Query gi|254780172|ref|YP_003064585.1| general L-amino acid transport system permease protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 386 No_of_seqs 227 out of 3276 Neff 6.0 Searched_HMMs 33803 Date Mon May 23 04:30:14 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780172.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >3dhw_A D-methionine transport 100.0 2.8E-27 8.3E-32 182.2 15.3 208 167-379 3-217 (217) 2 >3d31_C Sulfate/molybdate ABC 99.9 1.1E-19 3.3E-24 136.6 19.7 211 170-385 77-294 (295) 3 >2onk_C Molybdate/tungstate AB 99.8 5.5E-17 1.6E-21 120.4 15.3 162 173-334 2-168 (181) 4 >2r6g_F Maltose transport syst 99.6 3.5E-15 1E-19 109.6 11.7 141 170-328 6-147 (152) 5 >2r6g_G Maltose transport syst 99.6 4.5E-15 1.3E-19 109.0 11.5 159 170-328 6-165 (172) 6 >1umq_A Photosynthetic apparat 71.4 5.2 0.00015 18.6 3.8 37 261-297 39-75 (81) 7 >1ntc_A Protein (nitrogen regu 67.7 6.8 0.0002 17.9 3.7 40 258-297 46-85 (91) 8 >1ojl_A Transcriptional regula 65.9 6.5 0.00019 18.0 3.3 37 261-297 13-49 (51) 9 >1eto_A FIS, factor for invers 65.7 7.9 0.00023 17.5 5.8 39 259-297 9-47 (53) 10 >2ict_A Antitoxin HIGA; helix- 59.1 10 0.00031 16.8 3.6 33 265-297 10-42 (46) 11 >2auw_A Hypothetical protein N 51.9 14 0.0004 16.0 3.6 32 266-297 4-35 (81) 12 >3e7l_A Transcriptional regula 42.5 19 0.00057 15.2 5.6 39 259-297 15-53 (63) 13 >1g2h_A Transcriptional regula 29.0 31 0.00092 13.9 1.8 34 263-297 21-54 (61) 14 >2w7n_A TRFB transcriptional r 27.0 35 0.001 13.6 2.1 24 272-295 30-53 (73) 15 >2cw1_A SN4M; lambda CRO fold, 26.9 21 0.00064 14.9 0.7 31 275-311 12-42 (65) 16 >2r6g_F Maltose transport syst 25.9 14 0.00041 16.0 -0.4 16 106-121 8-23 (97) 17 >3cec_A Putative antidote prot 23.0 41 0.0012 13.2 3.6 34 264-297 19-52 (56) 18 >1u7g_A Probable ammonium tran 21.0 45 0.0013 12.9 6.5 90 106-195 90-183 (385) No 1 >>3dhw_A D-methionine transport system permease protein METI; ABC-transporter, methionine uptake transporter, membrane protein, amino-acid transport; 3.70A {Escherichia coli K12} (A:) Probab=99.95 E-value=2.8e-27 Score=182.21 Aligned_cols=208 Identities=16% Similarity=0.208 Sum_probs=174.8 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH Q ss_conf 111111002478779999999999987567754441-------2786889997898888761472289999999976641 Q gi|254780172|r 167 SIVETSLWGGLLVTLVISFFGIIISMPLGILLALGR-------NSNIPVLRYACITFIELFRGVPLVTVLFMASIMLPLF 239 (386) Q Consensus 167 ~~V~t~~~gGl~~Tl~l~~~~~~~~~~lG~llal~r-------~s~~~~l~~~~~~~ie~~Rg~Pli~~lf~~~~~lp~~ 239 (386) +++.+..|.++..|+.+++.+.++++++|+.+|..- +...+.+........+.++++|.+..++......+.. T Consensus 3 ~~~~~~l~~~l~~tl~~~~~~~~i~~vig~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (217) T 3dhw_A 3 EPMMWLLVRGVWETLAMTFVSGFFGFVIGLPVGVLLYVTRPGQIIANAKLYRTVSAIVNIFRSIPFIILLVWMIPFTRVI 82 (217) T ss_dssp ---CHHHHHHHHHHHHHHHHHHHHHHHTTGGGGGGGGGGTTCSSSCCSSHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 78999999999999999999999999999999999999873443201899999999999999999999999999864552 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHH Q ss_conf 55887738799999999999899989999999984586678999996216899999999699899862004799999996 Q gi|254780172|r 240 LPDTWDVDKLLRALLGVSAFASAYIAEVLRGGLQSISKGQFEAANSLGLSYLQKMRLIIMPQVIKRVIPGIVNTFIGLFK 319 (386) Q Consensus 240 lp~g~~~~~~~~a~i~l~l~~aAy~aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~IilPQAlr~~iP~l~n~~i~l~K 319 (386) +.....