Query gi|254780529|ref|YP_003064942.1| flagellar motor protein MotB [Candidatus Liberibacter asiaticus str. psy62] Match_columns 343 No_of_seqs 156 out of 4336 Neff 9.8 Searched_HMMs 33803 Date Wed Jun 1 19:37:12 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780529.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >2zov_A Chemotaxis protein MOT 100.0 4.6E-28 1.4E-32 206.0 17.4 130 211-341 49-181 (210) 2 >2zvy_A Chemotaxis protein MOT 100.0 1.6E-26 4.7E-31 195.7 19.6 129 212-341 39-170 (183) 3 >3khn_A MOTB protein, putative 99.9 1.5E-26 4.4E-31 195.9 15.8 130 209-342 30-164 (174) 4 >3ldt_A Outer membrane protein 99.9 4.9E-26 1.4E-30 192.5 14.1 125 212-343 36-163 (169) 5 >2k1s_A Inner membrane lipopro 99.9 5.9E-26 1.7E-30 191.9 12.6 125 211-342 15-142 (149) 6 >3cyp_B Chemotaxis protein MOT 99.9 5.7E-24 1.7E-28 178.7 11.5 108 233-341 3-116 (138) 7 >2hqs_H Peptidoglycan-associat 99.9 6.4E-24 1.9E-28 178.4 10.0 107 232-342 5-114 (118) 8 >2aiz_P Outer membrane protein 99.9 1.6E-23 4.9E-28 175.6 10.8 103 232-338 29-134 (134) 9 >1r1m_A Outer membrane protein 99.9 2E-24 5.8E-29 181.8 4.8 114 220-340 5-121 (164) 10 >2zf8_A MOTY, component of sod 99.9 7.7E-24 2.3E-28 177.8 7.8 106 233-342 8-117 (124) 11 >1bwv_S Rubisco, protein (ribu 74.8 3.9 0.00011 19.7 3.8 93 237-341 5-103 (105) 12 >2cz4_A Hypothetical protein T 72.0 5.3 0.00016 18.8 3.9 50 290-341 35-84 (119) 13 >2ns1_B Nitrogen regulatory pr 60.1 10 0.0003 16.9 3.8 52 290-341 15-72 (101) 14 >2eg2_A Nitrogen regulatory pr 59.2 10 0.0003 16.9 3.4 52 290-341 11-68 (97) 15 >2o66_A PII protein; regulatio 58.0 11 0.00033 16.7 3.9 52 290-341 23-81 (110) 16 >1qy7_A Nitrogen regulatory pr 57.6 11 0.00033 16.6 3.6 52 290-341 11-68 (96) 17 >3ce8_A Putative PII-like nitr 56.9 8.4 0.00025 17.5 2.6 52 290-341 33-88 (120) 18 >3bzq_A Nitrogen regulatory pr 53.0 13 0.00039 16.2 4.1 53 290-342 13-71 (99) 19 >2j9c_A GLNK1, hypothetical ni 52.5 13 0.0004 16.1 3.7 52 290-341 13-70 (99) 20 >3iib_A Peptidase M28; YP_9267 52.1 14 0.0004 16.1 5.6 57 262-319 85-142 (282) 21 >3dfe_A Putative PII-like sign 51.0 7.3 0.00021 17.9 1.5 51 290-340 16-69 (111) 22 >1bxn_I Rubisco, protein (ribu 50.3 11 0.00032 16.7 2.3 23 249-271 62-85 (105) 23 >1gk8_I Ribulose bisphosphate 48.8 13 0.00039 16.1 2.5 40 235-274 66-113 (140) 24 >1hwu_A PII protein; herbaspir 48.7 15 0.00045 15.7 3.5 52 290-341 11-68 (97) 25 >3cqy_A Anhydro-N-acetylmurami 41.1 20 0.00059 15.0 4.5 69 236-318 33-101 (190) 26 >1skh_A Major prion protein 2; 40.7 15 0.00043 15.9 1.7 10 44-53 10-19 (30) 27 >3ei3_A DNA damage-binding pro 39.7 14 0.00041 16.0 1.5 21 323-343 12-34 (44) 28 >2gw8_A PII signal transductio 39.2 21 0.00063 14.8 3.5 52 290-341 13-70 (114) 29 >2qt7_A Receptor-type tyrosine 38.9 22 0.00064 14.7 3.1 69 245-318 16-90 (91) 30 >2a6q_A Antitoxin YEFM; YEFM, 38.4 9.7 0.00029 17.0 0.5 14 10-23 25-38 (44) 31 >1saz_A Probable butyrate kina 37.0 23 0.00068 14.5 3.1 18 237-254 81-98 (221) 32 >1k7w_A Delta 2 crystallin; ey 33.0 25 0.00073 14.3 1.9 16 292-307 3-18 (56) 33 >1tkj_A Aminopeptidase, SGAP; 31.1 29 0.00085 13.9 6.0 52 265-317 79-130 (284) 34 >1vfj_A Nitrogen regulatory pr 30.1 30 0.00088 13.8 4.3 52 290-341 11-68 (116) 35 >1e6y_A Methyl-coenzyme M redu 29.9 6.2 0.00018 18.3 -1.6 15 312-326 200-218 (266) 36 >3ig3_A Plxna3 protein; plexin 29.8 30 0.00089 13.8 3.2 21 34-54 28-60 (122) 37 >1z8o_A 6-deoxyerythronolide B 28.8 14 0.00043 15.9 0.1 17 28-44 35-52 (118) 38 >3dzc_A UDP-N-acetylglucosamin 28.6 31 0.00093 13.6 6.4 83 236-319 84-200 (211) 39 >2vjq_A Formyl-coenzyme A tran 28.0 32 0.00095 13.6 3.1 20 260-279 114-135 (243) 40 >2e9f_A Argininosuccinate lyas 27.6 33 0.00097 13.5 1.9 15 292-306 3-17 (64) 41 >1yj7_A ESCJ; mixed alpha/beta 27.4 20 0.00059 15.0 0.6 24 287-310 9-32 (68) 42 >2wwb_C SEC61BETA, protein tra 26.0 35 0.001 13.3 2.2 14 40-53 75-88 (96) 43 >2w3s_B Xanthine dehydrogenase 25.5 36 0.0011 13.3 8.4 90 224-314 8-110 (145) 44 >3e5j_A CYP105P1, cytochrome P 24.1 24 0.0007 14.4 0.5 17 28-44 41-58 (132) 45 >1v4v_A UDP-N-acetylglucosamin 20.7 44 0.0013 12.7 6.4 79 240-319 68-180 (204) 46 >1n40_A P450 MT2, cytochrome P 20.3 32 0.00094 13.6 0.5 13 30-42 40-53 (121) No 1 >>2zov_A Chemotaxis protein MOTB; 2-layer sandwich, bacterial flagellum, cell projection, flagellar rotation, inner membrane, membrane; 2.00A {Salmonella typhimurium} (A:) Probab=99.96 E-value=4.6e-28 Score=205.96 Aligned_cols=130 Identities=29% Similarity=0.429 Sum_probs=116.6 Q ss_pred HCCCEEEECCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCC--CCCCCHHHHH Q ss_conf 01311451145349999703456745556875468356565443678986127833898731467667--8741069999 Q gi|254780529|r 211 IVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFR--NIARDNWRLS 288 (343) Q Consensus 211 ~~~~~~v~~~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~~i~IeGHTD~~p~~--g~~~~Nw~LS 288 (343) ......+.....+..+.+......++|++||+.|++.+...|+.++.+|+.++..|.|+||||++|+. |.+.+||+|| T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~i~F~~~sa~l~~~~~~~l~~ia~~l~~~~~~i~I~GhtD~~~~~~~G~~~~N~~LS 128 (210) T 2zov_A 49 LRPHLKIDLVQEGLRIQIIDSQNRPXFKTGSAEVEPYXRDILRAIAPVLNGIPNRISLAGHTDDFPYANGEKGYSNWELS 128 (210) T ss_dssp HGGGEEEEEETTEEEEEEECCSSSCSBCTTSCCBCHHHHHHHHHHHHHHTTSCCCEEEEEEEECSCCCSSCSSCCHHHHH T ss_pred HHCCCEEEECCCCEEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCCCCCHHHHH T ss_conf 41371599817952999984899848699974469879999999999998338669999854877644577642057899 Q ss_pred HHHHHHHHHHHHH-CCCCHHHEEEEEECCCCCCCCCCCCCCCCCCEEEEEEECC Q ss_conf 9999999999998-6999657122563033488889885213375599999569 Q gi|254780529|r 289 LDRAYSAYQVLMK-SGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVEDR 341 (343) Q Consensus 289 ~~RA~aV~~~L~~-~Gv~~~ri~~v~G~g~~~P~~~n~t~~~~NRRVEi~i~~~ 341 (343) .+||.+|+.||+. .|+++.||. +.|||+++|+++|++.+++||||||+|... T Consensus 129 ~~RA~aV~~~L~~~~gi~~~ri~-~~g~G~~~p~~~n~~~~~~NRRVeI~i~~~ 181 (210) T 2zov_A 129 ADRANASRRELVAGGLDNGKVLR-VVGXAATXRLSDRGPDDAINRRISLLVLNK 181 (210) T ss_dssp HHHHHHHHHHHHHTTCCTTCEEE-EEEECCC---------CCCEEEEEEEEECH T ss_pred HHHHHHHHHHHHHCCCCCCCEEE-EEEECCCCCCCCCCCCHHHCCCEEEEEECC T ss_conf 99999999999985998035899-998688878998996458729889999784 No 2 >>2zvy_A Chemotaxis protein MOTB; 2-layer sandwich, bacterial flagellum, cell inner membrane, cell membrane, flagellar rotation, membrane; 1.75A {Salmonella typhimurium} PDB: 2zvz_A (A:) Probab=99.95 E-value=1.6e-26 Score=195.72 Aligned_cols=129 Identities=30% Similarity=0.435 Sum_probs=115.8 Q ss_pred CCCEEEECCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCC--CCCCCHHHHHH Q ss_conf 1311451145349999703456745556875468356565443678986127833898731467667--87410699999 Q gi|254780529|r 212 VKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFR--NIARDNWRLSL 289 (343) Q Consensus 212 ~~~~~v~~~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~~i~IeGHTD~~p~~--g~~~~Nw~LS~ 289 (343) .....+.....+..+.+......++|++||+.|+++++..|..++.+|+.+|..|.|+||||++|.+ |++.