Query 027807
Match_columns 218
No_of_seqs 133 out of 489
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 15:29:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027807.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027807hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04832 SOUL: SOUL heme-bindi 100.0 1.6E-56 3.4E-61 367.4 17.3 174 22-203 1-176 (176)
2 PRK10016 DNA gyrase inhibitor; 97.6 0.017 3.8E-07 45.8 18.4 149 36-204 2-154 (156)
3 PF06445 GyrI-like: GyrI-like 97.4 0.02 4.3E-07 43.6 16.1 148 36-203 2-155 (155)
4 COG3449 DNA gyrase inhibitor [ 96.4 0.26 5.7E-06 39.7 14.2 146 36-202 2-149 (154)
5 smart00871 AraC_E_bind Bacteri 94.0 2 4.2E-05 32.5 17.0 153 37-203 2-158 (158)
6 COG3449 DNA gyrase inhibitor [ 92.9 0.57 1.2E-05 37.8 7.4 70 127-203 2-73 (154)
7 PRK10016 DNA gyrase inhibitor; 92.9 0.85 1.8E-05 36.0 8.4 70 127-204 2-73 (156)
8 PF06445 GyrI-like: GyrI-like 89.5 1.7 3.6E-05 32.7 6.8 73 127-204 2-75 (155)
9 COG4978 Transcriptional regula 74.7 42 0.00092 26.9 14.9 144 36-203 4-152 (153)
10 smart00871 AraC_E_bind Bacteri 74.3 19 0.00041 26.9 7.2 74 128-204 2-77 (158)
11 COG3708 Uncharacterized protei 70.1 56 0.0012 26.3 9.9 88 103-204 66-156 (157)
12 PRK15121 right oriC-binding tr 61.0 1.1E+02 0.0024 26.4 10.2 88 104-204 195-289 (289)
13 COG4978 Transcriptional regula 32.1 2.6E+02 0.0057 22.3 8.6 43 126-169 3-45 (153)
14 PF10738 Lpp-LpqN: Probable li 30.3 1.8E+02 0.0039 23.8 6.0 81 68-163 8-96 (175)
15 KOG1256 Long-chain acyl-CoA sy 29.2 32 0.00069 34.2 1.7 84 107-204 460-558 (691)
16 PHA00159 endonuclease I 28.9 82 0.0018 25.1 3.6 45 157-204 21-68 (148)
17 COG1406 Predicted inhibitor of 26.1 1.4E+02 0.0031 23.9 4.5 37 58-94 81-122 (153)
18 KOG3405 RNA polymerase subunit 23.0 1.4E+02 0.003 23.4 3.8 46 57-114 68-122 (136)
19 PF02120 Flg_hook: Flagellar h 21.6 2.6E+02 0.0056 19.1 4.9 44 126-169 27-70 (85)
20 PF14657 Integrase_AP2: AP2-li 20.9 1.8E+02 0.0039 17.9 3.5 25 142-166 20-44 (46)
21 KOG0417 Ubiquitin-protein liga 20.3 1.3E+02 0.0029 24.1 3.4 26 95-120 40-65 (148)
22 PF07157 DNA_circ_N: DNA circu 20.3 79 0.0017 23.3 1.9 39 128-167 39-77 (93)
No 1
>PF04832 SOUL: SOUL heme-binding protein; InterPro: IPR006917 This family represents a group of putative haem-binding proteins []. It includes archaeal and bacterial homologues.; PDB: 2HVA_A 2GOV_A 4A1M_A 3R85_E 2YC9_A 3R8K_B 3R8J_B.
Probab=100.00 E-value=1.6e-56 Score=367.35 Aligned_cols=174 Identities=37% Similarity=0.672 Sum_probs=142.3
Q ss_pred CCCCCCeEEEeecCCeEEEEeCCCeEEEEEecccccHhHHHHHHHHHHHHhhhccCCCCCccCCCcceEEEEecCCCCCc
Q 027807 22 AIESPQYAVVHEESDFEVRLYSQSTWMSARVREELSFAKATLLGFHRLFQYIQGANLNNSRIAMTSPIVTSLVPGAGPLH 101 (218)
Q Consensus 22 ~~e~P~Y~Vl~~~~~yEiR~Y~~~~wv~t~v~~~~~~~~a~~~gF~~L~~YI~G~N~~~~~i~MT~PV~~~~~~~~~~~~ 101 (218)
+.|||+|+||++.++||||+|++++||||++. +++++.|...||++|++||+|+|+++++|+||+||++++.+++...|
T Consensus 1 ~~E~P~Y~v~~~~~~~EiR~Y~~~~w~~t~~~-~~~~~~a~~~~f~~L~~Yi~G~N~~~~ki~mT~PV~~~~~~~~~~~~ 79 (176)
T PF04832_consen 1 DIECPPYEVLKKGDDYEIRRYPPAKWASTTVS-GCSFEEASSSGFRRLFRYIFGKNSAGEKIAMTAPVLTQVIPMTAESC 79 (176)
T ss_dssp --BS-SEEEECCCSSCEEEEE--CEEEEEEEE-CS-HHHHHHHHHHHHHHHHCT-CTT------BS-EEEEEEETTTTTC
T ss_pred CCcCCCeEEEEeCCCEEEEEECCceEEEEEec-CCChhHHHHHHHHHHHHHHhcCCcccceeeccCCEEEEEEcCCCccc
Confidence 47999999999999999999999999999999 89999999999999999999999999999999999999987766678
Q ss_pred cceEEEEEEecCCCC-CCCCCCCCCCCeeEEeeCCeEEEEEEeccccChHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcE
Q 027807 102 SYAYVVTLYLPDKFQ-SDPPTPLPEIHLNPFEWDSHCVAVRKFSGFAIDEVIVKEADNLSFSLRRSPWANSTSSDSGYAY 180 (218)
Q Consensus 102 ~~~~t~sf~lP~~~~-~~~P~P~~d~~V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~~ 180 (218)
++.++|||+||++|| ++||+|+ |++|+|+++|++++||++|+|+++++++.+++++|+++|+++|+. ..+.+
T Consensus 80 ~~~~t~~f~lP~~~~~~~~P~P~-d~~V~i~~~p~~~~~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~------~~~~~ 152 (176)
T PF04832_consen 80 EKEYTMSFFLPSEYQAENPPKPT-DPDVFIEEVPERTVYVRRFSGFATDEKIQEEAKKLRAALKKDGLK------DKGYY 152 (176)
T ss_dssp ECEEEEEEE--HHHC-TS---BS-STTEEEEEC-SEEEEEEEECS--SHHHHHHHHHHHHHHCCCTTHH------CCCEE
T ss_pred CCcEEEEEEcCcccccccCCCCC-CCeEEEEEecCcEEEEEEECCcCCHHHHHHHHHHHHHHHHHcCCC------cCCCe
