Query psy9631
Match_columns 90
No_of_seqs 111 out of 537
Neff 4.3
Searched_HMMs 46136
Date Sat Aug 17 00:40:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9631.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9631hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0050 TufB GTPases - transla 100.0 9.5E-32 2.1E-36 214.8 7.2 74 1-75 301-376 (394)
2 KOG0460|consensus 100.0 7.5E-31 1.6E-35 212.3 5.1 72 1-73 345-418 (449)
3 cd03706 mtEFTU_III Domain III 99.7 1.2E-17 2.7E-22 108.3 7.3 71 1-71 2-73 (93)
4 cd03707 EFTU_III Domain III of 99.7 2.6E-17 5.7E-22 105.8 6.8 71 1-71 2-73 (90)
5 cd04094 selB_III This family r 99.6 3.2E-15 6.9E-20 98.0 6.9 67 1-72 12-79 (97)
6 cd03708 GTPBP_III Domain III o 99.5 4.8E-14 1E-18 89.8 6.6 65 1-71 2-68 (87)
7 PLN03127 Elongation factor Tu; 99.4 2.3E-13 5.1E-18 110.2 6.6 69 2-71 355-425 (447)
8 PF03143 GTP_EFTU_D3: Elongati 99.4 1.3E-13 2.8E-18 91.1 3.7 66 2-72 5-79 (99)
9 cd01513 Translation_factor_III 99.3 1.7E-11 3.6E-16 78.9 6.5 64 1-69 2-77 (102)
10 cd03704 eRF3c_III This family 99.2 2.2E-11 4.8E-16 80.6 6.4 66 2-71 3-82 (108)
11 PRK12736 elongation factor Tu; 99.2 3.7E-11 8.1E-16 95.0 7.2 69 2-71 302-372 (394)
12 TIGR00485 EF-Tu translation el 99.2 6.8E-11 1.5E-15 93.2 7.4 69 2-71 302-372 (394)
13 PRK00049 elongation factor Tu; 99.1 2E-10 4.4E-15 91.1 7.5 69 2-71 304-374 (396)
14 cd03705 EF1_alpha_III Domain I 99.1 2.8E-10 6.2E-15 74.4 6.3 65 2-71 3-81 (104)
15 cd04093 HBS1_C HBS1_C: this fa 99.1 3.4E-10 7.4E-15 74.3 6.2 65 2-71 3-81 (107)
16 PRK12735 elongation factor Tu; 99.1 3.5E-10 7.6E-15 89.6 7.1 69 2-71 304-374 (396)
17 PLN03126 Elongation factor Tu; 99.0 1.5E-09 3.2E-14 89.2 7.3 70 2-71 381-456 (478)
18 CHL00071 tufA elongation facto 98.8 1.6E-08 3.4E-13 80.5 7.5 70 2-71 312-387 (409)
19 PLN00043 elongation factor 1-a 98.5 4.8E-07 1E-11 73.6 6.7 64 2-70 325-402 (447)
20 TIGR00483 EF-1_alpha translati 98.3 1.5E-06 3.3E-11 69.1 6.1 65 2-71 318-396 (426)
21 PTZ00327 eukaryotic translatio 98.3 2.4E-06 5.1E-11 70.3 6.7 64 2-73 357-430 (460)
22 PRK12317 elongation factor 1-a 98.3 3.1E-06 6.7E-11 67.2 7.0 65 2-71 316-394 (425)
23 PTZ00141 elongation factor 1- 98.1 1.1E-05 2.4E-10 65.6 6.9 65 2-71 325-403 (446)
24 PRK04000 translation initiatio 98.1 1.4E-05 2.9E-10 64.1 7.1 63 2-73 324-391 (411)
25 TIGR03680 eif2g_arch translati 97.7 0.00013 2.9E-09 58.1 6.6 63 2-73 319-386 (406)
26 PRK05506 bifunctional sulfate 97.5 0.00024 5.3E-09 59.5 6.6 64 2-71 330-405 (632)
27 cd04095 CysN_NoDQ_III TCysN_No 97.5 0.00056 1.2E-08 44.7 6.3 63 2-70 3-77 (103)
28 TIGR02034 CysN sulfate adenyly 97.3 0.00055 1.2E-08 54.7 5.8 63 2-70 306-380 (406)
29 PRK05124 cysN sulfate adenylyl 97.3 0.00086 1.9E-08 55.0 6.5 64 2-71 334-409 (474)
30 COG5258 GTPBP1 GTPase [General 95.4 0.03 6.5E-07 47.4 5.0 63 3-71 443-507 (527)
31 COG5256 TEF1 Translation elong 95.2 0.024 5.1E-07 47.4 3.9 63 3-70 323-399 (428)
32 PRK10512 selenocysteinyl-tRNA- 84.2 3.6 7.7E-05 35.3 6.3 43 20-71 275-318 (614)
33 TIGR00475 selB selenocysteine- 77.3 3.5 7.5E-05 35.0 3.9 42 21-71 275-317 (581)
34 COG3908 Uncharacterized protei 75.7 1.6 3.6E-05 28.8 1.3 48 40-88 13-62 (77)
35 TIGR02930 vnfG_nitrog V-contai 62.7 2 4.4E-05 30.1 -0.4 49 29-78 15-71 (109)
36 cd03698 eRF3_II_like eRF3_II_l 60.6 12 0.00027 23.3 3.0 32 30-61 32-67 (83)
37 TIGR02929 anfG_nitrog Fe-only 59.3 2.5 5.5E-05 29.6 -0.4 49 29-78 15-71 (109)
38 PF03139 AnfG_VnfG: Vanadium/a 58.4 2.7 5.9E-05 29.6 -0.4 10 29-38 18-27 (112)
39 COG1812 MetK Archaeal S-adenos 57.5 9.5 0.00021 31.9 2.5 53 26-78 247-310 (400)
40 KOG0463|consensus 56.9 23 0.00051 30.7 4.8 63 3-71 463-527 (641)
41 cd03695 CysN_NodQ_II CysN_NodQ 56.3 19 0.00041 22.6 3.3 46 11-61 18-67 (81)
42 PF09866 DUF2093: Uncharacteri 49.1 7.3 0.00016 23.2 0.5 21 51-71 2-22 (42)
43 COG5256 TEF1 Translation elong 49.1 20 0.00044 30.3 3.2 43 29-71 262-309 (428)
44 PF10653 Phage-A118_gp45: Prot 47.9 7.1 0.00015 24.6 0.3 23 62-87 31-53 (62)
45 cd04089 eRF3_II eRF3_II: domai 46.5 25 0.00053 21.9 2.7 41 30-70 31-76 (82)
46 KOG0052|consensus 45.8 29 0.00063 29.0 3.6 62 4-70 269-344 (391)
47 cd03693 EF1_alpha_II EF1_alpha 42.8 37 0.00081 21.5 3.1 42 30-71 36-82 (91)
48 PF02305 Phage_F: Capsid prote 37.9 29 0.00062 30.0 2.5 43 28-72 15-59 (510)
49 TIGR03172 probable selenium-de 36.5 19 0.00042 27.5 1.2 73 10-83 100-192 (232)
50 PF13567 DUF4131: Domain of un 35.2 94 0.002 20.0 4.2 28 38-66 113-145 (176)
51 PF07610 DUF1573: Protein of u 32.6 35 0.00075 19.3 1.6 24 37-61 20-43 (45)
52 KOG1143|consensus 31.4 61 0.0013 28.1 3.4 63 4-71 499-563 (591)
53 PF05354 Phage_attach: Phage H 31.3 26 0.00057 24.8 1.1 40 24-64 58-107 (117)
54 cd03696 selB_II selB_II: this 30.9 89 0.0019 19.2 3.4 32 30-61 32-67 (83)
55 PF06312 Neurexophilin: Neurex 28.9 1.3E+02 0.0029 23.1 4.7 52 15-67 59-120 (219)
56 cd03694 GTPBP_II Domain II of 28.8 45 0.00098 21.0 1.8 33 38-70 44-81 (87)
57 TIGR03228 anthran_1_2_A anthra 28.4 18 0.0004 30.1 -0.1 49 30-83 33-88 (438)
58 PF09173 eIF2_C: Initiation fa 25.4 2.1E+02 0.0045 19.0 5.2 61 3-72 2-68 (88)
59 TIGR03229 benzo_1_2_benA benzo 23.9 24 0.00052 29.3 -0.2 47 30-81 33-86 (433)
60 cd03697 EFTU_II EFTU_II: Elong 22.0 62 0.0014 20.2 1.5 26 46-71 54-80 (87)
61 TIGR03424 urea_degr_1 urea car 22.0 73 0.0016 23.9 2.1 42 30-79 137-181 (198)
62 PF07703 A2M_N_2: Alpha-2-macr 21.3 49 0.0011 21.6 0.9 16 47-62 102-118 (136)
63 COG3745 CpaB Flp pilus assembl 20.6 93 0.002 25.0 2.5 28 31-64 132-160 (276)
No 1
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=9.5e-32 Score=214.80 Aligned_cols=74 Identities=34% Similarity=0.512 Sum_probs=71.2
Q ss_pred CCceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec-CCceeecCCCCccceE-eecccccccccccc
Q psy9631 1 MHDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-GGKDMFMPGEDGNPDP-LRGPMRPHHLLLQS 75 (90)
Q Consensus 1 ~~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l-~~~~mvMPGD~~~~~v-L~~pm~ie~~l~~~ 75 (90)
+|++|+|+||+|+|||||||+||++||||||||||+||||.+ .+ ++++|||||||++|++ |++|++||+|++=+
T Consensus 301 ph~kfeaevyvL~keeggrhtpff~~yrpqfyfRttDVtg~i-~l~eg~emvmpgdnv~~~veLi~pia~e~G~rFa 376 (394)
T COG0050 301 PHTKFEAEVYVLSKEEGGRHTPFFHGYRPQFYFRTTDVTGAI-TLPEGVEMVMPGDNVKMVVELIHPIAMEEGLRFA 376 (394)
T ss_pred ccceeeEEEEEEecccCCCCCCcccCccceeEEEeeeeeeeE-eccCCcceecCCCceEEEEEEeeeeecCCCCEEE
Confidence 699999999999999999999999999999999999999998 88 8899999999999999 99999999999743
No 2
>KOG0460|consensus
Probab=99.96 E-value=7.5e-31 Score=212.34 Aligned_cols=72 Identities=40% Similarity=0.724 Sum_probs=69.1
Q ss_pred CCceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec-CCceeecCCCCccceE-eecccccccccc
Q psy9631 1 MHDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-GGKDMFMPGEDGNPDP-LRGPMRPHHLLL 73 (90)
Q Consensus 1 ~~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l-~~~~mvMPGD~~~~~v-L~~pm~ie~~l~ 73 (90)
+|+||+||+|||||+|||||+||.++|+||||+||||++|++ ++ +.++||||||++++.+ |++||+||+|.+
T Consensus 345 ~~~k~ea~~YiLsk~EGGR~~pf~s~y~~q~fs~TwD~~~~v-~~~~~~~mvMPGe~~~~~~~Li~pm~le~Gqr 418 (449)
T KOG0460|consen 345 PHNKFEAQLYILSKEEGGRHKPFVSGYRPQMFSRTWDVTGRV-DIPPEKEMVMPGENVKVEVTLIRPMPLEKGQR 418 (449)
T ss_pred ccceeeEEEEEEEhhhCCCccchhhccchhheeeecccceEE-EccChHhcccCCCCeEEEEEEecccccCCCce
Confidence 589999999999999999999999999999999999999999 88 5589999999999999 999999999865
No 3
>cd03706 mtEFTU_III Domain III of mitochondrial EF-TU (mtEF-TU). mtEF-TU is highly conserved and is 55-60% identical to bacterial EF-TU. The overall structure is similar to that observed in the Escherichia coli and Thermus aquaticus EF-TU. However, compared with that observed in prokaryotic EF-TU the nucleotide-binding domain (domain I) of EF-TUmt is in a different orientation relative to the rest of the structure. Furthermore, domain III is followed by a short 11-amino acid extension that forms one helical turn. This extension seems to be specific to the mitochondrial factors and has not been observed in any of the prokaryotic factors.
