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 23785 Date Tue May 31 20:18:53 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780529.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2zov_A Chemotaxis protein MOTB 100.0 8E-33 3.4E-37 236.7 17.5 152 190-341 27-181 (210) 2 2zvy_A Chemotaxis protein MOTB 100.0 3.9E-32 1.6E-36 232.1 20.0 152 190-341 16-170 (183) 3 3khn_A MOTB protein, putative; 100.0 1.3E-28 5.3E-33 208.7 16.0 129 210-342 31-164 (174) 4 3ldt_A Outer membrane protein, 100.0 3.2E-28 1.3E-32 206.0 14.1 124 213-343 37-163 (169) 5 2k1s_A Inner membrane lipoprot 99.9 1.2E-26 5E-31 195.5 12.5 120 213-339 17-139 (149) 6 3cyp_B Chemotaxis protein MOTB 99.9 4E-25 1.7E-29 185.4 11.5 106 234-340 4-115 (138) 7 3oon_A Outer membrane protein 99.9 3.4E-24 1.4E-28 179.1 12.7 118 214-340 3-123 (123) 8 2kgw_A Outer membrane protein 99.9 1.5E-24 6.5E-29 181.4 10.6 103 233-339 24-129 (129) 9 1r1m_A Outer membrane protein 99.9 1.2E-24 5.1E-29 182.2 7.7 105 232-340 14-141 (164) 10 2zf8_A MOTY, component of sodi 99.9 2.7E-24 1.1E-28 179.8 8.1 105 234-342 163-271 (278) 11 2hqs_H Peptidoglycan-associate 99.9 1.3E-23 5.5E-28 175.2 10.3 108 230-341 3-113 (118) 12 2aiz_P Outer membrane protein 99.9 1.1E-22 4.4E-27 169.2 10.6 99 235-337 32-133 (134) 13 1svd_M Ribulose bisphosphate c 74.7 2.1 9E-05 20.4 3.2 95 235-342 11-110 (110) 14 1bwv_S Rubisco, protein (ribul 58.8 6.2 0.00026 17.3 3.0 48 224-274 33-88 (138) 15 2jwk_A Protein TOLR; periplasm 56.8 8.1 0.00034 16.6 5.0 67 224-304 5-73 (74) 16 1vfj_A Nitrogen regulatory pro 45.3 12 0.00051 15.4 4.3 52 290-341 11-68 (116) 17 2xbp_A Nitrogen regulatory pro 44.2 13 0.00053 15.3 3.3 52 290-341 11-68 (113) 18 2j9c_A GLNK1, hypothetical nit 43.1 13 0.00055 15.2 3.8 52 290-341 13-70 (119) 19 2o66_A PII protein; regulation 42.8 13 0.00056 15.1 3.7 51 291-341 24-81 (135) 20 1wdd_S Ribulose bisphosphate c 41.5 12 0.00051 15.4 2.2 96 236-343 11-121 (128) 21 3mhy_A PII-like protein PZ; PI 41.3 14 0.00059 15.0 4.0 51 291-341 12-68 (112) 22 2gw8_A PII signal transduction 40.9 14 0.0006 14.9 3.6 51 291-341 14-70 (114) 23 3aaf_A Werner syndrome ATP-dep 39.2 15 0.00063 14.8 2.8 76 237-321 7-95 (134) 24 2ns1_B Nitrogen regulatory pro 39.0 15 0.00064 14.7 3.2 52 290-341 15-72 (116) 25 2qt7_A Receptor-type tyrosine- 37.2 16 0.00068 14.6 3.1 69 245-318 16-90 (91) 26 3ce8_A Putative PII-like nitro 34.9 17 0.00073 14.3 2.8 31 293-323 36-67 (120) 27 3d55_A Antitoxin, uncharacteri 34.9 12 0.00053 15.3 1.4 48 9-70 20-67 (91) 28 2eg2_A Nitrogen regulatory pro 34.7 18 0.00074 14.3 3.0 52 290-341 11-68 (112) 29 3bzq_A Nitrogen regulatory pro 34.5 18 0.00075 14.3 4.1 52 291-342 14-71 (114) 30 1bxn_I Rubisco, protein (ribul 33.4 9.2 0.00039 16.2 0.5 39 236-274 42-88 (139) 31 3ncq_A Nitrogen regulatory pro 31.5 20 0.00083 14.0 4.1 51 291-341 12-68 (119) 32 2cz4_A Hypothetical protein TT 25.1 26 0.0011 13.2 4.2 46 292-339 37-82 (119) 33 1skh_A Major prion protein 2; 25.0 26 0.0011 13.2 1.7 11 44-54 10-20 (30) 34 1itk_A Catalase-peroxidase; he 24.9 18 0.00074 14.3 0.8 12 33-44 145-156 (731) 35 1hwu_A PII protein; herbaspiri 22.2 29 0.0012 12.9 3.2 51 291-341 12-68 (112) 36 2wwb_C SEC61BETA, protein tran 20.2 32 0.0013 12.6 2.2 13 40-52 75-87 (96) No 1 >2zov_A Chemotaxis protein MOTB; 2-layer sandwich, bacterial flagellum, cell projection, flagellar rotation, inner membrane, membrane; 2.00A {Salmonella typhimurium} Probab=100.00 E-value=8e-33 Score=236.71 Aligned_cols=152 Identities=29% Similarity=0.455 Sum_probs=127.9 Q ss_pred HHHHHHHHHHHHHHHHHH-HHHHCCCEEEECCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEE Q ss_conf 999999999999975553-3210131145114534999970345674555687546835656544367898612783389 Q gi|254780529|r 190 KRLQDLAKKISSTLSGLV-ADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISI 268 (343) Q Consensus 190 ~~~~~~~~~i~~~~~~~~-~~~~~~~~~v~~~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~~i~I 268 (343) ..+..+...+...+.... .......+.++..+.++.|+|.+....+||.+||+.|++.++.+|.+||.+|+.+|+.|.| T Consensus 27 ~~l~~l~~~l~~~~~~~~~~~~~~~~~~i~~~~~gl~i~i~d~~~~vlF~~gsa~l~~~~~~~L~~ia~~l~~~p~~i~I 106 (210) T 2zov_A 27 SRLNKLRGDLDQLIESDPKLRALRPHLKIDLVQEGLRIQIIDSQNRPMFKTGSAEVEPYMRDILRAIAPVLNGIPNRISL 106 (210) T ss_dssp HHHHHHHHHHHHHHHHCHHHHHHGGGEEEEEETTEEEEEEECCSSSCSBCTTSCCBCHHHHHHHHHHHHHHTTSCCCEEE T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCEEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEE T ss_conf 99999999999999870988865237358981695189998489984768997435988999999999999735856999 Q ss_pred EEEECCCCCCC--CCCCHHHHHHHHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCCCCCCCCEEEEEEECC Q ss_conf 87314676678--74106999999999999999986999657122563033488889885213375599999569 Q gi|254780529|r 269 RGHTDASPFRN--IARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVEDR 341 (343) Q Consensus 269 eGHTD~~p~~g--~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t~~~~NRRVEi~i~~~ 341 (343) +||||++|+.+ .+++||+||++||.+|++||+..|+++.|+++|.|||+++|+++|++.+++||||||+|... T Consensus 107 ~GHTD~~~~~~~~~~~sN~~LS~~RA~aV~~~L~~~g~~~~~~l~v~G~G~~~P~~~~~~~~a~NRRVEI~il~~ 181 (210) T 2zov_A 107 AGHTDDFPYANGEKGYSNWELSADRANASRRELVAGGLDNGKVLRVVGMAATMRLSDRGPDDAINRRISLLVLNK 181 (210) T ss_dssp EEEEECSCCCSSCSSCCHHHHHHHHHHHHHHHHHHTTCCTTCEEEEEEECCC---------CCCEEEEEEEEECH T ss_pred EEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCCCCCCCCCHHHCCCEEEEEECC T ss_conf 986488764457764306789999999999999985998045899998678878997996648729889999785 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 Probab=100.00 E-value=3.9e-32 Score=232.10 Aligned_cols=152 Identities=29% Similarity=0.455 Sum_probs=128.7 Q ss_pred HHHHHHHHHHHHHHHHH-HHHHHCCCEEEECCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEE Q ss_conf 99999999999997555-33210131145114534999970345674555687546835656544367898612783389 Q gi|254780529|r 190 KRLQDLAKKISSTLSGL-VADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISI 268 (343) Q Consensus 190 ~~~~~~~~~i~~~~~~~-~~~~~~~~~~v~~~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~~i~I 268 (343) ..++.+...+...+... ........+.++....|++|+|.+..+.+||++||+.|+|.++.+|+++|.+|+..|+.|.