+...++++++++.+|+.+++|++++++|++|.|||+++|+|+||++++|++||+.+..+++..+.++..+| T Consensus 83 ---~~~~~~~~~~ii~~~~~~~~~i~~~~~~~l~~i~~~~~eaA~~lG~s~~q~~~~v~lP~~~p~i~~~~~~~~~~~~~ 159 (217) T 3dhw_A 83 ---VGTSIGLQAAIVPLTVGAAPFIARMVENALLEIPTGLIEASRAMGATPMQIVRKVLLPEALPGLVNAATITLITLVG 159 (217) T ss_dssp ---TCCSSSHHHHHHHHHHHHHHHHHHHHHHHHHHSCTTTTTHHHHHTCCTHHHHHHTTHHHHHHHHHHHHHHHHHHHHH T ss_pred ---CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf ---04530188998988997246898999988886150277888606987421426730997699999999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 128999999999999999974101003551369999999999999999999999999998 Q gi|254780172|r 320 DSSLISIINMFDLLGIVRVNFSESTWISSVTPTTGLIFIGFVFWIFCFSISLYSVFIEKT 379 (386) Q Consensus 320 dTsL~~~Ig~~el~~~~~~~~~~~~~~~~~~~~e~y~~~a~iY~ii~~~ls~~~~~lE~r 379 (386) |++.+..+|..|+.+.......+.. .........+...+++++++....+..+++||| T Consensus 160 ~~~~~~~ig~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~i~~~~~~~l~~~l~~~~~rR 217 (217) T 3dhw_A 160 YSAMGGAVGAGGLGQIGYQYGYIGY--NATVMNTVLVLLVILVYLIQFAGDRIVRAVTRK 217 (217) T ss_dssp HHHHCCSTTCCHHHHHHHHHHHSSC--CTTHHHHHHHHHHHHHHHHHHHCC--------- T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 9999999987599999999999750--189999999999999999999999999985699 No 2 >>3d31_C Sulfate/molybdate ABC transporter, permease protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} (C:) Probab=99.86 E-value=1.1e-19 Score=136.58 Aligned_cols=211 Identities=14% Similarity=0.130 Sum_probs=166.9 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH-------CCC Q ss_conf 1110024787799999999999875677544412786889997898888761472289999999976641-------558 Q gi|254780172|r 170 ETSLWGGLLVTLVISFFGIIISMPLGILLALGRNSNIPVLRYACITFIELFRGVPLVTVLFMASIMLPLF-------LPD 242 (386) Q Consensus 170 ~t~~~gGl~~Tl~l~~~~~~~~~~lG~llal~r~s~~~~l~~~~~~~ie~~Rg~Pli~~lf~~~~~lp~~-------lp~ 242 (386) +.+.|.++..|+.+++.+.++++++|+.+|..........|......+.+...+|.++.....+...... ... T Consensus 77 ~~~~~~~l~~Tl~~~~~~~~~~~~ig~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 156 (295) T 3d31_C 77 NRSVISSIFLSLYAGFLATLLALLLGAPTGYILARFDFPGKRLVESIIDVPVVVPHTVAGIALLTVFGSRGLIGEPLESY 156 (295) T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHGGGTSCHHHHHHHHHHHHSTTSTTTGGGTTT T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHC T ss_conf 98999999999999999999999999999999996366479999999999999999999999999997266324303321 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH Q ss_conf 87738799999999999899989999999984586678999996216899999999699899862004799999996128 Q gi|254780172|r 243 TWDVDKLLRALLGVSAFASAYIAEVLRGGLQSISKGQFEAANSLGLSYLQKMRLIIMPQVIKRVIPGIVNTFIGLFKDSS 322 (386) Q Consensus 243 g~~~~~~~~a~i~l~l~~aAy~aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~IilPQAlr~~iP~l~n~~i~l~KdTs 322 (386) ....+..+..+++..++...|+..+++++++++|+++.|||+++|.|+||++++|++||+.+..+.+..-.++..