Query gi|254780753|ref|YP_003065166.1| peptide chain release factor 2 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 355 No_of_seqs 271 out of 3128 Neff 6.5 Searched_HMMs 39220 Date Sun May 29 23:36:38 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780753.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 TIGR00020 prfB peptide chain r 100.0 0 0 1152.9 28.6 353 2-354 13-372 (373) 2 TIGR00019 prfA peptide chain r 100.0 0 0 1025.1 24.2 336 15-354 9-362 (373) 3 PRK00578 prfB peptide chain re 100.0 0 0 997.5 34.2 353 2-354 11-363 (367) 4 PRK07245 consensus 100.0 0 0 989.8 32.2 335 19-355 1-335 (337) 5 PRK00591 prfA peptide chain re 100.0 0 0 979.5 30.4 341 11-355 3-351 (360) 6 PRK05589 peptide chain release 100.0 0 0 943.9 30.0 324 30-354 1-324 (325) 7 PRK06746 peptide chain release 100.0 0 0 938.6 28.8 325 30-354 1-325 (326) 8 PRK07342 peptide chain release 100.0 0 0 915.9 26.3 311 45-355 1-311 (322) 9 COG0216 PrfA Protein chain rel 100.0 0 0 898.5 27.9 337 16-355 9-353 (363) 10 PRK08787 peptide chain release 100.0 0 0 874.0 27.1 302 52-354 2-303 (313) 11 KOG2726 consensus 100.0 0 0 709.4 24.9 321 24-355 51-377 (386) 12 COG1186 PrfB Protein chain rel 100.0 0 0 636.2 18.0 238 117-354 1-238 (239) 13 TIGR03072 release_prfH putativ 100.0 0 0 548.6 17.1 196 117-317 1-197 (200) 14 PRK08179 prfH peptide chain re 100.0 0 0 533.5 18.4 199 117-320 2-201 (204) 15 pfam00472 RF-1 RF-1 domain. Th 100.0 3.3E-36 8.5E-41 279.5 7.8 111 216-327 3-114 (114) 16 pfam03462 PCRF PCRF domain. Th 100.0 4.2E-34 1.1E-38 264.5 8.4 110 75-184 2-115 (115) 17 PRK09256 hypothetical protein; 99.6 1E-16 2.7E-21 140.2 3.6 68 219-286 6-97 (138) 18 KOG3429 consensus 98.9 2.4E-09 6.2E-14 87.5 5.3 71 219-289 33-128 (172) 19 PRK11147 ABC transporter ATPas 95.6 0.11 2.7E-06 32.9 8.2 21 218-239 337-357 (632) 20 PRK10636 putative ABC transpor 94.8 0.33 8.5E-06 29.4 8.7 21 218-239 330-350 (638) 21 TIGR00019 prfA peptide chain r 92.8 0.53 1.3E-05 27.9 6.7 88 4-102 14-104 (373) 22 KOG0995 consensus 88.2 2.4 6.2E-05 23.2 10.3 69 2-72 221-291 (581) 23 PRK05431 seryl-tRNA synthetase 80.3 5.2 0.00013 20.8 10.2 89 13-103 1-93 (422) 24 TIGR03545 conserved hypothetic 77.8 6.2 0.00016 20.3 7.5 20 127-146 287-306 (554) 25 COG0249 MutS Mismatch repair A 75.9 6.9 0.00018 20.0 9.9 153 12-180 308-473 (843) 26 PRK11546 zraP zinc resistance 74.0 7.7 0.0002 19.6 6.0 37 18-56 65-101 (139) 27 pfam07303 Occludin_ELL Occludi 72.1 8.5 0.00022 19.3 5.6 16 16-31 31-46 (101) 28 KOG1086 consensus 69.3 9.6 0.00025 18.9 5.8 28 38-65 204-231 (594) 29 TIGR01011 rpsB_bact ribosomal 68.7 9.2 0.00023 19.1 4.2 60 10-75 97-160 (227) 30 PRK05729 valS valyl-tRNA synth 65.3 12 0.00029 18.4 5.3 10 306-315 406-415 (877) 31 pfam08399 VWA_N VWA N-terminal 65.0 2.9 7.3E-05 22.7 1.0 19 239-260 55-73 (123) 32 PRK05399 DNA mismatch repair p 64.7 12 0.0003 18.3 10.7 151 13-181 310-470 (848) 33 pfam10458 Val_tRNA-synt_C Valy 63.7 12 0.00031 18.2 5.2 53 15-68 12-64 (66) 34 KOG1697 consensus 57.4 10 0.00026 18.8 2.7 114 99-229 66-181 (275) 35 KOG0994 consensus 55.1 17 0.00043 17.2 8.7 97 15-118 1202-1302(1758) 36 TIGR02168 SMC_prok_B chromosom 54.8 17 0.00044 17.1 12.9 22 267-288 675-697 (1191) 37 COG3378 Phage associated DNA p 54.7 9.9 0.00025 18.8 2.3 10 180-189 295-304 (517) 38 COG4026 Uncharacterized protei 53.9 18 0.00045 17.0 6.3 12 153-164 221-232 (290) 39 PRK07997 consensus 53.4 18 0.00046 17.0 4.5 86 22-109 175-289 (928) 40 KOG3274 consensus 53.4 14 0.00035 17.8 2.9 105 138-255 76-185 (210) 41 pfam00435 Spectrin Spectrin re 51.5 19 0.00049 16.8 10.3 85 15-103 9-93 (105) 42 PRK08835 consensus 50.9 20 0.0005 16.7 5.5 88 22-109 175-289 (931) 43 PRK09225 threonine synthase; V 49.5 5.6 0.00014 20.6 0.4 50 113-164 95-146 (465) 44 PRK13520 L-tyrosine decarboxyl 49.2 16 0.00041 17.4 2.7 95 90-214 59-165 (375) 45 PRK07456 consensus 45.9 23 0.00059 16.2 5.2 93 14-108 177-307 (975) 46 pfam05192 MutS_III MutS domain 45.1 24 0.00061 16.1 11.7 130 13-154 53-192 (306) 47 KOG4603 consensus 44.2 25 0.00063 16.0 7.7 12 135-146 155-166 (201) 48 pfam05616 Neisseria_TspB Neiss 44.1 19 0.0005 16.7 2.5 93 110-216 197-318 (502) 49 PRK00132 rpsI 30S ribosomal pr 43.4 14 0.00035 17.8 1.6 30 196-228 6-35 (130) 50 pfam03962 Mnd1 Mnd1 family. Th 43.1 26 0.00065 15.9 8.1 119 34-156 55-177 (188) 51 PRK00474 rps9p 30S ribosomal p 43.0 13 0.00034 17.9 1.5 32 197-233 5-36 (132) 52 PRK06737 acetolactate synthase 42.7 14 0.00037 17.7 1.6 33 145-177 23-55 (76) 53 pfam03357 Snf7 Snf7. This fami 42.1 26 0.00067 15.8 10.3 40 37-76 38-77 (169) 54 PRK00294 hscB co-chaperone Hsc 41.1 27 0.0007 15.7 6.9 50 14-63 18-75 (173) 55 PRK07898 consensus 40.6 28 0.00071 15.6 5.0 87 22-108 189-295 (902) 56 pfam02815 MIR MIR domain. The 39.6 29 0.00073 15.5 4.4 36 230-265 120-155 (189) 57 KOG0581 consensus 39.5 18 0.00045 17.0 1.7 55 200-262 54-108 (364) 58 TIGR03627 arch_S9P archaeal ri 39.3 16 0.00042 17.3 1.5 32 197-233 3-34 (130) 59 TIGR02194 GlrX_NrdH Glutaredox 39.0 14 0.00036 17.8 1.1 41 139-179 13-61 (72) 60 PRK08928 consensus 38.6 30 0.00076 15.4 4.5 88 22-109 173-281 (861) 61 COG1256 FlgK Flagellar hook-as 38.5 30 0.00076 15.4 7.5 19 16-34 87-105 (552) 62 PRK01773 hscB co-chaperone Hsc 38.1 30 0.00077 15.4 6.8 49 14-62 16-72 (173) 63 COG0172 SerS Seryl-tRNA synthe 38.1 30 0.00077 15.4 7.9 54 13-66 1-55 (429) 64 pfam00380 Ribosomal_S9 Ribosom 37.4 20 0.00051 16.7 1.7 26 200-228 1-26 (121) 65 COG0103 RpsI Ribosomal protein 36.9 21 0.00053 16.5 1.7 30 196-228 6-35 (130) 66 pfam07050 consensus 36.8 32 0.00081 15.2 8.5 56 2-63 9-64 (145) 67 CHL00079 rps9 ribosomal protei 36.6 18 0.00045 17.0 1.3 31 195-228 8-38 (134) 68 pfam06160 EzrA Septation ring 36.4 32 0.00082 15.2 6.8 38 23-60 77-114 (559) 69 KOG4519 consensus 36.2 32 0.00082 15.2 5.2 26 106-131 387-412 (459) 70 cd01560 Thr-synth_2 Threonine 36.2 6.6 0.00017 20.1 -1.0 51 112-164 93-145 (460) 71 cd02134 NusA_KH NusA_K homolog 35.2 13 0.00032 18.1 0.4 34 209-246 17-50 (61) 72 PRK04778 septation ring format 34.5 34 0.00087 15.0 6.8 37 23-59 81-117 (569) 73 PRK10329 glutaredoxin-like pro 34.2 18 0.00046 17.0 1.0 43 139-181 15-64 (81) 74 pfam04983 RNA_pol_Rpb1_3 RNA p 33.9 30 0.00077 15.4 2.1 30 126-155 127-156 (158) 75 pfam07962 Swi3 Replication For 33.3 36 0.00091 14.8 2.7 27 121-148 23-49 (84) 76 cd04878 ACT_AHAS N-terminal AC 32.5 24 0.00062 16.0 1.5 40 136-176 13-52 (72) 77 PRK08178 acetolactate synthase 32.3 31 0.00079 15.3 2.0 50 116-177 12-61 (96) 78 PRK13182 racA polar chromosome 31.4 38 0.00098 14.6 6.6 21 86-106 131-151 (178) 79 PTZ00086 40S ribosomal protein 31.1 28 0.0007 15.7 1.6 29 197-228 12-40 (147) 80 PRK07556 consensus 31.1 39 0.00099 14.6 4.4 88 22-109 181-289 (977) 81 PRK08385 nicotinate-nucleotide 31.1 36 0.00091 14.8 2.1 62 114-184 29-91 (279) 82 TIGR02153 gatD_arch glutamyl-t 30.9 17 0.00044 17.1 0.5 113 125-255 149-292 (413) 83 PRK08786 consensus 30.6 39 0.001 14.5 4.4 46 22-67 170-221 (927) 84 PRK06887 consensus 30.3 40 0.001 14.5 5.2 88 22-109 175-289 (954) 85 TIGR01219 Pmev_kin_ERG8 phosph 30.3 40 0.001 14.5 6.8 57 106-163 430-489 (499) 86 COG0497 RecN ATPase involved i 30.2 40 0.001 14.5 9.8 10 247-256 485-494 (557) 87 cd06891 PX_Vps17p The phosphoi 29.8 41 0.001 14.5 3.0 23 123-148 99-121 (140) 88 KOG0081 consensus 29.7 41 0.001 14.4 2.4 30 199-240 31-60 (219) 89 PHA00159 endonuclease I 29.5 23 0.00059 16.2 0.9 15 140-154 108-122 (149) 90 CHL00100 ilvH acetohydroxyacid 29.5 30 0.00076 15.4 1.5 65 136-201 15-84 (172) 91 cd01137 PsaA Metal binding pro 29.3 41 0.0011 14.4 7.0 20 31-50 115-134 (287) 92 COG1196 Smc Chromosome segrega 29.0 42 0.0011 14.4 8.9 16 232-248 645-662 (1163) 93 pfam05367 Phage_endo_I Phage e 28.9 24 0.00061 16.1 0.9 14 140-153 108-121 (149) 94 COG5491 VPS24 Conserved protei 28.8 42 0.0011 14.3 9.2 65 14-78 52-120 (204) 95 TIGR02090 LEU1_arch isopropylm 28.5 17 0.00042 17.2 0.0 15 172-189 276-290 (371) 96 PRK11895 ilvH acetolactate syn 28.5 32 0.00082 15.2 1.5 62 136-198 15-81 (161) 97 PRK08883 ribulose-phosphate 3- 28.3 43 0.0011 14.3 2.7 38 117-154 133-170 (220) 98 pfam05055 DUF677 Protein of un 28.2 43 0.0011 14.3 8.8 98 33-146 56-157 (336) 99 PRK05755 DNA polymerase I; Pro 28.1 43 0.0011 14.3 4.1 88 22-109 173-281 (889) 100 PRK08076 consensus 27.9 44 0.0011 14.2 3.5 96 14-109 160-283 (877) 101 pfam12112 DUF3579 Protein of u 27.9 29 0.00073 15.5 1.2 51 120-171 12-62 (93) 102 PRK05797 consensus 27.7 44 0.0011 14.2 4.0 88 22-109 175-284 (869) 103 TIGR02898 spore_YhcN_YlaJ spor 27.6 32 0.00081 15.2 1.4 20 160-179 81-101 (185) 104 pfam02403 Seryl_tRNA_N Seryl-t 27.5 44 0.0011 14.2 10.2 55 13-67 1-56 (108) 105 PRK08566 DNA-directed RNA poly 27.2 44 0.0011 14.2 2.0 31 175-211 298-329 (881) 106 PRK07737 fliD flagellar cappin 25.9 47 0.0012 14.0 6.3 58 5-73 3-60 (502) 107 TIGR00845 caca sodium/calcium 25.1 49 0.0012 13.9 3.1 35 205-241 573-617 (1067) 108 PRK11783 rlmL 23S rRNA m(2)G24 24.6 25 0.00064 15.9 0.4 38 117-159 309-354 (716) 109 pfam04800 ETC_C1_NDUFA4 ETC co 24.6 22 0.00056 16.4 0.1 17 142-158 62-78 (101) 110 COG1225 Bcp Peroxiredoxin [Pos 24.6 28 0.00072 15.6 0.7 86 116-216 32-146 (157) 111 pfam11926 DUF3444 Domain of un 24.0 28 0.00071 15.6 0.5 23 106-128 103-129 (216) 112 KOG3083 consensus 24.0 51 0.0013 13.7 2.9 18 236-256 81-98 (271) 113 PRK11020 hypothetical protein; 23.8 51 0.0013 13.7 5.7 61 15-75 6-68 (118) 114 KOG0544 consensus 23.8 35 0.00089 14.9 1.0 32 147-183 57-88 (108) 115 cd01989 STK_N The N-terminal d 23.3 46 0.0012 14.1 1.5 72 132-212 61-143 (146) 116 PRK05014 hscB co-chaperone Hsc 23.0 53 0.0014 13.6 7.0 60 14-75 15-74 (171) 117 KOG2148 consensus 22.9 53 0.0014 13.6 10.4 14 126-139 306-319 (867) 118 PRK07081 acyl carrier protein; 22.7 1.3 3.4E-05 25.1 -6.5 32 204-235 34-65 (83) 119 TIGR01169 rplA_bact ribosomal 22.0 19 0.00048 16.8 -0.7 48 214-274 35-88 (227) 120 PRK07417 arogenate dehydrogena 21.9 56 0.0014 13.5 4.3 13 116-131 85-97 (280) 121 KOG1760 consensus 21.9 56 0.0014 13.5 7.7 45 35-79 15-62 (131) 122 KOG4657 consensus 21.8 56 0.0014 13.5 6.6 75 40-119 48-123 (246) 123 pfam00834 Ribul_P_3_epim Ribul 21.7 56 0.0014 13.4 2.9 58 117-179 132-199 (201) 124 KOG1290 consensus 21.4 35 0.00089 14.9 0.6 42 109-150 134-181 (590) 125 pfam07851 TMPIT TMPIT-like pro 21.4 57 0.0015 13.4 10.1 43 79-126 64-106 (330) 126 cd04783 HTH_MerR1 Helix-Turn-H 21.3 57 0.0015 13.4 2.9 94 7-103 3-97 (126) 127 cd01145 TroA_c Periplasmic bin 21.0 58 0.0015 13.3 5.5 13 32-44 107-119 (203) 128 KOG4181 consensus 21.0 22 0.00056 16.4 -0.5 71 244-338 173-243 (491) 129 COG3978 Acetolactate synthase 20.2 60 0.0015 13.2 1.8 52 132-183 11-62 (86) 130 cd06145 REX1_like This subfami 20.1 44 0.0011 14.2 0.9 13 189-201 15-27 (150) No 1 >TIGR00020 prfB peptide chain release factor 2; InterPro: IPR004374 In many but not all taxa, there is a conserved real translational frameshift at a TGA codon. RF-2 helps terminate translation at TGA codons and can therefore regulate its own production by readthrough when RF-2 is insufficient. There is a superfamily IPR000352 from INTERPRO of RF-1, RF-2, mitochondrial, RF-H, etc proteins.; GO: 0016149 translation release factor activity codon specific, 0006415 translational termination, 0005737 cytoplasm. Probab=100.00 E-value=0 Score=1152.92 Aligned_cols=353 Identities=56% Similarity=0.898 Sum_probs=350.4 Q ss_pred CHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 56899999886549899999999999987086600258999999999988999999999999998639999986310000 Q gi|254780753|r 2 KLSRQLNCLGGLFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDD 81 (355) Q Consensus 2 EL~~rl~~l~~~fDle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D 81 (355) +|++|++.++++||++.++.||++|++++++|+||+||.+||.+.+|.+.|+..|+.|+++++.++|+.+|+||+.+++| T Consensus 13 ~L~~rl~~~~~~Ld~e~~~~rle~le~e~~dP~fW~D~~rAq~v~~e~~~l~~~l~~~~~l~~~~~dl~~L~Ela~ee~d 92 (373) T TIGR00020 13 ELASRLDDVRGILDPEKLKARLEELEKEMEDPNFWNDQERAQKVIKERSSLEEELDTLEELKNSLDDLSELLELAKEEDD 92 (373) T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCH T ss_conf 99989998775138668999999998775078666125899999999999998632799987553257889987437603 Q ss_pred C------HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 0------0234566765557740158998876303457662489982177870277899999998999987753113444 Q gi|254780753|r 82 C------SILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEAL 155 (355) Q Consensus 82 ~------el~eE~~~el~~l~~~le~LE~~~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi 155 (355) . +.+.++..|++.|++.+.++|++.|||||+|.+||||+||||||||||||||+||+|||.||||+|||++|+| T Consensus 93 ~aaasGm~~~~el~~El~~Le~~~~~lE~~~~LSgE~D~~nA~ltI~~GAGGTEa~DWa~ML~RMY~RWAE~rgykvE~l 172 (373) T TIGR00020 93 EAAASGMETFAELEEELKALEKELEELELRTLLSGEYDANNAILTIQSGAGGTEAQDWASMLYRMYLRWAERRGYKVEIL 172 (373) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHCCCEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEE T ss_conf 57778999999999999999999999999997067577210633523877985166699999875357641057513563 Q ss_pred HCCCCCCCCEEEEEEEEECCCCCHHHEEECCEEEEEEECCCCCCCEEEEEEEEEEECCCCCCC-CCCCCCCCEEEEEEEC Q ss_conf 205454585013468850556100000101206898730466665035668878850344222-1112345503699853 Q gi|254780753|r 156 EIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDS-IEIEISESDCRIDTYR 234 (355) Q Consensus 156 ~~~~~e~~GiK~~~~~I~G~~ayg~Lk~E~GvHRv~Ri~~~~s~gR~hTS~a~V~V~P~~~~~-~~i~i~~~dl~i~~~r 234 (355) |+++||+||||||||.|+|+|||||||+|.||||||||||||+++|||||||+|.|+|++||. ++|+|+|.|||||||| T Consensus 173 D~~~geeAGIKSVT~~ikG~yAYG~Lk~E~GvHRLVRISPFDa~~rRHTSFasv~V~P~~Dd~tI~IeI~~~D~riD~YR 252 (373) T TIGR00020 173 DYSEGEEAGIKSVTILIKGEYAYGYLKSEQGVHRLVRISPFDANARRHTSFASVEVMPEVDDDTIDIEIKPEDVRIDTYR 252 (373) T ss_pred ECCCCCCCCEEEEEEEEECCCCCCCCCCCCCEEEEEEECCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCCCEEEEEEE T ss_conf 12678613401589998526533302268741787750666686953322688886240357445110688754686665 Q ss_pred CCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEE Q ss_conf 88865544273100358874697477665555522467999999999999999999999999998741332332221013 Q gi|254780753|r 235 ASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWGRQIRS 314 (355) Q Consensus 235 ssg~ggq~vn~t~savri~H~ptgi~v~~q~~rsq~~Nk~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~g~~iRt 314 (355) ||||||||||||||||||||+||||||+||++|||||||..||++||||||+++++|++++.+..++.|+.||||+|||| T Consensus 253 aSGAGGQhVNkTdSAVRITHiPTGiVv~CQ~eRSQ~kNK~~Amk~LKaKLYe~~~~k~~~~~~~~~~ek~eIgWG~QIRS 332 (373) T TIGR00020 253 ASGAGGQHVNKTDSAVRITHIPTGIVVQCQNERSQHKNKDSAMKVLKAKLYELEMEKEQAEKDAKEGEKSEIGWGNQIRS 332 (373) T ss_pred CCCCCCCCCCCCCCCEEEEEECCCCEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCE T ss_conf 46898974214465326544358736851273046888999999999999998889998888763024677786451000 Q ss_pred EECCCCCCCCCCCCCCEECCHHHHHCCCHHHHHHHHHHCC Q ss_conf 0158568331111472507977871897799999997225 Q gi|254780753|r 315 YVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLAIK 354 (355) Q Consensus 315 Y~~~p~~~v~DhR~~~~~~~~~~vl~G~ld~~i~a~l~~~ 354 (355) ||||||++|||||||++++|+.+||||+||.||+|||+|+ T Consensus 333 YVl~PY~~vKD~Rt~~E~gNv~AVlDGdID~FiE~~Lkwk 372 (373) T TIGR00020 333 YVLHPYQLVKDLRTNYETGNVEAVLDGDIDEFIEAYLKWK 372 (373) T ss_pred EEECCHHHHHHCCCCCCCCCCCEEECCCHHHHHHHHHHHC T ss_conf 0407613332201672357822575476547898887505 No 2 >TIGR00019 prfA peptide chain release factor 1; InterPro: IPR004373 This family describes peptide chain release factor 1 (PrfA, RF-1), and excludes the related peptide chain release factor 2 (PrfB, RF-2). RF-1 helps recognise and terminate translation at UAA and UAG stop codons. The mitochondrial release factors are prfA-like, although not included above the trusted cut-off for this model. RF-1 does not have a translational frameshift.; GO: 0016149 translation release factor activity codon specific, 0006415 translational termination, 0005737 cytoplasm. Probab=100.00 E-value=0 Score=1025.15 Aligned_cols=336 Identities=38% Similarity=0.575 Sum_probs=320.1 Q ss_pred CHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH Q ss_conf 9899999999999987086600258999999999988999999999999998639999986310-000002345667655 Q gi|254780753|r 15 DWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALE-EDDCSILQETSDNLQ 93 (355) Q Consensus 15 Dle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~e-e~D~el~eE~~~el~ 93 (355) .|+++..++.+|+..|+||++.+||+++++++||++.|++++..|.+|.+..++++++.+|++| .+|+||.++|..|+. T Consensus 9 kL~~~~~~~~eL~~~L~dp~v~~d~~k~~~~~ke~~~l~~i~~~~~~~~~~~~~~~~A~~~l~E~~~D~El~elak~El~ 88 (373) T TIGR00019 9 KLESLEERYEELEELLSDPEVISDQDKLRKLSKEYSQLEEIVDKYEEYKKAQEDLKEAKELLEEKGDDKELRELAKEELE 88 (373) T ss_pred HHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH T ss_conf 99999999999998506863113679999998862065689999999999999999999999742588658999999999 Q ss_pred HHHHHHHHHH----HHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEE Q ss_conf 5774015899----887630345766248998217787027789999999899998775311344420545458501346 Q gi|254780753|r 94 RIKLEVEYKQ----FESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSAT 169 (355) Q Consensus 94 ~l~~~le~LE----~~~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~ 169 (355) .++..+++|| +.|||+||+|.+||||||||||||+|||+||+||||||.||||.|||||+|++.+.++.||||+|+ T Consensus 89 ~l~~~~~~LE~~Lk~LLlPkDPND~kNv~lEiRaGtGGdEAalFagDLfrMY~rYAE~kgWkV~i~s~~~~~~GGyKE~I 168 (373) T TIGR00019 89 ELEKEIEELEEQLKILLLPKDPNDEKNVILEIRAGTGGDEAALFAGDLFRMYSRYAESKGWKVEILSANETELGGYKEVI 168 (373) T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCEEEE T ss_conf 99988888999999726886976695348885079971479999987999988887437988999741157778703257 Q ss_pred EEE--EC-------CCCCHHHEEECCEEEEEEECCCCCCCEEEEEEEEEEECCCCCCCCC-CCCCCCEEEEEEECCCCCC Q ss_conf 885--05-------5610000010120689873046666503566887885034422211-1234550369985388865 Q gi|254780753|r 170 LLI--KG-------PNAYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIE-IEISESDCRIDTYRASGAG 239 (355) Q Consensus 170 ~~I--~G-------~~ayg~Lk~E~GvHRv~Ri~~~~s~gR~hTS~a~V~V~P~~~~~~~-i~i~~~dl~i~~~rssg~g 239 (355) |.| +| ++||+.||||||||||||||.|||+||+|||||||+|||++|| ++ |+|||+||||||||||||| T Consensus 169 ~~ish~GasdGdav~gVys~LKFEsGvHRVQRVP~TES~GRiHTSaaTVAvlPE~eE-~E~v~InP~DLrIDtfRsSGaG 247 (373) T TIGR00019 169 AEISHKGASDGDAVDGVYSRLKFESGVHRVQRVPVTESQGRIHTSAATVAVLPEVEE-VEEVKINPKDLRIDTFRSSGAG 247 (373) T ss_pred EEEECCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCCEEECHHHEEECCCCCC-CCCCCCCHHHCEEEEEECCCCC T ss_conf 665305788863033156540010587303100231376925100111010577798-8975557605648476527898 Q ss_pred CCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---CCCCEEEEE Q ss_conf 54427310035887469747766555552246799999999999999999999999999874133233---222101301 Q gi|254780753|r 240 GQHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIG---WGRQIRSYV 316 (355) Q Consensus 240 gq~vn~t~savri~H~ptgi~v~~q~~rsq~~Nk~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~---~g~~iRtY~ 316 (355) |||||||||||||||+||||||+||+|||||+||++||++|+||||+.+.++++++.... ||.++| |++|||||| T Consensus 248 GQ~VNtTdSAVRITHLPTGIVV~CQdErSQ~kNK~kAmk~L~ArL~~~~~~~~~~~~a~~--RksqVGSGDRSErIRTYN 325 (373) T TIGR00019 248 GQHVNTTDSAVRITHLPTGIVVSCQDERSQHKNKDKAMKILRARLYEKEQEKQQAEQASD--RKSQVGSGDRSERIRTYN 325 (373) T ss_pred CCCCCCCCCCEEEEECCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHCCCCCHHCCCCCCC T ss_conf 888665200002002688417885478520567999999999999999999999998750--466156654000355678 Q ss_pred CCCCCCCCCCCCCCEECCHHHHHCCCHHHHHHHHHHCC Q ss_conf 58568331111472507977871897799999997225 Q gi|254780753|r 317 LQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLAIK 354 (355) Q Consensus 317 ~~p~~~v~DhR~~~~~~~~~~vl~G~ld~~i~a~l~~~ 354 (355) | ||+||||||+|+++++|+.||+|+||++|+|++... T Consensus 326 f-PQNRvTDHRInlTly~L~~~l~G~LD~~i~aL~~~~ 362 (373) T TIGR00019 326 F-PQNRVTDHRINLTLYKLDEVLEGDLDEIIEALIAED 362 (373) T ss_pred C-CCCCCCHHHHCCHHHHHHHHHCCCCHHHHHHHHHHH T ss_conf 9-888530434401043045663067215778999999 No 3 >PRK00578 prfB peptide chain release factor 2; Validated Probab=100.00 E-value=0 Score=997.50 Aligned_cols=353 Identities=58% Similarity=0.896 Sum_probs=349.2 Q ss_pred CHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 56899999886549899999999999987086600258999999999988999999999999998639999986310000 Q gi|254780753|r 2 KLSRQLNCLGGLFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDD 81 (355) Q Consensus 2 EL~~rl~~l~~~fDle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D 81 (355) +|.++++.++++||++.++.|+++|+.+|++|+||+||++|++++||++.|+++|+.|+.+.+.++|+.++.+|+.+++| T Consensus 11 ~l~~rl~~l~~~ldle~l~~rl~ELe~~lsdP~~W~D~~~a~kl~kE~~~L~~~v~~~~~l~~~~~dl~~l~eL~~ee~D 90 (367) T PRK00578 11 DLDERLENIRGVLDVDALKERLEELEAEAEDPDFWNDQERAQKVGKELSSLKAKLDTLENLRQRLDDLEELLELAEEEDD 90 (367) T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 99999999987679999999999999986397054499999999999999999999999999999999999999864999 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 00234566765557740158998876303457662489982177870277899999998999987753113444205454 Q gi|254780753|r 82 CSILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGE 161 (355) Q Consensus 82 ~el~eE~~~el~~l~~~le~LE~~~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e 161 (355) +++.+++..++..+...++++|+++||+||+|.+||||||||||||+||+|||+||||||+|||+++||++++++.++|+ T Consensus 91 ~el~eea~~el~~l~~~l~~lEl~~Llsd~~D~~naileI~aGaGG~EA~~~a~~L~rMY~r~ae~~g~k~~v~~~~~~~ 170 (367) T PRK00578 91 EETLAEAEAELKALEKKLAALELERLLSGEYDANNAILTIHAGAGGTEAQDWASMLLRMYLRWAERHGFKVEVLDYSEGE 170 (367) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCC T ss_conf 89999999999999999999999860489886788479998489960788999999999999998758863141037765 Q ss_pred CCCEEEEEEEEECCCCCHHHEEECCEEEEEEECCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCC Q ss_conf 58501346885055610000010120689873046666503566887885034422211123455036998538886554 Q gi|254780753|r 162 EAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQ 241 (355) Q Consensus 162 ~~GiK~~~~~I~G~~ayg~Lk~E~GvHRv~Ri~~~~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~rssg~ggq 241 (355) .||||+|+|.|+|+||||+||+|+|||||||||||+++||||||||+|+|+|+++++++|+|+|+||+|||||||||||| T Consensus 171 ~~Gik~~~~~i~G~~ayg~Lk~E~GvHRv~Ri~~~es~gr~hTS~a~V~V~P~~~~~~~i~i~~~dl~id~~RssGaGGQ 250 (367) T PRK00578 171 EAGIKSATLKIKGPYAYGYLKSEKGVHRLVRISPFDSAGRRHTSFASVEVYPEVDDDIEIEINPKDLRIDTYRSSGAGGQ 250 (367) T ss_pred CCCCCEEEEEEECCCHHHHHCCCCCCEEEEECCCCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCC T ss_conf 56600589998346534332225762135646985788865777569999626776435778821335898646899877 Q ss_pred CCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCC Q ss_conf 42731003588746974776655555224679999999999999999999999999987413323322210130158568 Q gi|254780753|r 242 HVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWGRQIRSYVLQPYQ 321 (355) Q Consensus 242 ~vn~t~savri~H~ptgi~v~~q~~rsq~~Nk~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~g~~iRtY~~~p~~ 321 (355) |||||+|||||||+||||+|+||+|||||+||++||++|++|||+++++++.++....++.+..