+||+||. T Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~~i~F~~~sa~l~~~~~~~l~~la~~l~~~~~~i~I~Ghtd~~~~~~~g~~~~N~~LS~ 118 (183) T 2zvy_A 39 RPHLKIDLVQEGLRIQIIDSQNRPMFKTGSAEVEPYMRDILRAIAPVLNGIPNRISLAGHTDDFPYANGEKGYSNWELSA 118 (183) T ss_dssp GGGEEEEEETTEEEEEEECCSSSCSBCTTCCSBCHHHHHHHHHHHHHHTTSCCCEEEEEECCSSCTTCSTTSSCHHHHHH T ss_pred HCCCEEEECCCCEEEEEEECCCCCCCCCCCCEECHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCCHHHHHH T ss_conf 20715998078319999867888686899840581677999999999971476089997236667555775311689999 Q ss_pred HHHHHHHHHHHH-CCCCHHHEEEEEECCCCCCCCCCCCCCCCCCEEEEEEECC Q ss_conf 999999999998-6999657122563033488889885213375599999569 Q gi|254780529|r 290 DRAYSAYQVLMK-SGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~-~Gv~~~ri~~v~G~g~~~P~~~n~t~~~~NRRVEi~i~~~ 341 (343) +||.+|+.||+. .|+++.||. +.|||+++|+++|++.+++||||||.|... T Consensus 119 ~RA~aV~~~L~~~~gi~~~ri~-~~g~G~~~p~~~n~~~~~~NRRVei~i~~~ 170 (183) T 2zvy_A 119 DRANASRRELVAGGLDNGKVLR-VVGMAATMRLSDRGPDDAINRRISLLVLNK 170 (183) T ss_dssp HHHHHHHHHHHHTTCCTTCEEE-EEECTTTTCSSCSSTTGGGGSEEEEEEECH T ss_pred HHHHHHHHHHHHCCCCCCCEEE-EEEECCCCCCCCCCCCHHHHCCEEEEEECC T ss_conf 9999999999870589878899-999677877898996337709989999896 No 3 >>3khn_A MOTB protein, putative; structural genomics, OMPA-like domain, PSI-2, protein structure initiative; 2.03A {Desulfovibrio vulgaris str} (A:) Probab=99.95 E-value=1.5e-26 Score=195.91 Aligned_cols=130 Identities=18% Similarity=0.305 Sum_probs=115.3 Q ss_pred HHHCCCEEEECCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCC--CCCCCHH Q ss_conf 21013114511453499997034567455568754683565654436789861278-33898731467667--8741069 Q gi|254780529|r 209 DNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPFR--NIARDNW 285 (343) Q Consensus 209 ~~~~~~~~v~~~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~--g~~~~Nw 285 (343) ......+.+...+.+++|.+ ...++|++||+.|+++++..|..++.+|..+|. .|.|+||||+++.. +.+.+|| T Consensus 30 ~~~~~~~~v~~~~~~~~i~~---~~~~~F~~gs~~l~~~~~~~L~~ia~~l~~~~~~~i~I~GhtD~~g~~~~~~~~~n~ 106 (174) T 3khn_A 30 NGVEGVIGAVFDEGVITLRV---PSEVLFAPGAVELAPGADRVLATLKDLFIRRREQNINIKGFTDDVQPSANARFKDNW 106 (174) T ss_dssp TTCTTTCEEEEETTEEEEEE---EHHHHBCTTCCSBCTTHHHHHHHHHHHHHHTTTCEEEEEEECCSCCCCTTSSCSSHH T ss_pred HCCCCCEEEEEECCEEEEEE---CCCCEECCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCCHH T ss_conf 14677569998399899994---687324699740298899999999875403874299997403676665566432013 Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCCCC--CCCCEEEEEEECCC Q ss_conf 9999999999999998699965712256303348888988521--33755999995699 Q gi|254780529|r 286 RLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPMN--SANRRIDILVEDRQ 342 (343) Q Consensus 286 ~LS~~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t~~--~~NRRVEi~i~~~~ 342 (343) +||.+||.+|+.||...|+++.||. +.|||+++|+++|++.. ++||||||+|.... T Consensus 107 ~LS~~RA~~V~~~l~~~gi~~~ri~-~~g~G~~~p~~~~~~~~~~~~NRRVei~i~~~~ 164 (174) T 3khn_A 107 EVSALRSVNVLRYFLGAGIEPARLT-ATGLGELDPLFPNTSDENRARNRRVEFVLERRV 164 (174) T ss_dssp HHHHHHHHHHHHHHHHTTCCGGGEE-EEEEETSSCSSCSSSHHHHHHHSEEEEEEEC-- T ss_pred HHHHHHHHHHHHHHHHHCCCCCCEE-EEEEECCCCCCCCCCHHHHHHCCCEEEEEEECC T ss_conf 6889999999999987147866679-998424577799939789987396899998545 No 4 >>3ldt_A Outer membrane protein, OMPA family protein; OMPA-like domain, PSI-II, NYSGXRC, structural genomics, protein structure initiative; 2.30A {Legionella pneumophila} (A:) Probab=99.94 E-value=4.9e-26 Score=192.48 Aligned_cols=125 Identities=18% Similarity=0.220 Sum_probs=114.2 Q ss_pred CCCEEEECCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHH Q ss_conf 13114511453499997034567455568754683565654436789861278-33898731467667874106999999 Q gi|254780529|r 212 VKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLD 290 (343) Q Consensus 212 ~~~~~v~~~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~ 290 (343) ...+.++..+.++.|.+ ...+||++||+.|++.++..|+.++.+|+.+|+ .|.|+||||+. |...+||.||.+ T Consensus 36 ~~~~~~~~~~~~~~i~~---~~~v~F~~~s~~l~~~~~~~L~~la~~l~~~p~~~i~I~Ghtd~~---g~~~~n~~LS~~ 109 (169) T 3ldt_A 36 KQDIQYVEYGDTRTLII---PTDKYFXFSSPRLNEICYPGLNNVIRLLNFYPQSTIYVAGFTDNV---GSRSHKRKLSQA 109 (169) T ss_dssp HTTCEEEEETTEEEEEE---ETTTCCC-CCHHHHHHHCHHHHHHHHHHTTCTTSCEEEEEECTTS---CCC--CHHHHHH T ss_pred CCCCEEEEECCEEEEEE---CCCCEEECCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCC---CCHHHHHHHHHH T ss_conf 49957999699899990---688257089632698899999999999997899579999972898---976675779999 Q ss_pred HHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCCC--CCCCCEEEEEEECCCC Q ss_conf 9999999999869996571225630334888898852--1337559999956999 Q gi|254780529|r 291 RAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPM--NSANRRIDILVEDRQG 343 (343) Q Consensus 291 RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t~--~~~NRRVEi~i~~~~~ 343 (343) ||.+|+.||++.|++..||. +.|||+++|+++|++. +++||||||.|...++ T Consensus 110 RA~aV~~~L~~~Gi~~~ri~-~~g~G~~~p~~~~~~~~~~~~NRRVei~i~~~~~ 163 (169) T 3ldt_A 110 QAETXXTFLWANGIAAKRLK-AEGYGDKNAISDNAIIHGSAQNRRIEIQWFTSEG 163 (169) T ss_dssp HHHHHHHHHHHTTCCTTTEE-ECCTTCTTSCCCTTTSCGGGGTSEEEEEEECCCC T ss_pred HHHHHHHHHHHCCCCHHHEE-EEEECCCCCCCCCCCHHHHHHCCCEEEEEEECCC T ss_conf 99999999998599989989-9997566767999297899854988999996898 No 5 >>2k1s_A Inner membrane lipoprotein YIAD; abbababab, OMPA, alpha beta, palmitate, transmembrane, structural genomics, PSI-2; NMR {Escherichia coli K12} (A:) Probab=99.94 E-value=5.9e-26 Score=191.91 Aligned_cols=125 Identities=26% Similarity=0.329 Sum_probs=113.6 Q ss_pred HCCCEEEECCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHH Q ss_conf 013114511453499997034567455568754683565654436789861278-3389873146766787410699999 Q gi|254780529|r 211 IVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSL 289 (343) Q Consensus 211 ~~~~~~v~~~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~ 289 (343) ....+.+...+.++.|.+ ...++|+.||+.|++.+...|++++..|+.+|+ .|.|+||||+. |.+.+||.||. T Consensus 15 ~~~~~~v~~~~~~~~i~~---~~~v~F~~~s~~l~~~~~~~L~~ia~~L~~~p~~~i~I~Ghtd~~---g~~~~N~~LS~ 88 (149) T 2k1s_A 15 RGTGVSVTRSGDNIILNM---PNNVTFDSSSATLKPAGANTLTGVAMVLKEYPKTAVNVIGYTDST---GGHDLNMRLSQ 88 (149) T ss_dssp TTTSCEEEEETTEEEEEE---EHHHHBSSSSSCBCHHHHHHHHHHHHHHHHCTTEEEEEEEECCCT---TCHHHHHHHHH T ss_pred CCCCCEEEEECCEEEEEC---CCCEEECCCCCCCCHHHHHHHHHHHHHHHCCCCCCEEECCCCCCC---CCCCCCCHHHH T ss_conf 159977999799999984---786066599733698999999988777731887520102241354---45433201788 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCCCC--CCCCEEEEEEECCC Q ss_conf 999999999998699965712256303348888988521--33755999995699 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPMN--SANRRIDILVEDRQ 342 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t~~--~~NRRVEi~i~~~~ 342 (343) +||.+|+.||...|++++||. +.|||+++|+++|++.. ++||||||+|.... T Consensus 89 ~RA~aV~~~l~~~gv~~~ri~-~~g~G~~~p~~~~~~~~~~~~NRRVei~i~~~~ 142 (149) T 2k1s_A 89 QRADSVASALITQGVDASRIR-TQGLGPANPIASNSTAEGKAQNRRVEITLSPLL 142 (149) T ss_dssp HHHHHHHHHHHHHTCCGGGEE-EEECTTTCCSSCSSSHHHHHHHSEEEEEEEECS T ss_pred HHHHHHHHHHHHCCCCCCCCE-EEEECCCCCCCCCCCHHHHHHCCCEEEEEEECC T ss_conf 999999999998199766335-899656576689939778974496999996151 No 6 >>3cyp_B Chemotaxis protein MOTB; bacterial flagellar motor, peptidoglycan binding, bacterial flagellum, flagellar rotation, inner membrane, membrane; 1.60A {Helicobacter pylori} PDB: 3cyq_B* (B:) Probab=99.91 E-value=5.7e-24 Score=178.66 Aligned_cols=108 Identities=21% Similarity=0.460 Sum_probs=98.1 Q ss_pred CCCCCCCCCCC-CCHHHHHHHHHHHHHHHHCCC--CEEEEEEECCCCCC-CCCCCHHHHHHHHHHHHHHHHHHCCCCHHH Q ss_conf 67455568754-683565654436789861278--33898731467667-874106999999999999999986999657 Q gi|254780529|r 233 NTPMFDKSSSI-PLPETIVVLQKIGEVLAHSTE--VISIRGHTDASPFR-NIARDNWRLSLDRAYSAYQVLMKSGVSEDR 308 (343) Q Consensus 233 ~~~lF~~gsa~-l~~~~~~~l~~ia~~l~~~~~--~i~IeGHTD~~p~~-g~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~r 308 (343) ..