| T Consensus 16 ~~l~~l~~~l~~~~~~~~~~~~~~~~i~i~~~~~gl~i~i~~~~~~~lF~~gsa~l~~~~~~~L~~ia~~l~~~~~~i~I 95 (183) T 2zvy_A 16 SRLNKLRGDLDQLIESDPKLRALRPHLKIDLVQEGLRIQIIDSQNRPMFKTGSAEVEPYMRDILRAIAPVLNGIPNRISL 95 (183) T ss_dssp HHHHHHHHHHHHHHHHSHHHHTTGGGEEEEEETTEEEEEEECCSSSCSBCTTCCSBCHHHHHHHHHHHHHHTTSCCCEEE T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEECCCCEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEE T ss_conf 99999999999999874988754206258980796189998689986869997336987999999999999734866999 Q ss_pred EEEECCCCCCC--CCCCHHHHHHHHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCCCCCCCCEEEEEEECC Q ss_conf 87314676678--74106999999999999999986999657122563033488889885213375599999569 Q gi|254780529|r 269 RGHTDASPFRN--IARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVEDR 341 (343) Q Consensus 269 eGHTD~~p~~g--~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t~~~~NRRVEi~i~~~ 341 (343) +||||++|+.. .+++||+||.+||.+|++||+..|+++.|++++.|||+++|+.+|++.+++||||||+|.+. T Consensus 96 ~GHTD~~~~~~~~~~~~N~~LS~~RA~aV~~~L~~~Gv~~~r~l~~~G~g~~~p~~~~~~~~~~NRRVeI~il~~ 170 (183) T 2zvy_A 96 AGHTDDFPYANGEKGYSNWELSADRANASRRELVAGGLDNGKVLRVVGMAATMRLSDRGPDDAINRRISLLVLNK 170 (183) T ss_dssp EEECCSSCTTCSTTSSCHHHHHHHHHHHHHHHHHHTTCCTTCEEEEEECTTTTCSSCSSTTGGGGSEEEEEEECH T ss_pred EEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCCHHHHCCEEEEEECC T ss_conf 986288775567764314689999999999999980899668899999577777998996206509889999896 No 3 >3khn_A MOTB protein, putative; structural genomics, OMPA-like domain, PSI-2, protein structure initiative; 2.03A {Desulfovibrio vulgaris str} Probab=99.96 E-value=1.3e-28 Score=208.73 Aligned_cols=129 Identities=19% Similarity=0.298 Sum_probs=112.7 Q ss_pred HHCCCEEEECCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCC--CCCCCCHHH Q ss_conf 1013114511453499997034567455568754683565654436789861278-3389873146766--787410699 Q gi|254780529|r 210 NIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPF--RNIARDNWR 286 (343) Q Consensus 210 ~~~~~~~v~~~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~--~g~~~~Nw~ 286 (343) .....+.+...+.++.|+|.+ .++|++||+.|++.++..|+.++.+|..+|. .|.|+||||+.+. .+.+.+||+ T Consensus 31 ~~~~~v~~~~~~~~~~i~l~~---~v~F~~gs~~L~~~~~~~L~~la~~l~~~~~~~i~I~GHTD~~~~~~~~~~~~N~~ 107 (174) T 3khn_A 31 GVEGVIGAVFDEGVITLRVPS---EVLFAPGAVELAPGADRVLATLKDLFIRRREQNINIKGFTDDVQPSANARFKDNWE 107 (174) T ss_dssp TCTTTCEEEEETTEEEEEEEH---HHHBCTTCCSBCTTHHHHHHHHHHHHHHTTTCEEEEEEECCSCCCCTTSSCSSHHH T ss_pred CCCCCEEEEEECCEEEEEECC---CCEECCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCHHH T ss_conf 466746999859989999358---84007997534976999999999999778995899999817877555667210478 Q ss_pred HHHHHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCCCC--CCCCEEEEEEECCC Q ss_conf 999999999999998699965712256303348888988521--33755999995699 Q gi|254780529|r 287 LSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPMN--SANRRIDILVEDRQ 342 (343) Q Consensus 287 LS~~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t~~--~~NRRVEi~i~~~~ 342 (343) ||++||.+|++||+..|+++.||. +.|||+++|+++|++.. .+||||||+|.++. T Consensus 108 LS~~RA~aV~~~L~~~gi~~~ri~-~~g~G~~~P~~~n~~~~~~~~NRRVei~i~~~~ 164 (174) T 3khn_A 108 VSALRSVNVLRYFLGAGIEPARLT-ATGLGELDPLFPNTSDENRARNRRVEFVLERRV 164 (174) T ss_dssp HHHHHHHHHHHHHHHTTCCGGGEE-EEEEETSSCSSCSSSHHHHHHHSEEEEEEEC-- T ss_pred HHHHHHHHHHHHHHHCCCCHHEEE-EEEEECCCCCCCCCCHHHHHHCCCEEEEEEECC T ss_conf 999999999999998499953399-999825677899929789987497899998534 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} Probab=99.96 E-value=3.2e-28 Score=206.01 Aligned_cols=124 Identities=19% Similarity=0.217 Sum_probs=112.8 Q ss_pred CCEEEECCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHHH Q ss_conf 3114511453499997034567455568754683565654436789861278-338987314676678741069999999 Q gi|254780529|r 213 KGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLDR 291 (343) Q Consensus 213 ~~~~v~~~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~R 291 (343) ..+++....+.+.|.+ +..++|++||+.|++.++..|++++.+|+.+|+ .|.|+||||++ |...+||+||.+| T Consensus 37 ~~v~v~~~~~~~~v~l---~~~v~F~~~s~~l~~~~~~~L~~ia~~L~~~p~~~i~I~GhTD~~---g~~~~N~~LS~~R 110 (169) T 3ldt_A 37 QDIQYVEYGDTRTLII---PTDKYFMFSSPRLNEICYPGLNNVIRLLNFYPQSTIYVAGFTDNV---GSRSHKRKLSQAQ 110 (169) T ss_dssp TTCEEEEETTEEEEEE---ETTTCCC-CCHHHHHHHCHHHHHHHHHHTTCTTSCEEEEEECTTS---CCC--CHHHHHHH T ss_pred CCCEEEEECCEEEEEE---CCCCEECCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCC---CCHHHHHHHHHHH T ss_conf 9937999699899990---688347299642698899999999999997899579999973898---9766757799999 Q ss_pred HHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCCCC--CCCCEEEEEEECCCC Q ss_conf 9999999998699965712256303348888988521--337559999956999 Q gi|254780529|r 292 AYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPMN--SANRRIDILVEDRQG 343 (343) Q Consensus 292 A~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t~~--~~NRRVEi~i~~~~~ 343 (343) |.+|++||+..|+++.||. +.|||+++|+++|+|.+ ++||||||.|...+| T Consensus 111 A~~V~~~L~~~Gv~~~ri~-~~G~G~~~Pv~~n~t~egra~NRRVei~i~~~~g 163 (169) T 3ldt_A 111 AETMMTFLWANGIAAKRLK-AEGYGDKNAISDNAIIHGSAQNRRIEIQWFTSEG 163 (169) T ss_dssp HHHHHHHHHHTTCCTTTEE-ECCTTCTTSCCCTTTSCGGGGTSEEEEEEECCCC T ss_pred HHHHHHHHHHCCCCHHHEE-EEEECCCCCCCCCCCHHHHHHCCCEEEEEEECCC T ss_conf 9999999998599979989-9997566867999398899854988999995898 No 5 >2k1s_A Inner membrane lipoprotein YIAD; abbababab, OMPA, alpha beta, palmitate, transmembrane, structural genomics, PSI-2; NMR {Escherichia coli K12} Probab=99.94 E-value=1.2e-26 Score=195.52 Aligned_cols=120 Identities=27% Similarity=0.370 Sum_probs=110.2 Q ss_pred CCEEEECCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHHH Q ss_conf 3114511453499997034567455568754683565654436789861278-338987314676678741069999999 Q gi|254780529|r 213 KGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLDR 291 (343) Q Consensus 213 ~~~~v~~~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~R 291 (343) ..+.+...+++++|.+ .+.++|++||+.|++.+...|+.++..|+.+|. .|.|+||||++ |+..+||+||.