Probab=99.73 E-value=1.2e-17 Score=108.32 Aligned_cols=71 Identities=49% Similarity=0.737 Sum_probs=65.7
Q ss_pred CCceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE-eecccccccc
Q psy9631 1 MHDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 1 ~~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
++++|+|++++|+++||||++||.+||++++|+.||+++|+|..+++.++++|||...+.+ |.+|++++.|
T Consensus 2 ~~~~f~a~i~~L~~~~~g~~~~i~~g~~~~~~~~t~~~~~~i~~~~~~~~l~~g~~~~v~i~l~~p~~~~~g 73 (93)
T cd03706 2 PHDKVEAQVYILSKAEGGRHKPFVSNFQPQMFSLTWDCAARIDLPPGKEMVMPGEDTKVTLILRRPMVLEKG 73 (93)
T ss_pred cceEEEEEEEEEcccccCCCccccCCCeeEEEeccceEEEEEECCCCCcEeCCCCEEEEEEEECCcEEEeeC
Confidence 4689999999999999999999999999999999999999993346677899999999999 9999999986
No 4
>cd03707 EFTU_III Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts). EF-Ts is the guanine-nucleotide-exchange factor for EF-Tu. EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu complexed with GTP and aminoacyl-tRNA delivers tRNA to the ribosome, whereas EF-G stimulates translocation, a process in which tRNA and mRNA movements occur in the ribosome. Crystallographic studies revealed structural similarities ("molecular mimicry") between tertiary structures of EF-G and the EF-Tu-aminoacyl-tRNA ternary complex. Domains III, IV, and V of EF-G mimic the tRNA structure in the EF-Tu ternary complex; domains III, IV and V can be related to the acceptor stem, anticodon helix
Probab=99.71 E-value=2.6e-17 Score=105.82 Aligned_cols=71 Identities=35% Similarity=0.528 Sum_probs=65.5
Q ss_pred CCceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE-eecccccccc
Q psy9631 1 MHDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 1 ~~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
++++|+|++++|+.+||||.+|+.+||++++++.||+++|+|..+++.++++|||.+.+.+ |.+|++++++
T Consensus 2 ~~~~~~a~i~~l~~~~~g~~~~i~~g~~~~l~~gt~~~~~~i~~l~~~~~i~~g~~~~v~l~l~~pv~~~~~ 73 (90)
T cd03707 2 PHTKFEAEVYVLTKEEGGRHTPFFSGYRPQFYIRTTDVTGSITLPEGTEMVMPGDNVKMTVELIHPIALEKG 73 (90)
T ss_pred ceeEEEEEEEEEcccccCCCCcccCCceeEEEeccCeEEEEEEccCcccccCCCCEEEEEEEECCcEEEecC
Confidence 3689999999999999999999999999999999999999993337778899999999999 9999999986
No 5
>cd04094 selB_III This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. 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' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation.
Probab=99.60 E-value=3.2e-15 Score=98.01 Aligned_cols=67 Identities=21% Similarity=0.297 Sum_probs=62.6
Q ss_pred CCceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE-eeccccccccc
Q psy9631 1 MHDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-LRGPMRPHHLL 72 (90)
Q Consensus 1 ~~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L~~pm~ie~~l 72 (90)
+++++.+++|+|+++| +||.+++++|+|+.||+++|+| .+.+.+++||||+..+++ |.+|++++.|-
T Consensus 12 ~~~~~~~~i~~l~~~~----~~l~~~~~v~~~~Gt~~v~~ri-~ll~~~~~~pg~~~~a~l~l~~pl~~~~gd 79 (97)
T cd04094 12 PTRRLDVRLTVLLSAP----RPLKHRQRVHLHHGTSEVLARV-VLLDRDELAPGEEALAQLRLEEPLVALRGD 79 (97)
T ss_pred CceEEEEEEEEECCCC----ccCCCCCeEEEEeccceEEEEE-EeCCccccCCCCEEEEEEEECCcEeecCCC
Confidence 4789999999999998 8999999999999999999999 785679999999999999 99999999883
No 6
>cd03708 GTPBP_III Domain III of the GP-1 family of GTPase. This group includes proteins similar to GTPBP1 and GTPBP2. GTPB1 is structurally, related to elongation factor 1 alpha, a key component of protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.
Probab=99.51 E-value=4.8e-14 Score=89.76 Aligned_cols=65 Identities=23% Similarity=0.196 Sum_probs=57.3
Q ss_pred CCceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE-e-ecccccccc
Q psy9631 1 MHDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-L-RGPMRPHHL 71 (90)
Q Consensus 1 ~~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L-~~pm~ie~~ 71 (90)
++++|+|++|+|++ .+||.+||+|++|++|||+.|+|..+. .+++||||...+.+ | .+|+.+|++
T Consensus 2 ~~~~f~A~i~il~~-----~~~i~~Gy~~~l~~~t~~~~~~i~~i~-~~~l~~g~~~~v~i~f~~~p~~~e~~ 68 (87)
T cd03708 2 ACWEFEAEILVLHH-----PTTISPGYQATVHIGSIRQTARIVSID-KDVLRTGDRALVRFRFLYHPEYLREG 68 (87)
T ss_pred ceeEEEEEEEEEcC-----CCcccCCCEeEEEEcCCEEEEEEEecc-HhhccCCCeEEEEEEECCCCcEEccC
Confidence 46899999999997 489999999999999999999994443 38999999999999 6 699988885
No 7
>PLN03127 Elongation factor Tu; Provisional
Probab=99.43 E-value=2.3e-13 Score=110.18 Aligned_cols=69 Identities=33% Similarity=0.551 Sum_probs=65.5
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec-CCceeecCCCCccceE-eecccccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-GGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l-~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
.++|+|+|++|..+||||++||.+||+|++|++|++++|+| .+ ++.++++|||++.+++ |.+|+++|.+
T Consensus 355 ~~~F~A~i~vl~~~~gg~~~~i~~g~~~~~~~~t~~~~~~i-~~~~~~~~l~~gd~a~v~l~~~~p~~le~g 425 (447)
T PLN03127 355 YKKFEAEIYVLTKDEGGRHTPFFSNYRPQFYLRTADVTGKV-ELPEGVKMVMPGDNVTAVFELISPVPLEPG 425 (447)
T ss_pred eEEEEEEEEEEcccccccCcccccCceeEEEeeecceeEEE-EeccCccccCCCCEEEEEEEECceEEEeeC
Confidence 57999999999999999999999999999999999999999 76 6778999999999999 9999999986
No 8
>PF03143 GTP_EFTU_D3: Elongation factor Tu C-terminal domain; InterPro: IPR004160 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. EF1A (also known as EF-1alpha or EF-Tu) is a G-protein. It forms a ternary complex of EF1A-GTP-aminoacyltRNA. The binding of aminoacyl-tRNA stimulates GTP hydrolysis by EF1A, causing a conformational change in EF1A that causes EF1A-GDP to detach from the ribosome, leaving the aminoacyl-tRNA attached at the A-site. Only the cognate aminoacyl-tRNA can induce the required conformational change in EF1A through its tight anticodon-codon binding [, ]. EF1A-GDP is returned to its active state, EF1A-GTP, through the action of another elongation factor, EF1B (also known as EF-Ts or EF-1beta/gamma/delta). EF1A consists of three structural domains. This entry represents the C-terminal domain, which adopts a beta-barrel structure, and is involved in binding to both charged tRNA and to EF1B (or EF-Ts, IPR001816 from INTERPRO) []. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005525 GTP binding; PDB: 1TUI_C 1OB5_E 1TTT_B 1B23_P 1EFT_A 3E20_E 1R5B_A 1R5O_A 1R5N_A 3AGJ_C ....
Probab=99.42 E-value=1.3e-13 Score=91.11 Aligned_cols=66 Identities=24% Similarity=0.386 Sum_probs=58.0
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec-----C-Cc--eeecCCCCccceE-eeccccccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-----G-GK--DMFMPGEDGNPDP-LRGPMRPHHLL 72 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l-----~-~~--~mvMPGD~~~~~v-L~~pm~ie~~l 72 (90)
.++|+|+|++|.. .+|+..||+++||++||+++|++..+ . ++ ++++|||.+.+.+ +.+|+++|.+-
T Consensus 5 ~~~f~A~v~vl~~-----~~~i~~Gy~~~~~~~t~~~~~~i~~i~~~~~~~~~~p~~l~~g~~a~v~l~~~~pi~ve~~~ 79 (99)
T PF03143_consen 5 VNRFEAQVIVLDH-----PKPISPGYQPVLHIHTADVPCRIVKIISKIDTGKKKPKFLKPGDRAVVELEFQKPICVEPFS 79 (99)
T ss_dssp EEEEEEEEEESSG-----SS-BETTEEEEEEETTEEEEEEEEEEEEEESTTTEE-SEB-TTEEEEEEEEEEEEEEETTTT
T ss_pred cCEEEEEEEEEcC-----CccccCCCccceEEeeceeeEEEEeeeeccccccccccccccccccccceeeccceeeecCc
Confidence 5799999999998 89999999999999999999988566 2 33 7999999999999 99999999875
No 9
>cd01513 Translation_factor_III Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu complexed with GTP and aminoacyl-tRNA delivers tRNA to the ribosome, whereas EF-G stimulates translocation, a process in which tRNA and mRNA movements occur in the ribosome. Experimental data showed that: (1) intrinsic GTPase activity of EF-G is influenced by excision of its domain III; (2) that EF-G lacking domain III has a 1,000-fold decreased GTPase activity on the ribosome and, a slightly decreased affinity for GTP; and (3) EF-G lacking domain III does not stimulate translocation, despite the physical presence of domain IV which is also very important for translocation. These findings indicate an essential contribution of domain III to activation of GTP hydrolysis. Domains III and V of EF-G have the s
Probab=99.26 E-value=1.7e-11 Score=78.91 Aligned_cols=64 Identities=27% Similarity=0.367 Sum_probs=57.2
Q ss_pred CCceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecC-----------CceeecCCCCccceE-eeccccc
Q psy9631 1 MHDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMG-----------GKDMFMPGEDGNPDP-LRGPMRP 68 (90)
Q Consensus 1 ~~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~-----------~~~mvMPGD~~~~~v-L~~pm~i 68 (90)
++++|+|+|++|+.++ |+..||++++++.|++++|+|..+. ..++++|||.+.+.+ |.+|+++
T Consensus 2 ~~~~f~a~i~~l~~~~-----pl~~g~~~~l~~~t~~~~~~i~~i~~~~d~~~~~~~~~~~l~~~~~a~v~l~~~~pi~~ 76 (102)
T cd01513 2 AVDKFVAEIYVLDHPE-----PLSPGYKPVLNVGTAHVPGRIAKLLSKVDGKTEEKKPPEFLKSGERGIVEVELQKPVAL 76 (102)
T ss_pred cccEEEEEEEEECCCc-----ccCCCCcEEEEeecCEEeEEEEeeeeecccCcccccCchhhcCCCEEEEEEEECCceEE
Confidence 4689999999999854 9999999999999999999994443 257999999999999 9999998
Q ss_pred c
Q psy9631 69 H 69 (90)
Q Consensus 69 e 69 (90)
|
T Consensus 77 e 77 (102)
T cd01513 77 E 77 (102)
T ss_pred E
Confidence 8
No 10
>cd03704 eRF3c_III This family represents eEF1alpha-like C-terminal region of eRF3 homologous to the domain III of EF-Tu. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. The C-terminal region is responsible for translation termination activity and is essential for viability. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-like protein with the property of aggregating into polymer-like fibrils.