++|.. T Consensus 157 ~~~~~~~~~~i~~~~~~~~p~~~~~~~~~l~~i~~~l~eAA~~~Gas~~~~f~~I~lP~~~p~i~~~~~l~~~~~~~~~~ 236 (295) T 3d31_C 157 IQFRDALPGIVVAMLFVSMPYLANSAREGFKSVDPRLENAARSLGAPLWKAFFFVTLPLSARYLLIGSVMTWARAISEFG 236 (295) T ss_dssp CCCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHHHHHHTTCCHHHHHHHTHHHHHHHHHHHHHHHHHHHHHTCCH T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 67123999999999999999999999999975050589999876998262127746996999999999999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 999999999999999974101003551369999999999999999999999999998433789 Q gi|254780172|r 323 LISIINMFDLLGIVRVNFSESTWISSVTPTTGLIFIGFVFWIFCFSISLYSVFIEKTLHKGSK 385 (386) Q Consensus 323 L~~~Ig~~el~~~~~~~~~~~~~~~~~~~~e~y~~~a~iY~ii~~~ls~~~~~lE~rl~~~~r 385 (386) ..+.+|-.+.+..........+.+ +.. -...++++.+++..+.....++.||..+.+| T Consensus 237 ~~~~l~~~~~~~~~~i~~~~~~~~--~~~---~~a~~~i~~~~~~~~~~~~~~~~~r~~~~~r 294 (295) T 3d31_C 237 AVVILAYYPMVGPTLIYDRFISYG--LSA---SRPIAVLLILVTLSIFLVIRTLSAGWSIYDR 294 (295) T ss_dssp HHHHHHCTTCCHHHHHHHHHHHST--TTT---THHHHHHHHHHHHHHHHHHC----------- T ss_pred HHHHHHCCCCHHHHHHHHHHHHCC--HHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 999995897319999999999448--999---9999999999999999999999976036457 No 3 >>2onk_C Molybdate/tungstate ABC transporter, permease protein; membrane protein; 3.10A {Archaeoglobus fulgidus} (C:69-249) Probab=99.76 E-value=5.5e-17 Score=120.42 Aligned_cols=162 Identities=14% Similarity=0.172 Sum_probs=138.1 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHC-----CCCCCCC Q ss_conf 00247877999999999998756775444127868899978988887614722899999999766415-----5887738 Q gi|254780172|r 173 LWGGLLVTLVISFFGIIISMPLGILLALGRNSNIPVLRYACITFIELFRGVPLVTVLFMASIMLPLFL-----PDTWDVD 247 (386) Q Consensus 173 ~~gGl~~Tl~l~~~~~~~~~~lG~llal~r~s~~~~l~~~~~~~ie~~Rg~Pli~~lf~~~~~lp~~l-----p~g~~~~ 247 (386) .|.++..|+.+++++.++++++|+.+|.....+.+..|........+-+.+|.++..+..++++.... ..+...+ T Consensus 2 ~~~~l~~Tl~~a~~~~~i~~~ig~~~a~~~~~~~~~~~~~~~~~~~~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (181) T 2onk_C 2 VWKVVLTTYYAALISTLIAVIFGTPLAYILARKSFPGKSVVEGIVDLPVVIPHTVAGIALLVVFGSSGLIGSFSPLKFVD 81 (181) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCCCSSHHHHHHHHHHHHHSCHHHHHHHHHHHHSTTSTTTTTCSSCCTT T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCC T ss_conf 99999999999999999999999999998864156315899999987412101222333100235532222212345444 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH Q ss_conf 79999999999989998999999998458667899999621689999999969989986200479999999612899999 Q gi|254780172|r 248 KLLRALLGVSAFASAYIAEVLRGGLQSISKGQFEAANSLGLSYLQKMRLIIMPQVIKRVIPGIVNTFIGLFKDSSLISII 327 (386) Q Consensus 248 ~~~~a~i~l~l~~aAy~aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~IilPQAlr~~iP~l~n~~i~l~KdTsL~~~I 327 (386) .....+++.++..-+|...+++++++++|+.+.|||+++|.|+||++|+|++|++.+..+....-.++..++|.+....+ T Consensus 82 ~~~~~il~~~~~~~p~~~~~~~~~l~~i~~~~~eaA~~~Gas~~q~~~~I~lP~~~p~i~~~~~l~~~~~~~~~~~~~~~ 161 (181) T 2onk_C 82 ALPGIVVAMLFVSVPIYINQAKEGFASVDVRLEHVARTLGSSPLRVFFTVSLPLSVRHIVAGAIMSWARGISEFGAVVVI 161 (181) T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHHHHHHTTCCHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHCCHHHHTT T ss_pred CCCEEEEECCCCCCCCCCCCCHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHHHH T ss_conf 33202210113333331222000022354245645432699843400634486627632675188887699998888743 Q ss_pred HHHHHHH Q ss_conf 9999999 Q gi|254780172|r 328 NMFDLLG 334 (386) Q Consensus 328 g~~el~~ 334 (386) |-.