Confidence 899999999999999 7899999 899999999999999999999999999999999999999999976 47899
Q ss_pred EEEEeCCCCCC-CCCceeEEEEee
Q 027807 181 SVAQYSPPLQF-IGRVNEIWVDID 203 (218)
Q Consensus 181 ~~A~Yd~P~~~-~~R~NEV~i~v~ 203 (218)
++|+||+||++ ++|||||||+|+
T Consensus 153 ~~a~Yd~P~~~~~~R~NEV~i~v~ 176 (176)
T PF04832_consen 153 YVAGYDPPFTPPFNRRNEVWIPVK 176 (176)
T ss_dssp EEEESSSS-SSSSSSCEEEEEE--
T ss_pred EEEEcCCCCCCccCcceEEEEecC
Confidence 99999999776 999999999985
No 2
>PRK10016 DNA gyrase inhibitor; Provisional
Probab=97.63 E-value=0.017 Score=45.78 Aligned_cols=149 Identities=15% Similarity=0.134 Sum_probs=95.6
Q ss_pred CeEEEEeCCCeEEEEEecccccHhHHHHHHHHHHHHhhhccCCCCCccCCCcceEEEEe--cCCCCCccceEEEEEEecC
Q 027807 36 DFEVRLYSQSTWMSARVREELSFAKATLLGFHRLFQYIQGANLNNSRIAMTSPIVTSLV--PGAGPLHSYAYVVTLYLPD 113 (218)
Q Consensus 36 ~yEiR~Y~~~~wv~t~v~~~~~~~~a~~~gF~~L~~YI~G~N~~~~~i~MT~PV~~~~~--~~~~~~~~~~~t~sf~lP~ 113 (218)
+++|+..++...++.... + ++.+...++|.+|+.++..+|-. . + +.+.-.. |...+..+-.+-+++-+|.
T Consensus 2 ~v~i~~~~~~~va~ir~~-g-~~~~~~~~~~~~L~~~~~~~~l~---~--~-~~~~i~~D~p~~~~~~~~R~d~~i~v~~ 73 (156)
T PRK10016 2 NYEIKQEQKRTIAGFHLV-G-PWEQTVKQGFEQLMMWVDSHNIV---P--K-EWVAVYYDNPDEVPAEKLRCDTVVTVPD 73 (156)
T ss_pred ceEEEEccCceEEEEEee-c-CchhHHHHHHHHHHHHHHHcCCC---C--C-cEEEEECCCCCCCChHHceeeEEEEeCC
Confidence 478899999988887765 3 34445678999999999766532 1 2 2232221 2111111123788888887
Q ss_pred CCCCCCCCCCCCCCeeEEeeCCeEEEEEEeccccChHHHHHHHHH-HHHHHhcCCCCCCCCCCCCCcEEEEEeC-CCCCC
Q 027807 114 KFQSDPPTPLPEIHLNPFEWDSHCVAVRKFSGFAIDEVIVKEADN-LSFSLRRSPWANSTSSDSGYAYSVAQYS-PPLQF 191 (218)
Q Consensus 114 ~~~~~~P~P~~d~~V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~-L~~~L~~~g~~~~~~~~~~~~~~~A~Yd-~P~~~ 191 (218)
+.. .| +. +..+.+.++|+.++||..+.|. -+.+.+.-.. +.+||..+|+.. .+.+.+-.|. .|...
T Consensus 74 ~~~--~~-~~-~~~~~~~~ip~g~yAv~~~~G~--~~~l~~~~~~i~~~Wl~~sgy~~------~~~p~~E~Y~~~~~~~ 141 (156)
T PRK10016 74 DFV--LP-EN-SEGVILTEIPGGQYAVAVARVV--DDDFAKPWYQFFNSLLQDSAYQM------APKPCFEVYLNDGAED 141 (156)
T ss_pred Ccc--cC-CC-CCCeEEEEECCCcEEEEEEECC--HHHHHHHHHHHHHHhchhcCCcc------CCCCCEEEeCCCCCCC
Confidence 632 22 11 2469999999999999999995 4456666666 778999998763 2234444555 34433
Q ss_pred CCCceeEEEEeec
Q 027807 192 IGRVNEIWVDIDV 204 (218)
Q Consensus 192 ~~R~NEV~i~v~~ 204 (218)
..-.=||||+++.
T Consensus 142 ~~~~tei~iPI~~ 154 (156)
T PRK10016 142 GYWDIEMYVPVQK 154 (156)
T ss_pred CcEEEEEEEEeEE
Confidence 2224599999984
No 3
>PF06445 GyrI-like: GyrI-like small molecule binding domain; InterPro: IPR010499 This domain is found in the probable effector binding domain of a number of different bacterial transcription activators [] and is also present in some DNA gyrase inhibitors. The absence of a HTH motif in the DNA gyrase inhibitors is thought to indicate the fact that these do not bind DNA.; PDB: 1JYH_A 1D5Y_B 3B49_A 3E0H_A 2KCU_A 3LUR_B 1EXI_A 3Q3D_A 1EXJ_A 3Q5S_A ....
Probab=97.45 E-value=0.02 Score=43.58 Aligned_cols=148 Identities=14% Similarity=0.112 Sum_probs=96.3
Q ss_pred CeEEEEeCCCeEEEEEecccccHhHH--HHHHHHHHHHhhhccCCCCCccCCCcceEEEEecC--CCCCccceEEEEEEe
Q 027807 36 DFEVRLYSQSTWMSARVREELSFAKA--TLLGFHRLFQYIQGANLNNSRIAMTSPIVTSLVPG--AGPLHSYAYVVTLYL 111 (218)
Q Consensus 36 ~yEiR~Y~~~~wv~t~v~~~~~~~~a--~~~gF~~L~~YI~G~N~~~~~i~MT~PV~~~~~~~--~~~~~~~~~t~sf~l 111 (218)
+++|+.-++...+..... .+..+. ....+.+|..++.-.+... ...+.+.-.... ..+...-.+.+++.+
T Consensus 2 ~~~i~~~p~~~v~~~~~~--~~~~~~~~i~~~~~~l~~~~~~~~~~~----~~~~~~~i~~~~~~~~~~~~~~~~~~~~~ 75 (155)
T PF06445_consen 2 EVEIVTLPAFRVAGIRRK--GPYEEEDSIPELWQRLMSWLKEIGLST----DPGPIIGIYYDNPNITDDEEFRYDIGVEV 75 (155)
T ss_dssp CEEEEEEEEEEEEEEEEE--EEHHHHHHHHHHHHHHHHHHHHHHHCC----SSSSEEEEEEECCTSSTGCEEEEEEEEEE
T ss_pred CcEEEEECCEEEEEEEEE--ECCchhhhHHHHHHHHHHHHHHhhccc----CCCcceeEEeccccccCCcceEEEEEEEE
Confidence 478888888888887765 334443 6788999999886432211 344554443322 222223455666666
Q ss_pred cCCCCCCCCCCCCCCCeeEEeeCCeEEEEEEeccccChHHHHHHHHHHHH-HHhcCCCCCCCCCCCCCcEEEEEeCCCCC
Q 027807 112 PDKFQSDPPTPLPEIHLNPFEWDSHCVAVRKFSGFAIDEVIVKEADNLSF-SLRRSPWANSTSSDSGYAYSVAQYSPPLQ 190 (218)
Q Consensus 112 P~~~~~~~P~P~~d~~V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L~~-~L~~~g~~~~~~~~~~~~~~~A~Yd~P~~ 190 (218)
+... +. ..++....+|+..+++..|.|-. +.+.+....|.. +|.++|+.. ..+..+-...+.|..