++||+||||||||||+ T Consensus 251 ~VNkt~sAVRitH~PTGivv~cq~eRSQ~~Nk~~A~~~L~akL~~~~~~~~~~~~~~~r~~~~~~~~g~~IRtY~f~p~~ 330 (367) T PRK00578 251 HVNKTDSAVRITHIPTGIVVQCQNERSQHQNKASAMKMLKAKLYELELEKRAAEKDALRGEKKDIGWGSQIRSYVLHPYQ 330 (367) T ss_pred CCCCCCCEEEEEEECCCEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCC T ss_conf 75752333799972586499955602189899999999999999999999999999976441357653656442478987 Q ss_pred CCCCCCCCCEECCHHHHHCCCHHHHHHHHHHCC Q ss_conf 331111472507977871897799999997225 Q gi|254780753|r 322 MVKDLRTNIEKTSPSDVLDGDLDDFMKATLAIK 354 (355) Q Consensus 322 ~v~DhR~~~~~~~~~~vl~G~ld~~i~a~l~~~ 354 (355) ||||||||++++|++.||+|+||+||+|||+|+ T Consensus 331 rV~DhR~~~~~~~l~~vl~G~ld~~I~a~L~~~ 363 (367) T PRK00578 331 MVKDLRTGYETGNTQAVLDGDLDGFIEAYLRWR 363 (367) T ss_pred CCCCCCCCCEECCHHHHHCCCHHHHHHHHHHHH T ss_conf 474005697357757874888599999999877 No 4 >PRK07245 consensus Probab=100.00 E-value=0 Score=989.76 Aligned_cols=335 Identities=45% Similarity=0.748 Sum_probs=328.1 Q ss_pred HHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH Q ss_conf 99999999998708660025899999999998899999999999999863999998631000000234566765557740 Q gi|254780753|r 19 AVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQETSDNLQRIKLE 98 (355) Q Consensus 19 ~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D~el~eE~~~el~~l~~~ 98 (355) +++++.+|+.+|++|+||+||++|++++||++.|+++++.|+.++..++|+..+.+|+.+ |+++.+|+..++..+.+. T Consensus 1 l~~~l~eLe~~~s~Pd~w~D~~ka~kl~ke~~~L~~~v~~~~~l~~~~~d~e~l~el~~e--de~~~~El~~~~~~l~~~ 78 (337) T PRK07245 1 MEEEIALLENHMTEPDFWNDNIAAQKTSQELNELKGKYDTFHNMQELSDETELLLEMLDE--DDSLKEELEENLMQLDKI 78 (337) T ss_pred CHHHHHHHHHHHCCCHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHH T ss_conf 958999999986297033099999999999999999999999999999999999986607--998999999999999999 Q ss_pred HHHHHHHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCC Q ss_conf 15899887630345766248998217787027789999999899998775311344420545458501346885055610 Q gi|254780753|r 99 VEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAY 178 (355) Q Consensus 99 le~LE~~~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~ay 178 (355) ++++++.+||+||+|.+||||||||||||+||||||+||||||+|||+++||++++++.++|++||||+|+|.|+|+||| T Consensus 79 ~~~le~~lll~~~~D~~naileIrAGaGG~EA~dwA~mL~RMY~R~aE~~gwk~evl~~~~ge~~GiK~vt~~I~G~~aY 158 (337) T PRK07245 79 MGAYEMTLLLSEPYDHNNAILEIHPGSGGTEAQDWGDLLLRMYTRFGNANGFKVEVLDYQAGDEAGIKSVTLSFEGPNAY 158 (337) T ss_pred HHHHHHHHCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHCCCCCCCCCCEEEEEEECCCCC T ss_conf 99999986669987678837999789896799999999999999999976994012106886545600579999647877 Q ss_pred HHHEEECCEEEEEEECCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECCCH Q ss_conf 00001012068987304666650356688788503442221112345503699853888655442731003588746974 Q gi|254780753|r 179 GWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTG 258 (355) Q Consensus 179 g~Lk~E~GvHRv~Ri~~~~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~ptg 258 (355) |+||+|+|||||||||||||+||||||||+|+|+|+++|+++|+|+|+||+|||||||||||||||||+|||||||+||| T Consensus 159 g~Lk~EsGVHRv~Risp~es~gRrhTS~asV~VlP~~dd~i~i~i~~~Dlridt~RssGaGGQ~VNkt~SAVRitH~PTG 238 (337) T PRK07245 159 GLLKSEMGVHRLVRISPFDSAKRRHTSFASVEVMPELDDTIEVEVRDDDIKMDTFRSGGAGGQNVNKVSTGVRLTHIPTG 238 (337) T ss_pred CCEEECCCCEEEEECCCCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCEEEEEEEEEECCC T ss_conf 70331375202476799888886665678999953557654567887563899875799998886765226899972586 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCEECCHHHH Q ss_conf 77665555522467999999999999999999999999998741332332221013015856833111147250797787 Q gi|254780753|r 259 VVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDV 338 (355) Q Consensus 259 i~v~~q~~rsq~~Nk~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~g~~iRtY~~~p~~~v~DhR~~~~~~~~~~v 338 (355) |+|+||+|||||+||++||++|+||||+++.+++.++.+..++.+..++||+||||||||||+||||||||++++|+++| T Consensus 239 i~v~cq~eRSQ~~Nk~~A~~~L~akL~~~~~~~~~~e~~~~~~~~~~~~~g~~IRtY~~~p~~~V~DhRt~~~~~~~~~v 318 (337) T PRK07245 239 IVVSSTVDRTQYGNRDRAMKMLQAKLYQLEQEKKAQEVDALKGDKKEITWGSQIRSYVFTPYTMVKDHRTNFELAQVDKV 318 (337) T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEECCCCCCCCCCCCCCEECCHHHH T ss_conf 69996574368999999999999999999999999899986415212665576615167898837420669744784787 Q ss_pred HCCCHHHHHHHHHHCCC Q ss_conf 18977999999972259 Q gi|254780753|r 339 LDGDLDDFMKATLAIKK 355 (355) Q Consensus 339 l~G~ld~~i~a~l~~~~ 355 (355) |+|+||+||+|||+||. T Consensus 319 ldG~ld~fi~a~l~~~~ 335 (337) T PRK07245 319 MDGEINGFIDAYLKWRI 335 (337) T ss_pred HCCCHHHHHHHHHHHHH T ss_conf 58775999999997540 No 5 >PRK00591 prfA peptide chain release factor 1; Validated Probab=100.00 E-value=0 Score=979.48 Aligned_cols=341 Identities=38% Similarity=0.574 Sum_probs=325.2 Q ss_pred HHHCC-HHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHH Q ss_conf 86549-89999999999998708660025899999999998899999999999999863999998631000000234566 Q gi|254780753|r 11 GGLFD-WDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQETS 89 (355) Q Consensus 11 ~~~fD-le~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D~el~eE~~ 89 (355) ..||+ ++.++.|+++|+.+|++|+||+||++|++++||++.|+++++.|+.+.+..+|+.++.+|+.+++|+++.+++. T Consensus 3 ~~m~~kLe~l~~rl~eLe~~ls~p~fW~D~~~a~kl~kE~~~L~~~v~~~~~l~~~~~dl~el~eLl~ee~D~el~e~a~ 82 (360) T PRK00591 3 PSMLDKLEALEERYEELEALLSDPEVISDQKRFRKLSKEYAELEPIVEAYREYKQAEEDLEDAKELLKEESDPEMREMAK 82 (360) T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH T ss_conf 79999999999999999998729852129999999999999999999999999999998999999986279978999999 Q ss_pred HHHHHHHHHHHHHH----HHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCE Q ss_conf 76555774015899----88763034576624899821778702778999999989999877531134442054545850 Q gi|254780753|r 90 DNLQRIKLEVEYKQ----FESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGI 165 (355) Q Consensus 90 ~el~~l~~~le~LE----~~~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~Gi 165 (355) +++..+...++++| ..+||+||+|.+||||||||||||+||||||+||||||+|||+++||+++++++++|++||| T Consensus 83 ~El~~l~~~l~~lE~eL~~lLlp~d~~D~~nailEIrAGAGGtEA~dwA~mL~RMY~RwAE~~g~k~evid~s~ge~aGi 162 (360) T PRK00591 83 EELKELEERLEELEEELKILLLPKDPNDDKNVILEIRAGTGGDEAALFAGDLFRMYSRYAERQGWKVEILSASEGELGGY 162 (360) T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCH T ss_conf 99999999999999999998379997756785899965888748999999999999999986799715602577655650 Q ss_pred EEEEEEEECCCCCHHHEEECCEEEEEEECCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCC Q ss_conf 13468850556100000101206898730466665035668878850344222111234550369985388865544273 Q gi|254780753|r 166 KSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNT 245 (355) Q Consensus 166 K~~~~~I~G~~ayg~Lk~E~GvHRv~Ri~~~~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~ 245 (355) |+|||.|+|+|||||||+|+|||||||||||||+||||||||+|+|+|++++ ++|+|+|+||+|||||||||||||||| T Consensus 163 Ksat~~I~G~~AYg~Lk~EsGVHRvvRip~~es~gR~HTSfasV~V~P~~~~-~~i~i~~~dl~idt~RssGaGGQhVNk 241 (360) T PRK00591 163 KEIIASISGDGVYSKLKFESGVHRVQRVPATESQGRIHTSAATVAVLPEAEE-VEVEINPKDLRIDTFRSSGAGGQHVNT 241 (360) T ss_pred HEEEEEEECHHHHHHHHHCCCCCCEECCCCCCCCCCEEEEEEEEEEECCCCC-CCCCCCCCCEEEEEEECCCCCCCCCCC T ss_conf 2168887170688776323775412306985667856640047897067643-102568540258875357999887676 Q ss_pred CCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC---CCEEEEECCCCCC Q ss_conf 1003588746974776655555224679999999999999999999999999987413323322---2101301585683 Q gi|254780753|r 246 TDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWG---RQIRSYVLQPYQM 322 (355) Q Consensus 246 t~savri~H~ptgi~v~~q~~rsq~~Nk~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~g---~~iRtY~~~p~~~ 322 (355) |+|||||||+||||+|.||++||||+||++||++|++|||+++.+++.++.... ++.++||| +||||||| ||+| T Consensus 242 t~saVritH~ptgi~v~cq~ersQ~~Nk~~A~~~L~~~l~~~~~~~~~~~~~~~--r~~~i~~g~rs~~iRtY~~-p~~~ 318 (360) T PRK00591 242 TDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAERQKAQAEEAAT--RKSQVGSGDRSERIRTYNF-PQGR 318 (360) T ss_pred CCCEEEEEECCCCEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHCCCCCCCCCCCCCCC-CCCC T ss_conf 343268986167559985460227889999999999999999999999999998--8865137770007507718-9886 Q ss_pred CCCCCCCCEECCHHHHHCCCHHHHHHHHHHCCC Q ss_conf 311114725079778718977999999972259 Q gi|254780753|r 323 VKDLRTNIEKTSPSDVLDGDLDDFMKATLAIKK 355 (355) Q Consensus 323 v~DhR~~~~~~~~~~vl~G~ld~~i~a~l~~~~ 355 (355) |||||||++++|++.||||+||+||+|+|.+.+ T Consensus 319 v~DhR~~~~~~~~~~vldG~ld~~I~a~~~~~~ 351 (360) T PRK00591 319 VTDHRINLTLYKLDEVMEGDLDELIDALIAEDQ 351 (360) T ss_pred CCCCCCCCEECCHHHHHCCCHHHHHHHHHHHHH T ss_conf 500135986468577748876999999999999 No 6 >PRK05589 peptide chain release factor 2; Provisional Probab=100.00 E-value=0 Score=943.89 Aligned_cols=324 Identities=48% Similarity=0.814 Sum_probs=315.3 Q ss_pred HHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 70866002589999999999889999999999999986399999863100000023456676555774015899887630 Q gi|254780753|r 30 TEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQETSDNLQRIKLEVEYKQFESLLS 109 (355) Q Consensus 30 lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D~el~eE~~~el~~l~~~le~LE~~~Lls 109 (355) |++|+||+||++|++++||++.|+++|+.|+.+.+.++|+.++.+|+.+ +|.+++.++..++..+...++++++++||+ T Consensus 1 m~dPd~W~D~~~a~~l~kE~~~l~~~v~~~~~l~~~~~dl~~l~el~ee-ed~~~~~e~~~e~~~l~~~l~~le~~~Ll~ 79 (325) T PRK05589 1 MQEPNFWNDIKKAQEITSEEKYLKDKIDKYNSLRNRIEDIEVLKEMMEE-EDEESAKEIISEVKNIKEEIDNFKIETLLS 79 (325) T ss_pred CCCCHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 9893032099999999999999999999999999999999999998738-999999999999999999999999984579 Q ss_pred CCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCHHHEEECCEEE Q ss_conf 34576624899821778702778999999989999877531134442054545850134688505561000001012068 Q gi|254780753|r 110 GEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHR 189 (355) Q Consensus 110 ~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~ayg~Lk~E~GvHR 189 (355) +|+|.+||||||||||||+||||||+||||||+|||+++||++++++.++|+.||||+|++.|+|+||||+||+|+|||| T Consensus 80 ~~~D~~naileIrAGaGG~EA~dwA~~L~RMY~r~Ae~~gwk~evid~~~ge~gGiK~v~~~I~G~~ayg~Lk~E~GvHR 159 (325) T PRK05589 80 GEYDRNNAILTLHSGVGGTDAQDWTEMLLRMYTRWAEKKGYKVEIIDLLEGDEAGIKSVTLKITGEFAYGYLKAEKGIHR 159 (325) T ss_pred CCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHCCCCCCCCCCCEEEEEECCHHHHHHHCCCCCCE T ss_conf 98878985899965889779999999999999999987599501043176545781003899855125655421577511 Q ss_pred EEEECCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHH Q ss_conf 98730466665035668878850344222111234550369985388865544273100358874697477665555522 Q gi|254780753|r 190 LVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQ 269 (355) Q Consensus 190 v~Ri~~~~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~ptgi~v~~q~~rsq 269 (355) ||||||||++||||||||+|+|+|+++++++|+|+|+||+|||||||||||||||||+|||||||+||||+|+||+|||| T Consensus 160 vqRip~~es~gR~hTS~a~V~VlP~~~~~~~i~i~~~dl~id~~rssG~GGQ~VNkt~sAVRitH~PTGi~v~cq~eRSQ 239 (325) T PRK05589 160 LVRISPFNANGKRQTSFASVEVLPELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQ 239 (325) T ss_pred EEECCCCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCEEEEEEEECCCEEEEECCCCCH T ss_conf 46448877788548775788994576665447777356428988789998787776120489997058649996585648 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCEECCHHHHHCCCHHHHHHH Q ss_conf 46799999999999999999999999999874133233222101301585683311114725079778718977999999 Q gi|254780753|r 270 HKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKA 349 (355) Q Consensus 270 ~~Nk~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~g~~iRtY~~~p~~~v~DhR~~~~~~~~~~vl~G~ld~~i~a 349 (355) |+||++||++|++|||+++.+++.+.....++++.+++||+||||||||||+||||||||++++|+++||+|+||+||+| T Consensus 240 ~~Nk~~A~~~L~arL~~~~~~~~~~~~~~~~~~~~~~~~g~~iRtY~~~p~~~V~DhR~g~~~~~l~~vl~Gdld~fI~a 319 (325) T PRK05589 240 HSNKDTAMKMLKSKLVELKERAHKEKIEDLTGELKDMGWGSQIRSYVFHPYNLVKDHRTGVETSNVDSVMDGDIDIFITQ 319 (325) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHH T ss_conf 99999999999999999999999999999860645677424631027789983741166970277477658773999999 Q ss_pred HHHCC Q ss_conf 97225 Q gi|254780753|r 350 TLAIK 354 (355) Q Consensus 350 ~l~~~ 354 (355) ||+|- T Consensus 320 ~l~~~ 324 (325) T PRK05589 320 YLKGN 324 (325) T ss_pred HHHHC T ss_conf 99722 No 7 >PRK06746 peptide chain release factor 2; Provisional Probab=100.00 E-value=0 Score=938.55 Aligned_cols=325 Identities=51% Similarity=0.793 Sum_probs=321.5 Q ss_pred HHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 70866002589999999999889999999999999986399999863100000023456676555774015899887630 Q gi|254780753|r 30 TEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQETSDNLQRIKLEVEYKQFESLLS 109 (355) Q Consensus 30 lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D~el~eE~~~el~~l~~~le~LE~~~Lls 109 (355) |++|+||+||++|++++||++.|+++|+.|+.+...++|++++.+|+.+++|+++.+++..++..+.+.++++|+++||+ T Consensus 1 M~~p~fWdD~~~A~~i~kE~s~l~~~v~~~~~l~~~~~dl~~l~eL~~ee~D~el~ee~~~el~~l~~~i~~lE~~~lls 80 (326) T PRK06746 1 MMGAGFWDDQQGAQAVINEANALKDMVGKFRQLDETFENLEITHELLKEEYDEDLHEELESEVKGLIQEMNEYELQLLLS 80 (326) T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 98977786999999999999999999999999999999799999998548998999999999999999999999985449 Q ss_pred CCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCHHHEEECCEEE Q ss_conf 34576624899821778702778999999989999877531134442054545850134688505561000001012068 Q gi|254780753|r 110 GEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHR 189 (355) Q Consensus 110 ~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~ayg~Lk~E~GvHR 189 (355) ||+|.+||||||||||||+||||||+||||||+|||+++||++++++.++|++||||+|+|.|+|+||||+||+|+|||| T Consensus 81 ~~~D~~naileI~aGaGG~EA~~~a~~L~rMY~r~ae~~g~~~~~~~~~~~~~~Gik~~~~~i~G~~ayg~Lk~E~GvHR 160 (326) T PRK06746 81 DPYDKNNAILELHPGAGGTESQDWGSMLLRMYTRWAEKRGFKVETVDYLPGDEAGIKSVTLLIKGHNAYGYLKAEKGVHR 160 (326) T ss_pred CCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEE T ss_conf 98767884899978989779999999999999999997598579972057777886246799960454201012576213 Q ss_pred EEEECCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHH Q ss_conf 98730466665035668878850344222111234550369985388865544273100358874697477665555522 Q gi|254780753|r 190 LVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQ 269 (355) Q Consensus 190 v~Ri~~~~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~ptgi~v~~q~~rsq 269 (355) |||||||+++||||||||+|+|+|+++++++++|+|+||+|||||||||||||||||+|||||||+||||+|+||+|||| T Consensus 161 v~Ris~~~s~gr~hTS~a~V~V~P~~~~~~~i~i~~~dl~id~~rssG~GGQ~VN~t~SAVRitH~PTGi~v~cq~eRSQ 240 (326) T PRK06746 161 LVRISPFDSSGRRHTSFVSCEVVPEFNDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQ 240 (326) T ss_pred EEECCCCCCCCCEEEEEEEEEEECCCCCCCCCCCCHHHHCEEECCCCCCCCCCCCCCCCEEEEEEECCCEEEEECCCCCH T ss_conf 46458878888668777899997266754335688677143201179998787665030499998157669995685577 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCEECCHHHHHCCCHHHHHHH Q ss_conf 46799999999999999999999999999874133233222101301585683311114725079778718977999999 Q gi|254780753|r 270 HKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKA 349 (355) Q Consensus 270 ~~Nk~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~g~~iRtY~~~p~~~v~DhR~~~~~~~~~~vl~G~ld~~i~a 349 (355) |+||++||++|++|||+.++++++++....++.+..++||+||||||||||+||||||||++++|+++||+|+||+||+| T Consensus 241 ~~Nk~~Al~~L~arL~~~~~e~~~~~~~~~r~~~~~~~~g~~IRtY~~~p~~~V~DhR~~~~~~~~~~vl~G~ld~fI~a 320 (326) T PRK06746 241 IKNREHAMKMLKAKLYQKKLEEQQAELDEIRGEQKEIGWGSQIRSYVFHPYSLVKDHRTNTEVGNVQAVMDGEIDPFIDA 320 (326) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCHHHHHCCCHHHHHHH T ss_conf 99999999999999999999999999999874535785525631526789883662055975678478658873999999 Q ss_pred HHHCC Q ss_conf 97225 Q gi|254780753|r 350 TLAIK 354 (355) Q Consensus 350 ~l~~~ 354 (355) ||+|| T Consensus 321 ~l~~r 325 (326) T PRK06746 321 YLRSR 325 (326) T ss_pred HHHCC T ss_conf 99755 No 8 >PRK07342 peptide chain release factor 2; Provisional Probab=100.00 E-value=0 Score=915.88 Aligned_cols=311 Identities=70% Similarity=1.133 Sum_probs=306.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECC Q ss_conf 99999889999999999999986399999863100000023456676555774015899887630345766248998217 Q gi|254780753|r 45 LMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAG 124 (355) Q Consensus 45 l~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D~el~eE~~~el~~l~~~le~LE~~~Lls~e~D~~nailEI~AG 124 (355) |+||++.|+++|+.|+.+.+.++|+.+|.+|+.+++|+++.+++..++..+...++++++.+||++|+|.+||||||||| T Consensus 1 l~kE~~~L~~~v~~~~~l~~~l~d~~el~el~~ee~D~e~~~e~~~~l~~l~~~l~~lel~~Ll~~~~D~~~aileIraG 80 (322) T PRK07342 1 LMRERQQLEDSINGINHLEQTLNDNIELIAMGEEEGDKSIVEDAEKTIRDLKDEIDRRQIDALLSGEADANDTYLEVHAG 80 (322) T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECC T ss_conf 94318999999999999999987599999997569998999999999999999999999985469988888858999688 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCHHHEEECCEEEEEEECCCCCCCEEEE Q ss_conf 78702778999999989999877531134442054545850134688505561000001012068987304666650356 Q gi|254780753|r 125 AGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNSRRHT 204 (355) Q Consensus 125 aGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~ayg~Lk~E~GvHRv~Ri~~~~s~gR~hT 204 (355) |||+||||||+||||||+|||+++||++++++.++|+.||||+|+|.|+|+||||+||+|+||||||||||||++||||| T Consensus 81 aGG~EA~~fA~~L~rMY~r~ae~~g~k~evid~~~g~~~Gik~~~~~i~G~~ayg~Lk~E~GvHRv~Ri~~~es~gr~hT 160 (322) T PRK07342 81 AGGTESQDWASMLLRMYTRWAERQGRKVEVLEVHDGEEAGIKSATILVKGHNAYGWLKTESGVHRLVRISPYDSNARRHT 160 (322) T ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCEEEEEEECCCHHHHHHHCCCCCEEEECCCCCCCCCEEE T ss_conf 89579999999999999999987798789963167656771059999964767776420468530586598588886687 Q ss_pred EEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 68878850344222111234550369985388865544273100358874697477665555522467999999999999 Q gi|254780753|r 205 SFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKL 284 (355) Q Consensus 205 S~a~V~V~P~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~ptgi~v~~q~~rsq~~Nk~~a~~~l~~~l 284 (355) |||+|+|+|+++|+++|+|+|+||+|||||||||||||||||+|||||||+||||+|+||+|||||+||++||++|++|| T Consensus 161 S~asV~VlP~~~d~~~i~i~~~Dlridt~RssGaGGQ~VNkt~SAVRitH~PTGivV~cq~eRSQ~~Nk~~Am~~LrarL 240 (322) T PRK07342 161 SFASIWVYPVIDDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAKAWSMLRARL 240 (322) T ss_pred EEEEEEEEECCCCCCCCCCCHHHCCEEEEECCCCCCCCCCCCCCEEEEEEECCCEEEEECCCCCHHHHHHHHHHHHHHHH T ss_conf 66799998244664335698336127875679999877776242489997068669996685438999999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCEECCHHHHHCCCHHHHHHHHHHCCC Q ss_conf 99999999999999874133233222101301585683311114725079778718977999999972259 Q gi|254780753|r 285 YELELQKREEIANIGESSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLAIKK 355 (355) Q Consensus 285 ~~~~~~~~~~~~~~~~~~~~~~~~g~~iRtY~~~p~~~v~DhR~~~~~~~~~~vl~G~ld~~i~a~l~~~~ 355 (355) |++++++++++.+..++++.+++||+||||||||||+||||||||++++|+++||+|+||+||+|||+||. T Consensus 241 ~~~e~~k~~~~~~~~~~~~~~~~~g~qIRtY~f~P~~~V~DhRt~~~~~~~~~vldG~ld~fI~a~L~~r~ 311 (322) T PRK07342 241 YEEELKKREEATNAAEASKTDIGWGHQIRSYVLQPYQLVKDLRTGVESTNPQDVLDGDLDEFMEAALAHRI 311 (322) T ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCHHHHHCCCHHHHHHHHHHHHH T ss_conf 99999999999999874310365315522615479886760366978778478658873999999999886 No 9 >COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis] Probab=100.00 E-value=0 Score=898.47 Aligned_cols=337 Identities=38% Similarity=0.563 Sum_probs=320.1 Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH Q ss_conf 89999999999998708660025899999999998899999999999999863999998631000000234566765557 Q gi|254780753|r 16 WDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQETSDNLQRI 95 (355) Q Consensus 16 le~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D~el~eE~~~el~~l 95 (355) ++.+..|+.+|+..|++|++.+|++++++++||++.|+++++.|.+|++..+++.++.+|+.++.|++|.+++.+++..+ T Consensus 9 l~~~~~r~~el~~~L~~p~v~~d~~~~~~lske~a~l~~iv~~~~~~~~~~~~l~~a~~~l~~~~D~em~ema~~Ei~~~ 88 (363) T COG0216 9 LESLLERYEELEALLSDPEVISDPDEYRKLSKEYAELEPIVEKYREYKKAQEDLEDAKEMLAEEKDPEMREMAEEEIKEL 88 (363) T ss_pred HHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH T ss_conf 99999999999998539633369999999999998888999999999999999999999983568878999999999999 Q ss_pred HHHHHHH----HHHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEE Q ss_conf 7401589----988763034576624899821778702778999999989999877531134442054545850134688 Q gi|254780753|r 96 KLEVEYK----QFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLL 171 (355) Q Consensus 96 ~~~le~L----E~~~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~ 171 (355) +..+..| +..+||+||+|++||||||||||||+||++||++|||||.|||+.+||+++|++.++++.||||++++. T Consensus 89 ~~~~~~le~~L~~lLlPkDpnd~knvilEIRagtGGdEAalFagDLfrMY~rYAe~kgWk~ei~s~se~~~GG~kEii~~ 168 (363) T COG0216 89 EAKIEELEEELKILLLPKDPNDDKNIILEIRAGTGGDEAALFAGDLFRMYSRYAESKGWKVEILSASESELGGYKEIIAS 168 (363) T ss_pred HHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCEEEEEE T ss_conf 99899999999986289998877776899706888159999999999999999975798799941586667880489999 Q ss_pred EECCCCCHHHEEECCEEEEEEECCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEE Q ss_conf 50556100000101206898730466665035668878850344222111234550369985388865544273100358 Q gi|254780753|r 172 IKGPNAYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVR 251 (355) Q Consensus 172 I~G~~ayg~Lk~E~GvHRv~Ri~~~~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savr 251 (355) |+|.+||+.||||+|||||||||.|+|+||+|||+|+|+|||++++..+++|+|+||||||||||||||||||||+|||| T Consensus 169 I~G~gvys~LKfEsGvHRVQRVP~TEsqGRIHTStaTVaVlPE~ee~~ei~I~~~DlrIDt~RsSGaGGQhVNtTdSAVR 248 (363) T COG0216 169 ISGKGVYSRLKFESGVHRVQRVPATESQGRIHTSAATVAVLPEVEEVEEIEINPKDLRIDTFRSSGAGGQHVNTTDSAVR 248 (363) T ss_pred EECCCHHHHHHHCCCCCCEECCCCCCCCCCEEECCEEEEECCCCCCCCCCCCCHHHCEEEEEECCCCCCCCCCCCCHHHE T ss_conf 84365455410315765221066655788314000168862787753346447788347655437898887665131101 Q ss_pred EEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---CCCCEEEEECCCCCCCCCCCC Q ss_conf 87469747766555552246799999999999999999999999999874133233---222101301585683311114 Q gi|254780753|r 252 ITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIG---WGRQIRSYVLQPYQMVKDLRT 328 (355) Q Consensus 252 i~H~ptgi~v~~q~~rsq~~Nk~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~---~g~~iRtY~~~p~~~v~DhR~ 328 (355) |||+||||||+||+|||||+||++||++|+||||+.+.++++++.... ++.++| |+++|||||| ||+||||||+ T Consensus 249 iTHlPTGIvV~cQderSQ~kNk~kAmkvL~ARl~~~~~~~~~~~~~~~--RksqVGSGDRSErIRTYNf-PQnRVTDHRI 325 (363) T COG0216 249 ITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAERQKAQAEEASE--RKSQVGSGDRSERIRTYNF-PQNRVTDHRI 325 (363) T ss_pred EEECCCCEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHCCCCCHHHHHHCCCC-CCCCCCCHHC T ss_conf 431477369984462456651999999999999999999999999988--8873377742542103578-8776510103 Q ss_pred CCEECCHHHHHCC-CHHHHHHHHHHCCC Q ss_conf 7250797787189-77999999972259 Q gi|254780753|r 329 NIEKTSPSDVLDG-DLDDFMKATLAIKK 355 (355) Q Consensus 329 ~~~~~~~~~vl~G-~ld~~i~a~l~~~~ 355 (355) |+++++|+.