+.+. T Consensus 162 ~~~~~~~ 168 (181) T 2onk_C 162 AYYPMIA 168 (181) T ss_dssp CCSSCCH T ss_pred CCCCCHH T ss_conf 2898509 No 4 >>2r6g_F Maltose transport system permease protein MALF; ABC transporter, catalytic intermediate, E. coli maltose transporter, MBP; HET: MAL ATP; 2.80A {Escherichia coli K12} (F:269-326,F:360-453) Probab=99.64 E-value=3.5e-15 Score=109.58 Aligned_cols=141 Identities=18% Similarity=0.234 Sum_probs=115.9 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCH Q ss_conf 11100247877999999999998756775444-12786889997898888761472289999999976641558877387 Q gi|254780172|r 170 ETSLWGGLLVTLVISFFGIIISMPLGILLALG-RNSNIPVLRYACITFIELFRGVPLVTVLFMASIMLPLFLPDTWDVDK 248 (386) Q Consensus 170 ~t~~~gGl~~Tl~l~~~~~~~~~~lG~llal~-r~s~~~~l~~~~~~~ie~~Rg~Pli~~lf~~~~~lp~~lp~g~~~~~ 248 (386) +++.|.-+..|+.++..+.+++.++|+.+|.. .+.+.|--|. .|... ++|+..|.-.---. T Consensus 6 ~~~~~~~~~~tl~~a~~~~~~~~~~g~~~a~l~~r~~f~gr~~-----l~~~~-------------~lp~~~p~~v~~~~ 67 (152) T 2r6g_F 6 QKPFLAIFVWTVVFSLITVFLTVAVGMVLACLVQWEALRGKAV-----YRVLL-------------ILPYAAWFSDPTTA 67 (152) T ss_dssp STTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSSTTHHH-----HHHHT-------------THHHHCTTTSHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH-----HHHHH-------------HHHHHCHHCCCHHH T ss_conf 7899999999999999999999999999999987422462114-----13532-------------38888020482132 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999899989999999984586678999996216899999999699899862004799999996128999999 Q gi|254780172|r 249 LLRALLGVSAFASAYIAEVLRGGLQSISKGQFEAANSLGLSYLQKMRLIIMPQVIKRVIPGIVNTFIGLFKDSSLISIIN 328 (386) Q Consensus 249 ~~~a~i~l~l~~aAy~aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~IilPQAlr~~iP~l~n~~i~l~KdTsL~~~Ig 328 (386) +...+++..+...+|....++++++++|+++.|||+++|.|++|++++|++|++.+..++.....++..+||.+....+| T Consensus 68 ~~~li~a~~~~~~p~~~~~~~~~l~~i~~~l~eAA~~lGas~~~~~~~I~lP~~~p~il~~~~l~f~~~~~e~~~~~~l~ 147 (152) T 2r6g_F 68 RTMLIIVNTWLGYPYMMILCMGLLKAIPDDLYEASAMDGAGPFQNFFKITLPLLIKPLTPLMIASFAFNFNNFVLIQLLT 147 (152) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHGGGSCTHHHHHHHHTCCCSHHHHHHTTGGGTHHHHHHHHHHHHHHHHTCHHHHHHHC T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 22233345555322445544432024427899999974999401131463164789999999999999999878999994 No 5 >>2r6g_G Maltose transport system permease protein MALG; ABC transporter, catalytic intermediate, E. coli maltose transporter, MBP; HET: MAL ATP; 2.80A {Escherichia coli K12} (G:73-244) Probab=99.63 E-value=4.5e-15 Score=108.97 Aligned_cols=159 Identities=14% Similarity=0.048 Sum_probs=126.3 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH-CCCCCCCCH Q ss_conf 1110024787799999999999875677544412786889997898888761472289999999976641-558877387 Q gi|254780172|r 170 ETSLWGGLLVTLVISFFGIIISMPLGILLALGRNSNIPVLRYACITFIELFRGVPLVTVLFMASIMLPLF-LPDTWDVDK 248 (386) Q Consensus 170 ~t~~~gGl~~Tl~l~~~~~~~~~~lG~llal~r~s~~~~l~~~~~~~ie~~Rg~Pli~~lf~~~~~lp~~-lp~g~~~~~ 248 (386) +.