++|+.||++ |+++++..|++++..|+.+|+ .|.|+||||++++. |.+.+||.||.+||.+|+.||+..|+++.| T Consensus 3 ~~v~F~~~ss~~l~~~~~~~l~~ia~~l~~~~~~~~I~I~GhtD~~~~~~g~~~~N~~LS~~RA~~V~~~l~~~gi~~~r 82 (138) T 3cyp_B 3 DPFTFENATSDAINQDMMLYIERIAKIIQKLPKRVHINVRGFTDDTPLVKTRFKSHYELAANRAYRVMKVLIQYGVNPNQ 82 (138) T ss_dssp CCEECSSTTCCCCCHHHHHHHHHHHHHHTTSCTTCEEEEEEECCCCCC----CCSHHHHHHHHHHHHHHHHHHTTCCGGG T ss_pred CCEECCCCCHHHCCHHHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCE T ss_conf 86663899624339989999999999999689970899998608988777870779999999999999999985999565 Q ss_pred EEEEEECCCCCCCCCCCCCC--CCCCEEEEEEECC Q ss_conf 12256303348888988521--3375599999569 Q gi|254780529|r 309 ISKISGFAHHRLKIASDPMN--SANRRIDILVEDR 341 (343) Q Consensus 309 i~~v~G~g~~~P~~~n~t~~--~~NRRVEi~i~~~ 341 (343) |. +.|||+++|+++|++.. ++||||||+|... T Consensus 83 i~-~~g~G~~~p~~~~~~~~~~~~NRRVei~i~~~ 116 (138) T 3cyp_B 83 LS-FSSYGSTNPIAPNDSLENRMKNNRVEIFFSTD 116 (138) T ss_dssp EE-EEECTTCSCSSCTTSHHHHHHHSEEEEEEEEE T ss_pred EE-EEEECCCCCCCCCCCHHHHHHCCCEEEEEECC T ss_conf 99-99845567679993978997249689999708 No 7 >>2hqs_H Peptidoglycan-associated lipoprotein; TOLB, PAL, TOL, transport protein/lipoprotein complex; 1.50A {Escherichia coli} (H:) Probab=99.91 E-value=6.4e-24 Score=178.35 Aligned_cols=107 Identities=22% Similarity=0.282 Sum_probs=99.4 Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHEE Q ss_conf 567455568754683565654436789861278-3389873146766787410699999999999999998699965712 Q gi|254780529|r 232 RNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRIS 310 (343) Q Consensus 232 ~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~ri~ 310 (343) ...++|++||+.|+++++..|++++..|+.+|+ .|.|+||||.. |.+.+||+||.+||.+|+.||...|+++.||. T Consensus 5 ~~~v~F~~~s~~l~~~~~~~L~~ia~~l~~~p~~~i~I~Ghtd~~---g~~~~n~~LS~~RA~aV~~~l~~~g~~~~ri~ 81 (118) T 2hqs_H 5 NNIVYFDLDKYDIRSDFAQMLDAHANFLRSNPSYKVTVEGHADER---GTPEYNISLGERRANAVKMYLQGKGVSADQIS 81 (118) T ss_dssp CSEEECCTTCCCCCGGGHHHHHHHHHHHHHCTTCCEEEEECCCSS---SCHHHHHHHHHHHHHHHHHHHHHTTCCGGGEE T ss_pred CCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEECCCCC---CCHHHHHHHHHHHHHHHHHHHHHCCCCCCCEE T ss_conf 999994099864598899999999999976999489998423323---21036665889988768999997598434069 Q ss_pred EEEECCCCCCCCCCCCCC--CCCCEEEEEEECCC Q ss_conf 256303348888988521--33755999995699 Q gi|254780529|r 311 KISGFAHHRLKIASDPMN--SANRRIDILVEDRQ 342 (343) Q Consensus 311 ~v~G~g~~~P~~~n~t~~--~~NRRVEi~i~~~~ 342 (343) +.|||+++|++++++.. ++||||||.|...+ T Consensus 82 -~~g~G~~~p~~~~~~~~~~~~nRRVei~i~~~~ 114 (118) T 2hqs_H 82 -IVSYGKEKPAVLGHDEAAYSKNRRAVLVYLEHH 114 (118) T ss_dssp -EEECTTSSCSSCCSSHHHHHHHSEEEEECC--- T ss_pred -EEECCCCCCCCCCCCHHHHHHCCCEEEEEEEEE T ss_conf -998255377888919789976497999999850 No 8 >>2aiz_P Outer membrane protein P6; alpha-beta sandwich; HET: UDP AMU DGL 6CL DAL; NMR {Haemophilus influenzae} (P:) Probab=99.90 E-value=1.6e-23 Score=175.61 Aligned_cols=103 Identities=19% Similarity=0.213 Sum_probs=95.9 Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHEE Q ss_conf 567455568754683565654436789861278-3389873146766787410699999999999999998699965712 Q gi|254780529|r 232 RNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRIS 310 (343) Q Consensus 232 ~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~ri~ 310 (343) ...++|++||+.|+++++..|+.++..|+.+|+ .|.|+||||+. |.+.+||.||.+||.+|++||+..|+++.||. T Consensus 29 ~~~i~F~~~s~~l~~~~~~~L~~~a~~l~~~p~~~i~I~Ghtd~~---g~~~~N~~LS~~RA~aV~~~l~~~g~~~~ri~ 105 (134) T 2aiz_P 29 YNTVYFGFDKYDITGEYVQILDAHAAYLNATPAAKVLVEGNTDER---GTPEYNIALGQRRADAVKGYLAGKGVDAGKLG 105 (134) T ss_dssp SCEEECCTTCCCCCHHHHHHHHHHHHHHHHSTTCCEEEEEECCSS---SCHHHHHHHHHHHHHHHHHHHHHTTCCGGGEE T ss_pred CCEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEECCCCC---CCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEE T ss_conf 880880599800498899999999999986998489997312434---33210125789999999999997087532034 Q ss_pred EEEECCCCCCCCCCCCCC--CCCCEEEEEE Q ss_conf 256303348888988521--3375599999 Q gi|254780529|r 311 KISGFAHHRLKIASDPMN--SANRRIDILV 338 (343) Q Consensus 311 ~v~G~g~~~P~~~n~t~~--~~NRRVEi~i 338 (343) +.|||+.+|+++|++.. ++||||||+. T Consensus 106 -~~g~G~~~p~~~~~~~~~~~~NRRVei~~ 134 (134) T 2aiz_P 106 -TVSYGEEKPAVLGHDEAAYSKNRRAVLAX 134 (134) T ss_dssp -EEECTTTSCSSCSCSHHHHHHHSEEEEEC T ss_pred -EEECCCCCCCCCCCCHHHHHCCCCEEEEC T ss_conf -57634437788891977875339899959 No 9 >>1r1m_A Outer membrane protein class 4; 1.90A {Neisseria meningitidis} (A:) Probab=99.90 E-value=2e-24 Score=181.76 Aligned_cols=114 Identities=20% Similarity=0.198 Sum_probs=102.5 Q ss_pred CCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHH Q ss_conf 453499997034567455568754683565654436789861278-3389873146766787410699999999999999 Q gi|254780529|r 220 TRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQV 298 (343) Q Consensus 220 ~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~ 298 (343) ...+.+|.| ...+||+.||+.|++.++..|..++.+|..+|+ .|.|+||||++ |.+.+||.||.+||.+|+.| T Consensus 5 ~~~~~~i~l---~~~i~F~~~s~~l~~~~~~~L~~ia~~l~~~p~~~i~I~Ghtd~~---g~~~~N~~LS~~RA~aV~~~ 78 (164) T 1r1m_A 5 QYVDETISL---SAKTLFGFDKDSLRAEAQDNLKVLAQRLSRTNIQSVRVEGHTDFM---GSDKYNQALSERRAYVVANN 78 (164) T ss_dssp CEEEEEEEE---EHHHHHTTSSSCCCHHHHHHHHHHHHHHTTSCEEEEEEEEECCSS---SCHHHHHHHHHHHHHHHHHH T ss_pred CEECCEEEE---CCCEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCC---CCHHHHHHHHHHHHHHHHHH T ss_conf 502607997---773355189722698999999999999977898189999973898---98557079999999999999 Q ss_pred HHHCCCCHHHEEEEEECCCCCCCCCCCCCC--CCCCEEEEEEEC Q ss_conf 998699965712256303348888988521--337559999956 Q gi|254780529|r 299 LMKSGVSEDRISKISGFAHHRLKIASDPMN--SANRRIDILVED 340 (343) Q Consensus 299 L~~~Gv~~~ri~~v~G~g~~~P~~~n~t~~--~~NRRVEi~i~~ 340 (343) |+..|++.+||. +.|||+++|+++|++.. ++||||||+|.. T Consensus 79 L~~~gi~~~ri~-~~g~G~~~P~~~~~~~~~~~~NRRVei~~~~ 121 (164) T 1r1m_A 79 LVSNGVPVSRIS-AVGLGESQAQMTQVCEAEVAKLGAKVSKAKK 121 (164) T ss_dssp HHHTTCCGGGEE-EEECTTTTCCCHHHHHHHHHTCCSSCCSSHH T ss_pred HHHCCCCHHHEE-EEEECCCCCCCCCCCHHHHHHCCCCCHHHCC T ss_conf 998599989989-9987676888989797898531441000000 No 10 >>2zf8_A MOTY, component of sodium-driven polar flagellar motor; beta barrel, 2-layer sandwich, flagellum, structural protein; 2.85A {Vibrio alginolyticus} (A:155-278) Probab=99.90 E-value=7.7e-24 Score=177.80 Aligned_cols=106 Identities=21% Similarity=0.284 Sum_probs=97.6 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC--CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHEE Q ss_conf 67455568754683565654436789861278--3389873146766787410699999999999999998699965712 Q gi|254780529|r 233 NTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE--VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRIS 310 (343) Q Consensus 233 ~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~--~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~ri~ 310 (343) ..