Probab=99.24 E-value=2.2e-11 Score=80.60 Aligned_cols=66 Identities=18% Similarity=0.064 Sum_probs=57.5
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec-----C--------CceeecCCCCccceE-eecccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-----G--------GKDMFMPGEDGNPDP-LRGPMR 67 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l-----~--------~~~mvMPGD~~~~~v-L~~pm~ 67 (90)
.++|+|+|++|+.+ ++|+..||+|+||++|++++|+|..+ . +-++++|||.+.+.+ +.+|++
T Consensus 3 ~~~F~A~i~vl~~~----~~~i~~Gy~~~l~~~t~~~~~~i~~i~~~~d~~~g~~~~~~p~~l~~g~~a~v~i~~~~pi~ 78 (108)
T cd03704 3 VTEFEAQIAILELK----RSIITAGYSAVLHIHTAVEEVTIKKLIALIDKKTGKKSKKRPRFVKSGMKVIARLETTGPIC 78 (108)
T ss_pred ccEEEEEEEEEeCC----CCcCcCCCEEEEEEcccEEeEEEehhhhhhccccCcccccCCcEeCCCCEEEEEEEeCCcEE
Confidence 47899999999975 67899999999999999999999543 1 125999999999999 999999
Q ss_pred cccc
Q psy9631 68 PHHL 71 (90)
Q Consensus 68 ie~~ 71 (90)
+|.+
T Consensus 79 ~e~~ 82 (108)
T cd03704 79 LEKF 82 (108)
T ss_pred EEEc
Confidence 9975
No 11
>PRK12736 elongation factor Tu; Reviewed
Probab=99.21 E-value=3.7e-11 Score=95.00 Aligned_cols=69 Identities=35% Similarity=0.600 Sum_probs=64.9
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec-CCceeecCCCCccceE-eecccccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-GGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l-~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
.++|+|++++|+.+||||.+|+..||++++|+.|++++|+| .+ ++.+.+.|||...+.+ |.+|+.+|.+
T Consensus 302 ~~~f~a~i~vl~~~~~~~~~~i~~g~~~~l~~~t~~~~~~i-~~~~~~~~l~~g~~a~v~l~~~~p~~~~~~ 372 (394)
T PRK12736 302 HTKFKAEVYILTKEEGGRHTPFFNNYRPQFYFRTTDVTGSI-ELPEGTEMVMPGDNVTITVELIHPIAMEQG 372 (394)
T ss_pred ceEEEEEEEEEecccCCCCCcccCCceEEEEEccCeEEEEE-EecCCcceeCCCCEEEEEEEECceEEEeeC
Confidence 57899999999999999999999999999999999999999 77 6677899999999999 9999999986
No 12
>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=99.18 E-value=6.8e-11 Score=93.25 Aligned_cols=69 Identities=35% Similarity=0.589 Sum_probs=64.8
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec-CCceeecCCCCccceE-eecccccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-GGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l-~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
.+.|+|+|++|..++|||++|+..||++++|+.|++++|+| .+ ++.+.++|||.+.+.+ |.+|+++|.+
T Consensus 302 ~~~f~a~i~vl~~~~g~~~~~i~~g~~~~l~~~t~~~~~~i-~~~~~~~~l~~g~~a~v~~~~~~p~~~~~~ 372 (394)
T TIGR00485 302 HTKFEAEVYVLKKEEGGRHTPFFSGYRPQFYFRTTDVTGSI-TLPEGVEMVMPGDNVKMTVELISPIALEQG 372 (394)
T ss_pred ceEEEEEEEEEecCCCCCCCccccCceEEEEEecceEEEEE-EecCCcceeCCCCEEEEEEEECceEEEeEC
Confidence 57899999999999999999999999999999999999999 66 6677899999999999 9999999986
No 13
>PRK00049 elongation factor Tu; Reviewed
Probab=99.12 E-value=2e-10 Score=91.06 Aligned_cols=69 Identities=35% Similarity=0.590 Sum_probs=65.1
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec-CCceeecCCCCccceE-eecccccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-GGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l-~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
.++|+|+|++|..++|||.+|+..||++++++.|+.++|+| .+ ++.+.+.|||.+.+.+ +.+|+.+|.+
T Consensus 304 ~~~f~a~i~vl~~~~~g~~~~i~~g~~~~~~~~t~~~~~~i-~l~~~~~~l~~g~~a~v~i~~~~p~~~e~~ 374 (396)
T PRK00049 304 HTKFEAEVYVLSKEEGGRHTPFFNGYRPQFYFRTTDVTGVI-ELPEGVEMVMPGDNVEMTVELIAPIAMEEG 374 (396)
T ss_pred ceEEEEEEEEEecCcCCCCCcccCCCEEEEEEecCcEEEEE-EecCCCcccCCCCEEEEEEEECceEEEeeC
Confidence 57899999999999999999999999999999999999999 77 6777899999999999 9999999986
No 14
>cd03705 EF1_alpha_III Domain III of EF-1. Eukaryotic elongation factor 1 (EF-1) is responsible for the GTP-dependent binding of aminoacyl-tRNAs to ribosomes. EF-1 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 family is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF-1 alpha) and eukaryotes (eEF-1 alpha).
Probab=99.10 E-value=2.8e-10 Score=74.38 Aligned_cols=65 Identities=15% Similarity=0.210 Sum_probs=57.0
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec-C------------CceeecCCCCccceE-eecccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-G------------GKDMFMPGEDGNPDP-LRGPMR 67 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l-~------------~~~mvMPGD~~~~~v-L~~pm~ 67 (90)
.++|+|+|++|.. .+||..||++++++.|++++|+|..+ . +.++++|||.+.+++ |.+|++
T Consensus 3 ~~~f~A~v~~l~~-----~~pl~~G~~~~~~~~t~~~~~~I~~i~~~~d~~t~~~~~~~~~~l~~n~~a~v~l~~~~pi~ 77 (104)
T cd03705 3 AESFTAQVIVLNH-----PGQIKPGYTPVLDCHTAHVACRFAEILSKIDPRTGKKLEENPKFLKSGDAAIVKIVPQKPLV 77 (104)
T ss_pred ccEEEEEEEEECC-----CCcccCCceEEEEeccceEeEEEEhhhhhhccccCCccccCcCccCCCCEEEEEEEECCeeE
Confidence 5789999999995 47999999999999999999999544 1 126999999999999 999999
Q ss_pred cccc
Q psy9631 68 PHHL 71 (90)
Q Consensus 68 ie~~ 71 (90)
+|++
T Consensus 78 ~e~~ 81 (104)
T cd03705 78 VETF 81 (104)
T ss_pred EEEc
Confidence 9974
No 15
>cd04093 HBS1_C HBS1_C: this family represents the C-terminal domain of Hsp70 subfamily B suppressor 1 (HBS1) which is homologous to the domain III of EF-1alpha. This group contains proteins similar to yeast Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation and, to associate with Dom34. It has been speculated that yeast Hbs1 and Dom34 proteins may function as part of a complex with a role in gene expression.
Probab=99.08 E-value=3.4e-10 Score=74.33 Aligned_cols=65 Identities=15% Similarity=0.268 Sum_probs=56.8
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec----C---------CceeecCCCCccceE-eecccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM----G---------GKDMFMPGEDGNPDP-LRGPMR 67 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l----~---------~~~mvMPGD~~~~~v-L~~pm~ 67 (90)
.++|+|+|++|..+ +|+..||++++++.|+++.|+|..+ + ..++++|||.+.+++ +.+|++
T Consensus 3 ~~~f~A~v~~l~~~-----~pl~~G~~~~l~~~t~~~~~~v~~I~~~~d~~t~~~~~~~~~~l~~~~~a~v~l~~~~pi~ 77 (107)
T cd04093 3 STRFEARILTFNVD-----KPILPGTPFELFRHSLKEPATITKLVSILDKSTGEVSKKKPRCLTKGQTAIVEIELERPIP 77 (107)
T ss_pred ccEEEEEEEEECCC-----cccCCCCcEEEEecccEEeEEEEEeeEEeccCCCcEeccCCcCcCCCCEEEEEEEECCeEE
Confidence 57899999999974 7999999999999999999998543 1 126899999999999 999999
Q ss_pred cccc
Q psy9631 68 PHHL 71 (90)
Q Consensus 68 ie~~ 71 (90)
+|.+
T Consensus 78 ~e~~ 81 (107)
T cd04093 78 LELF 81 (107)
T ss_pred EEEc
Confidence 9974
No 16
>PRK12735 elongation factor Tu; Reviewed
Probab=99.07 E-value=3.5e-10 Score=89.56 Aligned_cols=69 Identities=35% Similarity=0.599 Sum_probs=64.6
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec-CCceeecCCCCccceE-eecccccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-GGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l-~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
.++|+|+|++|...+|||.+|+..||++++|+.|++++|+| .+ ++.+.+.|||.+.+.+ |.+|+.+|.+
T Consensus 304 ~~~f~a~i~vl~~~~~~~~~~i~~g~~~~l~~~t~~~~~~i-~~~~~~~~l~~g~~a~v~l~~~~p~~~~~~ 374 (396)
T PRK12735 304 HTKFEAEVYVLSKEEGGRHTPFFNGYRPQFYFRTTDVTGTI-ELPEGVEMVMPGDNVKMTVELIAPIAMEEG 374 (396)
T ss_pred ceEEEEEEEEEecccCCCCCcccCCCeeEEEeccceEEEEE-EccCCCceeCCCCEEEEEEEECceEEEeEC
Confidence 57899999999999999999999999999999999999999 66 6667899999999999 9999999986
No 17
>PLN03126 Elongation factor Tu; Provisional
Probab=98.98 E-value=1.5e-09 Score=89.15 Aligned_cols=70 Identities=31% Similarity=0.476 Sum_probs=63.2
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecC-----CceeecCCCCccceE-eecccccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMG-----GKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~-----~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
.++|+|+|++|..+||||++|+..||++++++.|+.++|+|..+. ..+.+.|||.+.+.+ |.+|++++.+
T Consensus 381 ~~~F~A~i~vL~~~~gg~~~~I~~G~~~~lhigt~~~~~~I~~i~~~~~~~~~~l~~gd~a~v~l~~~~Pi~~~~~ 456 (478)
T PLN03126 381 HTKFEAIVYVLKKEEGGRHSPFFAGYRPQFYMRTTDVTGKVTSIMNDKDEESKMVMPGDRVKMVVELIVPVACEQG 456 (478)
T ss_pred eEEEEEEEEEecccccCCcccccCCcEEEEEEEecEEEEEEEEEecccCCCccEeCCCCEEEEEEEECCeEEEccC
Confidence 578999999999999999999999999999999999999995452 236799999999999 9999999975
No 18
>CHL00071 tufA elongation factor Tu
Probab=98.81 E-value=1.6e-08 Score=80.50 Aligned_cols=70 Identities=37% Similarity=0.577 Sum_probs=63.5
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecCC-----ceeecCCCCccceE-eecccccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMGG-----KDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~~-----~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
.++|+|+|.+|..++|||.+|+..||++++++.|..++|+|..+.. .+.+.|||.+.+.+ |.+|+++|.+
T Consensus 312 ~~~f~a~i~~l~~~~~~~~~~i~~g~~~~~~~gt~~~~~~i~~i~~~~~~~~~~l~~g~~a~v~l~~~~pi~~e~~ 387 (409)
T CHL00071 312 HTKFEAQVYILTKEEGGRHTPFFPGYRPQFYVRTTDVTGKIESFTADDGSKTEMVMPGDRIKMTVELIYPIAIEKG 387 (409)
T ss_pred ceEEEEEEEEEecccCCccccccCCceEEEEEcccEEEEEEEEEcccCCCCCcEecCCCEEEEEEEECCeEEEeeC
Confidence 5789999999999999999999999999999999999999955532 45889999999999 9999999975
No 19
>PLN00043 elongation factor 1-alpha; Provisional
Probab=98.45 E-value=4.8e-07 Score=73.57 Aligned_cols=64 Identities=13% Similarity=0.177 Sum_probs=55.3
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec----C---C------ceeecCCCCccceE-eecccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM----G---G------KDMFMPGEDGNPDP-LRGPMR 67 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l----~---~------~~mvMPGD~~~~~v-L~~pm~ 67 (90)
.++|+|+|++|.. .+|+..||+|.+++.|++++|+|..+ + + -.+++|||.+.+.+ +.+|++
T Consensus 325 ~~~F~A~i~~l~~-----~~~i~~gy~~~~~~~t~~~~~~i~~i~~~ld~~t~~~~~~~p~~l~~~~~a~v~i~~~~pi~ 399 (447)
T PLN00043 325 AANFTSQVIIMNH-----PGQIGNGYAPVLDCHTSHIAVKFAEILTKIDRRSGKELEKEPKFLKNGDAGFVKMIPTKPMV 399 (447)
T ss_pred ccEEEEEEEEECC-----CCCCCCCCeEEEEEccCEEEEEEEEeEEEeccCCccccccCcccccCCCEEEEEEEECCcEE
Confidence 5799999999974 37999999999999999999987444 1 1 14899999999999 999999
Q ss_pred ccc
Q psy9631 68 PHH 70 (90)
Q Consensus 68 ie~ 70 (90)
+|.