+.|..+..|+.+++.+.++++++|+.+|..-.-.....|........+-..+|-++........+... ......... T Consensus 6 ~~~~~~~l~~Sl~~a~~~~~i~~~ig~~~a~~~~~~~~~~~~~~~~~~~~~~~ip~~v~~~~~~~~~~~~~~~~~~~~~~ 85 (172) T 2r6g_G 6 PFPVLLWLWNSVKVAGISAIGIVALSTTCAYAFARMRFPGKATLLKGMLIFQMFPAVLSLVALYALFDRLGEYIPFIGLN 85 (172) T ss_dssp SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCTTSHHHHHHHHHTTSSCSSSHHHHHHHHHHHHHHHSTTSSTT T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHEEEHHEECCCCCCCCCCCCCC T ss_conf 52799998648999999999998631033333320441478899987623321331120110310024456512222467 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999899989999999984586678999996216899999999699899862004799999996128999999 Q gi|254780172|r 249 LLRALLGVSAFASAYIAEVLRGGLQSISKGQFEAANSLGLSYLQKMRLIIMPQVIKRVIPGIVNTFIGLFKDSSLISIIN 328 (386) Q Consensus 249 ~~~a~i~l~l~~aAy~aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~IilPQAlr~~iP~l~n~~i~l~KdTsL~~~Ig 328 (386) ...++++..+....|..-..+++++++|+.+.|||+++|.|+||++++|++|++.+....+..-.++..++|....+.++ T Consensus 86 ~~~~ii~~~~~~~p~~~~~~~~~l~~i~~~~~eaA~~lGas~~~~f~~V~lP~~~p~i~~~~~l~f~~~~~~~~~~~~l~ 165 (172) T 2r6g_G 86 THGGVIFAYLGGIALHVWTIKGYFETIDSSLEEAAALDGATPWQAFRLVLLPLSVPILAVVFILSFIAAITEVPVASLLL 165 (172) T ss_dssp SHHHHHHHHTTTTHHHHHHHHHHHTTSCTHHHHHHHHTTCCHHHHHHHTTHHHHHHHHHHHHHHHHHHHHTCCHHHHHHC T ss_pred CEEEEEECCCCCEEEEEEEEEHHHHCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEECCEECC T ss_conf 50000000355115421100036413305655567754940777788888987654677788776443232300340114 No 6 >>1umq_A Photosynthetic apparatus regulatory protein; DNA-binding protein, response regulator, DNA binding domain, helix-turn-helix; NMR {Rhodobacter sphaeroides} (A:) Probab=71.35 E-value=5.2 Score=18.56 Aligned_cols=37 Identities=14% Similarity=0.080 Sum_probs=32.4 Q ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHH Q ss_conf 9998999999998458667899999621689999999 Q gi|254780172|r 261 SAYIAEVLRGGLQSISKGQFEAANSLGLSYLQKMRLI 297 (386) Q Consensus 261 aAy~aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~I 297 (386) ..+-.|.++.+++.-...+.+||+.||+|+.+..+++ T Consensus 39 ~~~E~~~I~~aL~~~~gn~~~aA~~Lgisr~TL~rkl 75 (81) T 1umq_A 39 DRVRWEHIQRIYEMCDRNVSETARRLNMHRRTLQRIL 75 (81) T ss_dssp HHHHHHHHHHHHHHTTSCHHHHHHHHTSCHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH T ss_conf 9999999999999998309999999698999999999 No 7 >>1ntc_A Protein (nitrogen regulation protein (NTRC)); helix-turn-helix, FIS, four-helix bundle, transcription regulation; NMR {Salmonella typhimurium} (A:) Probab=67.74 E-value=6.8 Score=17.88 Aligned_cols=40 Identities=18% Similarity=0.100 Sum_probs=33.9 Q ss_pred HHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHH Q ss_conf 9989998999999998458667899999621689999999 Q gi|254780172|r 258 AFASAYIAEVLRGGLQSISKGQFEAANSLGLSYLQKMRLI 297 (386) Q Consensus 258 l~~aAy~aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~I 297 (386) -....+-.+.++..++.-...+.+||+.||+|+...