Query psy10356
Match_columns 129
No_of_seqs 120 out of 1094
Neff 7.4
Searched_HMMs 46136
Date Fri Aug 16 15:49:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10356.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10356hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd03704 eRF3c_III This family 100.0 2E-34 4.3E-39 195.5 11.9 106 22-127 2-108 (108)
2 cd04093 HBS1_C HBS1_C: this fa 100.0 7.4E-34 1.6E-38 192.0 13.6 106 22-127 2-107 (107)
3 cd03705 EF1_alpha_III Domain I 100.0 7.4E-34 1.6E-38 191.1 10.8 103 22-124 2-104 (104)
4 cd04095 CysN_NoDQ_III TCysN_No 100.0 1.9E-30 4E-35 174.6 11.8 100 22-124 2-103 (103)
5 PLN00043 elongation factor 1-a 100.0 1E-29 2.2E-34 208.6 15.5 110 19-128 321-430 (447)
6 PF03143 GTP_EFTU_D3: Elongati 100.0 2.5E-29 5.3E-34 168.5 13.1 99 19-128 1-99 (99)
7 cd01513 Translation_factor_III 100.0 1.8E-28 3.9E-33 163.6 11.7 101 22-124 2-102 (102)
8 COG5256 TEF1 Translation elong 100.0 4.4E-29 9.5E-34 200.6 9.0 121 6-129 308-428 (428)
9 PRK12317 elongation factor 1-a 100.0 9.7E-28 2.1E-32 195.3 15.8 111 19-129 312-422 (425)
10 TIGR00483 EF-1_alpha translati 100.0 1.8E-27 3.9E-32 193.9 16.1 110 19-128 314-423 (426)
11 PTZ00141 elongation factor 1- 100.0 3.9E-27 8.5E-32 193.4 16.2 110 19-128 321-430 (446)
12 KOG0459|consensus 99.9 4.9E-26 1.1E-30 182.7 11.7 119 7-129 383-501 (501)
13 PRK05124 cysN sulfate adenylyl 99.9 5.9E-24 1.3E-28 175.7 14.0 117 4-128 320-438 (474)
14 TIGR02034 CysN sulfate adenyly 99.9 6E-23 1.3E-27 166.8 13.3 113 4-124 292-406 (406)
15 PRK05506 bifunctional sulfate 99.9 1.2E-22 2.6E-27 172.7 15.0 117 4-128 316-434 (632)
16 cd03708 GTPBP_III Domain III o 99.9 1.2E-22 2.7E-27 132.4 10.2 85 22-127 2-87 (87)
17 KOG0052|consensus 99.9 3.4E-23 7.3E-28 165.7 4.6 121 6-128 252-372 (391)
18 COG2895 CysN GTPases - Sulfate 99.9 1.6E-21 3.4E-26 154.9 11.7 105 19-126 308-414 (431)
19 cd03706 mtEFTU_III Domain III 99.9 3.8E-21 8.3E-26 127.1 11.5 86 23-127 3-93 (93)
20 cd03707 EFTU_III Domain III of 99.8 1.8E-20 4E-25 123.0 10.8 83 23-124 3-90 (90)
21 PLN03126 Elongation factor Tu; 99.8 2.2E-19 4.8E-24 148.7 13.6 96 20-129 378-478 (478)
22 CHL00071 tufA elongation facto 99.8 6.1E-19 1.3E-23 143.4 12.7 96 20-129 309-409 (409)
23 KOG0458|consensus 99.8 1E-19 2.2E-24 151.2 7.1 114 16-129 490-603 (603)
24 PRK12735 elongation factor Tu; 99.8 2.8E-18 6.1E-23 139.0 13.4 91 20-129 301-396 (396)
25 PLN03127 Elongation factor Tu; 99.8 4E-18 8.7E-23 140.3 13.8 91 20-129 352-447 (447)
26 PRK00049 elongation factor Tu; 99.8 2.7E-18 5.9E-23 139.2 12.3 91 20-129 301-396 (396)
27 TIGR00485 EF-Tu translation el 99.8 5E-18 1.1E-22 137.4 13.3 91 20-129 299-394 (394)
28 PRK12736 elongation factor Tu; 99.8 9.2E-18 2E-22 136.0 13.9 90 21-129 300-394 (394)
29 KOG0460|consensus 99.6 3.1E-15 6.7E-20 118.9 7.8 102 3-129 332-438 (449)
30 COG0050 TufB GTPases - transla 99.6 5.3E-14 1.1E-18 110.2 11.5 102 3-129 288-394 (394)
31 cd04094 selB_III This family r 99.5 9.9E-13 2.2E-17 87.4 11.3 94 5-124 1-97 (97)
32 COG5258 GTPBP1 GTPase [General 99.4 1.3E-12 2.7E-17 105.6 8.0 88 19-127 438-526 (527)
33 KOG0463|consensus 99.3 1.1E-11 2.5E-16 100.2 8.5 99 5-129 449-548 (641)
34 KOG1143|consensus 99.1 2E-10 4.4E-15 92.9 8.9 90 20-129 494-584 (591)
35 PRK04000 translation initiatio 99.1 4.5E-10 9.8E-15 91.7 11.1 77 20-124 321-410 (411)
36 PTZ00327 eukaryotic translatio 99.1 7.5E-10 1.6E-14 91.8 12.0 91 4-126 343-451 (460)
37 TIGR03680 eif2g_arch translati 99.0 5.5E-09 1.2E-13 85.2 11.1 77 20-124 316-405 (406)
38 PRK10512 selenocysteinyl-tRNA- 98.6 6.6E-07 1.4E-11 76.7 11.0 73 28-128 267-341 (614)
39 TIGR00475 selB selenocysteine- 98.1 3.5E-05 7.6E-10 65.8 10.7 63 37-127 275-338 (581)
40 PF09173 eIF2_C: Initiation fa 95.3 0.45 9.8E-06 31.2 10.8 60 37-124 25-88 (88)
41 COG3276 SelB Selenocysteine-sp 92.9 0.76 1.7E-05 38.4 8.2 53 4-62 248-301 (447)
42 COG5257 GCD11 Translation init 88.2 11 0.00023 30.9 10.5 89 7-126 312-413 (415)
43 PF03054 tRNA_Me_trans: tRNA m 38.6 2E+02 0.0044 23.4 7.4 16 109-124 341-356 (356)
44 PRK13612 photosystem II reacti 33.0 1.1E+02 0.0023 21.0 4.2 37 81-118 26-63 (113)
45 PRK14664 tRNA-specific 2-thiou 30.1 3.1E+02 0.0066 22.4 7.3 32 87-125 313-346 (362)
46 PRK00215 LexA repressor; Valid 28.1 1.5E+02 0.0032 21.5 4.7 45 8-61 122-166 (205)
47 TIGR00999 8a0102 Membrane Fusi 27.9 2.5E+02 0.0055 20.7 6.2 70 24-93 123-199 (265)
48 COG1974 LexA SOS-response tran 27.3 1.1E+02 0.0024 22.9 3.9 48 8-63 116-163 (201)
49 TIGR00498 lexA SOS regulatory 26.5 1.7E+02 0.0037 21.1 4.8 37 7-49 114-150 (199)
50 PRK13610 photosystem II reacti 25.0 1.3E+02 0.0028 20.6 3.5 37 81-118 30-67 (113)
51 TIGR03047 PS_II_psb28 photosys 24.7 1.3E+02 0.0029 20.4 3.5 37 81-118 21-60 (109)
52 cd01998 tRNA_Me_trans tRNA met 24.3 3.7E+02 0.0081 21.5 8.0 16 109-124 334-349 (349)
53 PF06622 SepQ: SepQ protein; 21.9 1.3E+02 0.0028 23.6 3.4 23 107-129 272-294 (305)
54 PRK12423 LexA repressor; Provi 21.6 2.1E+02 0.0044 21.0 4.4 47 7-62 117-163 (202)
55 PF00717 Peptidase_S24: Peptid 21.3 1.6E+02 0.0035 16.9 3.3 47 8-62 1-47 (70)
56 PRK10276 DNA polymerase V subu 21.1 2.6E+02 0.0056 19.1 4.6 46 7-61 54-99 (139)
57 TIGR00420 trmU tRNA (5-methyla 21.0 4.5E+02 0.0097 21.2 7.8 16 109-124 337-352 (352)
58 PRK09859 multidrug efflux syst 20.6 3.2E+02 0.007 21.9 5.7 55 39-93 234-296 (385)
59 PLN00039 photosystem II reacti 20.3 2E+02 0.0043 19.6 3.7 37 81-118 23-61 (111)
No 1
>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=100.00 E-value=2e-34 Score=195.47 Aligned_cols=106 Identities=66% Similarity=0.968 Sum_probs=101.2
Q ss_pred eeccEEEEEEecCCc-cccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeeecc
Q psy10356 22 IYGPSVIYIVILEHK-SIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQ 100 (129)
Q Consensus 22 ~~~~f~A~v~~l~~~-~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~ve~ 100 (129)
.+++|+|+|+||+++ .+|.+||++++|+|+.+++|+|.+|.+++|+++|+..+++|++|++||.|+|+|++++|+|+|+
T Consensus 2 ~~~~F~A~i~vl~~~~~~i~~Gy~~~l~~~t~~~~~~i~~i~~~~d~~~g~~~~~~p~~l~~g~~a~v~i~~~~pi~~e~ 81 (108)
T cd03704 2 VVTEFEAQIAILELKRSIITAGYSAVLHIHTAVEEVTIKKLIALIDKKTGKKSKKRPRFVKSGMKVIARLETTGPICLEK 81 (108)
T ss_pred cccEEEEEEEEEeCCCCcCcCCCEEEEEEcccEEeEEEehhhhhhccccCcccccCCcEeCCCCEEEEEEEeCCcEEEEE
Confidence 468999999999998 8999999999999999999999999999999988776789999999999999999999999999
Q ss_pred cccCCcceEEEEEeCCCeEEEEEEEEe
Q psy10356 101 FKLFPQMGRFTLRDEGKTIAIGKVLKI 127 (129)
Q Consensus 101 ~~~~~~lGrfiLrd~g~Tva~G~V~~v 127 (129)
|++++.||||+|||+|+|+|+|+|+++
T Consensus 82 ~~~~~~lGRf~lR~~g~Tva~G~V~~~ 108 (108)
T cd03704 82 FEDFPQLGRFTLRDEGKTIAIGKVLKL 108 (108)
T ss_pred cccCCCcccEEEEeCCCEEEEEEEEEC
Confidence 999999999999999999999999874
No 2
>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=100.00 E-value=7.4e-34 Score=192.03 Aligned_cols=106 Identities=32% Similarity=0.442 Sum_probs=101.5
Q ss_pred eeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeeeccc
Q psy10356 22 IYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQF 101 (129)
Q Consensus 22 ~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~ve~~ 101 (129)
.+++|+|+|+||+++.||.+||+|++|+|+++++|+|.+|.+++|.++++..+++|++|++||.|.|+|++++|+|+|+|
T Consensus 2 ~~~~f~A~v~~l~~~~pl~~G~~~~l~~~t~~~~~~v~~I~~~~d~~t~~~~~~~~~~l~~~~~a~v~l~~~~pi~~e~~ 81 (107)
T cd04093 2 SSTRFEARILTFNVDKPILPGTPFELFRHSLKEPATITKLVSILDKSTGEVSKKKPRCLTKGQTAIVEIELERPIPLELF 81 (107)
T ss_pred cccEEEEEEEEECCCcccCCCCcEEEEecccEEeEEEEEeeEEeccCCCcEeccCCcCcCCCCEEEEEEEECCeEEEEEc
Confidence 46899999999998899999999999999999999999999999999998766789999999999999999999999999
Q ss_pred ccCCcceEEEEEeCCCeEEEEEEEEe
Q psy10356 102 KLFPQMGRFTLRDEGKTIAIGKVLKI 127 (129)
Q Consensus 102 ~~~~~lGrfiLrd~g~Tva~G~V~~v 127 (129)
++++.||||+||++|.|+|+|+|++|
T Consensus 82 ~~~~~~Grfilr~~~~Tva~G~I~~i 107 (107)
T cd04093 82 KDNKELGRVVLRRDGETIAAGLVTEI 107 (107)
T ss_pred ccCCCcceEEEEcCCCEEEEEEEEeC
Confidence 99999999999999999999999875
No 3
>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=100.00 E-value=7.4e-34 Score=191.15 Aligned_cols=103 Identities=28% Similarity=0.584 Sum_probs=99.0
Q ss_pred eeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeeeccc
Q psy10356 22 IYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQF 101 (129)
Q Consensus 22 ~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~ve~~ 101 (129)
.+++|+|+|+||+++.||.+||+|++|+++.+++|+|.+|.+++|.++++..+++|++|++||.|.|+|++++|+|+|+|
T Consensus 2 ~~~~f~A~v~~l~~~~pl~~G~~~~~~~~t~~~~~~I~~i~~~~d~~t~~~~~~~~~~l~~n~~a~v~l~~~~pi~~e~~ 81 (104)
T cd03705 2 VAESFTAQVIVLNHPGQIKPGYTPVLDCHTAHVACRFAEILSKIDPRTGKKLEENPKFLKSGDAAIVKIVPQKPLVVETF 81 (104)
T ss_pred cccEEEEEEEEECCCCcccCCceEEEEeccceEeEEEEhhhhhhccccCCccccCcCccCCCCEEEEEEEECCeeEEEEc
Confidence 46899999999999999999999999999999999999999999999997766789999999999999999999999999
Q ss_pred ccCCcceEEEEEeCCCeEEEEEE
Q psy10356 102 KLFPQMGRFTLRDEGKTIAIGKV 124 (129)
Q Consensus 102 ~~~~~lGrfiLrd~g~Tva~G~V 124 (129)