++|++||+.|++.+...|++++.+|+.+|+ .|.|+||||+. |.+.+||.||.+||.+|++||...|+++.||. T Consensus 8 ~~v~F~~~s~~L~~~~~~~L~~ia~~L~~~~~~~~I~I~Ghtd~~---g~~~~n~~LS~~RA~~V~~~l~~~Gi~~~ri~ 84 (124) T 2zf8_A 8 TILHYERQGDQLTKASKKRLSQIADYIRHNQDIDLVLVATYTDST---DGKSASQSLSERRAESLRDYFQSLGLPEDRIQ 84 (124) T ss_dssp EECBSSSSSSSBCHHHHHHHHHHHHHHTTCCSCCEEEEEEC----------CCCHHHHHHHHHHHHHHHHHHSCCTTSEE T ss_pred EEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCC---CCHHHHHHHHHHHHHHHHHHHHHCCCCHHHEE T ss_conf 289938997116999999999999999868996589999874899---98788799999999999999998599979989 Q ss_pred EEEECCCCCCCCCCCCCC--CCCCEEEEEEECCC Q ss_conf 256303348888988521--33755999995699 Q gi|254780529|r 311 KISGFAHHRLKIASDPMN--SANRRIDILVEDRQ 342 (343) Q Consensus 311 ~v~G~g~~~P~~~n~t~~--~~NRRVEi~i~~~~ 342 (343) +.|||+++|+++|++.. ++||||||+|.... T Consensus 85 -~~g~G~~~p~~~~~~~~~~~~NRRVeI~i~~~~ 117 (124) T 2zf8_A 85 -VQGYGKRRPIADNGSPIGKDKNRRVVISLGRTQ 117 (124) T ss_dssp -CCEEC------------------CEEEECCCCC T ss_pred -EEEECCCCCCCCCCCHHHHHHCCCEEEEEEEEE T ss_conf -999756577799949889973498999998679 No 11 >>1bwv_S Rubisco, protein (ribulose bisphosphate carboxylase); carbon dioxide fixation,complex (rubisco/reaction intermediate), high specificity factor; HET: KCX CAP; 2.40A {Galdieria partita} (S:1-105) Probab=74.82 E-value=3.9 Score=19.70 Aligned_cols=93 Identities=17% Similarity=0.173 Sum_probs=43.4 Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCHHHH---HHHHHHHHHHHHHH--CCCCHHHEEE Q ss_conf 556875468356565443678986127833898731467667874106999---99999999999998--6999657122 Q gi|254780529|r 237 FDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIARDNWRL---SLDRAYSAYQVLMK--SGVSEDRISK 311 (343) Q Consensus 237 F~~gsa~l~~~~~~~l~~ia~~l~~~~~~i~IeGHTD~~p~~g~~~~Nw~L---S~~RA~aV~~~L~~--~Gv~~~ri~~ 311 (343) |.+-|.-+.-....+..+|.-+| .....|.|| |||.+.+.+.+=.-|.| ...++..|...|.. .-.+.. .++ T Consensus 5 ~etfSylP~Ltde~I~~QI~yll-~qG~~i~iE-~ad~~~~~~~~W~~w~lP~f~~~~~~~Vl~eie~C~~~~p~~-YVR 81 (105) T 1bwv_S 5 QGTFSFLPDLTDEQIKKQIDYMI-SKKLAIGIE-YTNDIHPRNAYWEIWGLPLFDVTDPAAVLFEINACRKARSNF-YIK 81 (105) T ss_dssp CSTTTTSCCCCHHHHHHHHHHHH-HTTCEEEEE-EESCCCTTCCCCEECSSCBCSCCCHHHHHHHHHHHHHHCTTS-EEE T ss_pred CCEECCCCCCCHHHHHHHHHHHH-CCCCEEEEE-ECCCCCCCCCHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCC-EEE T ss_conf 41204589999999999999997-289874367-614655442222202577436889999999999999979867-688 Q ss_pred EEECCCCCCCCCCCCCC-CCCCEEEEEEECC Q ss_conf 56303348888988521-3375599999569 Q gi|254780529|r 312 ISGFAHHRLKIASDPMN-SANRRIDILVEDR 341 (343) Q Consensus 312 v~G~g~~~P~~~n~t~~-~~NRRVEi~i~~~ 341 (343) +.||-. .+ ++-|.+|++|.+. T Consensus 82 liG~D~---------~~q~q~r~~~fIV~RP 103 (105) T 1bwv_S 82 VVGFSS---------VRGIESTIISFIVNRP 103 (105) T ss_dssp EEEEEC---------CTTTCEEEEEEEEECC T ss_pred EEEEEC---------CCCEEEEEEEEEEECC T ss_conf 999977---------6213675798887479 No 12 >>2cz4_A Hypothetical protein TTHA0516; conserved hypothetical protein, PII-like signaling protein, structural genomics, NPPSFA; 1.93A {Thermus thermophilus HB8} (A:) Probab=72.00 E-value=5.3 Score=18.82 Aligned_cols=50 Identities=12% Similarity=0.137 Sum_probs=36.6 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCCCCCCCCEEEEEEECC Q ss_conf 9999999999986999657122563033488889885213375599999569 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t~~~~NRRVEi~i~~~ 341 (343) .+...|.+.|.+.|+..=-+..|.|+|...-.. ......|.+||+++... T Consensus 35 ~~l~~V~~aL~~~Gv~G~Tv~~v~G~G~~~~~~--~~~~~~kv~ieivv~de 84 (119) T 2cz4_A 35 LLEKRLVEEVKRLGAKGYTITPARGEGSRGIRS--VDWEGQNIRLETIVSEE 84 (119) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEBCTTCCCTTC--SCSTTCEEEEEEEECHH T ss_pred HHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCC--CCCCCCCEEEEEEECHH T ss_conf 889999999998799537999748974468724--56845507999996889 No 13 >>2ns1_B Nitrogen regulatory protein P-II 2; protein-protein complex, membrane protein, ammonia, channel, inhibitor, signal protein, ADP, BOG; HET: BOG ADP; 1.96A {Escherichia coli K12} (B:1-101) Probab=60.11 E-value=10 Score=16.92 Aligned_cols=52 Identities=13% Similarity=0.265 Sum_probs=36.4 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCC---CCCC---CCCCEEEEEEECC Q ss_conf 99999999999869996571225630334888898---8521---3375599999569 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIAS---DPMN---SANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n---~t~~---~~NRRVEi~i~~~ 341 (343) .|...|.+.|...|++.=-+..|.|||...-.... .... -.-+||||++... T Consensus 15 ~k~~~v~~aL~~~Gv~g~Tv~~v~G~G~~~~~~~~~~~~~~~~~~~~kv~ieivv~d~ 72 (101) T 2ns1_B 15 FKLEDVREALSSIGIQGLTVTEVKGFGRQKGHAELYRGAEFSVNFLPKVKIDVAIADD 72 (101) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEEECSSSCCCCEEETTEEECCCCEEEEEEEEEEEGG T ss_pred HHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCEECCCEEEEEEEEEEEEEEEECHH T ss_conf 9999999999968998689998114346668731551522465001068999998589 No 14 >>2eg2_A Nitrogen regulatory protein P-II; structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: ATP; 1.72A {Aquifex aeolicus} PDB: 2eg1_A* 2z0g_A 2pii_A 1pil_A (A:1-97) Probab=59.23 E-value=10 Score=16.88 Aligned_cols=52 Identities=13% Similarity=0.259 Sum_probs=36.1 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCC----CC--CCCCCCEEEEEEECC Q ss_conf 99999999999869996571225630334888898----85--213375599999569 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIAS----DP--MNSANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n----~t--~~~~NRRVEi~i~~~ 341 (343) .|...|.+.|...|++.=-+..|.|||..+-...- +. .--.-+|+||++.+. T Consensus 11 ~k~~~v~~aL~~~Gv~g~Tv~~V~G~G~~~~~~~~~~~~~~~~~~~pkv~ieivv~d~ 68 (97) T 2eg2_A 11 FKLDEVKDALVEIGIGGMTVTEVKGFGQQKGHTEIYRGTEYVIDFLPKVKIEVVVRDE 68 (97) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEEEC-----------------CCEEEEEEEEEECGG T ss_pred HHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCEECCCEEEEEECCEEEEEEEECHH T ss_conf 9999999999968997399995261267777530222624664010379999998868 No 15 >>2o66_A PII protein; regulation of nitrogen and carbon metabolism, biosynthetic protein; HET: FLC; 1.90A {Arabidopsis thaliana} PDB: 2o67_A 2rd5_C* (A:1-110) Probab=58.00 E-value=11 Score=16.69 Aligned_cols=52 Identities=21% Similarity=0.275 Sum_probs=36.4 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCC----CCCC---CCCCCCEEEEEEECC Q ss_conf 999999999998699965712256303348888----9885---213375599999569 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKI----ASDP---MNSANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~----~n~t---~~~~NRRVEi~i~~~ 341 (343) .|...|.+.|...|++.=-+..|.|||..+-.. .+.. .--.-+||||++.