T Consensus 76 ~~~~------~~-~~~~~~~~ip~g~ya~~~~~G~~--~~l~~~~~~l~~~~l~~~g~~~-----~~~~~~E~y~~~~~~ 141 (155)
T PF06445_consen 76 DEDV------PN-PDGMESRTIPAGKYAVFEHKGPY--DDLQEAYQKLYNEWLPESGYER-----RDGPDFEIYLNDPDT 141 (155)
T ss_dssp CTTC------SG-CTTSEEEEEECEEEEEEEEESCG--HGHHHHHHHHHHCHHHHCTCEE-----ESSEEEEEEESSTTT
T ss_pred cccc------cC-CceEEEEEEcCcEEEEEEEEccH--HHHHHHHHHHHhhhHHHCCCcc-----CCCCcEEEECCCCCC
Confidence 5543 22 35788999999999999999977 677788889999 999999731 233333334445553
Q ss_pred -CCCCceeEEEEee
Q 027807 191 -FIGRVNEIWVDID 203 (218)
Q Consensus 191 -~~~R~NEV~i~v~ 203 (218)
...-.=||||+|+
T Consensus 142 ~~~~~~~ei~iPik 155 (155)
T PF06445_consen 142 DEEEYVTEIYIPIK 155 (155)
T ss_dssp TSCGEEEEEEEEEE
T ss_pred CCCceEEEEEEEEC
Confidence 2455669999985
No 4
>COG3449 DNA gyrase inhibitor [DNA replication, recombination, and repair]
Probab=96.39 E-value=0.26 Score=39.71 Aligned_cols=146 Identities=18% Similarity=0.103 Sum_probs=95.0
Q ss_pred CeEEEEeCCCeEEEEEecccccHhHHHHHHHHHHHHhhhccCCCCCccCCCcceEEE--EecCCCCCccceEEEEEEecC
Q 027807 36 DFEVRLYSQSTWMSARVREELSFAKATLLGFHRLFQYIQGANLNNSRIAMTSPIVTS--LVPGAGPLHSYAYVVTLYLPD 113 (218)
Q Consensus 36 ~yEiR~Y~~~~wv~t~v~~~~~~~~a~~~gF~~L~~YI~G~N~~~~~i~MT~PV~~~--~~~~~~~~~~~~~t~sf~lP~ 113 (218)
++||+..++...|.-.-. + ...-..++|.+|..+-.-+|--.. +..-+.- -.|...+-.+-.+-.|..+|.
T Consensus 2 dv~I~e~p~~~VA~~rh~-G--~~~~~~~~~~~l~~W~~~~~l~p~----~S~~~gI~~ddP~~Tp~e~~R~D~cv~v~~ 74 (154)
T COG3449 2 DVEIIELPPIPVAYLRHV-G--DPATLKQTFEQLIAWRRENGLLPE----QSETLGIYQDDPDTTPAEKCRYDACVVVPE 74 (154)
T ss_pred CceEEecCCceEEEEEee-C--cHHHHHHHHHHHHHHHHHcCCCCC----CceEEEEecCCCCCCCHHHceeeEEEEcCC
Confidence 789999999998887665 4 556678899999999976553211 2222221 124434444456778888883
Q ss_pred CCCCCCCCCCCCCCeeEEeeCCeEEEEEEeccccChHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcEEEEEeCCCCCCCC
Q 027807 114 KFQSDPPTPLPEIHLNPFEWDSHCVAVRKFSGFAIDEVIVKEADNLSFSLRRSPWANSTSSDSGYAYSVAQYSPPLQFIG 193 (218)
Q Consensus 114 ~~~~~~P~P~~d~~V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~~~~A~Yd~P~~~~~ 193 (218)
. .+.++..|..-++|+..+||.+|.|.. ++--..-..-+..||.+.|.. ..+.+.+.+|=...- ..
T Consensus 75 ~------~~~n~~~v~~~~i~GG~YAV~r~~~~~-d~~~~aw~~if~ewlp~Sg~~------~~d~P~~e~y~n~~~-~~ 140 (154)
T COG3449 75 P------IPENSEGVQLGEIPGGLYAVARFRGTA-DDLAKAWGYIFGEWLPASGYE------PRDRPILERYLNFPA-ED 140 (154)
T ss_pred c------cCCCCCceeEeeecCCceEEEEEeccH-HHHHHHHHHHHhhhccccCcc------cCCCchHHHHhccCC-CC
Confidence 3 222367899999999999999999954 223333344556677777754 567788888854443 44
Q ss_pred CceeEEEEe
Q 027807 194 RVNEIWVDI 202 (218)
Q Consensus 194 R~NEV~i~v 202 (218)
-..|+.+.+
T Consensus 141 ~~~e~~vdi 149 (154)
T COG3449 141 PEHEIEVDI 149 (154)
T ss_pred cceeEEEEE
Confidence 555655554
No 5
>smart00871 AraC_E_bind Bacterial transcription activator, effector binding domain. This domain is found in the probable effector binding domain of a number of different bacterial transcription activators PUBMED:10802742 and is also present in some DNA gyrase inhibitors. The absence of a HTH motif in the DNA gyrase inhibitors is thought to indicate the fact that these do not bind DNA.
