Query psy14699
Match_columns 195
No_of_seqs 195 out of 662
Neff 5.4
Searched_HMMs 46136
Date Fri Aug 16 18:21:56 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14699.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14699hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2655|consensus 100.0 3.2E-57 6.9E-62 408.0 16.7 189 1-191 152-351 (366)
2 COG5019 CDC3 Septin family pro 100.0 7.8E-54 1.7E-58 385.1 15.6 187 1-189 156-356 (373)
3 KOG3859|consensus 100.0 1.3E-52 2.7E-57 368.7 7.9 186 1-190 170-359 (406)
4 PF00735 Septin: Septin; Inte 100.0 3.8E-52 8.3E-57 364.5 10.1 140 1-142 136-277 (281)
5 KOG1547|consensus 100.0 3.5E-48 7.7E-53 335.0 12.3 140 1-142 178-318 (336)
6 cd01850 CDC_Septin CDC/Septin. 100.0 6.3E-46 1.4E-50 323.6 13.9 138 1-140 137-275 (276)
7 cd01876 YihA_EngB The YihA (En 85.0 2.5 5.5E-05 31.6 5.4 39 7-45 110-150 (170)
8 cd04165 GTPBP1_like GTPBP1-lik 81.6 2.9 6.4E-05 35.4 4.9 40 7-46 138-177 (224)
9 cd00881 GTP_translation_factor 81.0 2.1 4.6E-05 33.2 3.7 36 6-41 113-148 (189)
10 PRK13768 GTPase; Provisional 80.8 1.2 2.7E-05 38.3 2.4 30 5-34 160-189 (253)
11 PF03129 HGTP_anticodon: Antic 74.3 5.9 0.00013 28.2 4.1 62 8-79 2-64 (94)
12 PRK00454 engB GTP-binding prot 74.0 6.1 0.00013 31.2 4.5 37 8-44 136-172 (196)
13 KOG3088|consensus 73.9 6.5 0.00014 35.6 5.0 33 158-190 60-92 (313)
14 COG1162 Predicted GTPases [Gen 72.6 6.1 0.00013 35.8 4.5 118 6-129 109-255 (301)
15 PRK00089 era GTPase Era; Revie 70.9 34 0.00074 29.4 8.7 54 62-126 201-255 (292)
16 PF10437 Lip_prot_lig_C: Bacte 69.9 2.6 5.5E-05 30.3 1.3 14 86-99 8-21 (86)
17 PF13986 DUF4224: Domain of un 69.4 9.2 0.0002 25.1 3.8 30 18-47 1-35 (47)
18 PRK12289 GTPase RsgA; Reviewed 60.7 17 0.00036 33.3 5.0 64 6-77 119-182 (352)
19 cd00861 ProRS_anticodon_short 59.9 25 0.00054 24.7 4.9 61 8-78 4-65 (94)
20 COG1422 Predicted membrane pro 59.4 56 0.0012 28.1 7.6 61 106-187 61-123 (201)
21 cd02426 Pol_gamma_b_Cterm C-te 59.2 44 0.00095 26.0 6.5 33 7-44 29-61 (128)
22 cd00862 ProRS_anticodon_zinc P 57.1 1.1E+02 0.0025 25.4 9.2 66 7-79 12-79 (202)
23 cd01897 NOG NOG1 is a nucleola 57.0 12 0.00027 28.5 3.1 21 7-27 113-133 (168)
24 cd01853 Toc34_like Toc34-like 56.9 19 0.00042 31.1 4.5 66 8-93 150-227 (249)
25 cd04171 SelB SelB subfamily. 54.9 24 0.00053 26.4 4.4 31 8-38 105-135 (164)
26 cd01889 SelB_euk SelB subfamil 54.0 25 0.00054 28.1 4.6 31 7-37 120-150 (192)
27 cd01888 eIF2_gamma eIF2-gamma 53.7 38 0.00083 27.6 5.7 31 8-38 138-168 (203)
28 PLN02734 glycyl-tRNA synthetas 52.4 26 0.00056 35.2 5.1 53 62-114 268-328 (684)
29 PRK13793 nicotinamide-nucleoti 52.3 46 0.00099 28.3 6.0 100 9-114 33-146 (196)
30 cd04104 p47_IIGP_like p47 (47- 52.2 20 0.00044 29.2 3.7 17 8-24 108-124 (197)
31 TIGR00408 proS_fam_I prolyl-tR 51.3 1.4E+02 0.003 28.3 9.7 66 7-80 284-351 (472)
32 COG3276 SelB Selenocysteine-sp 50.3 1E+02 0.0022 29.6 8.4 40 6-45 102-141 (447)
33 cd01858 NGP_1 NGP-1. Autoanti 49.7 16 0.00034 28.5 2.6 20 7-26 39-58 (157)
34 cd01884 EF_Tu EF-Tu subfamily. 49.2 56 0.0012 26.9 6.0 31 10-40 121-152 (195)
35 cd01849 YlqF_related_GTPase Yl 48.5 26 0.00057 27.2 3.7 22 6-27 28-49 (155)
36 cd04163 Era Era subfamily. Er 47.9 24 0.00053 26.0 3.4 28 7-34 111-139 (168)
37 PF13805 Pil1: Eisosome compon 47.4 49 0.0011 29.6 5.6 43 90-135 87-129 (271)
38 cd01857 HSR1_MMR1 HSR1/MMR1. 45.8 25 0.00054 27.0 3.2 34 7-44 42-75 (141)
39 PTZ00327 eukaryotic translatio 43.0 42 0.00091 31.9 4.8 31 8-38 172-202 (460)
40 PF06696 Strep_SA_rep: Strepto 42.0 70 0.0015 18.6 4.0 22 162-183 2-23 (25)
41 KOG3088|consensus 40.8 23 0.00049 32.2 2.5 26 158-183 67-92 (313)
42 PF06409 NPIP: Nuclear pore co 39.7 67 0.0015 28.4 5.2 63 121-191 103-174 (265)
43 TIGR00436 era GTP-binding prot 39.7 1.9E+02 0.0041 24.7 8.1 55 63-126 195-250 (270)
44 PRK12325 prolyl-tRNA synthetas 39.2 99 0.0022 28.9 6.6 64 7-80 347-411 (439)
45 cd01852 AIG1 AIG1 (avrRpt2-ind 39.1 37 0.00081 27.4 3.4 43 8-50 117-163 (196)
46 PRK14894 glycyl-tRNA synthetas 38.9 75 0.0016 31.1 5.8 59 6-75 435-495 (539)
47 PF05278 PEARLI-4: Arabidopsis 38.7 1.1E+02 0.0023 27.5 6.3 32 159-190 194-225 (269)
48 KOG1490|consensus 37.0 21 0.00045 35.1 1.8 39 9-47 283-322 (620)
49 PF04914 DltD_C: DltD C-termin 36.7 38 0.00081 26.9 2.9 41 10-50 56-99 (130)
50 PF00009 GTP_EFTU: Elongation 35.1 68 0.0015 25.6 4.3 30 6-36 121-150 (188)
51 cd00880 Era_like Era (E. coli 33.8 56 0.0012 23.5 3.3 25 6-30 103-127 (163)
52 COG1084 Predicted GTPase [Gene 33.8 35 0.00076 31.6 2.6 43 8-50 281-323 (346)
53 PRK12288 GTPase RsgA; Reviewed 33.7 1.1E+02 0.0024 27.9 5.8 39 7-46 150-188 (347)
54 cd01859 MJ1464 MJ1464. This f 33.6 1.2E+02 0.0027 23.2 5.4 21 7-27 41-61 (156)
55 KOG3859|consensus 33.2 29 0.00064 31.9 2.0 49 128-181 323-371 (406)
56 KOG4552|consensus 32.7 1.1E+02 0.0024 26.8 5.3 84 105-190 5-99 (272)
57 KOG2298|consensus 32.1 46 0.001 32.5 3.2 49 65-113 205-261 (599)
58 PLN02595 cytochrome c oxidase 31.8 21 0.00045 27.5 0.7 11 85-95 80-90 (102)
59 PF07544 Med9: RNA polymerase 31.0 1.2E+02 0.0026 22.0 4.6 32 156-187 50-81 (83)
60 PF15047 DUF4533: Protein of u 30.7 3.2E+02 0.007 23.9 7.9 74 106-192 5-78 (225)
61 COG0050 TufB GTPases - transla 30.6 88 0.0019 29.1 4.6 34 9-42 130-164 (394)
62 PRK03991 threonyl-tRNA synthet 30.6 1.2E+02 0.0027 29.9 6.0 60 7-79 501-561 (613)
63 PRK14457 ribosomal RNA large s 30.3 53 0.0011 30.0 3.2 39 2-44 281-323 (345)
64 PRK01631 hypothetical protein; 29.6 27 0.00058 25.6 0.9 46 1-46 1-55 (76)
65 TIGR02475 CobW cobalamin biosy 29.6 62 0.0013 29.3 3.5 37 11-48 177-213 (341)
66 KOG1891|consensus 29.6 78 0.0017 28.0 3.9 36 105-142 225-261 (271)
67 cd00925 Cyt_c_Oxidase_VIa Cyto 29.1 24 0.00053 26.3 0.7 11 85-95 57-67 (86)
68 PLN02265 probable phenylalanyl 28.8 94 0.002 30.4 4.8 50 65-121 416-469 (597)
69 KOG3478|consensus 28.8 1E+02 0.0022 24.3 4.1 35 159-193 84-118 (120)
70 cd01895 EngA2 EngA2 subfamily. 27.9 76 0.0016 23.6 3.3 30 7-36 113-144 (174)
71 PRK08661 prolyl-tRNA synthetas 27.6 1.7E+02 0.0037 27.7 6.2 68 7-80 289-357 (477)
72 TIGR03597 GTPase_YqeH ribosome 27.2 1.5E+02 0.0033 26.8 5.6 36 7-42 90-126 (360)
73 cd01894 EngA1 EngA1 subfamily. 27.0 80 0.0017 23.3 3.3 17 8-24 106-122 (157)
74 COG0698 RpiB Ribose 5-phosphat 26.9 1.4E+02 0.0031 24.5 4.8 54 26-79 12-70 (151)
75 PF03147 FDX-ACB: Ferredoxin-f 26.8 73 0.0016 23.1 2.9 27 17-43 66-93 (94)
76 PHA00669 hypothetical protein 26.2 30 0.00066 27.1 0.7 18 83-100 23-40 (114)
77 PF07047 OPA3: Optic atrophy 3 26.1 98 0.0021 24.4 3.7 11 126-136 91-101 (134)
78 PRK10512 selenocysteinyl-tRNA- 26.0 1.1E+02 0.0023 30.2 4.7 33 9-41 106-138 (614)
79 PRK13796 GTPase YqeH; Provisio 25.5 1.2E+02 0.0025 27.7 4.5 36 7-42 96-132 (365)
80 cd01890 LepA LepA subfamily. 24.9 1.1E+02 0.0023 23.5 3.7 15 6-20 118-132 (179)
81 KOG0626|consensus 24.7 3.8E+02 0.0081 26.4 7.9 109 10-135 117-257 (524)
82 cd01883 EF1_alpha Eukaryotic e 24.2 1.4E+02 0.0031 24.6 4.5 32 8-39 138-173 (219)
83 PF15313 HEXIM: Hexamethylene 24.1 90 0.0019 24.7 3.1 16 127-142 91-106 (124)
84 cd07316 terB_like_DjlA N-termi 23.7 64 0.0014 23.2 2.1 21 14-34 9-30 (106)
85 cd01898 Obg Obg subfamily. Th 23.7 80 0.0017 23.9 2.8 19 7-25 114-132 (170)
86 TIGR00475 selB selenocysteine- 23.7 1.2E+02 0.0027 29.5 4.6 32 9-40 105-136 (581)
87 COG1471 RPS4A Ribosomal protei 23.6 80 0.0017 27.8 2.9 36 64-99 37-89 (241)
88 PF02344 Myc-LZ: Myc leucine z 23.2 1.9E+02 0.0042 17.8 4.2 25 167-191 6-30 (32)
89 PF15053 Njmu-R1: Mjmu-R1-like 23.2 3.7E+02 0.008 25.1 7.2 86 88-190 256-352 (353)
90 TIGR03680 eif2g_arch translati 23.2 1.1E+02 0.0023 28.2 3.9 32 8-39 135-166 (406)
91 cd07321 Extradiol_Dioxygenase_ 23.1 56 0.0012 23.5 1.6 27 19-45 34-60 (77)
92 PF15290 Syntaphilin: Golgi-lo 23.1 1E+02 0.0022 28.0 3.6 26 161-186 78-103 (305)
93 KOG0996|consensus 23.1 2.7E+02 0.0059 30.1 7.0 95 92-190 690-810 (1293)
94 PRK14799 thrS threonyl-tRNA sy 23.1 1.7E+02 0.0037 28.5 5.4 60 8-80 441-501 (545)
95 PF06163 DUF977: Bacterial pro 23.1 1.1E+02 0.0024 24.4 3.4 26 18-43 3-28 (127)
96 cd04178 Nucleostemin_like Nucl 22.5 1.1E+02 0.0025 24.7 3.6 28 7-34 30-57 (172)
97 PRK14061 unknown domain/lipoat 22.5 73 0.0016 31.3 2.7 31 6-42 408-439 (562)
98 CHL00071 tufA elongation facto 22.1 1.5E+02 0.0033 27.2 4.7 33 9-41 130-163 (409)
99 smart00475 53EXOc 5'-3' exonuc 21.6 2.1E+02 0.0046 24.9 5.3 57 20-78 77-134 (259)
100 PTZ00223 40S ribosomal protein 21.6 40 0.00086 30.2 0.7 24 77-100 65-88 (273)
101 PRK04000 translation initiatio 21.5 1.1E+02 0.0023 28.4 3.5 36 9-44 141-179 (411)
102 KOG0146|consensus 21.5 73 0.0016 29.0 2.3 15 170-184 102-116 (371)
103 cd05855 Ig_TrkB_d5 Fifth domai 21.3 1.3E+02 0.0029 21.3 3.3 40 67-106 2-56 (79)
104 PRK04313 30S ribosomal protein 21.3 38 0.00082 29.7 0.5 24 77-100 64-87 (237)
105 PTZ00118 40S ribosomal protein 21.3 39 0.00085 30.1 0.6 24 77-100 68-91 (262)
106 TIGR00483 EF-1_alpha translati 21.2 1.7E+02 0.0037 26.9 4.8 34 8-41 142-177 (426)
107 PRK08032 fliD flagellar cappin 20.9 1.1E+02 0.0024 28.9 3.5 36 156-191 418-453 (462)
108 cd00008 53EXOc 5'-3' exonuclea 20.9 2.4E+02 0.0051 24.1 5.3 56 21-78 79-135 (240)
109 PRK15494 era GTPase Era; Provi 20.8 3E+02 0.0064 24.7 6.2 56 62-126 246-302 (339)
110 cd04106 Rab23_lke Rab23-like s 20.7 48 0.001 24.9 0.9 14 7-20 106-119 (162)
111 cd07313 terB_like_2 tellurium 20.7 85 0.0018 22.6 2.2 23 14-36 9-32 (104)
112 cd00882 Ras_like_GTPase Ras-li 20.6 1.4E+02 0.0031 20.7 3.4 23 5-27 100-122 (157)
113 COG0481 LepA Membrane GTPase L 20.4 62 0.0013 31.8 1.7 32 4-36 125-156 (603)
114 PF08172 CASP_C: CASP C termin 20.4 93 0.002 27.3 2.7 42 149-190 77-118 (248)
115 COG0523 Putative GTPases (G3E 20.3 1.2E+02 0.0025 27.6 3.4 31 11-41 149-179 (323)
116 PRK12305 thrS threonyl-tRNA sy 20.3 2.3E+02 0.0051 27.1 5.7 60 8-80 479-539 (575)
117 TIGR00157 ribosome small subun 20.2 1.3E+02 0.0028 25.7 3.6 37 6-45 66-102 (245)
118 cd01881 Obg_like The Obg-like 20.1 1.3E+02 0.0027 22.8 3.2 22 7-28 120-141 (176)
119 TIGR00485 EF-Tu translation el 20.1 1.6E+02 0.0035 26.8 4.4 32 9-40 130-162 (394)
120 PF02046 COX6A: Cytochrome c o 20.0 37 0.0008 26.5 0.1 10 85-94 91-100 (116)
No 1
>KOG2655|consensus
Probab=100.00 E-value=3.2e-57 Score=408.03 Aligned_cols=189 Identities=47% Similarity=0.797 Sum_probs=170.1
Q ss_pred CCccCCccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHHHHhhhCCCceEEEecCeeee
Q psy14699 1 MKQLHNKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQVRQLKEAVPFAVCGANTVLE 80 (195)
Q Consensus 1 Mk~L~~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~~~~l~~~~PFaVvgs~~~~~ 80 (195)
||+||++|||||||||||+||++|+..||.+|+++|..++|++|.||.+++ |+++.+.++.|+.++|||||||++.++
T Consensus 152 Mk~l~~~vNiIPVI~KaD~lT~~El~~~K~~I~~~i~~~nI~vf~fp~~~~--d~~~~~~~~~l~~~~PFAIigs~~~~e 229 (366)
T KOG2655|consen 152 MKKLSKKVNLIPVIAKADTLTKDELNQFKKRIRQDIEEHNIKVFDFPTDES--DEELKEEEQDLKSSIPFAIIGSNTEIE 229 (366)
T ss_pred HHHHhccccccceeeccccCCHHHHHHHHHHHHHHHHHcCcceecCCCCcc--hhhhHHHHHHHhhcCCeEEEecCceee
Confidence 899999999999999999999999999999999999999999999998765 667888899999999999999999999
Q ss_pred eCCee-eeeccCCCeeeeecCCCCCchHHHHHHHH-hhHHHHHHHhHHHHHHhhHHHHHhcCCCCCCC------C--Ccc
Q psy14699 81 VGGNK-VRGRQYPWGVVEVENPEHCDFTKLRTMLV-THMQDLQEVTQEIHYENYRSERLVKGVPVPKR------T--VSL 150 (195)
Q Consensus 81 ~~g~~-vrgR~YpWG~veVen~~HsDF~~LR~~Li-thlqdLkd~T~~~~YE~yR~~~L~~~~~~~~~------~--~~~ 150 (195)
.+|+. ||||.||||+|+|+|++||||.+||++|| |||+||+++|+++||||||+++|......... . .+.
T Consensus 230 ~~G~~~vrgR~YpWG~veien~~h~DF~~Lr~~Li~thl~dLk~~T~~~~YEnYR~~~L~~~~~~~~~~~~~~~~~~~e~ 309 (366)
T KOG2655|consen 230 EKGKKRVRGRKYPWGTVEIENPEHCDFKKLRNLLIRTHLEDLKDTTNNLLYENYRTEKLEGLLYKGENGEHEARLKNDEL 309 (366)
T ss_pred cCCceEeeceecCCceeeccCCCcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhccccCCchhhhhhhcccch
Confidence 88876 99999999999999999999999999999 99999999999999999999999987653221 1 145
Q ss_pred cCCCCccccchhHHHHHHHHHHHH-HHHHHHHHHHHHHHHhh
Q psy14699 151 TEDSKPTANNLEKDRILQEKEAEL-QRMQEMIAKMQAQMQQA 191 (195)
Q Consensus 151 ~~~~~~~~~~~e~~~~l~~ke~el-~r~~em~~~~q~q~~~~ 191 (195)
++...+..++.+++..+++++.+| ++|++|+.+|++|+++.