+. T Consensus 23 ~k~~~v~~AL~~~Gv~g~Tv~~v~G~G~~~g~~~~~~g~~~~~~~~~pkv~ieivv~de 81 (110) T 2o66_A 23 WRIQQVSSALLKIGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKMEIVVKKD 81 (110) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEEECC---------------CCCCEEEEEEEEEEEGG T ss_pred HHHHHHHHHHHHCCCCEEEEEEEEEECCCCCCEEEECCCEEEECCCCCEEEEEEEECHH T ss_conf 99999999998689971999940331455573044156134420125358999993678 No 16 >>1qy7_A Nitrogen regulatory protein P-II; alpha/beta, transcription; 2.00A {Synechococcus elongatus pcc 7942} (A:1-96) Probab=57.60 E-value=11 Score=16.64 Aligned_cols=52 Identities=17% Similarity=0.293 Sum_probs=37.0 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCC---CCC---CCCCEEEEEEECC Q ss_conf 999999999998699965712256303348888988---521---3375599999569 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASD---PMN---SANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~---t~~---~~NRRVEi~i~~~ 341 (343) .|...|.+.|...|++.=-+..|.|||..+-..... ... -.-+|+||++.+. T Consensus 11 ~k~~~v~~aL~~~Gv~g~Tv~~V~G~G~~~g~~~~~~~~~~~~~~~pk~~ieivv~d~ 68 (96) T 1qy7_A 11 FKLDEVKIALVNAGIVGMTVSEVRGFGRQKGQTERYRGAEYTVEFLQKLKLEIVVEDA 68 (96) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEEEEEEEECCCSSCTTSSEEEEEEEEEEEEEEECGG T ss_pred HHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCEECCCEEEECCCCEEEEEEEECHH T ss_conf 8999999999977998289965533516788522043512451326538999998789 No 17 >>3ce8_A Putative PII-like nitrogen regulatory protein; structural genomics, joint center for structural genomics, JCSG; HET: MSE; 2.40A {Shewanella baltica OS155} (A:) Probab=56.92 E-value=8.4 Score=17.48 Aligned_cols=52 Identities=13% Similarity=0.130 Sum_probs=37.4 Q ss_pred HHHHHHHHHHHH-CCCCHHHEEEEEECCCCCCCCCCCCCC---CCCCEEEEEEECC Q ss_conf 999999999998-699965712256303348888988521---3375599999569 Q gi|254780529|r 290 DRAYSAYQVLMK-SGVSEDRISKISGFAHHRLKIASDPMN---SANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~-~Gv~~~ri~~v~G~g~~~P~~~n~t~~---~~NRRVEi~i~~~ 341 (343) .|...|.+.|.+ .|++.=-+..|.|||........+... -..++|||++.+. T Consensus 33 ~k~~~V~~AL~~~~Gv~g~Tv~~V~G~G~q~g~~~~~e~~~~~~pkvkieivv~d~ 88 (120) T 3ce8_A 33 DIKDDIVDTLIELEFLSGFSLGNICGFSREHSHFNIKEQVEGYREFCKFEIXHPAA 88 (120) T ss_dssp GGHHHHHHHHTTCTTCCCCEEEEEEEEECC-----------EEEEEEEEEEEEEGG T ss_pred HHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCHHHHHHCCCCEEEEEEECCHH T ss_conf 89999999998568979759984103575665746777642500058999982999 No 18 >>3bzq_A Nitrogen regulatory protein P-II; GLNB, GLNK, signal transductory protein, nucleotide-binding, transcription; 1.40A {Mycobacterium tuberculosis H37RV} (A:1-99) Probab=52.98 E-value=13 Score=16.16 Aligned_cols=53 Identities=19% Similarity=0.246 Sum_probs=36.6 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCC---CCC---CCCCEEEEEEECCC Q ss_conf 999999999998699965712256303348888988---521---33755999995699 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASD---PMN---SANRRIDILVEDRQ 342 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~---t~~---~~NRRVEi~i~~~~ 342 (343) .|...|.+.|.+.|++.=-+..|.|+|..+=..... ... -.-++|||++.+.+ T Consensus 13 ~k~~~v~~aL~~~Gv~g~Tv~~v~G~G~~~g~~~~~~~~~~~~~~~~kv~ieivv~d~~ 71 (99) T 3bzq_A 13 FTLDDVKTSLEDAGVLGMTVSEIQGYGRQKGHTEVYRGAEYSVDFVPKVRIEVVVDDSI 71 (99) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEEEECC---------------CEEEEEEEEEEEETTT T ss_pred HHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCEECCCCEEECCCCEEEEEEEECHHH T ss_conf 99999999998689971999952614577664314415401321020589999987899 No 19 >>2j9c_A GLNK1, hypothetical nitrogen regulatory PII-like protein MJ0059; EM single particle, nitrogen metabolism, signalling, transcription; HET: ATP; 1.30A {Methanococcus jannaschii} PDB: 2j9d_A* 2j9e_A* 2j9d_E* (A:1-99) Probab=52.50 E-value=13 Score=16.11 Aligned_cols=52 Identities=12% Similarity=0.128 Sum_probs=36.6 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCC------CCCCCCCCEEEEEEECC Q ss_conf 99999999999869996571225630334888898------85213375599999569 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIAS------DPMNSANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n------~t~~~~NRRVEi~i~~~ 341 (343) .|...|.+.|.+.|++.=-+..|.|||...-.... .+.--.-++|||++.+. T Consensus 13 ~k~~~v~~aL~~~Gv~g~Tv~~v~G~G~~~g~~~~~~~~~~~~~~~~kv~ieivv~d~ 70 (99) T 2j9c_A 13 EKLEIVKKALSDAGYVGMTVSEVKGRGVQGGIVERYRGREYIVDLIPKVKIELVVKEE 70 (99) T ss_dssp GGHHHHHHHHHHTTCCCEEEEEEEEECCSSSSCCEETTEECSSSCEEEEEEEEEEEGG T ss_pred HHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCEECCCEEEECCCCEEEEEEEECHH T ss_conf 8999999999968997199997573488898231333520250207569999998858 No 20 >>3iib_A Peptidase M28; YP_926796.1, structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: PGE; 1.70A {Shewanella amazonensis SB2B} (A:1-69,A:232-444) Probab=52.15 E-value=14 Score=16.07 Aligned_cols=57 Identities=14% Similarity=0.132 Sum_probs=38.4 Q ss_pred CCC-CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHEEEEEECCCCC Q ss_conf 278-3389873146766787410699999999999999998699965712256303348 Q gi|254780529|r 262 STE-VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHR 319 (343) Q Consensus 262 ~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~ 319 (343) .++ .|.|-||.|+.+++....+|- -+..=..+++++|.+.|..+.|=+.+.-++... T Consensus 85 ~~~e~Vii~aHlDS~~~g~GA~Dd~-sGva~~leaar~L~~~~~~p~rtI~fv~~~~EE 142 (282) T 3iib_A 85 KADEIVLIGAHLDSWDEGTGAIDDG-AGVAIVTAAAKHILDLPQKPERTIRVVLYAAEE 142 (282) T ss_dssp EEEEEEEEEEECCCCSSSCCTTTTH-HHHHHHHHHHHHHHTSSSCCSEEEEEEEESCGG T ss_pred CCCCEEEEEECCCCCCCCCCCCCCC-HHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCC T ss_conf 8985899950124554558966761-458999999999976325766652699963664 No 21 >>3dfe_A Putative PII-like signaling protein; YP_323533.1, structural genomics, joint center for structural genomics, JCSG; 2.35A {Anabaena variabilis atcc 29413} (A:) Probab=51.05 E-value=7.3 Score=17.89 Aligned_cols=51 Identities=12% Similarity=0.272 Sum_probs=34.4 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCCC---CCCCCEEEEEEEC Q ss_conf 99999999999869996571225630334888898852---1337559999956 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPM---NSANRRIDILVED 340 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t~---~~~NRRVEi~i~~ 340 (343) .|...|.+.|.+.|++.==+..|.|+|-.+.....+.. ...|.|+|+++.. T Consensus 16 ~~~~~v~~aL~~~Gv~G~Tv~~v~G~G~~~g~~~~~~~~~~~~~~v~ie~vV~~ 69 (111) T 3dfe_A 16 VLLKKVAKIIEEAGATGYTVVDTGGKGSRNVRSTGKPNTSDTDSNVKFEVLTEN 69 (111) T ss_dssp GGHHHHHHHHHHHTCSCCEEEEEBC------------------CEEEEEEEESS T ss_pred HHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCCEEEEEEECC T ss_conf 999999999985799887999547238888626661320124683699999857 No 22 >>1bxn_I Rubisco, protein (ribulose bisphosphate carboxylase small chain); lyase (carbon-carbon); 2.70A {Ralstonia eutropha} (I:1-105) Probab=50.30 E-value=11 Score=16.75 Aligned_cols=23 Identities=13% Similarity=0.147 Sum_probs=10.5 Q ss_pred HHHHHHHHHHHHHCCC-CEEEEEE Q ss_conf 5654436789861278-3389873 Q gi|254780529|r 249 IVVLQKIGEVLAHSTE-VISIRGH 271 (343) Q Consensus 249 ~~~l~~ia~~l~~~~~-~i~IeGH 271 (343) ..+|..+..-++.+|+ .|++-|. T Consensus 62 ~~Vl~eie~c~~~~p~~YVRliG~ 85 (105) T 1bxn_I 62 AGILMEINNARNTFPNHYIRVTAF 85 (105) T ss_dssp HHHHHHHHHHHHHCSSSEEEEEEE T ss_pred HHHHHHHHHHHHHCCCCEEEEEEE T ss_conf 999999999999899876999999 No 23 >>1gk8_I Ribulose bisphosphate carboxylase small chain 1; lyase, rubisco, photosynthesis; HET: KCX CAP; 1.4A {Chlamydomonas reinhardtii} (I:) Probab=48.83 E-value=13 Score=16.15 Aligned_cols=40 Identities=10% Similarity=0.122 Sum_probs=23.6 Q ss_pred CCCCCCCCCC-------CHHHHHHHHHHHHHHHHCCC-CEEEEEEECC Q ss_conf 4555687546-------83565654436789861278-3389873146 Q gi|254780529|r 235 PMFDKSSSIP-------LPETIVVLQKIGEVLAHSTE-VISIRGHTDA 274 (343) Q Consensus 235 ~lF~~gsa~l-------~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~ 274 (343) .