||+| +||++|+|++.+.| T Consensus 326 ~lTl~kLd~vm~gG~LDeii~aLi~~~q 353 (363) T COG0216 326 NLTLYKLDEVMEGGKLDEIIDALIAEDQ 353 (363) T ss_pred CCCCCCHHHHHCCCCHHHHHHHHHHHHH T ss_conf 6610458888646857899999999999 No 10 >PRK08787 peptide chain release factor 2; Provisional Probab=100.00 E-value=0 Score=874.00 Aligned_cols=302 Identities=54% Similarity=0.874 Sum_probs=296.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCHHHH Q ss_conf 99999999999999863999998631000000234566765557740158998876303457662489982177870277 Q gi|254780753|r 52 LDNAISFIKEIQDRLCDNLILLELALEEDDCSILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAGAGGTESQ 131 (355) Q Consensus 52 L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D~el~eE~~~el~~l~~~le~LE~~~Lls~e~D~~nailEI~AGaGG~EA~ 131 (355) |++.|+.|+.+.+.++|+.+|++|+.+++|+++.+++..++..+...++++|+++||+||+|.+||||||||||||+||| T Consensus 2 Lek~v~~~~~l~~~l~D~~el~ela~~E~d~~~~~e~~~~l~~l~~~~~~le~~~ll~~~~D~~~aileI~aGaGG~EA~ 81 (313) T PRK08787 2 LEKTVIGIADVLSGLADAGELLDLAESEQDEDTALAVIADLDKYQAHVEKLEFQRMFSGQMDGANAFVDIQAGAGGTEAQ 81 (313) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCHHHH T ss_conf 58899999999976266999999988589989999999999999999999999863599775678489991689958999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCHHHEEECCEEEEEEECCCCCCCEEEEEEEEEEE Q ss_conf 89999999899998775311344420545458501346885055610000010120689873046666503566887885 Q gi|254780753|r 132 DWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWV 211 (355) Q Consensus 132 dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~ayg~Lk~E~GvHRv~Ri~~~~s~gR~hTS~a~V~V 211 (355) |||+||||||+|||+++||++++++.++|++||||+|+++|+|+||||+||+|+|||||||||||+++||||||||+|+| T Consensus 82 dwA~~L~rMY~r~ae~~g~k~ev~~~~~~~~~Giks~t~~i~G~~ayg~Lk~E~GvHRl~Ris~~~s~gr~hTS~asV~V 161 (313) T PRK08787 82 DWAEILLRMYLRWAESRGWKTELMEVSGGEVAGIKSATVRIEGEYAYGWLKTEIGVHRLVRKSPFDSDNRRHTSFTSVFV 161 (313) T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCEEEEEEEECCCCCCCCCCCCCCEEEEECCCCCCCCEEEEEEEEEEE T ss_conf 99999999999999876983799844776657803568999447756632145873204846995778727864237999 Q ss_pred CCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 03442221112345503699853888655442731003588746974776655555224679999999999999999999 Q gi|254780753|r 212 YPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQK 291 (355) Q Consensus 212 ~P~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~ptgi~v~~q~~rsq~~Nk~~a~~~l~~~l~~~~~~~ 291 (355) +|+++++++++|+|+||+|||||||||||||||||+|||||||+||||+|+||+|||||+||++||++|++|||++++++ T Consensus 162 ~P~~~~~~~i~i~~~Dlrid~~RssGaGGQ~VNkt~SAVRitH~PTGivV~cq~eRSQ~~Nk~~A~~~LkarL~~~e~~k 241 (313) T PRK08787 162 SPEVDDNIEIDINPADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAMKMLAAKLYELEVQK 241 (313) T ss_pred ECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCEEEEEEEEEECCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 56646544575775665899875799998987886005899984287799966855389999999999999999999999 Q ss_pred HHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCEECCHHHHHCCCHHHHHHHHHHCC Q ss_conf 999999987413323322210130158568331111472507977871897799999997225 Q gi|254780753|r 292 REEIANIGESSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLAIK 354 (355) Q Consensus 292 ~~~~~~~~~~~~~~~~~g~~iRtY~~~p~~~v~DhR~~~~~~~~~~vl~G~ld~~i~a~l~~~ 354 (355) ++++.+..++++.+++||+|||||||+ |+||||||||++++|+++||+|+||+||+|||+|. T Consensus 242 ~~~e~~~~~~~~~~~~~g~qIRtY~~~-~~rVkDhRtg~~~~~~~~vldG~ld~fI~a~L~~~ 303 (313) T PRK08787 242 RNAEKDALEATKSDIGWGSQIRNYVLD-QSRIKDLRTGIERSDTQKVLDGDLDEFVEASLKAG 303 (313) T ss_pred HHHHHHHHHHHHCCCCCCCCCCCCCCC-CCCCCCCCCCCEECCHHHHHCCCHHHHHHHHHHHH T ss_conf 999999987502247642673573179-98355206697767846764877399999999862 No 11 >KOG2726 consensus Probab=100.00 E-value=0 Score=709.37 Aligned_cols=321 Identities=38% Similarity=0.602 Sum_probs=278.5 Q ss_pred HHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH----HHHHHHHHHHH Q ss_conf 99999870866002589999999999889999999999999986399999863100000023456----67655577401 Q gi|254780753|r 24 SFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQET----SDNLQRIKLEV 99 (355) Q Consensus 24 ~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D~el~eE~----~~el~~l~~~l 99 (355) ...+..+.+-++|+|+.+ +...++.|...-..+.++.. ++.|..+ .+|++|..++ .....++...+ T Consensus 51 ~~~~~~~~~~~~~~~~~~---l~~~~~~l~~~~~~~~~~~~----lk~l~~~---~e~e~~~~~a~~E~~~~~~~i~~~~ 120 (386) T KOG2726 51 KVQEAASNDSDLWDDPAE---LDEVLNALSDRMKLVRELKS----LKSLIKE---GEDEDMDELAEEEAEEISKEIERSL 120 (386) T ss_pred HHHHHHHCHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH----HHHHHHH---CCCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 557876240245543488---99999999999999997650----9999862---0428899999999999999999999 Q ss_pred HHHHHHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCH Q ss_conf 58998876303457662489982177870277899999998999987753113444205454585013468850556100 Q gi|254780753|r 100 EYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYG 179 (355) Q Consensus 100 e~LE~~~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~ayg 179 (355) .+|+..+||++|+|.++|+|||+|||||+||++||.||++||.+||+++||++++++..+++.+|||+|+++|+|++||| T Consensus 121 ~~l~~~lLp~~~~D~~~~iiev~aGaGG~Ea~ift~el~~MY~~~a~~~~w~~~~l~~~~~~~~Gi~~At~~i~G~~ayg 200 (386) T KOG2726 121 HELELSLLPSDPYDAEACIIEVRAGAGGQEAQIFTMELVDMYQKYAERLGWKARVLEKAPGESGGIKSATLEIEGESAYG 200 (386) T ss_pred HHHHHHHCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEHHCCCCCCCCCEEEEEEECCCCHHH T ss_conf 99999726877465237589982788857999999999999999998606640451117753345001366763500122 Q ss_pred HHEEECCEEEEEEECCCCCCCEEEEEEEEEEECCCCC-CCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECCCH Q ss_conf 0001012068987304666650356688788503442-221112345503699853888655442731003588746974 Q gi|254780753|r 180 WLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVD-DSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTG 258 (355) Q Consensus 180 ~Lk~E~GvHRv~Ri~~~~s~gR~hTS~a~V~V~P~~~-~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~ptg 258 (355) +|+||+|||||||+|+|+++||+|||||+|+|+|.+. +++++.++++||+|++||||||||||||||+|||||+|+||| T Consensus 201 ~l~~E~GvHRv~r~p~~e~~gr~htstasV~ViP~~~~~~~~~~~~~~dl~i~~~R~~G~GGQhvNktdsaVrl~HiPTG 280 (386) T KOG2726 201 YLKFEAGVHRVQRVPSTETSGRRHTSTASVAVIPQPGRDEVDVEIDEKDLRIETFRASGPGGQHVNKTDSAVRLTHIPTG 280 (386) T ss_pred EEECCCCCCCEEECCCCCCCCCCCCCCCEEEEECCCCCCCCCEECCCHHEEEEECCCCCCCCCCCCCCCCCEEEEEECCC T ss_conf 15415764444666876655651136543798546788765611472033677323678875655433440589860674 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCCCCCEEEEECCCCCCCCCCCCCCEECCHHH Q ss_conf 776655555224679999999999999999999999999987413-3233222101301585683311114725079778 Q gi|254780753|r 259 VVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSK-TEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSD 337 (355) Q Consensus 259 i~v~~q~~rsq~~Nk~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~-~~~~~g~~iRtY~~~p~~~v~DhR~~~~~~~~~~ 337 (355) |+|+||+|||||+||++||++|++||++++..+...+....+..+ +...|+++|||||| ||+||||||+|++++++.+ T Consensus 281 Ivv~cq~eRSq~~Nr~~A~~~L~akL~~~~~~~~~~~~~~~r~~qv~s~~rsekiRTy~~-~q~rv~D~r~~~~~~d~~~ 359 (386) T KOG2726 281 IVVECQEERSQHKNRALALKRLRAKLAVIYREEKSEEEKKKRKAQVGSLKRSEKIRTYNF-KQDRVTDHRIGLESHDLES 359 (386) T ss_pred EEEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHCEEECCC-CCCCHHHHHHCCCCCCHHH T ss_conf 699961377688659999999999999998741217765200876255470112100225-7650233310332025588 Q ss_pred HHCCCHHHHHHHHHHCCC Q ss_conf 718977999999972259 Q gi|254780753|r 338 VLDGDLDDFMKATLAIKK 355 (355) Q Consensus 338 vl~G~ld~~i~a~l~~~~ 355 (355) ||+|+||+||.+++.|++ T Consensus 360 ~l~G~Ld~li~~~~~~~~ 377 (386) T KOG2726 360 FLDGNLDELIEALLSLRR 377 (386) T ss_pred HHHCCHHHHHHHHHHHHH T ss_conf 874248999999998766 No 12 >COG1186 PrfB Protein chain release factor B [Translation, ribosomal structure and biogenesis] Probab=100.00 E-value=0 Score=636.24 Aligned_cols=238 Identities=68% Similarity=1.044 Sum_probs=235.3 Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCHHHEEECCEEEEEEECCC Q ss_conf 48998217787027789999999899998775311344420545458501346885055610000010120689873046 Q gi|254780753|r 117 AYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISPY 196 (355) Q Consensus 117 ailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~ayg~Lk~E~GvHRv~Ri~~~ 196 (355) |||+|+||||||||||||.||||||+|||+++||++|++++++||++|+||++|.|+|+|||||||.|.||||+||+||| T Consensus 1 ~~l~i~~g~gg~e~~dw~~~l~rmy~r~a~~~g~~~e~l~~~~g~~~g~ks~~~~~~g~~a~g~~~~e~g~hrlvr~Spf 80 (239) T COG1186 1 AYLTIHAGAGGTEAQDWASMLLRMYTRWAERKGFKVEVLDTSDGEEAGIKSATLKIKGENAYGYLKTETGVHRLVRISPF 80 (239) T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCEEEEEEEECHHHHHHHHHHCCEEEEEEECCC T ss_conf 97997279885588999999999999999875985899860477304510379999646888888763254677850687 Q ss_pred CCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHH Q ss_conf 66650356688788503442221112345503699853888655442731003588746974776655555224679999 Q gi|254780753|r 197 DSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQA 276 (355) Q Consensus 197 ~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~ptgi~v~~q~~rsq~~Nk~~a 276 (355) ++++||||||++|.|+|+++++++++|+++||+|||||||||||||||||+|||||||+||||+|.||.+||||+|++.| T Consensus 81 ~~~~~R~tsf~~v~v~p~~~~~i~i~I~~~dl~idt~RASGaGGQhVNKt~SAVrlth~ptgivv~cq~eRSq~~n~~~a 160 (239) T COG1186 81 DSNGRRHTSFASVEVFPELDISIEIEIPDDDLRIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQHLNKALA 160 (239) T ss_pred CCCCCCCCCEEEEEECCCCCCCCCEECCCCCEEEEEEECCCCCCCCCCCCCCCEEEEECCCCCEECCHHHHHHHHHHHHH T ss_conf 75664155333310047777653100485216999887579998865552442899986777775188899999879999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCEECCHHHHHCCCHHHHHHHHHHCC Q ss_conf 999999999999999999999987413323322210130158568331111472507977871897799999997225 Q gi|254780753|r 277 WNMLRAKLYELELQKREEIANIGESSKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLAIK 354 (355) Q Consensus 277 ~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~g~~iRtY~~~p~~~v~DhR~~~~~~~~~~vl~G~ld~~i~a~l~~~ 354 (355) |.+|+++||..+.+++.++.+..++.+..++||+|||+|+|+|+..|+|||++++..|.+.||||++|.||+++|+|+ T Consensus 161 ~~~l~~kL~~~~~~~Rsqe~n~~~a~~k~i~wg~qirsyv~~p~~~vKd~Rt~~E~~~~~~v~dg~~~~~~~~~l~~~ 238 (239) T COG1186 161 RKMLKGKLYILAQEKRSQEKNRERALKKLIGWGNQIRSYVLDPYQPTKDLRTGVERRNKSKVLDGDKDGFIKAYLKWD 238 (239) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHEECCHHHHHHHHHHHHHHHHHHCC T ss_conf 998777999998898999998999876677887732126788643466532100123578764324778877554035 No 13 >TIGR03072 release_prfH putative peptide chain release factor H. Members of this protein family are bacterial proteins homologous to peptide chain release factors 1 (RF-1, product of the prfA gene), and 2 (RF-2, product of the prfB gene). The member from Escherichia coli K-12, designated prfH, appears to be a pseudogene. This class I release factor is always found as the downstream gene of a two-gene operon. Probab=100.00 E-value=0 Score=548.58 Aligned_cols=196 Identities=31% Similarity=0.434 Sum_probs=187.6 Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-CCEEEEEEEEECCCCCHHHEEECCEEEEEEECC Q ss_conf 4899821778702778999999989999877531134442054545-850134688505561000001012068987304 Q gi|254780753|r 117 AYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEE-AGIKSATLLIKGPNAYGWLKGEQGVHRLVRISP 195 (355) Q Consensus 117 ailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~-~GiK~~~~~I~G~~ayg~Lk~E~GvHRv~Ri~~ 195 (355) +||||+||+||+||++||+||||||+|||+++||++++++.++++. ||||+|++.|+|++||++|+.|.|+||+|+.|| T Consensus 1 vileIraG~GG~Ea~lfa~~L~rMY~r~a~~~gwk~evi~~~~~~~~Gg~ksv~~~i~G~~~~~~~~~~~G~~~~v~~sp 80 (200) T TIGR03072 1 ILLQLSSAQGPAECCLAVAKALERLTREAAARGVRVEVLEQEPGEVPGTLRSALVSLDGEAAAALADRWEGTLLWICPSP 80 (200) T ss_pred CEEEEECCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCEEEEEEEEEEECCEEEEEEECCCEEEEEECC T ss_conf 98999389986999999999999999999985998999857777779950899999995043078887756179996679 Q ss_pred CCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHH Q ss_conf 66665035668878850344222111234550369985388865544273100358874697477665555522467999 Q gi|254780753|r 196 YDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQ 275 (355) Q Consensus 196 ~~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~ptgi~v~~q~~rsq~~Nk~~ 275 (355) |...++|||||++|.++|+.. +|+|+||+|||||||||||||||||+|||||||+||||+|.||+|||||+||++ T Consensus 81 ~~~~~~r~t~~v~v~~~~~~~-----ei~~~Dlridt~RssGaGGQhVNkT~SAVRitH~PTGi~V~~q~eRSQ~~Nk~~ 155 (200) T TIGR03072 81 YRPHHRRKNWFIGVQRFSASE-----EATEDEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRL 155 (200) T ss_pred CCCCCCEEEEEEEEEECCCCC-----CCCCHHEEEEEEECCCCCCCCCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHH T ss_conf 767786799999977516557-----888123489998736899885077563499997488479997585547999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEC Q ss_conf 999999999999999999999998741332332221013015 Q gi|254780753|r 276 AWNMLRAKLYELELQKREEIANIGESSKTEIGWGRQIRSYVL 317 (355) Q Consensus 276 a~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~g~~iRtY~~ 317 (355) ||++|++||++++.+++++.....+..+..++||++|||||- T Consensus 156 Al~~L~arL~~~~~~~~~~~~~~r~~~~~~~~Rs~kIRTYng 197 (200) T TIGR03072 156 ATLLLAVRLADLQQEQAAALRAERRTAHHQIERGNPVRVFKG 197 (200) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEECC T ss_conf 999999999999999999999999866798725687251279 No 14 >PRK08179 prfH peptide chain release factor-like protein; Reviewed Probab=100.00 E-value=0 Score=533.50 Aligned_cols=199 Identities=29% Similarity=0.402 Sum_probs=188.9 Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC-EEEEEEEEECCCCCHHHEEECCEEEEEEECC Q ss_conf 489982177870277899999998999987753113444205454585-0134688505561000001012068987304 Q gi|254780753|r 117 AYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAG-IKSATLLIKGPNAYGWLKGEQGVHRLVRISP 195 (355) Q Consensus 117 ailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~G-iK~~~~~I~G~~ayg~Lk~E~GvHRv~Ri~~ 195 (355) +||||+||+||+||++||+||||||+|||+++||++++++.++++.+| ||++++.|+|++||++|+.|.|+|+.|+.|| T Consensus 2 vileI~aG~GG~Ea~~fa~~L~rmy~r~a~~~g~~~eil~~~~~~~~g~~ks~~~~i~G~~a~~~l~~~~G~v~~V~~sp 81 (204) T PRK08179 2 ILLQLSSAQGPAECCLAVAKALERLTKEAARQKVRVEVLETETGRYPDTLRSALVSLDGENAWALAESWCGTIQWICPSP 81 (204) T ss_pred EEEEEECCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCEEEEEEEEEECCHHHHHEEECCEEEEEEECC T ss_conf 89999089896999999999999999999885997999847887779835999999982465330000554379897679 Q ss_pred CCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHH Q ss_conf 66665035668878850344222111234550369985388865544273100358874697477665555522467999 Q gi|254780753|r 196 YDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQ 275 (355) Q Consensus 196 ~~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~ptgi~v~~q~~rsq~~Nk~~ 275 (355) |...++|||||++|.++|. +++++|+||+|||||||||||||||||+|||||||+||||+|.||+|||||+||++ T Consensus 82 ~~~~~~R~~~~v~v~~~~~-----~~~~~~~Dlridt~RssG~GGQhVNkT~SAVRitH~PTGi~V~~q~eRSQ~~Nk~~ 156 (204) T PRK08179 82 YRPHHGRKNWFVGIGRFSA-----DEQEQSDEIRYETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRL 156 (204) T ss_pred CCCCCCEEEEEEEEEEECC-----CCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHH T ss_conf 8887755999999876077-----66778633489999747998875046552499997588779997163358999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCC Q ss_conf 999999999999999999999998741332332221013015856 Q gi|254780753|r 276 AWNMLRAKLYELELQKREEIANIGESSKTEIGWGRQIRSYVLQPY 320 (355) Q Consensus 276 a~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~g~~iRtY~~~p~ 320 (355) ||++|++||++.+.+++.+.....+..+..++||++||||.+.+. T Consensus 157 A~~~L~arL~~~~~~~~~~~~~~r~~~~~~~~Rg~~IRtY~g~~f 201 (204) T PRK08179 157 ARLLIAWKLEQQQQEQSAALKSQRRMFHHQIERGNPRRVFTGMAF 201 (204) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEECCCCC T ss_conf 999999999999999999999999866686215788067618988 No 15 >pfam00472 RF-1 RF-1 domain. This domain is found in peptide chain release factors such as RF-1 and RF-2, and a number of smaller proteins of unknown function. This domain contains the peptidyl-tRNA hydrolase activity. The domain contains a highly conserved motif GGQ, where the glutamine is thought to coordinate the water that mediates the hydrolysis. Probab=100.00 E-value=3.3e-36 Score=279.47 Aligned_cols=111 Identities=55% Similarity=0.825 Sum_probs=103.5 Q ss_pred CCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 22211123455036998538886554427310035887469747766555552246799999999999999999999999 Q gi|254780753|r 216 DDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEI 295 (355) Q Consensus 216 ~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~ptgi~v~~q~~rsq~~Nk~~a~~~l~~~l~~~~~~~~~~~ 295 (355) ++.++|+|+++||+|+|||||||||||||||+|||||+|+||||+|.||++|||++||+.||++|+++|++++.+++... T Consensus 3 ~~~~~i~i~~~dl~~~~~RssGpGGQ~VNKt~saV~l~h~ptgi~v~~q~~RSq~~Nr~~A~~~L~~~l~~~~~~k~~~~ 82 (114) T pfam00472 3 DEEVEIEIPPSDLRIDTFRSSGPGGQNVNKTESAVRLTHLPTGIVVKCQEERSQHKNREKALERLKAKLYEAELQKKREE 82 (114) T ss_pred CCCCCEECCHHHEEEEEEECCCCCCCCCCHHHEEEEEEECCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 88511141879948998887898656547204158999847648999707788899999999999999999988899999 Q ss_pred HHHHHHHH-HHCCCCCCEEEEECCCCCCCCCCC Q ss_conf 99987413-323322210130158568331111 Q gi|254780753|r 296 ANIGESSK-TEIGWGRQIRSYVLQPYQMVKDLR 327 (355) Q Consensus 296 ~~~~~~~~-~~~~~g~~iRtY~~~p~~~v~DhR 327 (355) .+..++.+ ..++||++|||||| ||++||||| T Consensus 83 ~~~~r~~~~~~~~~~~kiRtY~~-~~~~Vkd~R 114 (114) T pfam00472 83 TKPTRKSQVRRGDRKEKIRTYNF-PQGRVKDHR 114 (114) T ss_pred HHHHHHHHCCCCCCCCCCCCEEC-CCCCCCCCC T ss_conf 87998600366855466001337-877767697 No 16 >pfam03462 PCRF PCRF domain. This domain is found in peptide chain release factors. Probab=100.00 E-value=4.2e-34 Score=264.46 Aligned_cols=110 Identities=46% Similarity=0.660 Sum_probs=104.1 Q ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH----HHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 6310000002345667655577401589988----763034576624899821778702778999999989999877531 Q gi|254780753|r 75 LALEEDDCSILQETSDNLQRIKLEVEYKQFE----SLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKF 150 (355) Q Consensus 75 La~ee~D~el~eE~~~el~~l~~~le~LE~~----~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gw 150 (355) ++.+++|+++.+++..++..+...++.++.+ ++|++|+|.+||||||||||||+||||||+||||||+|||+++|| T Consensus 2 l~~~e~D~e~~~~a~~e~~~l~~~l~~le~~l~~~llp~~~~D~~~~ilEI~aGaGG~EA~~fa~~L~rMY~r~ae~~gw 81 (115) T pfam03462 2 LLEEEDDPELRELAEEELEELEKELEELEKELLNLLLPLDPYDDKNAILEIRAGAGGTEAQLFAEDLLRMYQRYAERKGW 81 (115) T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 02107998999999999999999999999999997079997766786899936889689999999999999999997799 Q ss_pred HHHHHHCCCCCCCCEEEEEEEEECCCCCHHHEEE Q ss_conf 1344420545458501346885055610000010 Q gi|254780753|r 151 KTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGE 184 (355) Q Consensus 151 k~evi~~~~~e~~GiK~~~~~I~G~~ayg~Lk~E 184 (355) +++|+++++++.||||+|+|.|+|++|||+||+| T Consensus 82 ~~evl~~~~~e~gG~k~a~~~I~G~~aYg~Lk~E 115 (115) T pfam03462 82 KVEVLDYSEGEEGGIKEATLEIEGEGAYGYLKFE 115 (115) T ss_pred EEEEEECCCCCCCCEEEEEEEEECCCHHHHCCCC T ss_conf 8899755887777547999999863858753388 No 17 >PRK09256 hypothetical protein; Provisional Probab=99.64 E-value=1e-16 Score=140.16 Aligned_cols=68 Identities=34% Similarity=0.484 Sum_probs=62.9 Q ss_pred CCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEE------ECCCH------------------HHHHHHHHHHHHHHHH Q ss_conf 11123455036998538886554427310035887------46974------------------7766555552246799 Q gi|254780753|r 219 IEIEISESDCRIDTYRASGAGGQHVNTTDSAVRIT------HIPTG------------------VVVQCQQERSQHKNKA 274 (355) Q Consensus 219 ~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~------H~ptg------------------i~v~~q~~rsq~~Nk~ 274 (355) ..|.|+++||.+.+.|||||||||||||+|+|.|. |+|++ |+|.||+.|||++|++ T Consensus 6 ~~i~Ip~~el~~~f~RSsGPGGQnVNKv~Tkv~Lr~~~~~s~lp~~~k~rl~~~~~~ri~~~g~lvI~s~~~RsQ~~Nr~ 85 (138) T PRK09256 6 RRLVIPENELEWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRITKDGVIVIKAQEFRSQERNRE 85 (138) T ss_pred CCEEECHHHCEEEEEECCCCCCCCCCCEEEEEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHH T ss_conf 87378769907777775799876423000027889633014699999999999862651779739999745269999899 Q ss_pred HHHHHHHHHHHH Q ss_conf 999999999999 Q gi|254780753|r 275 QAWNMLRAKLYE 286 (355) Q Consensus 275 ~a~~~l~~~l~~ 286 (355) .|+..|...|.. T Consensus 86 ~a~~rL~~li~~ 97 (138) T PRK09256 86 DALERLAALIRA 97 (138) T ss_pred HHHHHHHHHHHH T ss_conf 999999999998 No 18 >KOG3429 consensus Probab=98.89 E-value=2.4e-09 Score=87.49 Aligned_cols=71 Identities=32% Similarity=0.445 Sum_probs=59.4 Q ss_pred CCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEEC-------C------------------CHHHHHHHHHHHHHHHH Q ss_conf 1112345503699853888655442731003588746-------9------------------74776655555224679 Q gi|254780753|r 219 IEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHI-------P------------------TGVVVQCQQERSQHKNK 273 (355) Q Consensus 219 ~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~-------p------------------tgi~v~~q~~rsq~~Nk 273 (355) ..-.|+-+-+.|.+.||||||||||||..|-|-++-. | .-|++.++..||||.|. T Consensus 33 ~~g~ipld~~~i~y~RSSGPGGQNVNKvNTKv~vrf~vs~a~Wipe~~R~~~~~~~~~rink~gelvI~Sd~TRsq~~Ni 112 (172) T KOG3429 33 FKGKIPLDQLEISYSRSSGPGGQNVNKVNTKVEVRFKVSNAEWIPEFLRNKLLTTEKNRINKDGELVIYSDKTRSQHKNI 112 (172) T ss_pred CCCCCCHHHEEEEEEECCCCCCCCCCCCCCEEEEEEECCHHHHCCHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHCCH T ss_conf 58878631647887405799876520214438999750136561199999999998876425764899415047766259 Q ss_pred HHHHHHHHHHHHHHHH Q ss_conf 9999999999999999 Q gi|254780753|r 274 AQAWNMLRAKLYELEL 289 (355) Q Consensus 274 ~~a~~~l~~~l~~~~~ 289 (355) +.|+..|++-+++.+. T Consensus 113 aDcleKlr~~I~~~~~ 128 (172) T KOG3429 113 ADCLEKLRDIIRAAEQ 128 (172) T ss_pred HHHHHHHHHHHHHHHC T ss_conf 9999999999999860 No 19 >PRK11147 ABC transporter ATPase component; Reviewed Probab=95.63 E-value=0.11 Score=32.89 Aligned_cols=21 Identities=19% Similarity=0.472 Sum_probs=12.2 Q ss_pred CCCCCCCCCEEEEEEECCCCCC Q ss_conf 2111234550369985388865 Q gi|254780753|r 218 SIEIEISESDCRIDTYRASGAG 239 (355) Q Consensus 218 ~~~i~i~~~dl~i~~~rssg~g 239 (355) ++++.|...| +|-..=.+|+| T Consensus 337 ~vsl~i~~Ge-~ialvG~NGsG 357 (632) T PRK11147 337 DFSAQVQRGD-KIALIGPNGCG 357 (632) T ss_pred EECCCCCCCC-EEEEECCCCCC T ss_conf 5333357887-79998898842 No 20 >PRK10636 putative ABC transporter ATP-binding protein; Provisional Probab=94.82 E-value=0.33 Score=29.38 Aligned_cols=21 Identities=29% Similarity=0.458 Sum_probs=12.2 Q ss_pred CCCCCCCCCEEEEEEECCCCCC Q ss_conf 2111234550369985388865 Q gi|254780753|r 218 SIEIEISESDCRIDTYRASGAG 239 (355) Q Consensus 218 ~~~i~i~~~dl~i~~~rssg~g 239 (355) ++++.