T Consensus 400 ~e~ 402 (447)
T PLN00043 400 VET 402 (447)
T ss_pred EEe
Confidence 997
No 20
>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=98.30 E-value=1.5e-06 Score=69.09 Aligned_cols=65 Identities=17% Similarity=0.108 Sum_probs=55.8
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecC-------------CceeecCCCCccceE-eecccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMG-------------GKDMFMPGEDGNPDP-LRGPMR 67 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~-------------~~~mvMPGD~~~~~v-L~~pm~ 67 (90)
.++|+|+|.+|... +|+..||+|.+++.|+.++|+|..+. .-+.+.|||.+.+++ |.+|++
T Consensus 318 ~~~f~a~v~~l~~~-----~~i~~g~~~~~~~~t~~~~~~i~~i~~~~~~~t~~~~~~~p~~l~~g~~a~v~l~~~~pi~ 392 (426)
T TIGR00483 318 AKEFTAQIVVLQHP-----GAITVGYTPVFHCHTAQIACRFDELLKKNDPRTGQVLEENPQFLKTGDAAIVKFKPTKPMV 392 (426)
T ss_pred eeEEEEEEEEECCC-----CccCCCCeEEEEecCcEEEEEEEEEEEEecCccccccCCCCceeCCCCEEEEEEEECCeeE
Confidence 46899999999753 69999999999999999999995551 124889999999999 999999
Q ss_pred cccc
Q psy9631 68 PHHL 71 (90)
Q Consensus 68 ie~~ 71 (90)
+|..
T Consensus 393 ~e~~ 396 (426)
T TIGR00483 393 IEAV 396 (426)
T ss_pred Eeec
Confidence 9963
No 21
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=98.27 E-value=2.4e-06 Score=70.27 Aligned_cols=64 Identities=14% Similarity=0.178 Sum_probs=52.8
Q ss_pred CceeEEEEEEEec-----ccCCcc----CCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE-eecccccccc
Q psy9631 2 HDHVEAQIYLLTK-----EEGGRT----RPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 2 ~~kfeAqvYiLtk-----EEGGR~----tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
.+.|+|++++|.. +||||+ +|+..||++++++.|++++|+|..++ +|. .+++ |.+|++++.|
T Consensus 357 ~~~~~a~v~~L~~~~~~~~~~~~~~~~~~~l~~g~~~~l~~gt~~~~~~i~~i~-------~~~-~~~l~l~~P~~~~~g 428 (460)
T PTZ00327 357 YAEIEIQYYLLRRLLGVKSQDGKKATKVAKLKKGESLMINIGSTTTGGRVVGIK-------DDG-IAKLELTTPVCTSVG 428 (460)
T ss_pred eEEEEEEEEEecccccccccccccccCCcccCCCCEEEEEecccEEEEEEEEeC-------CCe-EEEEEECccEeccCC
Confidence 4689999999987 688986 89999999999999999999993232 222 6678 9999999988
Q ss_pred cc
Q psy9631 72 LL 73 (90)
Q Consensus 72 l~ 73 (90)
-+
T Consensus 429 dr 430 (460)
T PTZ00327 429 EK 430 (460)
T ss_pred CE
Confidence 54
No 22
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=98.26 E-value=3.1e-06 Score=67.16 Aligned_cols=65 Identities=15% Similarity=0.120 Sum_probs=56.1
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecC-------------CceeecCCCCccceE-eecccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMG-------------GKDMFMPGEDGNPDP-LRGPMR 67 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~-------------~~~mvMPGD~~~~~v-L~~pm~ 67 (90)
.++|+|+|++|.. .+|+..||++.+++.|+.++|+|..+. ..+.+.|||.+.+.+ |.+|++
T Consensus 316 ~~~f~a~v~~l~~-----~~~i~~G~~~~~~~~t~~~~~~i~~i~~~~d~~t~~~~~~~p~~l~~g~~a~v~l~~~~p~~ 390 (425)
T PRK12317 316 AEEFTAQIVVLQH-----PSAITVGYTPVFHAHTAQVACTFEELVKKLDPRTGQVAEENPQFIKTGDAAIVKIKPTKPLV 390 (425)
T ss_pred ccEEEEEEEEECC-----CCcCCCCCeEEEEEcCcEEEEEEEEEEEEeccccccccCCCCcEECCCCEEEEEEEECCeeE
Confidence 4789999999964 379999999999999999999995551 124899999999999 999999
Q ss_pred cccc
Q psy9631 68 PHHL 71 (90)
Q Consensus 68 ie~~ 71 (90)
+|.+
T Consensus 391 ~~~~ 394 (425)
T PRK12317 391 IEKV 394 (425)
T ss_pred EEeC
Confidence 9975
No 23
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=98.08 E-value=1.1e-05 Score=65.57 Aligned_cols=65 Identities=12% Similarity=0.109 Sum_probs=56.0
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec-C--C----------ceeecCCCCccceE-eecccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-G--G----------KDMFMPGEDGNPDP-LRGPMR 67 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l-~--~----------~~mvMPGD~~~~~v-L~~pm~ 67 (90)
.++|+|+|++|... +|+..||+|.+++.|+.++|+|..+ . + .+.+.|||...+.+ |.+|++
T Consensus 325 ~~~f~a~i~~l~~~-----~~i~~G~~~vl~~~t~~~~~~i~~i~~~ld~~t~~~~~~~p~~l~~g~~a~v~l~~~~pi~ 399 (446)
T PTZ00141 325 CADFTAQVIVLNHP-----GQIKNGYTPVLDCHTAHIACKFAEIESKIDRRSGKVLEENPKAIKSGDAAIVKMVPTKPMC 399 (446)
T ss_pred ceEEEEEEEEECCC-----CccCCCCeEEEEEeceEEEEEEEEEEEEeccccccccCCCCcEECCCCEEEEEEEECCceE
Confidence 47899999999854 7999999999999999999999555 1 1 14899999999999 999999
Q ss_pred cccc
Q psy9631 68 PHHL 71 (90)
Q Consensus 68 ie~~ 71 (90)
+|.+
T Consensus 400 ~e~~ 403 (446)
T PTZ00141 400 VEVF 403 (446)
T ss_pred Eeec
Confidence 9964
No 24
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=98.07 E-value=1.4e-05 Score=64.15 Aligned_cols=63 Identities=11% Similarity=0.130 Sum_probs=54.3
Q ss_pred CceeEEEEEEEecccCCc----cCCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE-eecccccccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGR----TRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-LRGPMRPHHLLL 73 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR----~tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L~~pm~ie~~l~ 73 (90)
.++|+|+|++|...|||| .+|+..||++++++.|+.++|+|+.++ +| .+.| |.+|++++.|-+
T Consensus 324 ~~~f~a~v~~l~~~~~~~~~~~~~~i~~g~~~~l~~~t~~~~~~i~~i~-------~~--~~~~~l~~p~~~~~g~r 391 (411)
T PRK04000 324 WESLTIEVHLLERVVGTKEELKVEPIKTGEPLMLNVGTATTVGVVTSAR-------KD--EAEVKLKRPVCAEEGDR 391 (411)
T ss_pred eEEEEEEEEEEEhhcCccccccCCCCCCCCEEEEEEeccEEEEEEEEcC-------Cc--EEEEEECCcEecCCCCE
Confidence 478999999999999999 689999999999999999999994343 23 5778 999999998854
No 25
>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=97.67 E-value=0.00013 Score=58.13 Aligned_cols=63 Identities=13% Similarity=0.112 Sum_probs=52.2
Q ss_pred CceeEEEEEEEecccCC----ccCCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE-eecccccccccc
Q psy9631 2 HDHVEAQIYLLTKEEGG----RTRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-LRGPMRPHHLLL 73 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGG----R~tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L~~pm~ie~~l~ 73 (90)
.+.|+|++++|...+|+ +.+|+..||++++++.|++++|+|..++ + -.+.| |.+|+++..|.+
T Consensus 319 ~~~f~a~i~~l~~~~~~~~~~~~~~i~~g~~~~l~~gt~~~~~~v~~~~-------~--~~~~l~l~~p~~~~~g~r 386 (406)
T TIGR03680 319 WESLELEVHLLERVVGTEEELKVEPIKTGEVLMLNVGTATTVGVVTSAR-------K--DEIEVKLKRPVCAEEGDR 386 (406)
T ss_pred eeEEEEEEEEEecccCcccccccccCCCCCEEEEEEccceEEEEEEEcC-------C--cEEEEEECCcEEcCCCCE
Confidence 46899999999987766 4589999999999999999999993222 2 24778 999999998865
No 26
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=97.54 E-value=0.00024 Score=59.54 Aligned_cols=64 Identities=16% Similarity=0.184 Sum_probs=54.0
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecC---C--------ceeecCCCCccceE-eecccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMG---G--------KDMFMPGEDGNPDP-LRGPMRPH 69 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~---~--------~~mvMPGD~~~~~v-L~~pm~ie 69 (90)
.++|+|++++|.. .|+..||++++++.|..++|+|..+. | -+.+.+||.+.+.+ +.+|+++|
T Consensus 330 ~~~f~a~i~~l~~------~~~~~g~~~~l~~gt~~~~a~i~~i~~~~d~~t~~~~~p~~l~~g~~~~v~l~~~~pi~~e 403 (632)
T PRK05506 330 ADQFDATVVWMAE------EPLLPGRPYLLKHGTRTVPASVAAIKYRVDVNTLERLAAKTLELNEIGRCNLSTDAPIAFD 403 (632)
T ss_pred eeEEEEEEEEecc------cccCCCCeEEEEeCCCEEEEEEEEEEEEecCCCCccCCcceeCCCCEEEEEEEECCEEeee
Confidence 5789999999973 46779999999999999999994441 1 14688999999999 99999999
Q ss_pred cc
Q psy9631 70 HL 71 (90)
Q Consensus 70 ~~ 71 (90)
.+
T Consensus 404 ~~ 405 (632)
T PRK05506 404 PY 405 (632)
T ss_pred ec
Confidence 74
No 27
>cd04095 CysN_NoDQ_III TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN and a smaller subunit CysD and CysN. ATPS produces adenosine-5'-phosphosulfate (APS) from ATP and sulfate, coupled with GTP hydrolysis. In the subsequent reaction APS is phosphorylated by an APS kinase (CysC), to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS) for use in amino acid (aa) biosynthesis. The Rhizobiaceae group (alpha-proteobacteria) appears to carry out the same chemistry for the sufation of a nodulation factor. In Rhizobium meliloti, a the hererodimeric complex comprised of NodP and NodQ appears to possess both ATPS and APS kinase activities. The N and C termini of NodQ correspond to CysN and CysC, respectively. Other eubacteria, Archaea, and eukaryotes use a different ATP sulfurylase, which s
Probab=97.47 E-value=0.00056 Score=44.72 Aligned_cols=63 Identities=17% Similarity=0.220 Sum_probs=52.4
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecC---C--------ceeecCCCCccceE-eecccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMG---G--------KDMFMPGEDGNPDP-LRGPMRPH 69 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~---~--------~~mvMPGD~~~~~v-L~~pm~ie 69 (90)
.++|+|+|-+|.. .|+..||++.+++.|..+.|+|+.+. | -.-+-.||.+.+.+ +.+|+++|
T Consensus 3 ~~~f~a~i~~l~~------~pl~~G~~~~l~~~t~~~~~~i~~i~~~id~~t~~~~~~~~l~~n~~a~v~i~~~~pi~~d 76 (103)
T cd04095 3 SDQFAATLVWMDE------EPLRPGRKYLLKLGTRTVRATVTAIKYRVDVNTLEHEAADTLELNDIGRVELSLSKPLAFD 76 (103)
T ss_pred cceeeEEEEEecC------cccCCCCEEEEEEcCCEEEEEEeeeeEEEcCCCCCccCCCEECCCCeEEEEEEeCCccEec
Confidence 5789999999983 38999999999999999999985541 1 13456699999999 99999988
Q ss_pred c
Q psy9631 70 H 70 (90)
Q Consensus 70 ~ 70 (90)
.