T Consensus 310 ~~~~~~~~~~~e~~~~~~~~e~~l~~~~~e~~~~l~~~~~~~ 351 (366)
T KOG2655|consen 310 ALEKVITQKVKEKEDRLRQEEEELIRRHQEMKKKLEAQMQEI 351 (366)
T ss_pred hhHHHHhhhhhhhhhHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 555557777778888888888887 99999999999999864
No 2
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=100.00 E-value=7.8e-54 Score=385.08 Aligned_cols=187 Identities=40% Similarity=0.707 Sum_probs=162.1
Q ss_pred CCccCCccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCcc-HHHHHHHHhhhCCCceEEEecCeee
Q psy14699 1 MKQLHNKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDED-EDYKEQVRQLKEAVPFAVCGANTVL 79 (195)
Q Consensus 1 Mk~L~~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~ded-e~~~~~~~~l~~~~PFaVvgs~~~~ 79 (195)
||+||++|||||||||||+||++|++.||++|+++|..++|++|. |. +.|+| ++..+.++.+..++|||||||++.+
T Consensus 156 Mk~ls~~vNlIPVI~KaD~lT~~El~~~K~~I~~~i~~~nI~vf~-py-d~e~~~~e~~e~~~~l~~~~PFAII~S~~~~ 233 (373)
T COG5019 156 MKRLSKRVNLIPVIAKADTLTDDELAEFKERIREDLEQYNIPVFD-PY-DPEDDEDESLEENQDLRSLIPFAIIGSNTEI 233 (373)
T ss_pred HHHHhcccCeeeeeeccccCCHHHHHHHHHHHHHHHHHhCCceeC-CC-CccccchhhHHHHHHHhhcCCeEEEecccee
Confidence 899999999999999999999999999999999999999999998 63 32333 3566788999999999999999999
Q ss_pred eeCCeeeeeccCCCeeeeecCCCCCchHHHHHHHH-hhHHHHHHHhHHHHHHhhHHHHHhcCCCCCC--C---------C
Q psy14699 80 EVGGNKVRGRQYPWGVVEVENPEHCDFTKLRTMLV-THMQDLQEVTQEIHYENYRSERLVKGVPVPK--R---------T 147 (195)
Q Consensus 80 ~~~g~~vrgR~YpWG~veVen~~HsDF~~LR~~Li-thlqdLkd~T~~~~YE~yR~~~L~~~~~~~~--~---------~ 147 (195)
+.+|+.+|||+||||+|+|+|++||||..||++|| |||+||++.|++.|||+||+++|........ . .
T Consensus 234 ~~~~~~vrgR~YpWG~v~Idd~~hsDF~~Lr~~Li~thL~~L~~~T~~~~YE~YR~e~L~~~~~~~~~~~~~~~~~~~~~ 313 (373)
T COG5019 234 ENGGEQVRGRKYPWGVVEIDDEEHSDFKKLRNLLIRTHLQELKETTENLLYENYRTEKLSGLKNSGEPSLKEIHEARLNE 313 (373)
T ss_pred ccCCceeeeeccCCcceecCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChhhhhccHHHHhH
Confidence 99999999999999999999999999999999999 9999999999999999999999998754211 0 0
Q ss_pred CcccCCCCccccchhHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Q psy14699 148 VSLTEDSKPTANNLEKDRILQEKEAEL-QRMQEMIAKMQAQMQ 189 (195)
Q Consensus 148 ~~~~~~~~~~~~~~e~~~~l~~ke~el-~r~~em~~~~q~q~~ 189 (195)
....+...+++++.++++.|++.|++| +++++|..+|.++..
T Consensus 314 ~~~~~k~~~~~ki~~~e~~l~~~E~~l~~e~~~~n~~Le~~~~ 356 (373)
T COG5019 314 EERELKKKFTEKIREKEKRLEELEQNLIEERKELNSKLEEIQK 356 (373)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 133334446778899999999999999 788888777766654
No 3
>KOG3859|consensus
Probab=100.00 E-value=1.3e-52 Score=368.67 Aligned_cols=186 Identities=41% Similarity=0.655 Sum_probs=171.7
Q ss_pred CCccCCccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHHHHhhhCCCceEEEecCeeee
Q psy14699 1 MKQLHNKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQVRQLKEAVPFAVCGANTVLE 80 (195)
Q Consensus 1 Mk~L~~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~~~~l~~~~PFaVvgs~~~~~ 80 (195)
||+|..+|||||||||||+.+.+||+.||.+|+.+|..|||+||+||. +|+...+.+..++..+|||||||+..+.
T Consensus 170 mk~LdskVNIIPvIAKaDtisK~eL~~FK~kimsEL~sngv~IYqfPt----Ddetva~~N~~mn~~lPFAVvGSte~vK 245 (406)
T KOG3859|consen 170 MKKLDSKVNIIPVIAKADTISKEELKRFKIKIMSELVSNGVQIYQFPT----DDETVAKANSEMNHSLPFAVVGSTEEVK 245 (406)
T ss_pred HHHHhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHHhcCceeeeccc----hHHHHHHHHHHhhcCCceeEecchHhhh
Confidence 789999999999999999999999999999999999999999999994 4567788899999999999999999999
Q ss_pred eCCeeeeeccCCCeeeeecCCCCCchHHHHHHHH-hhHHHHHHHhHHHHHHhhHHHHHhcCCCCCCCCC--cccCCCCcc
Q psy14699 81 VGGNKVRGRQYPWGVVEVENPEHCDFTKLRTMLV-THMQDLQEVTQEIHYENYRSERLVKGVPVPKRTV--SLTEDSKPT 157 (195)
Q Consensus 81 ~~g~~vrgR~YpWG~veVen~~HsDF~~LR~~Li-thlqdLkd~T~~~~YE~yR~~~L~~~~~~~~~~~--~~~~~~~~~ 157 (195)
++|+.|+.|+||||+|.|+|+.||||++||.||| ++|+||++.||..|||.||..+|..||....+.+ |.+....++
T Consensus 246 vgnkmvraRqyPwG~v~vENE~HCDFVKLREmLirtNmedlReqTHtrhYElyRr~kL~~Mgf~dv~~~~~p~s~qet~e 325 (406)
T KOG3859|consen 246 VGNKMVKARQYPWGTVQVENELHCDFVKLREMLIRTNMEDLREQTHTRHYELYRRCKLEEMGFKDVDPDNKPFSLQETYE 325 (406)
T ss_pred hhhhhhhhccCCCCceeecchhhhHHHHHHHHHccccHHHHhhhccccchHHHHHHHHHHcCCccCCCCCCCccHHHHHH
Confidence 9999999999999999999999999999999999 9999999999999999999999999998765554 777888899
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHH-HHHHHHh
Q psy14699 158 ANNLEKDRILQEKEAELQRMQEMIAK-MQAQMQQ 190 (195)
Q Consensus 158 ~~~~e~~~~l~~ke~el~r~~em~~~-~q~q~~~ 190 (195)
.+++|+...||.+|+|||+||.+.-+ -.+.|+.
T Consensus 326 aKr~e~~~e~qrkEee~rqmFvqrvkekE~elke 359 (406)
T KOG3859|consen 326 AKRNEFLGELQRKEEEMRQMFVQRVKEKEAELKE 359 (406)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999988544 4455543
No 4
>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []. Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.
Probab=100.00 E-value=3.8e-52 Score=364.47 Aligned_cols=140 Identities=50% Similarity=0.938 Sum_probs=114.9
Q ss_pred CCccCCccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHHHHhhhCCCceEEEecCeeee
Q psy14699 1 MKQLHNKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQVRQLKEAVPFAVCGANTVLE 80 (195)
Q Consensus 1 Mk~L~~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~~~~l~~~~PFaVvgs~~~~~ 80 (195)
||+||++|||||||||||+||++|++.||++|+++|++|+|++|.|+..+. +|++ ...+..++..+|||||||++.++
T Consensus 136 mk~Ls~~vNvIPvIaKaD~lt~~el~~~k~~i~~~l~~~~I~~f~f~~~~~-~~~e-~~~~~~~~~~~PFavi~s~~~~~ 213 (281)
T PF00735_consen 136 MKRLSKRVNVIPVIAKADTLTPEELQAFKQRIREDLEENNIKIFDFPEDDD-DDEE-IEENQKIRSMLPFAVIGSNTEIE 213 (281)
T ss_dssp HHHHTTTSEEEEEESTGGGS-HHHHHHHHHHHHHHHHHTT--S-----------HC-HHHHHHHHHC-SEEE---SSEEE
T ss_pred HHHhcccccEEeEEecccccCHHHHHHHHHHHHHHHHHcCceeeccccccc-cccc-cccccccccceeeEEEecceeee
Confidence 799999999999999999999999999999999999999999999986543 3343 45688899999999999999999
Q ss_pred e-CCeeeeeccCCCeeeeecCCCCCchHHHHHHHH-hhHHHHHHHhHHHHHHhhHHHHHhcCCC
Q psy14699 81 V-GGNKVRGRQYPWGVVEVENPEHCDFTKLRTMLV-THMQDLQEVTQEIHYENYRSERLVKGVP 142 (195)
Q Consensus 81 ~-~g~~vrgR~YpWG~veVen~~HsDF~~LR~~Li-thlqdLkd~T~~~~YE~yR~~~L~~~~~ 142 (195)
. +|+.+|||+||||+|+|+|++||||..||++|| +||+||++.|+++|||+||+++|.+.+.
T Consensus 214 ~~~g~~~~gR~YpWG~vev~n~~hsDF~~Lr~~Ll~~~l~dL~~~T~~~~YE~yR~~~L~~~~~ 277 (281)
T PF00735_consen 214 NSNGKRVRGRKYPWGTVEVENPEHSDFLKLRNLLLGTHLQDLKDSTENVHYENYRTEKLSSRKN 277 (281)
T ss_dssp E-SSSEEEEEEETTEEEETT-TTTSSHHHHHHHHHCCCHHHHHHHHHHCHHHHHHHHHHHHH--
T ss_pred ccCCcEEeeeecCCccccccccccccHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHhchh
Confidence 7 899999999999999999999999999999999 9999999999999999999999998654
No 5
>KOG1547|consensus
Probab=100.00 E-value=3.5e-48 Score=335.00 Aligned_cols=140 Identities=45% Similarity=0.800 Sum_probs=132.9
Q ss_pred CCccCCccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHHHHhhhCCCceEEEecCeeee
Q psy14699 1 MKQLHNKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQVRQLKEAVPFAVCGANTVLE 80 (195)
Q Consensus 1 Mk~L~~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~~~~l~~~~PFaVvgs~~~~~ 80 (195)
||+|++-|||||||||||+||-+|..+||++|+++|..|||++| |...+|+|.+.+..+..+++.+|||||||+..+.
T Consensus 178 lkrLt~vvNvvPVIakaDtlTleEr~~FkqrI~~el~~~~i~vY--Pq~~fded~ed~~lN~kvR~~iPFAVVGsd~e~~ 255 (336)
T KOG1547|consen 178 LKRLTEVVNVVPVIAKADTLTLEERSAFKQRIRKELEKHGIDVY--PQDSFDEDLEDKTLNDKVRESIPFAVVGSDKEIQ 255 (336)
T ss_pred HHHHhhhheeeeeEeecccccHHHHHHHHHHHHHHHHhcCcccc--cccccccchhHHHHHHHHHhhCCeEEecccceEE
Confidence 68999999999999999999999999999999999999999999 4455677777778899999999999999999999
Q ss_pred eCCeeeeeccCCCeeeeecCCCCCchHHHHHHHH-hhHHHHHHHhHHHHHHhhHHHHHhcCCC
Q psy14699 81 VGGNKVRGRQYPWGVVEVENPEHCDFTKLRTMLV-THMQDLQEVTQEIHYENYRSERLVKGVP 142 (195)
Q Consensus 81 ~~g~~vrgR~YpWG~veVen~~HsDF~~LR~~Li-thlqdLkd~T~~~~YE~yR~~~L~~~~~ 142 (195)
+||+.++||+.+||+|+|||..||+|.+||++|| ||||||+|.|+.+|||+||.++|..++.
T Consensus 256 vnG~~vlGRktrWg~IeVen~nhCeF~~LRdfliRtHlQdlke~Ts~iHyE~yR~krLn~~~~ 318 (336)
T KOG1547|consen 256 VNGRRVLGRKTRWGIIEVENLNHCEFVLLRDFLIRTHLQDLKETTSNIHYETYRAKRLNELKE 318 (336)
T ss_pred EcCeEeeccccccceEEecccccchhHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHhhhcC
Confidence 9999999999999999999999999999999999 9999999999999999999999998654
No 6
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=100.00 E-value=6.3e-46 Score=323.56 Aligned_cols=138 Identities=54% Similarity=1.001 Sum_probs=128.1
Q ss_pred CCccCCccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHHHHhhhCCCceEEEecCeeee
Q psy14699 1 MKQLHNKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQVRQLKEAVPFAVCGANTVLE 80 (195)
Q Consensus 1 Mk~L~~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~~~~l~~~~PFaVvgs~~~~~ 80 (195)
|+.|+..|||||||+|+|+||.+|+..+|+.|++.|..+||++|.||.++. |++....++.+...+|||||||++.++
T Consensus 137 lk~l~~~v~vi~VinK~D~l~~~e~~~~k~~i~~~l~~~~i~~~~~~~~~~--~~~~~~~~~~~~~~~Pfavi~s~~~~~ 214 (276)
T cd01850 137 MKRLSKRVNIIPVIAKADTLTPEELKEFKQRIMEDIEEHNIKIYKFPEDEE--DDETIEENKKLRSLIPFAVVGSNEEVE 214 (276)
T ss_pred HHHHhccCCEEEEEECCCcCCHHHHHHHHHHHHHHHHHcCCceECCCCCcc--cHHHHHHHHhhccCCCcEEEecCceee
Confidence 567888999999999999999999999999999999999999999997542 234455688899999999999999999
Q ss_pred eCCeeeeeccCCCeeeeecCCCCCchHHHHHHHH-hhHHHHHHHhHHHHHHhhHHHHHhcC
Q psy14699 81 VGGNKVRGRQYPWGVVEVENPEHCDFTKLRTMLV-THMQDLQEVTQEIHYENYRSERLVKG 140 (195)
Q Consensus 81 ~~g~~vrgR~YpWG~veVen~~HsDF~~LR~~Li-thlqdLkd~T~~~~YE~yR~~~L~~~ 140 (195)
.+|+.+|||+||||+|+|+||+||||.+||++|| +||+||++.|+++|||+||+++|..+
T Consensus 215 ~~g~~~~~R~y~WG~~~v~n~~h~df~~Lr~~l~~~~~~~l~~~t~~~~Ye~yr~~~l~~~ 275 (276)
T cd01850 215 VNGKKVRGRKYPWGVVEVENEEHCDFVKLRNLLIRTHLQDLKETTHNVHYENYRTEKLSSR 275 (276)
T ss_pred cCCcEEEEecCCccEEeecCcccccHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHhcC
Confidence 9999999999999999999999999999999999 99999999999999999999999875
No 7
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=84.98 E-value=2.5 Score=31.61 Aligned_cols=39 Identities=26% Similarity=0.365 Sum_probs=30.4
Q ss_pred ccceeeeeecCCCCCHHHHHHHHHHHHHHHH--HcCCCccC
Q psy14699 7 KVNIVPVIAKADCLTRKEIQRLKKKVMDEIK--QNGITIYP 45 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~~K~~I~~~l~--~~~I~iy~ 45 (195)
.++++.|+.|+|.++.++....+..+...++ ..+.++|.
T Consensus 110 ~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 150 (170)
T cd01876 110 GIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIIL 150 (170)
T ss_pred CCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEE
Confidence 3689999999999999999888888887776 34445553
No 8
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=81.56 E-value=2.9 Score=35.41 Aligned_cols=40 Identities=20% Similarity=0.314 Sum_probs=33.4
Q ss_pred ccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCC
Q psy14699 7 KVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPL 46 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~f 46 (195)
...+|.||.|+|.+..+++...+..+.+.|...|++-+.+
T Consensus 138 ~ip~ivvvNK~D~~~~~~~~~~~~~l~~~L~~~g~~~~p~ 177 (224)
T cd04165 138 NIPVFVVVTKIDLAPANILQETLKDLKRILKVPGVRKLPV 177 (224)
T ss_pred CCCEEEEEECccccCHHHHHHHHHHHHHHhcCCCccccce
Confidence 3568999999999999899999999999988777776544
No 9
>cd00881 GTP_translation_factor GTP translation factor family. This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Probab=81.03 E-value=2.1 Score=33.18 Aligned_cols=36 Identities=14% Similarity=0.318 Sum_probs=30.8
Q ss_pred CccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCC
Q psy14699 6 NKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGI 41 (195)
Q Consensus 6 ~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I 41 (195)
...+++-|+.|+|.+++++.......+.+.+...++
T Consensus 113 ~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~ 148 (189)
T cd00881 113 GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGF 148 (189)
T ss_pred CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccc
Confidence 367899999999999988888888888888877664
No 10
>PRK13768 GTPase; Provisional
Probab=80.80 E-value=1.2 Score=38.32 Aligned_cols=30 Identities=33% Similarity=0.509 Sum_probs=25.4
Q ss_pred CCccceeeeeecCCCCCHHHHHHHHHHHHH
Q psy14699 5 HNKVNIVPVIAKADCLTRKEIQRLKKKVMD 34 (195)
Q Consensus 5 ~~~VNIIPVIaKADtLT~~El~~~K~~I~~ 34 (195)
....++|+|++|+|.++.+|+..++..+..
T Consensus 160 ~~~~~~i~v~nK~D~~~~~~~~~~~~~l~~ 189 (253)
T PRK13768 160 RLGLPQIPVLNKADLLSEEELERILKWLED 189 (253)
T ss_pred HcCCCEEEEEEhHhhcCchhHHHHHHHHhC
Confidence 345799999999999999999888877763
No 11
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=74.32 E-value=5.9 Score=28.18 Aligned_cols=62 Identities=24% Similarity=0.337 Sum_probs=41.0
Q ss_pred cceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHH-HHhhhCCCceEEEecCeee
Q psy14699 8 VNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQ-VRQLKEAVPFAVCGANTVL 79 (195)
Q Consensus 8 VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~-~~~l~~~~PFaVvgs~~~~ 79 (195)
|=||||=.+ .++...+=..|.+.|..+||.+.-.. .+..+... .......+||++|-+....