|.+.|. |-..=.+|+| T Consensus 330 ~vsl~i~~Ger-iaIvG~NGsG 350 (638) T PRK10636 330 SIKLNLVPGSR-IGLLGRNGAG 350 (638) T ss_pred CCCCEECCCCE-EEEECCCCCC T ss_conf 77505637847-9997478713 No 21 >TIGR00019 prfA peptide chain release factor 1; InterPro: IPR004373 This family describes peptide chain release factor 1 (PrfA, RF-1), and excludes the related peptide chain release factor 2 (PrfB, RF-2). RF-1 helps recognise and terminate translation at UAA and UAG stop codons. The mitochondrial release factors are prfA-like, although not included above the trusted cut-off for this model. RF-1 does not have a translational frameshift.; GO: 0016149 translation release factor activity codon specific, 0006415 translational termination, 0005737 cytoplasm. Probab=92.81 E-value=0.53 Score=27.94 Aligned_cols=88 Identities=19% Similarity=0.185 Sum_probs=49.9 Q ss_pred HHHHHHHHHHCC---HHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 899999886549---89999999999998708660025899999999998899999999999999863999998631000 Q gi|254780753|r 4 SRQLNCLGGLFD---WDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEED 80 (355) Q Consensus 4 ~~rl~~l~~~fD---le~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~ 80 (355) ..+...|...|. +-.=..|+.++.++.+++ .......++|..+.+-++.-+.+...-.+.++|.|||++| T Consensus 14 ~~~~~eL~~~L~dp~v~~d~~k~~~~~ke~~~l------~~i~~~~~~~~~~~~~~~~A~~~l~E~~~D~El~elak~E- 86 (373) T TIGR00019 14 EERYEELEELLSDPEVISDQDKLRKLSKEYSQL------EEIVDKYEEYKKAQEDLKEAKELLEEKGDDKELRELAKEE- 86 (373) T ss_pred HHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCH------HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH- T ss_conf 999999998506863113679999998862065------6899999999999999999999997425886589999999- Q ss_pred CCHHHHHHHHHHHHHHHHHHHH Q ss_conf 0002345667655577401589 Q gi|254780753|r 81 DCSILQETSDNLQRIKLEVEYK 102 (355) Q Consensus 81 D~el~eE~~~el~~l~~~le~L 102 (355) ++++.....+|+..|.-| T Consensus 87 ----l~~l~~~~~~LE~~Lk~L 104 (373) T TIGR00019 87 ----LEELEKEIEELEEQLKIL 104 (373) T ss_pred ----HHHHHHHHHHHHHHHHHH T ss_conf ----999998888899999972 No 22 >KOG0995 consensus Probab=88.22 E-value=2.4 Score=23.21 Aligned_cols=69 Identities=7% Similarity=0.006 Sum_probs=53.5 Q ss_pred CHHHHHHHHH--HHCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 5689999988--6549899999999999987086600258999999999988999999999999998639999 Q gi|254780753|r 2 KLSRQLNCLG--GLFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLIL 72 (355) Q Consensus 2 EL~~rl~~l~--~~fDle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL 72 (355) |++.+|..+- -.++++.++....+|+.+++ ..-.+|.+-+.+-+.++.|+.-++.|..+.+...+-... T Consensus 221 Elk~~l~~~~~~i~~~ie~l~~~n~~l~e~i~--e~ek~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~ 291 (581) T KOG0995 221 ELKHRLEKYFTSIANEIEDLKKTNRELEEMIN--EREKDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQH 291 (581) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99999999998889999989988999999999--986375357789999999876899999999988764288 No 23 >PRK05431 seryl-tRNA synthetase; Provisional Probab=80.27 E-value=5.2 Score=20.82 Aligned_cols=89 Identities=13% Similarity=0.130 Sum_probs=49.8 Q ss_pred HCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCHHH---HHH Q ss_conf 5498999999999999870866002589999999999889999999999999986399999863100-000023---456 Q gi|254780753|r 13 LFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEE-DDCSIL---QET 88 (355) Q Consensus 13 ~fDle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee-~D~el~---eE~ 88 (355) |+|+.-++.-.+.+...+..-++-.|.++..++-.+...+...++.+..-++.+.. ++-.+.+.. +..++. .++ T Consensus 1 MLDik~IReNpe~v~~~lkkR~~~~~id~il~lD~~rr~l~~e~e~Lr~erN~iSK--~Ig~~kk~g~~~~~l~~~~~~l 78 (422) T PRK05431 1 MLDIKLIRENPDAVKEKLAKRGDPLDVDELLELDEERRELQTETEELQAERNALSK--EIGQAKAKGEDAEELIAEVKEL 78 (422) T ss_pred CCCHHHHHHCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHCCCCHHHHHHHHHHH T ss_conf 98878987499999999986598451999999999999999999999999999999--9999874897799999999999 Q ss_pred HHHHHHHHHHHHHHH Q ss_conf 676555774015899 Q gi|254780753|r 89 SDNLQRIKLEVEYKQ 103 (355) Q Consensus 89 ~~el~~l~~~le~LE 103 (355) .+++..++..+.+++ T Consensus 79 k~~i~~le~~~~~~~ 93 (422) T PRK05431 79 KEEIKALEAELKELE 93 (422) T ss_pred HHHHHHHHHHHHHHH T ss_conf 999999999999999 No 24 >TIGR03545 conserved hypothetical protein TIGR03545. This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair. Probab=77.76 E-value=6.2 Score=20.30 Aligned_cols=20 Identities=15% Similarity=0.268 Sum_probs=15.4 Q ss_pred CHHHHHHHHHHHHHHHHHHH Q ss_conf 70277899999998999987 Q gi|254780753|r 127 GTESQDWANMLLRMYTRWAE 146 (355) Q Consensus 127 G~EA~dwA~~L~rMY~r~ae 146 (355) |++++.|++.++.-|.+..- T Consensus 287 g~~i~~~~~~~~~~y~~~~p 306 (554) T TIGR03545 287 GEEIRRYLQTAYDYYDQAEP 306 (554) T ss_pred HHHHHHHHHHHHHHHHHHHH T ss_conf 69999999999999998766 No 25 >COG0249 MutS Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair] Probab=75.94 E-value=6.9 Score=19.96 Aligned_cols=153 Identities=18% Similarity=0.212 Sum_probs=87.9 Q ss_pred HHCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 65498999999999999870866002589999999999889999999----------99999998639999986310000 Q gi|254780753|r 12 GLFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISF----------IKEIQDRLCDNLILLELALEEDD 81 (355) Q Consensus 12 ~~fDle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~----------~~~l~~~l~Dl~eL~ELa~ee~D 81 (355) -..|.+++..|++-++....++.+.. ..+..++....++.++.. +-.+...+.-+.++..+...... T Consensus 308 PL~~~~~I~~Rld~Ve~l~~~~~l~~---~L~~~L~~v~DleRl~~Rl~~~~~~~rDl~~l~~~l~~~~~i~~~l~~~~~ 384 (843) T COG0249 308 PLLDKEEIEERLDAVEELKDNPELRE---KLREMLKKVPDLERLLSRLSLGRASPRDLLRLRDSLEKIPEIFKLLSSLKS 384 (843) T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 03589999999999999986568999---999998507679999999973799865699999999988999999852543 Q ss_pred CHHHHHHHHHHHHHH---HHHHHHHHHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 002345667655577---40158998876303457662489982177870277899999998999987753113444205 Q gi|254780753|r 82 CSILQETSDNLQRIK---LEVEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIH 158 (355) Q Consensus 82 ~el~eE~~~el~~l~---~~le~LE~~~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~ 158 (355) ..........+..+. +....++....+..|..-++ --|+.| |-.+|..+=.-+-..+.|-.++... T Consensus 385 ~~~l~~~~~~i~~~~~~~e~~~ll~~~i~~~~~~~~~~--~ii~~g--------~~~eLd~lr~~~~~~~~~i~~le~~- 453 (843) T COG0249 385 ESDLLLLLEDIESLDYLAELLELLETAINEDPPLAVRD--GIIKEG--------YNIELDELRDLLNNAKEWIAKLELE- 453 (843) T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCHHHCCH--HHHHCC--------HHHHHHHHHHHHHHHHHHHHHHHHH- T ss_conf 02356776444313407999999998721166233015--577511--------0399999999998889999999998- Q ss_pred CCCCCCEEEEEEEEECCCCCHH Q ss_conf 4545850134688505561000 Q gi|254780753|r 159 DGEEAGIKSATLLIKGPNAYGW 180 (355) Q Consensus 159 ~~e~~GiK~~~~~I~G~~ayg~ 180 (355) +-+.-||++ ++|.-..+||| T Consensus 454 ~r~~~gi~s--lki~~n~v~Gy 473 (843) T COG0249 454 ERERTGIKS--LKIKYNKVYGY 473 (843) T ss_pred HHHHCCCCH--HHHHHHCCCEE T ss_conf 888649721--21122034605 No 26 >PRK11546 zraP zinc resistance protein; Provisional Probab=73.97 E-value=7.7 Score=19.62 Aligned_cols=37 Identities=11% Similarity=0.087 Sum_probs=15.9 Q ss_pred HHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999999999998708660025899999999998899999 Q gi|254780753|r 18 NAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAI 56 (355) Q Consensus 18 ~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV 56 (355) ++..+-.||++.++.++- |.+++.+++||.+.|+..+ T Consensus 65 qL~aKr~ElNALL~at~P--D~~kI~avakEis~LR~kl 101 (139) T PRK11546 65 QLVSKRYEYNALLTANPP--DSSKINAVAKEMETLRQSL 101 (139) T ss_pred HHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHHHHHH T ss_conf 999989999999806997--7999999999999999999 No 27 >pfam07303 Occludin_ELL Occludin homology domain. This domain represents a conserved region approximately 100 residues long within eukaryotic occludin proteins and the RNA polymerase II elongation factor ELL. Occludin is an integral membrane protein that localizes to tight junctions, while ELL is an elongation factor that can increase the catalytic rate of RNA polymerase II transcription by suppressing transient pausing by polymerase at multiple sites along the DNA. This shared domain is thought to mediate protein interactions. Probab=72.11 E-value=8.5 Score=19.32 Aligned_cols=16 Identities=25% Similarity=0.335 Sum_probs=7.8 Q ss_pred HHHHHHHHHHHHHHHH Q ss_conf 8999999999999870 Q gi|254780753|r 16 WDNAVQRLSFLNTKTE 31 (355) Q Consensus 16 le~~~~rl~eLE~~ls 31 (355) ++.+..+|.+|+.+|. T Consensus 31 v~~v~~kf~~L~~~l~ 46 (101) T pfam07303 31 VDAINKRLQQLDAELD 46 (101) T ss_pred HHHHHHHHHHHHHHHH T ss_conf 9999999999999997 No 28 >KOG1086 consensus Probab=69.35 E-value=9.6 Score=18.91 Aligned_cols=28 Identities=7% Similarity=0.139 Sum_probs=19.5 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 5899999999998899999999999999 Q gi|254780753|r 38 NVIEAKMLMRERQHLDNAISFIKEIQDR 65 (355) Q Consensus 38 D~~kAqkl~KE~s~L~~iV~~~~~l~~~ 65 (355) |..+.++++|+.+.|+.+.+..+.+... T Consensus 204 ee~k~eKiskR~~aleev~n~vk~l~em 231 (594) T KOG1086 204 EEHKLEKISKRVKALEEVNNNVKLLEEM 231 (594) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 8999999999998999999899999999 No 29 >TIGR01011 rpsB_bact ribosomal protein S2; InterPro: IPR005706 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . This family describes the bacterial, mitochondrial and chloroplast forms of ribosomal protein S2.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015935 small ribosomal subunit. Probab=68.74 E-value=9.2 Score=19.08 Aligned_cols=60 Identities=20% Similarity=0.212 Sum_probs=28.2 Q ss_pred HHHHCC----HHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 886549----899999999999987086600258999999999988999999999999998639999986 Q gi|254780753|r 10 LGGLFD----WDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLEL 75 (355) Q Consensus 10 l~~~fD----le~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~EL 75 (355) |||||= +-+-.+||++||+...+..|=.=+ | ||...|....+.++.+..-+.|++.|=.+ T Consensus 97 LGGMLTNf~TirkSi~kL~~lE~~~~~g~~~~Lt----K--KE~~~L~Re~~KL~k~LgGIk~M~~lPd~ 160 (227) T TIGR01011 97 LGGMLTNFKTIRKSIKKLKKLEKMEEDGTFDVLT----K--KEILMLSREKEKLEKNLGGIKDMKKLPDL 160 (227) T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCC----C--CCHHHHHHHHHHHHHHHHHHHHHHCCCCE T ss_conf 4640024799999999999999877613312477----0--00776789999986553002545316970 No 30 >PRK05729 valS valyl-tRNA synthetase; Reviewed Probab=65.26 E-value=12 Score=18.36 Aligned_cols=10 Identities=30% Similarity=0.999 Sum_probs=5.6 Q ss_pred CCCCCCEEEE Q ss_conf 3322210130 Q gi|254780753|r 306 IGWGRQIRSY 315 (355) Q Consensus 306 ~~~g~~iRtY 315 (355) .-||.+|=-| T Consensus 406 r~WG~piPvw 415 (877) T PRK05729 406 LWWGHRIPAW 415 (877) T ss_pred CCCCCCEEEE T ss_conf 4468842589 No 31 >pfam08399 VWA_N VWA N-terminal. This domain is found at the N-terminus of proteins containing von Willebrand factor type A (VWA, pfam00092) and Cache (pfam02743) domains. It has been found in vertebrates, Drosophila and C. elegans but has not yet been identified in other eukaryotes. It is probably involved in the function of some voltage-dependent calcium channel subunits. Probab=65.02 E-value=2.9 Score=22.69 Aligned_cols=19 Identities=42% Similarity=0.525 Sum_probs=16.1 Q ss_pred CCCCCCCCCEEEEEEECCCHHH Q ss_conf 5544273100358874697477 Q gi|254780753|r 239 GGQHVNTTDSAVRITHIPTGVV 260 (355) Q Consensus 239 ggq~vn~t~savri~H~ptgi~ 260 (355) -+..||++-||| |+||+|- T Consensus 55 ~~~~Vn~~~S~V---hiPt~Vy 73 (123) T pfam08399 55 NNLPVNTSVSSV---QLPTNVY 73 (123) T ss_pred CCCCCCCEEEEE---ECCCCCC T ss_conf 786110634127---8576403 No 32 >PRK05399 DNA mismatch repair protein; Provisional Probab=64.73 E-value=12 Score=18.30 Aligned_cols=151 Identities=18% Similarity=0.194 Sum_probs=73.1 Q ss_pred HCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHCCCC Q ss_conf 54989999999999998708660025899999999998899999999----------99999986399999863100000 Q gi|254780753|r 13 LFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFI----------KEIQDRLCDNLILLELALEEDDC 82 (355) Q Consensus 13 ~fDle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~----------~~l~~~l~Dl~eL~ELa~ee~D~ 82 (355) ..|++.+..|++-++..+.++.+.+ ..+..++...+++.++..+ -.+...+.-+..+.++.. +. T Consensus 310 L~d~~~I~~RldaVe~l~~~~~~~~---~lr~~Lk~i~DlERllsRi~~~~~~prDl~~L~~sL~~~~~i~~~l~---~~ 383 (848) T PRK05399 310 LRDREAINARLDAVEELLDNPLLRE---DLRELLKGVYDLERILSRVALGRANPRDLAALRDSLEALPELKELLE---ES 383 (848) T ss_pred CCCHHHHHHHHHHHHHHHHCHHHHH---HHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH---CC T ss_conf 6277899999999999974979999---99999854898899999998089788999999999999999999984---67 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 02345667655577401589988763034576624899821778702778999999989999877531134442054545 Q gi|254780753|r 83 SILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEE 162 (355) Q Consensus 83 el~eE~~~el~~l~~~le~LE~~~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~ 162 (355) .++..+...+..+....+.++.......|..-++-- -|++|.- .+|-..=.-..+.+.|-.++. ..+-+. T Consensus 384 ~~l~~l~~~l~~~~~l~~~i~~~i~~~~p~~~~dg~-~Ik~G~d--------~eLDelr~~~~~~~~~l~~le-~~er~~ 453 (848) T PRK05399 384 PLLAELLAQLDPLPELADLLERAIVEEPPLLIRDGG-VIADGYD--------AELDELRALSDNGKDWLAELE-ARERER 453 (848) T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHCCCCC-EECCCCC--------HHHHHHHHHHHHHHHHHHHHH-HHHHHH T ss_conf 789999885314899999999987105575543688-6358879--------889999999986899999999-999987 Q ss_pred CCEEEEEEEEECCCCCHHH Q ss_conf 8501346885055610000 Q gi|254780753|r 163 AGIKSATLLIKGPNAYGWL 181 (355) Q Consensus 163 ~GiK~~~~~I~G~~ayg~L 181 (355) -||++ ++|.-..++||+ T Consensus 454 tgI~s--LKi~yn~v~GY~ 470 (848) T PRK05399 454 TGISS--LKVGYNKVFGYY 470 (848) T ss_pred CCCCC--CCHHHCCCCEEE T ss_conf 08651--101114752289 No 33 >pfam10458 Val_tRNA-synt_C Valyl tRNA synthetase tRNA binding arm. This domain is found at the C-terminus of Valyl tRNA synthetases. Probab=63.67 E-value=12 Score=18.16 Aligned_cols=53 Identities=13% Similarity=0.273 Sum_probs=37.7 Q ss_pred CHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 989999999999998708660025899999999998899999999999999863 Q gi|254780753|r 15 DWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCD 68 (355) Q Consensus 15 Dle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~D 68 (355) +++.+...+..++..|+.|+|.+.-.. .-+-++...+...-..+..+...+.. T Consensus 12 el~kl~~~i~~~~~kL~N~~Fv~kAP~-~VV~~er~kl~~~~~~~~~l~~~L~~ 64 (66) T pfam10458 12 ELAKLQKEIERLQKKLSNPGFVAKAPA-EVVEEEKAKLAEYEEQLEKLKERLSQ 64 (66) T ss_pred HHHHHHHHHHHHHHHHCCHHHHHHCCH-HHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999987787677770989-99999999999999999999999987 No 34 >KOG1697 consensus Probab=57.35 E-value=10 Score=18.76 Aligned_cols=114 Identities=14% Similarity=0.037 Sum_probs=54.0 Q ss_pred HHHHHHHHHHCCCCCCCCEEEEEECCCCCHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCC Q ss_conf 15899887630345766248998217787027789--9999998999987753113444205454585013468850556 Q gi|254780753|r 99 VEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDW--ANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPN 176 (355) Q Consensus 99 le~LE~~~Lls~e~D~~nailEI~AGaGG~EA~dw--A~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~ 176 (355) +++...-+.|++-+|.+.-..- ++++.|-.-| ..|++-|-..-+....-..+-+-.++.... +..--. T Consensus 66 id~ai~~l~psg~~d~~arp~m---~~~~~et~~~~ll~di~~~~~~~~~~~~~s~~~l~s~p~~~~-------e~~f~~ 135 (275) T KOG1697 66 IDRAISYLFPSGLFDPNARPVM---AFQFDETKYYQLLHDIGVLTNKLAKLYSISIEHLLSSPYSAI-------EEKFLK 135 (275) T ss_pred HHHHHHHHCCCCCCCCCCCCCC---CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH-------HHHHHH T ss_conf 6878887463123573346420---136785048999999876654566531067887761714577-------799999 Q ss_pred CCHHHEEECCEEEEEEECCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEE Q ss_conf 10000010120689873046666503566887885034422211123455036 Q gi|254780753|r 177 AYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCR 229 (355) Q Consensus 177 ayg~Lk~E~GvHRv~Ri~~~~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~ 229 (355) .|-...-|.|---+. ....|||.||.|.|.|.|--. .|.||-.|+. T Consensus 136 ~~~k~~~~~g~~~~~----~~~~g~rK~a~A~V~v~~GtG---k~~vNg~~~~ 181 (275) T KOG1697 136 RFRKPLDESGKPEVR----IIAVGRRKCARATVKVQPGTG---KFDVNGRDLD 181 (275) T ss_pred HHHHCCCCCCCCCEE----EEECCCEECCEEEEEEECCCE---EEEECCHHHH T ss_conf 987302546887514----661254000113799956840---4876560277 No 35 >KOG0994 consensus Probab=55.11 E-value=17 Score=17.17 Aligned_cols=97 Identities=14% Similarity=0.126 Sum_probs=50.4 Q ss_pred CHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH Q ss_conf 98999999999999870866002589999999999889999999----99999998639999986310000002345667 Q gi|254780753|r 15 DWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISF----IKEIQDRLCDNLILLELALEEDDCSILQETSD 90 (355) Q Consensus 15 Dle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~----~~~l~~~l~Dl~eL~ELa~ee~D~el~eE~~~ 90 (355) ++..+.+++.++...+++|++-. ....++.+....|++.|.. +-+++..+.|+.....++.. | ++-+.. T Consensus 1202 ~f~~me~kl~~ir~il~~~svs~--~~i~~l~~~~~~lr~~l~~~~e~L~~~E~~Lsdi~~~~~~a~~--~---LesLq~ 1274 (1758) T KOG0994 1202 RFLDMEEKLEEIRAILSAPSVSA--EDIAQLASATESLRRQLQALTEDLPQEEETLSDITNSLPLAGK--D---LESLQR 1274 (1758) T ss_pred HHHHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH--H---HHHHHH T ss_conf 79999999999999864898547--8899999999999999999875415666436665421650455--6---899998 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCEE Q ss_conf 6555774015899887630345766248 Q gi|254780753|r 91 NLQRIKLEVEYKQFESLLSGEADSNDAY 118 (355) Q Consensus 91 el~~l~~~le~LE~~~Lls~e~D~~nai 118 (355) +...+.....+|+-.+-+-.+.|-..|+ T Consensus 1275 ~~~~l~~~~keL~e~~~~ik~sdi~GA~ 1302 (1758) T KOG0994 1275 EFNGLLTTYKELREQLEKIKESDILGAF 1302 (1758) T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCHHHH T ss_conf 9999999999999998876316703578 No 36 >TIGR02168 SMC_prok_B chromosome segregation protein SMC; InterPro: IPR011890 The SMC (structural maintenance of chromosomes) family of proteins, exist in virtually all organisms including both bacteria and archaea. The SMC proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms and form three types of heterodimer (SMC1SMC3, SMC2SMC4, SMC5SMC6), which are core components of large multiprotein complexes. The best known complexes are cohesin, which is responsible for sister-chromatid cohesion, and condensin, which is required for full chromosome condensation in mitosis. SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and share a five-domain structure, with globular N- and C-terminal (IPR003395 from INTERPRO) domains separated by a long (circa 100 nm or 900 residues) coiled coil segment in the centre of which is a globular ''hinge'' domain, characterised by a set of four highly conserved glycine residues that are typical of flexible regions in a protein. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif (XXXXD, where X is any hydrophobic residue), and a LSGG motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases . All SMC proteins appear to form dimers, either forming homodimers with themselves, as in the case of prokaryotic SMC proteins, or heterodimers between different but related SMC proteins. The dimers are arranged in an antiparallel alignment. This orientation brings the N- and C-terminal globular domains (from either different or identical protamers) together, which unites an ATP binding site (Walker A motif) within the N-terminal domain with a Walker B motif (DA box) within the C-terminal domain, to form a potentially functional ATPase. Protein interaction and microscopy data suggest that SMC dimers form a ring-like structure which might embrace DNA molecules. Non-SMC subunits associate with the SMC amino- and carboxy-terminal domains. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. SMCs share not only sequence similarity but also structural similarity with ABC proteins. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression . The smc gene is often associated with scpB (IPR005234 from INTERPRO) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle , , .; GO: 0005515 protein binding, 0005524 ATP binding, 0005694 chromosome. Probab=54.77 E-value=17 Score=17.13 Aligned_cols=22 Identities=23% Similarity=0.258 Sum_probs=9.9 Q ss_pred HHHHHHHHH-HHHHHHHHHHHHH Q ss_conf 522467999-9999999999999 Q gi|254780753|r 267 RSQHKNKAQ-AWNMLRAKLYELE 288 (355) Q Consensus 267 rsq~~Nk~~-a~~~l~~~l~~~~ 288 (355) .+...++.. .+.-|..++-.++ T Consensus 675 ~~~~l~r~~~ei~~l~~~~~~~~ 697 (1191) T TIGR02168 675 NSSILERRRIEIEELEEEIEELE 697 (1191) T ss_pred HHHHHHHHHHHHHHHHHHHHHHH T ss_conf 12346888999999999999999 No 37 >COG3378 Phage associated DNA primase [General function prediction only] Probab=54.66 E-value=9.9 Score=18.83 Aligned_cols=10 Identities=20% Similarity=0.212 Sum_probs=3.5 Q ss_pred HHEEECCEEE Q ss_conf 0001012068 Q gi|254780753|r 180 WLKGEQGVHR 189 (355) Q Consensus 180 ~Lk~E~GvHR 189 (355) +|.-|++|-. T Consensus 295 ~l~~~~~lK~ 304 (517) T COG3378 295 RLDDEGKLKA 304 (517) T ss_pred CCCCCCCEEE T ss_conf 0035566366 No 38 >COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only] Probab=53.89 E-value=18 Score=17.03 Aligned_cols=12 Identities=25% Similarity=0.443 Sum_probs=5.6 Q ss_pred HHHHCCCCCCCC Q ss_conf 444205454585 Q gi|254780753|r 153 EALEIHDGEEAG 164 (355) Q Consensus 153 evi~~~~~e~~G 164 (355) +.++.+|-+.-| T Consensus 221 et~~l~p~die~ 232 (290) T COG4026 221 ETLNLAPKDIEG 232 (290) T ss_pred HHHCCCCHHCCC T ss_conf 884568232155 No 39 >PRK07997 consensus Probab=53.39 E-value=18 Score=16.98 Aligned_cols=86 Identities=14% Similarity=0.116 Sum_probs=48.5 Q ss_pred HHHHHHHHHHCC--------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHH---- Q ss_conf 999999987086--------6002589999999999889999999999999-----------98639999986310---- Q gi|254780753|r 22 RLSFLNTKTEDP--------HLWQNVIEAKMLMRERQHLDNAISFIKEIQD-----------RLCDNLILLELALE---- 78 (355) Q Consensus 22 rl~eLE~~lsdp--------~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~-----------~l~Dl~eL~ELa~e---- 78 (355) ++-.+-..+.|+ .+ -++-|.++.+++.+|+.+++..+++.. .+.+-++..-|.++ T Consensus 175 qv~D~laL~GDsSDNIPGVpGI--G~KTA~kLL~eyGsLE~I~~n~d~i~g~~~r~~~kl~e~L~~~ke~A~LSkeLvTI 252 (928) T PRK07997 175 LIIDFLALMGDSSDNIPGVPGV--GEKTAQALLQGLGGLDTLYAEPEKIAGLSFRGAKTMAAKLEQNKEVAYLSYQLATI 252 (928) T ss_pred HHHHHHHHCCCCCCCCCCCCCC--CHHHHHHHHHHHCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 8899999728865688999975--48999999998277999998098604542211778999999729999999987465 Q ss_pred CCCCHH------HHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 000002------3456676555774015899887630 Q gi|254780753|r 79 EDDCSI------LQETSDNLQRIKLEVEYKQFESLLS 109 (355) Q Consensus 79 e~D~el------~eE~~~el~~l~~~le~LE~~~Lls 109 (355) ..|..+ +.--......+...++++|+..