+| T Consensus 17 ~~v~v~~~~~~~~l~l---~~~v~F~~~s~~L~~~~~~~L~~ia~~L~~~~~~~i~I~GhtD~~---g~~~~N~~LS~~R 90 (149) T 2k1s_A 17 TGVSVTRSGDNIILNM---PNNVTFDSSSATLKPAGANTLTGVAMVLKEYPKTAVNVIGYTDST---GGHDLNMRLSQQR 90 (149) T ss_dssp TSCEEEEETTEEEEEE---EHHHHBSSSSSCBCHHHHHHHHHHHHHHHHCTTEEEEEEEECCCT---TCHHHHHHHHHHH T ss_pred CCCEEEEECCEEEEEC---CCCCEECCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEECCC---CCHHHHHHHHHHH T ss_conf 9967999799999986---874054299722698899999999999964899579999880786---8955736899999 Q ss_pred HHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCCCC--CCCCEEEEEEE Q ss_conf 9999999998699965712256303348888988521--33755999995 Q gi|254780529|r 292 AYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPMN--SANRRIDILVE 339 (343) Q Consensus 292 A~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t~~--~~NRRVEi~i~ 339 (343) |.+|++||+..|++++||. +.|||+++|+++|+++. ++||||||+|. T Consensus 91 A~~V~~~L~~~Gi~~~rl~-~~g~G~~~P~~~~~~~~~~~~NRRVei~i~ 139 (149) T 2k1s_A 91 ADSVASALITQGVDASRIR-TQGLGPANPIASNSTAEGKAQNRRVEITLS 139 (149) T ss_dssp HHHHHHHHHHHTCCGGGEE-EEECTTTCCSSCSSSHHHHHHHSEEEEEEE T ss_pred HHHHHHHHHHCCCCHHEEE-EEEECCCCCCCCCCCHHHHHHCCCEEEEEE T ss_conf 9999999998599932599-999867577799929778973597999997 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* 3imp_B Probab=99.92 E-value=4e-25 Score=185.37 Aligned_cols=106 Identities=22% Similarity=0.462 Sum_probs=94.9 Q ss_pred CCCCCCCCCC-CCHHHHHHHHHHHHHHHHCCC--CEEEEEEECCCCCC-CCCCCHHHHHHHHHHHHHHHHHHCCCCHHHE Q ss_conf 7455568754-683565654436789861278--33898731467667-8741069999999999999999869996571 Q gi|254780529|r 234 TPMFDKSSSI-PLPETIVVLQKIGEVLAHSTE--VISIRGHTDASPFR-NIARDNWRLSLDRAYSAYQVLMKSGVSEDRI 309 (343) Q Consensus 234 ~~lF~~gsa~-l~~~~~~~l~~ia~~l~~~~~--~i~IeGHTD~~p~~-g~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~ri 309 (343) .++|..|+++ |++.++..|+++|.+|+.+|+ .|.|+||||++|+. +.+.+||+||.+||.+|++||+..|++++|| T Consensus 4 ~~~F~~~~s~~l~~~~~~~L~~ia~~l~~~p~~~~I~I~GhTD~~~~~~~~~~~N~~LS~~RA~~V~~~L~~~Gi~~~ri 83 (138) T 3cyp_B 4 PFTFENATSDAINQDMMLYIERIAKIIQKLPKRVHINVRGFTDDTPLVKTRFKSHYELAANRAYRVMKVLIQYGVNPNQL 83 (138) T ss_dssp CEECSSTTCCCCCHHHHHHHHHHHHHHTTSCTTCEEEEEEECCCCCC----CCSHHHHHHHHHHHHHHHHHHTTCCGGGE T ss_pred CEECCCCCHHHCCHHHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCEE T ss_conf 76618997344199899999999999996899707999885289887777617799999999999999999859996436 Q ss_pred EEEEECCCCCCCCCCCCCC--CCCCEEEEEEEC Q ss_conf 2256303348888988521--337559999956 Q gi|254780529|r 310 SKISGFAHHRLKIASDPMN--SANRRIDILVED 340 (343) Q Consensus 310 ~~v~G~g~~~P~~~n~t~~--~~NRRVEi~i~~ 340 (343) . +.|||+++|+++|++.. ++||||||+|.. T Consensus 84 ~-~~g~G~~~P~~~n~~~~~~a~NRRVEI~i~~ 115 (138) T 3cyp_B 84 S-FSSYGSTNPIAPNDSLENRMKNNRVEIFFST 115 (138) T ss_dssp E-EEECTTCSCSSCTTSHHHHHHHSEEEEEEEE T ss_pred E-EEEEECCCCCCCCCCHHHHHHCCCEEEEEEC T ss_conf 8-8210013757999397899873988999976 No 7 >3oon_A Outer membrane protein (TPN50); protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG; 1.79A {Borrelia burgdorferi} Probab=99.91 E-value=3.4e-24 Score=179.14 Aligned_cols=118 Identities=25% Similarity=0.327 Sum_probs=104.8 Q ss_pred CEEEECCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHHHH Q ss_conf 114511453499997034567455568754683565654436789861278-3389873146766787410699999999 Q gi|254780529|r 214 GVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLDRA 292 (343) Q Consensus 214 ~~~v~~~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~RA 292 (343) .++++....++.+.+ .++|++||+.|++.+...|+.++..|+.+|. .|.|+||||+. |...+||.||.+|| T Consensus 3 ~v~v~~~~~~i~~~~-----~i~F~~~s~~l~~~~~~~L~~ia~~l~~~~~~~I~I~Ghtd~~---g~~~~N~~LS~~RA 74 (123) T 3oon_A 3 AIEVEKNNKGINLSF-----DIEFYPNSFQILQKEYKKIDLIAKLLEKFKKNNILIEGHTEQF---GLEEEMHELSEKRA 74 (123) T ss_dssp CCEEEEETTEEEEEE-----EEEBCTTSCCBCGGGHHHHHHHHHHHHHSCSCCEEEEECCCSC---CCHHHHHHHHHHHH T ss_pred CEEEEECCCEEEEEE-----EEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEECCC---CCHHHHHHHHHHHH T ss_conf 779997587799777-----8686699832799899999999999986899569999981798---75556479999999 Q ss_pred HHHHHHHHHCCC-CHHHEEEEEECCCCCCCCCCCCC-CCCCCEEEEEEEC Q ss_conf 999999998699-96571225630334888898852-1337559999956 Q gi|254780529|r 293 YSAYQVLMKSGV-SEDRISKISGFAHHRLKIASDPM-NSANRRIDILVED 340 (343) Q Consensus 293 ~aV~~~L~~~Gv-~~~ri~~v~G~g~~~P~~~n~t~-~~~NRRVEi~i~~ 340 (343) .+|++||++.|+ +++||. +.|||+++|+++|+++ +++||||||.|.+ T Consensus 75 ~aV~~~L~~~g~~~~~ri~-~~g~Ge~~p~~~~~~~~~~~NRRVei~i~~ 123 (123) T 3oon_A 75 RAIGNYLIKMKVKDKDQIL-FKGWGSQKPKYPKSSPLKAKNRRVEITILN 123 (123) T ss_dssp HHHHHHHHHTTSSCGGGEE-EEECTTCC----------CCEEEEEEEEEC T ss_pred HHHHHHHHHCCCCCCCEEE-EEEEECCCCCCCCCCCCHHHCCCEEEEEEC T ss_conf 9999999985999876899-999834774699988366871989999979 No 8 >2kgw_A Outer membrane protein A; OMPA- like, cell membrane, transmembrane; NMR {Mycobacterium tuberculosis} Probab=99.91 E-value=1.5e-24 Score=181.44 Aligned_cols=103 Identities=23% Similarity=0.355 Sum_probs=95.5 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHEEE Q ss_conf 67455568754683565654436789861278-33898731467667874106999999999999999986999657122 Q gi|254780529|r 233 NTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISK 311 (343) Q Consensus 233 ~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~ri~~ 311 (343) ..++|++||+.|++.++..|+.++.+|+.+++ .|.|+||||+. |...+||+||.+||.+|++||+..|++..||. T Consensus 24 ~~i~F~~gs~~l~~~~~~~L~~la~~l~~~~~~~i~I~GhtD~~---g~~~~n~~LS~~RA~aV~~~L~~~Gv~~~ri~- 99 (129) T 2kgw_A 24 GPIAFGNDGASLIPADYEILNRVADKLKACPDARVTINGYTDNT---GSEGINIPLSAQRAKIVADYLVARGVAGDHIA- 99 (129) T ss_dssp SCBCCCTTSSCCCHHHHHHHHHHHHHHHTCTTSCEEEEECCCTT---SCHHHHHHHHHHHHHHHHHHHHHHTCCGGGEE- T ss_pred CCEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEECCC---CCHHHCHHHHHHHHHHHHHHHHHCCCCHHHEE- T ss_conf 71486499732598899999999999997899479999981798---88102537999999999999998599989989- Q ss_pred EEECCCCCCCCCCCCCC--CCCCEEEEEEE Q ss_conf 56303348888988521--33755999995 Q gi|254780529|r 312 ISGFAHHRLKIASDPMN--SANRRIDILVE 339 (343) Q Consensus 312 v~G~g~~~P~~~n~t~~--~~NRRVEi~i~ 339 (343) +.|||+++|+++|.