+|+..+-.+ ......+|.+|..-++++|+ .|++-|.=-. T Consensus 66 ~~~~~~yW~~wklP~f~~~d~~~Vl~ele~C~~~~p~~YVRliG~D~~ 113 (140) T 1gk8_I 66 LYYDNRYWTMWKLPMFGCRDPMQVLREIVACTKAFPDAYVRLVAFDNQ 113 (140) T ss_dssp TCCBTSSCEEESCCCTTCCCHHHHHHHHHHHHHHCTTSEEEEEEEETT T ss_pred CCCCCCHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECCC T ss_conf 434455767527776799898999999999987688747999886165 No 24 >>1hwu_A PII protein; herbaspirillum seropedicae PII, beta-alpha-beta motif, signal transduction protein, signaling protein; 2.10A {Herbaspirillum seropedicae} (A:1-97) Probab=48.68 E-value=15 Score=15.72 Aligned_cols=52 Identities=15% Similarity=0.249 Sum_probs=36.0 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCC------CCCCCCCEEEEEEECC Q ss_conf 999999999998699965712256303348888988------5213375599999569 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASD------PMNSANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~------t~~~~NRRVEi~i~~~ 341 (343) .|...|.+.|.+.|++.=-+..|.|||..+-..... ..--.-+||||++... T Consensus 11 ~~~~~v~~aL~~~Gv~g~Tv~~V~G~G~~~g~~~~~~~~~~~~~~~pkv~ieivv~d~ 68 (97) T 1hwu_A 11 FKLDEVRESLAEVGVTGLTVTEVKGFGRQKGHTELYRGAEYVVDFLPKVKIEVVVDDK 68 (97) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEEEEC-------------CCCCEEEEEEEEEEECGG T ss_pred HHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCEEECCCEEEECCCCEEEEEEEECHH T ss_conf 9999999999977997499997042676677421442631250315337999998679 No 25 >>3cqy_A Anhydro-N-acetylmuramic acid kinase; APC7501, SO_1313, structural genomics, PSI-2, protein structure initiative; 2.30A {Shewanella oneidensis mr-1} (A:1-145,A:326-370) Probab=41.07 E-value=20 Score=14.95 Aligned_cols=69 Identities=13% Similarity=0.136 Sum_probs=43.7 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHEEEEEEC Q ss_conf 55568754683565654436789861278338987314676678741069999999999999999869996571225630 Q gi|254780529|r 236 MFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGF 315 (343) Q Consensus 236 lF~~gsa~l~~~~~~~l~~ia~~l~~~~~~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~ri~~v~G~ 315 (343) +|.+.+....+..+..|..+..-- ......-..-|++|...=|.+|..+|.+.|+.++.+..|--+ T Consensus 33 ~~~~~~~p~p~~lr~~l~~~~~~~--------------~~~~~~~~~l~~~lg~~~a~av~~ll~~~~l~~~~id~IGsH 98 (190) T 3cqy_A 33 LIGTHTETIPTHLLKGLQRLCLPG--------------TDEINRLGRLDRSVGKLFALAVNNLLAKTKIAKDEIIAIGSH 98 (190) T ss_dssp EEEEEEECCCHHHHHHHHGGGCTT--------------SCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCGGGEEEEEEE T ss_pred EEEEECCCCCHHHHHHHHHHCCCC--------------CCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECC T ss_conf 985424318999999999860378--------------654999999999999999999998864203443443587048 Q ss_pred CCC Q ss_conf 334 Q gi|254780529|r 316 AHH 318 (343) Q Consensus 316 g~~ 318 (343) |.| T Consensus 99 GQT 101 (190) T 3cqy_A 99 GQT 101 (190) T ss_dssp EEE T ss_pred CCE T ss_conf 855 No 26 >>1skh_A Major prion protein 2; coil-helix-coil, unknown function; NMR {Bos taurus} (A:) Probab=40.66 E-value=15 Score=15.87 Aligned_cols=10 Identities=30% Similarity=1.109 Sum_probs=8.4 Q ss_pred HHHHHHHHHH Q ss_conf 9999999999 Q gi|254780529|r 44 LMAFFLVMWI 53 (343) Q Consensus 44 LmaFFvll~s 53 (343) ++++||.+|| T Consensus 10 iLvlFvatws 19 (30) T 1skh_A 10 ILVLFVAMWS 19 (30) T ss_dssp HHHHHHHHHH T ss_pred HHHHHHHHHH T ss_conf 6778888764 No 27 >>3ei3_A DNA damage-binding protein 1; UV-damage, DDB, nucleotide excision repair, xeroderma pigmentosum, cytoplasm, DNA repair; HET: DNA PG4; 2.30A {Homo sapiens} PDB: 3ei1_A* 3ei2_A* 3ei4_A* 3e0c_A* 3i7k_A* 3i7h_A* 3i7l_A* 3i7n_A* 3i7o_A* 3i7p_A* 3i89_A* 3i8c_A* 3i8e_A* 2b5l_A 2b5m_A 2hye_A* 2b5n_A (A:33-76) Probab=39.73 E-value=14 Score=16.02 Aligned_cols=21 Identities=33% Similarity=0.441 Sum_probs=15.7 Q ss_pred CCCCC--CCCCCEEEEEEECCCC Q ss_conf 98852--1337559999956999 Q gi|254780529|r 323 ASDPM--NSANRRIDILVEDRQG 343 (343) Q Consensus 323 ~n~t~--~~~NRRVEi~i~~~~~ 343 (343) ++|.- -+||-|+||.+...+| T Consensus 12 p~dlNLiiaK~trlEi~lvtpeG 34 (44) T 3ei3_A 12 AEDLNLLIAKNTRLEIYVVTAEG 34 (44) T ss_dssp SSCCEEEEEETTEEEEEEEETTE T ss_pred CCCCEEEEECCCEEEEEEECCCC T ss_conf 99648999849999999988995 No 28 >>2gw8_A PII signal transduction protein; transcriptional regulation, structural genomics, oxford protein production facility, OPPF; 1.85A {Neisseria meningitidis MC58} (A:) Probab=39.17 E-value=21 Score=14.76 Aligned_cols=52 Identities=13% Similarity=0.255 Sum_probs=34.1 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCC----CCC--CCCCCEEEEEEECC Q ss_conf 99999999999869996571225630334888898----852--13375599999569 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIAS----DPM--NSANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n----~t~--~~~NRRVEi~i~~~ 341 (343) .|+..|.+.|.+.|++.=-+..|.|+|-..=.... +.. --.-++|||++... T Consensus 13 ~k~~~V~~aL~~~G~~g~Tv~~v~G~G~~~~~~~~~~~~~~~~~~~~k~~i~ivv~d~ 70 (114) T 2gw8_A 13 FKLDDVREALTEIGITGMTVSEVKGFGRQKGHTEIYRGAEYAVDFLPKIKIELVLADD 70 (114) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEEEECC--------------CCEEEEEEEEEEEEGG T ss_pred HHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCEEECCCEEECCCCCEEEEEEEECHH T ss_conf 9999999999978997199996342136668620212640120202147999998728 No 29 >>2qt7_A Receptor-type tyrosine-protein phosphatase-like N; IA-2, ICA-512, protein-tyrosine phosphatase, transmembrane protein, diabetes, autoimmunity; 1.30A {Homo sapiens} (A:) Probab=38.88 E-value=22 Score=14.73 Aligned_cols=69 Identities=22% Similarity=0.282 Sum_probs=46.9 Q ss_pred CHHHHHHHHHHHHHHHHCCC---CEEEEEEECCCCCCCCCCCHHHHH--HHHHHHHHHHHHH-CCCCHHHEEEEEECCCC Q ss_conf 83565654436789861278---338987314676678741069999--9999999999998-69996571225630334 Q gi|254780529|r 245 LPETIVVLQKIGEVLAHSTE---VISIRGHTDASPFRNIARDNWRLS--LDRAYSAYQVLMK-SGVSEDRISKISGFAHH 318 (343) Q Consensus 245 ~~~~~~~l~~ia~~l~~~~~---~i~IeGHTD~~p~~g~~~~Nw~LS--~~RA~aV~~~L~~-~Gv~~~ri~~v~G~g~~ 318 (343) ...+.++|..+|..|.=... .|+|.||.=+=.++. ..-||..+ ++.|......|.+ .|+ +|+. +|-|+. T Consensus 16 ~~~G~~ll~~lA~ll~l~~~~F~~i~V~g~aVTFrV~~-N~~n~taadVak~a~~~K~~Le~~tGl---~Ilq-tGVG~k 90 (91) T 2qt7_A 16 LAAGVKLLEILAEHVHMSSGSFINISVVGPALTFRIRH-NEQNLSLADVTQQAGLVKSELEAQTGL---QILQ-TGVGQR 90 (91) T ss_dssp HHHHHHHHHHHHHHHTSCGGGEEEEEEETTEEEEEECC-CTTCCCHHHHHHHHHHTHHHHHHHHTS---CEEE-EEEECC T ss_pred HHHHHHHHHHHHHHHCCCCCCEEEEEEECCCEEEEECC-CCCCCCHHHHHHHHHHHHHHHHHHHCE---EEEE-ECCCCC T ss_conf 78989999999999578732303578756717999626-866887999999999878988774283---9997-034568 No 30 >>2a6q_A Antitoxin YEFM; YEFM, antitoxin, addiction modules, RNAse, inhibitor, toxin inhibitor/toxin complex; 2.05A {Escherichia coli} (A:1-44) Probab=38.44 E-value=9.7 Score=17.04 Aligned_cols=14 Identities=21% Similarity=0.309 Sum_probs=7.6 Q ss_pred CCCCCEEEEEECCC Q ss_conf 76886899982168 Q gi|254780529|r 10 ENDQFIIIKKKVAI 23 (343) Q Consensus 10 ~~~~~~iikr~~~~ 23 (343) ++++||||.