|++ T Consensus 253 ~~Dvpl~~~l~~l~~~~~d~e~L~~lf~elEFksll~ 289 (928) T PRK07997 253 KTDVELELTCEQLEVQQPDAEELLGLFKKYEFKRWTA 289 (928) T ss_pred HCCCCCCCCHHHHCCCCCCHHHHHHHHHHCCCHHHHH T ss_conf 1366778998994548999999999999808778999 No 40 >KOG3274 consensus Probab=53.38 E-value=14 Score=17.82 Aligned_cols=105 Identities=20% Similarity=0.255 Sum_probs=63.8 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCE-EEEEEEEECCCCCHHHEEECCEEEEEEECCCCCCCEEEEEEEEEEECCCCC Q ss_conf 9989999877531134442054545850-134688505561000001012068987304666650356688788503442 Q gi|254780753|r 138 LRMYTRWAEKRKFKTEALEIHDGEEAGI-KSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVD 216 (355) Q Consensus 138 ~rMY~r~ae~~gwk~evi~~~~~e~~Gi-K~~~~~I~G~~ayg~Lk~E~GvHRv~Ri~~~~s~gR~hTS~a~V~V~P~~~ 216 (355) +|=|..=+.-+.=.+..|+ ..|..-+ =+|.+.+.-+.++.+|-+|-|+|- +||-=++..|..-|+|---.|.|+- T Consensus 76 l~eYaltsAl~DsRF~PIs--r~ELp~L~CsvslL~nFE~i~d~lDWevG~HG-IrieF~~e~g~krsATyLPeVa~EQ- 151 (210) T KOG3274 76 LREYALTSALKDSRFPPIS--REELPSLQCSVSLLTNFEDIFDYLDWEVGVHG-IRIEFTNETGTKRSATYLPEVAAEQ- 151 (210) T ss_pred HHHHHHHHHHHCCCCCCCC--HHHCCCEEEEEEEECCCHHCCCCCCEEECCCE-EEEEEECCCCCEEEEEECCCCHHHC- T ss_conf 7888888876204689877--32417438777753364120353220100332-8999973789584212356321121- Q ss_pred CCCCCCCCCCEEEEEE----ECCCCCCCCCCCCCCEEEEEEEC Q ss_conf 2211123455036998----53888655442731003588746 Q gi|254780753|r 217 DSIEIEISESDCRIDT----YRASGAGGQHVNTTDSAVRITHI 255 (355) Q Consensus 217 ~~~~i~i~~~dl~i~~----~rssg~ggq~vn~t~savri~H~ 255 (355) . .+. |+| -|-+|-+|-=-+-..+++++|-- T Consensus 152 ---g--Wd~----~eTidsLirKaGY~g~It~~~r~~I~ltRY 185 (210) T KOG3274 152 ---G--WDQ----IETIDSLIRKAGYKGPITEELRKSIKLTRY 185 (210) T ss_pred ---C--CCH----HHHHHHHHHHCCCCCCCCHHHHHHEEEEEE T ss_conf ---8--748----888999998447777567898712035674 No 41 >pfam00435 Spectrin Spectrin repeat. Spectrin repeats are found in several proteins involved in cytoskeletal structure. These include spectrin, alpha-actinin and dystrophin. The sequence repeat used in this family is taken from the structural repeat in reference. The spectrin repeat forms a three helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C. Probab=51.50 E-value=19 Score=16.78 Aligned_cols=85 Identities=12% Similarity=0.117 Sum_probs=55.8 Q ss_pred CHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 98999999999999870866002589999999999889999999999999986399999863100000023456676555 Q gi|254780753|r 15 DWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQETSDNLQR 94 (355) Q Consensus 15 Dle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D~el~eE~~~el~~ 94 (355) +.+.+..=+.+-+..++++++..|+..++.+.+++..++.-+.....-...+.+....+ +.....+ ...+...+.. T Consensus 9 ~~~el~~Wl~e~~~~l~~~~~~~d~~~~~~l~~~h~~l~~ei~~~~~~i~~l~~~g~~L-~~~~~~~---~~~i~~~~~~ 84 (105) T pfam00435 9 DADDLESWIEEKEALLSSEDYGKDLEEVEALLKKHKALEAELAAHQDRVEQLNELAEKL-IDEGHYA---SEEIQERLEE 84 (105) T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCCCC---HHHHHHHHHH T ss_conf 99999999999998864987789999999999999999999998888999999999999-8739995---6889999999 Q ss_pred HHHHHHHHH Q ss_conf 774015899 Q gi|254780753|r 95 IKLEVEYKQ 103 (355) Q Consensus 95 l~~~le~LE 103 (355) +...-+.|. T Consensus 85 l~~~W~~L~ 93 (105) T pfam00435 85 LNERWEQLL 93 (105) T ss_pred HHHHHHHHH T ss_conf 999999999 No 42 >PRK08835 consensus Probab=50.91 E-value=20 Score=16.71 Aligned_cols=88 Identities=18% Similarity=0.088 Sum_probs=49.0 Q ss_pred HHHHHHHHHHCCC-----CCC-CHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHH----CC Q ss_conf 9999999870866-----002-58999999999988999999999999-----------998639999986310----00 Q gi|254780753|r 22 RLSFLNTKTEDPH-----LWQ-NVIEAKMLMRERQHLDNAISFIKEIQ-----------DRLCDNLILLELALE----ED 80 (355) Q Consensus 22 rl~eLE~~lsdp~-----fW~-D~~kAqkl~KE~s~L~~iV~~~~~l~-----------~~l~Dl~eL~ELa~e----e~ 80 (355) ++-.+-..+.|+. +=. -++-|.++.+++.+|+.+++..+++. ..+.+-.+..-|.++ .. T Consensus 175 qviD~lAL~GDsSDNIPGVpGIG~KTA~kLL~eyGsLE~Iy~nld~Ik~~~~rg~kk~~ekL~e~~e~A~LSk~LaTI~~ 254 (931) T PRK08835 175 LIIDYLALMGDKVDNIPGVPGVGDKTATALLQGIGGLDALYDNLDDIAALGFRGSKTMAKKLVDNKDNAYLSYELATIKL 254 (931) T ss_pred HHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 98999997188646889999745888999999848699999769861444331056899999987999999898742033 Q ss_pred CCHHH---HH---HHHHHHHHHHHHHHHHHHHHHC Q ss_conf 00023---45---6676555774015899887630 Q gi|254780753|r 81 DCSIL---QE---TSDNLQRIKLEVEYKQFESLLS 109 (355) Q Consensus 81 D~el~---eE---~~~el~~l~~~le~LE~~~Lls 109 (355) |-.+- ++ -.-...++...++++|+..|++ T Consensus 255 Dvpl~~~le~l~~~~pd~~~L~~~f~eleFksll~ 289 (931) T PRK08835 255 DVELEETPESLLKQEPNKDELIKLYGQLTFKSWLN 289 (931) T ss_pred CCCCCCCHHHHHCCCCCHHHHHHHHHHHHCHHHHH T ss_conf 55678898997307999999999999974789999 No 43 >PRK09225 threonine synthase; Validated Probab=49.50 E-value=5.6 Score=20.59 Aligned_cols=50 Identities=26% Similarity=0.338 Sum_probs=35.6 Q ss_pred CCCCEEEEEECCCCCHHHH-HH-HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 7662489982177870277-89-9999998999987753113444205454585 Q gi|254780753|r 113 DSNDAYLEVHAGAGGTESQ-DW-ANMLLRMYTRWAEKRKFKTEALEIHDGEEAG 164 (355) Q Consensus 113 D~~nailEI~AGaGG~EA~-dw-A~~L~rMY~r~ae~~gwk~evi~~~~~e~~G 164 (355) +++--+||+--|- |=|- |+ ++.|.+|+..+..+++=++-|+-.+.||-|+ T Consensus 95 ~~~~~vlELfHGP--T~AFKD~alq~l~~l~~~~l~~~~~~~~Il~ATSGDTG~ 146 (465) T PRK09225 95 DENLYVLELFHGP--TLAFKDFALQFLAQLLEYFLKKRGEKITILGATSGDTGS 146 (465) T ss_pred CCCEEEEEECCCC--CCHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCHH T ss_conf 5982798841088--531122589999999999974067506999738885089 No 44 >PRK13520 L-tyrosine decarboxylase; Provisional Probab=49.25 E-value=16 Score=17.35 Aligned_cols=95 Identities=17% Similarity=0.124 Sum_probs=46.6 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEE-- Q ss_conf 765557740158998876303457662489982177870277899999998999987753113444205454585013-- Q gi|254780753|r 90 DNLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKS-- 167 (355) Q Consensus 90 ~el~~l~~~le~LE~~~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~-- 167 (355) ....+++.++-.. +..|+..| |....+ -+|||||.+.|--.+| .+ ++++. T Consensus 59 P~~~~mE~~vv~~-~a~l~g~p-~~~G~~-----tsGGTes~l~Al~aaR---~~------------------~~~~~p~ 110 (375) T PRK13520 59 PGTAKLEREVVRM-LGELLHLP-DAYGYI-----TSGGTEANIQAVRAAR---NL------------------ADAEKPN 110 (375) T ss_pred HHHHHHHHHHHHH-HHHHCCCC-CCEEEE-----ECHHHHHHHHHHHHHH---HH------------------CCCCCCE T ss_conf 7799999999999-99980999-880899-----5618999999999997---62------------------6899987 Q ss_pred EEEEEECCCCCHHHEEECCEEEEEEECCCCCCCEEE----------EEEEEEEECCC Q ss_conf 468850556100000101206898730466665035----------66887885034 Q gi|254780753|r 168 ATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNSRRH----------TSFSSIWVYPV 214 (355) Q Consensus 168 ~~~~I~G~~ayg~Lk~E~GvHRv~Ri~~~~s~gR~h----------TS~a~V~V~P~ 214 (355) +++.....+++...-.--|+ ++++||..+ ++|.. ..++-|...|. T Consensus 111 iv~~~~aH~s~~Kaa~~~gi-~~~~vp~d~-~~~~d~~~l~~~i~~~ti~vvatagt 165 (375) T PRK13520 111 IVVPESAHFSFDKAADMLGL-ELRRAPLDE-DYRVDVKSVEDLIDDNTIGIVGIAGT 165 (375) T ss_pred EEEECCCHHHHHHHHHHCCC-EEEEEEECC-CCCCCHHHHHHHHHHCCEEEEEECCC T ss_conf 99967316999999997495-569940388-88698999999886495799992588 No 45 >PRK07456 consensus Probab=45.90 E-value=23 Score=16.19 Aligned_cols=93 Identities=20% Similarity=0.147 Sum_probs=51.1 Q ss_pred CCHHHHHHH-------HHHHHHHHHCC--------CCCCCHHHHHHHHHHHHHHHHHHHHHHHH--------------HH Q ss_conf 498999999-------99999987086--------60025899999999998899999999999--------------99 Q gi|254780753|r 14 FDWDNAVQR-------LSFLNTKTEDP--------HLWQNVIEAKMLMRERQHLDNAISFIKEI--------------QD 64 (355) Q Consensus 14 fDle~~~~r-------l~eLE~~lsdp--------~fW~D~~kAqkl~KE~s~L~~iV~~~~~l--------------~~ 64 (355) +|.+...++ +-.+-..+.|+ .+ -++-|.++.+++.+|+.+++..+++ .. T Consensus 177 ~d~~~V~ek~GV~P~qiiD~lAL~GDsSDNIPGVpGI--G~KTA~kLL~eyGsLE~Iyen~d~i~~~k~~~~~IKgkl~e 254 (975) T PRK07456 177 INEAGVKEKLGVAPEQVVDLKALTGDSSDNIPGVKGV--GPKTAINLLKENGDLDGIYKALDEIEGEKAYRGAIKGALKK 254 (975) T ss_pred ECHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCCC--CHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCHHHHH T ss_conf 2699999986959899899999728865688999985--59999999998499999998287620011111234448899 Q ss_pred HHHHHHHHH----HHHHHCCCCHHH-----HHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 986399999----863100000023-----45667655577401589988763 Q gi|254780753|r 65 RLCDNLILL----ELALEEDDCSIL-----QETSDNLQRIKLEVEYKQFESLL 108 (355) Q Consensus 65 ~l~Dl~eL~----ELa~ee~D~el~-----eE~~~el~~l~~~le~LE~~~Ll 108 (355) .+.+-.+.. +|+.=..|..+- .--.-....+...++++|+..|+ T Consensus 255 ~L~~~~d~A~LSkeLvTI~~Dvpl~~~~dl~~~~~d~~~L~~lf~elEF~sLl 307 (975) T PRK07456 255 KLKNDKDNAYLSRFLAEILVDVPLPLDESLELTGFDQELLSPLLEKLELNSLL 307 (975) T ss_pred HHHHHHHHHHHHHHHHHEEECCCCCCCHHHCCCCCCHHHHHHHHHHHCCHHHH T ss_conf 99997999998899765001798886555426899999999999995547899 No 46 >pfam05192 MutS_III MutS domain III. This domain is found in proteins of the MutS family (DNA mismatch repair proteins) and is found associated with pfam00488, pfam05188, pfam01624 and pfam05190. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair; other members of the family included the eukaryotic MSH 1,2,3, 4,5 and 6 proteins. These have various roles in DNA repair and recombination. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. The aligned region corresponds with domain III, which is central to the structure of Thermus aquaticus MutS as characterized in. Probab=45.13 E-value=24 Score=16.11 Aligned_cols=130 Identities=18% Similarity=0.179 Sum_probs=59.1 Q ss_pred HCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHCCCC Q ss_conf 54989999999999998708660025899999999998899999999----------99999986399999863100000 Q gi|254780753|r 13 LFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFI----------KEIQDRLCDNLILLELALEEDDC 82 (355) Q Consensus 13 ~fDle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~----------~~l~~~l~Dl~eL~ELa~ee~D~ 82 (355) ..|++.+..|++-++..+..+++.+ ..+..+|....++.++..+ ..+.+.+.-+..+.++..+.+.. T Consensus 53 l~d~~~I~~R~d~Ve~l~~~~~~~~---~l~~~Lk~i~Dlerl~~ri~~~~~~~~~~~~l~~~l~~i~~i~~~l~~~~~~ 129 (306) T pfam05192 53 LRDREEINARLDAVEELLEDPELRQ---TLRELLKRVPDLERLLSRLALGRANPRDLLRLRDSLERLPTIKELLEELDSP 129 (306) T ss_pred CCCHHHHHHHHHHHHHHHHCHHHHH---HHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCH T ss_conf 6699999999999999985989999---9999986489789999999828978899999999999999999999857884 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 023456676555774015899887630345766248998217787027789999999899998775311344 Q gi|254780753|r 83 SILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEA 154 (355) Q Consensus 83 el~eE~~~el~~l~~~le~LE~~~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~ev 154 (355) ............+....+.++-...+..+....+++ -|++|.-. +|-.+...|.+-..+-.++ T Consensus 130 ~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~-~i~~g~~~--------~LD~~~~~~~~~~~~l~~~ 192 (306) T pfam05192 130 LLLKELRKSIDDLSELLDLLETAINEDPPLLIREGG-VIKSGYDA--------ELDELRDLRDEAKEWIAEL 192 (306) T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHCCHHHHCCCCC-EECCCCCH--------HHHHHHHHHHHHHHHHHHH T ss_conf 678888744234899999999998246176556788-54899887--------8999999999789999999 No 47 >KOG4603 consensus Probab=44.22 E-value=25 Score=16.01 Aligned_cols=12 Identities=17% Similarity=0.576 Sum_probs=9.6 Q ss_pred HHHHHHHHHHHH Q ss_conf 999998999987 Q gi|254780753|r 135 NMLLRMYTRWAE 146 (355) Q Consensus 135 ~~L~rMY~r~ae 146 (355) +-.+|||.+||. T Consensus 155 ~~v~~~y~~~~~ 166 (201) T KOG4603 155 EQVYREYQKYCK 166 (201) T ss_pred HHHHHHHHHHHH T ss_conf 999999999999 No 48 >pfam05616 Neisseria_TspB Neisseria meningitidis TspB protein. This family consists of several Neisseria meningitidis TspB virulence factor proteins. Probab=44.06 E-value=19 Score=16.74 Aligned_cols=93 Identities=16% Similarity=0.215 Sum_probs=45.0 Q ss_pred CCCCCCCEEEEEECC----CCCHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHCCCC-----------CCCCEEEEEEEEE Q ss_conf 345766248998217----7870277899999998999987753-11344420545-----------4585013468850 Q gi|254780753|r 110 GEADSNDAYLEVHAG----AGGTESQDWANMLLRMYTRWAEKRK-FKTEALEIHDG-----------EEAGIKSATLLIK 173 (355) Q Consensus 110 ~e~D~~nailEI~AG----aGG~EA~dwA~~L~rMY~r~ae~~g-wk~evi~~~~~-----------e~~GiK~~~~~I~ 173 (355) ..+--..|+.-.+.| .-|+++-.|+.--|.|-.||.|... =|++.|....- ..-||++ T Consensus 197 ~~y~~~~c~f~wNGg~C~V~~g~d~r~~isfsl~rn~kykEemdakK~eEIlslkvDaNPd~fI~aTGyPgY~E------ 270 (502) T pfam05616 197 RNYNFSRCYFNWNGGNCNVGKGDDARSFISFSLIRNPKYKEEMDAKKLEEILSLKVDANPDKYIQATGYPGYSE------ 270 (502) T ss_pred HHCCCCCCEEECCCCCCEECCCCCCCCEEEEEEEECCCHHHHCCHHHHHHHHHHCCCCCCCCCEECCCCCCCCC------ T ss_conf 10144676575058754332587622147899870764054407577899875013689862111378876333------ Q ss_pred CCCCCHHHEEECCEEEEEEE-CCCCCCCE-EE-----------EEEEEEEECCCCC Q ss_conf 55610000010120689873-04666650-35-----------6688788503442 Q gi|254780753|r 174 GPNAYGWLKGEQGVHRLVRI-SPYDSNSR-RH-----------TSFSSIWVYPVVD 216 (355) Q Consensus 174 G~~ayg~Lk~E~GvHRv~Ri-~~~~s~gR-~h-----------TS~a~V~V~P~~~ 216 (355) ..+-..|+ +|-+ |.|+-+|+ .| .++|.|.|.|-++ T Consensus 271 ------~vkV~~GT--~V~mGPVt~~nG~pvqvv~tfg~dsqGNtta~Vq~i~rPd 318 (502) T pfam05616 271 ------KVEVAPGT--KVNMGPVTDRNGNPVQVVATFGRDSQGNTTVDVQVIPRPD 318 (502) T ss_pred ------CCCCCCCC--EEEECCCCCCCCCEEEEEEEECCCCCCCEEEEEEECCCCC T ss_conf ------32138987--6752686588998678998755678996256557435898 No 49 >PRK00132 rpsI 30S ribosomal protein S9; Reviewed Probab=43.38 E-value=14 Score=17.82 Aligned_cols=30 Identities=20% Similarity=0.348 Sum_probs=22.0 Q ss_pred CCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEE Q ss_conf 666650356688788503442221112345503 Q gi|254780753|r 196 YDSNSRRHTSFSSIWVYPVVDDSIEIEISESDC 228 (355) Q Consensus 196 ~~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl 228 (355) |-+.|||.||.|.|.+.|-- -.|.||..++ T Consensus 6 ~~~~GrRKtaiArv~l~~G~---G~i~INgk~~ 35 (130) T PRK00132 6 YYGTGRRKSAVARVRLKPGS---GKITVNGRDL 35 (130) T ss_pred EEEECCCCCEEEEEEEECCC---CEEEECCEEH T ss_conf 99855760589999998688---5799958129 No 50 >pfam03962 Mnd1 Mnd1 family. This family of proteins includes MND1 from S. cerevisiae. The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair. Probab=43.09 E-value=26 Score=15.89 Aligned_cols=119 Identities=13% Similarity=0.222 Sum_probs=65.4 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC Q ss_conf 6002589999999999889999999999999986399999863100-000023456676555774015899887630345 Q gi|254780753|r 34 HLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEE-DDCSILQETSDNLQRIKLEVEYKQFESLLSGEA 112 (355) Q Consensus 34 ~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee-~D~el~eE~~~el~~l~~~le~LE~~~Lls~e~ 112 (355) =||+=|..+.. +....+...-..+..+...+.++..-++-++.. ++.+-...+..++..+...++.|..++.--... T Consensus 55 ~yWsFps~~~~--~~~~~~~~L~~~~~~~~~~i~~l~~~i~~~k~~r~~~~er~~ll~~l~~l~~~~~~L~~el~~~~~~ 132 (188) T pfam03962 55 YYWSFPSQAKN--KLKTRLEKLKKELEELKQRIAELQAQIEKLKVGREETEERTELLEELKQLEKELKKLKAELEKYEKN 132 (188) T ss_pred EEEECCHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 67658679999--9999999999999999999999999999998658551669999999999999999999999998836 Q ss_pred CCCCEEEEEECCC--CCHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH Q ss_conf 7662489982177--8702778999999989999877-531134442 Q gi|254780753|r 113 DSNDAYLEVHAGA--GGTESQDWANMLLRMYTRWAEK-RKFKTEALE 156 (355) Q Consensus 113 D~~nailEI~AGa--GG~EA~dwA~~L~rMY~r~ae~-~gwk~evi~ 156 (355) |+. .|=.++..+ -=..|.-|+..+|-+ .-|+.+ -|..-+.++ T Consensus 133 Dp~-~i~~~~~~~~~~~~aanrWTDNI~~l-~~~~~kk~g~~~~~l~ 177 (188) T pfam03962 133 DPE-RIEKLKEETKVAKEAANRWTDNIFSL-ESYLSKKFGLDEEQLR 177 (188) T ss_pred CHH-HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHCCCCHHHHH T ss_conf 999-99999999999999999988319999-9999986299999999 No 51 >PRK00474 rps9p 30S ribosomal protein S9P; Reviewed Probab=42.96 E-value=13 Score=17.88 Aligned_cols=32 Identities=13% Similarity=0.158 Sum_probs=23.5 Q ss_pred CCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEE Q ss_conf 6665035668878850344222111234550369985 Q gi|254780753|r 197 DSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTY 233 (355) Q Consensus 197 ~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~ 233 (355) -+.|||.||.|.|.+.|- +-.|.||..++ +.| T Consensus 5 ~atGrRKtaiArv~l~~G---~G~i~INgk~~--~~y 36 (132) T PRK00474 5 ITSGKRKTAIARATIKEG---KGRVRINGVPL--ELY 36 (132) T ss_pred EEECCCCCEEEEEEEECC---CCEEEECCEEH--HHH T ss_conf 876787667999999828---73598898758--996 No 52 >PRK06737 acetolactate synthase 1 regulatory subunit; Validated Probab=42.70 E-value=14 Score=17.67 Aligned_cols=33 Identities=12% Similarity=0.308 Sum_probs=29.3 Q ss_pred HHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCC Q ss_conf 877531134442054545850134688505561 Q gi|254780753|r 145 AEKRKFKTEALEIHDGEEAGIKSATLLIKGPNA 177 (355) Q Consensus 145 ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~a 177 (355) +.++||+.+-+...+++..|+...|+-+.|+.. T Consensus 23 FsrRGyNI~SL~Vg~te~~~~SRmTivv~gd~~ 55 (76) T PRK06737 23 FARRGYYISSLNLNERDTSGVSEMKLTAVCTEN 55 (76) T ss_pred HHCCCCCEEEEEECCCCCCCCEEEEEEEECCCH T ss_conf 621665711256746679982079999977813 No 53 >pfam03357 Snf7 Snf7. This family of proteins are involved in protein sorting and transport from the endosome to the vacuole/lysosome in eukaryotic cells. Vacuoles/lysosomes play an important role in the degradation of both lipids and cellular proteins. In order to perform this degradative function, vacuoles/lysosomes contain numerous hydrolases which have been transported in the form of inactive precursors via the biosynthetic pathway and are proteolytically activated upon delivery to the vacuole/lysosome. The delivery of transmembrane proteins, such as activated cell surface receptors to the lumen of the vacuole/lysosome, either for degradation/downregulation, or in the case of hydrolases, for proper localisation, requires the formation of multivesicular bodies (MVBs). These late endosomal structures are formed by invaginating and budding of the limiting membrane into the lumen of the compartment. During this process, a subset of the endosomal membrane proteins is sorted into the form Probab=42.15 E-value=26 Score=15.80 Aligned_cols=40 Identities=15% Similarity=0.199 Sum_probs=28.2 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 2589999999999889999999999999986399999863 Q gi|254780753|r 37 QNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELA 76 (355) Q Consensus 37 ~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa 76 (355) ++...|..+.|....+++.++.+......++.+..-++-+ T Consensus 38 g~k~~A~~~lk~kk~~ek~~~~~~~~~~~L~~~~~~ie~a 77 (169) T pfam03357 38 GNKDAALILLKQKKRYEKQLDQLDGQLANLEQVRMAIENA 77 (169) T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 6399999999999999999999999999999999999999 No 54 >PRK00294 hscB co-chaperone HscB; Provisional Probab=41.14 E-value=27 Score=15.69 Aligned_cols=50 Identities=16% Similarity=0.102 Sum_probs=28.0 Q ss_pred CCHHHHHHHHHHHHHHHHCCCCCCCHHHHHH--------HHHHHHHHHHHHHHHHHHH Q ss_conf 4989999999999998708660025899999--------9999988999999999999 Q gi|254780753|r 14 FDWDNAVQRLSFLNTKTEDPHLWQNVIEAKM--------LMRERQHLDNAISFIKEIQ 63 (355) Q Consensus 14 fDle~~~~rl~eLE~~lsdp~fW~D~~kAqk--------l~KE~s~L~~iV~~~~~l~ 63 (355) +|...+..++..|..++-=--|-+-+...+. |++-|..|+.-+.....+. T Consensus 18 iD~~~L~~~y~~LQ~~~HPDrf~~~s~~e~~~a~~~sa~iN~AY~tLk~pl~RA~yLL 75 (173) T PRK00294 18 LDLDQLATRYRELAREVHPDRFADAPEREQRLALERSAALNEAYQTLKSAPRRARYLL 75 (173) T ss_pred CCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHH T ss_conf 7999999999999998695736798999999999999999999999759999999999 No 55 >PRK07898 consensus Probab=40.58 E-value=28 Score=15.63 Aligned_cols=87 Identities=16% Similarity=0.144 Sum_probs=48.2 Q ss_pred HHHHHHHHHHCCC-----CCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHH----CCCCHH--- Q ss_conf 9999999870866-----002-589999999999889999999999999986----39999986310----000002--- Q gi|254780753|r 22 RLSFLNTKTEDPH-----LWQ-NVIEAKMLMRERQHLDNAISFIKEIQDRLC----DNLILLELALE----EDDCSI--- 84 (355) Q Consensus 22 rl~eLE~~lsdp~-----fW~-D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~----Dl~eL~ELa~e----e~D~el--- 84 (355) ++-.+-..+.|+. +=. -++-|.++..+|.+|+.+++..++++..+. +-.+..-|.++ ..|-.+ T Consensus 189 qviD~lAL~GDsSDNIPGVpGIG~KTA~kLL~eyGsLE~I~~n~d~IkgK~~e~L~~~~d~a~LSk~LvTI~~Dvpl~~~ 268 (902) T PRK07898 189 QYPDFAALRGDPSDNLPGIPGVGEKTAAKWIAQYGSLDGLVDHADEIKGKVGDALRANLESVVRNRELTELVRDVPLPVT 268 (902) T ss_pred HHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC T ss_conf 99999998188645799999844788999999767789999998752157788999659999998998688754888878 Q ss_pred ---HHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf ---345667655577401589988763 Q gi|254780753|r 85 ---LQETSDNLQRIKLEVEYKQFESLL 108 (355) Q Consensus 85 ---~eE~~~el~~l~~~le~LE~~~Ll 108 (355) +.-..-....+...+++||+..|+ T Consensus 269 le~l~~~~~d~~~L~~lf~eLEF~sL~ 295 (902) T PRK07898 269 PDDLRLQPWDRDAVHRLFDDLEFRVLR 295 (902) T ss_pred HHHHCCCCCCHHHHHHHHHHHCCHHHH T ss_conf 887124899999999999984667899 No 56 >pfam02815 MIR MIR domain. The MIR (protein mannosyltransferase, IP3R and RyR) domain is a domain that may have a ligand transferase function. Probab=39.62 E-value=29 Score=15.53 Aligned_cols=36 Identities=25% Similarity=0.419 Sum_probs=27.6 Q ss_pred EEEECCCCCCCCCCCCCCEEEEEEECCCHHHHHHHH Q ss_conf 998538886554427310035887469747766555 Q gi|254780753|r 230 IDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQCQQ 265 (355) Q Consensus 230 i~~~rssg~ggq~vn~t~savri~H~ptgi~v~~q~ 265 (355) ++.-...|.+...|-..+|-+||.|..||.-+...+ T Consensus 120 ~~~~~~~~~~~~~ik~~~s~frL~H~~tgc~L~s~~ 155 (189) T pfam02815 120 FELKSTTGMGQDRIKPGDSKVRLRHACTGCWLFSHN 155 (189) T ss_pred EEECCCCCCCCCEEEEEEEEEEEEECCCCEEEEECC T ss_conf 763367777778389811599999999688998689 No 57 >KOG0581 consensus Probab=39.51 E-value=18 Score=17.04 Aligned_cols=55 Identities=29% Similarity=0.318 Sum_probs=33.9 Q ss_pred CEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECCCHHHHH Q ss_conf 503566887885034422211123455036998538886554427310035887469747766 Q gi|254780753|r 200 SRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVVVQ 262 (355) Q Consensus 200 gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~ptgi~v~ 262 (355) ++.-+|........+++++ +..|...||..--.=.+|.|| .| ....|+|||.... T Consensus 54 ~~~~~~~~~~~~~~~l~~~-~~~i~~~dle~~~~lG~G~gG-~V------~kv~Hk~t~~i~A 108 (364) T KOG0581 54 PLSKISLSSSSANSELSED-DNGISLSDLERLGVLGSGNGG-TV------YKVRHKPTGKIYA 108 (364) T ss_pred CCCCCCCCCCCCCCCCCCC-CCCCCHHHHHHHHHCCCCCCC-EE------EEEEECCCCEEEE T ss_conf 6433322454432234665-333377775423112467873-79------9999737885899 No 58 >TIGR03627 arch_S9P archaeal ribosomal protein S9P. This model describes exclusively the archaeal ribosomal protein S9P. Homologous eukaryotic and bacterial ribosomal proteins are excluded from this model. Probab=39.25 E-value=16 Score=17.29 Aligned_cols=32 Identities=13% Similarity=0.158 Sum_probs=22.9 Q ss_pred CCCCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEE Q ss_conf 6665035668878850344222111234550369985 Q gi|254780753|r 197 DSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTY 233 (355) Q Consensus 197 ~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~ 233 (355) -+.