++++.||||+|||+|.|+|+|+|
T Consensus 82 ~~~~~lgrf~lrd~~~Tva~G~v 104 (104)
T cd03705 82 SEYPPLGRFAVRDMGQTVAVGIV 104 (104)
T ss_pred ccCCCccCEEEEeCCCEEEEEEC
Confidence 99999999999999999999986
No 4
>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=99.97 E-value=1.9e-30 Score=174.63 Aligned_cols=100 Identities=16% Similarity=0.247 Sum_probs=94.1
Q ss_pred eeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeeeccc
Q psy10356 22 IYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQF 101 (129)
Q Consensus 22 ~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~ve~~ 101 (129)
.+++|+|+|+||+. .||.+||+|++|+|+.+++|+|.+|.+++|+++++. .+|++|+.||+|.|+|++++|+|+|+|
T Consensus 2 ~~~~f~a~i~~l~~-~pl~~G~~~~l~~~t~~~~~~i~~i~~~id~~t~~~--~~~~~l~~n~~a~v~i~~~~pi~~d~~ 78 (103)
T cd04095 2 VSDQFAATLVWMDE-EPLRPGRKYLLKLGTRTVRATVTAIKYRVDVNTLEH--EAADTLELNDIGRVELSLSKPLAFDPY 78 (103)
T ss_pred ccceeeEEEEEecC-cccCCCCEEEEEEcCCEEEEEEeeeeEEEcCCCCCc--cCCCEECCCCeEEEEEEeCCccEecch
Confidence 46899999999995 699999999999999999999999999999999874 589999999999999999999999999
Q ss_pred ccCCcceEEEEEe--CCCeEEEEEE
Q psy10356 102 KLFPQMGRFTLRD--EGKTIAIGKV 124 (129)
Q Consensus 102 ~~~~~lGrfiLrd--~g~Tva~G~V 124 (129)
++++.+|||+|+| +|.|+|+|+|
T Consensus 79 ~~~~~~GrfiliD~~~~~tva~G~i 103 (103)
T cd04095 79 RENRATGSFILIDRLTNATVGAGMI 103 (103)
T ss_pred hhCCCcceEEEEECCCCcEEEEEeC
Confidence 9999999999966 5999999986
No 5
>PLN00043 elongation factor 1-alpha; Provisional
Probab=99.97 E-value=1e-29 Score=208.65 Aligned_cols=110 Identities=22% Similarity=0.484 Sum_probs=105.8
Q ss_pred cceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeee
Q psy10356 19 QRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICL 98 (129)
Q Consensus 19 ~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~v 98 (129)
++..+++|+|+|+||++|.+|.+||++++|+|+.+++|+|.+|.+++|.++|+..+++|++|++||.|.|+|++++|+|+
T Consensus 321 p~~~~~~F~A~i~~l~~~~~i~~gy~~~~~~~t~~~~~~i~~i~~~ld~~t~~~~~~~p~~l~~~~~a~v~i~~~~pi~~ 400 (447)
T PLN00043 321 PAKEAANFTSQVIIMNHPGQIGNGYAPVLDCHTSHIAVKFAEILTKIDRRSGKELEKEPKFLKNGDAGFVKMIPTKPMVV 400 (447)
T ss_pred CCccccEEEEEEEEECCCCCCCCCCeEEEEEccCEEEEEEEEeEEEeccCCccccccCcccccCCCEEEEEEEECCcEEE
Confidence 36789999999999999999999999999999999999999999999999998878899999999999999999999999
Q ss_pred cccccCCcceEEEEEeCCCeEEEEEEEEee
Q psy10356 99 DQFKLFPQMGRFTLRDEGKTIAIGKVLKIV 128 (129)
Q Consensus 99 e~~~~~~~lGrfiLrd~g~Tva~G~V~~v~ 128 (129)
|+|++++.||||+|||+|.|||+|+|+++.
T Consensus 401 e~~~~~~~lGrf~lrd~~~Tva~G~v~~v~ 430 (447)
T PLN00043 401 ETFSEYPPLGRFAVRDMRQTVAVGVIKSVE 430 (447)
T ss_pred EecccCCCCceEEEEECCCeEEEEEEEEEe
Confidence 999999999999999999999999999875
No 6
>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=99.97 E-value=2.5e-29 Score=168.52 Aligned_cols=99 Identities=37% Similarity=0.643 Sum_probs=89.8
Q ss_pred cceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeee
Q psy10356 19 QRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICL 98 (129)
Q Consensus 19 ~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~v 98 (129)
+++.+++|+|+|++|+++.+|.+||++++|+|+++++|++.+|.+++| ++++. |++|++||.|.|+|++++|+|+
T Consensus 1 ~~k~~~~f~A~v~vl~~~~~i~~Gy~~~~~~~t~~~~~~i~~i~~~~~--~~~~~---p~~l~~g~~a~v~l~~~~pi~v 75 (99)
T PF03143_consen 1 PIKAVNRFEAQVIVLDHPKPISPGYQPVLHIHTADVPCRIVKIISKID--TGKKK---PKFLKPGDRAVVELEFQKPICV 75 (99)
T ss_dssp SSEEEEEEEEEEEESSGSS-BETTEEEEEEETTEEEEEEEEEEEEEES--TTTEE----SEB-TTEEEEEEEEEEEEEEE
T ss_pred CCcccCEEEEEEEEEcCCccccCCCccceEEeeceeeEEEEeeeeccc--ccccc---ccccccccccccceeeccceee
Confidence 478999999999999999999999999999999999999999999999 55543 9999999999999999999999
Q ss_pred cccccCCcceEEEEEeCCCeEEEEEEEEee
Q psy10356 99 DQFKLFPQMGRFTLRDEGKTIAIGKVLKIV 128 (129)
Q Consensus 99 e~~~~~~~lGrfiLrd~g~Tva~G~V~~v~ 128 (129)
|+|+ ||+|||+|+|+|+|+|++|.
T Consensus 76 e~~~------Rf~lR~~~~Tia~G~V~~vi 99 (99)
T PF03143_consen 76 EPFS------RFILRDGGKTIAVGVVTKVI 99 (99)
T ss_dssp TTTT------EEEEEETTEEEEEEEEEEE-
T ss_pred ecCc------eEEEccCCeEEEEEEEEEeC
Confidence 9996 99999999999999999984
No 7
>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=99.96 E-value=1.8e-28 Score=163.56 Aligned_cols=101 Identities=28% Similarity=0.472 Sum_probs=95.2
Q ss_pred eeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeeeccc
Q psy10356 22 IYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQF 101 (129)
Q Consensus 22 ~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~ve~~ 101 (129)
.+++|+|+|+||+++.+|.+||++.+|+++++++|+|..|.+++|.++. .+++|++|++||.|.|+|++++|+++|+|
T Consensus 2 ~~~~f~a~i~~l~~~~pl~~g~~~~l~~~t~~~~~~i~~i~~~~d~~~~--~~~~~~~l~~~~~a~v~l~~~~pi~~e~~ 79 (102)
T cd01513 2 AVDKFVAEIYVLDHPEPLSPGYKPVLNVGTAHVPGRIAKLLSKVDGKTE--EKKPPEFLKSGERGIVEVELQKPVALETF 79 (102)
T ss_pred cccEEEEEEEEECCCcccCCCCcEEEEeecCEEeEEEEeeeeecccCcc--cccCchhhcCCCEEEEEEEECCceEEEEh
Confidence 4689999999999989999999999999999999999999999999853 35788999999999999999999999999
Q ss_pred ccCCcceEEEEEeCCCeEEEEEE
Q psy10356 102 KLFPQMGRFTLRDEGKTIAIGKV 124 (129)
Q Consensus 102 ~~~~~lGrfiLrd~g~Tva~G~V 124 (129)
++++.+|||+|||+++|+|+|+|
T Consensus 80 ~~~~~~grfilr~~~~tvg~G~V 102 (102)
T cd01513 80 SENQEGGRFALRDGGRTVGAGLI 102 (102)
T ss_pred hhCCCcccEEEEeCCCEEEEEEC
Confidence 99999999999999999999986
No 8
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=4.4e-29 Score=200.55 Aligned_cols=121 Identities=34% Similarity=0.598 Sum_probs=116.2
Q ss_pred eeEEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCE
Q psy10356 6 HATVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQI 85 (129)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~ 85 (129)
+|.|+|.++|.+ ..+..|.|||.+|++|.+|.+||+++||+|+.+++|++.+|..++|+.++++.+++|.++++|+.
T Consensus 308 ~Gdv~~~~~n~~---t~s~~f~a~i~vl~~p~~i~~Gyt~vlh~hta~~a~~~~~l~~k~d~~t~k~~~~~p~f~k~g~~ 384 (428)
T COG5256 308 RGDVIGHSDNPP---TVSPEFTAQIIVLWHPGIITSGYTPVLHAHTAQVACRIAELLSKLDPRTGKKLEENPQFLKRGDA 384 (428)
T ss_pred CccEeccCCCCc---ccccceEEEEEEEecCccccCCCccEEEecccceeeeHHHHHHhhCcccccccccChhhhhcCce
Confidence 688999999885 77799999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEECceeeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 86 AIMRLEAAGVICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 86 a~v~l~~~~pi~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
+.|++++.+|+|+|.+++++.||||+|||+|+|||+|+|.++.+
T Consensus 385 ~iv~i~~~kP~~~e~~~~~~~Lgrfalrd~g~tIA~G~v~~v~~ 428 (428)
T COG5256 385 AIVKIEPEKPLCLEKVSEIPQLGRFALRDMGQTIAAGKVLEVKK 428 (428)
T ss_pred EEEEEEecCceEeeecccCCccceEEEEeCCCeEEeEEEEeccC
Confidence 99999999999999999999999999999999999999998753
No 9
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=99.96 E-value=9.7e-28 Score=195.30 Aligned_cols=111 Identities=31% Similarity=0.579 Sum_probs=106.3
Q ss_pred cceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeee
Q psy10356 19 QRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICL 98 (129)
Q Consensus 19 ~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~v 98 (129)
+|..+++|+|+|+||+++.+|++||++++|+++.+++|+|.+|.+.+|+++++..+++|++|++||.|.|+|++++|+|+
T Consensus 312 ~~~~~~~f~a~v~~l~~~~~i~~G~~~~~~~~t~~~~~~i~~i~~~~d~~t~~~~~~~p~~l~~g~~a~v~l~~~~p~~~ 391 (425)
T PRK12317 312 PPTVAEEFTAQIVVLQHPSAITVGYTPVFHAHTAQVACTFEELVKKLDPRTGQVAEENPQFIKTGDAAIVKIKPTKPLVI 391 (425)
T ss_pred CCCcccEEEEEEEEECCCCcCCCCCeEEEEEcCcEEEEEEEEEEEEeccccccccCCCCcEECCCCEEEEEEEECCeeEE
Confidence 36789999999999999999999999999999999999999999999999998888899999999999999999999999
Q ss_pred cccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 99 DQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 99 e~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
|+|++++.||||+|||+|+|+|+|+|+++.+
T Consensus 392 ~~~~~~~~lgrfilr~~g~tv~~G~i~~v~~ 422 (425)
T PRK12317 392 EKVKEIPQLGRFAIRDMGQTIAAGMVIDVKP 422 (425)
T ss_pred EeCCcCCCCccEEEEECCCeEEEEEEEEecc
Confidence 9999999999999999999999999998753
No 10
>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=99.95 E-value=1.8e-27 Score=193.87 Aligned_cols=110 Identities=27% Similarity=0.513 Sum_probs=105.8
Q ss_pred cceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeee
Q psy10356 19 QRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICL 98 (129)
Q Consensus 19 ~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~v 98 (129)
+|..+++|+|+|.||+++.+|.+||++++|+||.+++|+|.+|.+++|+++++..+++|++|++||.|.|+|++++|+|+
T Consensus 314 ~~~~~~~f~a~v~~l~~~~~i~~g~~~~~~~~t~~~~~~i~~i~~~~~~~t~~~~~~~p~~l~~g~~a~v~l~~~~pi~~ 393 (426)
T TIGR00483 314 PPKVAKEFTAQIVVLQHPGAITVGYTPVFHCHTAQIACRFDELLKKNDPRTGQVLEENPQFLKTGDAAIVKFKPTKPMVI 393 (426)
T ss_pred CCceeeEEEEEEEEECCCCccCCCCeEEEEecCcEEEEEEEEEEEEecCccccccCCCCceeCCCCEEEEEEEECCeeEE
Confidence 46789999999999999999999999999999999999999999999999998888899999999999999999999999
Q ss_pred cccccCCcceEEEEEeCCCeEEEEEEEEee
Q psy10356 99 DQFKLFPQMGRFTLRDEGKTIAIGKVLKIV 128 (129)
Q Consensus 99 e~~~~~~~lGrfiLrd~g~Tva~G~V~~v~ 128 (129)
|+|++++.+|||+|||+|+|+|+|+|+++.