|++++ T Consensus 25 ~d~epviItR~~~~ 38 (44) T 2a6q_A 25 EDHAPILITRQNGE 38 (44) T ss_dssp HHTCCEEEECTTSC T ss_pred CCCCEEEEECCCCC T ss_conf 56981999828998 No 31 >>1saz_A Probable butyrate kinase 2; askha (acetate and sugar kinases, HSC70, actin) superfamily, acetate kinase, isobutyrate kinase; HET: ACP; 2.50A {Thermotoga maritima} (A:1-172,A:333-381) Probab=37.02 E-value=23 Score=14.54 Aligned_cols=18 Identities=11% Similarity=-0.049 Sum_probs=10.6 Q ss_pred CCCCCCCCCHHHHHHHHH Q ss_conf 556875468356565443 Q gi|254780529|r 237 FDKSSSIPLPETIVVLQK 254 (343) Q Consensus 237 F~~gsa~l~~~~~~~l~~ 254 (343) -..|.+.+++....-|.. T Consensus 81 i~gGtY~Vne~Ml~dL~~ 98 (221) T 1saz_A 81 IPGGVYLVDGLXIKTLKS 98 (221) T ss_dssp BCSSEEECCHHHHHHHHH T ss_pred CCCCEEEECHHHHHHHHH T ss_conf 069718767999999874 No 32 >>1k7w_A Delta 2 crystallin; eye lens protein, argininosuccinate lyase, enzyme mechanism; HET: AS1; 1.96A {Anas platyrhynchos} (A:370-425) Probab=33.00 E-value=25 Score=14.33 Aligned_cols=16 Identities=25% Similarity=0.200 Sum_probs=12.3 Q ss_pred HHHHHHHHHHCCCCHH Q ss_conf 9999999998699965 Q gi|254780529|r 292 AYSAYQVLMKSGVSED 307 (343) Q Consensus 292 A~aV~~~L~~~Gv~~~ 307 (343) |..+++||++.|+|=. T Consensus 3 ATdlAdyLV~kGvPFR 18 (56) T 1k7w_A 3 ATDLALYLVRKGVPFR 18 (56) T ss_dssp HHHHHHHHHTTTCCHH T ss_pred HHHHHHHHHHCCCCHH T ss_conf 5899999998699899 No 33 >>1tkj_A Aminopeptidase, SGAP; double-zinc metalloproteinase, calcium activation, protein- inhibitor complex, hydrolase; HET: MED; 1.15A {Streptomyces griseus} (A:) Probab=31.10 E-value=29 Score=13.92 Aligned_cols=52 Identities=13% Similarity=0.117 Sum_probs=34.5 Q ss_pred CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHEEEEEECCC Q ss_conf 33898731467667874106999999999999999986999657122563033 Q gi|254780529|r 265 VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAH 317 (343) Q Consensus 265 ~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~ri~~v~G~g~ 317 (343) .|.+.||.|.+|+.....+|- ...+-+..++++|...+..+.+=+.+..+++ T Consensus 79 ~i~l~aH~D~v~~~~ga~D~~-~gva~~l~~~~~l~~~~~~~~~~i~~~~~~~ 130 (284) T 1tkj_A 79 VLMAGAHLDSVSSGAGINDNG-SGSAAVLETALAVSRAGYQPDKHLRFAWWGA 130 (284) T ss_dssp EEEEEEECCCCTTSCCTTTTH-HHHHHHHHHHHHHHHTTCCCSEEEEEEEESC T ss_pred EEEEEECCCCCCCCCCCCCCC-CCHHHHHHHHHHHHHHCCCCCCCEEEEECCC T ss_conf 699981202567765457876-3247999999999860689875447762244 No 34 >>1vfj_A Nitrogen regulatory protein P-II; structural genomics, signal transducing protein, riken structural genomics/proteomics initiative, RSGI; 1.70A {Thermus thermophilus} (A:) Probab=30.08 E-value=30 Score=13.81 Aligned_cols=52 Identities=13% Similarity=0.241 Sum_probs=33.8 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCC---C-CC--CCCCCCCEEEEEEECC Q ss_conf 999999999998699965712256303348888---9-88--5213375599999569 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKI---A-SD--PMNSANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~---~-n~--t~~~~NRRVEi~i~~~ 341 (343) .|...|.+.|...|++.--+..|.|||...=.. . .. +.-..-.+|||++... T Consensus 11 ~k~~~V~~AL~~~G~~G~Tv~~v~G~G~~~~~~~~~~~~~~~~~~~~k~~i~ivv~d~ 68 (116) T 1vfj_A 11 EKLNEVLKALFQAEVRGLTLSRVQGHGGETERVETYRGTTVKMELHEKVRLEIGVSEP 68 (116) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEEEECTTCCCHHHHTTSCCSTTCEEEEEEEEEECGG T ss_pred HHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCEECCEEEEECCCCCEEEEEEECHH T ss_conf 9999999999867998689870074377655431021517770106633899998779 No 35 >>1e6y_A Methyl-coenzyme M reductase I alpha subunit; biological methanogenesis, NI-enzyme, oxidoreductase, NI enzyme; HET: MHS AGM F43 TP7; 1.6A {Methanosarcina barkeri} (A:74-292,A:523-569) Probab=29.85 E-value=6.2 Score=18.33 Aligned_cols=15 Identities=7% Similarity=0.124 Sum_probs=7.2 Q ss_pred EEECCCCCCC----CCCCC Q ss_conf 5630334888----89885 Q gi|254780529|r 312 ISGFAHHRLK----IASDP 326 (343) Q Consensus 312 v~G~g~~~P~----~~n~t 326 (343) |..+|+.-|. .+|++ T Consensus 200 vi~m~~~lPaRRARgpNEP 218 (266) T 1e6y_A 200 LVSMGEMLPARXARGPNEP 218 (266) T ss_dssp EECSBCCBCGGGCBCSSSG T ss_pred HHHHHCCCCCHHCCCCCCC T ss_conf 6555302850003599998 No 36 >>3ig3_A Plxna3 protein; plexin intracellular GAP RBD inactive, membrane, transmembrane, membrane protein, signaling protein; 1.99A {Mus musculus} (A:1-48,A:188-224,A:398-434) Probab=29.78 E-value=30 Score=13.77 Aligned_cols=21 Identities=29% Similarity=0.458 Sum_probs=13.6 Q ss_pred HHHHHHHHHHHHH------------HHHHHHHH Q ss_conf 8879999999999------------99999997 Q gi|254780529|r 34 KIVYADFMTVLMA------------FFLVMWII 54 (343) Q Consensus 34 ~vtyAD~~TlLma------------FFvll~s~ 54 (343) +-+|||+||-|+- +|+|.+++ T Consensus 28 KeaFaeLqT~m~dlt~Dl~~~ag~pLy~L~~Ai 60 (122) T 3ig3_A 28 KEAFAELQTDINELTNHMDGVAGEPLFLLYCAI 60 (122) T ss_dssp HHHHHHHHHHHHHHSCC---CTHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH T ss_conf 999999862045414440578143799999999 No 37 >>1z8o_A 6-deoxyerythronolide B hydroxylase; heme, CYP, erythromycin, oxidoreductase; HET: HEM DEB; 1.70A {Saccharopolyspora erythraea} (A:1-66,A:287-338) Probab=28.82 E-value=14 Score=15.90 Aligned_cols=17 Identities=18% Similarity=0.460 Sum_probs=11.4 Q ss_pred CCCCCHHHH-HHHHHHHH Q ss_conf 887431887-99999999 Q gi|254780529|r 28 NNLGSWKIV-YADFMTVL 44 (343) Q Consensus 28 ~~~~~W~vt-yAD~~TlL 44 (343) .|.++|+|| |+|-..+| T Consensus 35 ~g~~~wlvtry~dv~~vl 52 (118) T 1z8o_A 35 LGQDAWLVTGYDEAKAAL 52 (118) T ss_dssp TTEEEEEECSHHHHHHHH T ss_pred CCCCEEEECCHHHHHHHH T ss_conf 896589988999999996 No 38 >>3dzc_A UDP-N-acetylglucosamine 2-epimerase; structural genomics, infectious diseases, isomerase; 2.35A {Vibrio cholerae} (A:1-196,A:382-396) Probab=28.62 E-value=31 Score=13.64 Aligned_cols=83 Identities=16% Similarity=0.264 Sum_probs=54.1 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHC-CCCEEEEEEECC------------CCC----CCCCCCH----H-HHHHHHH- Q ss_conf 555687546835656544367898612-783389873146------------766----7874106----9-9999999- Q gi|254780529|r 236 MFDKSSSIPLPETIVVLQKIGEVLAHS-TEVISIRGHTDA------------SPF----RNIARDN----W-RLSLDRA- 292 (343) Q Consensus 236 lF~~gsa~l~~~~~~~l~~ia~~l~~~-~~~i~IeGHTD~------------~p~----~g~~~~N----w-~LS~~RA- 292 (343) .+...+..+......++..+..++... |+.|.|-|.|.. +|+ +|..-++ | |=.-+|+ T Consensus 84 ~l~~~~~s~~~~~~~~~~~l~~~l~~~~PD~VlV~GD~~~~La~AlaA~~~~IPvaHieaGlrs~d~~~g~peE~~R~~i 163 (211) T 3dzc_A 84 NIMEPGQTLNGVTSKILLGMQQVLSSEQPDVVLVHGDTATTFAASLAAYYQQIPVGHVEAGLRTGNIYSPWPEEGNRKLT 163 (211) T ss_dssp CCCCTTCCHHHHHHHHHHHHHHHHHHHCCSEEEEETTSHHHHHHHHHHHTTTCCEEEETCCCCCSCTTSSTTHHHHHHHH T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEECCCCCCCCCCCCHHHHHHHCC T ss_conf 03889988999999999999998986267645400146542137777650355326850465556865356145542203 Q ss_pred -----------HHHHHHHHHCCCCHHHEEEEEECCCCC Q ss_conf -----------999999998699965712256303348 Q gi|254780529|r 293 -----------YSAYQVLMKSGVSEDRISKISGFAHHR 319 (343) Q Consensus 293 -----------~aV~~~L~~~Gv~~~ri~~v~G~g~~~ 319 (343) ..-++.|++.|++++|+. +.