|||.||.|.|.+.|-- -.|.||..++ +.| T Consensus 3 ~~tGrRKtaiA~v~l~~G~---G~i~VNg~~~--~~~ 34 (130) T TIGR03627 3 ITSGKRKTAIARATIREGK---GRVRINGVPV--ELY 34 (130) T ss_pred EEECCCCCEEEEEEEECCC---EEEEECCEEH--HHH T ss_conf 5567680779999999171---7999999879--994 No 59 >TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH; InterPro: IPR011909 Glutaredoxins , , , also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system . Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond . It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterised by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase .; GO: 0006118 electron transport, 0045454 cell redox homeostasis. Probab=39.04 E-value=14 Score=17.75 Aligned_cols=41 Identities=20% Similarity=0.449 Sum_probs=33.3 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCC-------CEEEEEEEEE-CCCCCH Q ss_conf 9899998775311344420545458-------5013468850-556100 Q gi|254780753|r 139 RMYTRWAEKRKFKTEALEIHDGEEA-------GIKSATLLIK-GPNAYG 179 (355) Q Consensus 139 rMY~r~ae~~gwk~evi~~~~~e~~-------GiK~~~~~I~-G~~ayg 179 (355) .|=-||-+.+|..+|.++++.-+++ ||+.|=+-+. |..++. T Consensus 13 kmTKk~L~~~~i~Fe~inid~~pea~d~vk~lGF~~~PVi~~~g~~~~S 61 (72) T TIGR02194 13 KMTKKALEEHGIAFEEINIDEQPEAVDYVKALGFRQVPVIVAEGDESWS 61 (72) T ss_pred CHHHHHHHHCCCCEEEEECCCCHHHHHHHHHCCCEECCEEEECCCEEEE T ss_conf 1577667637996157635888437899987486307626767970021 No 60 >PRK08928 consensus Probab=38.56 E-value=30 Score=15.42 Aligned_cols=88 Identities=15% Similarity=0.151 Sum_probs=50.4 Q ss_pred HHHHHHHHHHCCC-----CCC-CHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHH----CCCCHHH- Q ss_conf 9999999870866-----002-589999999999889999999999999-----98639999986310----0000023- Q gi|254780753|r 22 RLSFLNTKTEDPH-----LWQ-NVIEAKMLMRERQHLDNAISFIKEIQD-----RLCDNLILLELALE----EDDCSIL- 85 (355) Q Consensus 22 rl~eLE~~lsdp~-----fW~-D~~kAqkl~KE~s~L~~iV~~~~~l~~-----~l~Dl~eL~ELa~e----e~D~el~- 85 (355) ++-++-..+.|+. +=. -++-|.++..++.+|+.+++..+++.. .+.+-.+..-|.++ ..|-.+- T Consensus 173 qiiD~laL~GDsSDNIPGVpGIG~KTA~kLL~eyGsLE~Iy~n~d~Ik~~K~re~L~e~ke~a~lSkeLvTI~~Dvpl~~ 252 (861) T PRK08928 173 KLLDVMALTGDRSDNIPGVPSIGPKTAAKLITQFGSLENILNSLDQISSNKQRETLQNSREQALISRQLIGLCSNVDLDF 252 (861) T ss_pred HHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC T ss_conf 99999998087646889998856289999999679799999988611302467888855888999899864354788764 Q ss_pred --HH---HHHHHHHHHHHHHHHHHHHHHC Q ss_conf --45---6676555774015899887630 Q gi|254780753|r 86 --QE---TSDNLQRIKLEVEYKQFESLLS 109 (355) Q Consensus 86 --eE---~~~el~~l~~~le~LE~~~Lls 109 (355) +. -......+...+++||+..|++ T Consensus 253 ~l~~l~~~~~d~~~L~~lf~elEF~sLlk 281 (861) T PRK08928 253 DLNKLEWSPPNSEKLTGFLKKYEFKSLIK 281 (861) T ss_pred CHHHHCCCCCCHHHHHHHHHHHCCHHHHH T ss_conf 67873448999999999999826789999 No 61 >COG1256 FlgK Flagellar hook-associated protein [Cell motility and secretion] Probab=38.46 E-value=30 Score=15.41 Aligned_cols=19 Identities=26% Similarity=0.398 Sum_probs=10.7 Q ss_pred HHHHHHHHHHHHHHHHCCC Q ss_conf 8999999999999870866 Q gi|254780753|r 16 WDNAVQRLSFLNTKTEDPH 34 (355) Q Consensus 16 le~~~~rl~eLE~~lsdp~ 34 (355) ++....-|.+|+..+++|+ T Consensus 87 ~~t~~~~L~~le~ll~~~~ 105 (552) T COG1256 87 LDTRASQLSQLESLLSEPS 105 (552) T ss_pred HHHHHHHHHHHHHHHCCCC T ss_conf 9999999999999847976 No 62 >PRK01773 hscB co-chaperone HscB; Provisional Probab=38.10 E-value=30 Score=15.37 Aligned_cols=49 Identities=16% Similarity=0.097 Sum_probs=27.3 Q ss_pred CCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH--------HHHHHHHHHHHHHHHHH Q ss_conf 49899999999999987086600258999999--------99998899999999999 Q gi|254780753|r 14 FDWDNAVQRLSFLNTKTEDPHLWQNVIEAKML--------MRERQHLDNAISFIKEI 62 (355) Q Consensus 14 fDle~~~~rl~eLE~~lsdp~fW~D~~kAqkl--------~KE~s~L~~iV~~~~~l 62 (355) +|...+..++..|..++----|-+-+..-+.+ +.-|+.|+.-+....-+ T Consensus 16 ID~~~L~~~y~~LQ~~~HPDkf~~~s~~Ek~~s~~~Ss~iN~AY~tLkdpl~RA~YL 72 (173) T PRK01773 16 LDQALLSERYLALQKSLHPDNFANSSAQEQRLAMQKSAEVNDALQILKDPILRAEAI 72 (173) T ss_pred CCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHH T ss_conf 799999999999999869685668999999999999999999999974888899999 No 63 >COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis] Probab=38.09 E-value=30 Score=15.37 Aligned_cols=54 Identities=15% Similarity=0.089 Sum_probs=28.1 Q ss_pred HCCHHHHHHHHHHHHHHHHCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 549899999999999987086-600258999999999988999999999999998 Q gi|254780753|r 13 LFDWDNAVQRLSFLNTKTEDP-HLWQNVIEAKMLMRERQHLDNAISFIKEIQDRL 66 (355) Q Consensus 13 ~fDle~~~~rl~eLE~~lsdp-~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l 66 (355) |+|+.-++...+.+.+.+..- ..+.+-.+.-++-++...+...++.++...+.+ T Consensus 1 mld~k~ir~n~d~v~~~l~~r~~~~~~~~~~~~ld~~~r~~~~~~e~l~~~rn~~ 55 (429) T COG0172 1 MLDLKLIRENPDAVREKLKKRGGDALDVDKLLELDEERRKLLRELEELQAERNEL 55 (429) T ss_pred CCHHHHHHHCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9648776509999999876348837678999999999999999999999998899 No 64 >pfam00380 Ribosomal_S9 Ribosomal protein S9/S16. This family includes small ribosomal subunit S9 from prokaryotes and S16 from eukaryotes. Probab=37.44 E-value=20 Score=16.66 Aligned_cols=26 Identities=27% Similarity=0.487 Sum_probs=19.1 Q ss_pred CEEEEEEEEEEECCCCCCCCCCCCCCCEE Q ss_conf 50356688788503442221112345503 Q gi|254780753|r 200 SRRHTSFSSIWVYPVVDDSIEIEISESDC 228 (355) Q Consensus 200 gR~hTS~a~V~V~P~~~~~~~i~i~~~dl 228 (355) |||.||.|.|.+.|-- -.|.||..++ T Consensus 1 GrRKtaiArv~l~~G~---G~i~INg~~~ 26 (121) T pfam00380 1 GRRKTAVARVWLKPGS---GKITINGKPL 26 (121) T ss_pred CCCCCEEEEEEEEECC---CEEEECCCCH T ss_conf 9984589999998077---6799989328 No 65 >COG0103 RpsI Ribosomal protein S9 [Translation, ribosomal structure and biogenesis] Probab=36.93 E-value=21 Score=16.55 Aligned_cols=30 Identities=10% Similarity=0.207 Sum_probs=20.6 Q ss_pred CCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEE Q ss_conf 666650356688788503442221112345503 Q gi|254780753|r 196 YDSNSRRHTSFSSIWVYPVVDDSIEIEISESDC 228 (355) Q Consensus 196 ~~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl 228 (355) +-+.|||.||.|.|.+.|. . -.|.||..++ T Consensus 6 ~~~tGkRK~AvArv~l~~g-~--G~i~vNg~~~ 35 (130) T COG0103 6 VYTTGKRKSAVARVRLVPG-K--GKITVNGRPL 35 (130) T ss_pred EEEECCCCCEEEEEEEECC-C--CEEEECCCCH T ss_conf 4640554326899999768-7--5899989189 No 66 >pfam07050 consensus Probab=36.75 E-value=32 Score=15.23 Aligned_cols=56 Identities=18% Similarity=0.154 Sum_probs=27.1 Q ss_pred CHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 56899999886549899999999999987086600258999999999988999999999999 Q gi|254780753|r 2 KLSRQLNCLGGLFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQ 63 (355) Q Consensus 2 EL~~rl~~l~~~fDle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~ 63 (355) +|-...+.|..|+--......+..-++.+. +..++|.+.+++..++...+.+..+- T Consensus 9 ~Il~~a~eLa~mI~~se~~~~Y~~ak~~~~------~d~~~q~li~~f~~~ke~ye~~q~fg 64 (145) T pfam07050 9 DILDQAEQLADMILQSEEVENYRKAKQALE------NDREAQQLIQEFLKLKEQYEEVQRFG 64 (145) T ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHHHHHH------CCHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999981899999999999998------48999999999999999999999874 No 67 >CHL00079 rps9 ribosomal protein S9 Probab=36.58 E-value=18 Score=17.03 Aligned_cols=31 Identities=23% Similarity=0.313 Sum_probs=22.4 Q ss_pred CCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCEE Q ss_conf 4666650356688788503442221112345503 Q gi|254780753|r 195 PYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDC 228 (355) Q Consensus 195 ~~~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl 228 (355) -+-+.|||.||.|.|.+.|--. .|.||..++ T Consensus 8 ~~y~tGkRKtsiArv~i~~GsG---~i~VN~k~l 38 (134) T CHL00079 8 LYYGTGRRKCAVAQVRLVPGTG---EIIINGKPG 38 (134) T ss_pred EEEEECCCCCEEEEEEEECCCC---EEEEECCCH T ss_conf 9998668705899999986983---699959709 No 68 >pfam06160 EzrA Septation ring formation regulator, EzrA. During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerizes into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation. Probab=36.44 E-value=32 Score=15.19 Aligned_cols=38 Identities=5% Similarity=0.037 Sum_probs=16.0 Q ss_pred HHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999987086600258999999999988999999999 Q gi|254780753|r 23 LSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIK 60 (355) Q Consensus 23 l~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~ 60 (355) +.+++..+.+.+.++|.-++.+..+.++.+...++.++ T Consensus 77 l~~ie~~l~~ae~~~~~~rf~ka~~~i~~~~~~i~~~e 114 (559) T pfam06160 77 LPDIEELLFEAEELNDKFRFLKAKKAIKEIEELLDTIE 114 (559) T ss_pred HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH T ss_conf 25699999999999860628999999999999999999 No 69 >KOG4519 consensus Probab=36.22 E-value=32 Score=15.17 Aligned_cols=26 Identities=27% Similarity=0.369 Sum_probs=15.1 Q ss_pred HHHCCCCCCCCEEEEEECCCCCHHHH Q ss_conf 76303457662489982177870277 Q gi|254780753|r 106 SLLSGEADSNDAYLEVHAGAGGTESQ 131 (355) Q Consensus 106 ~Lls~e~D~~nailEI~AGaGG~EA~ 131 (355) .||.+-.--..+++---|||||-+|. T Consensus 387 ~lLD~~~sl~GVl~~gvPGAGGfDAi 412 (459) T KOG4519 387 QLLDSTMSLEGVLLAGVPGAGGFDAI 412 (459) T ss_pred HHHHHHHCCCCEEEECCCCCCCCCEE T ss_conf 57666640566378446678874448 No 70 >cd01560 Thr-synth_2 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria, archaebacteria and eubacterial groups. This CD, Thr-synth_2, includes enzymes from fungi and eubacterial groups, as well as, metazoan threonine synthase-like proteins. Probab=36.16 E-value=6.6 Score=20.11 Aligned_cols=51 Identities=20% Similarity=0.241 Sum_probs=35.8 Q ss_pred CCCCCEEEEEECCCCCHHHH-HH-HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 57662489982177870277-89-9999998999987753113444205454585 Q gi|254780753|r 112 ADSNDAYLEVHAGAGGTESQ-DW-ANMLLRMYTRWAEKRKFKTEALEIHDGEEAG 164 (355) Q Consensus 112 ~D~~nailEI~AGaGG~EA~-dw-A~~L~rMY~r~ae~~gwk~evi~~~~~e~~G 164 (355) -+++.-+||.--|-- =|- |+ .+.|-+|+..+..+++=++.|+-.+.||-|+ T Consensus 93 l~~~~~vLELFHGPT--lAFKD~a~q~l~~l~~~~l~~~~~~~~Il~ATSGDTGs 145 (460) T cd01560 93 LGDNLYVLELFHGPT--LAFKDMALQFLGRLLEYFLKRRNERITILVATSGDTGS 145 (460) T ss_pred ECCCCEEEEECCCCC--CHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHH T ss_conf 149847887322884--14455689999999999974066347998578884189 No 71 >cd02134 NusA_KH NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of ribosomal rrn operons. During transcription of many other genes, NusA-induced RNAP pausing provides a mechanism for synchronizing transcription and translation . The N-terminal RNAP-binding domain (NTD) is connected through a flexible hinge helix to three globular domains, S1, KH1 and KH2. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. Probab=35.21 E-value=13 Score=18.10 Aligned_cols=34 Identities=21% Similarity=0.277 Sum_probs=19.3 Q ss_pred EEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCC Q ss_conf 88503442221112345503699853888655442731 Q gi|254780753|r 209 IWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTT 246 (355) Q Consensus 209 V~V~P~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t 246 (355) |.+.+..+....+.++++++ -.|=|.+||||+-. T Consensus 17 V~i~~~~~~~~~V~V~~~~~----~~AIGk~G~Nvrla 50 (61) T cd02134 17 VTVLDDEEKRARVVVPDDQL----GLAIGKGGQNVRLA 50 (61) T ss_pred EEECCCCCCEEEEEECHHHH----HHHHCCCCEEHHHH T ss_conf 88447877379999885784----38766786709999 No 72 >PRK04778 septation ring formation regulator EzrA; Provisional Probab=34.53 E-value=34 Score=14.99 Aligned_cols=37 Identities=5% Similarity=-0.021 Sum_probs=14.9 Q ss_pred HHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999998708660025899999999998899999999 Q gi|254780753|r 23 LSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFI 59 (355) Q Consensus 23 l~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~ 59 (355) +.+++..+.+.+.++|.-++.+..+.++.+...++.+ T Consensus 81 l~~iee~l~~ae~~~~~~rf~kak~~l~~~~~~l~~~ 117 (569) T PRK04778 81 FPDIEELLFEAEDLNDKFRFFKAKHEINEIESLLDEI 117 (569) T ss_pred HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH T ss_conf 3569999999999987252899999999999999999 No 73 >PRK10329 glutaredoxin-like protein; Provisional Probab=34.22 E-value=18 Score=17.00 Aligned_cols=43 Identities=21% Similarity=0.339 Sum_probs=34.0 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCC-------CCEEEEEEEEECCCCCHHH Q ss_conf 989999877531134442054545-------8501346885055610000 Q gi|254780753|r 139 RMYTRWAEKRKFKTEALEIHDGEE-------AGIKSATLLIKGPNAYGWL 181 (355) Q Consensus 139 rMY~r~ae~~gwk~evi~~~~~e~-------~GiK~~~~~I~G~~ayg~L 181 (355) .|=.||-+++|..|+++|++...+ .|++.+-+-+.|+..|.=+ T Consensus 15 ~aTKr~L~~~gI~y~~vdi~~dpea~~~vk~~G~~q~PVV~~~~~~wsGF 64 (81) T PRK10329 15 HATKRAMESRGFDFEMINVDRVPEAADTLRAQGFRQLPVVIAGDLSWSGF 64 (81) T ss_pred HHHHHHHHHCCCCEEEEECCCCHHHHHHHHHCCCCCCCEEEECCCEECCC T ss_conf 98999999879942998589999999999976985599899699544360 No 74 >pfam04983 RNA_pol_Rpb1_3 RNA polymerase Rpb1, domain 3. RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 3, represents the pore domain. The 3' end of RNA is positioned close to this domain. The pore delimited by this domain is thought to act as a channel through which nucleotides enter the active site and/or where the 3' end of the RNA may be extruded during back-tracking. Probab=33.91 E-value=30 Score=15.38 Aligned_cols=30 Identities=20% Similarity=0.267 Sum_probs=20.0 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 870277899999998999987753113444 Q gi|254780753|r 126 GGTESQDWANMLLRMYTRWAEKRKFKTEAL 155 (355) Q Consensus 126 GG~EA~dwA~~L~rMY~r~ae~~gwk~evi 155 (355) |..+|..|...+.+|=.+|+...||.+-+- T Consensus 127 G~~~~~~~ld~i~~l~~~~l~~~GfSvgi~ 156 (158) T pfam04983 127 GPEETVKFLDRLQKLGFRYLTKSGFSIGID 156 (158) T ss_pred CHHHHHHHHHHHHHHHHHHHHHCCEEEEEC T ss_conf 989999999999999999999778679520 No 75 >pfam07962 Swi3 Replication Fork Protection Component Swi3. Replication fork pausing is required to initiate a recombination events. More specifically, Swi1 is required for recombination near the mat1 locus. Swi3 has been found to co-purify with Swi1 Swi3, together with Swi1, define a fork protection complex that coordinates leading- and lagging-strand synthesis and stabilizes stalled replication forks. The Swi1-Swi3 complex is required for accurate replication, fork protection and replication checkpoint signalling Probab=33.25 E-value=36 Score=14.85 Aligned_cols=27 Identities=33% Similarity=0.514 Sum_probs=18.1 Q ss_pred EECCCCCHHHHHHHHHHHHHHHHHHHHH Q ss_conf 8217787027789999999899998775 Q gi|254780753|r 121 VHAGAGGTESQDWANMLLRMYTRWAEKR 148 (355) Q Consensus 121 I~AGaGG~EA~dwA~~L~rMY~r~ae~~ 148 (355) ++...=|.|+.|.+ -|++||+.||..- T Consensus 23 ~k~kgkghE~~DL~-~ll~~Yq~W~h~l 49 (84) T pfam07962 23 FKFKGKGHEYSDLA-RLLQFYQLWAHDL 49 (84) T ss_pred CCCCCCCCHHHHHH-HHHHHHHHHHHHH T ss_conf 78189998088999-9999999999800 No 76 >cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of Probab=32.48 E-value=24 Score=16.02 Aligned_cols=40 Identities=28% Similarity=0.502 Sum_probs=32.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCC Q ss_conf 99998999987753113444205454585013468850556 Q gi|254780753|r 136 MLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPN 176 (355) Q Consensus 136 ~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~ 176 (355) .|.|+=.- ..++||+.+-+...+.+..|+...++-+.|+. T Consensus 13 vL~Rit~l-F~rRg~NI~Sl~v~~te~~~~sR~tivv~~~~ 52 (72) T cd04878 13 VLNRISGL-FARRGFNIESLTVGPTEDPGISRITIVVEGDD 52 (72) T ss_pred HHHHHHHH-HHHCCCCEEEEEEEECCCCCEEEEEEEEECCH T ss_conf 99999999-86078556789986137998489999997888 No 77 >PRK08178 acetolactate synthase 1 regulatory subunit; Reviewed Probab=32.33 E-value=31 Score=15.29 Aligned_cols=50 Identities=14% Similarity=0.173 Sum_probs=37.7 Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCC Q ss_conf 24899821778702778999999989999877531134442054545850134688505561 Q gi|254780753|r 116 DAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNA 177 (355) Q Consensus 116 nailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~a 177 (355) +.+++=+||+-.-=|.+| .++||+.+-+...+++..|+...|+.+.|+.. T Consensus 12 SvlV~N~pGVL~RV~gLF------------srRgyNIeSL~v~~te~~~~SRiTivv~~d~~ 61 (96) T PRK08178 12 ELTVRNHPGVMTHVCGLF------------ARRAFNVEGILCLPIQDSDKSRIWLLVNDDQR 61 (96) T ss_pred EEEEECCCCHHHHHHHHH------------HCCCCCCCEEEEEECCCCCCEEEEEEECCCCC T ss_conf 999957787899998887------------50566812078851389981089999889844 No 78 >PRK13182 racA polar chromosome segregation protein; Reviewed Probab=31.41 E-value=38 Score=14.64 Aligned_cols=21 Identities=10% Similarity=0.147 Sum_probs=11.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHH Q ss_conf 456676555774015899887 Q gi|254780753|r 86 QETSDNLQRIKLEVEYKQFES 106 (355) Q Consensus 86 eE~~~el~~l~~~le~LE~~~ 106 (355) +|+...+..|+..+.++|-.. T Consensus 131 EEm~~~lq~Le~ri~klE~~~ 151 (178) T PRK13182 131 EEMLERIQKLEARLKKLEPIY 151 (178) T ss_pred HHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999861552 No 79 >PTZ00086 40S ribosomal protein S16; Provisional Probab=31.13 E-value=28 Score=15.66 Aligned_cols=29 Identities=10% Similarity=-0.009 Sum_probs=20.9 Q ss_pred CCCCEEEEEEEEEEECCCCCCCCCCCCCCCEE Q ss_conf 66650356688788503442221112345503 Q gi|254780753|r 197 DSNSRRHTSFSSIWVYPVVDDSIEIEISESDC 228 (355) Q Consensus 197 ~s~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl 228 (355) .+.|||.||.|.|.+-|-- -.|.||..++ T Consensus 12 ~~~GrRKtAvArv~l~~G~---G~I~IN~k~~ 40 (147) T PTZ00086 12 QTFGKKKTAVAVATVTKGK---GLIKVNGVPL 40 (147) T ss_pred EEECCCCCEEEEEEEECCC---CEEEECCEEH T ss_conf 9775474279999998897---5099989149 No 80 >PRK07556 consensus Probab=31.10 E-value=39 Score=14.60 Aligned_cols=88 Identities=16% Similarity=0.224 Sum_probs=47.8 Q ss_pred HHHHHHHHHHCCC-----CCC-CHHHHHHHHHHHHHHHHHHHHHHHHH-HH----HHHHHHHHHHHHH----CCCCHH-- Q ss_conf 9999999870866-----002-58999999999988999999999999-99----8639999986310----000002-- Q gi|254780753|r 22 RLSFLNTKTEDPH-----LWQ-NVIEAKMLMRERQHLDNAISFIKEIQ-DR----LCDNLILLELALE----EDDCSI-- 84 (355) Q Consensus 22 rl~eLE~~lsdp~-----fW~-D~~kAqkl~KE~s~L~~iV~~~~~l~-~~----l~Dl~eL~ELa~e----e~D~el-- 84 (355) ++-++-..+.|+. +=. -++-|.++..++..|+.+++..+++. .. +.+-.+..-|.++ ..|-.+ T Consensus 181 qv~D~lAL~GDsSDNIPGVpGIG~KTA~kLL~eyGsLE~Iy~n~deIk~~K~ke~L~~~~d~A~LSkeLaTI~~Dvpl~~ 260 (977) T PRK07556 181 KVVDVQALAGDSVDNVPGIPGIGIKTAAQLINEYGDLDTLLARAGEIKQPKRRETLIENAEQARISRQLVLLDTDVPLDV 260 (977) T ss_pred HHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHCHHHHHHHHHHHHHHHCCCCCC T ss_conf 99999997187646789899854899999999757899999988650210277899857999999899867662798999 Q ss_pred -HHHH---HHHHHHHHHHHHHHHHHHHHC Q ss_conf -3456---676555774015899887630 Q gi|254780753|r 85 -LQET---SDNLQRIKLEVEYKQFESLLS 109 (355) Q Consensus 85 -~eE~---~~el~~l~~~le~LE~~~Lls 109 (355) ++++ ......+..-+++||+..|++ T Consensus 261 ~le~l~~~~~d~~~L~~~f~eLEF~sLlk 289 (977) T PRK07556 261 PLDDLAVREPDGPKLIAFLKAMEFTTLTR 289 (977) T ss_pred CHHHHCCCCCCHHHHHHHHHHHCCHHHHH T ss_conf 98991458999999999999848277999 No 81 >PRK08385 nicotinate-nucleotide pyrophosphorylase; Provisional Probab=31.09 E-value=36 Score=14.85 Aligned_cols=62 Identities=24% Similarity=0.178 Sum_probs=42.1 Q ss_pred CCCEEEEEECCCCCHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCHHHEEE Q ss_conf 6624899821778702778-9999999899998775311344420545458501346885055610000010 Q gi|254780753|r 114 SNDAYLEVHAGAGGTESQD-WANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGE 184 (355) Q Consensus 114 ~~nailEI~AGaGG~EA~d-wA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~ayg~Lk~E 184 (355) +..+-..|.|...|.=|+. ||..+|+++ +.+++.. ...|+.-.-.++++.|+|+ +...|.+| T Consensus 29 ~~~~~a~i~are~gV~~G~~~a~~i~~~~-------~~~~~~~-~~dG~~v~~g~~i~~i~G~-a~~il~~E 91 (279) T PRK08385 29 DMNASAVIIAKQEGVIAGVEEARALFEHF-------GVAVEVK-KRDGETVKAGEVILELKGN-ARAILLVE 91 (279) T ss_pred CCEEEEEEEECCCEEEECHHHHHHHHHHC-------CCEEEEE-CCCCCEECCCCEEEEEEEC-HHHHHHHH T ss_conf 96699999978998998699999999974-------9889999-2889890699899999987-89999999 No 82 >TIGR02153 gatD_arch glutamyl-tRNA(Gln) amidotransferase, subunit D; InterPro: IPR011878 This peptide is found only in the Archaea. It is part of a heterodimer, with GatD (IPR004414 from INTERPRO), that acts as an amidotransferase on misacylated Glu-tRNA(Gln) to produce Gln-tRNA(Gln). The analogous amidotransferase found in bacteria is the GatABC system, although GatABC homologs in the Archaea appear to act instead on Asp-tRNA(Asn) .; GO: 0006450 regulation of translational fidelity. Probab=30.86 E-value=17 Score=17.14 Aligned_cols=113 Identities=23% Similarity=0.391 Sum_probs=61.2 Q ss_pred CCCHHHHHH-HHHHHHHHHHHHHHHHHHHHHH---------------------HCCCCCCCCEEEEEEEEECCCCCHHHE Q ss_conf 787027789-9999998999987753113444---------------------205454585013468850556100000 Q gi|254780753|r 125 AGGTESQDW-ANMLLRMYTRWAEKRKFKTEAL---------------------EIHDGEEAGIKSATLLIKGPNAYGWLK 182 (355) Q Consensus 125 aGG~EA~dw-A~~L~rMY~r~ae~~gwk~evi---------------------~~~~~e~~GiK~~~~~I~G~~ayg~Lk 182 (355) |=||+-+-| |+=|- |+=+.|..+=|+ .+..+..|-|.+|++--.|.--=.|.- T Consensus 149 aHGTDTM~YTAaALS-----Fm~~~Gl~~PvVlVGAQRSSDRPSSDAa~NL~~A~~~A~~a~~aEV~VvMHG~tsD~yc~ 223 (413) T TIGR02153 149 AHGTDTMAYTAAALS-----FMFKTGLPVPVVLVGAQRSSDRPSSDAALNLIAAVRAATSAPIAEVVVVMHGETSDTYCL 223 (413) T ss_pred EECCCHHHHHHHHHH-----HHHHCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCEEE T ss_conf 415874689999999-----999716999889985743588873137999999999833697100388840124886799 Q ss_pred EECCEEEEEEECCCCCCCEEEEE----EEEEEECCCCCCCCCC-CCCCCE---EEEEEECCCCC-CCCCCCCCCEEEEEE Q ss_conf 10120689873046666503566----8878850344222111-234550---36998538886-554427310035887 Q gi|254780753|r 183 GEQGVHRLVRISPYDSNSRRHTS----FSSIWVYPVVDDSIEI-EISESD---CRIDTYRASGA-GGQHVNTTDSAVRIT 253 (355) Q Consensus 183 ~E~GvHRv~Ri~~~~s~gR~hTS----~a~V~V~P~~~~~~~i-~i~~~d---l~i~~~rssg~-ggq~vn~t~savri~ 253 (355) |||=+|| -|.||| |=||.-+|... ++. .+..+. |+ +.||..|- +-.=-++-|..|=|. T Consensus 224 ----~HRGVkV------RKMHTSRRDAF~SiN~~PiA~--~~~~~~~~~~~~~L~-~dYr~r~~~~le~~~~~EekVaLv 290 (413) T TIGR02153 224 ----VHRGVKV------RKMHTSRRDAFQSINSIPIAK--VDPKSLKEKEIEKLR-EDYRRRGEKELELDDKFEEKVALV 290 (413) T ss_pred ----EECCCEE------ECCCCCCHHHHHCCCCCCCEE--ECCCCCCCCEEEEEE-EEEEECCCCCCCCCCCCCCEEEEE T ss_conf ----9658235------036588102553158865358--817778744077754-211313776532068877137999 Q ss_pred EC Q ss_conf 46 Q gi|254780753|r 254 HI 255 (355) Q Consensus 254 H~ 255 (355) -- T Consensus 291 Kf 292 (413) T TIGR02153 291 KF 292 (413) T ss_pred EE T ss_conf 84 No 83 >PRK08786 consensus Probab=30.56 E-value=39 Score=14.54 Aligned_cols=46 Identities=17% Similarity=0.154 Sum_probs=32.4 Q ss_pred HHHHHHHHHHCCC-----CCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999870866-----002-589999999999889999999999999986 Q gi|254780753|r 22 RLSFLNTKTEDPH-----LWQ-NVIEAKMLMRERQHLDNAISFIKEIQDRLC 67 (355) Q Consensus 22 rl~eLE~~lsdp~-----fW~-D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~ 67 (355) ++-.