T Consensus 394 e~~~~~~~~grf~lr~~g~tv~~G~v~~~~ 423 (426)
T TIGR00483 394 EAVKEIPPLGRFAIRDMGQTVAAGMIIDVD 423 (426)
T ss_pred eecccCCCCccEEEEECCCEEEEEEEEEee
Confidence 999999999999999999999999999875
No 11
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=99.95 E-value=3.9e-27 Score=193.38 Aligned_cols=110 Identities=23% Similarity=0.485 Sum_probs=105.4
Q ss_pred cceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeee
Q psy10356 19 QRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICL 98 (129)
Q Consensus 19 ~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~v 98 (129)
++..+++|+|+|+||+++.+|.+||++++|+++.+++|+|.+|.+++|+++++..+++|++|++||.|.|+|++++|+|+
T Consensus 321 p~~~~~~f~a~i~~l~~~~~i~~G~~~vl~~~t~~~~~~i~~i~~~ld~~t~~~~~~~p~~l~~g~~a~v~l~~~~pi~~ 400 (446)
T PTZ00141 321 PAKECADFTAQVIVLNHPGQIKNGYTPVLDCHTAHIACKFAEIESKIDRRSGKVLEENPKAIKSGDAAIVKMVPTKPMCV 400 (446)
T ss_pred CCccceEEEEEEEEECCCCccCCCCeEEEEEeceEEEEEEEEEEEEeccccccccCCCCcEECCCCEEEEEEEECCceEE
Confidence 46788999999999999999999999999999999999999999999999998777899999999999999999999999
Q ss_pred cccccCCcceEEEEEeCCCeEEEEEEEEee
Q psy10356 99 DQFKLFPQMGRFTLRDEGKTIAIGKVLKIV 128 (129)
Q Consensus 99 e~~~~~~~lGrfiLrd~g~Tva~G~V~~v~ 128 (129)
|+|++++.+|||+|||+|+|+|+|+|+++.
T Consensus 401 e~~~~~~~lgrfilrd~g~tva~G~I~~v~ 430 (446)
T PTZ00141 401 EVFNEYPPLGRFAVRDMKQTVAVGVIKSVE 430 (446)
T ss_pred eecccCCCCccEEEEECCCEEEEEEEEEEe
Confidence 999999999999999999999999999875
No 12
>KOG0459|consensus
Probab=99.93 E-value=4.9e-26 Score=182.69 Aligned_cols=119 Identities=65% Similarity=0.879 Sum_probs=111.5
Q ss_pred eEEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEE
Q psy10356 7 ATVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIA 86 (129)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a 86 (129)
|.|=++++|.- +..+.|.|||.+|+|+.-|.+||+++||+|+.-..|.| ++.+.+|++||++.+..|++++.|+.+
T Consensus 383 GfiL~~~~n~~---~s~~~F~aqi~IlE~~sIi~~GY~~VlHIht~ieEv~i-~li~~idkktg~ksKkrprFvkq~~~~ 458 (501)
T KOG0459|consen 383 GFILCSPNNPC---KSGRTFDAQIVILEHKSIICAGYSCVLHIHTAVEEVEI-KLIHLIDKKTGEKSKKRPRFVKQGQKC 458 (501)
T ss_pred ceEEecCCCcc---ccccEEEEEEEEEecCceeccCcceEeeeeeehhheee-eeeeeecccccccccCCCeeecCCcEE
Confidence 45566777664 89999999999999999999999999999999999999 778999999999989999999999999
Q ss_pred EEEEEECceeeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 87 IMRLEAAGVICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 87 ~v~l~~~~pi~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
+++|+...|+|+|.|+++|.+|||.|||+|+|+|+|+|+++.+
T Consensus 459 iarl~t~~~iCle~fkd~pqmgRFtLRdegkTIAiGkV~kv~~ 501 (501)
T KOG0459|consen 459 IARLETEGPICLETFKDYPQMGRFTLRDEGKTIAIGKVLKVVE 501 (501)
T ss_pred EEEEecCCcEehhhcccchhhcceEEecCCcEEEEEEEEeecC
Confidence 9999999999999999999999999999999999999999865
No 13
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=99.91 E-value=5.9e-24 Score=175.74 Aligned_cols=117 Identities=18% Similarity=0.188 Sum_probs=103.7
Q ss_pred eceeEEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCC
Q psy10356 4 RGHATVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQD 83 (129)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~g 83 (129)
||.+.+..+ ++|..+++|+|+|.||+ +.+|.+||++++|+|+.+++|+|.+|.+++|++|+++ .+|.+|++|
T Consensus 320 rG~VL~~~~-----~~~~~~~~f~a~i~~l~-~~~i~~G~~~~l~~gt~~~~a~i~~i~~~id~~t~~~--~~~~~l~~g 391 (474)
T PRK05124 320 RGDLLVAAD-----EALQAVQHASADVVWMA-EQPLQPGQSYDIKIAGKKTRARVDAIRYQVDINTLTQ--REAENLPLN 391 (474)
T ss_pred CccEEECCC-----CCCccceEEEEEEEEeC-CcccCCCCeEEEEeCCCEEEEEEEEEeeeeccCCCcc--cCccccCCC
Confidence 455555432 22578999999999999 5899999999999999999999999999999999975 568999999
Q ss_pred CEEEEEEEECceeeecccccCCcceEEEEE--eCCCeEEEEEEEEee
Q psy10356 84 QIAIMRLEAAGVICLDQFKLFPQMGRFTLR--DEGKTIAIGKVLKIV 128 (129)
Q Consensus 84 d~a~v~l~~~~pi~ve~~~~~~~lGrfiLr--d~g~Tva~G~V~~v~ 128 (129)
|.|.|+|++++|+|+|+|++++.||||+|| +++.|||+|+|++..
T Consensus 392 ~~a~v~l~~~~pv~~e~~~~~~~lGRfil~dr~~~~tva~G~V~~~~ 438 (474)
T PRK05124 392 GIGLVELTFDEPLVLDPYQQNRVTGGFIFIDRLTNVTVGAGMVREPL 438 (474)
T ss_pred CEEEEEEEECCeeccccCCcCCcceeEEEEECCCCceEEEEEEeccc
Confidence 999999999999999999999999999995 579999999998753
No 14
>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=99.90 E-value=6e-23 Score=166.79 Aligned_cols=113 Identities=19% Similarity=0.237 Sum_probs=100.9
Q ss_pred eceeEEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCC
Q psy10356 4 RGHATVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQD 83 (129)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~g 83 (129)
||......++ +|..+++|+|++.||++ .+|..||++.+|+|+.+++|+|..|.+++|++|+++ .+|++|++|
T Consensus 292 rG~vl~~~~~-----~~~~~~~f~a~i~~l~~-~~i~~g~~~~l~~gt~~~~~~i~~i~~~~d~~t~~~--~~~~~l~~~ 363 (406)
T TIGR02034 292 RGDLLAAADS-----APEVADQFAATLVWMAE-EPLLPGRSYDLKLGTRKVRASVAAIKHKVDVNTLEK--GAAKSLELN 363 (406)
T ss_pred CccEEEcCCC-----CCCcceEEEEEEEEeCh-hhcCCCCEEEEEeCCCEEEEEEEEEEEEecCCCCcc--cCCcccCCC
Confidence 4555544322 35789999999999997 799999999999999999999999999999999975 568999999
Q ss_pred CEEEEEEEECceeeecccccCCcceEEEE--EeCCCeEEEEEE
Q psy10356 84 QIAIMRLEAAGVICLDQFKLFPQMGRFTL--RDEGKTIAIGKV 124 (129)
Q Consensus 84 d~a~v~l~~~~pi~ve~~~~~~~lGrfiL--rd~g~Tva~G~V 124 (129)
+.|.|+|++++|+|+|+|++++.||||+| |++|+|||+|+|
T Consensus 364 ~~~~v~l~~~~p~~~~~~~~~~~lGr~~l~d~~~~~tva~G~I 406 (406)
T TIGR02034 364 EIGRVNLSLDEPIAFDPYAENRTTGAFILIDRLSNRTVGAGMI 406 (406)
T ss_pred CEEEEEEEECCeeccCcccCCCcceeEEEEECCCCCeEEEEeC
Confidence 99999999999999999999999999999 557999999986
No 15
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=99.89 E-value=1.2e-22 Score=172.68 Aligned_cols=117 Identities=16% Similarity=0.214 Sum_probs=104.3
Q ss_pred eceeEEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCC
Q psy10356 4 RGHATVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQD 83 (129)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~g 83 (129)
||...+..++ +|..+++|+|+++||++ .++.+||++++|+|+.+++|+|.+|.+++|++|++. ++|++|++|
T Consensus 316 rG~vL~~~~~-----~~~~~~~f~a~i~~l~~-~~~~~g~~~~l~~gt~~~~a~i~~i~~~~d~~t~~~--~~p~~l~~g 387 (632)
T PRK05506 316 RGDMLARADN-----RPEVADQFDATVVWMAE-EPLLPGRPYLLKHGTRTVPASVAAIKYRVDVNTLER--LAAKTLELN 387 (632)
T ss_pred CccEEecCCC-----CCcceeEEEEEEEEecc-cccCCCCeEEEEeCCCEEEEEEEEEEEEecCCCCcc--CCcceeCCC
Confidence 5665555433 35679999999999997 468899999999999999999999999999999874 789999999
Q ss_pred CEEEEEEEECceeeecccccCCcceEEEEEe--CCCeEEEEEEEEee
Q psy10356 84 QIAIMRLEAAGVICLDQFKLFPQMGRFTLRD--EGKTIAIGKVLKIV 128 (129)
Q Consensus 84 d~a~v~l~~~~pi~ve~~~~~~~lGrfiLrd--~g~Tva~G~V~~v~ 128 (129)
+.|.|+|++++|+|+|+|++|+.||||+||| +|.|+|+|+|++..
T Consensus 388 ~~~~v~l~~~~pi~~e~~~~~~~lGRfilrdr~~~~Tva~G~I~~~~ 434 (632)
T PRK05506 388 EIGRCNLSTDAPIAFDPYARNRTTGSFILIDRLTNATVGAGMIDFAL 434 (632)
T ss_pred CEEEEEEEECCEEeeeeccccccCceEEEEeccCCceEEEEEECccc
Confidence 9999999999999999999999999999966 89999999998653
No 16
>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=99.89 E-value=1.2e-22 Score=132.37 Aligned_cols=85 Identities=21% Similarity=0.334 Sum_probs=77.0
Q ss_pred eeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEE-Cceeeecc
Q psy10356 22 IYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEA-AGVICLDQ 100 (129)
Q Consensus 22 ~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~-~~pi~ve~ 100 (129)
.+++|+|+|+||+++.+|.+||++++|+++++++|+|.+|.+ +++++||.+.|+|+| .+|+++|+
T Consensus 2 ~~~~f~A~i~il~~~~~i~~Gy~~~l~~~t~~~~~~i~~i~~--------------~~l~~g~~~~v~i~f~~~p~~~e~ 67 (87)
T cd03708 2 ACWEFEAEILVLHHPTTISPGYQATVHIGSIRQTARIVSIDK--------------DVLRTGDRALVRFRFLYHPEYLRE 67 (87)
T ss_pred ceeEEEEEEEEEcCCCcccCCCEeEEEEcCCEEEEEEEeccH--------------hhccCCCeEEEEEEECCCCcEEcc
Confidence 478999999999999999999999999999999999998742 578999999999995 79999887
Q ss_pred cccCCcceEEEEEeCCCeEEEEEEEEe
Q psy10356 101 FKLFPQMGRFTLRDEGKTIAIGKVLKI 127 (129)
Q Consensus 101 ~~~~~~lGrfiLrd~g~Tva~G~V~~v 127 (129)
+|||+||++ +|+|+|+|+++
T Consensus 68 ------~grf~lr~g-~tva~G~I~~~ 87 (87)
T cd03708 68 ------GQRLIFREG-RTKGVGEVTKV 87 (87)
T ss_pred ------CCeEEEECC-CcEEEEEEEEC
Confidence 599999775 99999999875
No 17
>KOG0052|consensus
Probab=99.87 E-value=3.4e-23 Score=165.68 Aligned_cols=121 Identities=26% Similarity=0.463 Sum_probs=116.8
Q ss_pred eeEEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCE
Q psy10356 6 HATVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQI 85 (129)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~ 85 (129)
+|+|+|+|||. ++.....|+||+++|+||..|..||.+.|.||+.+.+|++.+|..++|..+++.++..|++++++|.