+.. ++||||||+|. T Consensus 100 ~~g~G~~~p~~~~~~~~~~~~NRRVei~v~ 129 (129) T 2kgw_A 100 TVGLGSVNPIASNATPEGRAKNRRVEIVVN 129 (129) T ss_dssp EEECTTCSCCSCTTSHHHHHHHSCEEEEEC T ss_pred EEEECCCCCCCCCCCHHHHHHCCCEEEEEC T ss_conf 999745576799939889985395899979 No 9 >1r1m_A Outer membrane protein class 4; 1.90A {Neisseria meningitidis} SCOP: d.79.7.1 Probab=99.91 E-value=1.2e-24 Score=182.16 Aligned_cols=105 Identities=23% Similarity=0.319 Sum_probs=95.1 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 14 ~~~v~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~~I~I~GhtD~~---G~~~~N~~LS~~RA~aV~~~L~~~Gi~~~ri~ 90 (164) T 1r1m_A 14 SAKTLFGFDKDSLRAEAQDNLKVLAQRLSRTNIQSVRVEGHTDFM---GSDKYNQALSERRAYVVANNLVSNGVPVSRIS 90 (164) T ss_dssp EHHHHHTTSSSCCCHHHHHHHHHHHHHHTTSCEEEEEEEEECCSS---SCHHHHHHHHHHHHHHHHHHHHHTTCCGGGEE T ss_pred CCCEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEECCC---CCHHHHHHHHHHHHHHHHHHHHHCCCCHHHEE T ss_conf 773357289743698999999999999977898189999981898---98556269999999999999998599989989 Q ss_pred EEEECCCCCCCCCCCCCC--CC--------------------CCEEEEEEEC Q ss_conf 256303348888988521--33--------------------7559999956 Q gi|254780529|r 311 KISGFAHHRLKIASDPMN--SA--------------------NRRIDILVED 340 (343) Q Consensus 311 ~v~G~g~~~P~~~n~t~~--~~--------------------NRRVEi~i~~ 340 (343) +.|||+++|+++|+|+. ++ ||||||.|.. T Consensus 91 -~~g~Ge~~P~~~n~t~~~~a~~~~~~~~~~~r~~~i~~~~~NRRVEi~v~~ 141 (164) T 1r1m_A 91 -AVGLGESQAQMTQVCEAEVAKLGAKVSKAKKREALIACIEPDRRVDVKIRS 141 (164) T ss_dssp -EEECTTTTCCCHHHHHHHHHTCCSSCCSSHHHHHHHHHTGGGSEEEEEEEE T ss_pred -EEEECCCCCCCCCCCHHHHHHCCCCCHHHHHHHHHHHCCCCCCCEEEEEEC T ss_conf -999767688898979788742144100000046665303788988999961 No 10 >2zf8_A MOTY, component of sodium-driven polar flagellar motor; beta barrel, 2-layer sandwich, flagellum, structural protein; 2.85A {Vibrio alginolyticus} Probab=99.90 E-value=2.7e-24 Score=179.85 Aligned_cols=105 Identities=21% Similarity=0.285 Sum_probs=96.8 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC--CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHEEE Q ss_conf 7455568754683565654436789861278--33898731467667874106999999999999999986999657122 Q gi|254780529|r 234 TPMFDKSSSIPLPETIVVLQKIGEVLAHSTE--VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISK 311 (343) Q Consensus 234 ~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~--~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~ri~~ 311 (343) .++|++||+.|++.++..|++++..|+..|+ .|.|+||||+. |...+||+||.+||.+|+.||+..||+.+||. T Consensus 163 ~v~F~~gs~~L~~~~~~~L~~ia~~Lk~~p~~~~I~I~GhTD~~---G~~~~N~~LS~~RA~~V~~~L~~~GI~~~rI~- 238 (278) T 2zf8_A 163 ILHYERQGDQLTKASKKRLSQIADYIRHNQDIDLVLVATYTDST---DGKSASQSLSERRAESLRDYFQSLGLPEDRIQ- 238 (278) T ss_dssp ECBSSSSSSSBCHHHHHHHHHHHHHHTTCCSCCEEEEEEC----------CCCHHHHHHHHHHHHHHHHHHSCCTTSEE- T ss_pred EEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCC---CCHHHHHHHHHHHHHHHHHHHHHCCCCHHHEE- T ss_conf 79848997327999999999999999868996579999882899---97688899999999999999998599979999- Q ss_pred EEECCCCCCCCCCCCCC--CCCCEEEEEEECCC Q ss_conf 56303348888988521--33755999995699 Q gi|254780529|r 312 ISGFAHHRLKIASDPMN--SANRRIDILVEDRQ 342 (343) Q Consensus 312 v~G~g~~~P~~~n~t~~--~~NRRVEi~i~~~~ 342 (343) +.|||+++|+++|+++. ++||||||.|.+.+ T Consensus 239 v~g~Ge~~Pi~~n~t~~~r~~NRRVeI~l~r~e 271 (278) T 2zf8_A 239 VQGYGKRRPIADNGSPIGKDKNRRVVISLGRTQ 271 (278) T ss_dssp CCEEC------------------CEEEECCCCC T ss_pred EEEECCCCCCCCCCCHHHHHHCCCEEEEEEEEE T ss_conf 999756577799949789973497999997369 No 11 >2hqs_H Peptidoglycan-associated lipoprotein; TOLB, PAL, TOL, transport protein/lipoprotein complex; 1.50A {Escherichia coli} SCOP: d.79.7.1 PDB: 2w8b_C 1oap_A Probab=99.90 E-value=1.3e-23 Score=175.23 Aligned_cols=108 Identities=23% Similarity=0.283 Sum_probs=97.9 Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHH Q ss_conf 34567455568754683565654436789861278-33898731467667874106999999999999999986999657 Q gi|254780529|r 230 DQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDR 308 (343) Q Consensus 230 d~~~~~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~r 308 (343) ++...+||++||+.|++.+...|++++..|+.+|. .|.|.||||+. |...+||.||.+||.+|+.||+..|++++| T Consensus 3 ~~~~~VyF~~~s~~l~~~~~~~L~~ia~~L~~~p~~~i~I~GhtD~~---g~~~~N~~LS~~RA~~V~~~L~~~Gi~~~r 79 (118) T 2hqs_H 3 QQNNIVYFDLDKYDIRSDFAQMLDAHANFLRSNPSYKVTVEGHADER---GTPEYNISLGERRANAVKMYLQGKGVSADQ 79 (118) T ss_dssp -CCSEEECCTTCCCCCGGGHHHHHHHHHHHHHCTTCCEEEEECCCSS---SCHHHHHHHHHHHHHHHHHHHHHTTCCGGG T ss_pred CCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCC---CCHHHHHHHHHHHHHHHHHHHHHCCCCCCE T ss_conf 67989994089760799899999999999977899199999972899---876566779999999999999984998046 Q ss_pred EEEEEECCCCCCCCCCCCC--CCCCCEEEEEEECC Q ss_conf 1225630334888898852--13375599999569 Q gi|254780529|r 309 ISKISGFAHHRLKIASDPM--NSANRRIDILVEDR 341 (343) Q Consensus 309 i~~v~G~g~~~P~~~n~t~--~~~NRRVEi~i~~~ 341 (343) |. +.|||++.|+.+|.+. +++||||||++... T Consensus 80 I~-~~g~G~~~p~~~~~~~~~~~~NRRVeiv~ik~ 113 (118) T 2hqs_H 80 IS-IVSYGKEKPAVLGHDEAAYSKNRRAVLVYLEH 113 (118) T ss_dssp EE-EEECTTSSCSSCCSSHHHHHHHSEEEEECC-- T ss_pred EE-EEEECCCCCCCCCCCHHHHHHCCCEEEEEEEE T ss_conf 99-99974657778991977898659899999985 No 12 >2aiz_P Outer membrane protein P6; alpha-beta sandwich; HET: UDP AMU DGL 6CL DAL; NMR {Haemophilus influenzae} SCOP: d.79.7.1 Probab=99.88 E-value=1.1e-22 Score=169.20 Aligned_cols=99 Identities=18% Similarity=0.207 Sum_probs=93.1 Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHEEEEE Q ss_conf 455568754683565654436789861278-3389873146766787410699999999999999998699965712256 Q gi|254780529|r 235 PMFDKSSSIPLPETIVVLQKIGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKIS 313 (343) Q Consensus 235 ~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~~Gv~~~ri~~v~ 313 (343) ++|++||++|++++...|++++..|+.+|+ .|.|+||||.. |.+.+||.||.+||.+|+.||+..|+++.