+-..+.|+. +=. -++-|.++..++.+|+.+++..++++..+. T Consensus 170 qviD~lAL~GDsSDNIPGVpGIG~KTA~kLL~eyGsLE~I~~n~d~IkgK~~ 221 (927) T PRK08786 170 QIVDLLALMGDTVDNVPGVEKCGPKTAAKWLAEYDSLDGVIANADKIKGKIG 221 (927) T ss_pred HHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHH T ss_conf 9999999808764678999985689999999975769999999875546678 No 84 >PRK06887 consensus Probab=30.28 E-value=40 Score=14.51 Aligned_cols=88 Identities=11% Similarity=0.069 Sum_probs=47.9 Q ss_pred HHHHHHHHHHCCC-----CCC-CHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHH----CC Q ss_conf 9999999870866-----002-58999999999988999999999999-----------998639999986310----00 Q gi|254780753|r 22 RLSFLNTKTEDPH-----LWQ-NVIEAKMLMRERQHLDNAISFIKEIQ-----------DRLCDNLILLELALE----ED 80 (355) Q Consensus 22 rl~eLE~~lsdp~-----fW~-D~~kAqkl~KE~s~L~~iV~~~~~l~-----------~~l~Dl~eL~ELa~e----e~ 80 (355) ++-.+-..+.|+. +=. -++-|.++.+++.+|+.+++..+++. ..+.+-.+..-|.++ .. T Consensus 175 qiiD~lAL~GDsSDNIPGVpGIG~KTA~kLL~eyGsLe~Iy~nld~i~~~~~rg~~Kl~e~L~~~~e~a~LSk~LvtI~~ 254 (954) T PRK06887 175 LIIDYLALMGDSSDNIPGVAGVGEKTALGLLQGIGSMAEIYANLDKVAELPIRGAKKLGEKLLAEKANADLSYLLATIKT 254 (954) T ss_pred HHHHHHHHCCCCCCCCCCCCCEEHHHHHHHHHHHCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 99999997188524778878541699999999957799999869873255420057899999998998999998601455 Q ss_pred CCHH------HHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 0002------3456676555774015899887630 Q gi|254780753|r 81 DCSI------LQETSDNLQRIKLEVEYKQFESLLS 109 (355) Q Consensus 81 D~el------~eE~~~el~~l~~~le~LE~~~Lls 109 (355) |-.+ +..-......+...++++|+..+++ T Consensus 255 Dvpl~~~~~~l~~~~~d~~~L~~~f~elEFksll~ 289 (954) T PRK06887 255 DVELDVTPEQLLLGESNKDELIEYFARYEFKRWLN 289 (954) T ss_pred CCCCCCCHHHHCCCCCCHHHHHHHHHHHCCHHHHH T ss_conf 78888998994448999999999999834858999 No 85 >TIGR01219 Pmev_kin_ERG8 phosphomevalonate kinase; InterPro: IPR016005 Phosphomevalonate kinase (2.7.4.2 from EC) catalyzes the phosphorylation of 5-phosphomevalonate into 5-diphosphomevalonate, an essential step in isoprenoid biosynthesis via the mevalonate pathway. In an example of nonorthologous gene displacement, two different types of phosphomevalonate kinase are found - the higher eukaryotic form and the ERG8 type . This model represents plant and fungal forms of the ERG8 type of phosphomevalonate kinase.. Probab=30.25 E-value=40 Score=14.51 Aligned_cols=57 Identities=21% Similarity=0.285 Sum_probs=37.4 Q ss_pred HHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHH--HHHHHHHHH-HHHHHHHHHCCCCCCC Q ss_conf 763034576624899821778702778999999--989999877-5311344420545458 Q gi|254780753|r 106 SLLSGEADSNDAYLEVHAGAGGTESQDWANMLL--RMYTRWAEK-RKFKTEALEIHDGEEA 163 (355) Q Consensus 106 ~Lls~e~D~~nailEI~AGaGG~EA~dwA~~L~--rMY~r~ae~-~gwk~evi~~~~~e~~ 163 (355) .||-+-.--..++.--=|||||-+|+ |+=-+- ..-.+-+.. +.=+|-.+++++.+.| T Consensus 430 ~lLD~~~~l~GVl~~gvPGAGGfDAi-f~it~~~~d~~~~~~~~w~~~~V~~ldV~~a~~G 489 (499) T TIGR01219 430 SLLDDIESLEGVLLVGVPGAGGFDAI-FVITLNDVDLREKVIKAWKSDKVLALDVSEADDG 489 (499) T ss_pred HHHCCCCCCCCEEEEECCCCCHHHHH-HHHHHCCHHHHHHHHHHHHHCCCEEEEECCCCCC T ss_conf 34302002586368852898547899-9887402126889987564268347760458774 No 86 >COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair] Probab=30.21 E-value=40 Score=14.50 Aligned_cols=10 Identities=30% Similarity=0.743 Sum_probs=6.2 Q ss_pred CEEEEEEECC Q ss_conf 0035887469 Q gi|254780753|r 247 DSAVRITHIP 256 (355) Q Consensus 247 ~savri~H~p 256 (355) .--.+|||.| T Consensus 485 ~QVl~VTHlP 494 (557) T COG0497 485 HQVLCVTHLP 494 (557) T ss_pred CEEEEEECHH T ss_conf 6499993578 No 87 >cd06891 PX_Vps17p The phosphoinositide binding Phox Homology domain of yeast sorting nexin Vps17p. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Vsp17p forms a dimer with Vps5p, the yeast counterpart of human SNX1, and is part of the retromer complex that mediates the transport of the carboxypeptidase Y receptor Vps10p from endosomes to Golgi. Similar to Vps5p and SNX1, Vps17p harbors a Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvatur Probab=29.85 E-value=41 Score=14.46 Aligned_cols=23 Identities=26% Similarity=0.338 Sum_probs=17.1 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHH Q ss_conf 17787027789999999899998775 Q gi|254780753|r 123 AGAGGTESQDWANMLLRMYTRWAEKR 148 (355) Q Consensus 123 AGaGG~EA~dwA~~L~rMY~r~ae~~ 148 (355) +|+||+| +..-+..|.++|..+- T Consensus 99 ~g~~~~E---d~~~~~~~lQ~Wl~rV 121 (140) T cd06891 99 YGSNNEE---DARKLKANLQRWFNRV 121 (140) T ss_pred CCCCCHH---HHHHHHHHHHHHHHHH T ss_conf 8989778---9999999999999998 No 88 >KOG0081 consensus Probab=29.74 E-value=41 Score=14.45 Aligned_cols=30 Identities=33% Similarity=0.630 Sum_probs=19.5 Q ss_pred CCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCC Q ss_conf 650356688788503442221112345503699853888655 Q gi|254780753|r 199 NSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGG 240 (355) Q Consensus 199 ~gR~hTS~a~V~V~P~~~~~~~i~i~~~dl~i~~~rssg~gg 240 (355) .|+-||-|.+ ++-|+..++- -+|+|||||| T Consensus 31 D~~F~~qFIs---------TVGIDFreKr---vvY~s~gp~g 60 (219) T KOG0081 31 DGKFNTQFIS---------TVGIDFREKR---VVYNSSGPGG 60 (219) T ss_pred CCCCCCEEEE---------EEECCCCCCE---EEEECCCCCC T ss_conf 7853343577---------7401344004---7883468998 No 89 >PHA00159 endonuclease I Probab=29.48 E-value=23 Score=16.20 Aligned_cols=15 Identities=27% Similarity=0.552 Sum_probs=10.4 Q ss_pred HHHHHHHHHHHHHHH Q ss_conf 899998775311344 Q gi|254780753|r 140 MYTRWAEKRKFKTEA 154 (355) Q Consensus 140 MY~r~ae~~gwk~ev 154 (355) -|-.||+++||++-- T Consensus 108 TYa~WCeKhgf~wa~ 122 (149) T PHA00159 108 SYAEWCEKHGILFAD 122 (149) T ss_pred CHHHHHHHCCCCCCC T ss_conf 399999874997457 No 90 >CHL00100 ilvH acetohydroxyacid synthase small subunit Probab=29.47 E-value=30 Score=15.40 Aligned_cols=65 Identities=23% Similarity=0.308 Sum_probs=50.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECC-----CCCHHHEEECCEEEEEEECCCCCCCE Q ss_conf 9999899998775311344420545458501346885055-----61000001012068987304666650 Q gi|254780753|r 136 MLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGP-----NAYGWLKGEQGVHRLVRISPYDSNSR 201 (355) Q Consensus 136 ~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~-----~ayg~Lk~E~GvHRv~Ri~~~~s~gR 201 (355) .|.|+=.- +.++||+.+-+...+++..|+...|+-+.|+ ..-..|.-=--||+|.-+++.++=.| T Consensus 15 vL~RV~gl-FsrRgyNIeSL~V~~te~~~iSR~Tiv~~gd~~~ieQI~kQL~KLidVi~V~dlt~~~~v~R 84 (172) T CHL00100 15 VLTRIAGL-FARRGFNIESLAVGPAEQIGISRITMVVPGDNRTIEQLTKQLYKLVNILKVQDITNIPSVER 84 (172) T ss_pred HHHHHHHH-HHCCCCCEEEEEEECCCCCCEEEEEEEEECCHHHHHHHHHHHHCCCCEEEEEECCCCCHHHH T ss_conf 99999999-85178672369972148998159999996899999999999955827026430678445643 No 91 >cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence). Probab=29.31 E-value=41 Score=14.40 Aligned_cols=20 Identities=25% Similarity=0.552 Sum_probs=15.1 Q ss_pred HCCCCCCCHHHHHHHHHHHH Q ss_conf 08660025899999999998 Q gi|254780753|r 31 EDPHLWQNVIEAKMLMRERQ 50 (355) Q Consensus 31 sdp~fW~D~~kAqkl~KE~s 50 (355) .||.+|-||..++.+.+.+. T Consensus 115 ~DPHiWldp~~~~~~a~~I~ 134 (287) T cd01137 115 PDPHAWMSPKNAIIYVKNIA 134 (287) T ss_pred CCCCCCCCHHHHHHHHHHHH T ss_conf 99863579999999999999 No 92 >COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning] Probab=28.97 E-value=42 Score=14.36 Aligned_cols=16 Identities=38% Similarity=0.534 Sum_probs=7.5 Q ss_pred EECCCCC--CCCCCCCCCE Q ss_conf 8538886--5544273100 Q gi|254780753|r 232 TYRASGA--GGQHVNTTDS 248 (355) Q Consensus 232 ~~rssg~--ggq~vn~t~s 248 (355) .++.+|+ || ..++..+ T Consensus 645 ~~~~~G~~tGG-~~~~~~~ 662 (1163) T COG1196 645 LVEPSGSITGG-SRNKRSS 662 (1163) T ss_pred EEECCCCEECC-CCCCCCC T ss_conf 88278421068-7455430 No 93 >pfam05367 Phage_endo_I Phage endonuclease I. The bacteriophage endonuclease I is a nuclease that is selective for the structure of the four-way Holliday DNA junction. Probab=28.93 E-value=24 Score=16.09 Aligned_cols=14 Identities=43% Similarity=0.885 Sum_probs=9.6 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 89999877531134 Q gi|254780753|r 140 MYTRWAEKRKFKTE 153 (355) Q Consensus 140 MY~r~ae~~gwk~e 153 (355) .|-.||+++||++- T Consensus 108 TYa~WCeKhGf~wa 121 (149) T pfam05367 108 TYAEWCEKHGFKFA 121 (149) T ss_pred CHHHHHHHCCCCCC T ss_conf 39999987499745 No 94 >COG5491 VPS24 Conserved protein implicated in secretion [Cell motility and secretion] Probab=28.84 E-value=42 Score=14.34 Aligned_cols=65 Identities=22% Similarity=0.169 Sum_probs=42.3 Q ss_pred CCHHHHHHHHHHHHH----HHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 498999999999999----87086600258999999999988999999999999998639999986310 Q gi|254780753|r 14 FDWDNAVQRLSFLNT----KTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALE 78 (355) Q Consensus 14 fDle~~~~rl~eLE~----~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~e 78 (355) +-++....|+..+.. .++-..+-.|..++...+.|+..|..+...+....-.++-....++...+ T Consensus 52 srL~~~~sRLqs~~~~~~e~~~m~~v~~~~~~a~~~mnel~~i~ri~~~~et~~~~mE~~~~~le~m~e 120 (204) T COG5491 52 SRLDASISRLQSLDTMLFEKVVMRQVSGDMAKAAMYMNELESIRRIMQLFETQFLALELVQLRLETMDE 120 (204) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999988999999999999874107899999887999999999999999999999999999999 No 95 >TIGR02090 LEU1_arch isopropylmalate/citramalate/homocitrate synthases; InterPro: IPR011830 Methanogenic archaea contain three closely related homologs of the 2-isopropylmalate synthases (LeuA) represented by IPR005671 from INTERPRO. Two of these in Methanococcus janaschii (MJ1392 - CimA ; MJ0503 - AksA ) have been characterised as catalyzing alternative reactions leaving the third (MJ1195) as the presumptive LeuA enzyme. CimA is citramalate (2-methylmalate) synthase, which condenses acetyl-CoA with pyruvate. This enzyme is believed to be involved in the biosynthesis of isoleucine in methanogens and possibly other species lacking threonine dehydratase. AksA is a homocitrate synthase which also produces (homo)2-citrate and (homo)3-citrate in the biosynthesis of Coenzyme B which is restricted solely to methanogenic archaea. Methanogens, then should and apparently do contain all three of these enzymes. Unfortunately, phylogenetic trees do not resolve into three unambiguous clades, making assignment of function to particular genes problematic. Other archaea, which lack a threonine dehydratase (mainly Euryarchaeota), should contain both CimA and LeuA genes. This is true for archaeoglobus fulgidis, but not for the Pyrococci which have none in this clade, but one in IPR005671 from INTERPRO and one in IPR005675 from INTERPRO which may fulfil these roles. Proteins from other species, which have only one hit to this entry and lack threonine dehydratase, are very likely to be LeuA enzymes.; GO: 0046912 transferase activity transferring acyl groups acyl groups converted into alkyl on transfer, 0019752 carboxylic acid metabolic process. Probab=28.49 E-value=17 Score=17.25 Aligned_cols=15 Identities=47% Similarity=0.806 Sum_probs=9.9 Q ss_pred EECCCCCHHHEEECCEEE Q ss_conf 505561000001012068 Q gi|254780753|r 172 IKGPNAYGWLKGEQGVHR 189 (355) Q Consensus 172 I~G~~ayg~Lk~E~GvHR 189 (355) |-|++||+ +|||+|= T Consensus 276 IVGeNAFa---HEsGIHv 290 (371) T TIGR02090 276 IVGENAFA---HESGIHV 290 (371) T ss_pred CCCCCCCC---CCCHHHH T ss_conf 32565000---1103558 No 96 >PRK11895 ilvH acetolactate synthase 3 regulatory subunit; Reviewed Probab=28.48 E-value=32 Score=15.17 Aligned_cols=62 Identities=19% Similarity=0.298 Sum_probs=44.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCC-----CCHHHEEECCEEEEEEECCCCC Q ss_conf 99998999987753113444205454585013468850556-----1000001012068987304666 Q gi|254780753|r 136 MLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPN-----AYGWLKGEQGVHRLVRISPYDS 198 (355) Q Consensus 136 ~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~-----ayg~Lk~E~GvHRv~Ri~~~~s 198 (355) -|.|+=. .+.++||+.+-+...+++..|+...|+.+.|+. .-..|.-=--||.|.-..+.++ T Consensus 15 vL~Risg-lFsrRg~NI~SL~v~~te~~~iSR~Tiv~~g~~~~i~QI~kQL~KLidVi~V~dlt~~~~ 81 (161) T PRK11895 15 VLSRVAG-LFSRRGYNIESLTVAPTEDPGLSRITIVTSGDERVLEQITKQLNKLIDVLKVVDLTEEAH 81 (161) T ss_pred HHHHHHH-HHHCCCCCEEEEEEECCCCCCCEEEEEEEECCHHHHHHHHHHHHCCCCEEEEEECCCCCE T ss_conf 9999999-985068654666650247998159999996899999999999963214034664588540 No 97 >PRK08883 ribulose-phosphate 3-epimerase; Provisional Probab=28.31 E-value=43 Score=14.28 Aligned_cols=38 Identities=16% Similarity=0.135 Sum_probs=27.8 Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 48998217787027789999999899998775311344 Q gi|254780753|r 117 AYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEA 154 (355) Q Consensus 117 ailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~ev 154 (355) -+|.+.||-||..=..-+-+-.+...++...+|+++++ T Consensus 133 LvMtV~PGf~GQ~f~~~~l~Ki~~l~~~~~~~~~~~~I 170 (220) T PRK08883 133 LLMSVNPGFGGQSFIPHTLDKLRAVRKMIDASGRDIRL 170 (220) T ss_pred EEEEECCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEE T ss_conf 99874589887545577999999999988744998079 No 98 >pfam05055 DUF677 Protein of unknown function (DUF677). This family consists of AT14A like proteins from Arabidopsis thaliana. At14a has a small domain that has sequence similarities to integrins from fungi, insects and humans. Transcripts of At14a are found in all Arabidopsis tissues and localizes partly to the plasma membrane. Probab=28.22 E-value=43 Score=14.27 Aligned_cols=98 Identities=8% Similarity=0.124 Sum_probs=51.1 Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 66002589999999999889999999999999986399999863---100-00002345667655577401589988763 Q gi|254780753|r 33 PHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELA---LEE-DDCSILQETSDNLQRIKLEVEYKQFESLL 108 (355) Q Consensus 33 p~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa---~ee-~D~el~eE~~~el~~l~~~le~LE~~~Ll 108 (355) .++|+||+...=+..-...-.+..+.+..+.+-++.++.-.-+. -.. +++....+.-.+-+...+-+++|.--.-. T Consensus 56 edvw~n~eL~~LV~~YFesS~ktldfC~~Lekcv~rar~sql~I~~Al~qfe~e~~~~d~g~~~~ky~ktLeeL~~Fkaa 135 (336) T pfam05055 56 EDVWENQDLFSLVNVYFESTKKTLDFCETLENCVERAERSQLLIREAVAQFEKESLDKDVGKKKKKYEKTLEELKKFKAM 135 (336) T ss_pred HHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHC T ss_conf 98860877999999999810999999999999999987321899999987654245555430235799999999988870 Q ss_pred CCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 03457662489982177870277899999998999987 Q gi|254780753|r 109 SGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAE 146 (355) Q Consensus 109 s~e~D~~nailEI~AGaGG~EA~dwA~~L~rMY~r~ae 146 (355) .+|.|..+ |..+.-.||..+.. T Consensus 136 gnPF~~~~----------------f~~~Fq~vy~qq~~ 157 (336) T pfam05055 136 GDPFDGEE----------------FTTQFQSVYKQQVL 157 (336) T ss_pred CCCCCCHH----------------HHHHHHHHHHHHHH T ss_conf 69998189----------------99999999999999 No 99 >PRK05755 DNA polymerase I; Provisional Probab=28.12 E-value=43 Score=14.26 Aligned_cols=88 Identities=17% Similarity=0.164 Sum_probs=48.4 Q ss_pred HHHHHHHHHHCCC-----CCC-CHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHH----CCCCHH-- Q ss_conf 9999999870866-----002-589999999999889999999999999-----98639999986310----000002-- Q gi|254780753|r 22 RLSFLNTKTEDPH-----LWQ-NVIEAKMLMRERQHLDNAISFIKEIQD-----RLCDNLILLELALE----EDDCSI-- 84 (355) Q Consensus 22 rl~eLE~~lsdp~-----fW~-D~~kAqkl~KE~s~L~~iV~~~~~l~~-----~l~Dl~eL~ELa~e----e~D~el-- 84 (355) ++-.+-..+.|+. +=. -++.|.++.+++..|+.+++..+++.. .+.+-.+...+.++ ..|-.+ T Consensus 173 q~~D~~aL~GD~sDNIPGVpGIG~KtA~kLl~~ygsle~i~~~~d~i~g~k~~~~l~~~~e~a~ls~~L~ti~~dvpl~~ 252 (889) T PRK05755 173 QIIDFLALMGDSSDNIPGVPGVGEKTAAKLLKEFGSLEGLYENLDEIKGKKLKEKLRENKEQAFLSRKLATIKTDVPLDV 252 (889) T ss_pred HHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC T ss_conf 99999998088645789988626999999998678689999989852325678889846999999999856522898999 Q ss_pred --HH--HHHHHHHHHHHHHHHHHHHHHHC Q ss_conf --34--56676555774015899887630 Q gi|254780753|r 85 --LQ--ETSDNLQRIKLEVEYKQFESLLS 109 (355) Q Consensus 85 --~e--E~~~el~~l~~~le~LE~~~Lls 109 (355) .+ --......+...++++|+..|++ T Consensus 253 ~le~l~~~~~d~~~l~~lf~elEFksLlk 281 (889) T PRK05755 253 DLEDLELKPPDREKLIALLKKLEFKSLLR 281 (889) T ss_pred CHHHHCCCCCCHHHHHHHHHHHCCHHHHH T ss_conf 99992258999999999999828599999 No 100 >PRK08076 consensus Probab=27.92 E-value=44 Score=14.23 Aligned_cols=96 Identities=15% Similarity=0.151 Sum_probs=52.9 Q ss_pred CCHHHHHHH-------HHHHHHHHHCCC-----CCC-CHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHH Q ss_conf 498999999-------999999870866-----002-589999999999889999999999999-----98639999986 Q gi|254780753|r 14 FDWDNAVQR-------LSFLNTKTEDPH-----LWQ-NVIEAKMLMRERQHLDNAISFIKEIQD-----RLCDNLILLEL 75 (355) Q Consensus 14 fDle~~~~r-------l~eLE~~lsdp~-----fW~-D~~kAqkl~KE~s~L~~iV~~~~~l~~-----~l~Dl~eL~EL 75 (355) +|.+...++ +-++-..+.|+. +=. -++.|.++..++..|+.+++..+++.. .+.+-.+..-| T Consensus 160 ~~~~~v~ek~Gv~P~q~~D~~aL~GDssDNIPGVpGiG~KtA~~ll~~~gsle~i~~~~~~ikg~k~re~L~e~~e~A~L 239 (877) T PRK08076 160 YTPEALFEKYGLTPKQIIDMKGLMGDSSDNIPGVPGVGEKTAIKLLKQFGTVEEVLESIDEVSGKKLKEKLEENKEQALM 239 (877) T ss_pred CCHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHCHHHHHH T ss_conf 58999999979698999999997187646799999863799999999668668899877732644678898848999999 Q ss_pred HHH----CCCCH----H--HHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 310----00000----2--3456676555774015899887630 Q gi|254780753|r 76 ALE----EDDCS----I--LQETSDNLQRIKLEVEYKQFESLLS 109 (355) Q Consensus 76 a~e----e~D~e----l--~eE~~~el~~l~~~le~LE~~~Lls 109 (355) .++ ..|.. + +..-......+...++++|+..|++ T Consensus 240 SkeLaTI~~Dvpl~~~l~~l~~~~~d~~~L~~lf~eLEFksLl~ 283 (877) T PRK08076 240 SKELATIITDAPIEVTVDDLEYKGYEAEDVIPLFKELGFTSLLE 283 (877) T ss_pred HHHHHHHHCCCCCCCCHHHCCCCCCCHHHHHHHHHHCCHHHHHH T ss_conf 99998853189899998881757999999999999806099999 No 101 >pfam12112 DUF3579 Protein of unknown function (DUF3579). This family of proteins is functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 98 to 126 amino acids in length. This protein has a conserved FRP sequence motif. Probab=27.90 E-value=29 Score=15.55 Aligned_cols=51 Identities=16% Similarity=0.290 Sum_probs=25.3 Q ss_pred EEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEE Q ss_conf 9821778702778999999989999877531134442054545850134688 Q gi|254780753|r 120 EVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLL 171 (355) Q Consensus 120 EI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~ 171 (355) -|+.-------.|||+.|..+...|--.+...+... ..|.-.+|+|.+++. T Consensus 12 GiT~~Gk~FRPSDWaERL~Gv~a~f~~~~r~~YSp~-~~P~~~~G~kcvvvd 62 (93) T pfam12112 12 GVTRAGKTFRPSDWAERLCGVMSSFRPGGRLSYSPY-VRPGVIGGVKCVVVD 62 (93) T ss_pred EECCCCCCCCCCHHHHHHHHHHHHCCCCCCEEECCC-CCCEEECCEEEEEEC T ss_conf 673899982885299997411540089994762675-454265885799986 No 102 >PRK05797 consensus Probab=27.72 E-value=44 Score=14.21 Aligned_cols=88 Identities=18% Similarity=0.218 Sum_probs=51.1 Q ss_pred HHHHHHHHHHCCC-----CCC-CHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHH----CCCCHH-- Q ss_conf 9999999870866-----002-589999999999889999999999999-----98639999986310----000002-- Q gi|254780753|r 22 RLSFLNTKTEDPH-----LWQ-NVIEAKMLMRERQHLDNAISFIKEIQD-----RLCDNLILLELALE----EDDCSI-- 84 (355) Q Consensus 22 rl~eLE~~lsdp~-----fW~-D~~kAqkl~KE~s~L~~iV~~~~~l~~-----~l~Dl~eL~ELa~e----e~D~el-- 84 (355) ++-.+-+.+.|+. +=. -++.|.++..++.+|+.+++..+++.. .+.+-.+..-|.++ ..|-.+ T Consensus 175 q~~D~~aL~GD~sDNIPGVpGIG~KTA~kLL~eyGsLE~I~~n~deIkgkk~~e~L~e~~d~a~LSkeLvTI~~Dvpl~~ 254 (869) T PRK05797 175 QFIDVKGLMGDKSDNIPGVPGIGEKTAFKLIKEYGSIENVLENIDNIKGKKLKENLEENREQAIFSKKLATIMRNVPIEI 254 (869) T ss_pred HHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC T ss_conf 99999998088645789999878189999998678788999878850538899999954888899877774111798899 Q ss_pred -HHHHH----HHHHHHHHHHHHHHHHHHHC Q ss_conf -34566----76555774015899887630 Q gi|254780753|r 85 -LQETS----DNLQRIKLEVEYKQFESLLS 109 (355) Q Consensus 85 -~eE~~----~el~~l~~~le~LE~~~Lls 109 (355) ++++. -....+...++++|+..|++ T Consensus 255 ~le~l~~~~~~d~~~L~~~f~elEFksLl~ 284 (869) T PRK05797 255 DLEEIKSKEEYDIEKLRELFEKLEFKSLID 284 (869) T ss_pred CHHHHCCCCCCCHHHHHHHHHHHCCHHHHH T ss_conf 989951478899999999999826599999 No 103 >TIGR02898 spore_YhcN_YlaJ sporulation lipoprotein, YhcN/YlaJ family; InterPro: IPR014247 This entry contains YhcN and YlaJ, which are predicted lipoproteins that have been detected as spore proteins but not vegetative proteins in Bacillus subtilis. Both appear to be expressed under control of the RNA polymerase sigma-G factor. The YlaJ-like members of this family have a low-complexity, strongly acidic, 40-residue C-terminal domain. . Probab=27.62 E-value=32 Score=15.23 Aligned_cols=20 Identities=40% Similarity=0.639 Sum_probs=15.5 Q ss_pred CC-CCCEEEEEEEEECCCCCH Q ss_conf 54-585013468850556100 Q gi|254780753|r 160 GE-EAGIKSATLLIKGPNAYG 179 (355) Q Consensus 160 ~e-~~GiK~~~~~I~G~~ayg 179 (355) .+ .-|||.|++-|.|.+||= T Consensus 81 a~k~~gvk~A~vvi~g~~A~V 101 (185) T TIGR02898 81 AKKVKGVKDATVVITGNRAYV 101 (185) T ss_pred HHHCCCCCEEEEEEECCEEEE T ss_conf 862788621148874681589 No 104 >pfam02403 Seryl_tRNA_N Seryl-tRNA synthetase N-terminal domain. This domain is found associated with the Pfam tRNA synthetase class II domain (pfam00587) and represents the N-terminal domain of seryl-tRNA synthetase. Probab=27.48 E-value=44 Score=14.18 Aligned_cols=55 Identities=16% Similarity=0.147 Sum_probs=34.1 Q ss_pred HCCHHHHHHHHHHHHHHHHCCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 54989999999999998708660-02589999999999889999999999999986 Q gi|254780753|r 13 LFDWDNAVQRLSFLNTKTEDPHL-WQNVIEAKMLMRERQHLDNAISFIKEIQDRLC 67 (355) Q Consensus 13 ~fDle~~~~rl~eLE~~lsdp~f-W~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~ 67 (355) |+|+.-++...+.+...+..-++ -.+.+....+-.+...+...++.+..-.+.+. T Consensus 1 MlDik~ir~n~~~v~~~l~~R~~~~~~~~~i~~ld~~~r~~~~~~e~L~~~~N~~s 56 (108) T pfam02403 1 MLDIKLIRENPEAVKEKLRKRGVDVLDVDELLELDEERRELQVELEELQAERNELS 56 (108) T ss_pred CCCHHHHHCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 98889988099999999988299887899999999999999999999999985989 No 105 >PRK08566 DNA-directed RNA polymerase subunit alpha; Validated Probab=27.24 E-value=44 Score=14.21 Aligned_cols=31 Identities=19% Similarity=0.195 Sum_probs=15.8 Q ss_pred CCCCHHHEEECCEEEEEEECCCCCCCE-EEEEEEEEEE Q ss_conf 561000001012068987304666650-3566887885 Q gi|254780753|r 175 PNAYGWLKGEQGVHRLVRISPYDSNSR-RHTSFSSIWV 211 (355) Q Consensus 175 ~~ayg~Lk~E~GvHRv~Ri~~~~s~gR-~hTS~a~V~V 211 (355) .+....|++-.|--|- +=.|+ +-=|+-||.. T Consensus 298 k~i~q~L~gK~GrfR~------nlmGKRVd~saRSVIs 329 (881) T PRK08566 298 KTLAQRLKGKEGRFRG------NLSGKRVNFSARTVIS 329 (881) T ss_pred CCHHHHHCCCCCEEEC------CCCCCCCCCCCEEEEC T ss_conf 4188885466630100------2244533554303432 No 106 >PRK07737 fliD flagellar capping protein; Validated Probab=25.89 E-value=47 Score=13.99 Aligned_cols=58 Identities=17% Similarity=0.189 Sum_probs=45.8 Q ss_pred HHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999998865498999999999999870866002589999999999889999999999999986399999 Q gi|254780753|r 5 RQLNCLGGLFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILL 73 (355) Q Consensus 5 ~rl~~l~~~fDle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ 73 (355) -|+.