Probab=94.04 E-value=2 Score=32.45 Aligned_cols=153 Identities=13% Similarity=0.041 Sum_probs=82.0
Q ss_pred eEEEEeCCCeEEEEEecccccHhHHHHHHHHHHHHhhhccCCCCCccCCCcceEEEE--ecCCCCCccceEEEEEEecCC
Q 027807 37 FEVRLYSQSTWMSARVREELSFAKATLLGFHRLFQYIQGANLNNSRIAMTSPIVTSL--VPGAGPLHSYAYVVTLYLPDK 114 (218)
Q Consensus 37 yEiR~Y~~~~wv~t~v~~~~~~~~a~~~gF~~L~~YI~G~N~~~~~i~MT~PV~~~~--~~~~~~~~~~~~t~sf~lP~~ 114 (218)
+++..-++...+........+ .....+.|.+|++++...+....... .+++... .+...+...-.+.+++.++..
T Consensus 2 ~~i~~~~~~~v~~~~~~~~~~-~~~i~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~ 78 (158)
T smart00871 2 VRIVELPAFKVAGLRHRGPYE-EEKIPELWQRLIAWAKELGLLPIGPS--GPPYGVYYDDPDDTPEGEFRYDAGVEVSDE 78 (158)
T ss_pred CEEEEcCCceEEEEEeecCcc-cccHHHHHHHHHHHHHHcCCCCCCCC--ccEEEEECCCCCCCChhHeEEEEEEEeCCC
Confidence 344445555555544431121 22356788889888865543322211 2222222 121111112345555555543
Q ss_pred CCCCCCCCCCCCCeeEEeeCCeEEEEEEeccccChHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcEEEEEeCCCCCC--C
Q 027807 115 FQSDPPTPLPEIHLNPFEWDSHCVAVRKFSGFAIDEVIVKEADNLSFSLRRSPWANSTSSDSGYAYSVAQYSPPLQF--I 192 (218)
Q Consensus 115 ~~~~~P~P~~d~~V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~~~~A~Yd~P~~~--~ 192 (218)
.. . ...+.+..+|+..+++.+|.|- ..+.+.+...+|..++..+|... ....+..+-..++.|... .
T Consensus 79 ~~-----~--~~~~~~~~~p~~~y~~~~~~g~-~~~~~~~~~~~l~~~~~~~~~~~---~~~~~~~~E~y~~~~~~~~~~ 147 (158)
T smart00871 79 VE-----N--PEGVETKEIPAGKYAVFTHKGG-SYDEIQETWEAIYGEWLPNSGYE---LRDAGPDFEIYLNDPADTDPE 147 (158)
T ss_pred CC-----C--CCCceEEEECCCcEEEEEEcCC-CHHHHHHHHHHHHHhhcccCCCc---cCcCCceEEEEeCCCCCCChh
Confidence 11 1 2358888999999999999993 46678888999998888776431 101122222234444331 3
Q ss_pred CCceeEEEEee
Q 027807 193 GRVNEIWVDID 203 (218)
Q Consensus 193 ~R~NEV~i~v~ 203 (218)
...=||+|+|+
T Consensus 148 ~~~~ei~ipv~ 158 (158)
T smart00871 148 ELVTEIYIPIK 158 (158)
T ss_pred HeEEEEEEEcC
Confidence 45678888874
No 6
>COG3449 DNA gyrase inhibitor [DNA replication, recombination, and repair]
Probab=92.93 E-value=0.57 Score=37.77 Aligned_cols=70 Identities=11% Similarity=-0.072 Sum_probs=53.7
Q ss_pred CeeEEeeCCeEEEEEEeccccChHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcEEEEEeCCCCC-C-CCCceeEEEEee
Q 027807 127 HLNPFEWDSHCVAVRKFSGFAIDEVIVKEADNLSFSLRRSPWANSTSSDSGYAYSVAQYSPPLQ-F-IGRVNEIWVDID 203 (218)
Q Consensus 127 ~V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~~~~A~Yd~P~~-~-~~R~NEV~i~v~ 203 (218)
+|.|.+.|+..||..+-.| ....+.+-.++|.+|.+++|+.. ..+......||+|-. + ..=|--+-+.+.
T Consensus 2 dv~I~e~p~~~VA~~rh~G--~~~~~~~~~~~l~~W~~~~~l~p-----~~S~~~gI~~ddP~~Tp~e~~R~D~cv~v~ 73 (154)
T COG3449 2 DVEIIELPPIPVAYLRHVG--DPATLKQTFEQLIAWRRENGLLP-----EQSETLGIYQDDPDTTPAEKCRYDACVVVP 73 (154)
T ss_pred CceEEecCCceEEEEEeeC--cHHHHHHHHHHHHHHHHHcCCCC-----CCceEEEEecCCCCCCCHHHceeeEEEEcC
Confidence 6999999999999989899 78889999999999999999763 335566677888885 3 333444444443
No 7
>PRK10016 DNA gyrase inhibitor; Provisional
Probab=92.85 E-value=0.85 Score=35.98 Aligned_cols=70 Identities=9% Similarity=0.017 Sum_probs=51.6
Q ss_pred CeeEEeeCCeEEEEEEeccccChHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcEEEEEeCCC--CCCCCCceeEEEEeec
Q 027807 127 HLNPFEWDSHCVAVRKFSGFAIDEVIVKEADNLSFSLRRSPWANSTSSDSGYAYSVAQYSPP--LQFIGRVNEIWVDIDV 204 (218)
Q Consensus 127 ~V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~~~~A~Yd~P--~~~~~R~NEV~i~v~~ 204 (218)
+|.|+++|++.++.++..|...+ .+.+...+|.+++.++|+. .. ..+...||.| .....-|-+|.|.+..
T Consensus 2 ~v~i~~~~~~~va~ir~~g~~~~-~~~~~~~~L~~~~~~~~l~------~~-~~~~i~~D~p~~~~~~~~R~d~~i~v~~ 73 (156)
T PRK10016 2 NYEIKQEQKRTIAGFHLVGPWEQ-TVKQGFEQLMMWVDSHNIV------PK-EWVAVYYDNPDEVPAEKLRCDTVVTVPD 73 (156)
T ss_pred ceEEEEccCceEEEEEeecCchh-HHHHHHHHHHHHHHHcCCC------CC-cEEEEECCCCCCCChHHceeeEEEEeCC
Confidence 58999999999999999997643 4778889999999999875 22 3677888998 4433334555555444
No 8
>PF06445 GyrI-like: GyrI-like small molecule binding domain; InterPro: IPR010499 This domain is found in the probable effector binding domain of a number of different bacterial transcription activators [] and is also present in some DNA gyrase inhibitors. The absence of a HTH motif in the DNA gyrase inhibitors is thought to indicate the fact that these do not bind DNA.; PDB: 1JYH_A 1D5Y_B 3B49_A 3E0H_A 2KCU_A 3LUR_B 1EXI_A 3Q3D_A 1EXJ_A 3Q5S_A ....