T Consensus 252 ~gnV~~dsK~~--p~~~~~g~t~qviilnhpgqis~gy~pvldcht~hiacKfael~~Kid~~sg~~~e~~pk~~~~~da 329 (391)
T KOG0052|consen 252 RGNVVGDSKND--PPVEAAGFTAQVIILNHPGQISVGYAPVLDCHTAHIACKFAELKEKIDRRSGKKLEDEPKFLKSGDA 329 (391)
T ss_pred ccceecccccC--CccccccceeeEEEecCccccCCCccccccccccceeeehhhchhhhhcCCceeecCCCccccCCcc
Confidence 78899999999 4899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEECceeeecccccCCcceEEEEEeCCCeEEEEEEEEee
Q psy10356 86 AIMRLEAAGVICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIV 128 (129)
Q Consensus 86 a~v~l~~~~pi~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~ 128 (129)
|.+++.|.+|+|+|.|++++.||||.+||...|+|.|+|..+.
T Consensus 330 ai~~~vp~kp~~ve~~~~~~~l~rfav~d~~~tvavgvikav~ 372 (391)
T KOG0052|consen 330 AIVEMVPGKPLCVESFSDYVPLGRFAVRDMRQTVAVGVIKAVD 372 (391)
T ss_pred eeeeeccCCccccccccccccccchhhhhhhccccccceeeee
Confidence 9999999999999999999999999999999999999998653
No 18
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=99.87 E-value=1.6e-21 Score=154.86 Aligned_cols=105 Identities=18% Similarity=0.219 Sum_probs=99.5
Q ss_pred cceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeee
Q psy10356 19 QRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICL 98 (129)
Q Consensus 19 ~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~v 98 (129)
+|..++.|.|+|+||+. .||.+|.+|.+.+++..+.++|..|.+++|.+|++. +.++.|+.|+++.|.+.+++|+++
T Consensus 308 ~~~~~~~f~A~vvWm~~-~pl~pGr~Y~lK~~t~~v~a~V~~i~~~ldvntl~~--~~a~~l~lN~Ig~v~i~~~~pi~f 384 (431)
T COG2895 308 PPAVADAFDADVVWMDE-EPLLPGRSYDLKIATRTVRARVEEIKHQLDVNTLEQ--EGAESLPLNEIGRVRISFDKPIAF 384 (431)
T ss_pred CcchhhhcceeEEEecC-CCCCCCceEEEEecceEEEEEeeeeEEEEecccccc--ccccccCCCcceEEEEecCCceee
Confidence 37889999999999998 799999999999999999999999999999999976 488999999999999999999999
Q ss_pred cccccCCcceEEEEEe--CCCeEEEEEEEE
Q psy10356 99 DQFKLFPQMGRFTLRD--EGKTIAIGKVLK 126 (129)
Q Consensus 99 e~~~~~~~lGrfiLrd--~g~Tva~G~V~~ 126 (129)
|+|.+|+.+|+|||+| .|.|||+|+|.+
T Consensus 385 d~Y~~N~atG~FIlID~~tn~TVgaGmI~~ 414 (431)
T COG2895 385 DAYAENRATGSFILIDRLTNGTVGAGMILA 414 (431)
T ss_pred cccccCcccccEEEEEcCCCCceeceeeec
Confidence 9999999999999999 488999999975
No 19
>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=99.87 E-value=3.8e-21 Score=127.09 Aligned_cols=86 Identities=19% Similarity=0.178 Sum_probs=78.5
Q ss_pred eccEEEEEEecCC-----ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceee
Q psy10356 23 YGPSVIYIVILEH-----KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVIC 97 (129)
Q Consensus 23 ~~~f~A~v~~l~~-----~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~ 97 (129)
+++|+|++.||++ +.+|..||++.+|++|++++|+|..+ | .|++|++||.+.|+|++++|++
T Consensus 3 ~~~f~a~i~~L~~~~~g~~~~i~~g~~~~~~~~t~~~~~~i~~~----~---------~~~~l~~g~~~~v~i~l~~p~~ 69 (93)
T cd03706 3 HDKVEAQVYILSKAEGGRHKPFVSNFQPQMFSLTWDCAARIDLP----P---------GKEMVMPGEDTKVTLILRRPMV 69 (93)
T ss_pred ceEEEEEEEEEcccccCCCccccCCCeeEEEeccceEEEEEECC----C---------CCcEeCCCCEEEEEEEECCcEE
Confidence 6899999999997 58999999999999999999999876 1 2578999999999999999999
Q ss_pred ecccccCCcceEEEEEeCCCeEEEEEEEEe
Q psy10356 98 LDQFKLFPQMGRFTLRDEGKTIAIGKVLKI 127 (129)
Q Consensus 98 ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v 127 (129)
++++ |||+|||+++|+|+|+|+++
T Consensus 70 ~~~g------~rf~lR~~~~tvg~G~V~~~ 93 (93)
T cd03706 70 LEKG------QRFTLRDGNRTIGTGLVTDT 93 (93)
T ss_pred EeeC------CEEEEEECCEEEEEEEEEeC
Confidence 9984 99999999999999999874
No 20
>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=99.85 E-value=1.8e-20 Score=122.99 Aligned_cols=83 Identities=18% Similarity=0.234 Sum_probs=76.3
Q ss_pred eccEEEEEEecCC-----ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceee
Q psy10356 23 YGPSVIYIVILEH-----KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVIC 97 (129)
Q Consensus 23 ~~~f~A~v~~l~~-----~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~ 97 (129)
+++|+|++.||++ +.+|..||++.+|++|++++|+|..+. +|++|++||.|.|+|++++|++
T Consensus 3 ~~~~~a~i~~l~~~~~g~~~~i~~g~~~~l~~gt~~~~~~i~~l~-------------~~~~i~~g~~~~v~l~l~~pv~ 69 (90)
T cd03707 3 HTKFEAEVYVLTKEEGGRHTPFFSGYRPQFYIRTTDVTGSITLPE-------------GTEMVMPGDNVKMTVELIHPIA 69 (90)
T ss_pred eeEEEEEEEEEcccccCCCCcccCCceeEEEeccCeEEEEEEccC-------------cccccCCCCEEEEEEEECCcEE
Confidence 6899999999997 579999999999999999999998862 4578999999999999999999
Q ss_pred ecccccCCcceEEEEEeCCCeEEEEEE
Q psy10356 98 LDQFKLFPQMGRFTLRDEGKTIAIGKV 124 (129)
Q Consensus 98 ve~~~~~~~lGrfiLrd~g~Tva~G~V 124 (129)
++++ |||+||++++|+|+|+|
T Consensus 70 ~~~~------~rf~lR~~~~tig~G~V 90 (90)
T cd03707 70 LEKG------LRFAIREGGRTVGAGVI 90 (90)
T ss_pred EecC------CEEEEecCCcEEEEEEC
Confidence 9984 99999999999999986
No 21
>PLN03126 Elongation factor Tu; Provisional
Probab=99.82 E-value=2.2e-19 Score=148.75 Aligned_cols=96 Identities=21% Similarity=0.261 Sum_probs=86.4
Q ss_pred ceeeccEEEEEEecCCc-----cccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECc
Q psy10356 20 RVIYGPSVIYIVILEHK-----SIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAG 94 (129)
Q Consensus 20 ~~~~~~f~A~v~~l~~~-----~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~ 94 (129)
+..+++|+|+|+||+++ .+|.+||++++|+|+.+++|+|..|.+..| ++|++|++||.|.|+|++.+
T Consensus 378 ~~~~~~F~A~i~vL~~~~gg~~~~I~~G~~~~lhigt~~~~~~I~~i~~~~~--------~~~~~l~~gd~a~v~l~~~~ 449 (478)
T PLN03126 378 ITPHTKFEAIVYVLKKEEGGRHSPFFAGYRPQFYMRTTDVTGKVTSIMNDKD--------EESKMVMPGDRVKMVVELIV 449 (478)
T ss_pred CCceEEEEEEEEEecccccCCcccccCCcEEEEEEEecEEEEEEEEEecccC--------CCccEeCCCCEEEEEEEECC
Confidence 35679999999999984 599999999999999999999999975432 45789999999999999999
Q ss_pred eeeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 95 VICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 95 pi~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
|+|+++ ++||+|||+|+|+|+|+|+++.|
T Consensus 450 Pi~~~~------~~RfilR~~~~Tva~G~V~~v~~ 478 (478)
T PLN03126 450 PVACEQ------GMRFAIREGGKTVGAGVIQSIIE 478 (478)
T ss_pred eEEEcc------CCEEEEecCCceEEEEEEEEecC
Confidence 999987 58999999999999999999875
No 22
>CHL00071 tufA elongation factor Tu
Probab=99.80 E-value=6.1e-19 Score=143.44 Aligned_cols=96 Identities=18% Similarity=0.239 Sum_probs=86.5
Q ss_pred ceeeccEEEEEEecCC-----ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECc
Q psy10356 20 RVIYGPSVIYIVILEH-----KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAG 94 (129)
Q Consensus 20 ~~~~~~f~A~v~~l~~-----~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~ 94 (129)
+..+++|+|+|.||++ +.+|.+||++++|+|+.+++|+|..|... + .++|++|++||.|.|+|++++
T Consensus 309 ~~~~~~f~a~i~~l~~~~~~~~~~i~~g~~~~~~~gt~~~~~~i~~i~~~----~----~~~~~~l~~g~~a~v~l~~~~ 380 (409)
T CHL00071 309 ITPHTKFEAQVYILTKEEGGRHTPFFPGYRPQFYVRTTDVTGKIESFTAD----D----GSKTEMVMPGDRIKMTVELIY 380 (409)
T ss_pred CCcceEEEEEEEEEecccCCccccccCCceEEEEEcccEEEEEEEEEccc----C----CCCCcEecCCCEEEEEEEECC
Confidence 4568999999999998 57999999999999999999999998643 1 257899999999999999999
Q ss_pred eeeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 95 VICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 95 pi~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
|+|+|++ |||+|||+|+|+|+|.|++++.