-+++-||++.+...|-+.|.. | ..++.++...++..+..|..+++.+..+.... T Consensus 3 ~ri~GlgSGlD~~~iV~~Lv~aE~~---------p--~~~l~~~~~~~~~k~sa~~~l~s~l~~l~~~~ 60 (502) T PRK07737 3 TRITGLASGMDIDDIVSKLMKTERA---------P--LDKLTQKKQTLEWQRDSYREVNTKIKDLDDYI 60 (502) T ss_pred EECCEEECCCCHHHHHHHHHHHHHH---------H--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 3433034387899999999999998---------8--88999999999999999999999999999999 No 107 >TIGR00845 caca sodium/calcium exchanger 1; InterPro: IPR004836 Na^+/Ca^2+ exchange proteins are involved in maintaining Ca^2+ homeostasis in a wide variety of cell types. They are found in both the plasma membrane and intracellular organellar membranes, where they exchange Na^+ for Ca^2+ in an electrogenic manner. When located in the plasma membrane, they generally utilise the transmembrane (TM) Na^+ concentration gradient in order to extrude Ca^2+ from cells. Three mammalian isoforms have been cloned to date (NCX1-3), which consist of 920-970 amino acid residues that are predicted to possess 11 or 12 TM domains. Interestingly, they possess a short motif (~30 residues) that is similar to the Na^+/K^+-ATPase, although its function is unknown , . NCX1 has been found to be predominantly expressed in the heart, where it plays an important role in excitation-contraction coupling, but it is also abundant in a variety of other tissues . NCX2 and NCX3 transcripts have been detected in the brain and skeletal muscle , . Homologous Na^+/Ca^2+ exchange proteins have also been found in Caenorhabditis elegans, Drosophila melanogaster and Loligo opalescens (California market squid). ; GO: 0005432 calcium:sodium antiporter activity, 0006816 calcium ion transport, 0016020 membrane. Probab=25.12 E-value=49 Score=13.89 Aligned_cols=35 Identities=26% Similarity=0.463 Sum_probs=22.4 Q ss_pred EEEEEEECCCCCCC--------CCCCCCC--CEEEEEEECCCCCCCC Q ss_conf 68878850344222--------1112345--5036998538886554 Q gi|254780753|r 205 SFSSIWVYPVVDDS--------IEIEISE--SDCRIDTYRASGAGGQ 241 (355) Q Consensus 205 S~a~V~V~P~~~~~--------~~i~i~~--~dl~i~~~rssg~ggq 241 (355) .+|||.||- ||. ..++|.+ -.+.+.++|.|||-|. T Consensus 573 ~~ATv~ILD--DDHAGIF~f~~~~~~V~Es~G~~evkv~R~SGARG~ 617 (1067) T TIGR00845 573 LLATVMILD--DDHAGIFTFEEDVFHVSESIGELEVKVLRTSGARGT 617 (1067) T ss_pred CEEEEEEEE--CCCCCCCCEECCEEEEEEEEEEEEEEEEECCCCCCC T ss_conf 546888874--588863213246589976665799999963688221 No 108 >PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional Probab=24.57 E-value=25 Score=15.95 Aligned_cols=38 Identities=13% Similarity=0.259 Sum_probs=22.4 Q ss_pred EEEEEECCCC---CHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHCCC Q ss_conf 4899821778---70277899999998999987-----7531134442054 Q gi|254780753|r 117 AYLEVHAGAG---GTESQDWANMLLRMYTRWAE-----KRKFKTEALEIHD 159 (355) Q Consensus 117 ailEI~AGaG---G~EA~dwA~~L~rMY~r~ae-----~~gwk~evi~~~~ 159 (355) .+|--+|==| |++ ..|..+|..+.+ -.||++-|+.-.+ T Consensus 309 Gliv~NPPYGERLge~-----~~L~~LY~~lG~~lK~~f~GW~~~ilT~~~ 354 (716) T PRK11783 309 GLVISNPPYGERLGEE-----PALIALYSQLGRRLKKQFGGWNAALFSSSP 354 (716) T ss_pred CEEEECCCHHCCCCCC-----HHHHHHHHHHHHHHHHHCCCCEEEEEECCH T ss_conf 2899678522013661-----468999999999999658998699997888 No 109 >pfam04800 ETC_C1_NDUFA4 ETC complex I subunit conserved region. Family of pankaryotic NADH-ubiquinone oxidoreductase subunits (EC:1.6.5.3) (EC:1.6.99.3) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein. Probab=24.57 E-value=22 Score=16.35 Aligned_cols=17 Identities=18% Similarity=0.327 Sum_probs=11.1 Q ss_pred HHHHHHHHHHHHHHHCC Q ss_conf 99987753113444205 Q gi|254780753|r 142 TRWAEKRKFKTEALEIH 158 (355) Q Consensus 142 ~r~ae~~gwk~evi~~~ 158 (355) ..||+++||.++|++.. T Consensus 62 i~YA~k~gi~y~V~ep~ 78 (101) T pfam04800 62 IAFAERQGWEYDVEEPN 78 (101) T ss_pred HHHHHHCCCEEEEECCC T ss_conf 99999849828995788 No 110 >COG1225 Bcp Peroxiredoxin [Posttranslational modification, protein turnover, chaperones] Probab=24.55 E-value=28 Score=15.57 Aligned_cols=86 Identities=26% Similarity=0.370 Sum_probs=48.2 Q ss_pred CEEEEEECC--CCC--HHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEE Q ss_conf 248998217--787--02778999999989------------------99987753113444205454585013468850 Q gi|254780753|r 116 DAYLEVHAG--AGG--TESQDWANMLLRMY------------------TRWAEKRKFKTEALEIHDGEEAGIKSATLLIK 173 (355) Q Consensus 116 nailEI~AG--aGG--~EA~dwA~~L~rMY------------------~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~ 173 (355) .++|-.-|. +-| +|||+|-..+ ..+ .+|++++|.++.+++=..+..+ T Consensus 32 ~VVLyFYPk~~TpgCT~Ea~~Frd~~-~ef~~~~a~V~GIS~Ds~~~~~~F~~k~~L~f~LLSD~~~~v~---------- 100 (157) T COG1225 32 PVVLYFYPKDFTPGCTTEACDFRDLL-EEFEKLGAVVLGISPDSPKSHKKFAEKHGLTFPLLSDEDGEVA---------- 100 (157) T ss_pred CEEEEECCCCCCCCCHHHHHHHHHHH-HHHHHCCCEEEEEECCCHHHHHHHHHHHCCCCEEEECCCHHHH---------- T ss_conf 28999878899985169999999989-9998679789998089989999999982998556679737899---------- Q ss_pred CCCCCHHHEEEC-------CEEEEEEECCCCCCCEEEEEEEEEEECCCCC Q ss_conf 556100000101-------2068987304666650356688788503442 Q gi|254780753|r 174 GPNAYGWLKGEQ-------GVHRLVRISPYDSNSRRHTSFSSIWVYPVVD 216 (355) Q Consensus 174 G~~ayg~Lk~E~-------GvHRv~Ri~~~~s~gR~hTS~a~V~V~P~~~ 216 (355) .+||-.+-.. |++|..-| .|.+|++--.+--|-+-|.++ T Consensus 101 --~~ygv~~~k~~~gk~~~~~~R~Tfv--Id~dG~I~~~~~~v~~~~h~~ 146 (157) T COG1225 101 --EAYGVWGEKKMYGKEYMGIERSTFV--IDPDGKIRYVWRKVKVKGHAD 146 (157) T ss_pred --HHHCCCCCCCCCCCCCCCCCCEEEE--ECCCCEEEEEECCCCCCCCHH T ss_conf --9848663134576423322334899--899986999965899766199 No 111 >pfam11926 DUF3444 Domain of unknown function (DUF3444). This presumed domain is functionally uncharacterized. This domain is found in eukaryotes. This domain is about 210 amino acids in length. This domain is found associated with pfam00226. This domain has two conserved sequence motifs: FSH and FSH. Probab=23.99 E-value=28 Score=15.65 Aligned_cols=23 Identities=13% Similarity=0.190 Sum_probs=13.2 Q ss_pred HHHCCC----CCCCCEEEEEECCCCCH Q ss_conf 763034----57662489982177870 Q gi|254780753|r 106 SLLSGE----ADSNDAYLEVHAGAGGT 128 (355) Q Consensus 106 ~Lls~e----~D~~nailEI~AGaGG~ 128 (355) .+||.. .....-..+|.|-.|-+ T Consensus 103 ~~FSH~v~~~~~~~r~~y~IyP~kGEV 129 (216) T pfam11926 103 SMFSHQVVPEKKGRRNEYRIYPRKGEV 129 (216) T ss_pred CCEEEEEEEEECCCCCEEEEECCCCCE T ss_conf 601578564665897679997998766 No 112 >KOG3083 consensus Probab=23.97 E-value=51 Score=13.74 Aligned_cols=18 Identities=39% Similarity=0.434 Sum_probs=14.5 Q ss_pred CCCCCCCCCCCCEEEEEEECC Q ss_conf 886554427310035887469 Q gi|254780753|r 236 SGAGGQHVNTTDSAVRITHIP 256 (355) Q Consensus 236 sg~ggq~vn~t~savri~H~p 256 (355) +-.--|+||.| .||.|.| T Consensus 81 GskdLQ~VniT---lril~rp 98 (271) T KOG3083 81 GSKDLQNVNIT---LRILFRP 98 (271) T ss_pred CCHHHHCCCCE---EEEEECC T ss_conf 73020105405---8999603 No 113 >PRK11020 hypothetical protein; Provisional Probab=23.85 E-value=51 Score=13.73 Aligned_cols=61 Identities=20% Similarity=0.285 Sum_probs=42.0 Q ss_pred CHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHH Q ss_conf 989999999999998708660025899999999998899999999999999--8639999986 Q gi|254780753|r 15 DWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDR--LCDNLILLEL 75 (355) Q Consensus 15 Dle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~--l~Dl~eL~EL 75 (355) ++..+..||+.+..++....--.|+.......+|+..|...|..++..++. -.+...+..| T Consensus 6 Elq~L~drLD~~r~Klaaa~~rgd~~~i~qf~~E~~~l~k~I~~lk~~q~~~lske~~~l~~l 68 (118) T PRK11020 6 EIKRLSDRLDAIRHKLAAASLRGDADKIAQFEKEKATLEKEIARLKEVQSQKLSKEAQKLMKL 68 (118) T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 999998899999998899997478899999999999999999999889999988989998738 No 114 >KOG0544 consensus Probab=23.75 E-value=35 Score=14.91 Aligned_cols=32 Identities=25% Similarity=0.281 Sum_probs=23.4 Q ss_pred HHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCHHHEE Q ss_conf 7531134442054545850134688505561000001 Q gi|254780753|r 147 KRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKG 183 (355) Q Consensus 147 ~~gwk~evi~~~~~e~~GiK~~~~~I~G~~ayg~Lk~ 183 (355) -+||.--+.-.|-|+.+ -+.|+.+||||--.+ T Consensus 57 IkGwdegv~qmsvGeka-----kLti~pd~aYG~~G~ 88 (108) T KOG0544 57 IKGWDEGVAQMSVGEKA-----KLTISPDYAYGPRGH 88 (108) T ss_pred EECHHHCCHHCCCCCCC-----EEEECCCCCCCCCCC T ss_conf 60322321011536401-----016576312277888 No 115 >cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding. Probab=23.25 E-value=46 Score=14.07 Aligned_cols=72 Identities=19% Similarity=0.318 Sum_probs=38.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC----------CCEEEEEEEEECCCCCHHHEEECCEEEEEEECCCCCCCE Q ss_conf 8999999989999877531134442054545----------850134688505561000001012068987304666650 Q gi|254780753|r 132 DWANMLLRMYTRWAEKRKFKTEALEIHDGEE----------AGIKSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNSR 201 (355) Q Consensus 132 dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~----------~GiK~~~~~I~G~~ayg~Lk~E~GvHRv~Ri~~~~s~gR 201 (355) .=+..|+.-|..+|..++-+++++-...++. -|+. .-|-|.-..|.++ |.-+-|..-+.-- T Consensus 61 ~~~~~ll~~~~~~C~~~~V~~e~~v~e~~d~~~~I~e~v~~~~i~---~LVmGs~~~~~~~------r~~~gs~vs~~v~ 131 (146) T cd01989 61 KEAKELLLPYRCFCSRKGVQCEDVVLEDDDVAKAIVEYVADHGIT---KLVMGASSDNHFS------MKFKKSDVASSVL 131 (146) T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHHHHCCCC---EEEECCCCCCCEE------EECCCCCHHHHHH T ss_conf 999999999999998759728999983488889999999975998---9998627998514------5121786778998 Q ss_pred EEE-EEEEEEEC Q ss_conf 356-68878850 Q gi|254780753|r 202 RHT-SFSSIWVY 212 (355) Q Consensus 202 ~hT-S~a~V~V~ 212 (355) +|. +|+.|.|. T Consensus 132 ~~ap~~C~V~vV 143 (146) T cd01989 132 KEAPDFCTVYVV 143 (146) T ss_pred HCCCCCCEEEEE T ss_conf 379999859999 No 116 >PRK05014 hscB co-chaperone HscB; Provisional Probab=23.00 E-value=53 Score=13.61 Aligned_cols=60 Identities=10% Similarity=0.055 Sum_probs=31.6 Q ss_pred CCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 49899999999999987086600258999999999988999999999999998639999986 Q gi|254780753|r 14 FDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLEL 75 (355) Q Consensus 14 fDle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~EL 75 (355) +|...+..++..|..+.-=--|-+.+..-+.++-+.+.+ +=+.|..|++-+.-..=|+++ T Consensus 15 iD~~~L~~~y~~Lq~~~HPDkf~~~~~~e~~~a~~~ss~--iN~AY~tLk~pl~RA~yLL~L 74 (171) T PRK05014 15 IDTQLLSLRYQELQRQVHPDKFANASEREQLAAVQQAAQ--INDAYQTLKHPLSRAEYMLSL 74 (171) T ss_pred CCHHHHHHHHHHHHHHHCHHHCCCCCHHHHHHHHHHHHH--HHHHHHHHCCHHHHHHHHHHH T ss_conf 799999999999999869774058989999999999999--999999974889989999998 No 117 >KOG2148 consensus Probab=22.90 E-value=53 Score=13.60 Aligned_cols=14 Identities=43% Similarity=0.707 Sum_probs=11.1 Q ss_pred CCHHHHHHHHHHHH Q ss_conf 87027789999999 Q gi|254780753|r 126 GGTESQDWANMLLR 139 (355) Q Consensus 126 GG~EA~dwA~~L~r 139 (355) -|.|||.||+.-++ T Consensus 306 ~~ieact~aA~al~ 319 (867) T KOG2148 306 QGIEACTWAAKALR 319 (867) T ss_pred HHHHHHHHHHHHHH T ss_conf 10799999999999 No 118 >PRK07081 acyl carrier protein; Provisional Probab=22.71 E-value=1.3 Score=25.09 Aligned_cols=32 Identities=19% Similarity=0.427 Sum_probs=14.6 Q ss_pred EEEEEEEECCCCCCCCCCCCCCCEEEEEEECC Q ss_conf 66887885034422211123455036998538 Q gi|254780753|r 204 TSFSSIWVYPVVDDSIEIEISESDCRIDTYRA 235 (355) Q Consensus 204 TS~a~V~V~P~~~~~~~i~i~~~dl~i~~~rs 235 (355) ||+++|.+|-.+++..+|+|++.-|.-.+|+| T Consensus 34 sSl~tV~lMLaiEd~FdIeiPd~~L~r~~F~S 65 (83) T PRK07081 34 SSLATVQLMLAIEDEFDIEIPDEMLNRKLFRS 65 (83) T ss_pred CHHHHHHHHHHHHHHHCCCCCHHHHCHHHHHH T ss_conf 27999999999999829808878838998865 No 119 >TIGR01169 rplA_bact ribosomal protein L1; InterPro: IPR005878 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . Ribosomal protein L1 is the largest protein from the large ribosomal subunit. In Escherichia coli, L1 is known to bind to the 23S rRNA. This model describe s bacterial and chloroplast ribosomal protein L1. Most mitochondrial L1 sequences are sufficiently divergent to be the contained in a different entry (IPR005879 from INTERPRO).; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit. Probab=21.96 E-value=19 Score=16.84 Aligned_cols=48 Identities=31% Similarity=0.513 Sum_probs=34.2 Q ss_pred CCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECCCH------HHHHHHHHHHHHHHHH Q ss_conf 442221112345503699853888655442731003588746974------7766555552246799 Q gi|254780753|r 214 VVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTG------VVVQCQQERSQHKNKA 274 (355) Q Consensus 214 ~~~~~~~i~i~~~dl~i~~~rssg~ggq~vn~t~savri~H~ptg------i~v~~q~~rsq~~Nk~ 274 (355) ..|+++||.|+ |-||+-.|. |+|+-| | -+|-| +.|.|++++-.-+--+ T Consensus 35 KFDeTVeva~~---LG~DprKsD----Q~vRG~---v---vLP~GtGK~~RVaVfa~G~~~~eA~~A 88 (227) T TIGR01169 35 KFDETVEVAIR---LGIDPRKSD----QQVRGT---V---VLPHGTGKTVRVAVFAKGEKAKEAKAA 88 (227) T ss_pred CCCCEEEEEEE---CCCCCCCCC----CEEEEE---E---ECCCCCCCCEEEEEECCCHHHHHHHHC T ss_conf 43341788887---475885378----305113---8---657677862589997164348889870 No 120 >PRK07417 arogenate dehydrogenase; Reviewed Probab=21.91 E-value=56 Score=13.47 Aligned_cols=13 Identities=15% Similarity=0.373 Sum_probs=5.2 Q ss_pred CEEEEEECCCCCHHHH Q ss_conf 2489982177870277 Q gi|254780753|r 116 DAYLEVHAGAGGTESQ 131 (355) Q Consensus 116 nailEI~AGaGG~EA~ 131 (355) +|+|. -.|++-.. T Consensus 85 ~~iit---Dv~SvK~~ 97 (280) T PRK07417 85 EAIVT---DVGSVKEP 97 (280) T ss_pred CCEEE---ECHHHHHH T ss_conf 84899---65223078 No 121 >KOG1760 consensus Probab=21.85 E-value=56 Score=13.46 Aligned_cols=45 Identities=20% Similarity=0.167 Sum_probs=25.4 Q ss_pred CCCCHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 00258999999999---9889999999999999986399999863100 Q gi|254780753|r 35 LWQNVIEAKMLMRE---RQHLDNAISFIKEIQDRLCDNLILLELALEE 79 (355) Q Consensus 35 fW~D~~kAqkl~KE---~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee 79 (355) .|-|+.+..+.++- ...++.-++..+.....++|...=++|+.++ T Consensus 15 t~EDQq~iN~Fsrl~~R~~~lk~dik~~k~~~enledA~~EieL~Ded 62 (131) T KOG1760 15 TFEDQQNINEFSRLNSRKDDLKADIKEAKTEIENLEDASNEIELLDED 62 (131) T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 488799899999987358899999999999998799877667322766 No 122 >KOG4657 consensus Probab=21.84 E-value=56 Score=13.46 Aligned_cols=75 Identities=19% Similarity=0.215 Sum_probs=42.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCCCCCEE Q ss_conf 999999999988999999999999998639999986310000002345667655577401589988-7630345766248 Q gi|254780753|r 40 IEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQETSDNLQRIKLEVEYKQFE-SLLSGEADSNDAY 118 (355) Q Consensus 40 ~kAqkl~KE~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D~el~eE~~~el~~l~~~le~LE~~-~Lls~e~D~~nai 118 (355) ..|+.++.....++..+..+.+.++.+....+|+ .+.++.. .-++.++..+...++.++.. .+++.++|+.-+| T Consensus 48 efar~lS~~~~e~e~l~~~l~etene~~~~neL~---~ek~~~q--~~ieqeik~~q~elEvl~~n~Q~lkeE~dd~kei 122 (246) T KOG4657 48 EFARALSQSQVELENLKADLRETENELVKVNELK---TEKEARQ--MGIEQEIKATQSELEVLRRNLQLLKEEKDDSKEI 122 (246) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 9999988878999999999999999999999999---8888888--8789998888999999999888889875169999 Q ss_pred E Q ss_conf 9 Q gi|254780753|r 119 L 119 (355) Q Consensus 119 l 119 (355) | T Consensus 123 I 123 (246) T KOG4657 123 I 123 (246) T ss_pred H T ss_conf 9 No 123 >pfam00834 Ribul_P_3_epim Ribulose-phosphate 3 epimerase family. This enzyme catalyses the conversion of D-ribulose 5-phosphate into D-xylulose 5-phosphate. Probab=21.71 E-value=56 Score=13.44 Aligned_cols=58 Identities=21% Similarity=0.320 Sum_probs=36.1 Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEE----------EEEEEECCCCCH Q ss_conf 489982177870277899999998999987753113444205454585013----------468850556100 Q gi|254780753|r 117 AYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKS----------ATLLIKGPNAYG 179 (355) Q Consensus 117 ailEI~AGaGG~EA~dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~----------~~~~I~G~~ayg 179 (355) -+|.+.||-||..=..-+-.-.+-..++...+|+++++. .. ||++. |-.-|.|.+.|+ T Consensus 132 LvMtV~PGf~GQ~f~~~~l~KI~~lr~~~~~~~~~~~I~--vD---GGIn~~ti~~l~~~Gad~~V~GSaiF~ 199 (201) T pfam00834 132 LLMSVNPGFGGQSFIPSVLPKIRKVRKMIDEGGLDTLIE--VD---GGVNLDNIPQIAEAGADVLVAGSAVFG 199 (201) T ss_pred EEEEECCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEE--EE---CCCCHHHHHHHHHCCCCEEEECCEECC T ss_conf 998866898876456779999999999998269980799--98---988899999999879999997800245 No 124 >KOG1290 consensus Probab=21.38 E-value=35 Score=14.93 Aligned_cols=42 Identities=12% Similarity=0.202 Sum_probs=20.4 Q ss_pred CCCCC-CCCEEEEE-----ECCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 03457-66248998-----21778702778999999989999877531 Q gi|254780753|r 109 SGEAD-SNDAYLEV-----HAGAGGTESQDWANMLLRMYTRWAEKRKF 150 (355) Q Consensus 109 s~e~D-~~nailEI-----~AGaGG~EA~dwA~~L~rMY~r~ae~~gw 150 (355) .||.| .+.|+|.+ ++|.-|.--|.--+-|=.=-++|..+-+| T Consensus 134 ~Dp~~~~~~~VV~LlD~FkhsGpNG~HVCMVfEvLGdnLLklI~~s~Y 181 (590) T KOG1290 134 GDPNDPGKKCVVQLLDHFKHSGPNGQHVCMVFEVLGDNLLKLIKYSNY 181 (590) T ss_pred CCCCCCCCCEEEEEECCCEECCCCCCEEEEEEHHHHHHHHHHHHHHCC T ss_conf 598889973356630101313788747998816530679999998177 No 125 >pfam07851 TMPIT TMPIT-like protein. A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. Probab=21.37 E-value=57 Score=13.39 Aligned_cols=43 Identities=16% Similarity=0.244 Sum_probs=29.2 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCC Q ss_conf 000002345667655577401589988763034576624899821778 Q gi|254780753|r 79 EDDCSILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAGAG 126 (355) Q Consensus 79 e~D~el~eE~~~el~~l~~~le~LE~~~Lls~e~D~~nailEI~AGaG 126 (355) +++.+.++++.+++.+-...+.+.| ..||+ .++.++.+--|.= T Consensus 64 ~E~~~~~~~l~~~i~~r~~~l~dme-~~LP~----~nG~yL~l~LG~v 106 (330) T pfam07851 64 PEDSELVEQLEEQIKERKNQFFDME-SFLPK----KNGLYLRLVLGNV 106 (330) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHCCC----CCCEEEEEECCCC T ss_conf 7789999999999999999999998-64886----5886422111565 No 126 >cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Probab=21.33 E-value=57 Score=13.39 Aligned_cols=94 Identities=15% Similarity=-0.005 Sum_probs=50.5 Q ss_pred HHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHH Q ss_conf 99988654989999999999998708660025899999999-99889999999999999986399999863100000023 Q gi|254780753|r 7 LNCLGGLFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMR-ERQHLDNAISFIKEIQDRLCDNLILLELALEEDDCSIL 85 (355) Q Consensus 7 l~~l~~~fDle~~~~rl~eLE~~lsdp~fW~D~~kAqkl~K-E~s~L~~iV~~~~~l~~~l~Dl~eL~ELa~ee~D~el~ 85 (355) +.++-..+.+....-|+-|=.-.+..|.-- ...++-... .+..| ..|..+..+--.++++.+++.+....+-.++. T Consensus 3 IgevA~~~gvs~~TlRyYE~~GLl~~~~R~--~~gyR~Y~~~~l~rL-~~I~~~r~~G~sL~eI~~ll~~~~~~~~~~~~ 79 (126) T cd04783 3 IGELAKAAGVNVETIRYYQRRGLLPEPPRP--EGGYRRYPEETVTRL-RFIKRAQELGFTLDEIAELLELDDGTDCSEAR 79 (126) T ss_pred HHHHHHHHCCCHHHHHHHHHCCCCCCCCCC--CCCCCCCCHHHHHHH-HHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHH T ss_conf 899999989398999999986998876318--999601779999999-99999998799899999997425699979999 Q ss_pred HHHHHHHHHHHHHHHHHH Q ss_conf 456676555774015899 Q gi|254780753|r 86 QETSDNLQRIKLEVEYKQ 103 (355) Q Consensus 86 eE~~~el~~l~~~le~LE 103 (355) +.+...+..+...+.+|+ T Consensus 80 ~~l~~~~~~i~~~I~~L~ 97 (126) T cd04783 80 ELAEQKLAEVDEKIADLQ 97 (126) T ss_pred HHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999 No 127 >cd01145 TroA_c Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains. Probab=21.04 E-value=58 Score=13.35 Aligned_cols=13 Identities=31% Similarity=0.764 Sum_probs=5.1 Q ss_pred CCCCCCCHHHHHH Q ss_conf 8660025899999 Q gi|254780753|r 32 DPHLWQNVIEAKM 44 (355) Q Consensus 32 dp~fW~D~~kAqk 44 (355) ||.+|-||..+.. T Consensus 107 dPH~Wldp~~~~~ 119 (203) T cd01145 107 NPHVWLDPNNAPA 119 (203) T ss_pred CCEECCCHHHHHH T ss_conf 9801479999999 No 128 >KOG4181 consensus Probab=21.00 E-value=22 Score=16.37 Aligned_cols=71 Identities=20% Similarity=0.161 Sum_probs=34.5 Q ss_pred CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCC Q ss_conf 73100358874697477665555522467999999999999999999999999998741332332221013015856833 Q gi|254780753|r 244 NTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWGRQIRSYVLQPYQMV 323 (355) Q Consensus 244 n~t~savri~H~ptgi~v~~q~~rsq~~Nk~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~g~~iRtY~~~p~~~v 323 (355) |-.++|.-+-|.-|...|-.- ---|..-|..-|.+|.+--. + .--|+|+|-|+.+- T Consensus 173 ~~~d~a~~ll~~~tdf~VIgv-lG~QgsGKStllslLaans~--------------~---------~dyr~yvFRpvS~E 228 (491) T KOG4181 173 IFNDNARKLLHKTTDFTVIGV-LGGQGSGKSTLLSLLAANSL--------------D---------YDYRQYVFRPVSPE 228 (491) T ss_pred CHHHHHHHHHHCCCCEEEEEE-ECCCCCCHHHHHHHHHCCCH--------------H---------HHHHHHHCCCCCHH T ss_conf 123689999614898169974-04777548899999842684--------------7---------76677730357855 Q ss_pred CCCCCCCEECCHHHH Q ss_conf 111147250797787 Q gi|254780753|r 324 KDLRTNIEKTSPSDV 338 (355) Q Consensus 324 ~DhR~~~~~~~~~~v 338 (355) -|-+++.+++.++-+ T Consensus 229 a~E~~~~qt~~Id~~ 243 (491) T KOG4181 229 ADECIFAQTHKIDPN 243 (491) T ss_pred HHHHHCCCEECCCCC T ss_conf 666530320033655 No 129 >COG3978 Acetolactate synthase (isozyme II), small (regulatory) subunit [Function unknown] Probab=20.24 E-value=60 Score=13.23 Aligned_cols=52 Identities=17% Similarity=0.248 Sum_probs=42.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCHHHEE Q ss_conf 8999999989999877531134442054545850134688505561000001 Q gi|254780753|r 132 DWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKG 183 (355) Q Consensus 132 dwA~~L~rMY~r~ae~~gwk~evi~~~~~e~~GiK~~~~~I~G~~ayg~Lk~ 183 (355) .|+..++.=-+|--+.+||.+--++.++.-.||.-++-+.|.|+.++..|.. T Consensus 11 r~~pe~leRVLrvtrhRGF~vcamnmt~~~da~~~nie~tV~s~R~~~lL~~ 62 (86) T COG3978 11 RFNPETLERVLRVTRHRGFRVCAMNMTAAVDAGNANIELTVDSDRSVDLLTS 62 (86) T ss_pred CCCHHHHHHHHHHHHHCCEEEEEEECCCCCCCCCCEEEEEECCCCCHHHHHH T ss_conf 6795899999988651575999852531123663059999858988689999 No 130 >cd06145 REX1_like This subfamily is composed of RNA exonuclease 1 (REX1 or Rex1p), REX3 (or Rex3p), and similar eukaryotic proteins. In yeast, REX1 and REX3 are required for 5S rRNA and MRP (mitochondrial RNA processing) RNA maturation, respectively. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. REX1 is the major exonuclease responsible for pre-tRNA trail trimming and may also be involved in nuclear CCA turnover. REX proteins function in the processing and maturation of many RNA species, similar to the function of E.coli RNase T. Probab=20.07 E-value=44 Score=14.18 Aligned_cols=13 Identities=31% Similarity=0.580 Sum_probs=9.0 Q ss_pred EEEEECCCCCCCE Q ss_conf 8987304666650 Q gi|254780753|r 189 RLVRISPYDSNSR 201 (355) Q Consensus 189 Rv~Ri~~~~s~gR 201 (355) -|.|||..|..|. T Consensus 15 ~LaRvsvVd~~g~ 27 (150) T cd06145 15 ELTRVTVVDENGK 27 (150) T ss_pred EEEEEEEECCCCC T ss_conf 8999999938998 Done!