||. +. T Consensus 32 i~F~~~s~~L~~~~~~~L~~ia~~l~~~~~~~i~I~GhtD~~---g~~~~N~~LS~~RA~~V~~~L~~~Gi~~~rI~-~~ 107 (134) T 2aiz_P 32 VYFGFDKYDITGEYVQILDAHAAYLNATPAAKVLVEGNTDER---GTPEYNIALGQRRADAVKGYLAGKGVDAGKLG-TV 107 (134) T ss_dssp EECCTTCCCCCHHHHHHHHHHHHHHHHSTTCCEEEEEECCSS---SCHHHHHHHHHHHHHHHHHHHHHTTCCGGGEE-EE T ss_pred EECCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEECCC---CCHHHCCCHHHHHHHHHHHHHHHCCCCCCEEE-EE T ss_conf 780699700599999999999999996899389999861686---87232734799999999999997498513798-88 Q ss_pred ECCCCCCCCCCCCCC--CCCCEEEEE Q ss_conf 303348888988521--337559999 Q gi|254780529|r 314 GFAHHRLKIASDPMN--SANRRIDIL 337 (343) Q Consensus 314 G~g~~~P~~~n~t~~--~~NRRVEi~ 337 (343) |||+++|+++|++.. ++||||||+ T Consensus 108 g~G~~~P~~~~~~~~~~~~NRRVei~ 133 (134) T 2aiz_P 108 SYGEEKPAVLGHDEAAYSKNRRAVLA 133 (134) T ss_dssp ECTTTSCSSCSCSHHHHHHHSEEEEE T ss_pred EECCCCCCCCCCCHHHHHCCCCEEEE T ss_conf 80564767899197787633989995 No 13 >1svd_M Ribulose bisphosphate carboxylase small chain; beta-alpha-barrel, lyase; 1.80A {Halothiobacillus neapolitanus} SCOP: d.73.1.1 Probab=74.67 E-value=2.1 Score=20.40 Aligned_cols=95 Identities=12% Similarity=0.120 Sum_probs=53.3 Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCHHHH---HHHHHHHHHHHHHH--CCCCHHHE Q ss_conf 45556875468356565443678986127833898731467667874106999---99999999999998--69996571 Q gi|254780529|r 235 PMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIARDNWRL---SLDRAYSAYQVLMK--SGVSEDRI 309 (343) Q Consensus 235 ~lF~~gsa~l~~~~~~~l~~ia~~l~~~~~~i~IeGHTD~~p~~g~~~~Nw~L---S~~RA~aV~~~L~~--~Gv~~~ri 309 (343) .-|++=|.-+.-....+.++|.-.| .....+.|| |||...+.+.+=.-|.| ...++..|...|.. .-.+..- T Consensus 11 ~~~eTfSylP~lt~~~I~~QV~yll-~qG~~i~iE-~ad~~~~~~~yW~mw~lPmf~~~d~~~Vl~ele~c~~~~p~~Y- 87 (110) T 1svd_M 11 LKYETFSYLPPMNAERIRAQIKYAI-AQGWSPGIE-HVEVKNSMNQYWYMWKLPFFGEQNVDNVLAEIEACRSAYPTHQ- 87 (110) T ss_dssp CCCSTTTTSCCCCHHHHHHHHHHHH-HTTCEEEEE-EECGGGTTCSCCEEESCCCTTCCCHHHHHHHHHHHHHHSTTSE- T ss_pred CCCCCCCCCCCCCHHHHHHHHHHHH-HCCCEEEEE-EECCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCE- T ss_conf 5332002589999999999999999-789985688-6126777777631147887578899999999999999899877- Q ss_pred EEEEECCCCCCCCCCCCCCCCCCEEEEEEECCC Q ss_conf 225630334888898852133755999995699 Q gi|254780529|r 310 SKISGFAHHRLKIASDPMNSANRRIDILVEDRQ 342 (343) Q Consensus 310 ~~v~G~g~~~P~~~n~t~~~~NRRVEi~i~~~~ 342 (343) +++.||-.. .+-|.++++|.+.+ T Consensus 88 VRlig~D~~----------~q~q~~~fIV~RP~ 110 (110) T 1svd_M 88 VKLVAYDNY----------AQSLGLAFVVYRGN 110 (110) T ss_dssp EEEEEEETT----------TTEEEEEEEEECCC T ss_pred EEEEEEECC----------CCEEEEEEEEECCC T ss_conf 999998088----------52899999997889 No 14 >1bwv_S Rubisco, protein (ribulose bisphosphate carboxylase); carbon dioxide fixation, complex (rubisco/reaction intermediate); HET: KCX CAP; 2.40A {Galdieria partita} SCOP: d.73.1.1 PDB: 1iwa_B Probab=58.78 E-value=6.2 Score=17.34 Aligned_cols=48 Identities=15% Similarity=0.107 Sum_probs=32.2 Q ss_pred EEEEECCCCCCCCCCCCCCCC-------CHHHHHHHHHHHHHHHHCCC-CEEEEEEECC Q ss_conf 999970345674555687546-------83565654436789861278-3389873146 Q gi|254780529|r 224 ILISIIDQRNTPMFDKSSSIP-------LPETIVVLQKIGEVLAHSTE-VISIRGHTDA 274 (343) Q Consensus 224 i~I~i~d~~~~~lF~~gsa~l-------~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~ 274 (343) +-|+..|.. .|..++-++ ......+|.+|..-++.+|+ .|++-|.-.. T Consensus 33 i~iE~~d~~---~~r~~yW~mw~lPmf~~~d~~~Vl~Ele~C~~~~p~~YVRligfD~~ 88 (138) T 1bwv_S 33 IGIEYTNDI---HPRNAYWEIWGLPLFDVTDPAAVLFEINACRKARSNFYIKVVGFSSV 88 (138) T ss_dssp EEEEEESCC---CTTCCCCEECSSCBCSCCCHHHHHHHHHHHHHHCTTSEEEEEEEECC T ss_pred EEEEECCCC---CCCCCHHCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEEECC T ss_conf 646763677---55664000325764579999999999999999899774999999787 No 15 >2jwk_A Protein TOLR; periplasmic domain, membrane, inner membrane, protein transport, transmembrane, transport, membrane protein; NMR {Haemophilus influenzae} PDB: 2jwl_A Probab=56.75 E-value=8.1 Score=16.55 Aligned_cols=67 Identities=9% Similarity=0.150 Sum_probs=42.1 Q ss_pred EEEEECCCCCCCCCCCCCCCCCHH-HHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 999970345674555687546835-65654436789861278-3389873146766787410699999999999999998 Q gi|254780529|r 224 ILISIIDQRNTPMFDKSSSIPLPE-TIVVLQKIGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMK 301 (343) Q Consensus 224 i~I~i~d~~~~~lF~~gsa~l~~~-~~~~l~~ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~ 301 (343) ++|+|.. .+..++..|+....+- ...+..++...+...|+ .|.|.|+.+.. ..+-..|++.|.. T Consensus 5 ~ivsI~~-~G~~~l~~~~~~~~~v~~~~L~~~l~~~~~~~p~~~V~iraD~~v~-------------Y~~Vv~vmd~l~~ 70 (74) T 2jwk_A 5 VILEVAG-IGKYAISIGGERQEGLTEEMVTQLSRQEFDKDNNTLFLVGGAKEVP-------------YEEVIKALNLLHL 70 (74) T ss_dssp EEEEECS-SSCEEEEETTEEEEEECHHHHHHHHHHHHHHCTTCCEEEEECTTSC-------------HHHHHHHHHHHHH T ss_pred EEEEECC-CCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCC-------------HHHHHHHHHHHHH T ss_conf 9999838-9429996499767516999999999999843999459997798887-------------8999999999998 Q ss_pred CCC Q ss_conf 699 Q gi|254780529|r 302 SGV 304 (343) Q Consensus 302 ~Gv 304 (343) .|+ T Consensus 71 aGi 73 (74) T 2jwk_A 71 AGI 73 (74) T ss_dssp TTC T ss_pred CCC T ss_conf 399 No 16 >1vfj_A Nitrogen regulatory protein P-II; structural genomics, signal transducing protein, riken structural genomics/proteomics initiative, RSGI; 1.70A {Thermus thermophilus} SCOP: d.58.5.1 PDB: 1ufl_A 1v3s_A* 1v9o_A* 1v3r_A Probab=45.27 E-value=12 Score=15.37 Aligned_cols=52 Identities=13% Similarity=0.250 Sum_probs=33.0 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 11 ~k~~~v~~AL~~~G~~g~Tv~~V~G~G~q~~~~~~~~~~~~~~~~~~k~~ieivv~d~ 68 (116) T 1vfj_A 11 EKLNEVLKALFQAEVRGLTLSRVQGHGGETERVETYRGTTVKMELHEKVRLEIGVSEP 68 (116) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEEEECTTCCCHHHHTTSCCSTTCEEEEEEEEEECGG T ss_pred HHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCEEEEECCCCCEEEEEEECHH T ss_conf 9999999999977998489986075277877432233507762016746999998689 No 17 >2xbp_A Nitrogen regulatory protein P-II; nucleotide-binding, transcription regulation, transcription, phosphoprotein, gene regulation; HET: ATP; 1.20A {Synechococcus elongatus} PDB: 2v5h_G* 2jj4_D* 2xg8_A 1qy7_A 1ul3_A Probab=44.20 E-value=13 Score=15.27 Aligned_cols=52 Identities=17% Similarity=0.264 Sum_probs=32.7 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCC--C----CCCCCCEEEEEEECC Q ss_conf 999999999998699965712256303348888988--5----213375599999569 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASD--P----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~~~g~~~~~~~~~~~~~~~~k~~ieivv~D~ 68 (113) T 2xbp_A 11 FKLDEVKIALVNAGIVGMTVSEVRGFGRQKGQTERYRGSEYTVEFLQKLKLEIVVEDA 68 (113) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEEECCCCTTCCEEETTEEESSCCEEEEEEEEEECGG T ss_pred HHHHHHHHHHHHCCCCCEEEEEEEEEECCCCCCEEEECEEEEECCCCEEEEEEEECHH T ss_conf 8999999999977998499972356705678610240206661105538999998789 No 18 >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* Probab=43.11 E-value=13 Score=15.16 Aligned_cols=52 Identities=12% Similarity=0.146 Sum_probs=31.9 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCC--C----CCCCCEEEEEEECC Q ss_conf 9999999999986999657122563033488889885--2----13375599999569 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDP--M----NSANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t--~----~~~NRRVEi~i~~~ 341 (343) .