Probab=89.46 E-value=1.7 Score=32.73 Aligned_cols=73 Identities=14% Similarity=-0.036 Sum_probs=55.2
Q ss_pred CeeEEeeCCeEEEEEEeccccChHH-HHHHHHHHHHHHhcCCCCCCCCCCCCCcEEEEEeCCCCCCCCCceeEEEEeec
Q 027807 127 HLNPFEWDSHCVAVRKFSGFAIDEV-IVKEADNLSFSLRRSPWANSTSSDSGYAYSVAQYSPPLQFIGRVNEIWVDIDV 204 (218)
Q Consensus 127 ~V~i~~~p~~~v~v~~F~G~~t~~~-~~~~~~~L~~~L~~~g~~~~~~~~~~~~~~~A~Yd~P~~~~~R~NEV~i~v~~ 204 (218)
+|+|++.|+++++..+..|...+.. +.+..++|.+++...++.. ....+....||.|..........++-+..
T Consensus 2 ~~~i~~~p~~~v~~~~~~~~~~~~~~i~~~~~~l~~~~~~~~~~~-----~~~~~~~i~~~~~~~~~~~~~~~~~~~~~ 75 (155)
T PF06445_consen 2 EVEIVTLPAFRVAGIRRKGPYEEEDSIPELWQRLMSWLKEIGLST-----DPGPIIGIYYDNPNITDDEEFRYDIGVEV 75 (155)
T ss_dssp CEEEEEEEEEEEEEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHCC-----SSSSEEEEEEECCTSSTGCEEEEEEEEEE
T ss_pred CcEEEEECCEEEEEEEEEECCchhhhHHHHHHHHHHHHHHhhccc-----CCCcceeEEeccccccCCcceEEEEEEEE
Confidence 5899999999999999999887776 8999999999999887541 34567777788886434555555554443
No 9
>COG4978 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]
Probab=74.71 E-value=42 Score=26.89 Aligned_cols=144 Identities=9% Similarity=0.075 Sum_probs=88.2
Q ss_pred CeEEEEeCCCeEEEEEecccccHhHHHHHHHHHHHHhhhccCCCCCccCCCcceEEEEe--cCCCCCccceEEEEEEecC
Q 027807 36 DFEVRLYSQSTWMSARVREELSFAKATLLGFHRLFQYIQGANLNNSRIAMTSPIVTSLV--PGAGPLHSYAYVVTLYLPD 113 (218)
Q Consensus 36 ~yEiR~Y~~~~wv~t~v~~~~~~~~a~~~gF~~L~~YI~G~N~~~~~i~MT~PV~~~~~--~~~~~~~~~~~t~sf~lP~ 113 (218)
...+...++...+..... .. ......+.+..|.++++-++. +.+ .|...... +-.. .+-..-+++++=.
T Consensus 4 e~~~~~~~~~~v~~ir~~-~~-~~~~~~~~~~el~~~~~~~~~----~~~-~~~~~~~~~~~~~~--~~~~~~~s~~i~~ 74 (153)
T COG4978 4 EVVIKKLEEIKVVGIRFT-GI-PERLIEQVYSELCNFLKSNGI----IPI-GPYGATIFHEPLKE--EDVDIEVSIPISG 74 (153)
T ss_pred ccEEEeecceeEEEEEEe-cC-cHHHHHHHHHHHHHHHhhcCc----ccc-CCceEEEEeeeecc--cccccceeEEEEE
Confidence 345667777777777665 33 566778899999999865441 111 23322221 1000 0012344444433
Q ss_pred CCCCCCCCCCCCCCeeEEeeCCeEEEEEEeccccChHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcEEEEEeCCCCC---
Q 027807 114 KFQSDPPTPLPEIHLNPFEWDSHCVAVRKFSGFAIDEVIVKEADNLSFSLRRSPWANSTSSDSGYAYSVAQYSPPLQ--- 190 (218)
Q Consensus 114 ~~~~~~P~P~~d~~V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~~~~A~Yd~P~~--- 190 (218)
..+ . |.++.+...|+.+++...|.|...+ +.+.-++|..+++++|+.. .+..+=.--.+|.+
T Consensus 75 ~~~------~-~~~~~~~~~P~g~~a~~~~~G~~~~--~~~~y~rli~~iee~g~~i------~g~~~E~y~~d~~~~~~ 139 (153)
T COG4978 75 EVE------G-DIDIKIKTLPKGKYACIIHKGSYEE--VEQAYKRLIEYIEENGLEI------IGPSREVYLIDPATEVN 139 (153)
T ss_pred ecC------C-CCcceeEEccCceEEEEEEEcCccc--HHHHHHHHHHHHHHhCCcc------cCceEEEEecCCccccC
Confidence 322 3 6789999999999999999997543 6677889999999999763 33332223345552
Q ss_pred CCCCceeEEEEee
Q 027807 191 FIGRVNEIWVDID 203 (218)
Q Consensus 191 ~~~R~NEV~i~v~ 203 (218)
+..=.-||.++++
T Consensus 140 ~~e~~tei~i~v~ 152 (153)
T COG4978 140 PEEYLTEIQIPVK 152 (153)
T ss_pred hhHeEEEEEEEee
Confidence 2344677777765
No 10
>smart00871 AraC_E_bind Bacterial transcription activator, effector binding domain. This domain is found in the probable effector binding domain of a number of different bacterial transcription activators PUBMED:10802742 and is also present in some DNA gyrase inhibitors. The absence of a HTH motif in the DNA gyrase inhibitors is thought to indicate the fact that these do not bind DNA.
Probab=74.27 E-value=19 Score=26.89 Aligned_cols=74 Identities=14% Similarity=-0.071 Sum_probs=49.4
Q ss_pred eeEEeeCCeEEEEEEeccccChHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcEEEEEeCCCCCC--CCCceeEEEEeec
Q 027807 128 LNPFEWDSHCVAVRKFSGFAIDEVIVKEADNLSFSLRRSPWANSTSSDSGYAYSVAQYSPPLQF--IGRVNEIWVDIDV 204 (218)
Q Consensus 128 V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~~~~A~Yd~P~~~--~~R~NEV~i~v~~ 204 (218)
++|..+|+..++..++.|...+..+.+..++|.+++...+... ....+..+...|+.|..- ..=+=++.+++..