|-||-+ T Consensus 164 s~lA~lhF~~t~~~~~nL~~eG~~~~rI~-~vGN~~~~ 200 (211) T 3dzc_A 164 AALTQYHFAPTDTSRANLLQENYNAENIF-VTGNGDGK 200 (211) T ss_dssp HHTCSEEEESSHHHHHHHHHTTCCGGGEE-ECCCCCSC T ss_pred CCCCEEEEECCHHHHHHHHHHCCCCCCCE-EECCCCCH T ss_conf 65212786235378999876214764320-32147985 No 39 >>2vjq_A Formyl-coenzyme A transferase; cytoplasm, class III COA transferase; HET: EPE; 1.8A {Oxalobacter formigenes} PDB: 2vjp_A 2vjm_A* 2vjl_A* 2vjk_A* 1p5h_A 1p5r_A* 2vjn_A* 1t4c_A* 2vjo_A* 2vjm_B* 1vgr_A* 1t3z_A* 1t4c_B* 1vgq_A* (A:1-209,A:395-428) Probab=28.03 E-value=32 Score=13.58 Aligned_cols=20 Identities=15% Similarity=0.283 Sum_probs=11.4 Q ss_pred HHCCCC--EEEEEEECCCCCCC Q ss_conf 612783--38987314676678 Q gi|254780529|r 260 AHSTEV--ISIRGHTDASPFRN 279 (343) Q Consensus 260 ~~~~~~--i~IeGHTD~~p~~g 279 (343) +.+|.. +.|.|+-+.-|+.+ T Consensus 114 ~~nP~LIy~sisg~G~~gp~~~ 135 (243) T 2vjq_A 114 ELNPRVILASVKGYAEGHANEH 135 (243) T ss_dssp HHCTTCEEEEEESSCTTSTTTT T ss_pred HHCCCCCEECCCCCCCCCCCCC T ss_conf 6586640111112233321222 No 40 >>2e9f_A Argininosuccinate lyase; alpha helix bundle; HET: ARG; 2.80A {Thermus thermophilus HB8} (A:368-431) Probab=27.59 E-value=33 Score=13.53 Aligned_cols=15 Identities=20% Similarity=0.149 Sum_probs=8.7 Q ss_pred HHHHHHHHHHCCCCH Q ss_conf 999999999869996 Q gi|254780529|r 292 AYSAYQVLMKSGVSE 306 (343) Q Consensus 292 A~aV~~~L~~~Gv~~ 306 (343) |..+++||++.|+|= T Consensus 3 ATDlAD~LVrkgiPF 17 (64) T 2e9f_A 3 ATELADYLAEKGLPF 17 (64) T ss_dssp HHHHHHHHHHHTCCS T ss_pred HHHHHHHHHHCCCCH T ss_conf 999999999869989 No 41 >>1yj7_A ESCJ; mixed alpha/beta, extended linker, protein transport; 1.80A {Escherichia coli} (A:1-68) Probab=27.44 E-value=20 Score=14.96 Aligned_cols=24 Identities=17% Similarity=0.188 Sum_probs=20.6 Q ss_pred HHHHHHHHHHHHHHHCCCCHHHEE Q ss_conf 999999999999998699965712 Q gi|254780529|r 287 LSLDRAYSAYQVLMKSGVSEDRIS 310 (343) Q Consensus 287 LS~~RA~aV~~~L~~~Gv~~~ri~ 310 (343) ||.+-|+.|...|...||++.+.. T Consensus 9 L~e~eANevla~L~~~gI~A~K~~ 32 (68) T 1yj7_A 9 LTEKEANQMQALLLSNDVNVSKEM 32 (68) T ss_dssp ECHHHHHHHHHHHHHTTCCCEEEE T ss_pred CCHHHHHHHHHHHHHCCCCEEEEE T ss_conf 899999999999998799849740 No 42 >>2wwb_C SEC61BETA, protein transport protein SEC61 subunit beta; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Canis lupus familiaris} (C:) Probab=26.02 E-value=35 Score=13.34 Aligned_cols=14 Identities=21% Similarity=0.256 Sum_probs=8.8 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 99999999999999 Q gi|254780529|r 40 FMTVLMAFFLVMWI 53 (343) Q Consensus 40 ~~TlLmaFFvll~s 53 (343) +|+|++-|||+||= T Consensus 75 vmSl~FI~sV~~LH 88 (96) T 2wwb_C 75 VMSLLFIASVFMLH 88 (96) T ss_dssp HHHHHHHHHHHHHS T ss_pred HHHHHHHHHHHHHH T ss_conf 54789999999999 No 43 >>2w3s_B Xanthine dehydrogenase; XO, XDH, GOUT, iron, 2Fe-2S, iron-sulfur, oxidoreductase, purine metabolism, molybdenum cofactor, hypoxanthine; HET: MPN FAD XAN; 2.60A {Rhodobacter capsulatus} PDB: 1jrp_B* 2w3r_B* 1jro_B* 2w54_B* 2w55_B* (B:462-606) Probab=25.47 E-value=36 Score=13.28 Aligned_cols=90 Identities=12% Similarity=0.102 Sum_probs=54.3 Q ss_pred EEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHH-HHHCCCCEEE-EEEECCCCCCCC-CCCHHHH----HHHHHHH-H Q ss_conf 99997034567455568754683565654436789-8612783389-873146766787-4106999----9999999-9 Q gi|254780529|r 224 ILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEV-LAHSTEVISI-RGHTDASPFRNI-ARDNWRL----SLDRAYS-A 295 (343) Q Consensus 224 i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~-l~~~~~~i~I-eGHTD~~p~~g~-~~~Nw~L----S~~RA~a-V 295 (343) ..|+|.. ++.+.+..|..++-......+.+++.. |.-.+..|.| .|-||..|+.+. +-|.+-. +..+|.. + T Consensus 8 a~v~l~~-DG~v~v~~g~~e~GQG~~T~~aqi~Ae~LGi~~~~V~v~~~DT~~~p~~~~t~aSr~t~~~g~Av~~Aa~~l 86 (145) T 2w3s_B 8 ALVQIYT-DGSVALNHGGTEMGQGLHAKMVQVAAAVLGIDPVQVRITATDTSKVPNTSATAASSGADMNGMAVKDACETL 86 (145) T ss_dssp EEEEECT-TSCEEEEESCCCSSSCHHHHHHHHHHHHHTSCGGGEEECCEETTTSCSCCCSCTTCHHHHHHHHHHHHHHHH T ss_pred EEEEEEC-CCCEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHH T ss_conf 7999927-997799836756778678899999999968996269998279877888664468653112368999999999 Q ss_pred HHHHH-----HCCCCHHHEEEEEE Q ss_conf 99999-----86999657122563 Q gi|254780529|r 296 YQVLM-----KSGVSEDRISKISG 314 (343) Q Consensus 296 ~~~L~-----~~Gv~~~ri~~v~G 314 (343) +..|. ..|++.+.+.-..| T Consensus 87 r~~l~~~Aa~~~~~~~~~l~~~~G 110 (145) T 2w3s_B 87 RGRLAGFVAAREGCAARDVIFDAG 110 (145) T ss_dssp HHHHHHHHHHHHTSCGGGCEEETT T ss_pred HHHHHHHHHHHCCCCHHHCCCCCC T ss_conf 999999988761998567324388 No 44 >>3e5j_A CYP105P1, cytochrome P450 (cytochrome P450 hydroxylase); oxidoreductase, heme, iron, metal-binding, monooxygenase; HET: HEM; 1.95A {Streptomyces avermitilis} PDB: 3e5k_A* 3e5l_A* (A:1-81,A:285-335) Probab=24.11 E-value=24 Score=14.45 Aligned_cols=17 Identities=18% Similarity=0.593 Sum_probs=9.7 Q ss_pred CCCCCHHHH-HHHHHHHH Q ss_conf 887431887-99999999 Q gi|254780529|r 28 NNLGSWKIV-YADFMTVL 44 (343) Q Consensus 28 ~~~~~W~vt-yAD~~TlL 44 (343) .|.++|+|| |+|-.++| T Consensus 41 ~g~~~WlVtry~dv~~vL 58 (132) T 3e5j_A 41 SGHEAWLVTGYEEVRALL 58 (132) T ss_dssp TSCEEEEECCHHHHHHHH T ss_pred CCCEEEEECCHHHHHHHH T ss_conf 995389979999999997 No 45 >>1v4v_A UDP-N-acetylglucosamine 2-epimerase; UDP-GLCNAC, two domains, homodimer, riken structural genomics/proteomics initiative, RSGI; HET: MSE; 1.80A {Thermus thermophilus} (A:1-176,A:349-376) Probab=20.68 E-value=44 Score=12.66 Aligned_cols=79 Identities=18% Similarity=0.218 Sum_probs=50.3 Q ss_pred CCCCCCHHHHHHHHHHHHHHHHC-CCCEEEEEEECC------------CCC----CCCCCCHH-----HHHHHHHH---- Q ss_conf 87546835656544367898612-783389873146------------766----78741069-----99999999---- Q gi|254780529|r 240 SSSIPLPETIVVLQKIGEVLAHS-TEVISIRGHTDA------------SPF----RNIARDNW-----RLSLDRAY---- 293 (343) Q Consensus 240 gsa~l~~~~~~~l~~ia~~l~~~-~~~i~IeGHTD~------------~p~----~g~~~~Nw-----~LS~~RA~---- 293 (343) ++..+....-.++..+..++... |+.|.|-|.|.. .|+ .|..-+|. |=.-+++. T Consensus 68 ~~~sl~~~~~~~i~~~~~~l~~~~PD~VlV~GDt~~~lA~AlaA~~~~IPvaHieaGlrS~d~~~~~pEE~~R~~is~lA 147 (204) T 1v4v_A 68 ERQALPDLAARILPQAARALKEXGADYVLVHGDTLTTFAVAWAAFLEGIPVGHVEAGLRSGNLKEPFPEEANRRLTDVLT 147 (204) T ss_dssp SCCCHHHHHHHHHHHHHHHHHHTTCSEEEEESSCHHHHHHHHHHHHTTCCEEEETCCCCCSCTTSSTTHHHHHHHHHHHC T ss_pred CCCCHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHHHHHEECCCCCCCCCCCCCHHHHHHHHHCCCC T ss_conf 88889999999999877665404765231013664311367889876344511103556666567734666554412344 Q ss_pred --------HHHHHHHHCCCCHHHEEEEEECCCCC Q ss_conf --------99999998699965712256303348 Q gi|254780529|r 294 --------SAYQVLMKSGVSEDRISKISGFAHHR 319 (343) Q Consensus 294 --------aV~~~L~~~Gv~~~ri~~v~G~g~~~ 319 (343) ..++.|++.|++++||. +.|-||-+ T Consensus 148 ~lHF~~t~~~~~nL~~eG~~~~rI~-vvGn~~~~ 180 (204) T 1v4v_A 148 DLDFAPTPLAKANLLKEGKREEGIL-VTGQGDGK 180 (204) T ss_dssp SEEEESSHHHHHHHHTTTCCGGGEE-ECCCCCSC T ss_pred CEEEECCHHHHHHHHHHCCCCCCEE-EECCCCCH T ss_conf 4365221166777776225554224-42148987 No 46 >>1n40_A P450 MT2, cytochrome P450 121; heme binding, oxygen binding, P450 fold, structural genomics, PSI, protein structure initiative; HET: HEM; 1.06A {Mycobacterium tuberculosis} (A:1-70,A:281-331) Probab=20.30 E-value=32 Score=13.62 Aligned_cols=13 Identities=23% Similarity=0.465 Sum_probs=4.6 Q ss_pred CCCHHHH-HHHHHH Q ss_conf 7431887-999999 Q gi|254780529|r 30 LGSWKIV-YADFMT 42 (343) Q Consensus 30 ~~~W~vt-yAD~~T 42 (343) .++|+|| |+|-.+ T Consensus 40 ~~~WlVtry~dv~~ 53 (121) T 1n40_A 40 AEAWLVSSYALCTQ 53 (121) T ss_dssp CEEEEECSHHHHHH T ss_pred CEEEEECCHHHHHH T ss_conf 76999799999999 Done!