|...|.+.|...|++.=-+..|.|||..+....... . --.-+++||++.+. T Consensus 13 ~kl~~v~~AL~~~Gv~g~Tv~~v~G~G~~~~~~~~~~~~~~~~~~~~k~~leivv~d~ 70 (119) T 2j9c_A 13 EKLEIVKKALSDAGYVGMTVSEVKGRGVQGGIVERYRGREYIVDLIPKVKIELVVKEE 70 (119) T ss_dssp GGHHHHHHHHHHTTCCCEEEEEEEEECCSSSSCCEETTEECSSSCEEEEEEEEEEEGG T ss_pred HHHHHHHHHHHHCCCCEEEEEEEEECCCCCCCCEEECCCEEEECCCCEEEEEEEECHH T ss_conf 8999999999977997099996564178888521431412452205469999998878 No 19 >2o66_A PII protein; regulation of nitrogen and carbon metabolism, biosynthetic protein; HET: FLC; 1.90A {Arabidopsis thaliana} PDB: 2o67_A 2rd5_C* Probab=42.75 E-value=13 Score=15.12 Aligned_cols=51 Identities=22% Similarity=0.311 Sum_probs=28.7 Q ss_pred HHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCC----CCCC---CCCCCEEEEEEECC Q ss_conf 999999999986999657122563033488889----8852---13375599999569 Q gi|254780529|r 291 RAYSAYQVLMKSGVSEDRISKISGFAHHRLKIA----SDPM---NSANRRIDILVEDR 341 (343) Q Consensus 291 RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~----n~t~---~~~NRRVEi~i~~~ 341 (343) |...|.+.|.+.|++.=-+..|.|+|-.+.... +... --.-++|||++.+. T Consensus 24 kl~~V~~AL~~~Gv~g~Tv~~V~G~G~q~g~~~~~~~~~~~~~~~~~Kv~ieivv~De 81 (135) T 2o66_A 24 RIQQVSSALLKIGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKMEIVVKKD 81 (135) T ss_dssp GHHHHHHHHHHTTCCCCEEEEEEECC---------------CCCCEEEEEEEEEEEGG T ss_pred HHHHHHHHHHHCCCCCEEEEEEEEECCCCCCEEEECCCEEEECCCCCEEEEEEEECHH T ss_conf 9999999999779985899745765256661243156200001337569999997738 No 20 >1wdd_S Ribulose bisphosphate carboxylase small chain C; rubisco, photosynthesis, alpha/beta barrel, N- methylmethionine, post-translational modification; HET: KCX CAP; 1.35A {Oryza sativa} SCOP: d.73.1.1 PDB: 8ruc_I* 1aus_S 1rbo_S* 1rco_S* 1rcx_S* 1rxo_S* 1upm_C* 1upp_I* 1aa1_S* 3rub_S 1rlc_S* 1rld_S 1ej7_S 1ir1_S* 4rub_S* Probab=41.53 E-value=12 Score=15.36 Aligned_cols=96 Identities=20% Similarity=0.274 Sum_probs=47.4 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEE----------EEECCCCCCCCCCCHHHHH---HHHHHHHHHHHHH- Q ss_conf 5556875468356565443678986127833898----------7314676678741069999---9999999999998- Q gi|254780529|r 236 MFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIR----------GHTDASPFRNIARDNWRLS---LDRAYSAYQVLMK- 301 (343) Q Consensus 236 lF~~gsa~l~~~~~~~l~~ia~~l~~~~~~i~Ie----------GHTD~~p~~g~~~~Nw~LS---~~RA~aV~~~L~~- 301 (343) .|++=|.-+.-...++.++|.- |-.....+.|| +|++..-+.+.|=.=|.|. ...+.+|+..|.. T Consensus 11 ~~ETfSyLP~ltd~qI~kQV~y-~l~qGw~p~iEf~d~~~~~~~~h~~p~~~~~~yW~mWkLPmFg~~d~~~Vl~Ele~C 89 (128) T 1wdd_S 11 KFETLSYLPPLTVEDLLKQIEY-LLRSKWVPCLEFSKVGFVYRENHRSPGYYDGRYWTMWKLPMFGCTDATQVLKELEEA 89 (128) T ss_dssp CCSTTTTSSCCCHHHHHHHHHH-HHHTTCEEEEEEESCCSCBCSSCCSTTCCBSCCCEEESCCCTTCCCHHHHHHHHHHH T ss_pred CCCCCCCCCCCCHHHHHHHHHH-HHHCCCEEEEEECCCCCEECCCCCCCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHH T ss_conf 3000236899998999999999-997899556887368843236899845333785142477886888999999999999 Q ss_pred -CCCCHHHEEEEEECCCCCCCCCCCCCCCCCCEEEEEEECCCC Q ss_conf -699965712256303348888988521337559999956999 Q gi|254780529|r 302 -SGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVEDRQG 343 (343) Q Consensus 302 -~Gv~~~ri~~v~G~g~~~P~~~n~t~~~~NRRVEi~i~~~~~ 343 (343) .-.+. ..+++.||-..+ +-|.++++|.+..| T Consensus 90 ~k~~p~-~YVRligfD~~~----------q~q~~sfIV~RP~G 121 (128) T 1wdd_S 90 KKAYPD-AFVRIIGFDNVR----------QVQLISFIAYKPPG 121 (128) T ss_dssp HHHCTT-SEEEEEEEETTT----------TEEEEEEEEECCTT T ss_pred HHHCCC-CEEEEEEEECCC----------CEEEEEEEEECCCC T ss_conf 997998-769999997887----------87999999988999 No 21 >3mhy_A PII-like protein PZ; PII protein, alpha-beta protein, homotrimer, signaling prote; HET: PG6 ATP AKG MES; 1.40A {Azospirillum brasilense} Probab=41.25 E-value=14 Score=14.97 Aligned_cols=51 Identities=14% Similarity=0.259 Sum_probs=33.0 Q ss_pred HHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCC---CC---CCCCCCCEEEEEEECC Q ss_conf 999999999986999657122563033488889---88---5213375599999569 Q gi|254780529|r 291 RAYSAYQVLMKSGVSEDRISKISGFAHHRLKIA---SD---PMNSANRRIDILVEDR 341 (343) Q Consensus 291 RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~---n~---t~~~~NRRVEi~i~~~ 341 (343) |-.+|.+.|...|++.=-+..|.|+|..+.... .. ..--..+|+||++.+. T Consensus 12 k~~~v~~AL~~~Gv~g~Tv~~v~G~G~~~g~~~~~~g~~~~~~~~~k~~ieivv~d~ 68 (112) T 3mhy_A 12 KLDEVREALTSLGIQGLTVSEVKGFGRQKGQTEIYRGAEYSVSFLPKVKVEVAVSDD 68 (112) T ss_dssp GHHHHHHHHHHHTCCCEEEEEEEEECTTTTCC---------CCCEEEEEEEEEECTT T ss_pred HHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCEECCCEEECCCCCEEEEEEEECHH T ss_conf 999999999977998699995680157788542011422450203147999999638 No 22 >2gw8_A PII signal transduction protein; transcriptional regulation, structural genomics, oxford protein production facility, OPPF; 1.85A {Neisseria meningitidis MC58} Probab=40.86 E-value=14 Score=14.93 Aligned_cols=51 Identities=14% Similarity=0.318 Sum_probs=32.2 Q ss_pred HHHHHHHHHHHCCCCHHHEEEEEECCCCCCCC---CCCCCC---CCCCEEEEEEECC Q ss_conf 99999999998699965712256303348888---988521---3375599999569 Q gi|254780529|r 291 RAYSAYQVLMKSGVSEDRISKISGFAHHRLKI---ASDPMN---SANRRIDILVEDR 341 (343) Q Consensus 291 RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~---~n~t~~---~~NRRVEi~i~~~ 341 (343) |..+|.+.|.+.|++.=-+..|.|||-..... ...+.. -.-+||||++.