++++ T Consensus 46 ~~~~~~e~~~i~~~L~~~~gn~~~aA~~LGisR~TL~rkl 85 (91) T 1ntc_A 46 EAQPELERTLLTTALRHTQGHKQEAARLLGWGAATLTAKL 85 (91) T ss_dssp HHHHHHHHHHHHHHHHHTTTCTTHHHHHTTCCHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHH T ss_conf 9999999999999999949949999999798999999999 No 8 >>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium} (A:254-304) Probab=65.87 E-value=6.5 Score=17.98 Aligned_cols=37 Identities=22% Similarity=0.254 Sum_probs=31.3 Q ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHH Q ss_conf 9998999999998458667899999621689999999 Q gi|254780172|r 261 SAYIAEVLRGGLQSISKGQFEAANSLGLSYLQKMRLI 297 (386) Q Consensus 261 aAy~aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~I 297 (386) ..+-.+.++-+++.-.-.+.+||+.||+|+..-++++ T Consensus 13 ~~~E~~~I~~aL~~~~Gn~~~aA~~LGisr~TL~rkl 49 (51) T 1ojl_A 13 VDVEKEVILAALEKTGGNKTEAARQLGITRKTLLAKL 49 (51) T ss_dssp HHHHHHHHHHHHHTTTTCHHHHHHHHTSCHHHHHHHT T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHH T ss_conf 9999999999999929989999999888999999986 No 9 >>1eto_A FIS, factor for inversion stimulation; transcriptional activation region, DNA-binding protein, transcription activator; 1.90A {Escherichia coli} (A:46-98) Probab=65.70 E-value=7.9 Score=17.48 Aligned_cols=39 Identities=15% Similarity=0.021 Sum_probs=33.9 Q ss_pred HHHHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHH Q ss_conf 989998999999998458667899999621689999999 Q gi|254780172|r 259 FASAYIAEVLRGGLQSISKGQFEAANSLGLSYLQKMRLI 297 (386) Q Consensus 259 ~~aAy~aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~I 297 (386) .-..+-.+.++..++.-.-.+.+||+.||+++....+++ T Consensus 9 ~~~~~E~~~I~~aL~~~~gn~s~aA~~Lgisr~tL~rkl 47 (53) T 1eto_A 9 VLAEVEQPLLDMVMQYTLGNQTRAALMMGINRGTLRKKL 47 (53) T ss_dssp HHHHHHHHHHHHHHHHTTTCHHHHHHHHTSCHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHH T ss_conf 999999999999999929989999999798999999999 No 10 >>2ict_A Antitoxin HIGA; helix-turn-helix, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; 1.63A {Escherichia coli CFT073} (A:1-46) Probab=59.11 E-value=10 Score=16.75 Aligned_cols=33 Identities=15% Similarity=0.260 Sum_probs=28.2 Q ss_pred HHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHH Q ss_conf 999999998458667899999621689999999 Q gi|254780172|r 265 AEVLRGGLQSISKGQFEAANSLGLSYLQKMRLI 297 (386) Q Consensus 265 aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~I 297 (386) .|++|-=++...-.|.|.|+.+|.|+...-+.| T Consensus 10 Ge~L~E~Le~~gis~~~lA~~lgvs~~~is~ii 42 (46) T 2ict_A 10 GDIIQESLDELNVSLREFARAXEIAPSTASRLL 42 (46) T ss_dssp HHHHHHHHHHHTCCHHHHHHHHTCCHHHHHHHH T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH T ss_conf 899999999979999999999977789999998 No 11 >>2auw_A Hypothetical protein NE0471; alpha-beta structure, structural genomics, PSI, protein structure initiative; 1.85A {Nitrosomonas europaea} (A:90-170) Probab=51.94 E-value=14 Score=16.04 Aligned_cols=32 Identities=19% Similarity=0.057 Sum_probs=23.6 Q ss_pred HHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHH Q ss_conf 99999998458667899999621689999999 Q gi|254780172|r 266 EVLRGGLQSISKGQFEAANSLGLSYLQKMRLI 297 (386) Q Consensus 266 Ei~Rggl~svp~GQ~EAA~alGls~~q~~~~I 297 (386) |-|++=.....--|-+||++||+++.-+..