (243)
...+|.|+..||.+.|.
T Consensus 59 ~~~lP~~l~~GD~~~i~ 75 (92)
T PF00207_consen 59 QLNLPRSLRRGDQIQIP 75 (92)
T ss_dssp EEE--SEEETTSEEEEE
T ss_pred EcCCCcEEecCCEEEEE
Confidence 46789999999999875
No 121
>TIGR01363 strep_his_triad streptococcal histidine triad protein. This model represents the N-terminal half of a family of Streptococcal proteins that contain a signal peptide and then up to five repeats of a region that includes a His-X-X-His-X-His (histidine triad) motif. Three repeats are found in the seed alignment. Members of this family from Streptococcus pneumoniae are suggested to cleave human C3, and the member PhpA has been shown in vaccine studies to be a protective antigen in mice.
Probab=21.84 E-value=36 Score=32.22 Aligned_cols=22 Identities=27% Similarity=0.552 Sum_probs=19.3
Q ss_pred cCCCCCccEEEECCeEEEEEEe
Q 026120 61 ASHVRPGNVIEKSGKMYQVIDA 82 (243)
Q Consensus 61 a~diKkG~~I~~dG~py~V~~~ 82 (243)
+++++.|=+|.++|+.|..++-
T Consensus 118 v~e~~~GYvIkv~~~Yy~ylKd 139 (348)
T TIGR01363 118 VNEIKGGYVIKVNGKYYVYLKD 139 (348)
T ss_pred HhhhcCceEEEECCEEEEEEcC
Confidence 5899999999999999987753
No 122
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=21.80 E-value=1.1e+02 Score=25.70 Aligned_cols=29 Identities=28% Similarity=0.454 Sum_probs=25.1
Q ss_pred ceeeEEcCCCCCccEEEECCeEEEEEEeE
Q 026120 55 RAVKVNASHVRPGNVIEKSGKMYQVIDAE 83 (243)
Q Consensus 55 R~~~i~a~diKkG~~I~~dG~py~V~~~~ 83 (243)
.-+.++...++-|++|..+++.|+|.-..
T Consensus 97 ~~v~VNst~l~dG~iVki~~~yYrV~~n~ 125 (149)
T PF11694_consen 97 EEVYVNSTALTDGMIVKIGDKYYRVIFND 125 (149)
T ss_pred heEEEecccccCCeEEEECCccEEEEEcC
Confidence 34788999999999999999999997653
No 123
>PF13989 YejG: YejG-like protein
Probab=21.41 E-value=80 Score=25.20 Aligned_cols=34 Identities=21% Similarity=0.356 Sum_probs=21.7
Q ss_pred CCCCC-ccEEEECCeEEEEEEeEEecCCCCCeEEeEEEeeC
Q 026120 62 SHVRP-GNVIEKSGKMYQVIDAEHKQRGRGGAMMQMELRDI 101 (243)
Q Consensus 62 ~diKk-G~~I~~dG~py~V~~~~h~KpGKG~A~vriklknL 101 (243)
.+|.. ..+++++|+||.-+..+ --.+|. +++||+
T Consensus 63 ~eiqv~~~vvE~eGepCLFv~~~----DEsa~~--CrLKn~ 97 (106)
T PF13989_consen 63 AEIQVDCAVVEWEGEPCLFVHRE----DESAAM--CRLKNF 97 (106)
T ss_pred HHhcccceEEEecCCceEEEecc----cchhhh--eeeccC
Confidence 34443 56779999999988765 234454 444553
No 124
>cd00508 MopB_CT_Fdh-Nap-like This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. Formate dehydrogenase N (alpha subunit) is the major electron donor to the bacterial nitrate respiratory chain and nitrate reductases, Nap and Nas, catalyze the reduction of nitrate to nitrite. This CD (MopB_CT_Fdh-Nap-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=21.31 E-value=66 Score=24.36 Aligned_cols=21 Identities=19% Similarity=0.260 Sum_probs=15.2
Q ss_pred cccCCCEEEEECCCCceeecc
Q 026120 222 YLEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 222 FI~~Gd~I~VdT~~g~Yv~R~ 242 (243)
=|+.||.|.|.+..|+-.-+|
T Consensus 48 gi~~Gd~V~v~~~~G~~~~~v 68 (120)
T cd00508 48 GIKDGDLVRVSSRRGSVVVRA 68 (120)
T ss_pred CCCCCCEEEEEeCCEEEEEEE
Confidence 357788888888888765444
No 125
>cd02777 MopB_CT_DMSOR-like The MopB_CT_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Also included in this group is the pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB hom