+. T Consensus 14 kl~~v~~AL~~~Gv~g~Tv~~V~G~G~~~g~~~~~~g~~~~~~~~~k~~ieivv~d~ 70 (114) T 2gw8_A 14 KLDDVREALTEIGITGMTVSEVKGFGRQKGHTEIYRGAEYAVDFLPKIKIELVLADD 70 (114) T ss_dssp GHHHHHHHHHHTTCCCCEEEEEEEECC--------------CCEEEEEEEEEEEEGG T ss_pred HHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCEEECCEEECCCCCEEEEEEEECCH T ss_conf 999999999977998399995053346778601231541241302068999999718 No 23 >3aaf_A Werner syndrome ATP-dependent helicase; helix-turn-helix, winged-helix, protein-DNA complex, DNA- binding, helicase; HET: DNA; 1.90A {Homo sapiens} PDB: 2axl_A Probab=39.18 E-value=15 Score=14.76 Aligned_cols=76 Identities=11% Similarity=-0.023 Sum_probs=46.7 Q ss_pred CCCCCCCCCHHHHHHHHH------------HHHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHCC Q ss_conf 556875468356565443------------6789861278-338987314676678741069999999999999999869 Q gi|254780529|r 237 FDKSSSIPLPETIVVLQK------------IGEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSG 303 (343) Q Consensus 237 F~~gsa~l~~~~~~~l~~------------ia~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~~G 303 (343) .+..+-+++.+++.+|.- ++.+|+...+ .|. +|| |..+.-|.- -+++.....++.+.|+..| T Consensus 7 ~~~~~~D~t~eA~~iL~~V~~~~~rfg~~~iidiLrGs~~~kI~-~~~-~~l~~fG~g---~~~~~~~~~~li~~Li~~g 81 (134) T 3aaf_A 7 SEDTSWDFGPQAFKLLSAVDILGEKFGIGLPILFLRGSNSQRLA-DQY-RRHSLFGTG---KDQTESWWKAFSRQLITEG 81 (134) T ss_dssp ----CEECHHHHHHHHHHHHHTTTCSCTHHHHHHHTTCCCTTSC-GGG-GGSTTTTTT---TTSCHHHHHHHHHHHHHTT T ss_pred CCCCCEEHHHHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCHHHH-HHH-HHHHHHCCC---CCCCHHHHHHHHHHHHHCC T ss_conf 98754221799999999999967865512555878468827899-997-444673798---7689999999999999859 Q ss_pred CCHHHEEEEEECCCCCCC Q ss_conf 996571225630334888 Q gi|254780529|r 304 VSEDRISKISGFAHHRLK 321 (343) Q Consensus 304 v~~~ri~~v~G~g~~~P~ 321 (343) +- ..+.+|+...++ T Consensus 82 ~L----~e~~~~~~~~~v 95 (134) T 3aaf_A 82 FL----VEVSRYNKFMKI 95 (134) T ss_dssp SE----EEEECSSTTCEE T ss_pred CC----CCCCCCCCCCCE T ss_conf 70----011255864123 No 24 >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} SCOP: d.58.5.1 PDB: 1gnk_A 2nuu_G* 2gnk_A* Probab=39.01 E-value=15 Score=14.75 Aligned_cols=52 Identities=13% Similarity=0.281 Sum_probs=33.0 Q ss_pred HHHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCC---CCCCC---CCCCEEEEEEECC Q ss_conf 9999999999986999657122563033488889---88521---3375599999569 Q gi|254780529|r 290 DRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIA---SDPMN---SANRRIDILVEDR 341 (343) Q Consensus 290 ~RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~---n~t~~---~~NRRVEi~i~~~ 341 (343) .|..+|.+.|.+.|++.=-+..|.|||..++... +.... -.-.+|||++.+. T Consensus 15 ~kl~~v~~AL~~~Gv~g~Tv~~v~G~G~~~~~~~~~~~~~~~~~~~~k~~ieivv~D~ 72 (116) T 2ns1_B 15 FKLEDVREALSSIGIQGLTVTEVKGFGRQKGHAELYRGAEFSVNFLPKVKIDVAIADD 72 (116) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEEECSSSCCCCEEETTEEECCCCEEEEEEEEEEEGG T ss_pred HHHHHHHHHHHHCCCCCEEEEECCCCCCCCCCCCEECCCEEEEEEEEEEEEEEEECHH T ss_conf 9999999999968998699995811688888652042522253012379999998678 No 25 >2qt7_A Receptor-type tyrosine-protein phosphatase-like N; IA-2, ICA-512, protein-tyrosine phosphatase, transmembrane protein, diabetes, autoimmunity; 1.30A {Homo sapiens} Probab=37.16 E-value=16 Score=14.56 Aligned_cols=69 Identities=22% Similarity=0.270 Sum_probs=46.8 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 LAAGVKLLEILAEHVHMSSGSFINISVVGPALTFRIRHN-EQNLSLADVTQQAGLVKSELEAQTGL---QILQ-TGVGQR 90 (91) T ss_dssp HHHHHHHHHHHHHHHTSCGGGEEEEEEETTEEEEEECCC-TTCCCHHHHHHHHHHTHHHHHHHHTS---CEEE-EEEECC T ss_pred HHHHHHHHHHHHHHHCCCCCCEEEEEEECCCEEEEECCC-CCCCCHHHHHHHHHHHHHHHHHHHCE---EEEE-ECCCCC T ss_conf 788899999999995787323034687567079996357-35786999999999879998774191---9997-043568 No 26 >3ce8_A Putative PII-like nitrogen regulatory protein; structural genomics, joint center for structural genomics, JCSG; HET: MSE; 2.40A {Shewanella baltica OS155} Probab=34.95 E-value=17 Score=14.33 Aligned_cols=31 Identities=16% Similarity=0.233 Sum_probs=16.4 Q ss_pred HHHHHHHHH-CCCCHHHEEEEEECCCCCCCCC Q ss_conf 999999998-6999657122563033488889 Q gi|254780529|r 293 YSAYQVLMK-SGVSEDRISKISGFAHHRLKIA 323 (343) Q Consensus 293 ~aV~~~L~~-~Gv~~~ri~~v~G~g~~~P~~~ 323 (343) ..+.++|.. .|+..=-+..+.|||......+ T Consensus 36 e~LVD~Lle~~gv~GFTi~~a~G~G~~~~~~S 67 (120) T 3ce8_A 36 DDIVDTLIELEFLSGFSLGNICGFSREHSHFN 67 (120) T ss_dssp HHHHHHHTTCTTCCCCEEEEEEEEECC----- T ss_pred HHHHHHHHHCCCCCCEEEEECCCCCCCCCCCC T ss_conf 99999999668989879983332476665757 No 27 >3d55_A Antitoxin, uncharacterized protein RV3357/MT3465; tetramer, toxin neutraliSer, toxin inhibitor; 2.13A {Mycobacterium tuberculosis} PDB: 3cto_A Probab=34.89 E-value=12 Score=15.30 Aligned_cols=48 Identities=8% Similarity=0.163 Sum_probs=33.7 Q ss_pred CCCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH Q ss_conf 37688689998216888878874318879999999999999999975089999999999853 Q gi|254780529|r 9 QENDQFIIIKKKVAIDDTPNNLGSWKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQYFN 70 (343) Q Consensus 9 ~~~~~~~iikr~~~~~~~~~~~~~W~vtyAD~~TlLmaFFvll~s~s~~d~~k~~~i~~~f~ 70 (343) ..+++||||.|+++ ++=+++..|+=.++=+.++| .++.-.+.+..++. T Consensus 20 ~~~~epviItr~~~--------~aVlis~~dyesl~ETl~Ll------s~p~na~~L~~s~~ 67 (91) T 3d55_A 20 NTDHQPVRITSRAG--------DAVLMSADDYDAWQETVYLL------RSPENARRLMEAVA 67 (91) T ss_dssp HHHCCCEEEECTTC--------CEEEEEHHHHHHHHHHHHHT------TSHHHHHHHHHHHT T ss_pred HCCCCEEEEEECCC--------CEEEEEHHHHHHHHHHHHHH------CCHHHHHHHHHHHH T ss_conf 75697499994799--------76996699998899999997------69999999999999 No 28 >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 Probab=34.70 E-value=18 Score=14.30 Aligned_cols=52 Identities=13% Similarity=0.277 Sum_probs=31.7 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 11 ~k~~~v~~AL~~~Gv~g~Tv~~v~G~G~~~~~~~~~~~~~~~~~~~~k~~ieivv~d~ 68 (112) T 2eg2_A 11 FKLDEVKDALVEIGIGGMTVTEVKGFGQQKGHTEIYRGTEYVIDFLPKVKIEVVVRDE 68 (112) T ss_dssp GGHHHHHHHHHHTTCCCCEEEEEEEC-----------------CCEEEEEEEEEECGG T ss_pred HHHHHHHHHHHHCCCCEEEEEEEEEECCCCCCCCEECCCEEEEEECCEEEEEEEECHH T ss_conf 9999999999978997199996066325667411341632462030269999999858 No 29 >3bzq_A Nitrogen regulatory protein P-II; GLNB, GLNK, signal transdu protein, nucleotide-binding, transcription; 1.40A {Mycobacterium tuberculosis H37RV} PDB: 3lf0_A* Probab=34.48 E-value=18 Score=14.28 Aligned_cols=52 Identities=19% Similarity=0.279 Sum_probs=33.0 Q ss_pred HHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCC---CCC---CCCCEEEEEEECCC Q ss_conf 99999999998699965712256303348888988---521---33755999995699 Q gi|254780529|r 291 RAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASD---PMN---SANRRIDILVEDRQ 342 (343) Q Consensus 291 RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~---t~~---~~NRRVEi~i~~~~ 342 (343) |...