T Consensus 2 v~Ii~~~~~-----~~~~~~~a~~l~~~L~~~gi~v~~d~-----~~~~~~k~~~~a~~~g~p~~iiiG~~e~ 64 (94)
T PF03129_consen 2 VVIIPVGKK-----DEEIIEYAQELANKLRKAGIRVELDD-----SDKSLGKQIKYADKLGIPFIIIIGEKEL 64 (94)
T ss_dssp EEEEESSCS-----HHHHHHHHHHHHHHHHHTTSEEEEES-----SSSTHHHHHHHHHHTTESEEEEEEHHHH
T ss_pred EEEEEeCCC-----cHHHHHHHHHHHHHHHHCCCEEEEEC-----CCCchhHHHHHHhhcCCeEEEEECchhH
Confidence 557787776 57888999999999999998764211 11122222 2334578999987664443
No 12
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=74.02 E-value=6.1 Score=31.22 Aligned_cols=37 Identities=27% Similarity=0.337 Sum_probs=22.7
Q ss_pred cceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCcc
Q psy14699 8 VNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIY 44 (195)
Q Consensus 8 VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy 44 (195)
++++.|+.|+|.++..+.+.....+...+...++.+|
T Consensus 136 ~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~ 172 (196)
T PRK00454 136 IPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDEVI 172 (196)
T ss_pred CcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCceE
Confidence 4566777777777766666665556655555444444
No 13
>KOG3088|consensus
Probab=73.91 E-value=6.5 Score=35.59 Aligned_cols=33 Identities=18% Similarity=0.309 Sum_probs=27.0
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy14699 158 ANNLEKDRILQEKEAELQRMQEMIAKMQAQMQQ 190 (195)
Q Consensus 158 ~~~~e~~~~l~~ke~el~r~~em~~~~q~q~~~ 190 (195)
.+..-|++.|+++++||+|-.+-|++-+.+|+.
T Consensus 60 ~~~~~kq~eL~~rqeEL~Rke~ELdRREr~~a~ 92 (313)
T KOG3088|consen 60 KDLAKKQAELLKKQEELRRKEQELDRRERALAR 92 (313)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhh
Confidence 344568899999999998888888888888876
No 14
>COG1162 Predicted GTPases [General function prediction only]
Probab=72.58 E-value=6.1 Score=35.77 Aligned_cols=118 Identities=17% Similarity=0.285 Sum_probs=70.2
Q ss_pred CccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHHHHhhhCCCceEEEecCee-------
Q psy14699 6 NKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQVRQLKEAVPFAVCGANTV------- 78 (195)
Q Consensus 6 ~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~~~~l~~~~PFaVvgs~~~------- 78 (195)
..+.-|.||.|+|.+++++... +.......+-|.++|-..-.. . +...+....+...+ =+++|++.+
T Consensus 109 ~gi~pvIvlnK~DL~~~~~~~~--~~~~~~y~~~gy~v~~~s~~~-~--~~~~~l~~~l~~~~-svl~GqSGVGKSSLiN 182 (301)
T COG1162 109 GGIEPVIVLNKIDLLDDEEAAV--KELLREYEDIGYPVLFVSAKN-G--DGLEELAELLAGKI-TVLLGQSGVGKSTLIN 182 (301)
T ss_pred cCCcEEEEEEccccCcchHHHH--HHHHHHHHhCCeeEEEecCcC-c--ccHHHHHHHhcCCe-EEEECCCCCcHHHHHH
Confidence 3456788899999999999987 667777788898888543111 1 11222233333331 112222211
Q ss_pred ------------e-ee--CCe--eeeeccCCC--eeeeecCCCCCchHH--HHHHHH-hhHHHHHHHhHHHHH
Q psy14699 79 ------------L-EV--GGN--KVRGRQYPW--GVVEVENPEHCDFTK--LRTMLV-THMQDLQEVTQEIHY 129 (195)
Q Consensus 79 ------------~-~~--~g~--~vrgR~YpW--G~veVen~~HsDF~~--LR~~Li-thlqdLkd~T~~~~Y 129 (195)
+ +. .|+ ....+-||. |-.-|+.|-.+.|-. +..--+ .+.-|+.+...+.+|
T Consensus 183 ~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG~iiDTPGf~~~~l~~~~~e~l~~~F~ef~~~~~~CkF 255 (301)
T COG1162 183 ALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGGWIIDTPGFRSLGLAHLEPEDLVQAFPEFAELARQCKF 255 (301)
T ss_pred hhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCCEEEeCCCCCccCcccCCHHHHHHHhHHHHHHhcCCCC
Confidence 1 11 233 234455655 888899999988876 555555 777887777654443
No 15
>PRK00089 era GTPase Era; Reviewed
Probab=70.88 E-value=34 Score=29.43 Aligned_cols=54 Identities=19% Similarity=0.251 Sum_probs=40.6
Q ss_pred HhhhCCCceEEEecCeeeeeCCeeeeeccCCCeeeeecCCCCCchHHHHHHHH-hhHHHHHHHhHH
Q psy14699 62 RQLKEAVPFAVCGANTVLEVGGNKVRGRQYPWGVVEVENPEHCDFTKLRTMLV-THMQDLQEVTQE 126 (195)
Q Consensus 62 ~~l~~~~PFaVvgs~~~~~~~g~~vrgR~YpWG~veVen~~HsDF~~LR~~Li-thlqdLkd~T~~ 126 (195)
..+...+||++--....++.. +.-+-+.++-|+.+.| +.++| .+=.-||.....
T Consensus 201 ~~l~~e~p~~~~v~~~~~~~~-----~~~~i~~~i~v~~~~~------k~i~ig~~g~~i~~i~~~ 255 (292)
T PRK00089 201 RLLGDELPYSVAVEIEKFEER-----GLVRIEATIYVERDSQ------KGIIIGKGGAMLKKIGTE 255 (292)
T ss_pred hhCCccCCceEEEEEEEEEEC-----CeEEEEEEEEEccCCc------eeEEEeCCcHHHHHHHHH
Confidence 346899999987766666543 3455678899999999 78888 888888877653
No 16
>PF10437 Lip_prot_lig_C: Bacterial lipoate protein ligase C-terminus; InterPro: IPR019491 This is the C-terminal domain of a bacterial lipoate protein ligase. There is no conservation between this C terminus and that of vertebrate lipoate protein ligase C-termini, but both are associated with IPR004143 from INTERPRO, further upstream. This C-terminal domain is more stable than IPR004143 from INTERPRO and the hypothesis is that the C-terminal domain has a role in recognising the lipoyl domain and/or transferring the lipoyl group onto it from the lipoyl-AMP intermediate. C-terminal fragments of length 172 to 193 amino acid residues are observed in the eubacterial enzymes whereas in their archaeal counterparts the C-terminal segment is significantly smaller, ranging in size from 87 to 107 amino acid residues. ; PDB: 1X2G_A 3A7R_A 3A7A_A 1X2H_C 1VQZ_A 3R07_C.
Probab=69.93 E-value=2.6 Score=30.35 Aligned_cols=14 Identities=50% Similarity=1.222 Sum_probs=11.4
Q ss_pred eeeccCCCeeeeec
Q psy14699 86 VRGRQYPWGVVEVE 99 (195)
Q Consensus 86 vrgR~YpWG~veVe 99 (195)
.+.++||||.|+|.
T Consensus 8 ~~~~rf~~G~v~v~ 21 (86)
T PF10437_consen 8 SKERRFPWGTVEVH 21 (86)
T ss_dssp EEEEEETTEEEEEE
T ss_pred eeeeEcCCceEEEE
Confidence 45699999999874
No 17
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=69.42 E-value=9.2 Score=25.15 Aligned_cols=30 Identities=30% Similarity=0.441 Sum_probs=23.3
Q ss_pred CCCCHHHHHHH-----HHHHHHHHHHcCCCccCCC
Q psy14699 18 DCLTRKEIQRL-----KKKVMDEIKQNGITIYPLP 47 (195)
Q Consensus 18 DtLT~~El~~~-----K~~I~~~l~~~~I~iy~fp 47 (195)
+.||++|+..+ +....+.|+.+||.++.-+
T Consensus 1 ~fLT~~El~elTG~k~~~~Q~~~L~~~Gi~~~~~~ 35 (47)
T PF13986_consen 1 EFLTDEELQELTGYKRPSKQIRWLRRNGIPFVVRA 35 (47)
T ss_pred CCCCHHHHHHHHCCCCHHHHHHHHHHCCCeeEECC
Confidence 47999999876 5667788888999887543
No 18
>PRK12289 GTPase RsgA; Reviewed
Probab=60.72 E-value=17 Score=33.33 Aligned_cols=64 Identities=22% Similarity=0.268 Sum_probs=37.3
Q ss_pred CccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHHHHhhhCCCceEEEecCe
Q psy14699 6 NKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQVRQLKEAVPFAVCGANT 77 (195)
Q Consensus 6 ~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~~~~l~~~~PFaVvgs~~ 77 (195)
..+++|-|+.|+|.++++++..+ .+.+...|+.+|...-. ..+...+....+...+ .+++|+..
T Consensus 119 ~~ip~ILVlNK~DLv~~~~~~~~----~~~~~~~g~~v~~iSA~---tg~GI~eL~~~L~~ki-~v~iG~Sg 182 (352)
T PRK12289 119 TGLEIVLCLNKADLVSPTEQQQW----QDRLQQWGYQPLFISVE---TGIGLEALLEQLRNKI-TVVAGPSG 182 (352)
T ss_pred CCCCEEEEEEchhcCChHHHHHH----HHHHHhcCCeEEEEEcC---CCCCHHHHhhhhccce-EEEEeCCC
Confidence 35789999999999988776443 34455678777643211 1122222333444433 56776654
No 19
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=59.87 E-value=25 Score=24.65 Aligned_cols=61 Identities=20% Similarity=0.287 Sum_probs=36.7
Q ss_pred cceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHH-HHhhhCCCceEEEecCee
Q psy14699 8 VNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQ-VRQLKEAVPFAVCGANTV 78 (195)
Q Consensus 8 VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~-~~~l~~~~PFaVvgs~~~ 78 (195)
|=|+||=.+ + ++....-..+...|+.+|+.+.--.. ...+... ...-+..+||.||-+...
T Consensus 4 v~i~p~~~~-~----~~~~~~a~~la~~Lr~~g~~v~~d~~-----~~~l~k~i~~a~~~g~~~~iiiG~~e 65 (94)
T cd00861 4 VVIIPMNMK-D----EVQQELAEKLYAELQAAGVDVLLDDR-----NERPGVKFADADLIGIPYRIVVGKKS 65 (94)
T ss_pred EEEEEcCCC-c----HHHHHHHHHHHHHHHHCCCEEEEECC-----CCCcccchhHHHhcCCCEEEEECCch
Confidence 446775544 3 66667788999999999999852111 1111111 122367889988755443
No 20
>COG1422 Predicted membrane protein [Function unknown]
Probab=59.38 E-value=56 Score=28.08 Aligned_cols=61 Identities=30% Similarity=0.469 Sum_probs=40.2
Q ss_pred hHHHHHHHH--hhHHHHHHHhHHHHHHhhHHHHHhcCCCCCCCCCcccCCCCccccchhHHHHHHHHHHHHHHHHHHHHH
Q psy14699 106 FTKLRTMLV--THMQDLQEVTQEIHYENYRSERLVKGVPVPKRTVSLTEDSKPTANNLEKDRILQEKEAELQRMQEMIAK 183 (195)
Q Consensus 106 F~~LR~~Li--thlqdLkd~T~~~~YE~yR~~~L~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~ke~el~r~~em~~~ 183 (195)
++.++..++ .-|..+++...+ +=+.||.-+- +...++-++||+++.|+.+.|-.+-+
T Consensus 61 ~~i~~~~liD~ekm~~~qk~m~e-fq~e~~eA~~--------------------~~d~~~lkkLq~~qmem~~~Q~elmk 119 (201)
T COG1422 61 ITILQKLLIDQEKMKELQKMMKE-FQKEFREAQE--------------------SGDMKKLKKLQEKQMEMMDDQRELMK 119 (201)
T ss_pred HHHHHHHhccHHHHHHHHHHHHH-HHHHHHHHHH--------------------hCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666777 558888877753 3344444221 11256788999999999998888777
Q ss_pred HHHH
Q psy14699 184 MQAQ 187 (195)
Q Consensus 184 ~q~q 187 (195)
+|=+
T Consensus 120 ~qfk 123 (201)
T COG1422 120 MQFK 123 (201)
T ss_pred Hhhh
Confidence 7644
No 21
>cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase.
Probab=59.16 E-value=44 Score=26.00 Aligned_cols=33 Identities=24% Similarity=0.462 Sum_probs=26.2
Q ss_pred ccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCcc
Q psy14699 7 KVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIY 44 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy 44 (195)
.|-|||+ . .+ .+++..+=..|.++|..+||.+.
T Consensus 29 qV~Iipi-~-~~---~~~~~~~a~~l~~~L~~~gi~v~ 61 (128)
T cd02426 29 KVAIDCG-K-GD---TAELRDLCQGLKNELREAGLSVW 61 (128)
T ss_pred EEEEEec-c-CC---hHHHHHHHHHHHHHHHHcCCEEE
Confidence 5778898 2 22 37888888999999999999984
No 22
>cd00862 ProRS_anticodon_zinc ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only, and an additional C-terminal zinc-binding domain specific to this subfamily of aaRSs.
Probab=57.08 E-value=1.1e+02 Score=25.39 Aligned_cols=66 Identities=24% Similarity=0.302 Sum_probs=39.8
Q ss_pred ccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccH-HH-HHHHHhhhCCCceEEEecCeee
Q psy14699 7 KVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDE-DY-KEQVRQLKEAVPFAVCGANTVL 79 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede-~~-~~~~~~l~~~~PFaVvgs~~~~ 79 (195)
.|=|||+-.+.+ ..+++...-..|.+.|+.+||.+.- | +.+. .. ......-...+||.|+-+...+
T Consensus 12 qVvIipi~~~~~--~~~~~~~~a~~i~~~Lr~~Girv~~----D-~r~~~s~g~K~~~ae~~GvP~~I~IG~~El 79 (202)
T cd00862 12 QVVIVPIGIKDE--KREEVLEAADELAERLKAAGIRVHV----D-DRDNYTPGWKFNDWELKGVPLRIEIGPRDL 79 (202)
T ss_pred eEEEEEecCCcc--chHHHHHHHHHHHHHHHHCCCEEEE----E-CCCCCCHhHHHHHHHhCCCCEEEEECcchh
Confidence 456888864421 2345667788999999999998852 1 1111 11 1222334578999887665444
No 23
>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Probab=57.00 E-value=12 Score=28.51 Aligned_cols=21 Identities=24% Similarity=0.393 Sum_probs=15.4
Q ss_pred ccceeeeeecCCCCCHHHHHH
Q psy14699 7 KVNIVPVIAKADCLTRKEIQR 27 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~ 27 (195)
..++|.|++|+|..+..++..
T Consensus 113 ~~pvilv~NK~Dl~~~~~~~~ 133 (168)
T cd01897 113 NKPVIVVLNKIDLLTFEDLSE 133 (168)
T ss_pred cCCeEEEEEccccCchhhHHH
Confidence 577888888888877666543
No 24
>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts). This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.
Probab=56.87 E-value=19 Score=31.15 Aligned_cols=66 Identities=15% Similarity=0.234 Sum_probs=38.4
Q ss_pred cceeeeeecCCCCCHHHH----------HHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHHHHhhhCCCceEEEecCe
Q psy14699 8 VNIVPVIAKADCLTRKEI----------QRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQVRQLKEAVPFAVCGANT 77 (195)
Q Consensus 8 VNIIPVIaKADtLT~~El----------~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~~~~l~~~~PFaVvgs~~ 77 (195)
.|+|.|+.|+|.+++++. ..++..|+.++..+.- .+. ...+|+++|.+..
T Consensus 150 ~~~ivV~T~~d~~~p~~~~~~~~~~~~~~~~~~~i~~~~~~~~~---------~~~-----------~~~~pv~lven~~ 209 (249)
T cd01853 150 RNAIVVLTHAASSPPDGLNGTPFSYDRFVAQRSHIVQQAIQQAA---------GDP-----------RLENPVSLVENHP 209 (249)
T ss_pred hCEEEEEeCCccCCCCCCCCCcchHHHHHHHHHHHHHHHhhhhc---------cCc-----------cccCCEEEEeCCC
Confidence 478899999999887764 3455555555433221 011 2467999998765
Q ss_pred eee--eCCeeeeeccCCC
Q psy14699 78 VLE--VGGNKVRGRQYPW 93 (195)
Q Consensus 78 ~~~--~~g~~vrgR~YpW 93 (195)
.-. ..|.+|..=--+|
T Consensus 210 ~c~~n~~~~~vlp~g~~w 227 (249)
T cd01853 210 RCRKNREGEKVLPNGTVW 227 (249)
T ss_pred cccCCCCCCeECCCCCcc
Confidence 443 2365554333345
No 25
>cd04171 SelB SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo
Probab=54.88 E-value=24 Score=26.44 Aligned_cols=31 Identities=13% Similarity=0.201 Sum_probs=21.3
Q ss_pred cceeeeeecCCCCCHHHHHHHHHHHHHHHHH
Q psy14699 8 VNIVPVIAKADCLTRKEIQRLKKKVMDEIKQ 38 (195)
Q Consensus 8 VNIIPVIaKADtLT~~El~~~K~~I~~~l~~ 38 (195)
.++|-|+.|+|.............+.+.+..
T Consensus 105 ~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~ 135 (164)
T cd04171 105 KRGLVVLTKADLVDEDWLELVEEEIRELLAG 135 (164)
T ss_pred CcEEEEEECccccCHHHHHHHHHHHHHHHHh
Confidence 3788889999987766555555566665554
No 26
>cd01889 SelB_euk SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk
Probab=54.05 E-value=25 Score=28.09 Aligned_cols=31 Identities=19% Similarity=0.328 Sum_probs=23.4
Q ss_pred ccceeeeeecCCCCCHHHHHHHHHHHHHHHH
Q psy14699 7 KVNIVPVIAKADCLTRKEIQRLKKKVMDEIK 37 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~~K~~I~~~l~ 37 (195)
.+++|-|+.|.|.++.++.......+.+.+.
T Consensus 120 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~ 150 (192)
T cd01889 120 CKKLIVVLNKIDLIPEEERERKIEKMKKKLQ 150 (192)
T ss_pred CCCEEEEEECcccCCHHHHHHHHHHHHHHHH
Confidence 3588999999999988877666666665543
No 27
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2). eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel
Probab=53.69 E-value=38 Score=27.63 Aligned_cols=31 Identities=16% Similarity=0.165 Sum_probs=23.4
Q ss_pred cceeeeeecCCCCCHHHHHHHHHHHHHHHHH
Q psy14699 8 VNIVPVIAKADCLTRKEIQRLKKKVMDEIKQ 38 (195)
Q Consensus 8 VNIIPVIaKADtLT~~El~~~K~~I~~~l~~ 38 (195)
.++|-|+.|.|.....+.....+.+.+.+..