T Consensus 2 ~~i~~~~~~~v~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~v~~ 77 (158)
T smart00871 2 VRIVELPAFKVAGLRHRGPYEEEKIPELWQRLIAWAKELGLLP---IGPSGPPYGVYYDDPDDTPEGEFRYDAGVEVSD 77 (158)
T ss_pred CEEEEcCCceEEEEEeecCcccccHHHHHHHHHHHHHHcCCCC---CCCCccEEEEECCCCCCCChhHeEEEEEEEeCC
Confidence 6788999999999999998775567777888888888877542 111245666777777641 1113344555554
No 11
>COG3708 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=70.13 E-value=56 Score=26.28 Aligned_cols=88 Identities=13% Similarity=0.038 Sum_probs=54.4
Q ss_pred ceEEEEEEecCCCCCCCCCCCCCCCeeEEeeCCeEEEEEEeccccChHHHHHHHHHHHH-HHhcCCCCCCCCCCCCCcEE
Q 027807 103 YAYVVTLYLPDKFQSDPPTPLPEIHLNPFEWDSHCVAVRKFSGFAIDEVIVKEADNLSF-SLRRSPWANSTSSDSGYAYS 181 (218)
Q Consensus 103 ~~~t~sf~lP~~~~~~~P~P~~d~~V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L~~-~L~~~g~~~~~~~~~~~~~~ 181 (218)
+.|+...-..-....+.|.+ ....++|+.+++|-...|...+ +.+--+.+.. ++...+... + .+. .
T Consensus 66 g~~~y~i~~ev~~~~~~pe~-----~~~i~iPa~~YavFt~~G~~~~--i~etw~~I~~~~~~~~~~~~---~--~~~-~ 132 (157)
T COG3708 66 GEFDYYIGVEVEDFEDLPEG-----MEVIEIPASTYAVFTHKGPIEE--IQETWQEIWKEWFPSSGYRH---A--EGP-E 132 (157)
T ss_pred CCEEEEEEEEeeccccCCCC-----ceEEEeccceEEEEEecCCHHH--HHHHHHHHHHhhcccccccc---c--CCC-c
Confidence 45555544443322223433 4456799999999999997766 5555555544 467776552 1 222 5
Q ss_pred EEEeCCC--CCCCCCceeEEEEeec
Q 027807 182 VAQYSPP--LQFIGRVNEIWVDIDV 204 (218)
Q Consensus 182 ~A~Yd~P--~~~~~R~NEV~i~v~~ 204 (218)
+=.||.= .. .+-.=||||+|+.
T Consensus 133 fE~Yd~~~~~~-~~~~veIyIpV~k 156 (157)
T COG3708 133 FEVYDERDPDS-GNGKVEIYIPVKK 156 (157)
T ss_pred eEEecCCCCCC-CCceEEEEEEEec
Confidence 6668753 22 5778999999975
No 12
>PRK15121 right oriC-binding transcriptional activator; Provisional
Probab=60.98 E-value=1.1e+02 Score=26.44 Aligned_cols=88 Identities=9% Similarity=0.018 Sum_probs=51.7
Q ss_pred eEEEEEEecCCCCCCCCCCCCCCCeeEEeeCCeEEEEEEeccccChHHHHHHHHHH-HHHHhcCCCCCCCCCCCCCcEEE
Q 027807 104 AYVVTLYLPDKFQSDPPTPLPEIHLNPFEWDSHCVAVRKFSGFAIDEVIVKEADNL-SFSLRRSPWANSTSSDSGYAYSV 182 (218)
Q Consensus 104 ~~t~sf~lP~~~~~~~P~P~~d~~V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L-~~~L~~~g~~~~~~~~~~~~~~~ 182 (218)
.+..+.-++.....+. .| + ....++|+.++||-+|.|-..+ +.+-...+ ..||-..|+.. .+.+-+
T Consensus 195 ~~~y~i~v~~~~~~~~-~~--~--~~~~~Ip~G~YAvF~~~G~~~~--l~~~~~~Iy~~WLP~sg~~~------~~~p~~ 261 (289)
T PRK15121 195 EVFYTTALEPDQADGY-VQ--T--GHPVMLQGGEYVMFTYEGLGTG--LQEFILTVYGTCMPMLNLTR------RKGQDI 261 (289)
T ss_pred EEEEEEeecccccccc-CC--C--CceEeeCCCCEEEEEEeCCHHH--HHHHHHHHHHHHCCCCCccc------cCCCCE
Confidence 5666666654432210 11 1 2566789999999999997643 55555555 57888888763 333444
Q ss_pred EEeC----CCC-CC-CCCceeEEEEeec
Q 027807 183 AQYS----PPL-QF-IGRVNEIWVDIDV 204 (218)
Q Consensus 183 A~Yd----~P~-~~-~~R~NEV~i~v~~ 204 (218)
-.|. .|. .. ..-.=||||+|++
T Consensus 262 e~y~~~~~~~~~~~~~~~~~ei~iPi~~ 289 (289)
T PRK15121 262 ERYYPAEDAKAGDRPINLRCEYLIPIRR 289 (289)
T ss_pred EEEecccCccccCCCceEEEEEEEEecC
Confidence 4553 322 11 2223499999863
No 13
>COG4978 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]
Probab=32.14 E-value=2.6e+02 Score=22.29 Aligned_cols=43 Identities=14% Similarity=0.132 Sum_probs=37.9
Q ss_pred CCeeEEeeCCeEEEEEEeccccChHHHHHHHHHHHHHHhcCCCC
Q 027807 126 IHLNPFEWDSHCVAVRKFSGFAIDEVIVKEADNLSFSLRRSPWA 169 (218)
Q Consensus 126 ~~V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L~~~L~~~g~~ 169 (218)
-.+.+.++++..++.+++-|. .+..+.+-..+|.+.|...|..
T Consensus 3 ~e~~~~~~~~~~v~~ir~~~~-~~~~~~~~~~el~~~~~~~~~~ 45 (153)
T COG4978 3 VEVVIKKLEEIKVVGIRFTGI-PERLIEQVYSELCNFLKSNGII 45 (153)
T ss_pred cccEEEeecceeEEEEEEecC-cHHHHHHHHHHHHHHHhhcCcc
Confidence 358889999999999999998 7889999999999999998844
No 14
>PF10738 Lpp-LpqN: Probable lipoprotein LpqN; InterPro: IPR019674 This protein is conserved in Mycobacteriaceae and is likely to be a lipoprotein [].