|= T Consensus 4 e~F~~W~~r~gLsl~~AAeALGisrRmi~YY~ 35 (81) T 2auw_A 4 EXFGDWXHRNNLSLTTAAEALGISRRXVSYYR 35 (81) T ss_dssp HHHHHHHHHTTCCHHHHHHHHTSCHHHHHHHH T ss_pred HHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHH T ss_conf 99999999859999999999499999999997 No 12 >>3e7l_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; 2.25A {Aquifex aeolicus} (A:) Probab=42.54 E-value=19 Score=15.15 Aligned_cols=39 Identities=13% Similarity=0.146 Sum_probs=33.6 Q ss_pred HHHHHHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHH Q ss_conf 989998999999998458667899999621689999999 Q gi|254780172|r 259 FASAYIAEVLRGGLQSISKGQFEAANSLGLSYLQKMRLI 297 (386) Q Consensus 259 ~~aAy~aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~I 297 (386) ....+-.+.+.-+++.-.-.+.+||+.||+++.+.++++ T Consensus 15 ~~~~~Er~~i~~aL~~~~gn~~~aA~~Lgisr~tL~~kl 53 (63) T 3e7l_A 15 AKKEFEKIFIEEKLREYDYDLKRTAEEIGIDLSNLYRKI 53 (63) T ss_dssp HHHHHHHHHHHHHHHHTTTCHHHHHHHHTCCHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHH T ss_conf 999999999999999919989999999895999999999 No 13 >>1g2h_A Transcriptional regulatory protein TYRR homolog; protein structure, , DNA-binding domain, helix- turn-helix motif; NMR {Haemophilus influenzae} (A:) Probab=28.98 E-value=31 Score=13.90 Aligned_cols=34 Identities=24% Similarity=0.163 Sum_probs=24.2 Q ss_pred HHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHH Q ss_conf 98999999998458667899999621689999999 Q gi|254780172|r 263 YIAEVLRGGLQSISKGQFEAANSLGLSYLQKMRLI 297 (386) Q Consensus 263 y~aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~I 297 (386) |-.+.+..+++. .....+||+.||+++...++++ T Consensus 21 ~Er~~I~~aL~~-~gn~~~aA~~Lgisr~tL~rkl 54 (61) T 1g2h_A 21 YEAQVLKLFYAE-YPSTRKLAQRLGVSHTAIANKL 54 (61) T ss_dssp HHHHHHHHHHHH-SCSHHHHHHHTTSCTHHHHHHH T ss_pred HHHHHHHHHHCC-CCCHHHHHHHHCCCHHHHHHHH T ss_conf 999999998403-8738999999586189999899 No 14 >>2w7n_A TRFB transcriptional repressor protein; INCP, plasmid, repressor, DNA-binding, transcription/DNA; HET: BRU; 1.85A {Escherichia coli} (A:1-73) Probab=27.03 E-value=35 Score=13.62 Aligned_cols=24 Identities=29% Similarity=0.122 Sum_probs=18.4 Q ss_pred HHHCCHHHHHHHHHHCCHHHHHHH Q ss_conf 984586678999996216899999 Q gi|254780172|r 272 LQSISKGQFEAANSLGLSYLQKMR 295 (386) Q Consensus 272 l~svp~GQ~EAA~alGls~~q~~~ 295 (386) +.-=.++|.|.|.++|+|+-.... T Consensus 30 VLV~G~~~~evA~~~Glsrq~V~~ 53 (73) T 2w7n_A 30 VLVDGKPQATFATSLGLTRGAVSQ 53 (73) T ss_dssp HHTTCCCHHHHHHHHTCCHHHHHH T ss_pred HHHCCCHHHHHHHHHCCHHHHHHH T ss_conf 996882099999996730989999 No 15 >>2cw1_A SN4M; lambda CRO fold, de novo protein; NMR {Synthetic} (A:) Probab=26.92 E-value=21 Score=14.86 Aligned_cols=31 Identities=42% Similarity=0.425 Sum_probs=20.7 Q ss_pred CCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCHH Q ss_conf 5866789999962168999999996998998620047 Q gi|254780172|r 275 ISKGQFEAANSLGLSYLQKMRLIIMPQVIKRVIPGIV 311 (386) Q Consensus 275 vp~GQ~EAA~alGls~~q~~~~IilPQAlr~~iP~l~ 311 (386) -+|.|--||+++|+|.-- +-..++.-+|-.