T Consensus 381 pi~~e~~------~rfilR~~~~tig~G~V~~~~~ 409 (409)
T CHL00071 381 PIAIEKG------MRFAIREGGRTVGAGVVSKILK 409 (409)
T ss_pred eEEEeeC------CEEEEecCCeEEEEEEEEEecC
Confidence 9999985 8999999999999999999863
No 23
>KOG0458|consensus
Probab=99.80 E-value=1e-19 Score=151.24 Aligned_cols=114 Identities=33% Similarity=0.441 Sum_probs=107.2
Q ss_pred ccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECce
Q psy10356 16 WQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGV 95 (129)
Q Consensus 16 ~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~p 95 (129)
.+.+...+.+|.|++.||+...||..|.+..+|.|+...+|++.++...+|+.||+..++.|++|.+|+.|.++++.+.|
T Consensus 490 ~~~~i~~~~~f~~~~~~f~~~~Pi~~g~~l~l~~~~~~~pa~~~~l~~~~~k~t~~i~kk~pR~L~~~~~a~vele~~~p 569 (603)
T KOG0458|consen 490 PQFPISKTTRFVARITTFDINLPITKGSPLILHFGSLSEPAVLKKLTSSINKSTGEIVKKKPRCLTSNQSAIVELETERP 569 (603)
T ss_pred CCccccceeEEEEEEEEeeccccccCCcceEEEeccccchhhhhhhhhhhccCCCchhhcccceeccCceeeeeccccCc
Confidence 33445666899999999998899999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 96 ICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 96 i~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
||+|.|.+++.+|||+||..|.|+|+|+|++|.+
T Consensus 570 I~~etf~~~~~lgr~vlr~~g~TiAaG~V~~i~~ 603 (603)
T KOG0458|consen 570 ICLETFAENRALGRVVLRKSGSTIAAGKVTEIIQ 603 (603)
T ss_pred hhhhhhhhchhheeEEEeccCceeeeeeEEeecC
Confidence 9999999999999999999999999999999853
No 24
>PRK12735 elongation factor Tu; Reviewed
Probab=99.78 E-value=2.8e-18 Score=139.04 Aligned_cols=91 Identities=19% Similarity=0.230 Sum_probs=81.7
Q ss_pred ceeeccEEEEEEecCC-----ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECc
Q psy10356 20 RVIYGPSVIYIVILEH-----KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAG 94 (129)
Q Consensus 20 ~~~~~~f~A~v~~l~~-----~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~ 94 (129)
+..+++|+|+|.||++ +.+|..||++++|+|+.+++|+|... ++|++|++||.|.|+|++++
T Consensus 301 ~~~~~~f~a~i~vl~~~~~~~~~~i~~g~~~~l~~~t~~~~~~i~~~-------------~~~~~l~~g~~a~v~l~~~~ 367 (396)
T PRK12735 301 IKPHTKFEAEVYVLSKEEGGRHTPFFNGYRPQFYFRTTDVTGTIELP-------------EGVEMVMPGDNVKMTVELIA 367 (396)
T ss_pred CCcceEEEEEEEEEecccCCCCCcccCCCeeEEEeccceEEEEEEcc-------------CCCceeCCCCEEEEEEEECc
Confidence 3568999999999998 57899999999999999999998421 45788999999999999999
Q ss_pred eeeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 95 VICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 95 pi~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
|+|++++ |||+|||+|+|+|+|+|+++++
T Consensus 368 p~~~~~~------~rfilR~~g~tv~~G~V~~v~~ 396 (396)
T PRK12735 368 PIAMEEG------LRFAIREGGRTVGAGVVAKIIE 396 (396)
T ss_pred eEEEeEC------CEEEEEcCCcEEEEEEEEEecC
Confidence 9999985 8999999999999999999874
No 25
>PLN03127 Elongation factor Tu; Provisional
Probab=99.78 E-value=4e-18 Score=140.25 Aligned_cols=91 Identities=19% Similarity=0.237 Sum_probs=82.2
Q ss_pred ceeeccEEEEEEecCCc-----cccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECc
Q psy10356 20 RVIYGPSVIYIVILEHK-----SIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAG 94 (129)
Q Consensus 20 ~~~~~~f~A~v~~l~~~-----~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~ 94 (129)
+..+++|+|+|+||+++ .+|..||++++|+||.+++|+|.. +++|++|++||.+.|+|++.+
T Consensus 352 ~~~~~~F~A~i~vl~~~~gg~~~~i~~g~~~~~~~~t~~~~~~i~~-------------~~~~~~l~~gd~a~v~l~~~~ 418 (447)
T PLN03127 352 IKTYKKFEAEIYVLTKDEGGRHTPFFSNYRPQFYLRTADVTGKVEL-------------PEGVKMVMPGDNVTAVFELIS 418 (447)
T ss_pred CceeEEEEEEEEEEcccccccCcccccCceeEEEeeecceeEEEEe-------------ccCccccCCCCEEEEEEEECc
Confidence 46799999999999983 789999999999999999999843 145789999999999999999
Q ss_pred eeeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 95 VICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 95 pi~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
|+|+|++ |||+|||+|+|+|+|+|++|.+
T Consensus 419 p~~le~g------~RfilR~~g~Tvg~G~V~~v~~ 447 (447)
T PLN03127 419 PVPLEPG------QRFALREGGRTVGAGVVSKVLS 447 (447)
T ss_pred eEEEeeC------CEEEEEeCCcEEEEEEEEEecC
Confidence 9999975 8999999999999999999864
No 26
>PRK00049 elongation factor Tu; Reviewed
Probab=99.78 E-value=2.7e-18 Score=139.20 Aligned_cols=91 Identities=20% Similarity=0.249 Sum_probs=81.9
Q ss_pred ceeeccEEEEEEecCC-----ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECc
Q psy10356 20 RVIYGPSVIYIVILEH-----KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAG 94 (129)
Q Consensus 20 ~~~~~~f~A~v~~l~~-----~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~ 94 (129)
+..+++|+|+|.+|++ +++|..||++++|+++.+++|+|. + +++|++|++||.|.|+|++++
T Consensus 301 ~~~~~~f~a~i~vl~~~~~g~~~~i~~g~~~~~~~~t~~~~~~i~-l------------~~~~~~l~~g~~a~v~i~~~~ 367 (396)
T PRK00049 301 ITPHTKFEAEVYVLSKEEGGRHTPFFNGYRPQFYFRTTDVTGVIE-L------------PEGVEMVMPGDNVEMTVELIA 367 (396)
T ss_pred CCcceEEEEEEEEEecCcCCCCCcccCCCEEEEEEecCcEEEEEE-e------------cCCCcccCCCCEEEEEEEECc
Confidence 3557999999999998 579999999999999999999982 2 246789999999999999999
Q ss_pred eeeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 95 VICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 95 pi~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
|+|+|++ |||+|||+|+|+|+|+|+++++
T Consensus 368 p~~~e~~------~RfilR~~g~t~~~G~V~~v~~ 396 (396)
T PRK00049 368 PIAMEEG------LRFAIREGGRTVGAGVVTKIIE 396 (396)
T ss_pred eEEEeeC------CEEEEecCCcEEEEEEEEEecC
Confidence 9999985 8999999999999999999875
No 27
>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=99.77 E-value=5e-18 Score=137.40 Aligned_cols=91 Identities=21% Similarity=0.244 Sum_probs=82.1
Q ss_pred ceeeccEEEEEEecCC-----ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECc
Q psy10356 20 RVIYGPSVIYIVILEH-----KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAG 94 (129)
Q Consensus 20 ~~~~~~f~A~v~~l~~-----~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~ 94 (129)
+..+++|+|+|.||++ +.+|..||++.+|+++.+++|+|..+ ++|++|++|+.|.|+|++++
T Consensus 299 ~~~~~~f~a~i~vl~~~~g~~~~~i~~g~~~~l~~~t~~~~~~i~~~-------------~~~~~l~~g~~a~v~~~~~~ 365 (394)
T TIGR00485 299 IKPHTKFEAEVYVLKKEEGGRHTPFFSGYRPQFYFRTTDVTGSITLP-------------EGVEMVMPGDNVKMTVELIS 365 (394)
T ss_pred CCcceEEEEEEEEEecCCCCCCCccccCceEEEEEecceEEEEEEec-------------CCcceeCCCCEEEEEEEECc
Confidence 4567999999999998 47999999999999999999998732 45788999999999999999
Q ss_pred eeeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 95 VICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 95 pi~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
|+|++++ +||+|||+|+|+|+|+|+++++
T Consensus 366 p~~~~~~------~rfilR~~g~tv~~G~V~~v~~ 394 (394)
T TIGR00485 366 PIALEQG------MRFAIREGGRTVGAGVVSKIIE 394 (394)
T ss_pred eEEEeEC------CEEEEecCCcEEEEEEEEEecC
Confidence 9999985 8999999999999999999875
No 28
>PRK12736 elongation factor Tu; Reviewed
Probab=99.77 E-value=9.2e-18 Score=135.98 Aligned_cols=90 Identities=16% Similarity=0.216 Sum_probs=80.8
Q ss_pred eeeccEEEEEEecCC-----ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECce
Q psy10356 21 VIYGPSVIYIVILEH-----KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGV 95 (129)
Q Consensus 21 ~~~~~f~A~v~~l~~-----~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~p 95 (129)
..+++|+|+|.||++ +.+|..||++++|+||.+++|+|.. .++|++|++||.|.|+|++++|
T Consensus 300 ~~~~~f~a~i~vl~~~~~~~~~~i~~g~~~~l~~~t~~~~~~i~~-------------~~~~~~l~~g~~a~v~l~~~~p 366 (394)
T PRK12736 300 KPHTKFKAEVYILTKEEGGRHTPFFNNYRPQFYFRTTDVTGSIEL-------------PEGTEMVMPGDNVTITVELIHP 366 (394)
T ss_pred CcceEEEEEEEEEecccCCCCCcccCCceEEEEEccCeEEEEEEe-------------cCCcceeCCCCEEEEEEEECce
Confidence 457999999999997 4799999999999999999999843 1457889999999999999999
Q ss_pred eeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 96 ICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 96 i~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
+|++++ +||+|||+|+|+|+|+|+++++
T Consensus 367 ~~~~~~------~rfilR~~g~tv~~G~V~~v~~ 394 (394)
T PRK12736 367 IAMEQG------LKFAIREGGRTVGAGTVTEILD 394 (394)
T ss_pred EEEeeC------CEEEEecCCcEEEEEEEEEeeC
Confidence 999986 7999999999999999999864
No 29
>KOG0460|consensus
Probab=99.59 E-value=3.1e-15 Score=118.87 Aligned_cols=102 Identities=20% Similarity=0.208 Sum_probs=90.8
Q ss_pred eeceeEEcCCCcCccccceeeccEEEEEEecCC-----ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCC
Q psy10356 3 TRGHATVKGEGMLWQEQRVIYGPSVIYIVILEH-----KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRP 77 (129)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~f~A~v~~l~~-----~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p 77 (129)
.||.+..+.+|- +++++|+|++|+|+. .+|+..+|++.+|+.||.+++++..+. +.
T Consensus 332 kRGmvl~~pGsv------k~~~k~ea~~YiLsk~EGGR~~pf~s~y~~q~fs~TwD~~~~v~~~~-------------~~ 392 (449)
T KOG0460|consen 332 KRGMVLAKPGSV------KPHNKFEAQLYILSKEEGGRHKPFVSGYRPQMFSRTWDVTGRVDIPP-------------EK 392 (449)
T ss_pred hcccEEecCCcc------cccceeeEEEEEEEhhhCCCccchhhccchhheeeecccceEEEccC-------------hH
Confidence 488899999985 889999999999973 579999999999999999999987642 12
Q ss_pred ceeeCCCEEEEEEEECceeeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 78 RFVKQDQIAIMRLEAAGVICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 78 ~~l~~gd~a~v~l~~~~pi~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
+++++||.+.+++.+.+|+++|+. .||.||++|+|||.|+|+++++
T Consensus 393 ~mvMPGe~~~~~~~Li~pm~le~G------qrFtiReGg~TvgtGvvt~~l~ 438 (449)
T KOG0460|consen 393 EMVMPGENVKVEVTLIRPMPLEKG------QRFTLREGGRTVGTGVVTDTLP 438 (449)
T ss_pred hcccCCCCeEEEEEEecccccCCC------ceeeEccCCeeeeeeeEeeeee
Confidence 689999999999999999999986 6999999999999999998764
No 30
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=99.56 E-value=5.3e-14 Score=110.24 Aligned_cols=102 Identities=20% Similarity=0.242 Sum_probs=89.9
Q ss_pred eeceeEEcCCCcCccccceeeccEEEEEEecCC-----ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCC
Q psy10356 3 TRGHATVKGEGMLWQEQRVIYGPSVIYIVILEH-----KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRP 77 (129)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~f~A~v~~l~~-----~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p 77 (129)
+||++..+++|- ++.++|+|+|++|.. .+|+..||++.|+..|..++..+.-- +..
T Consensus 288 eRGqvLakpgsi------~ph~kfeaevyvL~keeggrhtpff~~yrpqfyfRttDVtg~i~l~-------------eg~ 348 (394)
T COG0050 288 ERGQVLAKPGSI------KPHTKFEAEVYVLSKEEGGRHTPFFHGYRPQFYFRTTDVTGAITLP-------------EGV 348 (394)
T ss_pred ecceEeecCCcc------cccceeeEEEEEEecccCCCCCCcccCccceeEEEeeeeeeeEecc-------------CCc
Confidence 689999999998 788999999999963 47999999999999999988854421 234
Q ss_pred ceeeCCCEEEEEEEECceeeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 78 RFVKQDQIAIMRLEAAGVICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 78 ~~l~~gd~a~v~l~~~~pi~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
+++++||.+.+.+++.+|+++|.. -||.+|++|+|+|+|.|++|.+
T Consensus 349 emvmpgdnv~~~veLi~pia~e~G------~rFaIreGgrtvgaGvV~~i~~ 394 (394)
T COG0050 349 EMVMPGDNVKMVVELIHPIAMEEG------LRFAIREGGRTVGAGVVTKIIE 394 (394)
T ss_pred ceecCCCceEEEEEEeeeeecCCC------CEEEEEeCCeeeeeeEEeeecC
Confidence 689999999999999999999986 5999999999999999999864
No 31
>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=99.48 E-value=9.9e-13 Score=87.43 Aligned_cols=94 Identities=16% Similarity=0.129 Sum_probs=77.3
Q ss_pred ceeEEcCCCcCccccceeeccEEEEEEecCC-ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCC
Q psy10356 5 GHATVKGEGMLWQEQRVIYGPSVIYIVILEH-KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQD 83 (129)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~f~A~v~~l~~-~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~g 83 (129)
|.+..+.+|. ..+++|.+++.++.. ..++..++++.+|++|+++.|+|.-+ | .+.+++|
T Consensus 1 G~vl~~~~~~------~~~~~~~~~i~~l~~~~~~l~~~~~v~~~~Gt~~v~~ri~ll----~----------~~~~~pg 60 (97)
T cd04094 1 GDVLADPGSL------LPTRRLDVRLTVLLSAPRPLKHRQRVHLHHGTSEVLARVVLL----D----------RDELAPG 60 (97)
T ss_pred CCEEecCCCc------CCceEEEEEEEEECCCCccCCCCCeEEEEeccceEEEEEEeC----C----------ccccCCC
Confidence 3444554444 446999999998875 36899999999999999999998843 2 1467899
Q ss_pred CEEEEEEEECceeeecccccCCcceEEEEEeCC--CeEEEEEE
Q psy10356 84 QIAIMRLEAAGVICLDQFKLFPQMGRFTLRDEG--KTIAIGKV 124 (129)
Q Consensus 84 d~a~v~l~~~~pi~ve~~~~~~~lGrfiLrd~g--~Tva~G~V 124 (129)
+.+.++|++++|++++.. .||+||+.+ +|+|.|.|
T Consensus 61 ~~~~a~l~l~~pl~~~~g------drfilR~~~~~~tiggG~V 97 (97)
T cd04094 61 EEALAQLRLEEPLVALRG------DRFILRSYSPLRTLGGGRV 97 (97)
T ss_pred CEEEEEEEECCcEeecCC------CeEEEeeCCCCeEEEeEEC
Confidence 999999999999999875 599999988 89999986
No 32
>COG5258 GTPBP1 GTPase [General function prediction only]
Probab=99.38 E-value=1.3e-12 Score=105.56 Aligned_cols=88 Identities=22% Similarity=0.438 Sum_probs=79.5
Q ss_pred cceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEEC-ceee
Q psy10356 19 QRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAA-GVIC 97 (129)
Q Consensus 19 ~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~-~pi~ 97 (129)
+|++.++|+|+|++|.||+.|+.||.+++|+.|...++++++| |. .+|++||.+.++++|. +|-.