Probab=30.30 E-value=1.8e+02 Score=23.83 Aligned_cols=81 Identities=20% Similarity=0.198 Sum_probs=49.8
Q ss_pred HHHHhhhccCCCCCccCCCcceEEEEecCCCCCccceEEEEEEecCCCCCC-CCCCCCCCCeeE-------EeeCCeEEE
Q 027807 68 RLFQYIQGANLNNSRIAMTSPIVTSLVPGAGPLHSYAYVVTLYLPDKFQSD-PPTPLPEIHLNP-------FEWDSHCVA 139 (218)
Q Consensus 68 ~L~~YI~G~N~~~~~i~MT~PV~~~~~~~~~~~~~~~~t~sf~lP~~~~~~-~P~P~~d~~V~i-------~~~p~~~v~ 139 (218)
.|.+||..++-.. .| +.+++ ...-++++.+|..|+.. .|.|. +.-..| ...|...+.
T Consensus 8 ti~dYl~~~gV~~------~p----v~~~~----~~~p~v~lP~P~GW~~~~~~~~~-~a~~vi~~~~~~~~~~Pnavv~ 72 (175)
T PF10738_consen 8 TIADYLESNGVTE------EP----VAPGD----PGAPTVSLPTPPGWEPAPDPNPP-WAYAVIVDPQADGGFPPNAVVT 72 (175)
T ss_pred CHHHHHHhcCceE------Ee----cCCCC----CCCCEEeccCCcCcccCCCCCCC-ceEEEEEeccccCCCCCceEEE
Confidence 4788997665211 12 22222 34579999999999863 23332 222333 235677889
Q ss_pred EEEeccccChHHHHHHHHHHHHHH
Q 027807 140 VRKFSGFAIDEVIVKEADNLSFSL 163 (218)
Q Consensus 140 v~~F~G~~t~~~~~~~~~~L~~~L 163 (218)
|-+..|-...+++.+++..=.+.|
T Consensus 73 V~kL~G~~Dp~e~l~~a~~d~~~l 96 (175)
T PF10738_consen 73 VSKLTGDFDPAEALEHAPADAQNL 96 (175)
T ss_pred EEeccCCCCHHHHHHhchhhHhhC
Confidence 999999988887777664433333
No 15
>KOG1256 consensus Long-chain acyl-CoA synthetases (AMP-forming) [Lipid transport and metabolism]
Probab=29.23 E-value=32 Score=34.24 Aligned_cols=84 Identities=18% Similarity=0.177 Sum_probs=53.5
Q ss_pred EEEEecCCCCC-C--CCCCCCCCCeeEEeeCCeEEEE-E-----------EeccccChHHHHHHHHHHHHHHhcCCCCCC
Q 027807 107 VTLYLPDKFQS-D--PPTPLPEIHLNPFEWDSHCVAV-R-----------KFSGFAIDEVIVKEADNLSFSLRRSPWANS 171 (218)
Q Consensus 107 ~sf~lP~~~~~-~--~P~P~~d~~V~i~~~p~~~v~v-~-----------~F~G~~t~~~~~~~~~~L~~~L~~~g~~~~ 171 (218)
..+.+|.+... + +|.|. -.|+|+++|+.-+.+ . -|.||..+.+-.+ ++++++||-
T Consensus 460 ~~~~~~~d~~lgsvG~p~p~--~~vKL~dvpe~ny~a~~~~GEIcirG~~Vf~GYyK~p~~T~------e~ideDGWL-- 529 (691)
T KOG1256|consen 460 TTLTLPGDNVLGSVGPPVPG--NEVKLVDVPEMNYDADGSKGEICVRGPNVFMGYYKDPEKTA------EAIDEDGWL-- 529 (691)
T ss_pred eEeccCCCCCCCCcCCcccC--ceEEEechHHhCcCcCCCcceEEEecchhceeccCChHHHh------hhhcccccc--
Confidence 45566655532 2 68775 579998888754422 2 3888887665433 678899996
Q ss_pred CCCCCCCcEEEEEeCCCCCCCCCceeEEEEeec
Q 027807 172 TSSDSGYAYSVAQYSPPLQFIGRVNEIWVDIDV 204 (218)
Q Consensus 172 ~~~~~~~~~~~A~Yd~P~~~~~R~NEV~i~v~~ 204 (218)
++|..-...=+.-.++..|..||.....+
T Consensus 530 ----hTGDiG~~~p~G~l~IidRkK~ifklaqG 558 (691)
T KOG1256|consen 530 ----HTGDIGEWDPNGTLKIIDRKKNIFKLAQG 558 (691)
T ss_pred ----ccccceeECCCccEEEEecccceEEcCCC
Confidence 45554433334444458999999776543
No 16
>PHA00159 endonuclease I
Probab=28.93 E-value=82 Score=25.10 Aligned_cols=45 Identities=11% Similarity=-0.010 Sum_probs=28.8
Q ss_pred HHHHHHHhcCCCCCCCCCCCCCcEEEE--EeCCCCCC-CCCceeEEEEeec
Q 027807 157 DNLSFSLRRSPWANSTSSDSGYAYSVA--QYSPPLQF-IGRVNEIWVDIDV 204 (218)
Q Consensus 157 ~~L~~~L~~~g~~~~~~~~~~~~~~~A--~Yd~P~~~-~~R~NEV~i~v~~ 204 (218)
++..++|+..|+.+ .|+ .-.+.+. .=+..++| |.+.|.|++++++
T Consensus 21 ~k~ak~Le~~gv~~--~yE-~~ki~y~~pA~~~~YTPDF~LpnGiiiEvKG 68 (148)
T PHA00159 21 DKVSKQLEKKGVKF--DYE-LWKIPYVIPASDHKYTPDFLLPNGIIIETKG 68 (148)
T ss_pred HHHHHHHHhcCCCe--Eee-eeeeeeeccCCCCeeCCceecCCCCEEEecc
Confidence 34566778887765 342 2223332 23567788 8899999998885
No 17
>COG1406 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]
Probab=26.12 E-value=1.4e+02 Score=23.94 Aligned_cols=37 Identities=16% Similarity=0.097 Sum_probs=28.1
Q ss_pred HhHHHHHHHHHHHHhhhccC-----CCCCccCCCcceEEEEe
Q 027807 58 FAKATLLGFHRLFQYIQGAN-----LNNSRIAMTSPIVTSLV 94 (218)
Q Consensus 58 ~~~a~~~gF~~L~~YI~G~N-----~~~~~i~MT~PV~~~~~ 94 (218)
+++-...+-.-|.+-+.|+- +.+..++||.|++....