+ T Consensus 12 edknqeyaaralglsqkl------ieevlkrglpvyv 42 (65) T 2cw1_A 12 EDKNQEYAARALGLSQKL------IEEVLKRGLPVYV 42 (65) T ss_dssp TTSCHHHHHHHSSSCHHH------HHHHHHTTCCCBC T ss_pred HHHHHHHHHHHHCCHHHH------HHHHHHCCCCEEE T ss_conf 600288999984116999------9999975995699 No 16 >>2r6g_F Maltose transport system permease protein MALF; ABC transporter, catalytic intermediate, E. coli maltose transporter, MBP; HET: MAL ATP; 2.80A {Escherichia coli K12} (F:113-209) Probab=25.93 E-value=14 Score=16.01 Aligned_cols=16 Identities=38% Similarity=0.958 Sum_probs=12.7 Q ss_pred HHEEEECHHHCCCHHH Q ss_conf 6225525111430568 Q gi|254780172|r 106 FIFGNYPMAQRWRPIL 121 (386) Q Consensus 106 ~lyG~YP~~e~WRv~l 121 (386) +-|+.||.+..||..+ T Consensus 8 y~F~Ly~~~~~~rL~L 23 (97) T 2r6g_F 8 YNFGLYPAGDEWQLAL 23 (97) T ss_dssp CCEEEEEETTEEEEEE T ss_pred EEEEEEECCCCEEEEE T ss_conf 0158875288348999 No 17 >>3cec_A Putative antidote protein of plasmid maintenance system; ZP_00107635.1, structural genomics, joint center for structural genomics; HET: MSE; 1.60A {Nostoc punctiforme pcc 73102} (A:1-56) Probab=23.01 E-value=41 Score=13.16 Aligned_cols=34 Identities=24% Similarity=0.219 Sum_probs=28.5 Q ss_pred HHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHH Q ss_conf 8999999998458667899999621689999999 Q gi|254780172|r 264 IAEVLRGGLQSISKGQFEAANSLGLSYLQKMRLI 297 (386) Q Consensus 264 ~aEi~Rggl~svp~GQ~EAA~alGls~~q~~~~I 297 (386) -+|+++-=++...-.|.|-|+++|.++.+.-..| T Consensus 19 PGeiL~e~Le~~gis~~~lA~~lgvs~~~is~Ii 52 (56) T 3cec_A 19 PGEVIADILDDLDINTANFAEILGVSNQTIQEVI 52 (56) T ss_dssp HHHHHHHHHHHHTCCHHHHHHHHTSCHHHHHHHH T ss_pred CCHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHH T ss_conf 3399999999879999999999782789999998 No 18 >>1u7g_A Probable ammonium transporter; right handed helical bundle, transmembrane helices, ammonia channnel, membrane protein, RH protein; HET: MSE BOG; 1.40A {Escherichia coli} (A:) Probab=21.04 E-value=45 Score=12.91 Aligned_cols=90 Identities=17% Similarity=0.060 Sum_probs=46.6 Q ss_pred HHEEEECHHHCCCHHHHHHHHHHHHHH-HHHCCHHHHHHHHH---HHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHH Q ss_conf 622552511143056899999999999-74000111233346---89999988988513333574111111002478779 Q gi|254780172|r 106 FIFGNYPMAQRWRPILVFLTGSILLTP-MLIPSFPRKFLNSI---LLFGLFPIFSFFVLYGGLGLSIVETSLWGGLLVTL 181 (386) Q Consensus 106 ~lyG~YP~~e~WRv~la~ill~vll~~-~l~~~~~~k~~~~l---~~~~~~pil~~~Ll~gg~gl~~V~t~~~gGl~~Tl 181 (386) ..-|.+|....|--...|.+..+.+.. ...+|...+.+... +....||..+.+...+|.....--.|.=||..+-+ T Consensus 90 ~~~~~~~~~~~~~f~~~faa~t~~I~~Gav~eR~~~~~~~i~~~l~~~~~y~~~a~wvw~~g~l~~lG~~DfaGg~vVH~ 169 (385) T 1u7g_A 90 AVXGSIYQYIHVAFQGSFACITVGLIVGALAERIRFPAVLIFVVVWLTLSYIPIAHXVWGGGLLASHGALDFAGGTVVHI 169 (385) T ss_dssp CEETTEEHHHHHHHHHHHHHHHHHHHHHHHGGGBCHHHHHHHHHHHHHHTHHHHHHHHHSSCHHHHHTCCCSSCTTTTHH T ss_pred CCCCCCHHHHHHHHHHHHHEEECCCCCCCCCCCCEEEEEEEHHHHHCCCCCCCEEEEECCCCCCCCCCCEEECCCEEEEE T ss_conf 23333114677565320000211311132125641467663455650222471579961788534578610056326651 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 99999999998756 Q gi|254780172|r 182 VISFFGIIISMPLG 195 (386) Q Consensus 182 ~l~~~~~~~~~~lG 195 (386) .-+..++..+..+| T Consensus 170 ~aG~~gL~~a~~Lg 183 (385) T 1u7g_A 170 NAAIAGLVGAYLIG 183 (385) T ss_dssp HHHHHHHHHHHHSC T ss_pred CCHHHHHHHHHHCC T ss_conf 42398998887527 Done!