T Consensus 138 ~~iiivvNK~Dl~~~~~~~~~~~~i~~~~~~ 168 (203)
T cd01888 138 KHIIIVQNKIDLVKEEQALENYEQIKKFVKG 168 (203)
T ss_pred CcEEEEEEchhccCHHHHHHHHHHHHHHHhc
Confidence 3678899999998877776666677666654
No 28
>PLN02734 glycyl-tRNA synthetase
Probab=52.39 E-value=26 Score=35.21 Aligned_cols=53 Identities=19% Similarity=0.300 Sum_probs=36.5
Q ss_pred HhhhCCCceEEE--ecCe--eeeeCCeeeeeccCCCeeee----ecCCCCCchHHHHHHHH
Q psy14699 62 RQLKEAVPFAVC--GANT--VLEVGGNKVRGRQYPWGVVE----VENPEHCDFTKLRTMLV 114 (195)
Q Consensus 62 ~~l~~~~PFaVv--gs~~--~~~~~g~~vrgR~YpWG~ve----Ven~~HsDF~~LR~~Li 114 (195)
...+..+|||+. |..- .+...+-..|.|.|.=.-+| .++..|..|....+..+
T Consensus 268 ~~~~~klPF~~AQIGk~FRNEIsPR~gl~R~REF~qaEiE~Fv~P~~k~h~~f~~v~~~~l 328 (684)
T PLN02734 268 YYNGGKLPFAAAQIGQAFRNEISPRQGLLRVREFTLAEIEHFVDPEDKSHPKFSEVADLEF 328 (684)
T ss_pred HhcCCCCCeeeeeccHhhhcccCcccceeeechhhhhhhheecCcccccccchhhhhhhhh
Confidence 345789999984 4321 22233457899999876555 44778999988888765
No 29
>PRK13793 nicotinamide-nucleotide adenylyltransferase; Provisional
Probab=52.25 E-value=46 Score=28.29 Aligned_cols=100 Identities=19% Similarity=0.203 Sum_probs=53.7
Q ss_pred ceeeeeecCC-------CCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHHHHhhhCCCceEEEecCeeeee
Q psy14699 9 NIVPVIAKAD-------CLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQVRQLKEAVPFAVCGANTVLEV 81 (195)
Q Consensus 9 NIIPVIaKAD-------tLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~~~~l~~~~PFaVvgs~~~~~~ 81 (195)
.||-+|+=|+ =+|-.|...+=..-..+. .+.++|-.|..|...+.- -....+..+| +|++++..+..
T Consensus 33 evII~IGSA~~s~t~~NPFTa~ER~~MI~~aL~e~--~~~rv~~ipi~D~~~~~~---Wv~~V~~~v~-~v~~~n~~V~~ 106 (196)
T PRK13793 33 YVILALGSAQMERNIKNPFLAIEREQMILSNFSLD--EQKRIRFVHVVDVYNDEK---WVKQVKSLVN-GVIEPNSKVGL 106 (196)
T ss_pred EEEEEEccCCCCCCCCCCCCHHHHHHHHHHhcchh--hcceEEEEecCCccchhH---HHHHHHHhch-hhccCCCccee
Confidence 4566666554 477777765533333222 456777666533211111 1222333444 34444443322
Q ss_pred C-----CeeeeeccCC-CeeeeecCC-CCCchHHHHHHHH
Q psy14699 82 G-----GNKVRGRQYP-WGVVEVENP-EHCDFTKLRTMLV 114 (195)
Q Consensus 82 ~-----g~~vrgR~Yp-WG~veVen~-~HsDF~~LR~~Li 114 (195)
- ......|.|| ||.+++.+. .--.=+.+|+.++
T Consensus 107 ~g~~k~e~s~~l~~fpew~~v~~~~~r~~~SaT~IR~~~~ 146 (196)
T PRK13793 107 IGHFKDESSYYLRLFPEWVMVELDSLKDSISATPMREAYY 146 (196)
T ss_pred ecccccCceEEEEeCCCCceeecccccCccchHHHHHHHH
Confidence 1 2336789998 999998764 3345567777776
No 30
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=52.19 E-value=20 Score=29.15 Aligned_cols=17 Identities=24% Similarity=0.032 Sum_probs=14.4
Q ss_pred cceeeeeecCCCCCHHH
Q psy14699 8 VNIVPVIAKADCLTRKE 24 (195)
Q Consensus 8 VNIIPVIaKADtLT~~E 24 (195)
.++|-|++|+|.+.+++
T Consensus 108 ~~~ilV~nK~D~~~~~~ 124 (197)
T cd04104 108 KKFYFVRTKVDRDLSNE 124 (197)
T ss_pred CCEEEEEecccchhhhh
Confidence 57899999999987655
No 31
>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.
Probab=51.28 E-value=1.4e+02 Score=28.30 Aligned_cols=66 Identities=18% Similarity=0.323 Sum_probs=40.5
Q ss_pred ccceeeee-ecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHH-HHHHhhhCCCceEEEecCeeee
Q psy14699 7 KVNIVPVI-AKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYK-EQVRQLKEAVPFAVCGANTVLE 80 (195)
Q Consensus 7 ~VNIIPVI-aKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~-~~~~~l~~~~PFaVvgs~~~~~ 80 (195)
.|=||||+ .+.+ .++....=..|.+.|+.+||.+.- . +.+.... .....-...+||.||-+...++
T Consensus 284 qV~Iipi~~~~~~---~~~~~~~A~~l~~~Lr~~girv~l-D----~r~~s~gkk~k~Ae~~GvP~~IiIG~~Ele 351 (472)
T TIGR00408 284 QVVIIPIIFKKKE---NEKVMEAAREVRSRLKKAGFRVHI-D----DRDNRPGRKFYQWEIKGIPLRIEVGPNDIE 351 (472)
T ss_pred eEEEEEccCCCCC---CHHHHHHHHHHHHHHHHCCCEEEE-E----CCCCCHHHHHHHHHHCCCCEEEEECcchhh
Confidence 46789985 3333 256667777899999999999852 1 1111222 2223346789998876655443
No 32
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=50.27 E-value=1e+02 Score=29.57 Aligned_cols=40 Identities=20% Similarity=0.324 Sum_probs=33.9
Q ss_pred CccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccC
Q psy14699 6 NKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYP 45 (195)
Q Consensus 6 ~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~ 45 (195)
..-|.|-||+|+|...++++...-+.|...+.-...++|.
T Consensus 102 gi~~giivltk~D~~d~~r~e~~i~~Il~~l~l~~~~i~~ 141 (447)
T COG3276 102 GIKNGIIVLTKADRVDEARIEQKIKQILADLSLANAKIFK 141 (447)
T ss_pred CCCceEEEEeccccccHHHHHHHHHHHHhhcccccccccc
Confidence 3458899999999999999999999999998866667754
No 33
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=49.68 E-value=16 Score=28.52 Aligned_cols=20 Identities=15% Similarity=0.177 Sum_probs=16.7
Q ss_pred ccceeeeeecCCCCCHHHHH
Q psy14699 7 KVNIVPVIAKADCLTRKEIQ 26 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~ 26 (195)
.+++|-||.|+|.+.++++.
T Consensus 39 ~~p~ilVlNKiDl~~~~~~~ 58 (157)
T cd01858 39 HKHLIFVLNKCDLVPTWVTA 58 (157)
T ss_pred CCCEEEEEEchhcCCHHHHH
Confidence 47899999999999877653
No 34
>cd01884 EF_Tu EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=49.21 E-value=56 Score=26.92 Aligned_cols=31 Identities=26% Similarity=0.398 Sum_probs=20.5
Q ss_pred eeeeeecCCCCCHHHHH-HHHHHHHHHHHHcC
Q psy14699 10 IVPVIAKADCLTRKEIQ-RLKKKVMDEIKQNG 40 (195)
Q Consensus 10 IIPVIaKADtLT~~El~-~~K~~I~~~l~~~~ 40 (195)
+|-||.|.|....+++. ..++.|.+.|...|
T Consensus 121 iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g 152 (195)
T cd01884 121 IVVFLNKADMVDDEELLELVEMEVRELLSKYG 152 (195)
T ss_pred EEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhc
Confidence 67788898887655543 35666777766544
No 35
>cd01849 YlqF_related_GTPase YlqF-related GTPases. These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.
Probab=48.50 E-value=26 Score=27.21 Aligned_cols=22 Identities=18% Similarity=0.425 Sum_probs=17.8
Q ss_pred CccceeeeeecCCCCCHHHHHH
Q psy14699 6 NKVNIVPVIAKADCLTRKEIQR 27 (195)
Q Consensus 6 ~~VNIIPVIaKADtLT~~El~~ 27 (195)
...++|.|+.|+|.++.+++..
T Consensus 28 ~~~p~IiVlNK~Dl~~~~~~~~ 49 (155)
T cd01849 28 KGKKLILVLNKADLVPKEVLRK 49 (155)
T ss_pred CCCCEEEEEechhcCCHHHHHH
Confidence 3578999999999988876544
No 36
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=47.92 E-value=24 Score=25.98 Aligned_cols=28 Identities=21% Similarity=0.427 Sum_probs=21.2
Q ss_pred ccceeeeeecCCCC-CHHHHHHHHHHHHH
Q psy14699 7 KVNIVPVIAKADCL-TRKEIQRLKKKVMD 34 (195)
Q Consensus 7 ~VNIIPVIaKADtL-T~~El~~~K~~I~~ 34 (195)
.++++.|+.|+|.. +++++..+...+..
T Consensus 111 ~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~ 139 (168)
T cd04163 111 KTPVILVLNKIDLVKDKEDLLPLLEKLKE 139 (168)
T ss_pred CCCEEEEEEchhccccHHHHHHHHHHHHh
Confidence 47899999999998 67777666655543
No 37
>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B.
Probab=47.44 E-value=49 Score=29.60 Aligned_cols=43 Identities=19% Similarity=0.374 Sum_probs=28.4
Q ss_pred cCCCeeeeecCCCCCchHHHHHHHHhhHHHHHHHhHHHHHHhhHHH
Q psy14699 90 QYPWGVVEVENPEHCDFTKLRTMLVTHMQDLQEVTQEIHYENYRSE 135 (195)
Q Consensus 90 ~YpWG~veVen~~HsDF~~LR~~LithlqdLkd~T~~~~YE~yR~~ 135 (195)
-|-||.-+ +++-+|..-==..|+.++-++-+.= -.+|+.||..
T Consensus 87 L~~WG~~e--dddl~DIsDklgvLl~e~ge~e~~~-a~~~d~yR~~ 129 (271)
T PF13805_consen 87 LSEWGEQE--DDDLSDISDKLGVLLYEIGELEDQY-ADRLDQYRIH 129 (271)
T ss_dssp HHHHHTTS---HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
T ss_pred HHHHhcCC--CchHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 46899664 5566666554445557777776544 4689999984
No 38
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=45.80 E-value=25 Score=26.96 Aligned_cols=34 Identities=24% Similarity=0.384 Sum_probs=23.8
Q ss_pred ccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCcc
Q psy14699 7 KVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIY 44 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy 44 (195)
..++|-|+.|+|.+.++++... .+.+...+++++
T Consensus 42 ~k~~iivlNK~DL~~~~~~~~~----~~~~~~~~~~ii 75 (141)
T cd01857 42 RKKNILLLNKADLLTEEQRKAW----AEYFKKEGIVVV 75 (141)
T ss_pred CCcEEEEEechhcCCHHHHHHH----HHHHHhcCCeEE
Confidence 5689999999999887765433 334555666655
No 39
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=43.00 E-value=42 Score=31.89 Aligned_cols=31 Identities=16% Similarity=0.197 Sum_probs=26.3
Q ss_pred cceeeeeecCCCCCHHHHHHHHHHHHHHHHH
Q psy14699 8 VNIVPVIAKADCLTRKEIQRLKKKVMDEIKQ 38 (195)
Q Consensus 8 VNIIPVIaKADtLT~~El~~~K~~I~~~l~~ 38 (195)
-++|.||.|.|..+.+++......|.+.+..
T Consensus 172 ~~iIVvlNKiDlv~~~~~~~~~~ei~~~l~~ 202 (460)
T PTZ00327 172 KHIIILQNKIDLVKEAQAQDQYEEIRNFVKG 202 (460)
T ss_pred CcEEEEEecccccCHHHHHHHHHHHHHHHHh
Confidence 4789999999999988888888888877755
No 40
>PF06696 Strep_SA_rep: Streptococcal surface antigen repeat; InterPro: IPR009578 This family consists of a number of ~25 residue long repeats found commonly in Streptococcal surface antigens although one copy is present in the HPSR2-heavy chain potential motor protein of Giardia lamblia (Giardia intestinalis) (Q24984 from SWISSPROT). This family is often found in conjunction with IPR001899 from INTERPRO.; PDB: 3IOX_A 3IPK_A 2WD6_B 1JMM_A.
Probab=42.04 E-value=70 Score=18.58 Aligned_cols=22 Identities=32% Similarity=0.354 Sum_probs=16.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q psy14699 162 EKDRILQEKEAELQRMQEMIAK 183 (195)
Q Consensus 162 e~~~~l~~ke~el~r~~em~~~ 183 (195)
+.+.+|-+.++||.|.|.-.+.
T Consensus 2 ~Yqakla~YqaeLa~vqk~na~ 23 (25)
T PF06696_consen 2 DYQAKLAQYQAELARVQKANAD 23 (25)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHhhc
Confidence 4577888889999888876554
No 41
>KOG3088|consensus
Probab=40.83 E-value=23 Score=32.21 Aligned_cols=26 Identities=38% Similarity=0.521 Sum_probs=16.5
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHH
Q psy14699 158 ANNLEKDRILQEKEAELQRMQEMIAK 183 (195)
Q Consensus 158 ~~~~e~~~~l~~ke~el~r~~em~~~ 183 (195)
.+...++..|++||+||.|.+..++.
T Consensus 67 ~eL~~rqeEL~Rke~ELdRREr~~a~ 92 (313)
T KOG3088|consen 67 AELLKKQEELRRKEQELDRRERALAR 92 (313)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHhh
Confidence 34455666777777777666655554
No 42
>PF06409 NPIP: Nuclear pore complex interacting protein (NPIP); InterPro: IPR009443 This family consists of a series of primate specific nuclear pore complex interacting protein (NPIP) sequences. The function of this family is unknown but is well conserved from African apes to humans [].
Probab=39.74 E-value=67 Score=28.45 Aligned_cols=63 Identities=29% Similarity=0.362 Sum_probs=38.0
Q ss_pred HHHh--HHHHHHhhHHHHHhcCCCCCCCCCcccCCCCccccchhHHHHHHHHHH-------HHHHHHHHHHHHHHHHHhh
Q psy14699 121 QEVT--QEIHYENYRSERLVKGVPVPKRTVSLTEDSKPTANNLEKDRILQEKEA-------ELQRMQEMIAKMQAQMQQA 191 (195)
Q Consensus 121 kd~T--~~~~YE~yR~~~L~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~ke~-------el~r~~em~~~~q~q~~~~ 191 (195)
.++| -+.||+-|-.++-..-.. ..++| -|-+..|||++|-+.|+ |+.--..|+..||++.+..
T Consensus 103 mkVt~kvn~h~kI~g~rKtA~~~~-----rKl~~---ke~E~~EKErqlSeAeEn~kl~mkei~tY~~~fQ~~Qel~~Ra 174 (265)
T PF06409_consen 103 MKVTTKVNSHYKINGKRKTAKKHL-----RKLSM---KECEHAEKERQLSEAEENGKLAMKEIHTYKQMFQRMQELQQRA 174 (265)
T ss_pred HHHHHHhhhHHHHhhHHHhhHHHH-----HHHHH---HHHHHHHHHhhhhhhhhccchHHHHHHHHHHHHHHHHHHHHHH
Confidence 3788 678999887554332210 02223 24456778887777665 4444556777888877654
No 43
>TIGR00436 era GTP-binding protein Era. Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.
Probab=39.68 E-value=1.9e+02 Score=24.69 Aligned_cols=55 Identities=13% Similarity=0.177 Sum_probs=38.7
Q ss_pred hhhCCCceEEEecCeeeeeCCeeeeeccCCCeeeeecCCCCCchHHHHHHHH-hhHHHHHHHhHH
Q psy14699 63 QLKEAVPFAVCGANTVLEVGGNKVRGRQYPWGVVEVENPEHCDFTKLRTMLV-THMQDLQEVTQE 126 (195)
Q Consensus 63 ~l~~~~PFaVvgs~~~~~~~g~~vrgR~YpWG~veVen~~HsDF~~LR~~Li-thlqdLkd~T~~ 126 (195)
.+...+||++--....++.... +.-+-..+|-|+.+.| +.++| .+=+-||.....
T Consensus 195 ~~~~e~p~~~~~~~~~~~~~~~---~~~~i~~~i~v~~~s~------k~iiig~~g~~ik~i~~~ 250 (270)
T TIGR00436 195 YTKEEIPHSVRVEIERKSFNEK---GLLKIHALISVERESQ------KKIIIGKNGSMIKAIGIA 250 (270)
T ss_pred hcccccCceEEEEEEEEEECCC---CeEEEEEEEEECcCCc------eeEEEcCCcHHHHHHHHH
Confidence 5679999999877666654221 1234557788999998 77788 777777777653
No 44
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=39.21 E-value=99 Score=28.89 Aligned_cols=64 Identities=19% Similarity=0.252 Sum_probs=39.2
Q ss_pred ccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHH-HHhhhCCCceEEEecCeeee
Q psy14699 7 KVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQ-VRQLKEAVPFAVCGANTVLE 80 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~-~~~l~~~~PFaVvgs~~~~~ 80 (195)
.|=|||+ .+.+ ++....=..|...|+.+||.+.- . +.++..... ...-...+||.||-+...+.
T Consensus 347 qV~Iipi-~~~~----~~~~~~a~~i~~~L~~~Gi~v~~-D----~~~~~lg~ki~~a~~~giP~~iiVG~~e~~ 411 (439)
T PRK12325 347 KVGIINL-KQGD----EACDAACEKLYAALSAAGIDVLY-D----DTDERPGAKFATMDLIGLPWQIIVGPKGLA 411 (439)
T ss_pred EEEEEec-CCCC----HHHHHHHHHHHHHHHHCCCEEEE-E----CCCCCHhHHHHHHHHcCCCEEEEECCcccc
Confidence 4567887 2222 56777888999999999999862 1 112222222 22335679998876655443
No 45
>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1). This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).
Probab=39.12 E-value=37 Score=27.37 Aligned_cols=43 Identities=7% Similarity=0.100 Sum_probs=31.4
Q ss_pred cceeeeeecCCCCCHHHHHHH----HHHHHHHHHHcCCCccCCCCCC
Q psy14699 8 VNIVPVIAKADCLTRKEIQRL----KKKVMDEIKQNGITIYPLPDCD 50 (195)
Q Consensus 8 VNIIPVIaKADtLT~~El~~~----K~~I~~~l~~~~I~iy~fp~~~ 50 (195)
-|+|.|+.++|.|...++..+ +..++..++..|-..+.|....
T Consensus 117 ~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r~~~f~~~~ 163 (196)
T cd01852 117 DHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCGGRYVAFNNKA 163 (196)
T ss_pred hcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhCCeEEEEeCCC
Confidence 478899999999987666655 4566777777788877776543
No 46
>PRK14894 glycyl-tRNA synthetase; Provisional
Probab=38.93 E-value=75 Score=31.15 Aligned_cols=59 Identities=19% Similarity=0.222 Sum_probs=36.7
Q ss_pred CccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCC-CccCCCCCCCCccHHHH-HHHHhhhCCCceEEEec
Q psy14699 6 NKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGI-TIYPLPDCDSDEDEDYK-EQVRQLKEAVPFAVCGA 75 (195)
Q Consensus 6 ~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I-~iy~fp~~~~dede~~~-~~~~~l~~~~PFaVvgs 75 (195)
-+|-||||..+.+- +..+=+.|.+.|..+|| .+. + |+.+.+. ..-+.-...+||+||-.