T Consensus 77 ~ 77 (103)
T cd04095 77 P 77 (103)
T ss_pred c
Confidence 6
No 28
>TIGR02034 CysN sulfate adenylyltransferase, large subunit. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).
Probab=97.31 E-value=0.00055 Score=54.71 Aligned_cols=63 Identities=17% Similarity=0.197 Sum_probs=53.1
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecC---C--------ceeecCCCCccceE-eecccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMG---G--------KDMFMPGEDGNPDP-LRGPMRPH 69 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~---~--------~~mvMPGD~~~~~v-L~~pm~ie 69 (90)
.++|+|++++|.. +|+..||++++++.|..++|+|..+. | .+-+-|||.+.+++ +.+|+++|
T Consensus 306 ~~~f~a~i~~l~~------~~i~~g~~~~l~~gt~~~~~~i~~i~~~~d~~t~~~~~~~~l~~~~~~~v~l~~~~p~~~~ 379 (406)
T TIGR02034 306 ADQFAATLVWMAE------EPLLPGRSYDLKLGTRKVRASVAAIKHKVDVNTLEKGAAKSLELNEIGRVNLSLDEPIAFD 379 (406)
T ss_pred ceEEEEEEEEeCh------hhcCCCCEEEEEeCCCEEEEEEEEEEEEecCCCCcccCCcccCCCCEEEEEEEECCeeccC
Confidence 4689999999973 59999999999999999999994442 1 14566899999999 99999998
Q ss_pred c
Q psy9631 70 H 70 (90)
Q Consensus 70 ~ 70 (90)
.
T Consensus 380 ~ 380 (406)
T TIGR02034 380 P 380 (406)
T ss_pred c
Confidence 4
No 29
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=97.26 E-value=0.00086 Score=55.01 Aligned_cols=64 Identities=13% Similarity=0.141 Sum_probs=54.0
Q ss_pred CceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecC---C--------ceeecCCCCccceE-eecccccc
Q psy9631 2 HDHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMG---G--------KDMFMPGEDGNPDP-LRGPMRPH 69 (90)
Q Consensus 2 ~~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~---~--------~~mvMPGD~~~~~v-L~~pm~ie 69 (90)
.+.|+|+|.+|. .+|+..||++++++.|..++|+|..+. | .+-+-+||.+.+++ +.+|+++|
T Consensus 334 ~~~f~a~i~~l~------~~~i~~G~~~~l~~gt~~~~a~i~~i~~~id~~t~~~~~~~~l~~g~~a~v~l~~~~pv~~e 407 (474)
T PRK05124 334 VQHASADVVWMA------EQPLQPGQSYDIKIAGKKTRARVDAIRYQVDINTLTQREAENLPLNGIGLVELTFDEPLVLD 407 (474)
T ss_pred ceEEEEEEEEeC------CcccCCCCeEEEEeCCCEEEEEEEEEeeeeccCCCcccCccccCCCCEEEEEEEECCeeccc
Confidence 478999999996 278999999999999999999994442 1 23566799999999 99999999
Q ss_pred cc
Q psy9631 70 HL 71 (90)
Q Consensus 70 ~~ 71 (90)
.+
T Consensus 408 ~~ 409 (474)
T PRK05124 408 PY 409 (474)
T ss_pred cC
Confidence 74
No 30
>COG5258 GTPBP1 GTPase [General function prediction only]
Probab=95.41 E-value=0.03 Score=47.43 Aligned_cols=63 Identities=16% Similarity=0.217 Sum_probs=54.3
Q ss_pred ceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE-ee-cccccccc
Q psy9631 3 DHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-LR-GPMRPHHL 71 (90)
Q Consensus 3 ~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L~-~pm~ie~~ 71 (90)
+.|+|+|+||.. -|-+..||.|.|.+.|---++.++.+ |++..||||...+.+ |. +|--+++|
T Consensus 443 ref~AeV~vl~H-----PT~I~aGye~v~H~etI~e~~~f~~i-d~~~L~~GD~g~vr~~fkyrP~~v~eG 507 (527)
T COG5258 443 REFDAEVLVLRH-----PTTIRAGYEPVFHYETIREAVYFEEI-DKGFLMPGDRGVVRMRFKYRPHHVEEG 507 (527)
T ss_pred heecceEEEEeC-----CcEEecCceeeeEeeEeeheeEEEEc-ccccccCCCcceEEEEEEeCchhhccC
Confidence 579999999985 46789999999999998888877334 778999999999999 77 89888887
No 31
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=95.23 E-value=0.024 Score=47.39 Aligned_cols=63 Identities=19% Similarity=0.133 Sum_probs=53.8
Q ss_pred ceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec---CC----------ceeecCCCCccceE-eeccccc
Q psy9631 3 DHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM---GG----------KDMFMPGEDGNPDP-LRGPMRP 68 (90)
Q Consensus 3 ~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l---~~----------~~mvMPGD~~~~~v-L~~pm~i 68 (90)
++|.|||-+|- .++++.+||.|++.+.|+-++|++..| -| -..+-+||.+.+.+ ...|+++
T Consensus 323 ~~f~a~i~vl~-----~p~~i~~Gyt~vlh~hta~~a~~~~~l~~k~d~~t~k~~~~~p~f~k~g~~~iv~i~~~kP~~~ 397 (428)
T COG5256 323 PEFTAQIIVLW-----HPGIITSGYTPVLHAHTAQVACRIAELLSKLDPRTGKKLEENPQFLKRGDAAIVKIEPEKPLCL 397 (428)
T ss_pred cceEEEEEEEe-----cCccccCCCccEEEecccceeeeHHHHHHhhCcccccccccChhhhhcCceEEEEEEecCceEe
Confidence 57999999995 688999999999999999999998444 11 14678899999999 9999999
Q ss_pred cc
Q psy9631 69 HH 70 (90)
Q Consensus 69 e~ 70 (90)
|+
T Consensus 398 e~ 399 (428)
T COG5256 398 EK 399 (428)
T ss_pred ee
Confidence 85
No 32
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=84.23 E-value=3.6 Score=35.29 Aligned_cols=43 Identities=23% Similarity=0.377 Sum_probs=31.0
Q ss_pred cCCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE-eecccccccc
Q psy9631 20 TRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 20 ~tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
.+|+.++++.++|+.|+.+.|+| .+- ++..+.+ |..|+++..|
T Consensus 275 ~~~l~~~~~~~~~~gt~~~~~~i-~~l--------~~~~~~l~l~~p~~~~~g 318 (614)
T PRK10512 275 HTPLTQWQPLHIHHAASHVTGRV-SLL--------EDNLAELVLDTPLWLADN 318 (614)
T ss_pred CccCCCCCEEEEEEcccEEEEEE-EEc--------CCeEEEEEECCcccccCC
Confidence 37999999999999999999999 431 2233555 5566555544
No 33
>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=77.31 E-value=3.5 Score=34.99 Aligned_cols=42 Identities=14% Similarity=0.043 Sum_probs=30.8
Q ss_pred CCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE-eecccccccc
Q psy9631 21 RPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 21 tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
.|+.++++.++++-|+.++|+| .+-+.+ .+.+ |..|+++..|
T Consensus 275 ~~l~~~~~~~~~~gt~~~~~~i-~~l~~~--------~~~l~l~~P~~~~~g 317 (581)
T TIGR00475 275 VPLLELQPYHIAHGMSVTTGKI-SLLDKG--------IALLTLDAPLILAKG 317 (581)
T ss_pred CccCCCCeEEEEEeceEEEEEE-EEccCc--------EEEEEECCceecCCC
Confidence 6899999999999999999999 551211 4445 6666666554
No 34
>COG3908 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=75.68 E-value=1.6 Score=28.78 Aligned_cols=48 Identities=21% Similarity=0.210 Sum_probs=35.4
Q ss_pred EEEeec--CCceeecCCCCccceEeeccccccccccccCCchhHHHHHhhc
Q psy9631 40 ARIIDM--GGKDMFMPGEDGNPDPLRGPMRPHHLLLQSCPHKAEYIEELGS 88 (90)
Q Consensus 40 g~i~~l--~~~~mvMPGD~~~~~vL~~pm~ie~~l~~~~~~~~~~~~~~~~ 88 (90)
+.| .+ .|-+|+.||..|.+-|-.+|||++++=-=|--|...|..-..|
T Consensus 13 a~i-ryldgdf~vv~~GsfV~CAVtgk~IPldeLrYWSvarQEaYv~~a~s 62 (77)
T COG3908 13 AVI-RYLDGDFQVVSPGSFVLCAVTGKPIPLDELRYWSVARQEAYVDAAAS 62 (77)
T ss_pred eEE-EEecCceEEEcCCcEEEEEecCCcccHHHhhhcchhhhhccccHHHH
Confidence 455 54 5678999999999999999999998766666565556544433
No 35
>TIGR02930 vnfG_nitrog V-containing nitrogenase, delta subunit. Nitrogenase is the enzyme of biological nitrogen fixation. The most wide-spread and most efficient nitrogenase contains a molybdenum cofactor. This protein family, VnfG, represents the delta subunit of the V-containing (vanadium) alternative nitrogenase. It is homologous to AnfG, the delta subunit of the Fe-only nitrogenase.
Probab=62.73 E-value=2 Score=30.14 Aligned_cols=49 Identities=20% Similarity=0.284 Sum_probs=24.2
Q ss_pred eeEEEecCCeeEEEee--cCCceeecCCCCccc-----eE-eeccccccccccccCCc
Q psy9631 29 AHVYSKTWDVAARIID--MGGKDMFMPGEDGNP-----DP-LRGPMRPHHLLLQSCPH 78 (90)
Q Consensus 29 pQff~rT~Dvtg~i~~--l~~~~mvMPGD~~~~-----~v-L~~pm~ie~~l~~~~~~ 78 (90)
=|||+|+||--=.+ + +.-..-+.-||.+.. .+ -.-.+.|-...+.-||-
T Consensus 15 WQF~SRsWDRe~q~-egIl~~t~~ll~GE~~~~~Tp~Dr~yy~DAv~la~~~k~rfpW 71 (109)
T TIGR02930 15 WQFFSRTWDREENI-EGVMTMAGKLLNGEKINLETPMDKLFYADAKNLASDIKERFPW 71 (109)
T ss_pred hhhcccchhHHHhH-HHHHHHHHHHhcCCCCCCCChHHHHHHHHHHHHHHHHHHhCcH
Confidence 39999999943222 0 011223344554443 12 22334555566666663
No 36
>cd03698 eRF3_II_like eRF3_II_like: domain similar to domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM
Probab=60.58 E-value=12 Score=23.28 Aligned_cols=32 Identities=9% Similarity=0.067 Sum_probs=22.1
Q ss_pred eEEEecCCeeEEEeec----CCceeecCCCCccceE
Q psy9631 30 HVYSKTWDVAARIIDM----GGKDMFMPGEDGNPDP 61 (90)
Q Consensus 30 Qff~rT~Dvtg~i~~l----~~~~mvMPGD~~~~~v 61 (90)
++++...+.+++|+.+ ...+.+.|||++.+.+
T Consensus 32 ~v~i~P~~~~~~V~si~~~~~~~~~a~aGd~v~~~l 67 (83)
T cd03698 32 TLLVMPSKESVEVKSIYVDDEEVDYAVAGENVRLKL 67 (83)
T ss_pred EEEEeCCCcEEEEEEEEECCeECCEECCCCEEEEEE
Confidence 4555555666666444 2457899999999887
No 37
>TIGR02929 anfG_nitrog Fe-only nitrogenase, delta subunit. Nitrogenase, also called dinitrogenase, is the enzyme of biological nitrogen fixation. The most wide-spread and most efficient nitrogenase contains a molybdenum cofactor. This protein family, AnfG, represents the delta subunit of the Fe-only alternative nitrogenase. It is homologous to VnfG, the delta subunit of the V-containing (vanadium) nitrogenase.