|.+.|.+.|++.=-+..|.|+|-.+...... ... -.-++|||++.+.+ T Consensus 14 kl~~v~~AL~~~G~~g~Tv~~V~G~G~~~~~~~~~~~~~~~~~~~~k~~ieivv~d~~ 71 (114) T 3bzq_A 14 TLDDVKTSLEDAGVLGMTVSEIQGYGRQKGHTEVYRGAEYSVDFVPKVRIEVVVDDSI 71 (114) T ss_dssp GHHHHHHHHHHTTCCCCEEEEEEEECC---------------CEEEEEEEEEEEETTT T ss_pred HHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCEEECCCEEEECCCCEEEEEEEECHHH T ss_conf 9999999999789985999983053466786024424156731131699999988799 No 30 >1bxn_I Rubisco, protein (ribulose bisphosphate carboxylase small chain); lyase (carbon-carbon); 2.70A {Cupriavidus necator} SCOP: d.73.1.1 Probab=33.39 E-value=9.2 Score=16.19 Aligned_cols=39 Identities=10% Similarity=0.037 Sum_probs=26.5 Q ss_pred CCCCCCCCC-------CHHHHHHHHHHHHHHHHCCC-CEEEEEEECC Q ss_conf 555687546-------83565654436789861278-3389873146 Q gi|254780529|r 236 MFDKSSSIP-------LPETIVVLQKIGEVLAHSTE-VISIRGHTDA 274 (343) Q Consensus 236 lF~~gsa~l-------~~~~~~~l~~ia~~l~~~~~-~i~IeGHTD~ 274 (343) .|...+-.+ ......+|.+|..-++.+|+ .|+|-|.-.. T Consensus 42 ~~r~~yW~mwklPmf~~~d~~~Vl~Ele~C~~~~p~~YVRliGfD~~ 88 (139) T 1bxn_I 42 HPRNTYWEMFGLPMFDLRDAAGILMEINNARNTFPNHYIRVTAFDST 88 (139) T ss_dssp CTTCCCCEESSSCBTTCCCHHHHHHHHHHHHHHCSSSEEEEEEECTT T ss_pred CCCCCCEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEEECC T ss_conf 77776100535665579999999999999999899876999999688 No 31 >3ncq_A Nitrogen regulatory protein P-II (GLNB-2); PII signaling, nucleotide binding, GLNK, signaling Pro; HET: ATP; 1.24A {Archaeoglobus fulgidus} PDB: 3ncp_A* 3ncr_A* Probab=31.47 E-value=20 Score=13.96 Aligned_cols=51 Identities=14% Similarity=0.161 Sum_probs=27.5 Q ss_pred HHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCC---CC---CCCCEEEEEEECC Q ss_conf 999999999986999657122563033488889885---21---3375599999569 Q gi|254780529|r 291 RAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDP---MN---SANRRIDILVEDR 341 (343) Q Consensus 291 RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t---~~---~~NRRVEi~i~~~ 341 (343) |...|.+.|.+.|++.=-+..|.|||.......... .. -.-++|||++.+. T Consensus 12 kl~~V~~AL~~~Gv~g~Tv~~v~G~G~~~g~~~~~~~~~~~~~~~pk~~ieivv~De 68 (119) T 3ncq_A 12 KFPEVKAALEERGFYGMTVTDVKGRGQQGGMQIQFRGRTMEVTLLPKVKLEIVVKDD 68 (119) T ss_dssp THHHHHHHHHHTTCCCEEEEEEEEECSTTTTCBCSSSSCBCCCCEEEEEEEEEECGG T ss_pred HHHHHHHHHHHCCCCCEEEEEEEEECCCCCCEEEECCCEEEEEEEEEEEEEEEECHH T ss_conf 999999999977998499994487457788605762625788554248999998779 No 32 >2cz4_A Hypothetical protein TTHA0516; conserved hypothetical protein, PII-like signaling protein, structural genomics, NPPSFA; 1.93A {Thermus thermophilus HB8} SCOP: d.58.5.1 Probab=25.05 E-value=26 Score=13.23 Aligned_cols=46 Identities=13% Similarity=0.193 Sum_probs=21.9 Q ss_pred HHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCCCCCCCCCCEEEEEEE Q ss_conf 999999999869996571225630334888898852133755999995 Q gi|254780529|r 292 AYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVE 339 (343) Q Consensus 292 A~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n~t~~~~NRRVEi~i~ 339 (343) ...|.+.|.+.|+..==+..|.|+|....... ..++.|=|||+++. T Consensus 37 ~d~v~~~L~~~Gv~G~TV~~v~G~G~~g~~~~--~~~~~kv~Ievvv~ 82 (119) T 2cz4_A 37 EKRLVEEVKRLGAKGYTITPARGEGSRGIRSV--DWEGQNIRLETIVS 82 (119) T ss_dssp HHHHHHHHHHTTCCCCEEEEEBCTTCCCTTCS--CSTTCEEEEEEEEC T ss_pred HHHHHHHHHHCCCCEEEEEEEEEEECCCCCCC--CEECCEEEEEEEEC T ss_conf 99999999987980289997089812687734--28045069999958 No 33 >1skh_A Major prion protein 2; coil-helix-coil, unknown function; NMR {Bos taurus} Probab=25.02 E-value=26 Score=13.22 Aligned_cols=11 Identities=27% Similarity=0.893 Sum_probs=8.4 Q ss_pred HHHHHHHHHHH Q ss_conf 99999999997 Q gi|254780529|r 44 LMAFFLVMWII 54 (343) Q Consensus 44 LmaFFvll~s~ 54 (343) ||.+||..||= T Consensus 10 ~lvlfvatwsd 20 (30) T 1skh_A 10 ILVLFVAMWSD 20 (30) T ss_dssp HHHHHHHHHHH T ss_pred HHHHHHHHHHH T ss_conf 77888887744 No 34 >1itk_A Catalase-peroxidase; heme protein, oxidoreductase; HET: HEM; 2.00A {Haloarcula marismortui} SCOP: a.93.1.3 a.93.1.3 Probab=24.90 E-value=18 Score=14.29 Aligned_cols=12 Identities=42% Similarity=0.584 Sum_probs=9.0 Q ss_pred HHHHHHHHHHHH Q ss_conf 188799999999 Q gi|254780529|r 33 WKIVYADFMTVL 44 (343) Q Consensus 33 W~vtyAD~~TlL 44 (343) |+||||||++|- T Consensus 145 ~~ISwADL~~LA 156 (731) T 1itk_A 145 QKISWADLMILA 156 (731) T ss_dssp GGSCHHHHHHHH T ss_pred CCCCHHHHHHHH T ss_conf 998899999999 No 35 >1hwu_A PII protein; herbaspirillum seropedicae PII, beta-alpha-beta motif, signal transduction protein, signaling protein; 2.10A {Herbaspirillum seropedicae} SCOP: d.58.5.1 Probab=22.15 E-value=29 Score=12.86 Aligned_cols=51 Identities=16% Similarity=0.332 Sum_probs=29.2 Q ss_pred HHHHHHHHHHHCCCCHHHEEEEEECCCCCCCCCC---CCCC---CCCCEEEEEEECC Q ss_conf 9999999999869996571225630334888898---8521---3375599999569 Q gi|254780529|r 291 RAYSAYQVLMKSGVSEDRISKISGFAHHRLKIAS---DPMN---SANRRIDILVEDR 341 (343) Q Consensus 291 RA~aV~~~L~~~Gv~~~ri~~v~G~g~~~P~~~n---~t~~---~~NRRVEi~i~~~ 341 (343) |..+|.+.|...|++.=-+..|.|+|-......- .... -.-+|+||++.+. T Consensus 12 k~~~v~~AL~~~Gi~g~Tv~~V~G~G~~~~~~~~~r~~~~~~~~~~k~~ieivv~d~ 68 (112) T 1hwu_A 12 KLDEVRESLAEVGVTGLTVTEVKGFGRQKGHTELYRGAEYVVDFLPKVKIEVVVDDK 68 (112) T ss_dssp GHHHHHHHHHHTTCCCCEEEEEEEEC-------------CCCCEEEEEEEEEEECGG T ss_pred HHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCEECCCEEECCCCEEEEEEEEECHH T ss_conf 999999999977997499992753787777421002640360201069999998779 No 36 >2wwb_C SEC61BETA, protein transport protein SEC61 subunit beta; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Canis lupus familiaris} Probab=20.23 E-value=32 Score=12.60 Aligned_cols=13 Identities=23% Similarity=0.332 Sum_probs=6.1 Q ss_pred HHHHHHHHHHHHH Q ss_conf 9999999999999 Q gi|254780529|r 40 FMTVLMAFFLVMW 52 (343) Q Consensus 40 ~~TlLmaFFvll~ 52 (343) .|+|++-|||+|| T Consensus 75 vmSl~FI~sV~~L 87 (96) T 2wwb_C 75 VMSLLFIASVFML 87 (96) T ss_dssp HHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHH T ss_conf 5478999999999 Done!