T Consensus 435 vQVaVLPLs~~~~~-----l~eyAkeI~~~L~~~Gi~rv~-~-----DdsesIGKKyRraDeiGiPy~ITVD 495 (539)
T PRK14894 435 IKVAVFPLKRNHEG-----LVATAKAVRRQLQVGGRMRTV-Y-----DDTGAIGKLYRRQDEIGTPFCITVD 495 (539)
T ss_pred ceEEEEeccccccc-----hHHHHHHHHHHHHHCCCceEE-E-----cCCCCHhHHHHhhhccCCCEEEEEe
Confidence 46889999864432 55667889999999998 654 1 1111111 11222246899999873
No 47
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=38.72 E-value=1.1e+02 Score=27.52 Aligned_cols=32 Identities=28% Similarity=0.484 Sum_probs=22.1
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy14699 159 NNLEKDRILQEKEAELQRMQEMIAKMQAQMQQ 190 (195)
Q Consensus 159 ~~~e~~~~l~~ke~el~r~~em~~~~q~q~~~ 190 (195)
+....+++|..++.||..+.|-+++.++.++.
T Consensus 194 eke~~~r~l~~~~~ELe~~~EeL~~~Eke~~e 225 (269)
T PF05278_consen 194 EKEEKDRKLELKKEELEELEEELKQKEKEVKE 225 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556777777777777777777777766654
No 48
>KOG1490|consensus
Probab=37.03 E-value=21 Score=35.06 Aligned_cols=39 Identities=13% Similarity=0.384 Sum_probs=34.3
Q ss_pred ceeeeeecCCCCCHHHHHHHHHHHHHHHHHcC-CCccCCC
Q psy14699 9 NIVPVIAKADCLTRKEIQRLKKKVMDEIKQNG-ITIYPLP 47 (195)
Q Consensus 9 NIIPVIaKADtLT~~El~~~K~~I~~~l~~~~-I~iy~fp 47 (195)
-+|-|++|.|.|.++.+-.-++.+.++|.+-| +++++-.
T Consensus 283 ~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS 322 (620)
T KOG1490|consen 283 VTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTS 322 (620)
T ss_pred ceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEec
Confidence 37889999999999999999999999998876 8888653
No 49
>PF04914 DltD_C: DltD C-terminal region; InterPro: IPR006998 The dlt operon (dltA to dltD) of Lactobacillus rhamnosus 7469 encodes four proteins responsible for the esterification of lipoteichoic acid (LTA) by D-alanine. These esters play an important role in controlling the net anionic charge of the poly (GroP) moiety of LTA. DltA and DltC encode the D-alanine-D-alanyl carrier protein ligase (Dcl) and D-alanyl carrier protein (Dcp), respectively. Whereas the functions of DltA and DltC are defined, the functions of DltB and DltD are unknown. In vitro assays showed that DltD bound Dcp for ligation with D-alanine by Dcl in the presence of ATP. In contrast, the homologue of Dcp, the Escherichia coli acyl carrier protein (ACP), involved in fatty acid biosynthesis, was not bound to DltD and thus was not ligated with D-alanine. DltD also catalyzed the hydrolysis of the mischarged D-alanyl-ACP. The hydrophobic N-terminal sequence of DltD was required for anchoring the protein in the membrane. It is hypothesized that this membrane-associated DltD facilitates the binding of Dcp and Dcl for ligation of Dcp with D-alanine and that the resulting D-alanyl-Dcp is translocated to the primary site of D-alanylation []. These sequences contain the C-terminal region of DltD.; PDB: 3BMA_C.
Probab=36.67 E-value=38 Score=26.86 Aligned_cols=41 Identities=29% Similarity=0.405 Sum_probs=26.5
Q ss_pred eeeeeec-CC--CCCHHHHHHHHHHHHHHHHHcCCCccCCCCCC
Q psy14699 10 IVPVIAK-AD--CLTRKEIQRLKKKVMDEIKQNGITIYPLPDCD 50 (195)
Q Consensus 10 IIPVIaK-AD--tLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~ 50 (195)
|+||=+| .| .|+.++++.+=++|+..+..+|.++++|.+.+
T Consensus 56 i~PvNg~wydytG~~~~~r~~~y~kI~~~~~~~gf~v~D~s~~~ 99 (130)
T PF04914_consen 56 IQPVNGKWYDYTGLSKEMRQEYYKKIKYQLKSQGFNVADFSDDE 99 (130)
T ss_dssp E----HHHHHHTT--HHHHHHHHHHHHHHHHTTT--EEE-TTGT
T ss_pred ecCCcHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCEEEecccCC
Confidence 4577666 33 37899999999999999999999999987543
No 50
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=35.06 E-value=68 Score=25.59 Aligned_cols=30 Identities=20% Similarity=0.461 Sum_probs=23.8
Q ss_pred CccceeeeeecCCCCCHHHHHHHHHHHHHHH
Q psy14699 6 NKVNIVPVIAKADCLTRKEIQRLKKKVMDEI 36 (195)
Q Consensus 6 ~~VNIIPVIaKADtLT~~El~~~K~~I~~~l 36 (195)
..+++|-||.|.|.+ ..++....+.+.+.+
T Consensus 121 ~~~p~ivvlNK~D~~-~~~~~~~~~~~~~~l 150 (188)
T PF00009_consen 121 LGIPIIVVLNKMDLI-EKELEEIIEEIKEKL 150 (188)
T ss_dssp TT-SEEEEEETCTSS-HHHHHHHHHHHHHHH
T ss_pred cccceEEeeeeccch-hhhHHHHHHHHHHHh
Confidence 346699999999999 778888888888666
No 51
>cd00880 Era_like Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se
Probab=33.84 E-value=56 Score=23.46 Aligned_cols=25 Identities=24% Similarity=0.302 Sum_probs=18.8
Q ss_pred CccceeeeeecCCCCCHHHHHHHHH
Q psy14699 6 NKVNIVPVIAKADCLTRKEIQRLKK 30 (195)
Q Consensus 6 ~~VNIIPVIaKADtLT~~El~~~K~ 30 (195)
...++|-|+.|+|..++.+......
T Consensus 103 ~~~~~ivv~nK~D~~~~~~~~~~~~ 127 (163)
T cd00880 103 RGKPVLLVLNKIDLLPEEEEEELLE 127 (163)
T ss_pred cCCeEEEEEEccccCChhhHHHHHH
Confidence 4667889999999888877765443
No 52
>COG1084 Predicted GTPase [General function prediction only]
Probab=33.75 E-value=35 Score=31.56 Aligned_cols=43 Identities=23% Similarity=0.397 Sum_probs=31.2
Q ss_pred cceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCC
Q psy14699 8 VNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCD 50 (195)
Q Consensus 8 VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~ 50 (195)
.++|+||+|+|....+.+......+...-..-.+++.-+..|.
T Consensus 281 ~p~v~V~nK~D~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~ 323 (346)
T COG1084 281 APIVVVINKIDIADEEKLEEIEASVLEEGGEEPLKISATKGCG 323 (346)
T ss_pred CCeEEEEecccccchhHHHHHHHHHHhhccccccceeeeehhh
Confidence 5799999999999999998877776555544444555555443
No 53
>PRK12288 GTPase RsgA; Reviewed
Probab=33.71 E-value=1.1e+02 Score=27.88 Aligned_cols=39 Identities=15% Similarity=0.211 Sum_probs=26.3
Q ss_pred ccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCC
Q psy14699 7 KVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPL 46 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~f 46 (195)
.+++|=|+.|+|.+++.+..... .....+...|+++|..
T Consensus 150 ~i~~VIVlNK~DL~~~~~~~~~~-~~~~~y~~~g~~v~~v 188 (347)
T PRK12288 150 GIEPLIVLNKIDLLDDEGRAFVN-EQLDIYRNIGYRVLMV 188 (347)
T ss_pred CCCEEEEEECccCCCcHHHHHHH-HHHHHHHhCCCeEEEE
Confidence 46788899999999876643333 3334556678777643
No 54
>cd01859 MJ1464 MJ1464. This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.
Probab=33.62 E-value=1.2e+02 Score=23.15 Aligned_cols=21 Identities=19% Similarity=0.411 Sum_probs=16.4
Q ss_pred ccceeeeeecCCCCCHHHHHH
Q psy14699 7 KVNIVPVIAKADCLTRKEIQR 27 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~ 27 (195)
..++|-|+.|+|.++.++...
T Consensus 41 ~~p~iiv~NK~Dl~~~~~~~~ 61 (156)
T cd01859 41 GKKLLIVLNKADLVPKEVLEK 61 (156)
T ss_pred CCcEEEEEEhHHhCCHHHHHH
Confidence 468999999999987766543
No 55
>KOG3859|consensus
Probab=33.24 E-value=29 Score=31.92 Aligned_cols=49 Identities=24% Similarity=0.145 Sum_probs=31.7
Q ss_pred HHHhhHHHHHhcCCCCCCCCCcccCCCCccccchhHHHHHHHHHHHHHHHHHHH
Q psy14699 128 HYENYRSERLVKGVPVPKRTVSLTEDSKPTANNLEKDRILQEKEAELQRMQEMI 181 (195)
Q Consensus 128 ~YE~yR~~~L~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~ke~el~r~~em~ 181 (195)
-||.=|.+.+..+..+ +.+|.+.|.+.+.+++..|++.|.||.--++.+
T Consensus 323 t~eaKr~e~~~e~qrk-----Eee~rqmFvqrvkekE~elke~Ekel~~kf~~l 371 (406)
T KOG3859|consen 323 TYEAKRNEFLGELQRK-----EEEMRQMFVQRVKEKEAELKEAEKELHEKFDRL 371 (406)
T ss_pred HHHHHHHHHHHHHHHh-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4777777777765443 344555577777888888888887774444333
No 56
>KOG4552|consensus
Probab=32.67 E-value=1.1e+02 Score=26.84 Aligned_cols=84 Identities=15% Similarity=0.304 Sum_probs=49.8
Q ss_pred chHHHHHHHHhhHHHHHHHhHHHHHHhh---HHHHHhcCCCC-------CCCCCccc-CCCCccccchhHHHHHHHHHHH
Q psy14699 105 DFTKLRTMLVTHMQDLQEVTQEIHYENY---RSERLVKGVPV-------PKRTVSLT-EDSKPTANNLEKDRILQEKEAE 173 (195)
Q Consensus 105 DF~~LR~~LithlqdLkd~T~~~~YE~y---R~~~L~~~~~~-------~~~~~~~~-~~~~~~~~~~e~~~~l~~ke~e 173 (195)
|=..+|+.|+.-+.||--...+ +-|.. |.+++.+.|.. ...++++. +.. ...+-.+.+..++..|++
T Consensus 5 ~~~StrerLL~~~dDlE~i~ke-lie~l~~~~~qk~l~~gE~v~il~Ll~~kd~ef~~llk-la~eq~k~e~~m~~Lea~ 82 (272)
T KOG4552|consen 5 DERSTRERLLESADDLEHIVKE-LIETLINRDKQKMLKNGETVNILKLLDSKDDEFKTLLK-LAPEQQKREQLMRTLEAH 82 (272)
T ss_pred ccccHHHHHHHHhhHHHHHHHH-HHHHHHhhhHHHHHhcchHHHHHHHHHhccHHHHHHHH-HhHhHHHHHHHHHHHHHH
Confidence 3445778787667776655543 33433 45555555431 11111111 111 112225567788999999
Q ss_pred HHHHHHHHHHHHHHHHh
Q psy14699 174 LQRMQEMIAKMQAQMQQ 190 (195)
Q Consensus 174 l~r~~em~~~~q~q~~~ 190 (195)
.+.+-+.+.|+|++|+.
T Consensus 83 VEkrD~~IQqLqk~LK~ 99 (272)
T KOG4552|consen 83 VEKRDEVIQQLQKNLKS 99 (272)
T ss_pred HHHhHHHHHHHHHHHHH
Confidence 99999999999999985
No 57
>KOG2298|consensus
Probab=32.07 E-value=46 Score=32.46 Aligned_cols=49 Identities=16% Similarity=0.235 Sum_probs=33.1
Q ss_pred hCCCceEEEecCe----eeeeCCeeeeeccCCCe----eeeecCCCCCchHHHHHHH
Q psy14699 65 KEAVPFAVCGANT----VLEVGGNKVRGRQYPWG----VVEVENPEHCDFTKLRTML 113 (195)
Q Consensus 65 ~~~~PFaVvgs~~----~~~~~g~~vrgR~YpWG----~veVen~~HsDF~~LR~~L 113 (195)
+..+|||+-.-.. .+...+-.+|+|.|+-. .|+.+|..|.-|....++=
T Consensus 205 ~~KlPFA~AqiG~~fRNEISpRsGLlRvrEF~maEIEHFvdP~~K~h~kF~~V~~~~ 261 (599)
T KOG2298|consen 205 QGKLPFASAQIGKSFRNEISPRSGLLRVREFTMAEIEHFVDPLLKSHPKFSLVAAEK 261 (599)
T ss_pred CCCCcchHHHhchHhhhccCcccCceeEEEeehHHhhccCCCCCCCChhhhhhhhhh
Confidence 5899999743222 12223447899999874 4567899999888776643
No 58
>PLN02595 cytochrome c oxidase subunit VI protein
Probab=31.75 E-value=21 Score=27.55 Aligned_cols=11 Identities=36% Similarity=1.359 Sum_probs=9.6
Q ss_pred eeeeccCCCee
Q psy14699 85 KVRGRQYPWGV 95 (195)
Q Consensus 85 ~vrgR~YpWG~ 95 (195)
.+|...||||-
T Consensus 80 rIRtK~FPWG~ 90 (102)
T PLN02595 80 HIRNKEFPWGP 90 (102)
T ss_pred eeecCCCCCCC
Confidence 58899999995
No 59
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=31.00 E-value=1.2e+02 Score=21.96 Aligned_cols=32 Identities=16% Similarity=0.337 Sum_probs=27.1
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14699 156 PTANNLEKDRILQEKEAELQRMQEMIAKMQAQ 187 (195)
Q Consensus 156 ~~~~~~e~~~~l~~ke~el~r~~em~~~~q~q 187 (195)
...-+.+.+..|+..|+++++-+++|++...+
T Consensus 50 i~~s~eeq~~~i~~Le~~i~~k~~~L~~~~~~ 81 (83)
T PF07544_consen 50 IDRSVEEQEEEIEELEEQIRKKREVLQKFKER 81 (83)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44456789999999999999999999998764
No 60
>PF15047 DUF4533: Protein of unknown function (DUF4533)
Probab=30.74 E-value=3.2e+02 Score=23.88 Aligned_cols=74 Identities=19% Similarity=0.209 Sum_probs=42.8
Q ss_pred hHHHHHHHHhhHHHHHHHhHHHHHHhhHHHHHhcCCCCCCCCCcccCCCCccccchhHHHHHHHHHHHHHHHHHHHHHHH
Q psy14699 106 FTKLRTMLVTHMQDLQEVTQEIHYENYRSERLVKGVPVPKRTVSLTEDSKPTANNLEKDRILQEKEAELQRMQEMIAKMQ 185 (195)
Q Consensus 106 F~~LR~~LithlqdLkd~T~~~~YE~yR~~~L~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~ke~el~r~~em~~~~q 185 (195)
+..+-..++-||+||-..|+ .+.|-|-+..=.++.. ..|+ +...-|| -+..+=.-++.||.++++.+
T Consensus 5 Liqaak~ff~~~qd~~s~TN-~L~elfN~~m~tqi~~-------i~mk----Ed~~IKd-~~eqmi~~~kemQ~~vd~kd 71 (225)
T PF15047_consen 5 LIQAAKTFFFHMQDLFSFTN-TLTELFNSHMNTQILL-------IAMK----EDSNIKD-NFEQMIKIFKEMQSVVDAKD 71 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHHHHhccccceee-------eeec----ccCcHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 44555667799999999994 5777665532222211 1111 1111122 22233333688888899999
Q ss_pred HHHHhhc
Q psy14699 186 AQMQQAQ 192 (195)
Q Consensus 186 ~q~~~~~ 192 (195)
++||..+
T Consensus 72 ~~mq~e~ 78 (225)
T PF15047_consen 72 KEMQKEP 78 (225)
T ss_pred HHHhhcc
Confidence 9998763
No 61
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=30.62 E-value=88 Score=29.07 Aligned_cols=34 Identities=24% Similarity=0.358 Sum_probs=26.7
Q ss_pred ceeeeeecCCCCCHHHHHHHH-HHHHHHHHHcCCC
Q psy14699 9 NIVPVIAKADCLTRKEIQRLK-KKVMDEIKQNGIT 42 (195)
Q Consensus 9 NIIPVIaKADtLT~~El~~~K-~~I~~~l~~~~I~ 42 (195)
-|||.++|+|...++|+..+- .-|++.|.++|.+
T Consensus 130 ~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f~ 164 (394)
T COG0050 130 YIVVFLNKVDMVDDEELLELVEMEVRELLSEYGFP 164 (394)
T ss_pred EEEEEEecccccCcHHHHHHHHHHHHHHHHHcCCC
Confidence 579999999999988877665 5677777876644
No 62
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=30.61 E-value=1.2e+02 Score=29.85 Aligned_cols=60 Identities=23% Similarity=0.403 Sum_probs=37.2
Q ss_pred ccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHH-HHhhhCCCceEEEecCeee
Q psy14699 7 KVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQ-VRQLKEAVPFAVCGANTVL 79 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~-~~~l~~~~PFaVvgs~~~~ 79 (195)
.|-|||+ .++....=..|.+.|+.+||.+.- . +.+...... ...-...+||.||-+...+
T Consensus 501 qV~IIpi--------~e~~~~~A~eIa~~Lr~~GirV~l-D----dr~~slgkKir~A~~~GiP~iIVIG~kEl 561 (613)
T PRK03991 501 QVRVIPV--------SERHLDYAEEVADKLEAAGIRVDV-D----DRDESLGKKIRDAGKEWIPYVVVIGDKEM 561 (613)
T ss_pred eEEEEEe--------CHHHHHHHHHHHHHHHhCCCEEEE-E----CCCCCHHHHHHHHHHcCCCEEEEECcchh
Confidence 4668887 145667778899999999998852 1 112222222 2223578899887654443
No 63
>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=30.33 E-value=53 Score=30.01 Aligned_cols=39 Identities=21% Similarity=0.445 Sum_probs=26.5
Q ss_pred CccCCccceeeee----ecCCCCCHHHHHHHHHHHHHHHHHcCCCcc
Q psy14699 2 KQLHNKVNIVPVI----AKADCLTRKEIQRLKKKVMDEIKQNGITIY 44 (195)
Q Consensus 2 k~L~~~VNIIPVI----aKADtLT~~El~~~K~~I~~~l~~~~I~iy 44 (195)
+.+.-+||+||.- +|....+++++..|++. |..+||.+.