Probab=59.28 E-value=2.5 Score=29.64 Aligned_cols=49 Identities=12% Similarity=0.160 Sum_probs=24.9
Q ss_pred eeEEEecCCeeEEEee--cCCceeecCCCCccc-----eE-eeccccccccccccCCc
Q psy9631 29 AHVYSKTWDVAARIID--MGGKDMFMPGEDGNP-----DP-LRGPMRPHHLLLQSCPH 78 (90)
Q Consensus 29 pQff~rT~Dvtg~i~~--l~~~~mvMPGD~~~~-----~v-L~~pm~ie~~l~~~~~~ 78 (90)
=|||+|+||--=.+ + |.-..-+.-||.+.. .+ -.-.+.|-...+.-||-
T Consensus 15 WQF~SRsWDRe~q~-egIl~kt~~lL~GE~~~~~Tp~Dr~y~~DAv~la~~~k~rfpW 71 (109)
T TIGR02929 15 WQFNSRGWDREIQN-EGILMKTRQILCGENAREDTSADRCYWVDAVTLAGAYKRRFPW 71 (109)
T ss_pred hhhcccchhHHHhH-HHHHHHHHHHhcCCCCCCCChHHHHHHHHHHHHHHHHHHhCcH
Confidence 38999999943222 1 011223345555544 12 23334555666666663
No 38
>PF03139 AnfG_VnfG: Vanadium/alternative nitrogenase delta subunit; InterPro: IPR004349 The nitrogenase complex 1.18.6.1 from EC catalyses the conversion of molecular nitrogen to ammonia (nitrogen fixation). The complex is hexameric, consisting of 2 alpha, 2 beta, and 2 delta subunits. This family represents the delta subunit of a group of nitrogenases that do not utilise molybdenum (Mo) as a cofactor, but instead use either vanadium (V nitrogenases), or iron (alternative nitrogenases). ; GO: 0016163 nitrogenase activity, 0009399 nitrogen fixation, 0055114 oxidation-reduction process
Probab=58.45 E-value=2.7 Score=29.62 Aligned_cols=10 Identities=30% Similarity=0.627 Sum_probs=8.6
Q ss_pred eeEEEecCCe
Q psy9631 29 AHVYSKTWDV 38 (90)
Q Consensus 29 pQff~rT~Dv 38 (90)
=|||+|+||-
T Consensus 18 WQF~SR~WDR 27 (112)
T PF03139_consen 18 WQFHSRSWDR 27 (112)
T ss_pred hhhcccchhH
Confidence 3899999994
No 39
>COG1812 MetK Archaeal S-adenosylmethionine synthetase [Amino acid transport and metabolism]
Probab=57.46 E-value=9.5 Score=31.93 Aligned_cols=53 Identities=17% Similarity=0.039 Sum_probs=39.0
Q ss_pred CCeeeEEEecCCe----------eEEEeecCCceeecCCCCccceE-eeccccccccccccCCc
Q psy9631 26 WGQAHVYSKTWDV----------AARIIDMGGKDMFMPGEDGNPDP-LRGPMRPHHLLLQSCPH 78 (90)
Q Consensus 26 gYrpQff~rT~Dv----------tg~i~~l~~~~mvMPGD~~~~~v-L~~pm~ie~~l~~~~~~ 78 (90)
.|..+.|+.|+|- ||+-.+..|--+|=-|..++=-+ ..+||.||+.-+|.|-.
T Consensus 247 ~~~v~v~iNtaD~~e~~~~YlTvTGTSaE~GDdGsVGRGNR~nGLITp~RpmSmEAaaGKNPvn 310 (400)
T COG1812 247 DREVEVYINTADDPERGSVYLTVTGTSAEQGDDGSVGRGNRVNGLITPNRPMSMEAAAGKNPVN 310 (400)
T ss_pred ccceEEEEecccccccCeEEEEeccchhhhCCCcccccccccccccCCCCCcccccccCCCchh
Confidence 6778899999983 44321222344677777888778 99999999999999853
No 40
>KOG0463|consensus
Probab=56.87 E-value=23 Score=30.66 Aligned_cols=63 Identities=25% Similarity=0.281 Sum_probs=49.3
Q ss_pred ceeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE-e-ecccccccc
Q psy9631 3 DHVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-L-RGPMRPHHL 71 (90)
Q Consensus 3 ~kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L-~~pm~ie~~ 71 (90)
-.|||+|.+|-. -+-+...|+..+.|-.--.|+.|+.+ +++-..-||..++.+ | .+|=-|..|
T Consensus 463 weFEaEILVLHH-----PTTIsprYQAMvHcGSiRQTAtivsM-~kdcLRTGDka~V~FrFIkqPEYir~g 527 (641)
T KOG0463|consen 463 WEFEAEILVLHH-----PTTISPRYQAMVHCGSIRQTATIVSM-GKDCLRTGDKAKVQFRFIKQPEYIRPG 527 (641)
T ss_pred eEEeeeEEEEec-----CCccCcchhheeeeccccceeeeeec-ChhhhhcCCcceEEEEEecCcceecCC
Confidence 369999999975 46788999999999888888887333 778888999999998 4 455545444
No 41
>cd03695 CysN_NodQ_II CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN and a smaller subunit CysD and CysN. ATPS produces adenosine-5'-phosphosulfate (APS) from ATP and sulfate, coupled with GTP hydrolysis. In the subsequent reaction APS is phosphorylated by an APS kinase (CysC), to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS) for use in amino acid (aa) biosynthesis. The Rhizobiaceae group (alpha-proteobacteria) appears to carry out the same chemistry for the sufation of a nodulation factor. In Rhizobium meliloti, a the hererodimeric complex comprised of NodP and NodQ appears to possess both ATPS and APS kinase activities. The N and C termini of NodQ correspond to CysN and CysC, respectively. Other eubacteria, Archaea, and eukaryotes use a different ATP sulfurylase, which sho
Probab=56.28 E-value=19 Score=22.61 Aligned_cols=46 Identities=17% Similarity=0.070 Sum_probs=29.5
Q ss_pred EEecccCCccCCCCCCCeeeEEEecCCeeEEEeec----CCceeecCCCCccceE
Q psy9631 11 LLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM----GGKDMFMPGEDGNPDP 61 (90)
Q Consensus 11 iLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l----~~~~mvMPGD~~~~~v 61 (90)
+--+=|.|+-++ | .++++...+..+.|..+ ...+-+.|||++.+.+
T Consensus 18 v~Gkv~~G~v~~---G--d~v~~~P~~~~~~V~si~~~~~~~~~a~aGd~v~l~l 67 (81)
T cd03695 18 YAGTIASGSIRV---G--DEVVVLPSGKTSRVKSIETFDGELDEAGAGESVTLTL 67 (81)
T ss_pred EEEEEccceEEC---C--CEEEEcCCCCeEEEEEEEECCcEeCEEcCCCEEEEEE
Confidence 344556665442 2 35666666777776444 3467899999998876
No 42
>PF09866 DUF2093: Uncharacterized protein conserved in bacteria (DUF2093); InterPro: IPR018661 This family of various hypothetical prokaryotic proteins has no known function.
Probab=49.15 E-value=7.3 Score=23.17 Aligned_cols=21 Identities=19% Similarity=0.172 Sum_probs=18.3
Q ss_pred ecCCCCccceEeecccccccc
Q psy9631 51 FMPGEDGNPDPLRGPMRPHHL 71 (90)
Q Consensus 51 vMPGD~~~~~vL~~pm~ie~~ 71 (90)
+.||+.|.+-|-..+|||+++
T Consensus 2 l~pG~~V~CAVTg~~IpLd~L 22 (42)
T PF09866_consen 2 LSPGSFVRCAVTGQPIPLDEL 22 (42)
T ss_pred ccCCCEEEEEeeCCcccHHHh
Confidence 579999999998899999875
No 43
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=49.13 E-value=20 Score=30.30 Aligned_cols=43 Identities=9% Similarity=-0.068 Sum_probs=30.8
Q ss_pred eeEEEecCCeeEEEeec----CCceeecCCCCccceE-eecccccccc
Q psy9631 29 AHVYSKTWDVAARIIDM----GGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 29 pQff~rT~Dvtg~i~~l----~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
..+++-++++.++|+.+ +..++..|||++.+.| =...=-|..|
T Consensus 262 ~~v~~~p~~~~~evksie~~~~~~~~a~~GD~i~~~vrgv~~~dI~~G 309 (428)
T COG5256 262 QKVTFMPAGVVGEVKSIEMHHEEISQAEPGDNVGFNVRGVEKNDIRRG 309 (428)
T ss_pred CEEEEecCcceEEEeeeeecccccccCCCCCeEEEEecCCchhccCCc
Confidence 35788889999988555 3578999999999998 5433333333
No 44
>PF10653 Phage-A118_gp45: Protein gp45 of Bacteriophage A118; InterPro: IPR018915 The proteins in this entry represents Gp45 in Listeria phage A118 (Bacteriophage A118) and related proteins; Gp45 is thought to have a function in the phage tail-fibre system.
Probab=47.91 E-value=7.1 Score=24.64 Aligned_cols=23 Identities=26% Similarity=0.465 Sum_probs=18.4
Q ss_pred eeccccccccccccCCchhHHHHHhh
Q psy9631 62 LRGPMRPHHLLLQSCPHKAEYIEELG 87 (90)
Q Consensus 62 L~~pm~ie~~l~~~~~~~~~~~~~~~ 87 (90)
+.+.+|+- ..||-.-+.|||||-
T Consensus 31 f~qkipli---etgcekm~dyieelk 53 (62)
T PF10653_consen 31 FQQKIPLI---ETGCEKMTDYIEELK 53 (62)
T ss_pred HHhccchh---hhhhHHHHHHHHHHh
Confidence 67777653 469999999999984
No 45
>cd04089 eRF3_II eRF3_II: domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-li
Probab=46.50 E-value=25 Score=21.89 Aligned_cols=41 Identities=7% Similarity=-0.048 Sum_probs=25.3
Q ss_pred eEEEecCCeeEEEeec----CCceeecCCCCccceE-eeccccccc
Q psy9631 30 HVYSKTWDVAARIIDM----GGKDMFMPGEDGNPDP-LRGPMRPHH 70 (90)
Q Consensus 30 Qff~rT~Dvtg~i~~l----~~~~mvMPGD~~~~~v-L~~pm~ie~ 70 (90)
++++...+.++.|+.+ ...+.+.|||++.+.+ -..+..++.
T Consensus 31 ~v~i~P~~~~~~V~si~~~~~~~~~a~aGd~v~l~l~~i~~~~v~~ 76 (82)
T cd04089 31 KLLVMPNKTQVEVLSIYNEDVEVRYARPGENVRLRLKGIEEEDISP 76 (82)
T ss_pred EEEEeCCCcEEEEEEEEECCEECCEECCCCEEEEEecCCCHHHCCC
Confidence 4555555666666444 2457889999999888 444444443
No 46
>KOG0052|consensus
Probab=45.81 E-value=29 Score=29.03 Aligned_cols=62 Identities=11% Similarity=0.129 Sum_probs=47.1
Q ss_pred eeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeec-C------------CceeecCCCCccceE-eecccccc
Q psy9631 4 HVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDM-G------------GKDMFMPGEDGNPDP-LRGPMRPH 69 (90)
Q Consensus 4 kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l-~------------~~~mvMPGD~~~~~v-L~~pm~ie 69 (90)
.|.||+-+|- |-.-+..+|-|++=|.|.-++|++-.| + +-+.+-+||-..+.. +.+||..|
T Consensus 269 g~t~qviiln-----hpgqis~gy~pvldcht~hiacKfael~~Kid~~sg~~~e~~pk~~~~~daai~~~vp~kp~~ve 343 (391)
T KOG0052|consen 269 GFTAQVIILN-----HPGQISVGYAPVLDCHTAHIACKFAELKEKIDRRSGKKLEDEPKFLKSGDAAIVEMVPGKPLCVE 343 (391)
T ss_pred cceeeEEEec-----CccccCCCccccccccccceeeehhhchhhhhcCCceeecCCCccccCCcceeeeeccCCccccc
Confidence 4667777774 445688999999999999999987333 1 135777888888788 99999887
Q ss_pred c
Q psy9631 70 H 70 (90)
Q Consensus 70 ~ 70 (90)
.