T Consensus 81 lDE~a~sav~ElgNmvtgnaat~L~e~g~~~DitpPav~~G~ 122 (153)
T COG1406 81 LDELATSAVGELGNMVTGNAATTLEELGFDFDITPPAVVSGR 122 (153)
T ss_pred HhHHHHHHHHHHHHHHHhhhhhHHHHhCceeecCCCeEEecC
Confidence 44555667788888888852 45789999999998764
No 18
>KOG3405 consensus RNA polymerase subunit K [Transcription]
Probab=22.96 E-value=1.4e+02 Score=23.35 Aligned_cols=46 Identities=30% Similarity=0.678 Sum_probs=31.7
Q ss_pred cHhHHHHHHHHHHHHhhhccCCCCCccCCCcceEEEEecCCCCC---------ccceEEEEEEecCC
Q 027807 57 SFAKATLLGFHRLFQYIQGANLNNSRIAMTSPIVTSLVPGAGPL---------HSYAYVVTLYLPDK 114 (218)
Q Consensus 57 ~~~~a~~~gF~~L~~YI~G~N~~~~~i~MT~PV~~~~~~~~~~~---------~~~~~t~sf~lP~~ 114 (218)
.|+.|.--|=+.| .|+|-+||+....-.+.|. .+--+.+.-+||..
T Consensus 68 KYErArvLGtRAl------------QIsm~APvmVeLegETdPL~IAmkEL~qkKIP~iIRRyLPDg 122 (136)
T KOG3405|consen 68 KYERARVLGTRAL------------QISMNAPVMVELEGETDPLEIAMKELKQKKIPFIIRRYLPDG 122 (136)
T ss_pred HHHHHHhhhHHHH------------HHhcCCCeEEecCCCCCHHHHHHHHHhhccCceEEeeeCCCC
Confidence 4666777777777 6999999999875444332 12346788888865
No 19
>PF02120 Flg_hook: Flagellar hook-length control protein FliK; InterPro: IPR021136 This entry represents the C-terminal domain of the flagellar hook-length control protein FliK. This entry also includes YscP of the Yersinia type III secretion system, and equivalent proteins in other pathogenic bacterial type III secretion systems. During flagellar morphogenesis in Salmonella typhimurium and Escherichia coli, flagellar hook-length control protein (FliK) controls the length of the hook by directly measuring the hook length [, ]. It is considered unlikely that FliK functions as a molecular ruler for determining hook length, but that it is more likely to be employing a novel mechanism. The deduced amino acid sequences of FliK proteins from S. typhimurium and E. coli have molecular masses of 41,748 and 39,246 Da, respectively, and are fairly hydrophilic []. Sequence comparison reveals around 50% identity, with greatest conservation in the C-terminal region, with 71% identity in the last 154 amino acids - mutagenesis of this conserved region completely abolishes motility. The central and C-terminal regions are rich in proline and glutamine respectively; it is thought that they may constitute distinct domains [].; PDB: 2RRL_A.
Probab=21.57 E-value=2.6e+02 Score=19.07 Aligned_cols=44 Identities=7% Similarity=-0.038 Sum_probs=29.8
Q ss_pred CCeeEEeeCCeEEEEEEeccccChHHHHHHHHHHHHHHhcCCCC
Q 027807 126 IHLNPFEWDSHCVAVRKFSGFAIDEVIVKEADNLSFSLRRSPWA 169 (218)
Q Consensus 126 ~~V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L~~~L~~~g~~ 169 (218)
-.|+|...++..-.-....--.+-+.++++..+|++.|...|+.
T Consensus 27 v~v~l~~~~~~l~v~~~~~~~~~~~~L~~~~~~L~~~L~~~G~~ 70 (85)
T PF02120_consen 27 VEVKLRLQGGNLSVQFTAENPETKELLRQNLPELKERLQAQGLE 70 (85)
T ss_dssp EEEEEEEETTEEEEEEE--SSHHHHHHHHTHHHHHHHHHTTT-E
T ss_pred EEEEEEEeCCEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCC
Confidence 35777666663333333333457889999999999999999976
No 20
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=20.89 E-value=1.8e+02 Score=17.91 Aligned_cols=25 Identities=16% Similarity=0.199 Sum_probs=21.5
Q ss_pred EeccccChHHHHHHHHHHHHHHhcC
Q 027807 142 KFSGFAIDEVIVKEADNLSFSLRRS 166 (218)
Q Consensus 142 ~F~G~~t~~~~~~~~~~L~~~L~~~ 166 (218)
.-+||.|..++.+.+.++...|..+
T Consensus 20 ~k~GF~TkkeA~~~~~~~~~~~~~g 44 (46)
T PF14657_consen 20 TKRGFKTKKEAEKALAKIEAELENG 44 (46)
T ss_pred EcCCCCcHHHHHHHHHHHHHHHHcC
Confidence 4499999999999999999888754
No 21
>KOG0417 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.32 E-value=1.3e+02 Score=24.06 Aligned_cols=26 Identities=19% Similarity=0.635 Sum_probs=20.2
Q ss_pred cCCCCCccceEEEEEEecCCCCCCCC
Q 027807 95 PGAGPLHSYAYVVTLYLPDKFQSDPP 120 (218)
Q Consensus 95 ~~~~~~~~~~~t~sf~lP~~~~~~~P 120 (218)
|.++|-.++.|.+.+++|.+|--.||
T Consensus 40 P~~SpYEgG~F~l~I~~p~~YP~~PP 65 (148)
T KOG0417|consen 40 PPGSPYEGGVFFLEIHFPEDYPFKPP 65 (148)
T ss_pred CCCCCcCCCEEEEEEECCCCCCCCCC
Confidence 33455567899999999999976666
No 22
>PF07157 DNA_circ_N: DNA circularisation protein N-terminus; InterPro: IPR009826 This entry represents the N terminus (approximately 100 residues) of a number of phage DNA circulation proteins.
Probab=20.28 E-value=79 Score=23.28 Aligned_cols=39 Identities=10% Similarity=0.020 Sum_probs=27.9
Q ss_pred eeEEeeCCeEEEEEEeccccChHHHHHHHHHHHHHHhcCC
Q 027807 128 LNPFEWDSHCVAVRKFSGFAIDEVIVKEADNLSFSLRRSP 167 (218)
Q Consensus 128 V~i~~~p~~~v~v~~F~G~~t~~~~~~~~~~L~~~L~~~g 167 (218)
..+++.. +..-..++.++...++...+.++|.++|+..|
T Consensus 39 ~~vEDlG-~~~r~~~~~a~~~G~dy~~~~~~L~~al~~~G 77 (93)
T PF07157_consen 39 PWVEDLG-RKARRIRVTAFFVGDDYEAQRDALIAALEAPG 77 (93)
T ss_pred cCeeecC-CCCcEEEEEEEEECCcHHHHHHHHHHHHcCCC
Confidence 4444443 22223467777778899999999999999886
Done!