T Consensus 281 ~~l~~~VnLIPynp~~~~~~~~ps~e~i~~f~~~----L~~~Gi~vt 323 (345)
T PRK14457 281 RGFQSHVNLIPYNPIDEVEFQRPSPKRIQAFQRV----LEQRGVAVS 323 (345)
T ss_pred hcCCCeEEEecCCCCCCCCCCCCCHHHHHHHHHH----HHHCCCeEE
Confidence 3455578888883 35566788888776543 566788764
No 64
>PRK01631 hypothetical protein; Provisional
Probab=29.60 E-value=27 Score=25.56 Aligned_cols=46 Identities=22% Similarity=0.188 Sum_probs=31.2
Q ss_pred CCccCCccceeeeeecCCCCCHHHHHHHH-------HHHHHHHHH--cCCCccCC
Q psy14699 1 MKQLHNKVNIVPVIAKADCLTRKEIQRLK-------KKVMDEIKQ--NGITIYPL 46 (195)
Q Consensus 1 Mk~L~~~VNIIPVIaKADtLT~~El~~~K-------~~I~~~l~~--~~I~iy~f 46 (195)
|+.+=.+.|-+-=.+|+-.||++|...-+ ..|+..+.. .+|.|++.
T Consensus 1 m~~ii~RINeLakK~K~~gLT~eE~~Eq~~LR~eYl~~fR~~~~~~L~~i~ivD~ 55 (76)
T PRK01631 1 MKNILFRINELSKKEKATGLTVDEKQEQQMLRQNYTQTFRGSLDSILLNTKIVDQ 55 (76)
T ss_pred ChhHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCceeECC
Confidence 56666777888888999999999975432 223333322 58888864
No 65
>TIGR02475 CobW cobalamin biosynthesis protein CobW. A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).
Probab=29.57 E-value=62 Score=29.32 Aligned_cols=37 Identities=19% Similarity=0.389 Sum_probs=26.1
Q ss_pred eeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCC
Q psy14699 11 VPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPD 48 (195)
Q Consensus 11 IPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~ 48 (195)
+-|++|+|.++.+++..++..|+.... ...+|+.-..
T Consensus 177 ~IvlnK~Dl~~~~~l~~~~~~l~~~~~-~~a~i~~~~~ 213 (341)
T TIGR02475 177 LVILNKADLLDAAGLARVRAEIAAELP-RAVKIVEASH 213 (341)
T ss_pred EEEEeccccCCHHHHHHHHHHHHHhCC-CCCEEEEccc
Confidence 458999999999999998888765432 1235665443
No 66
>KOG1891|consensus
Probab=29.55 E-value=78 Score=27.99 Aligned_cols=36 Identities=25% Similarity=0.448 Sum_probs=28.2
Q ss_pred chHHHHHHHH-hhHHHHHHHhHHHHHHhhHHHHHhcCCC
Q psy14699 105 DFTKLRTMLV-THMQDLQEVTQEIHYENYRSERLVKGVP 142 (195)
Q Consensus 105 DF~~LR~~Li-thlqdLkd~T~~~~YE~yR~~~L~~~~~ 142 (195)
|+.-.-.||. -.+|+|-++. ..||.||...|.....
T Consensus 225 ~L~~y~~ml~~LfkqEl~~IV--k~YErYRrALilEknr 261 (271)
T KOG1891|consen 225 QLTEYEHMLMKLFKQELFDIV--KKYERYRRALILEKNR 261 (271)
T ss_pred hhhhHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHH
Confidence 4455567888 8999999887 4899999998876543
No 67
>cd00925 Cyt_c_Oxidase_VIa Cytochrome c oxidase subunit VIa. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIa is expressed in two tissue-specific isoforms in mammals but not fish. VIa-H is the heart and skeletal muscle isoform; VIa-L is the liver or non-muscle isoform. Mammalian VIa-H induces a slip in CcO (decrease in proton/electron stoichiometry) at high intramitochondrial ATP/ADP ratios, while VIa-L induces a permanent slip i
Probab=29.14 E-value=24 Score=26.26 Aligned_cols=11 Identities=36% Similarity=1.229 Sum_probs=9.4
Q ss_pred eeeeccCCCee
Q psy14699 85 KVRGRQYPWGV 95 (195)
Q Consensus 85 ~vrgR~YpWG~ 95 (195)
.+|...||||-
T Consensus 57 ~IR~K~FpWGD 67 (86)
T cd00925 57 NIRTKPFPWGD 67 (86)
T ss_pred eeecCCCCCCC
Confidence 57899999984
No 68
>PLN02265 probable phenylalanyl-tRNA synthetase beta chain
Probab=28.80 E-value=94 Score=30.44 Aligned_cols=50 Identities=22% Similarity=0.384 Sum_probs=34.4
Q ss_pred hCCCceEEEecCeeeeeCCeeeeeccCCC---eeeeecCCCCCchHHHHHHHH-hhHHHHH
Q psy14699 65 KEAVPFAVCGANTVLEVGGNKVRGRQYPW---GVVEVENPEHCDFTKLRTMLV-THMQDLQ 121 (195)
Q Consensus 65 ~~~~PFaVvgs~~~~~~~g~~vrgR~YpW---G~veVen~~HsDF~~LR~~Li-thlqdLk 121 (195)
.+.++|+.++....... .+ .++ -.|.|.||-..||..||..|+ .-|.-+.
T Consensus 416 ~Ev~t~sl~s~~~~~~~-----~~--~~~~~~~~v~I~NP~s~e~~vlRtSLlPgLL~~l~ 469 (597)
T PLN02265 416 TEVLTWILCSHKENFAM-----LN--REDDGNSAVIIGNPRSADFEVVRTSLLPGLLKTLG 469 (597)
T ss_pred eeeeceeeCChHHHHHh-----hc--CCccCCceEEECCCcchhHHHHHHhhHHHHHHHHH
Confidence 57888888876432211 01 122 159999999999999999999 6666554
No 69
>KOG3478|consensus
Probab=28.77 E-value=1e+02 Score=24.32 Aligned_cols=35 Identities=17% Similarity=0.312 Sum_probs=26.8
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q psy14699 159 NNLEKDRILQEKEAELQRMQEMIAKMQAQMQQAQS 193 (195)
Q Consensus 159 ~~~e~~~~l~~ke~el~r~~em~~~~q~q~~~~~~ 193 (195)
+..--+..|+.+++++..+.+-+.+||++-+..+.
T Consensus 84 Eikr~e~~i~d~q~e~~k~R~~v~k~Q~~~q~~~~ 118 (120)
T KOG3478|consen 84 EIKRLENQIRDSQEEFEKQREAVIKLQQAAQPAAP 118 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccC
Confidence 34455677888888898999999999988776543
No 70
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=27.91 E-value=76 Score=23.64 Aligned_cols=30 Identities=23% Similarity=0.402 Sum_probs=20.5
Q ss_pred ccceeeeeecCCCCCH--HHHHHHHHHHHHHH
Q psy14699 7 KVNIVPVIAKADCLTR--KEIQRLKKKVMDEI 36 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~--~El~~~K~~I~~~l 36 (195)
.+++|-|++|+|.+.. .+.....+.+.+.+
T Consensus 113 ~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~ 144 (174)
T cd01895 113 GKALVIVVNKWDLVEKDSKTMKEFKKEIRRKL 144 (174)
T ss_pred CCCEEEEEeccccCCccHHHHHHHHHHHHhhc
Confidence 4678888888888766 45555566665554
No 71
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=27.64 E-value=1.7e+02 Score=27.69 Aligned_cols=68 Identities=25% Similarity=0.333 Sum_probs=40.8
Q ss_pred ccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHH-HHHHhhhCCCceEEEecCeeee
Q psy14699 7 KVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYK-EQVRQLKEAVPFAVCGANTVLE 80 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~-~~~~~l~~~~PFaVvgs~~~~~ 80 (195)
.|=|||+..|. -..+++...-..|.+.|+.+||.+.- .+ ..+.... .....-...+||.|+-+...++
T Consensus 289 qV~Iipi~~~~--~~~~~~~~~a~~l~~~Lr~~GirV~l-D~---r~~~s~gkK~~~ae~~GvP~~IiIG~~ele 357 (477)
T PRK08661 289 QVVIVPIFKKE--EKKEEVLEYAKELAEELKKAGIRVKL-DD---RSDKTPGWKFNEWELKGVPLRIEIGPRDLE 357 (477)
T ss_pred eEEEEEecCCC--cCCHHHHHHHHHHHHHHHHCCCEEEE-EC---CCCCCHHHHHHHHHHCCCCEEEEECcchhh
Confidence 45688885441 12356677778999999999999862 11 0111121 2233346789998876655443
No 72
>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH. This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.
Probab=27.23 E-value=1.5e+02 Score=26.83 Aligned_cols=36 Identities=19% Similarity=0.293 Sum_probs=25.0
Q ss_pred ccceeeeeecCCCCCHH-HHHHHHHHHHHHHHHcCCC
Q psy14699 7 KVNIVPVIAKADCLTRK-EIQRLKKKVMDEIKQNGIT 42 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~-El~~~K~~I~~~l~~~~I~ 42 (195)
..++|-|+.|+|.+..+ .....+..+.+.+.++|+.
T Consensus 90 ~~piilV~NK~DLl~k~~~~~~~~~~l~~~~k~~g~~ 126 (360)
T TIGR03597 90 GNPVLLVGNKIDLLPKSVNLSKIKEWMKKRAKELGLK 126 (360)
T ss_pred CCCEEEEEEchhhCCCCCCHHHHHHHHHHHHHHcCCC
Confidence 45789999999998543 2334555666667778875
No 73
>cd01894 EngA1 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=27.05 E-value=80 Score=23.25 Aligned_cols=17 Identities=18% Similarity=0.411 Sum_probs=10.9
Q ss_pred cceeeeeecCCCCCHHH
Q psy14699 8 VNIVPVIAKADCLTRKE 24 (195)
Q Consensus 8 VNIIPVIaKADtLT~~E 24 (195)
+++|.|+.|+|.....+
T Consensus 106 ~piiiv~nK~D~~~~~~ 122 (157)
T cd01894 106 KPVILVVNKVDNIKEED 122 (157)
T ss_pred CCEEEEEECcccCChHH
Confidence 56677777777665443
No 74
>COG0698 RpiB Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]
Probab=26.86 E-value=1.4e+02 Score=24.46 Aligned_cols=54 Identities=17% Similarity=0.303 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHH----HH-hhhCCCceEEEecCeee
Q psy14699 26 QRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQ----VR-QLKEAVPFAVCGANTVL 79 (195)
Q Consensus 26 ~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~----~~-~l~~~~PFaVvgs~~~~ 79 (195)
..+|..|.+-|.+.|+++++|.-+..+.+.++-.. .. -+.....|+|+...+-+
T Consensus 12 ~~lK~~I~~~Lk~~g~~v~D~G~~~~~~~~dyp~~a~~va~~v~~~~~d~GIliCGTGi 70 (151)
T COG0698 12 YELKEIIIDHLKSKGYEVIDFGTYTDEGSVDYPDYAKKVAEAVLNGEADLGILICGTGI 70 (151)
T ss_pred HHHHHHHHHHHHHCCCEEEeccccCCCCCcchHHHHHHHHHHHHcCCCCeeEEEecCCh
Confidence 46899999999999999999864433322222221 22 22347889987655543
No 75
>PF03147 FDX-ACB: Ferredoxin-fold anticodon binding domain; InterPro: IPR005121 Aminoacyl-tRNA synthetases (aaRSs) play a crucial role in the translation of the genetic code by means of covalent attachment of amino acids to their cognate tRNAs. Phenylalanine-tRNA synthetase (PheRS) is known to be among the most complex enzymes of the aaRS family. Bacterial and mitochondrial PheRSs share a ferredoxin-fold anticodon binding (FDX-ACB) domain, which represents a canonical double split alpha+beta motif having no insertions. The FDX-ACB domain displays a typical RNA recognition fold (RRM) (see PDOC00030 from PROSITEDOC) formed by the four-stranded antiparallel beta sheet, with two helices packed against it [, , , , ].; GO: 0000049 tRNA binding, 0000287 magnesium ion binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation, 0008033 tRNA processing; PDB: 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 3PCO_D 2RHS_D 2RHQ_B 2AKW_B 1B70_B ....
Probab=26.84 E-value=73 Score=23.12 Aligned_cols=27 Identities=19% Similarity=0.474 Sum_probs=19.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHH-HcCCCc
Q psy14699 17 ADCLTRKEIQRLKKKVMDEIK-QNGITI 43 (195)
Q Consensus 17 ADtLT~~El~~~K~~I~~~l~-~~~I~i 43 (195)
.=|||.+|+...-.+|...|. ..|+.+
T Consensus 66 ~~TLt~~ev~~~~~~i~~~l~~~~~~~l 93 (94)
T PF03147_consen 66 DRTLTDEEVNEIHDKIIKALEKKLGAEL 93 (94)
T ss_dssp SS---HHHHHHHHHHHHHHHHHTCT-BE
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHhCcEe
Confidence 458999999999999999995 467653
No 76
>PHA00669 hypothetical protein
Probab=26.19 E-value=30 Score=27.07 Aligned_cols=18 Identities=33% Similarity=0.733 Sum_probs=12.0
Q ss_pred CeeeeeccCCCeeeeecC
Q psy14699 83 GNKVRGRQYPWGVVEVEN 100 (195)
Q Consensus 83 g~~vrgR~YpWG~veVen 100 (195)
|..--.-.||||.+--.|
T Consensus 23 g~~et~~eYP~GL~I~Ld 40 (114)
T PHA00669 23 GAPETTPEYPWGLCITLN 40 (114)
T ss_pred CCcCcCCCCCceEEEEEC
Confidence 333345689999977555
No 77
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=26.10 E-value=98 Score=24.38 Aligned_cols=11 Identities=55% Similarity=0.749 Sum_probs=8.4
Q ss_pred HHHHHhhHHHH
Q psy14699 126 EIHYENYRSER 136 (195)
Q Consensus 126 ~~~YE~yR~~~ 136 (195)
=+.||.||+..
T Consensus 91 li~~E~~Rs~~ 101 (134)
T PF07047_consen 91 LIIYEYWRSAR 101 (134)
T ss_pred HHHHHHHHHHh
Confidence 47899999843
No 78
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=25.98 E-value=1.1e+02 Score=30.18 Aligned_cols=33 Identities=18% Similarity=0.392 Sum_probs=27.8
Q ss_pred ceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCC
Q psy14699 9 NIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGI 41 (195)
Q Consensus 9 NIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I 41 (195)
.+|.||+|+|....+.+...+..+.+.+...++
T Consensus 106 ~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~ 138 (614)
T PRK10512 106 MLTVALTKADRVDEARIAEVRRQVKAVLREYGF 138 (614)
T ss_pred eEEEEEECCccCCHHHHHHHHHHHHHHHHhcCC
Confidence 367899999999888888888899888877664
No 79
>PRK13796 GTPase YqeH; Provisional
Probab=25.53 E-value=1.2e+02 Score=27.72 Aligned_cols=36 Identities=25% Similarity=0.290 Sum_probs=23.0
Q ss_pred ccceeeeeecCCCCCHHH-HHHHHHHHHHHHHHcCCC
Q psy14699 7 KVNIVPVIAKADCLTRKE-IQRLKKKVMDEIKQNGIT 42 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~E-l~~~K~~I~~~l~~~~I~ 42 (195)
..++|-|+.|+|.+..+. ....+..+....+.+|+.
T Consensus 96 ~kpviLViNK~DLl~~~~~~~~i~~~l~~~~k~~g~~ 132 (365)
T PRK13796 96 NNPVLLVGNKADLLPKSVKKNKVKNWLRQEAKELGLR 132 (365)
T ss_pred CCCEEEEEEchhhCCCccCHHHHHHHHHHHHHhcCCC
Confidence 457889999999985321 223344455556667774
No 80
>cd01890 LepA LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.
Probab=24.87 E-value=1.1e+02 Score=23.51 Aligned_cols=15 Identities=47% Similarity=0.720 Sum_probs=11.0
Q ss_pred CccceeeeeecCCCC
Q psy14699 6 NKVNIVPVIAKADCL 20 (195)
Q Consensus 6 ~~VNIIPVIaKADtL 20 (195)
..+++|.|+.|+|..
T Consensus 118 ~~~~iiiv~NK~Dl~ 132 (179)
T cd01890 118 NNLEIIPVINKIDLP 132 (179)
T ss_pred cCCCEEEEEECCCCC
Confidence 346788888888854
No 81
>KOG0626|consensus
Probab=24.68 E-value=3.8e+02 Score=26.35 Aligned_cols=109 Identities=26% Similarity=0.442 Sum_probs=66.4
Q ss_pred eeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCcc------CCCCCCCCcc-----------HHHHHHHH----h-----
Q psy14699 10 IVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIY------PLPDCDSDED-----------EDYKEQVR----Q----- 63 (195)
Q Consensus 10 IIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy------~fp~~~~ded-----------e~~~~~~~----~----- 63 (195)
|+|.=.+.....++=++-++. +.++|..|||+.| +.|.. -+| ++|.+.+. +
T Consensus 117 IlP~G~~~~gVN~~Gi~fY~~-LI~eL~~nGI~P~VTLfHwDlPq~--LeDeYgGwLn~~ivedF~~yA~~CF~~fGDrV 193 (524)
T KOG0626|consen 117 ILPNGRLTGGVNEAGIQFYNN-LIDELLANGIEPFVTLFHWDLPQA--LEDEYGGWLNPEIVEDFRDYADLCFQEFGDRV 193 (524)
T ss_pred hCCCCCcCCCcCHHHHHHHHH-HHHHHHHcCCeEEEEEecCCCCHH--HHHHhccccCHHHHHHHHHHHHHHHHHhcccc
Confidence 445444455667777765555 5567888999954 44532 222 12333221 1
Q ss_pred -----hhCCCceEEEecCeeeeeCCeeeeeccCCC-eeeeecCCCCCchHHHHHHHHhhHHHHHHHhHHHHHHhhHHH
Q psy14699 64 -----LKEAVPFAVCGANTVLEVGGNKVRGRQYPW-GVVEVENPEHCDFTKLRTMLVTHMQDLQEVTQEIHYENYRSE 135 (195)
Q Consensus 64 -----l~~~~PFaVvgs~~~~~~~g~~vrgR~YpW-G~veVen~~HsDF~~LR~~LithlqdLkd~T~~~~YE~yR~~ 135 (195)
+++.--||+.|-+ .|..-.||.=+| |.|...|+..-=++..=+||+.|... |+.||..
T Consensus 194 K~WiT~NEP~v~s~~gY~-----~G~~aPGrCs~~~~~c~~g~s~~epYiv~HNllLAHA~A---------v~~yr~k 257 (524)
T KOG0626|consen 194 KHWITFNEPNVFSIGGYD-----TGTKAPGRCSKYVGNCSAGNSGTEPYIVAHNLLLAHAAA---------VDLYRKK 257 (524)
T ss_pred eeeEEecccceeeeehhc-----cCCCCCCCCCcccccCCCCCCCCCcchHHHHHHHHHHHH---------HHHHHHh
Confidence 3444445555543 477888998888 55666777777788888999888433 5566655
No 82
>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily. EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in
Probab=24.22 E-value=1.4e+02 Score=24.59 Aligned_cols=32 Identities=19% Similarity=0.297 Sum_probs=21.1
Q ss_pred cceeeeeecCCCCC----HHHHHHHHHHHHHHHHHc
Q psy14699 8 VNIVPVIAKADCLT----RKEIQRLKKKVMDEIKQN 39 (195)
Q Consensus 8 VNIIPVIaKADtLT----~~El~~~K~~I~~~l~~~ 39 (195)
.++|-|+.|.|..+ .+....+...+...|...