T Consensus 344 ~ 344 (391)
T KOG0052|consen 344 S 344 (391)
T ss_pred c
Confidence 5
No 47
>cd03693 EF1_alpha_II EF1_alpha_II: this family represents the domain II of elongation factor 1-alpha (EF-1a) that is found in archaea and all eukaryotic lineages. EF-1A is very abundant in the cytosol, where it is involved in the GTP-dependent binding of aminoacyl-tRNAs to the A site of the ribosomes in the second step of translation from mRNAs to proteins. Both domain II of EF1A and domain IV of IF2/eIF5B have been implicated in recognition of the 3'-ends of tRNA. More than 61% of eukaryotic elongation factor 1A (eEF-1A) in cells is estimated to be associated with actin cytoskeleton. The binding of eEF1A to actin is a noncanonical function that may link two distinct cellular processes, cytoskeleton organization and gene expression.
Probab=42.78 E-value=37 Score=21.52 Aligned_cols=42 Identities=10% Similarity=-0.016 Sum_probs=25.5
Q ss_pred eEEEecCCeeEEEeec----CCceeecCCCCccceE-eecccccccc
Q psy9631 30 HVYSKTWDVAARIIDM----GGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 30 Qff~rT~Dvtg~i~~l----~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
++++.-.+..++|+.+ ...+.+.|||++.+.+ =..+-.++.|
T Consensus 36 ~v~i~P~~~~~~V~sI~~~~~~~~~a~aG~~v~i~l~~i~~~~v~~G 82 (91)
T cd03693 36 VVTFAPAGVTGEVKSVEMHHEPLEEALPGDNVGFNVKNVSKKDIKRG 82 (91)
T ss_pred EEEECCCCcEEEEEEEEECCcCcCEECCCCEEEEEECCCCHHHcCCc
Confidence 3444445566666444 3467889999999888 4334444444
No 48
>PF02305 Phage_F: Capsid protein (F protein); InterPro: IPR003514 Capsid protein F is the major capsid component in single-stranded DNA bacteriophages. 60 copies of this protein are present in the virion [].; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 1GFF_1 1AL0_F 1CD3_F 2BPA_1 1RB8_F 1M06_F.
Probab=37.92 E-value=29 Score=30.03 Aligned_cols=43 Identities=16% Similarity=0.136 Sum_probs=24.9
Q ss_pred eeeEEEecCCeeEEEeecCCceeecCCCCccceE--eeccccccccc
Q psy9631 28 QAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP--LRGPMRPHHLL 72 (90)
Q Consensus 28 rpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v--L~~pm~ie~~l 72 (90)
++|-...|.+. |.++-+ -.+-|+|||+++|++ +.+..|+-.++
T Consensus 15 ls~~~~~t~~~-G~LiPi-~~~~VlpgD~~~~~~~~~~R~~pl~~~~ 59 (510)
T PF02305_consen 15 LSHKHKFTFKA-GRLIPI-YWTEVLPGDTFEMDATGFMRLSPLNTPA 59 (510)
T ss_dssp --EEEEEEE-S-SEEEEE-EEEEE-TT-EEEEEEEEEEEES-BSSS-
T ss_pred ccccccccccc-cccccc-cccccccccccccccccccccccccccc
Confidence 55666667665 444222 346789999999998 88888776554
No 49
>TIGR03172 probable selenium-dependent hydroxylase accessory protein YqeC. This uncharacterized protein family includes YqeC from Escherichia coli. A phylogenetic profiling analysis shows correlation with SelD, the selenium donor protein, even in species where SelD contributes to neither selenocysteine nor selenouridine biosynthesis. Instead, this family, and families TIGR03309 and TIGR03310 appear to mark selenium-dependent molybdenum hydroxylase maturation systems.
Probab=36.50 E-value=19 Score=27.53 Aligned_cols=73 Identities=18% Similarity=0.277 Sum_probs=56.0
Q ss_pred EEEecccCCccCCC--CCCCeeeEEEecCCeeEEEeecC--Cc----ee------------ecCCCCccceEeecccccc
Q psy9631 10 YLLTKEEGGRTRPY--TPWGQAHVYSKTWDVAARIIDMG--GK----DM------------FMPGEDGNPDPLRGPMRPH 69 (90)
Q Consensus 10 YiLtkEEGGR~tPf--~~gYrpQff~rT~Dvtg~i~~l~--~~----~m------------vMPGD~~~~~vL~~pm~ie 69 (90)
|+|=+..|-|+.|+ -..+-|++.-.|.-|.|.+ -++ |+ +. .-|||.++...+.+=+.-+
T Consensus 100 ~vLVEADGAk~~PlKaP~~~EPVIP~~t~~VI~V~-gl~alG~pl~~e~vHR~e~~~~i~~~~~g~~it~~~la~li~~~ 178 (232)
T TIGR03172 100 VILVEADGAKCRPLKAPSDHEPVIPKSSTTVIGVA-GISVVGEKLDTDIVHRWPEFLALTGLAPGDTITLALLARLIAHP 178 (232)
T ss_pred EEEEECCCcCCCcccCCCCCCCccCCCCCEEEEEe-CHHHcCCcCChhhccCHHHHHHHHCCCCCCccCHHHHHHHHhCc
Confidence 89999999999987 5789999999998888776 541 11 11 2478888877655556778
Q ss_pred ccccccCCchhHHH
Q psy9631 70 HLLLQSCPHKAEYI 83 (90)
Q Consensus 70 ~~l~~~~~~~~~~~ 83 (90)
.|+.|+||..++|+
T Consensus 179 ~G~~K~~~~~~~~i 192 (232)
T TIGR03172 179 QGGFKNAPAHARRI 192 (232)
T ss_pred cccccCCCCCccEE
Confidence 99999999877664
No 50
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=35.17 E-value=94 Score=19.96 Aligned_cols=28 Identities=21% Similarity=0.348 Sum_probs=18.9
Q ss_pred eeEEEeec---CCcee-ecCCCCccceE-eeccc
Q psy9631 38 VAARIIDM---GGKDM-FMPGEDGNPDP-LRGPM 66 (90)
Q Consensus 38 vtg~i~~l---~~~~m-vMPGD~~~~~v-L~~pm 66 (90)
+.++| .+ .+... +.|||.+.++. |..|-
T Consensus 113 ~~~~i-~~~~~~~~~~~l~~Gd~i~~~g~l~~~~ 145 (176)
T PF13567_consen 113 VSGKI-LLYLPKDSQPRLQPGDRIRVRGKLKPPS 145 (176)
T ss_pred cceee-EEEeccccccccCCCCEEEEEEEEecCC
Confidence 55666 54 22233 78999999999 77553
No 51
>PF07610 DUF1573: Protein of unknown function (DUF1573); InterPro: IPR011467 These hypothetical proteins from bacteria, such as Rhodopirellula baltica, Bacteroides thetaiotaomicron and Porphyromonas gingivalis, share a region of conserved sequence towards their N termini.
Probab=32.62 E-value=35 Score=19.35 Aligned_cols=24 Identities=21% Similarity=0.365 Sum_probs=15.9
Q ss_pred CeeEEEeecCCceeecCCCCccceE
Q psy9631 37 DVAARIIDMGGKDMFMPGEDGNPDP 61 (90)
Q Consensus 37 Dvtg~i~~l~~~~mvMPGD~~~~~v 61 (90)
+|-|...++ +++-+.|||...+.+
T Consensus 20 sCgCt~~~~-~~~~i~PGes~~i~v 43 (45)
T PF07610_consen 20 SCGCTTAEY-SKKPIAPGESGKIKV 43 (45)
T ss_pred ccCCEEeeC-CcceECCCCEEEEEE
Confidence 444443123 457899999998876
No 52
>KOG1143|consensus
Probab=31.38 E-value=61 Score=28.14 Aligned_cols=63 Identities=17% Similarity=0.001 Sum_probs=48.8
Q ss_pred eeEEEEEEEecccCCccCCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE--eecccccccc
Q psy9631 4 HVEAQIYLLTKEEGGRTRPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP--LRGPMRPHHL 71 (90)
Q Consensus 4 kfeAqvYiLtkEEGGR~tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v--L~~pm~ie~~ 71 (90)
.|+|++-+|=. .+-|..||+-.+++-.--.|+.|+.+.+.|-+-|||-+.+.+ +-+|=.+..|
T Consensus 499 ~F~A~~~lLfH-----aT~i~~GFQ~TVhiGsvrqTAvi~~I~~~d~lrtg~~AvV~f~F~~hPEyir~G 563 (591)
T KOG1143|consen 499 EFTANLLLLFH-----ATYICEGFQATVHIGSVRQTAVITHIDDADCLRTGKWAVVKFCFAYHPEYIREG 563 (591)
T ss_pred EEeeeehhhhh-----hHhheecceEEEEEcceeeeeeeeeecccccccCCceEEEEEEecCCchhccCC
Confidence 58888888864 357889999999987777788874457889999999999888 5566555444
No 53
>PF05354 Phage_attach: Phage Head-Tail Attachment; InterPro: IPR008018 This entry is represented by Bacteriophage lambda, FII. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The phage head-tail attachment protein is required for the joining of phage heads and tails at the last step of morphogenesis [].; GO: 0042963 phage assembly, 0019028 viral capsid; PDB: 2KX4_A 1K0H_A.
Probab=31.30 E-value=26 Score=24.78 Aligned_cols=40 Identities=23% Similarity=0.357 Sum_probs=21.8
Q ss_pred CCCCeeeEEEecCCeeE-----EEeecCC----ceeecCCCCccceE-eec
Q psy9631 24 TPWGQAHVYSKTWDVAA-----RIIDMGG----KDMFMPGEDGNPDP-LRG 64 (90)
Q Consensus 24 ~~gYrpQff~rT~Dvtg-----~i~~l~~----~~mvMPGD~~~~~v-L~~ 64 (90)
.++-.|.+|+||.||.+ .+ .+.+ ++-+-|-|.-...| |.+
T Consensus 58 Ie~s~Pslfv~t~dv~~L~r~DtL-~I~g~~y~Vd~v~pD~~G~t~I~L~~ 107 (117)
T PF05354_consen 58 IEGSSPSLFVRTADVSGLKRRDTL-TIGGESYWVDRVGPDGGGSTRIWLGR 107 (117)
T ss_dssp SS-SS-EEEESCCCCCTS-TT-EE-EETTTEEEBS---SSSSS-CCEEB--
T ss_pred EecCCceEEEEehHhhhhhcCCeE-EECCEEEEEEeeccCCCccEEEEeCC
Confidence 35668999999999986 33 2311 35577777777777 653
No 54
>cd03696 selB_II selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. 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' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation.
Probab=30.94 E-value=89 Score=19.18 Aligned_cols=32 Identities=9% Similarity=0.019 Sum_probs=21.5
Q ss_pred eEEEecCCeeEEEeec----CCceeecCCCCccceE
Q psy9631 30 HVYSKTWDVAARIIDM----GGKDMFMPGEDGNPDP 61 (90)
Q Consensus 30 Qff~rT~Dvtg~i~~l----~~~~mvMPGD~~~~~v 61 (90)
++.+...+..+.|..+ ...+-+.|||++.+.+
T Consensus 32 ~v~~~p~~~~~~V~sI~~~~~~~~~a~aGd~v~i~l 67 (83)
T cd03696 32 KVEILPLGEETRVRSIQVHGKDVEEAKAGDRVALNL 67 (83)
T ss_pred EEEECCCCceEEEEEEEECCcCcCEEcCCCEEEEEE
Confidence 3444445566666444 3457799999999888
No 55
>PF06312 Neurexophilin: Neurexophilin
Probab=28.89 E-value=1.3e+02 Score=23.07 Aligned_cols=52 Identities=23% Similarity=0.374 Sum_probs=35.2
Q ss_pred ccCCccCCCC-CCCeeeEEEe--cCCeeEEEeec-CCc-----eeecCCCCccceE-eecccc
Q psy9631 15 EEGGRTRPYT-PWGQAHVYSK--TWDVAARIIDM-GGK-----DMFMPGEDGNPDP-LRGPMR 67 (90)
Q Consensus 15 EEGGR~tPf~-~gYrpQff~r--T~Dvtg~i~~l-~~~-----~mvMPGD~~~~~v-L~~pm~ 67 (90)
.-|++.|-+. -.||-.++.. .+-++|+|++. +|. -..-|| .+.+.| |.+|--
T Consensus 59 ~~~~~~K~yG~GDfrAri~s~~l~ag~~G~V~Dh~NGTYtv~F~L~W~G-~v~vsV~LVHPSE 120 (219)
T PF06312_consen 59 KTGRRRKTYGWGDFRARIFSPKLKAGAAGKVTDHGNGTYTVSFPLLWPG-QVSVSVSLVHPSE 120 (219)
T ss_pred ccCCcccccCCCCcEEEEecCCccccceEEEEECCCCeEEEEEEeecCc-eEEEEEEEEcchh
Confidence 5567778888 7777777652 23478998777 553 355677 677788 877753
No 56
>cd03694 GTPBP_II Domain II of the GP-1 family of GTPase. This group includes proteins similar to GTPBP1 and GTPBP2. GTPB1 is structurally, related to elongation factor 1 alpha, a key component of protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.