T Consensus 438 ~pkaVref~AeV~vl~HPT~I~aGye~v~H~etI~e~~~f~~i----d~----------~~L~~GD~g~vr~~fkyrP~~ 503 (527)
T COG5258 438 DPKAVREFDAEVLVLRHPTTIRAGYEPVFHYETIREAVYFEEI----DK----------GFLMPGDRGVVRMRFKYRPHH 503 (527)
T ss_pred CchhhheecceEEEEeCCcEEecCceeeeEeeEeeheeEEEEc----cc----------ccccCCCcceEEEEEEeCchh
Confidence 4899999999999999999999999999999999999999987 32 5789999999999996 9999
Q ss_pred ecccccCCcceEEEEEeCCCeEEEEEEEEe
Q psy10356 98 LDQFKLFPQMGRFTLRDEGKTIAIGKVLKI 127 (129)
Q Consensus 98 ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v 127 (129)
+|.. .+|++|+ |+|.|.|.|+++
T Consensus 504 v~eG------Q~fvFRe-GrskgvG~v~~~ 526 (527)
T COG5258 504 VEEG------QKFVFRE-GRSKGVGRVIRV 526 (527)
T ss_pred hccC------cEEEEec-CCCccceEEecc
Confidence 9874 4888886 999999999876
No 33
>KOG0463|consensus
Probab=99.29 E-value=1.1e-11 Score=100.19 Aligned_cols=99 Identities=17% Similarity=0.259 Sum_probs=81.5
Q ss_pred ceeEEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCC
Q psy10356 5 GHATVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQ 84 (129)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd 84 (129)
|-+.|...-| |..+.+|+|.|++|.||+.|++.|+.++||++.+++|+|.++ ++ ++|+.||
T Consensus 449 GMVmVsp~lk-----PqAsweFEaEILVLHHPTTIsprYQAMvHcGSiRQTAtivsM----~k----------dcLRTGD 509 (641)
T KOG0463|consen 449 GMVMVSPKLK-----PQASWEFEAEILVLHHPTTISPRYQAMVHCGSIRQTATIVSM----GK----------DCLRTGD 509 (641)
T ss_pred ceEEecCCCC-----cceeeEEeeeEEEEecCCccCcchhheeeeccccceeeeeec----Ch----------hhhhcCC
Confidence 4445544443 799999999999999999999999999999999999998875 22 6889999
Q ss_pred EEEEEEEEC-ceeeecccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 85 IAIMRLEAA-GVICLDQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 85 ~a~v~l~~~-~pi~ve~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
.|.|.|+|- +|-++.+. .|.++|+ |+|.|+|.|.++++
T Consensus 510 ka~V~FrFIkqPEYir~g------qrlVFRE-GRTKAVGti~~~lp 548 (641)
T KOG0463|consen 510 KAKVQFRFIKQPEYIRPG------QRLVFRE-GRTKAVGTISSVLP 548 (641)
T ss_pred cceEEEEEecCcceecCC------ceEEeec-ccceeeeeeccccc
Confidence 999999984 57666553 4677775 99999999998764
No 34
>KOG1143|consensus
Probab=99.15 E-value=2e-10 Score=92.86 Aligned_cols=90 Identities=23% Similarity=0.352 Sum_probs=77.3
Q ss_pred ceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEEC-ceeee
Q psy10356 20 RVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAA-GVICL 98 (129)
Q Consensus 20 ~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~-~pi~v 98 (129)
|..+..|+|.+.+|-|.+.|..|++.++|+++.+++|.|.+|. ..++|..|++|.|.|.|. +|-++
T Consensus 494 P~~c~~F~A~~~lLfHaT~i~~GFQ~TVhiGsvrqTAvi~~I~-------------~~d~lrtg~~AvV~f~F~~hPEyi 560 (591)
T KOG1143|consen 494 PPVCYEFTANLLLLFHATYICEGFQATVHIGSVRQTAVITHID-------------DADCLRTGKWAVVKFCFAYHPEYI 560 (591)
T ss_pred CceEEEEeeeehhhhhhHhheecceEEEEEcceeeeeeeeeec-------------ccccccCCceEEEEEEecCCchhc
Confidence 6889999999999999899999999999999999999999883 236789999999999984 66665
Q ss_pred cccccCCcceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 99 DQFKLFPQMGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 99 e~~~~~~~lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
.+ |.-+|.++|.|.|+|.|++|.+
T Consensus 561 r~-------G~~ilfReG~tKGiG~Vt~Vfp 584 (591)
T KOG1143|consen 561 RE-------GSPILFREGKTKGIGEVTKVFP 584 (591)
T ss_pred cC-------CCeeeeecccccccceEEEEEe
Confidence 54 6556666799999999999864
No 35
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=99.15 E-value=4.5e-10 Score=91.75 Aligned_cols=77 Identities=16% Similarity=0.242 Sum_probs=66.4
Q ss_pred ceeeccEEEEEEecCC---------ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEE
Q psy10356 20 RVIYGPSVIYIVILEH---------KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRL 90 (129)
Q Consensus 20 ~~~~~~f~A~v~~l~~---------~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l 90 (129)
|..+++|+|+|.||++ +.+|.+||++++|+++.+++|+|..|. ++ .+++
T Consensus 321 ~~~~~~f~a~v~~l~~~~~~~~~~~~~~i~~g~~~~l~~~t~~~~~~i~~i~--------------------~~--~~~~ 378 (411)
T PRK04000 321 PPVWESLTIEVHLLERVVGTKEELKVEPIKTGEPLMLNVGTATTVGVVTSAR--------------------KD--EAEV 378 (411)
T ss_pred CCceEEEEEEEEEEEhhcCccccccCCCCCCCCEEEEEEeccEEEEEEEEcC--------------------Cc--EEEE
Confidence 5678999999999987 789999999999999999999999872 12 4566
Q ss_pred EECceeeecccccCCcceEEEE--EeCC--CeEEEEEE
Q psy10356 91 EAAGVICLDQFKLFPQMGRFTL--RDEG--KTIAIGKV 124 (129)
Q Consensus 91 ~~~~pi~ve~~~~~~~lGrfiL--rd~g--~Tva~G~V 124 (129)
++.+|+++.+. .||+| |+++ +++|.|.|
T Consensus 379 ~l~~p~~~~~g------~r~~~~~~~~~~~~~~~~~~~ 410 (411)
T PRK04000 379 KLKRPVCAEEG------DRVAISRRVGGRWRLIGYGII 410 (411)
T ss_pred EECCcEecCCC------CEEEEEEecCCcEEEEEEEEe
Confidence 78999999876 69999 6778 89999987
No 36
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=99.14 E-value=7.5e-10 Score=91.78 Aligned_cols=91 Identities=18% Similarity=0.195 Sum_probs=72.3
Q ss_pred eceeEEcCCCcCccccceeeccEEEEEEecCCc--------------cccccCceEEEEEeeeeEeEEEEEeEEeeccCc
Q psy10356 4 RGHATVKGEGMLWQEQRVIYGPSVIYIVILEHK--------------SIICAGYSAVMHIHCVAEEVNVKALICLIDKKT 69 (129)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~f~A~v~~l~~~--------------~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~t 69 (129)
||.+.+..++. |..+++|+|+++||++. .+|..||++.+|++|++++|+|..|. .
T Consensus 343 rG~Vl~~~~~~-----~~~~~~~~a~v~~L~~~~~~~~~~~~~~~~~~~l~~g~~~~l~~gt~~~~~~i~~i~----~-- 411 (460)
T PTZ00327 343 VGQVLGYPGKL-----PEVYAEIEIQYYLLRRLLGVKSQDGKKATKVAKLKKGESLMINIGSTTTGGRVVGIK----D-- 411 (460)
T ss_pred cccEEEcCCCC-----CceeEEEEEEEEEecccccccccccccccCCcccCCCCEEEEEecccEEEEEEEEeC----C--
Confidence 56665554322 46778999999999873 78999999999999999999999872 1
Q ss_pred CccccCCCceeeCCCEEEEEEEECceeeecccccCCcceEEEEEeC----CCeEEEEEEEE
Q psy10356 70 GEKSKTRPRFVKQDQIAIMRLEAAGVICLDQFKLFPQMGRFTLRDE----GKTIAIGKVLK 126 (129)
Q Consensus 70 g~~~~~~p~~l~~gd~a~v~l~~~~pi~ve~~~~~~~lGrfiLrd~----g~Tva~G~V~~ 126 (129)
+. .++|++.+|+|+... -||+||+. .+|+|.|.|.+
T Consensus 412 --------------~~-~~~l~l~~P~~~~~g------dr~ilr~~~~~~~~tig~G~i~~ 451 (460)
T PTZ00327 412 --------------DG-IAKLELTTPVCTSVG------EKIALSRRVDKHWRLIGWGTIRK 451 (460)
T ss_pred --------------Ce-EEEEEECccEeccCC------CEEEEEeccCCCcEEEEEEEEcC
Confidence 00 667889999999876 59999973 36999999863
No 37
>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=98.99 E-value=5.5e-09 Score=85.16 Aligned_cols=77 Identities=14% Similarity=0.236 Sum_probs=64.2
Q ss_pred ceeeccEEEEEEecCC---------ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEE
Q psy10356 20 RVIYGPSVIYIVILEH---------KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRL 90 (129)
Q Consensus 20 ~~~~~~f~A~v~~l~~---------~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l 90 (129)
|..+++|+|++.||++ +.+|.+||++++|+++.+++|+|..+. ++ .+++
T Consensus 316 ~~~~~~f~a~i~~l~~~~~~~~~~~~~~i~~g~~~~l~~gt~~~~~~v~~~~--------------------~~--~~~l 373 (406)
T TIGR03680 316 PPVWESLELEVHLLERVVGTEEELKVEPIKTGEVLMLNVGTATTVGVVTSAR--------------------KD--EIEV 373 (406)
T ss_pred CCceeEEEEEEEEEecccCcccccccccCCCCCEEEEEEccceEEEEEEEcC--------------------Cc--EEEE
Confidence 5678999999999976 479999999999999999999999862 12 2667
Q ss_pred EECceeeecccccCCcceEEEE--EeCC--CeEEEEEE
Q psy10356 91 EAAGVICLDQFKLFPQMGRFTL--RDEG--KTIAIGKV 124 (129)
Q Consensus 91 ~~~~pi~ve~~~~~~~lGrfiL--rd~g--~Tva~G~V 124 (129)
++.+|+|+... .||+| +.++ +++|.|.|
T Consensus 374 ~l~~p~~~~~g------~r~~~~~~~~~~~~~~g~g~~ 405 (406)
T TIGR03680 374 KLKRPVCAEEG------DRVAISRRVGGRWRLIGYGII 405 (406)
T ss_pred EECCcEEcCCC------CEEEEEEecCCceEEEEEEEe
Confidence 78999999876 58999 4466 69999987
No 38
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=98.58 E-value=6.6e-07 Score=76.67 Aligned_cols=73 Identities=21% Similarity=0.171 Sum_probs=60.8
Q ss_pred EEEEecCCccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeeecccccCCcc
Q psy10356 28 IYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQFKLFPQM 107 (129)
Q Consensus 28 A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~ve~~~~~~~l 107 (129)
..++++++..+|..|+++.+|+||.+++|+|..+ +.+.+.+.+.+|+++...
T Consensus 267 ~~~~~l~~~~~l~~~~~~~~~~gt~~~~~~i~~l----------------------~~~~~~l~l~~p~~~~~g------ 318 (614)
T PRK10512 267 RVIVELQTHTPLTQWQPLHIHHAASHVTGRVSLL----------------------EDNLAELVLDTPLWLADN------ 318 (614)
T ss_pred eEEEEEcCCccCCCCCEEEEEEcccEEEEEEEEc----------------------CCeEEEEEECCcccccCC------
Confidence 3456677778999999999999999999999876 124688899999998765
Q ss_pred eEEEEEe--CCCeEEEEEEEEee
Q psy10356 108 GRFTLRD--EGKTIAIGKVLKIV 128 (129)
Q Consensus 108 GrfiLrd--~g~Tva~G~V~~v~ 128 (129)
.||+||+ ..+|+|.|.|+...