T Consensus 138 ~~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~~~ 173 (219)
T cd01883 138 KQLIVAVNKMDDVTVNWSEERYDEIKKELSPFLKKV 173 (219)
T ss_pred CeEEEEEEccccccccccHHHHHHHHHHHHHHHHHc
Confidence 46788999999874 444556666665555543
No 83
>PF15313 HEXIM: Hexamethylene bis-acetamide-inducible protein; PDB: 2GD7_B 3S9G_A.
Probab=24.07 E-value=90 Score=24.74 Aligned_cols=16 Identities=38% Similarity=0.480 Sum_probs=13.5
Q ss_pred HHHHhhHHHHHhcCCC
Q psy14699 127 IHYENYRSERLVKGVP 142 (195)
Q Consensus 127 ~~YE~yR~~~L~~~~~ 142 (195)
..||.||++.|.+|+.
T Consensus 91 ~~Ye~~~~ErL~~MSK 106 (124)
T PF15313_consen 91 EVYERYHAERLQNMSK 106 (124)
T ss_dssp HHHHCCCHHHHHHS-H
T ss_pred HHHHHHHHHHHhccCH
Confidence 4699999999999976
No 84
>cd07316 terB_like_DjlA N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins. Tellurium resistance terB-like domain of the DnaJ-like DjlA proteins. This family represents the terB-like domain of DjlA-like proteins, a subgroup of heat shock DnaJ-like proteins. Escherichia coli DjlA is a type III membrane protein with a small N-terminal transmembrane region and DnaJ-like domain on the extreme C-terminus. Overproduction has been shown to activate the RcsC pathway, which regulates the production of the capsular exopolysaccharide colanic acid. The specific function of this domain is unknown.
Probab=23.74 E-value=64 Score=23.23 Aligned_cols=21 Identities=33% Similarity=0.398 Sum_probs=18.1
Q ss_pred eecCCC-CCHHHHHHHHHHHHH
Q psy14699 14 IAKADC-LTRKEIQRLKKKVMD 34 (195)
Q Consensus 14 IaKADt-LT~~El~~~K~~I~~ 34 (195)
|||||. +|++|.+.++..+.+
T Consensus 9 vA~aDG~v~~~E~~~i~~~l~~ 30 (106)
T cd07316 9 LAKADGRVSEAEIQAARALMDQ 30 (106)
T ss_pred HHhccCCcCHHHHHHHHHHHHH
Confidence 689998 999999998887665
No 85
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=23.72 E-value=80 Score=23.89 Aligned_cols=19 Identities=26% Similarity=0.370 Sum_probs=11.9
Q ss_pred ccceeeeeecCCCCCHHHH
Q psy14699 7 KVNIVPVIAKADCLTRKEI 25 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El 25 (195)
.+++|-|+.|+|.....+.
T Consensus 114 ~~p~ivv~NK~Dl~~~~~~ 132 (170)
T cd01898 114 EKPRIVVLNKIDLLDEEEL 132 (170)
T ss_pred ccccEEEEEchhcCCchhh
Confidence 4566777777776554443
No 86
>TIGR00475 selB selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.
Probab=23.70 E-value=1.2e+02 Score=29.46 Aligned_cols=32 Identities=25% Similarity=0.285 Sum_probs=26.4
Q ss_pred ceeeeeecCCCCCHHHHHHHHHHHHHHHHHcC
Q psy14699 9 NIVPVIAKADCLTRKEIQRLKKKVMDEIKQNG 40 (195)
Q Consensus 9 NIIPVIaKADtLT~~El~~~K~~I~~~l~~~~ 40 (195)
|+|-|++|+|....+.+...+..+.+-+...+
T Consensus 105 ~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~ 136 (581)
T TIGR00475 105 HTIVVITKADRVNEEEIKRTEMFMKQILNSYI 136 (581)
T ss_pred eEEEEEECCCCCCHHHHHHHHHHHHHHHHHhC
Confidence 49999999999998888777888877776653
No 87
>COG1471 RPS4A Ribosomal protein S4E [Translation, ribosomal structure and biogenesis]
Probab=23.56 E-value=80 Score=27.85 Aligned_cols=36 Identities=22% Similarity=0.406 Sum_probs=27.6
Q ss_pred hhCCCceEEEecC-----------------eeeeeCCeeeeeccCCCeeeeec
Q psy14699 64 LKEAVPFAVCGAN-----------------TVLEVGGNKVRGRQYPWGVVEVE 99 (195)
Q Consensus 64 l~~~~PFaVvgs~-----------------~~~~~~g~~vrgR~YpWG~veVe 99 (195)
+..++|.++|-.+ ..+.+||+...-.+||-|..+|-
T Consensus 37 ~~~slPL~~iiRd~LkyAd~~REa~~Ii~~g~v~VDG~vRkd~kfPVGlmDVi 89 (241)
T COG1471 37 AEESLPLLVIIRDYLKYADNAREARKILSEGKVLVDGKVRKDYKFPVGLMDVI 89 (241)
T ss_pred ccccccEEeeehhHHHhccchHHHHHHHhcCcEEECCEEeccccCCcceEEEE
Confidence 3468888887443 34578999999999999998864
No 88
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=23.23 E-value=1.9e+02 Score=17.77 Aligned_cols=25 Identities=20% Similarity=0.372 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q psy14699 167 LQEKEAELQRMQEMIAKMQAQMQQA 191 (195)
Q Consensus 167 l~~ke~el~r~~em~~~~q~q~~~~ 191 (195)
|-.-.+-|||..|.|..--+||+.+
T Consensus 6 L~sekeqLrrr~eqLK~kLeqlrnS 30 (32)
T PF02344_consen 6 LISEKEQLRRRREQLKHKLEQLRNS 30 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH---
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3333345788888888777777654
No 89
>PF15053 Njmu-R1: Mjmu-R1-like protein family
Probab=23.21 E-value=3.7e+02 Score=25.07 Aligned_cols=86 Identities=14% Similarity=0.159 Sum_probs=58.4
Q ss_pred eccCCCeeeeecCCCCCchHHHHHHHH----------hhHHHHHHHhHHHHHHhhHHHHHhcC-CCCCCCCCcccCCCCc
Q psy14699 88 GRQYPWGVVEVENPEHCDFTKLRTMLV----------THMQDLQEVTQEIHYENYRSERLVKG-VPVPKRTVSLTEDSKP 156 (195)
Q Consensus 88 gR~YpWG~veVen~~HsDF~~LR~~Li----------thlqdLkd~T~~~~YE~yR~~~L~~~-~~~~~~~~~~~~~~~~ 156 (195)
.-.-.|..+-+.+.+-++=..||++|= .|+..|++....-||--||+-...+- |.+
T Consensus 256 ~fC~~W~~~~l~~~~~~np~~lRq~lE~fKLk~IQd~N~~kR~irqae~nhYaLyk~y~FL~~cg~~------------- 322 (353)
T PF15053_consen 256 RFCEDWMQAFLNGAEGGNPFLLRQILENFKLKVIQDMNNFKRFIRQAEMNHYALYKCYLFLKNCGNG------------- 322 (353)
T ss_pred hhHHHHHHHHhhcccCCChHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhCCch-------------
Confidence 345579998888888898889998872 34455677777789999999876653 332
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy14699 157 TANNLEKDRILQEKEAELQRMQEMIAKMQAQMQQ 190 (195)
Q Consensus 157 ~~~~~e~~~~l~~ke~el~r~~em~~~~q~q~~~ 190 (195)
.-.-+.++.--+++...++.+.-++++|++
T Consensus 323 ----dILL~~~k~e~~~~pe~~~vl~vLee~~~e 352 (353)
T PF15053_consen 323 ----DILLKIVKVEHDEMPEAKNVLNVLEEFMKE 352 (353)
T ss_pred ----HHHHHHHHhhhccChHHHHHHHHHHHHhhc
Confidence 011222222223467788888889988875
No 90
>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.
Probab=23.15 E-value=1.1e+02 Score=28.19 Aligned_cols=32 Identities=22% Similarity=0.249 Sum_probs=24.0
Q ss_pred cceeeeeecCCCCCHHHHHHHHHHHHHHHHHc
Q psy14699 8 VNIVPVIAKADCLTRKEIQRLKKKVMDEIKQN 39 (195)
Q Consensus 8 VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~ 39 (195)
-++|.|+.|.|..+.++.......|.+.+...
T Consensus 135 ~~iIVvvNK~Dl~~~~~~~~~~~~i~~~l~~~ 166 (406)
T TIGR03680 135 KNIVIVQNKIDLVSKEKALENYEEIKEFVKGT 166 (406)
T ss_pred CeEEEEEEccccCCHHHHHHHHHHHHhhhhhc
Confidence 36899999999998877766566676666543
No 91
>cd07321 Extradiol_Dioxygenase_3A_like Subunit A of Class III extradiol dioxygenases. Extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. There are two major groups of dioxygenases according to the cleavage site of the aromatic ring. Intradiol enzymes cleave the aromatic ring between two hydroxyl groups, whereas extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes are evolutionary related and show sequence similarity, with the two domain class II enzymes evolving from the class I enzyme through gene duplication. Class III enzymes are different in sequence and structure and usually have two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents subunit A of c
Probab=23.15 E-value=56 Score=23.47 Aligned_cols=27 Identities=19% Similarity=0.123 Sum_probs=24.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHcCCCccC
Q psy14699 19 CLTRKEIQRLKKKVMDEIKQNGITIYP 45 (195)
Q Consensus 19 tLT~~El~~~K~~I~~~l~~~~I~iy~ 45 (195)
-||++|.+.+..+=...|...|..+|-
T Consensus 34 ~Lt~eE~~al~~rD~~~L~~lG~~~~~ 60 (77)
T cd07321 34 GLTPEEKAALLARDVGALYVLGVNPML 60 (77)
T ss_pred CCCHHHHHHHHcCCHHHHHHcCCCHHH
Confidence 489999999999999999999999883
No 92
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=23.14 E-value=1e+02 Score=27.99 Aligned_cols=26 Identities=23% Similarity=0.538 Sum_probs=16.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14699 161 LEKDRILQEKEAELQRMQEMIAKMQA 186 (195)
Q Consensus 161 ~e~~~~l~~ke~el~r~~em~~~~q~ 186 (195)
.|.+..|++.|.|+...+-+|.+||+
T Consensus 78 kes~~~l~dRetEI~eLksQL~RMrE 103 (305)
T PF15290_consen 78 KESENRLHDRETEIDELKSQLARMRE 103 (305)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 45556666666666666666666654
No 93
>KOG0996|consensus
Probab=23.12 E-value=2.7e+02 Score=30.08 Aligned_cols=95 Identities=20% Similarity=0.281 Sum_probs=55.6
Q ss_pred CCeeeeecCCCCCc--------hHHHHHHHH-hhHHHHHHHhHHHHHHhhHHH---HHh-----------cCCCCCCC--
Q psy14699 92 PWGVVEVENPEHCD--------FTKLRTMLV-THMQDLQEVTQEIHYENYRSE---RLV-----------KGVPVPKR-- 146 (195)
Q Consensus 92 pWG~veVen~~HsD--------F~~LR~~Li-thlqdLkd~T~~~~YE~yR~~---~L~-----------~~~~~~~~-- 146 (195)
|--+--..+.-||+ +..||+.|. ..|+ ..| .++|-.=|+- -|. ..|.+...
T Consensus 690 penvPRLfDLv~~~d~~~r~aFYfaLrdtLV~d~Le---QAt-Riaygk~rr~RVvTL~G~lIe~SGtmtGGG~~v~~g~ 765 (1293)
T KOG0996|consen 690 PENVPRLFDLVKCKDEKFRPAFYFALRDTLVADNLE---QAT-RIAYGKDRRWRVVTLDGSLIEKSGTMTGGGKKVKGGR 765 (1293)
T ss_pred CCCcchHhhhhccCCHHHHHHHHHHHhhhhhhcCHH---HHH-HHhhcCCCceEEEEecceeecccccccCCCCcCCCCC
Confidence 44444444666777 567788887 6654 466 5788765522 111 11111111
Q ss_pred -CCcccCCCCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy14699 147 -TVSLTEDSKPTANNLEKDRILQEKEAELQRMQEMIAKMQAQMQQ 190 (195)
Q Consensus 147 -~~~~~~~~~~~~~~~e~~~~l~~ke~el~r~~em~~~~q~q~~~ 190 (195)
.++..+.++-...+..-++.|++....++.+++.+.+|+.+...
T Consensus 766 mg~~~~~t~~s~~~v~~le~~l~~~~~~~~~~~~~~~~~ee~~~~ 810 (1293)
T KOG0996|consen 766 MGTSIRVTGVSKESVEKLERALSKMSDKARQHQEQLHELEERVRK 810 (1293)
T ss_pred CCCccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 11333444445566777888888888888888888777777654
No 94
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=23.06 E-value=1.7e+02 Score=28.51 Aligned_cols=60 Identities=15% Similarity=0.354 Sum_probs=36.2
Q ss_pred cceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHHH-HhhhCCCceEEEecCeeee
Q psy14699 8 VNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQV-RQLKEAVPFAVCGANTVLE 80 (195)
Q Consensus 8 VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~~-~~l~~~~PFaVvgs~~~~~ 80 (195)
|-|||+ . ++....-..|.+.|+.+||.+.--. .+..+.... ..-+..+||+||-+...++
T Consensus 441 V~Iipi---~-----e~~~~~A~~Ia~~LR~~GirVelD~-----~~~~lgkkir~A~k~gip~viIIG~~E~e 501 (545)
T PRK14799 441 VRVLPI---T-----DEVNEYAEKVLNDMRKRRIRAEIDY-----AGETLSKRIKNAYDQGVPYILIVGKKEAS 501 (545)
T ss_pred EEEEEc---C-----HHHHHHHHHHHHHHHhCCCEEEEEC-----CCCCHHHHHHHHHHcCCCEEEEEChhHhh
Confidence 556666 1 3455666788999999999986211 122232222 2235789999876655443
No 95
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=23.06 E-value=1.1e+02 Score=24.42 Aligned_cols=26 Identities=19% Similarity=0.432 Sum_probs=22.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHcCCCc
Q psy14699 18 DCLTRKEIQRLKKKVMDEIKQNGITI 43 (195)
Q Consensus 18 DtLT~~El~~~K~~I~~~l~~~~I~i 43 (195)
--+|++|...+|.+|.+-.++||=-.
T Consensus 3 ~~~T~eer~eLk~rIvElVRe~GRiT 28 (127)
T PF06163_consen 3 RVFTPEEREELKARIVELVREHGRIT 28 (127)
T ss_pred CcCCHHHHHHHHHHHHHHHHHcCCcc
Confidence 35899999999999999999998443
No 96
>cd04178 Nucleostemin_like Nucleostemin-like. Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the
Probab=22.54 E-value=1.1e+02 Score=24.66 Aligned_cols=28 Identities=18% Similarity=0.330 Sum_probs=21.6
Q ss_pred ccceeeeeecCCCCCHHHHHHHHHHHHH
Q psy14699 7 KVNIVPVIAKADCLTRKEIQRLKKKVMD 34 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~~K~~I~~ 34 (195)
..++|=||.|+|.+.++++........+
T Consensus 30 ~kp~IlVlNK~DL~~~~~l~~~~~~~~~ 57 (172)
T cd04178 30 NKKLVLVLNKIDLVPKENVEKWLKYLRR 57 (172)
T ss_pred CCCEEEEEehhhcCCHHHHHHHHHHHHh
Confidence 4678999999999998887665555544
No 97
>PRK14061 unknown domain/lipoate-protein ligase A fusion protein; Provisional
Probab=22.46 E-value=73 Score=31.32 Aligned_cols=31 Identities=6% Similarity=0.187 Sum_probs=18.5
Q ss_pred CccceeeeeecCCCCCHHHHHHHHHHHHHHHHH-cCCC
Q psy14699 6 NKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQ-NGIT 42 (195)
Q Consensus 6 ~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~-~~I~ 42 (195)
.-+||-+.++. +| ...|+..+.+.+.. +|..
T Consensus 408 RVtNL~e~l~~---it---~e~f~~~L~~~f~~~~g~~ 439 (562)
T PRK14061 408 RVTNLTELLPG---IP---HEQVCEAITEAFFAHYGER 439 (562)
T ss_pred hceeHHHhCCC---CC---HHHHHHHHHHHHHHHcCCC
Confidence 34566555542 55 55778888888754 4543
No 98
>CHL00071 tufA elongation factor Tu
Probab=22.14 E-value=1.5e+02 Score=27.24 Aligned_cols=33 Identities=21% Similarity=0.344 Sum_probs=25.5
Q ss_pred ceeeeeecCCCCCHHHH-HHHHHHHHHHHHHcCC
Q psy14699 9 NIVPVIAKADCLTRKEI-QRLKKKVMDEIKQNGI 41 (195)
Q Consensus 9 NIIPVIaKADtLT~~El-~~~K~~I~~~l~~~~I 41 (195)
++|-||.|.|..+.+++ ..++..+...|...+.
T Consensus 130 ~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~ 163 (409)
T CHL00071 130 NIVVFLNKEDQVDDEELLELVELEVRELLSKYDF 163 (409)
T ss_pred EEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCC
Confidence 37889999999987764 5567788888877653
No 99
>smart00475 53EXOc 5'-3' exonuclease.
Probab=21.61 E-value=2.1e+02 Score=24.92 Aligned_cols=57 Identities=11% Similarity=0.177 Sum_probs=37.2
Q ss_pred CCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHHHHhhh-CCCceEEEecCee
Q psy14699 20 LTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQVRQLK-EAVPFAVCGANTV 78 (195)
Q Consensus 20 LT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~~~~l~-~~~PFaVvgs~~~ 78 (195)
-+|+++......+++-|+..||+++..|..+.| +-......... ......|++++..
T Consensus 77 ~~pe~L~~q~~~~~~~l~~~gi~~i~~~g~EAD--D~iatla~~~~~~g~~~~IvS~DkD 134 (259)
T smart00475 77 KTPDELLEQIPLIKELLDALGIPVLEVEGYEAD--DVIATLAKKAEAEGYEVRIVSGDKD 134 (259)
T ss_pred CCCHHHHHHHHHHHHHHHHCCCCEEeeCCcCHH--HHHHHHHHHHHhCCCeEEEEeCCCc
Confidence 468889888899999999999999988865532 22222222222 2355667776643
No 100
>PTZ00223 40S ribosomal protein S4; Provisional
Probab=21.56 E-value=40 Score=30.22 Aligned_cols=24 Identities=25% Similarity=0.505 Sum_probs=19.9
Q ss_pred eeeeeCCeeeeeccCCCeeeeecC
Q psy14699 77 TVLEVGGNKVRGRQYPWGVVEVEN 100 (195)
Q Consensus 77 ~~~~~~g~~vrgR~YpWG~veVen 100 (195)
..+.+||+...-.+||=|..+|-.