Probab=28.82 E-value=45 Score=21.01 Aligned_cols=33 Identities=3% Similarity=-0.052 Sum_probs=20.7
Q ss_pred eeEEEeec----CCceeecCCCCccceE-eeccccccc
Q psy9631 38 VAARIIDM----GGKDMFMPGEDGNPDP-LRGPMRPHH 70 (90)
Q Consensus 38 vtg~i~~l----~~~~mvMPGD~~~~~v-L~~pm~ie~ 70 (90)
..++|+.+ ...+.+.|||++.+.+ -..+-.++.
T Consensus 44 ~~~~V~sI~~~~~~~~~a~aGd~v~l~l~~i~~~~i~~ 81 (87)
T cd03694 44 RPVTVKSIHRNRSPVRVVRAGQSASLALKKIDRSLLRK 81 (87)
T ss_pred eEEEEEEEEECCeECCEECCCCEEEEEEcCCCHHHcCC
Confidence 44555334 2356889999999998 544444443
No 57
>TIGR03228 anthran_1_2_A anthranilate 1,2-dioxygenase, large subunit. Anthranilate (2-aminobenzoate) is an intermediate of tryptophan (Trp) biosynthesis and degradation. Members of this family are the large subunit of anthranilate 1,2-dioxygenase, which acts in Trp degradation by converting anthranilate to catechol. Closely related paralogs typically are the benzoate 1,2-dioxygenase large subunit, among the larger set of ring-hydroxylating dioxygenases.
Probab=28.41 E-value=18 Score=30.08 Aligned_cols=49 Identities=20% Similarity=0.353 Sum_probs=35.1
Q ss_pred eEEEecCCeeEEEeecCCceeecCCCCccceEeecccccc-------ccccccCCchhHHH
Q psy9631 30 HVYSKTWDVAARIIDMGGKDMFMPGEDGNPDPLRGPMRPH-------HLLLQSCPHKAEYI 83 (90)
Q Consensus 30 Qff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~vL~~pm~ie-------~~l~~~~~~~~~~~ 83 (90)
.+|-|+|-..|-- .+.-.|||-++..+...|+.+- +++...|||...=+
T Consensus 33 ~IF~~~W~~v~h~-----selp~~GDy~t~~ig~~pviv~R~~dG~i~a~~N~C~HRGa~L 88 (438)
T TIGR03228 33 LIFEKNWIYACHE-----SELPNNHDFVTVRAGRQPMIVTRDGKGELHALVNACQHRGATL 88 (438)
T ss_pred HHHhhCCEEEEEH-----HHCCCCCCeEEEEECCeEEEEEECCCCCEEEEcccCCCCCCcc
Confidence 3667888887754 3445689999888877788774 34778999986533
No 58
>PF09173 eIF2_C: Initiation factor eIF2 gamma, C terminal; InterPro: IPR015256 This entry represents a domain which is found in the initiation factors eIF2 and EF-Tu, adopting a beta barrel structure with Greek key topology. It is required for formation of the ternary complex with GTP and initiator tRNA []. ; PDB: 1S0U_A 1KK1_A 1KK0_A 1KK2_A 1KJZ_A 1KK3_A 2D74_A 2DCU_A 3P3M_A 3V11_A ....
Probab=25.43 E-value=2.1e+02 Score=18.98 Aligned_cols=61 Identities=11% Similarity=0.110 Sum_probs=40.5
Q ss_pred ceeEEEEEEEecccCCcc-----CCCCCCCeeeEEEecCCeeEEEeecCCceeecCCCCccceE-eeccccccccc
Q psy9631 3 DHVEAQIYLLTKEEGGRT-----RPYTPWGQAHVYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-LRGPMRPHHLL 72 (90)
Q Consensus 3 ~kfeAqvYiLtkEEGGR~-----tPf~~gYrpQff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L~~pm~ie~~l 72 (90)
++++-+.++|.+==|-.. .|+..|=.-++-+-|+-..|.|+... +| .+.+ |.+|+..+.|-
T Consensus 2 ~~l~i~~~Ll~r~vg~~~~~~kv~~i~~~E~LmlnIGsatt~G~V~~~k-------~d--~~~v~L~~Pvc~~~g~ 68 (88)
T PF09173_consen 2 TELEIEYHLLERVVGVKEKEAKVEPIKKGEVLMLNIGSATTGGVVTSVK-------KD--MAEVELKKPVCAEKGE 68 (88)
T ss_dssp EEEEEEEEE-SSCSSSSS-CCS-----TTEEEEEEETTEEEEEEEEEEE-------TT--EEEEEEEEEEE-STTS
T ss_pred EEEEEEEEEehhhhCccccceecccCCCCCEEEEEEccccccEEEEEEE-------CC--EEEEEecCCeEcCcCC
Confidence 567888888887655444 79999999999999999999983231 22 2567 88898888774
No 59
>TIGR03229 benzo_1_2_benA benzoate 1,2-dioxygenase, large subunit. Benzoate 1,2-dioxygenase (EC 1.14.12.10) belongs to the larger family of aromatic ring-hydroxylating dioxygenases. Members of this family all act on benzoate, but may have additional activities on various benozate analogs. This model describes the large subunit. Between the trusted and noise cutoffs are similar enzymes, likely to act on benzoate but perhaps best identified according to some other activity, such as 2-chlorobenzoate 1,2-dioxygenase (1.14.12.13).
Probab=23.87 E-value=24 Score=29.27 Aligned_cols=47 Identities=15% Similarity=0.292 Sum_probs=31.9
Q ss_pred eEEEecCCeeEEEeecCCceeecCCCCccceEeecccccc-------ccccccCCchhH
Q psy9631 30 HVYSKTWDVAARIIDMGGKDMFMPGEDGNPDPLRGPMRPH-------HLLLQSCPHKAE 81 (90)
Q Consensus 30 Qff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~vL~~pm~ie-------~~l~~~~~~~~~ 81 (90)
.+|-|+|-..|.. .+.-.|||-+++.+...|+.|- .++...|||...
T Consensus 33 ~IF~~~W~~v~~~-----selp~~gd~~t~~~~~~~vvv~R~~dG~i~af~N~C~HRga 86 (433)
T TIGR03229 33 HIFEGNWIYLAHE-----SQIPNNNDYYTTYMGRQPIFIARNKDGELNAFINACSHRGA 86 (433)
T ss_pred HHhhhCCEEEEEH-----HHCCCCCCeEEEEECCeEEEEEECCCCcEEEEeCcCCCCCC
Confidence 4677888888866 3444578777776655555554 347788999764
No 60
>cd03697 EFTU_II EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the catalytic or G-domain. The G-domain is composed of about 200 amino acid residues, arranged into a predominantly parallel six-stranded beta-sheet core surrounded by seven a-helices. Non-catalytic domains II and III are beta-barrels of seven and six, respectively, antiparallel beta-strands that share an extended interface. Either non-catalytic domain is composed of about 100 amino acid residues. EF-Tu proteins exist in two principal conformations: in a compact one, EF-Tu*GTP, with tight interfaces between all three domains and a high affinity for aminoacyl-tRNA, and in an open one, EF-Tu*GDP, with essentially no G-domain-domain II interactions and a low affinity for aminoacyl-tRNA. EF-Tu has approximately a 100-fold higher
Probab=22.03 E-value=62 Score=20.24 Aligned_cols=26 Identities=8% Similarity=-0.266 Sum_probs=18.0
Q ss_pred CCceeecCCCCccceE-eecccccccc
Q psy9631 46 GGKDMFMPGEDGNPDP-LRGPMRPHHL 71 (90)
Q Consensus 46 ~~~~mvMPGD~~~~~v-L~~pm~ie~~ 71 (90)
...+.+.|||++.+.+ =..+-.+++|
T Consensus 54 ~~~~~a~~G~~v~l~l~~~~~~~v~rG 80 (87)
T cd03697 54 KTLDEAEAGDNVGVLLRGVKREDVERG 80 (87)
T ss_pred cCCCEECCCCEEEEEECCCCHHHcCCc
Confidence 4567899999999988 4344444444
No 61
>TIGR03424 urea_degr_1 urea carboxylase-associated protein 1. A number of bacteria degrade urea as a nitrogen source by the urea carboxylase/allophanate hydrolase pathway, which uses biotin and consumes ATP, rather than my means of the nickel-dependent enzyme urease. This model represents one of a pair of homologous, tandem uncharacterized genes found together with the urea carboxylase and allophanate hydrolase genes.
Probab=21.98 E-value=73 Score=23.92 Aligned_cols=42 Identities=12% Similarity=0.290 Sum_probs=25.0
Q ss_pred eEEEecC-CeeEEEeec-CCceeecCCCCccceE-eeccccccccccccCCch
Q psy9631 30 HVYSKTW-DVAARIIDM-GGKDMFMPGEDGNPDP-LRGPMRPHHLLLQSCPHK 79 (90)
Q Consensus 30 Qff~rT~-Dvtg~i~~l-~~~~mvMPGD~~~~~v-L~~pm~ie~~l~~~~~~~ 79 (90)
.||++++ |-.|++ .+ ++ ..-|||.|++.. ..-=++ ...|||-
T Consensus 137 N~Fm~v~v~~dG~l-~~~~~--~s~~Gd~V~LrAemDllv~-----lSaCP~~ 181 (198)
T TIGR03424 137 NFFMNVPVTPDGSL-TIVDG--ISAPGKYVELRAEMDVLVL-----ISNCPQL 181 (198)
T ss_pred eeeeecccCCCCCE-EEcCC--CCCCCCEEEEEEccceEEE-----EecCCCC
Confidence 3566665 566777 65 33 357999998875 322222 3467775
No 62
>PF07703 A2M_N_2: Alpha-2-macroglobulin family N-terminal region; InterPro: IPR011625 This is a domain of the alpha-2-macroglobulin family. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; PDB: 2QKI_D 3L3O_D 3NMS_A 2ICF_A 2A73_A 2ICE_D 2HR0_A 2A74_A 2XWJ_G 3OHX_A ....
Probab=21.33 E-value=49 Score=21.63 Aligned_cols=16 Identities=25% Similarity=0.366 Sum_probs=13.5
Q ss_pred CceeecCCCCccceE-e
Q psy9631 47 GKDMFMPGEDGNPDP-L 62 (90)
Q Consensus 47 ~~~mvMPGD~~~~~v-L 62 (90)
+.+.+.||+++++.| -
T Consensus 102 ~~~~~~Pg~~~~~~i~~ 118 (136)
T PF07703_consen 102 SPDEYKPGEEVTLRIKA 118 (136)
T ss_dssp SSSSBTTTSEEEEEEEE
T ss_pred ecceeCCCCEEEEEEEe
Confidence 357899999999888 5
No 63
>COG3745 CpaB Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]
Probab=20.62 E-value=93 Score=25.02 Aligned_cols=28 Identities=18% Similarity=0.177 Sum_probs=19.4
Q ss_pred EEEecCCeeEEEeecCCceeecCCCCccceE-eec
Q psy9631 31 VYSKTWDVAARIIDMGGKDMFMPGEDGNPDP-LRG 64 (90)
Q Consensus 31 ff~rT~Dvtg~i~~l~~~~mvMPGD~~~~~v-L~~ 64 (90)
+-+|..+++|.= -+|+|||.|.+.+ +.+
T Consensus 132 vai~V~~v~gvG------GFVlPgDrVDVilt~~k 160 (276)
T COG3745 132 VAIRVDEVVGVG------GFVLPGDRVDVILTVRK 160 (276)
T ss_pred EEEEEeeeeecc------ceecCCCeEEEEEEEec
Confidence 456666666532 5889999998877 554
Done!