T Consensus 319 dr~ilr~~s~~~tigGg~Vld~~ 341 (614)
T PRK10512 319 DRLVLRDISARNTLAGARVVMLN 341 (614)
T ss_pred CEEEEEeCCCCEEEEEEEEcccC
Confidence 6999999 57799999998643
No 39
>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=98.10 E-value=3.5e-05 Score=65.78 Aligned_cols=63 Identities=19% Similarity=0.125 Sum_probs=52.1
Q ss_pred cccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeeecccccCCcceEEEEEeC-
Q psy10356 37 SIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQFKLFPQMGRFTLRDE- 115 (129)
Q Consensus 37 ~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~ve~~~~~~~lGrfiLrd~- 115 (129)
.+|..|+.+.+|+++.++.|+|..+. . + .+++.+.+|+++... -||+||++
T Consensus 275 ~~l~~~~~~~~~~gt~~~~~~i~~l~----~----------------~--~~~l~l~~P~~~~~g------d~~i~r~~~ 326 (581)
T TIGR00475 275 VPLLELQPYHIAHGMSVTTGKISLLD----K----------------G--IALLTLDAPLILAKG------DKLVLRDSS 326 (581)
T ss_pred CccCCCCeEEEEEeceEEEEEEEEcc----C----------------c--EEEEEECCceecCCC------CEEEEEeCC
Confidence 57999999999999999999988762 1 1 566778999999875 49999995
Q ss_pred CCeEEEEEEEEe
Q psy10356 116 GKTIAIGKVLKI 127 (129)
Q Consensus 116 g~Tva~G~V~~v 127 (129)
..|+|.|.|++.
T Consensus 327 ~~tiggg~vl~~ 338 (581)
T TIGR00475 327 GNFLAGARVLEP 338 (581)
T ss_pred CEEEeeeEEecC
Confidence 679999999853
No 40
>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=95.35 E-value=0.45 Score=31.16 Aligned_cols=60 Identities=17% Similarity=0.253 Sum_probs=41.1
Q ss_pred cccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCCceeeCCCEEEEEEEECceeeecccccCCcceEEEEEe--
Q psy10356 37 SIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRPRFVKQDQIAIMRLEAAGVICLDQFKLFPQMGRFTLRD-- 114 (129)
Q Consensus 37 ~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p~~l~~gd~a~v~l~~~~pi~ve~~~~~~~lGrfiLrd-- 114 (129)
.+|..|-..++.++|..+.++|.++. +|.+ ++.+.+|+|.+.. .|.+|-+
T Consensus 25 ~~i~~~E~LmlnIGsatt~G~V~~~k--------------------~d~~--~v~L~~Pvc~~~g------~rvaiSRri 76 (88)
T PF09173_consen 25 EPIKKGEVLMLNIGSATTGGVVTSVK--------------------KDMA--EVELKKPVCAEKG------ERVAISRRI 76 (88)
T ss_dssp ----TTEEEEEEETTEEEEEEEEEEE--------------------TTEE--EEEEEEEEE-STT------SEEEEEEEE
T ss_pred ccCCCCCEEEEEEccccccEEEEEEE--------------------CCEE--EEEecCCeEcCcC------Ceeeeehhc
Confidence 68999999999999999999998863 3454 4567899999876 3555522
Q ss_pred CCC--eEEEEEE
Q psy10356 115 EGK--TIAIGKV 124 (129)
Q Consensus 115 ~g~--Tva~G~V 124 (129)
+++ .+|.|.|
T Consensus 77 ~~rWRLIG~G~I 88 (88)
T PF09173_consen 77 GNRWRLIGWGII 88 (88)
T ss_dssp TTSEEEEEEEEE
T ss_pred cCeEEEEEEEeC
Confidence 443 7888875
No 41
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=92.90 E-value=0.76 Score=38.35 Aligned_cols=53 Identities=17% Similarity=0.164 Sum_probs=41.2
Q ss_pred eceeEEcCCCcCccccceeeccEEEEEEecC-CccccccCceEEEEEeeeeEeEEEEEeE
Q psy10356 4 RGHATVKGEGMLWQEQRVIYGPSVIYIVILE-HKSIICAGYSAVMHIHCVAEEVNVKALI 62 (129)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~f~A~v~~l~-~~~~i~~G~~~~l~~~t~~~~~~i~~I~ 62 (129)
||.-.+.++++ .++++|.+.+-|.. ...++.++..+.+|.+..+++|++..+.
T Consensus 248 RG~~L~~~~~~------~v~~~~~~~~~i~~~~~~~l~~~~~~hi~~g~~~~~~~i~~l~ 301 (447)
T COG3276 248 RGDWLLKPEPL------EVTTRLIVELEIDPLFKKTLKQGQPVHIHVGLRSVTGRIVPLE 301 (447)
T ss_pred cccEeccCCCC------CcceEEEEEEEeccccccccCCCceEEEEEeccccceEeeecc
Confidence 44444444444 77889999988873 3578999999999999999999988763
No 42
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=88.21 E-value=11 Score=30.92 Aligned_cols=89 Identities=12% Similarity=0.123 Sum_probs=63.6
Q ss_pred eEEcCCCcCccccceeeccEEEEEEecCC---------ccccccCceEEEEEeeeeEeEEEEEeEEeeccCcCccccCCC
Q psy10356 7 ATVKGEGMLWQEQRVIYGPSVIYIVILEH---------KSIICAGYSAVMHIHCVAEEVNVKALICLIDKKTGEKSKTRP 77 (129)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~f~A~v~~l~~---------~~~i~~G~~~~l~~~t~~~~~~i~~I~~~id~~tg~~~~~~p 77 (129)
|.|.|.--+. |....+|+-....|+. -.+|+.|-..+|.++|+..-+.|....
T Consensus 312 G~V~G~pG~l---Ppv~~~~~ie~~LL~RvvG~~~e~kvepik~~E~Lml~VGtatT~GvV~~~k--------------- 373 (415)
T COG5257 312 GQVVGKPGTL---PPVWTSIRIEYHLLERVVGTKEELKVEPIKTNEVLMLNVGTATTVGVVTSAK--------------- 373 (415)
T ss_pred cccccCCCCC---CCceEEEEEEeeehhhhhCcccccccccccCCCeEEEEeecceeEEEEEEec---------------
Confidence 4566665555 5788888888888861 358999999999999998888877652
Q ss_pred ceeeCCCEEEEEEEECceeeecccccCCcceEEEEEe--C--CCeEEEEEEEE
Q psy10356 78 RFVKQDQIAIMRLEAAGVICLDQFKLFPQMGRFTLRD--E--GKTIAIGKVLK 126 (129)
Q Consensus 78 ~~l~~gd~a~v~l~~~~pi~ve~~~~~~~lGrfiLrd--~--g~Tva~G~V~~ 126 (129)
.| ++++.+.+|+|.|.. .|.+|-+ + =+.+|.|.|.+
T Consensus 374 -----~d--~~ev~Lk~Pvcae~g------~rvaisRri~~rWRLIG~G~ik~ 413 (415)
T COG5257 374 -----KD--EIEVKLKRPVCAEIG------ERVAISRRIGNRWRLIGYGTIKE 413 (415)
T ss_pred -----Cc--eEEEEeccceecCCC------CEEEEEeeecceEEEEeEEEEec
Confidence 12 345667899999875 3544422 2 34889998864
No 43
>PF03054 tRNA_Me_trans: tRNA methyl transferase; InterPro: IPR004506 tRNA-specific 2-thiouridylase catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34.; GO: 0016740 transferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 2DET_A 2DER_A 2DEU_A 2HMA_A.
Probab=38.57 E-value=2e+02 Score=23.43 Aligned_cols=16 Identities=13% Similarity=0.227 Sum_probs=12.9
Q ss_pred EEEEEeCCCeEEEEEE
Q psy10356 109 RFTLRDEGKTIAIGKV 124 (129)
Q Consensus 109 rfiLrd~g~Tva~G~V 124 (129)
..++-|+...+|.|+|
T Consensus 341 ~aVfY~~d~vLGgG~I 356 (356)
T PF03054_consen 341 SAVFYDGDRVLGGGII 356 (356)
T ss_dssp EEEEEETTEEEEEEEE
T ss_pred EEEEEECCEEEEEEEC
Confidence 4667888889999987
No 44
>PRK13612 photosystem II reaction center protein Psb28; Provisional
Probab=32.97 E-value=1.1e+02 Score=21.05 Aligned_cols=37 Identities=14% Similarity=0.070 Sum_probs=28.1
Q ss_pred eCCCEEEEEEEECceeeecccccCCcceEEEEEe-CCCe
Q psy10356 81 KQDQIAIMRLEAAGVICLDQFKLFPQMGRFTLRD-EGKT 118 (129)
Q Consensus 81 ~~gd~a~v~l~~~~pi~ve~~~~~~~lGrfiLrd-~g~T 118 (129)
+.|..+.+.|.+.+|-+++.......+| .-|+| +|..
T Consensus 26 rdg~~g~a~f~F~~p~al~~~~~~~itg-m~LiDeEGei 63 (113)
T PRK13612 26 RDGRTGQATFYFEQPQALAPETTGEITG-MYMIDEEGEI 63 (113)
T ss_pred cCCCeeEEEEEECCccccCccccCceee-EEEEccCccE
Confidence 3588999999999999998855555667 66677 4664
No 45
>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=30.10 E-value=3.1e+02 Score=22.40 Aligned_cols=32 Identities=3% Similarity=0.014 Sum_probs=20.9
Q ss_pred EEEEEECcee-eecccccCCcce-EEEEEeCCCeEEEEEEE
Q psy10356 87 IMRLEAAGVI-CLDQFKLFPQMG-RFTLRDEGKTIAIGKVL 125 (129)
Q Consensus 87 ~v~l~~~~pi-~ve~~~~~~~lG-rfiLrd~g~Tva~G~V~ 125 (129)
.+.+.+.+|. .+- .| ..++.|++..+|.|.|.
T Consensus 313 ~~~v~f~~p~~ava-------pGQ~~v~Y~~~~vlGgG~I~ 346 (362)
T PRK14664 313 RLLVRFLAEASAIA-------PGQSAVFYEGRRVLGGAFIA 346 (362)
T ss_pred eEEEEeCCCCcCcC-------CCcEEEEEECCEEEEEEEEc
Confidence 3556676663 222 24 45677778899999995
No 46
>PRK00215 LexA repressor; Validated
Probab=28.07 E-value=1.5e+02 Score=21.49 Aligned_cols=45 Identities=24% Similarity=0.223 Sum_probs=22.2
Q ss_pred EEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEe
Q psy10356 8 TVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKAL 61 (129)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I 61 (129)
.|.||||+.+. -....+++++.......|.-+++++.. .+.++++
T Consensus 122 ~V~GdSM~~~~------i~~Gd~v~v~~~~~~~~G~ivv~~~~~---~~~vKrl 166 (205)
T PRK00215 122 RVRGDSMIDAG------ILDGDLVIVRKQQTARNGQIVVALIDD---EATVKRF 166 (205)
T ss_pred EEccCCCCCCC------cCCCCEEEEeCCCCCCCCCEEEEEECC---EEEEEEE
Confidence 46777775421 112234444543345566666665543 3445554
No 47
>TIGR00999 8a0102 Membrane Fusion Protein cluster 2 (function with RND porters).
Probab=27.95 E-value=2.5e+02 Score=20.75 Aligned_cols=70 Identities=14% Similarity=0.060 Sum_probs=46.4
Q ss_pred ccEEEEEEecCC-ccccccCceEEEEEeee-eEeEEEEEeEEeeccCcCccc----cCCC-ceeeCCCEEEEEEEEC
Q psy10356 24 GPSVIYIVILEH-KSIICAGYSAVMHIHCV-AEEVNVKALICLIDKKTGEKS----KTRP-RFVKQDQIAIMRLEAA 93 (129)
Q Consensus 24 ~~f~A~v~~l~~-~~~i~~G~~~~l~~~t~-~~~~~i~~I~~~id~~tg~~~----~~~p-~~l~~gd~a~v~l~~~ 93 (129)
..+.+++.+-.. -..+..|....+.+... ..+++|..|...+|..+.... -.+| ..|.+|+.+.+.|...