T Consensus 65 ~~V~VDGkvr~D~~~PvGlMDVIs 88 (273)
T PTZ00223 65 GLVCVDGKPRKDGKYPAGFMDVVE 88 (273)
T ss_pred CeEEECCEEEccCCCCCceeEEEE
Confidence 456789999999999999988653
No 101
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=21.55 E-value=1.1e+02 Score=28.41 Aligned_cols=36 Identities=22% Similarity=0.260 Sum_probs=25.7
Q ss_pred ceeeeeecCCCCCHHHHHHHHHHHHHHHHHc---CCCcc
Q psy14699 9 NIVPVIAKADCLTRKEIQRLKKKVMDEIKQN---GITIY 44 (195)
Q Consensus 9 NIIPVIaKADtLT~~El~~~K~~I~~~l~~~---~I~iy 44 (195)
++|.|+.|.|..+.++.......+...+..+ +++++
T Consensus 141 ~iiVVlNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii 179 (411)
T PRK04000 141 NIVIVQNKIDLVSKERALENYEQIKEFVKGTVAENAPII 179 (411)
T ss_pred cEEEEEEeeccccchhHHHHHHHHHHHhccccCCCCeEE
Confidence 6899999999998877765566666666543 34554
No 102
>KOG0146|consensus
Probab=21.54 E-value=73 Score=29.02 Aligned_cols=15 Identities=47% Similarity=0.740 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHH
Q psy14699 170 KEAELQRMQEMIAKM 184 (195)
Q Consensus 170 ke~el~r~~em~~~~ 184 (195)
||.-|||||.|-.+|
T Consensus 102 kER~lRRMQQma~ql 116 (371)
T KOG0146|consen 102 KERTLRRMQQMAGQL 116 (371)
T ss_pred HHHHHHHHHHHHHHh
Confidence 567789999998765
No 103
>cd05855 Ig_TrkB_d5 Fifth domain (immunoglobulin-like) of Trk receptor TrkB. TrkB_d5: the fifth domain of Trk receptor TrkB, this is an immunoglobulin (Ig)-like domain which binds to neurotrophin. The Trk family of receptors are tyrosine kinase receptors, which mediate the trophic effects of the neurotrophin Nerve growth factor (NGF) family. The Trks are activated by dimerization, leading to autophosphorylation of intracellular tyrosine residues, and triggering the signal transduction pathway. TrkB shares significant sequence homology and domain organization with TrkA, and TrkC. The first three domains are leucine-rich domains. The fourth and fifth domains are Ig-like domains playing a part in ligand binding. TrKB is recognized by brain-derived neurotrophic factor (BDNF) and neurotrophin (NT)-4. In some cell systems NT-3 can activate TrkA and TrkB receptors. TrKB transcripts are found throughout multiple structures of the central and peripheral nervous systems.
Probab=21.33 E-value=1.3e+02 Score=21.28 Aligned_cols=40 Identities=25% Similarity=0.468 Sum_probs=24.5
Q ss_pred CCceEEEecCee---eeeCCeeeeeccC------------CCeeeeecCCCCCch
Q psy14699 67 AVPFAVCGANTV---LEVGGNKVRGRQY------------PWGVVEVENPEHCDF 106 (195)
Q Consensus 67 ~~PFaVvgs~~~---~~~~g~~vrgR~Y------------pWG~veVen~~HsDF 106 (195)
++||.|.|.-.. .--+|+.+....| -.|++.+.++.+.|-
T Consensus 2 ~i~~~v~G~P~Pti~W~kng~~l~~~~~~~~~~~~~~~~~~~~~L~i~~~~~~D~ 56 (79)
T cd05855 2 CIPFTVKGNPKPTLQWFHEGAILNESEYICTKIHVINNTEYHGCLQLDNPTHLNN 56 (79)
T ss_pred eEEEEEeEeCCCceEEEECCEECCCCcceeeeeEeecccceEEEEEECCCCcccC
Confidence 678888887532 2245554432221 257888888888774
No 104
>PRK04313 30S ribosomal protein S4e; Validated
Probab=21.32 E-value=38 Score=29.73 Aligned_cols=24 Identities=21% Similarity=0.415 Sum_probs=20.2
Q ss_pred eeeeeCCeeeeeccCCCeeeeecC
Q psy14699 77 TVLEVGGNKVRGRQYPWGVVEVEN 100 (195)
Q Consensus 77 ~~~~~~g~~vrgR~YpWG~veVen 100 (195)
..+.+||+..+-.+||=|..+|-.
T Consensus 64 ~~V~VDGkvr~D~~~PvGlmDVIs 87 (237)
T PRK04313 64 GKVLVDGRVRKDYKFPVGLMDVIS 87 (237)
T ss_pred CcEEECCEEEcccccCcCceeEEE
Confidence 456789999999999999988754
No 105
>PTZ00118 40S ribosomal protein S4; Provisional
Probab=21.30 E-value=39 Score=30.09 Aligned_cols=24 Identities=25% Similarity=0.519 Sum_probs=20.2
Q ss_pred eeeeeCCeeeeeccCCCeeeeecC
Q psy14699 77 TVLEVGGNKVRGRQYPWGVVEVEN 100 (195)
Q Consensus 77 ~~~~~~g~~vrgR~YpWG~veVen 100 (195)
..+.+||+...-.+||=|..+|-.
T Consensus 68 ~~V~VDGkvr~D~~fPvG~mDVIs 91 (262)
T PTZ00118 68 KIVKVDGKVRTDCTYPVGFMDVVS 91 (262)
T ss_pred CcEEECCEEEccCCCCCceeEEEE
Confidence 456789999999999999988754
No 106
>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha. This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.
Probab=21.18 E-value=1.7e+02 Score=26.91 Aligned_cols=34 Identities=29% Similarity=0.462 Sum_probs=27.6
Q ss_pred cceeeeeecCCCC--CHHHHHHHHHHHHHHHHHcCC
Q psy14699 8 VNIVPVIAKADCL--TRKEIQRLKKKVMDEIKQNGI 41 (195)
Q Consensus 8 VNIIPVIaKADtL--T~~El~~~K~~I~~~l~~~~I 41 (195)
.++|-|+.|+|.. ..++....+..+.+.+...|+
T Consensus 142 ~~iIVviNK~Dl~~~~~~~~~~~~~ei~~~~~~~g~ 177 (426)
T TIGR00483 142 NQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGY 177 (426)
T ss_pred CeEEEEEEChhccCccHHHHHHHHHHHHHHHHHcCC
Confidence 4788899999987 466677788888888888775
No 107
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=20.91 E-value=1.1e+02 Score=28.94 Aligned_cols=36 Identities=8% Similarity=0.053 Sum_probs=24.4
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy14699 156 PTANNLEKDRILQEKEAELQRMQEMIAKMQAQMQQA 191 (195)
Q Consensus 156 ~~~~~~e~~~~l~~ke~el~r~~em~~~~q~q~~~~ 191 (195)
.+..+...+..|.++|+-|++-|-.++.+.+||+.+
T Consensus 418 l~~~i~~~~~rl~~~e~rl~~qF~ame~~~s~mns~ 453 (462)
T PRK08032 418 LTKQYNAVSDSIDATIARYKAQFTQLDKLMTSLNST 453 (462)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556667778888888876666666666666654
No 108
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=20.88 E-value=2.4e+02 Score=24.13 Aligned_cols=56 Identities=9% Similarity=0.197 Sum_probs=37.4
Q ss_pred CHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHHHHhh-hCCCceEEEecCee
Q psy14699 21 TRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQVRQL-KEAVPFAVCGANTV 78 (195)
Q Consensus 21 T~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~~~~l-~~~~PFaVvgs~~~ 78 (195)
+|+++......+++.|...||+.+..|..+.| +-........ .......|++++..
T Consensus 79 ~p~~l~~q~~~~~~~l~~~gi~~i~~~~~EAD--D~ia~la~~~~~~g~~~~I~S~DkD 135 (240)
T cd00008 79 MPEELREQIPLIKELLEALGIPVLEIEGYEAD--DVIGTLAKKAEAEGYKVVIVSGDKD 135 (240)
T ss_pred CCHHHHHHHHHHHHHHHHCCCCEEecCCcCHH--HHHHHHHHHHHHcCCeEEEEeCCCC
Confidence 68899999999999999999999988865432 2222122222 22355667777643
No 109
>PRK15494 era GTPase Era; Provisional
Probab=20.79 E-value=3e+02 Score=24.70 Aligned_cols=56 Identities=13% Similarity=0.169 Sum_probs=41.0
Q ss_pred HhhhCCCceEEEecCeeeeeCCeeeeeccCCCeeeeecCCCCCchHHHHHHHH-hhHHHHHHHhHH
Q psy14699 62 RQLKEAVPFAVCGANTVLEVGGNKVRGRQYPWGVVEVENPEHCDFTKLRTMLV-THMQDLQEVTQE 126 (195)
Q Consensus 62 ~~l~~~~PFaVvgs~~~~~~~g~~vrgR~YpWG~veVen~~HsDF~~LR~~Li-thlqdLkd~T~~ 126 (195)
..+...+||+|--....++.... +..+-+.+|-|+.+.| +.++| .+=.-||.....
T Consensus 246 ~~~~~EiP~~~~v~i~~~~~~~~---~~~~i~~~i~v~~~sq------k~iiiG~~g~~ik~i~~~ 302 (339)
T PRK15494 246 LNLQKELPYKLTVQTEKWEDLKD---KSVKINQVIVVSRESY------KTIILGKNGSKIKEIGAK 302 (339)
T ss_pred hhCCcccCceEEEEEEEEEEcCC---CeEEEEEEEEECCCCc------eeEEEcCCcHHHHHHHHH
Confidence 34679999998766655553221 2234678899999999 88999 998888888754
No 110
>cd04106 Rab23_lke Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G
Probab=20.73 E-value=48 Score=24.94 Aligned_cols=14 Identities=36% Similarity=0.430 Sum_probs=7.5
Q ss_pred ccceeeeeecCCCC
Q psy14699 7 KVNIVPVIAKADCL 20 (195)
Q Consensus 7 ~VNIIPVIaKADtL 20 (195)
.+++|-|+.|+|..
T Consensus 106 ~~p~iiv~nK~Dl~ 119 (162)
T cd04106 106 DIPMVLVQTKIDLL 119 (162)
T ss_pred CCCEEEEEEChhcc
Confidence 34555555555554
No 111
>cd07313 terB_like_2 tellurium resistance terB-like protein, subgroup 2. This family includes several uncharacterized bacterial proteins. Protein sequence homology analysis shows they are similar to tellurium resistance protein terB, but the function of this family is unknown.
Probab=20.71 E-value=85 Score=22.64 Aligned_cols=23 Identities=17% Similarity=0.355 Sum_probs=19.3
Q ss_pred eecCCC-CCHHHHHHHHHHHHHHH
Q psy14699 14 IAKADC-LTRKEIQRLKKKVMDEI 36 (195)
Q Consensus 14 IaKADt-LT~~El~~~K~~I~~~l 36 (195)
+||||. +|+.|.+.++..+.+.+
T Consensus 9 vA~aDG~v~~~E~~~i~~~l~~~~ 32 (104)
T cd07313 9 VARADGEYDEEERAAIDRLLAERF 32 (104)
T ss_pred HHHHcCCCCHHHHHHHHHHHHHHh
Confidence 689998 99999999988776654
No 112
>cd00882 Ras_like_GTPase Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb
Probab=20.55 E-value=1.4e+02 Score=20.74 Aligned_cols=23 Identities=17% Similarity=0.205 Sum_probs=15.4
Q ss_pred CCccceeeeeecCCCCCHHHHHH
Q psy14699 5 HNKVNIVPVIAKADCLTRKEIQR 27 (195)
Q Consensus 5 ~~~VNIIPVIaKADtLT~~El~~ 27 (195)
...+++|.|+.|+|.....+...
T Consensus 100 ~~~~~~ivv~nk~D~~~~~~~~~ 122 (157)
T cd00882 100 GENIPIILVGNKIDLPEERVVSE 122 (157)
T ss_pred cCCCcEEEEEeccccccccchHH
Confidence 45677788888888766555443
No 113
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=20.38 E-value=62 Score=31.77 Aligned_cols=32 Identities=34% Similarity=0.608 Sum_probs=23.2
Q ss_pred cCCccceeeeeecCCCCCHHHHHHHHHHHHHHH
Q psy14699 4 LHNKVNIVPVIAKADCLTRKEIQRLKKKVMDEI 36 (195)
Q Consensus 4 L~~~VNIIPVIaKADtLT~~El~~~K~~I~~~l 36 (195)
|..-.-|||||.|.|. ...+-.+.|+.|-+.|
T Consensus 125 le~~LeIiPViNKIDL-P~Adpervk~eIe~~i 156 (603)
T COG0481 125 LENNLEIIPVLNKIDL-PAADPERVKQEIEDII 156 (603)
T ss_pred HHcCcEEEEeeecccC-CCCCHHHHHHHHHHHh
Confidence 3455679999999995 4456667777776665
No 114
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=20.36 E-value=93 Score=27.26 Aligned_cols=42 Identities=17% Similarity=0.135 Sum_probs=34.1
Q ss_pred cccCCCCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy14699 149 SLTEDSKPTANNLEKDRILQEKEAELQRMQEMIAKMQAQMQQ 190 (195)
Q Consensus 149 ~~~~~~~~~~~~~e~~~~l~~ke~el~r~~em~~~~q~q~~~ 190 (195)
..++.|++..-+.-.-....+.|+|+++.+.-+..++.++..
T Consensus 77 ~~siLpIVtsQRDRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~ 118 (248)
T PF08172_consen 77 DSSILPIVTSQRDRFRQRNAELEEELRKQQQTISSLRREVES 118 (248)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666676666777778899999999999999999988864
No 115
>COG0523 Putative GTPases (G3E family) [General function prediction only]
Probab=20.35 E-value=1.2e+02 Score=27.59 Aligned_cols=31 Identities=23% Similarity=0.321 Sum_probs=23.8
Q ss_pred eeeeecCCCCCHHHHHHHHHHHHHHHHHcCC
Q psy14699 11 VPVIAKADCLTRKEIQRLKKKVMDEIKQNGI 41 (195)
Q Consensus 11 IPVIaKADtLT~~El~~~K~~I~~~l~~~~I 41 (195)
+-||+|.|+.+++++..++..+++.=-...|
T Consensus 149 ~ivlNK~Dlv~~~~l~~l~~~l~~lnp~A~i 179 (323)
T COG0523 149 VIVLNKTDLVDAEELEALEARLRKLNPRARI 179 (323)
T ss_pred EEEEecccCCCHHHHHHHHHHHHHhCCCCeE
Confidence 3589999999999998888887765443333
No 116
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=20.29 E-value=2.3e+02 Score=27.11 Aligned_cols=60 Identities=18% Similarity=0.359 Sum_probs=36.7
Q ss_pred cceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccCCCCCCCCccHHHHHH-HHhhhCCCceEEEecCeeee
Q psy14699 8 VNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYPLPDCDSDEDEDYKEQ-VRQLKEAVPFAVCGANTVLE 80 (195)
Q Consensus 8 VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~fp~~~~dede~~~~~-~~~l~~~~PFaVvgs~~~~~ 80 (195)
|=|||+- ++....=..|.+.|+.+||.+.-- +.+...... ...-+..+||+||-+...++
T Consensus 479 v~Ii~~~--------~~~~~~a~~i~~~Lr~~gi~v~~d-----~~~~~l~kk~~~A~~~g~p~~iivG~~E~~ 539 (575)
T PRK12305 479 VVIIPVA--------DAHNEYAEEVAKKLRAAGIRVEVD-----TSNERLNKKIRNAQKQKIPYMLVVGDKEVE 539 (575)
T ss_pred EEEEEeC--------hHHHHHHHHHHHHHHHCCCEEEEE-----CCCCCHHHHHHHHHhcCCCEEEEEechhhh
Confidence 5567761 345566778999999999987521 112223222 22346789999877665543
No 117
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=20.19 E-value=1.3e+02 Score=25.73 Aligned_cols=37 Identities=16% Similarity=0.365 Sum_probs=24.8
Q ss_pred CccceeeeeecCCCCCHHHHHHHHHHHHHHHHHcCCCccC
Q psy14699 6 NKVNIVPVIAKADCLTRKEIQRLKKKVMDEIKQNGITIYP 45 (195)
Q Consensus 6 ~~VNIIPVIaKADtLT~~El~~~K~~I~~~l~~~~I~iy~ 45 (195)
..+.+|-|+.|+|.....+... ...+.+...|+++|.
T Consensus 66 ~~i~~vIV~NK~DL~~~~~~~~---~~~~~~~~~g~~v~~ 102 (245)
T TIGR00157 66 QNIEPIIVLNKIDLLDDEDMEK---EQLDIYRNIGYQVLM 102 (245)
T ss_pred CCCCEEEEEECcccCCCHHHHH---HHHHHHHHCCCeEEE
Confidence 4578899999999876554432 333455667877764
No 118
>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1. Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to
Probab=20.11 E-value=1.3e+02 Score=22.79 Aligned_cols=22 Identities=18% Similarity=0.212 Sum_probs=17.9
Q ss_pred ccceeeeeecCCCCCHHHHHHH
Q psy14699 7 KVNIVPVIAKADCLTRKEIQRL 28 (195)
Q Consensus 7 ~VNIIPVIaKADtLT~~El~~~ 28 (195)
..++|-|+.|+|..+..+....
T Consensus 120 ~~p~ivv~NK~Dl~~~~~~~~~ 141 (176)
T cd01881 120 AKPVIYVLNKIDLDDAEELEEE 141 (176)
T ss_pred hCCeEEEEEchhcCchhHHHHH
Confidence 5789999999999888776544
No 119
>TIGR00485 EF-Tu translation elongation factor TU. This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=20.10 E-value=1.6e+02 Score=26.81 Aligned_cols=32 Identities=19% Similarity=0.320 Sum_probs=23.0
Q ss_pred ceeeeeecCCCCCHHHH-HHHHHHHHHHHHHcC
Q psy14699 9 NIVPVIAKADCLTRKEI-QRLKKKVMDEIKQNG 40 (195)
Q Consensus 9 NIIPVIaKADtLT~~El-~~~K~~I~~~l~~~~ 40 (195)
.+|-|+.|.|.++.++. ...+..+.+.|...+
T Consensus 130 ~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~ 162 (394)
T TIGR00485 130 YIVVFLNKCDMVDDEELLELVEMEVRELLSEYD 162 (394)
T ss_pred EEEEEEEecccCCHHHHHHHHHHHHHHHHHhcC
Confidence 35578999999887664 335667777777766
No 120
>PF02046 COX6A: Cytochrome c oxidase subunit VIa; InterPro: IPR001349 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as VIa in vertebrates and fungi. Mammals have two tissue-specific isoforms of VIa, a liver and a heart form. Only one form is found in fish [].; GO: 0004129 cytochrome-c oxidase activity, 0005743 mitochondrial inner membrane, 0005751 mitochondrial respiratory chain complex IV; PDB: 2DYR_G 2EIM_G 2Y69_T 1OCC_G 3AG4_G 3AG2_G 3ASN_G 3ABL_G 1V55_T 2EIJ_T ....
Probab=20.02 E-value=37 Score=26.54 Aligned_cols=10 Identities=40% Similarity=1.511 Sum_probs=5.1
Q ss_pred eeeeccCCCe
Q psy14699 85 KVRGRQYPWG 94 (195)
Q Consensus 85 ~vrgR~YpWG 94 (195)
.+|...||||
T Consensus 91 ~iR~K~FPWG 100 (116)
T PF02046_consen 91 RIRTKPFPWG 100 (116)
T ss_dssp S--SS--SST
T ss_pred eecCCCCCCC
Confidence 5789999997
Done!