Probab=21.21 E-value=69 Score=25.04 Aligned_cols=20 Identities=10% Similarity=0.189 Sum_probs=14.5
Q ss_pred ccCCCEEEEECCCCceeecc
Q 026120 223 LEIGEEIFINPQDDSYIGRA 242 (243)
Q Consensus 223 I~~Gd~I~VdT~~g~Yv~R~ 242 (243)
|+.||+|+|.+..|+-.-+|
T Consensus 48 i~~Gd~V~v~s~~g~i~~~v 67 (127)
T cd02777 48 IKDGDIVRVFNDRGAVLAGA 67 (127)
T ss_pred CCCCCEEEEEcCCeEEEEEE
Confidence 45788888888888765554
No 126
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=20.68 E-value=88 Score=23.26 Aligned_cols=30 Identities=13% Similarity=0.277 Sum_probs=22.3
Q ss_pred CCCCeEEeEEEeeCCCCCeEEEEeCCCCcEEee
Q 026120 88 GRGGAMMQMELRDIDTGNKVSLRFGTEEAVERV 120 (243)
Q Consensus 88 GKG~A~vriklknL~TG~k~e~tf~s~dkve~~ 120 (243)
|+|.+.++++ +-+|+.++.+|.++++++.+
T Consensus 1 ~~~~~~i~iR---lP~G~r~~rrF~~t~~L~~l 30 (80)
T cd01771 1 GEPISKLRVR---TPSGDFLERRFLGDTPLQVL 30 (80)
T ss_pred CCCeEEEEEE---CCCCCEEEEEeCCCCcHHHH
Confidence 3445555554 57899999999999998753
No 127
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=20.34 E-value=82 Score=22.87 Aligned_cols=48 Identities=19% Similarity=0.274 Sum_probs=29.2
Q ss_pred CCeEEeEEEeeCCCCCeEEEEeCCCCcEEeeeEeeeEEEEEEEeCCEEEEEeC
Q 026120 90 GGAMMQMELRDIDTGNKVSLRFGTEEAVERVFVEDKSFTCLYTENDTAFVIES 142 (243)
Q Consensus 90 G~A~vriklknL~TG~k~e~tf~s~dkve~~~ver~~~qylY~Dgd~~~FMD~ 142 (243)
+.+.+++++ -+|+.+..+|+++++++.+.---... ...+++.|.|+-.
T Consensus 3 ~~~~I~iRl---PdG~ri~~~F~~~~tl~~v~~~v~~~--~~~~~~~f~L~t~ 50 (80)
T smart00166 3 DQCRLQIRL---PDGSRLVRRFPSSDTLRTVYEFVSAA--LTDGNDPFTLNSP 50 (80)
T ss_pred CeEEEEEEc---CCCCEEEEEeCCCCcHHHHHHHHHHc--ccCCCCCEEEEeC
Confidence 445566664 78999999999999987532111111 1223346777664
No 128
>PF06905 FAIM1: Fas apoptotic inhibitory molecule (FAIM1); InterPro: IPR010695 This family consists of several fas apoptotic inhibitory molecule (FAIM) proteins. FAIM expression is upregulated in B cells by anti-Ig treatment that induces Fas-resistance, and overexpression of FAIM diminishes sensitivity to Fas-mediated apoptosis of B and non-B cell lines. FAIM is highly evolutionarily conserved and is widely expressed in murine tissues, suggesting that FAIM plays an important role in cellular physiology [].; GO: 0043066 negative regulation of apoptosis; PDB: 3MX7_A 2KW1_A 2KD2_A.
Probab=20.19 E-value=4.2e+02 Score=22.91 Aligned_cols=7 Identities=29% Similarity=0.724 Sum_probs=3.0
Q ss_pred EEEeCCC
Q 026120 138 FVIESET 144 (243)
Q Consensus 138 ~FMD~et 144 (243)
+++|.+|
T Consensus 112 IvLdk~t 118 (177)
T PF06905_consen 112 IVLDKDT 118 (177)
T ss_dssp EEEETTT
T ss_pred EEEEcce
Confidence 4444443
No 129
>PRK11354 kil FtsZ inhibitor protein; Reviewed
Probab=20.15 E-value=1.1e+02 Score=22.87 Aligned_cols=23 Identities=22% Similarity=0.426 Sum_probs=18.9
Q ss_pred EcCCCCCccEEEECCeEEEEEEe
Q 026120 60 NASHVRPGNVIEKSGKMYQVIDA 82 (243)
Q Consensus 60 ~a~diKkG~~I~~dG~py~V~~~ 82 (243)
.=..+.+||.+.++|+.|..-..
T Consensus 12 ~Rq~V~PG~~v~~~grty~ASAN 34 (73)
T PRK11354 12 PRQCVTPGDYVLHEGRTYIASAN 34 (73)
T ss_pred cccccCCceEEEEcCcEEEEEec
Confidence 33567899999999999987655
Done!