T Consensus 123 ~~~~i~~~v~~~~~~~i~~g~~v~i~~~~~~~~~g~v~~I~~~~~~~~~~~~v~~~~~~~~~~l~~G~~v~v~i~~~ 199 (265)
T TIGR00999 123 GAVWVEAEVPAKDVSRIRKGSKATVLLENGRPLPARVDYVGPEVDGSSRTAKVRVLIKNENLTLKPGLFVQVRVETK 199 (265)
T ss_pred CcEEEEEEECHHHHhhCCCCCEEEEEECCCCEEEEEEEEEccccCCCCceEEEEEEEeCCCCccCCCCEEEEEEecC
Confidence 456665554332 24588999888887543 478899998877776554210 1233 3589999999999875
No 48
>COG1974 LexA SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]
Probab=27.31 E-value=1.1e+02 Score=22.89 Aligned_cols=48 Identities=27% Similarity=0.222 Sum_probs=32.6
Q ss_pred EEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeEE
Q psy10356 8 TVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALIC 63 (129)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~~ 63 (129)
-|.|+||-+. .=+...+++++.......|.-.+..+.. ..++++++..
T Consensus 116 ~V~GdSM~~~------gi~dGDlvvV~~~~~a~~GdiVvA~i~g--~e~TvKrl~~ 163 (201)
T COG1974 116 RVSGDSMIDA------GILDGDLVVVDPTEDAENGDIVVALIDG--EEATVKRLYR 163 (201)
T ss_pred EecCCccccC------cCCCCCEEEEcCCCCCCCCCEEEEEcCC--CcEEEEEEEE
Confidence 4788888553 3336677777776778888777776666 4467777653
No 49
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=26.50 E-value=1.7e+02 Score=21.09 Aligned_cols=37 Identities=16% Similarity=0.045 Sum_probs=21.9
Q ss_pred eEEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEE
Q psy10356 7 ATVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHI 49 (129)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~ 49 (129)
..|.|+||+++ . -....+++++....+..|.-+.+.+
T Consensus 114 ~~V~GdSM~~~---~---i~~Gd~v~v~~~~~~~~G~ivvv~~ 150 (199)
T TIGR00498 114 LKVMGDSMVDA---G---ICDGDLLIVRSQKDARNGEIVAAMI 150 (199)
T ss_pred EEecCCCCCCC---C---CCCCCEEEEecCCCCCCCCEEEEEE
Confidence 35778888553 1 1223455566545677777777766
No 50
>PRK13610 photosystem II reaction center protein Psb28; Provisional
Probab=25.03 E-value=1.3e+02 Score=20.58 Aligned_cols=37 Identities=11% Similarity=-0.074 Sum_probs=27.1
Q ss_pred eCCCEEEEEEEECceeeecccccCCcceEEEEEe-CCCe
Q psy10356 81 KQDQIAIMRLEAAGVICLDQFKLFPQMGRFTLRD-EGKT 118 (129)
Q Consensus 81 ~~gd~a~v~l~~~~pi~ve~~~~~~~lGrfiLrd-~g~T 118 (129)
+.|..+.+.|.+.+|-+++.-.....+| .-|+| +|..
T Consensus 30 rdG~tG~A~f~F~~p~~l~~~~~~~ItG-M~LiDeEGei 67 (113)
T PRK13610 30 LDGKKGKAVYKFYKPKTITLTNYKSVQR-MFLIDSEGVL 67 (113)
T ss_pred cCCCccEEEEEECCchhcccccccceee-eEEEccCceE
Confidence 3588999999999999998844444567 55666 4654
No 51
>TIGR03047 PS_II_psb28 photosystem II reaction center protein Psb28. Members of this protein family are the Psb28 protein of photosystem II. Two different protein families, apparently without homology between them, have been designated PsbW. Cyanobacterial proteins previously designated PsbW are members of the family described here. However, while members of the plant PsbW family are not found (so far) in Cyanobacteria, members of the present family do occur in plants. We therefore support the alternative designation that has emerged for this protein family, Psp28, rather than PsbW.
Probab=24.70 E-value=1.3e+02 Score=20.41 Aligned_cols=37 Identities=22% Similarity=0.254 Sum_probs=27.9
Q ss_pred eCCCEEEEEEEECceeeecccccC--CcceEEEEEe-CCCe
Q psy10356 81 KQDQIAIMRLEAAGVICLDQFKLF--PQMGRFTLRD-EGKT 118 (129)
Q Consensus 81 ~~gd~a~v~l~~~~pi~ve~~~~~--~~lGrfiLrd-~g~T 118 (129)
+.|..+.+.|.+.+|-+++.+..+ ..+| .-|+| +|..
T Consensus 21 rdg~~g~a~f~F~~p~al~~~~~~~~~itG-m~LiDeEGei 60 (109)
T TIGR03047 21 RDGGTGTALFRFENPKALDKFNSDTGEITG-MYLIDEEGEI 60 (109)
T ss_pred cCCCceEEEEEECCchhhhhccccccceee-EEEEccCccE
Confidence 358899999999999999987643 4567 66677 4654
No 52
>cd01998 tRNA_Me_trans tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs. This family of enzyme only presents in bacteria and eukaryote. The archaeal counterpart of this enzyme performs same function, but is completely unrelated in sequence.
Probab=24.31 E-value=3.7e+02 Score=21.50 Aligned_cols=16 Identities=13% Similarity=0.218 Sum_probs=12.3
Q ss_pred EEEEEeCCCeEEEEEE
Q psy10356 109 RFTLRDEGKTIAIGKV 124 (129)
Q Consensus 109 rfiLrd~g~Tva~G~V 124 (129)
..++-|++..+|.|.|
T Consensus 334 ~~v~Y~~~~~lggg~I 349 (349)
T cd01998 334 AAVFYDGDRVLGGGII 349 (349)
T ss_pred EEEEEECCEEEeeEEC
Confidence 4667777888898876
No 53
>PF06622 SepQ: SepQ protein; InterPro: IPR009532 This family consists of several enterobacterial SepQ proteins from Escherichia coli and Citrobacter rodentium. The function of this family is unclear.
Probab=21.90 E-value=1.3e+02 Score=23.63 Aligned_cols=23 Identities=39% Similarity=0.541 Sum_probs=17.7
Q ss_pred ceEEEEEeCCCeEEEEEEEEeeC
Q psy10356 107 MGRFTLRDEGKTIAIGKVLKIVE 129 (129)
Q Consensus 107 lGrfiLrd~g~Tva~G~V~~v~~ 129 (129)
+|..-|++++.|+|.|.|.++.|
T Consensus 272 fgg~~lirnnt~iayg~i~kine 294 (305)
T PF06622_consen 272 FGGCRLIRNNTTIAYGSIVKINE 294 (305)
T ss_pred ecceEEEecCcEEEEeeEEEecc
Confidence 35455666799999999998864
No 54
>PRK12423 LexA repressor; Provisional
Probab=21.59 E-value=2.1e+02 Score=20.97 Aligned_cols=47 Identities=23% Similarity=0.208 Sum_probs=27.2
Q ss_pred eEEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeE
Q psy10356 7 ATVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALI 62 (129)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~ 62 (129)
..|.||||..+ .-+...+++++.......|.-+++++.. .+.++++.
T Consensus 117 l~V~GdSM~~~------~i~~Gd~viv~~~~~~~~Gdivv~~~~~---~~~vKrl~ 163 (202)
T PRK12423 117 LQVQGDSMIDD------GILDGDLVGVHRSPEARDGQIVVARLDG---EVTIKRLE 163 (202)
T ss_pred EEEecCcCCCC------CcCCCCEEEEeCCCcCCCCCEEEEEECC---EEEEEEEE
Confidence 46888998542 1122345556654567778877776643 34555553
No 55
>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification. ; InterPro: IPR019759 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ].; PDB: 1KCA_H 3BDN_A 1F39_A 1JHH_A 1JHE_B 3JSP_A 1JHF_B 1JHC_A 3JSO_B 1B12_D ....
Probab=21.33 E-value=1.6e+02 Score=16.95 Aligned_cols=47 Identities=26% Similarity=0.299 Sum_probs=24.9
Q ss_pred EEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEeE
Q psy10356 8 TVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKALI 62 (129)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I~ 62 (129)
.|.|+||... .... .+++++....+..|--++++..... .+.++++.
T Consensus 1 ~V~GdSM~P~---i~~G----d~v~v~~~~~~~~gdivv~~~~~~~-~~~iKrv~ 47 (70)
T PF00717_consen 1 RVEGDSMEPT---IKDG----DIVLVDPSSEPKDGDIVVVKIDGDE-ELYIKRVV 47 (70)
T ss_dssp EEESSTTGGT---SSTT----EEEEEEETS---TTSEEEEEETTEE-SEEEEEEE
T ss_pred CeECcCcccC---eeCC----CEEEEEEcCCCccCeEEEEEECCce-eeEEEEEE
Confidence 4889999432 1222 3444454357888887777665553 35555654
No 56
>PRK10276 DNA polymerase V subunit UmuD; Provisional
Probab=21.07 E-value=2.6e+02 Score=19.11 Aligned_cols=46 Identities=20% Similarity=0.191 Sum_probs=26.8
Q ss_pred eEEcCCCcCccccceeeccEEEEEEecCCccccccCceEEEEEeeeeEeEEEEEe
Q psy10356 7 ATVKGEGMLWQEQRVIYGPSVIYIVILEHKSIICAGYSAVMHIHCVAEEVNVKAL 61 (129)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~f~A~v~~l~~~~~i~~G~~~~l~~~t~~~~~~i~~I 61 (129)
..|.|+||..+ . -....+++++.......|.-+.++... ...++.+
T Consensus 54 l~V~GdSM~~~---~---I~~GD~liVd~~~~~~~Gdivv~~~~g---~~~vKrl 99 (139)
T PRK10276 54 VKASGDSMIDA---G---ISDGDLLIVDSAITASHGDIVIAAVDG---EFTVKKL 99 (139)
T ss_pred EEEecCCCCCC---C---CCCCCEEEEECCCCCCCCCEEEEEECC---EEEEEEE
Confidence 45889999642 1 122355566654456778777766543 2445554
No 57
>TIGR00420 trmU tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase. tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase (trmU, asuE, or mnmA) is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine (mnm5s2U34) present in the wobble position of some tRNAs. This enzyme appears not to occur in the Archaea.
Probab=20.95 E-value=4.5e+02 Score=21.18 Aligned_cols=16 Identities=13% Similarity=0.071 Sum_probs=12.2
Q ss_pred EEEEEeCCCeEEEEEE
Q psy10356 109 RFTLRDEGKTIAIGKV 124 (129)
Q Consensus 109 rfiLrd~g~Tva~G~V 124 (129)
..++-|++..+|.|+|
T Consensus 337 ~~v~Y~~~~~lggg~I 352 (352)
T TIGR00420 337 SAVLYKGDICLGGGII 352 (352)
T ss_pred EEEEEECCEEEEeEEC
Confidence 4567777889999876
No 58
>PRK09859 multidrug efflux system protein MdtE; Provisional
Probab=20.58 E-value=3.2e+02 Score=21.91 Aligned_cols=55 Identities=9% Similarity=0.063 Sum_probs=36.9
Q ss_pred cccCceEEEEEeee---eEeEEEEEeEEeeccCcCccc----cCCC-ceeeCCCEEEEEEEEC
Q psy10356 39 ICAGYSAVMHIHCV---AEEVNVKALICLIDKKTGEKS----KTRP-RFVKQDQIAIMRLEAA 93 (129)
Q Consensus 39 i~~G~~~~l~~~t~---~~~~~i~~I~~~id~~tg~~~----~~~p-~~l~~gd~a~v~l~~~ 93 (129)
+..|....+..... ...++|..|...+|..++... -.+| ..|++|+.+.+.|...
T Consensus 234 v~~g~~v~i~~~~~~~~~~~g~v~~i~~~~d~~t~t~~v~~~~~n~~~~l~pGm~v~v~i~~~ 296 (385)
T PRK09859 234 VQGSTPVQLNLENGKRYSQTGTLKFSDPTVDETTGSVTLRAIFPNPNGDLLPGMYVTALVDEG 296 (385)
T ss_pred cCCCeeEEEEeCCCCccccceEEEEecCccCCCCCeEEEEEEEECCCCeECCCCEEEEEEecc
Confidence 44565666655322 236889999888898776321 1344 4699999999999864
No 59
>PLN00039 photosystem II reaction center Psb28 protein; Provisional
Probab=20.28 E-value=2e+02 Score=19.65 Aligned_cols=37 Identities=16% Similarity=0.097 Sum_probs=27.3
Q ss_pred eCCCEEEEEEEECceeeeccc-ccCCcceEEEEEe-CCCe
Q psy10356 81 KQDQIAIMRLEAAGVICLDQF-KLFPQMGRFTLRD-EGKT 118 (129)
Q Consensus 81 ~~gd~a~v~l~~~~pi~ve~~-~~~~~lGrfiLrd-~g~T 118 (129)
+.|..+.+.|.+.+|-+++.+ .....+| .-|+| +|..
T Consensus 23 rdg~~g~a~f~F~~p~~l~~~~~~~~itg-m~liDeEGei 61 (111)
T PLN00039 23 RDGTNGTAIFVFDQPSVFDSSGELGDITG-LYMIDEEGVL 61 (111)
T ss_pred cCCCccEEEEEECCchhhccccccCceee-EEEEccCccE
Confidence 357889999999999999985 3344566 66677 4654
Done!