Query 027241
Match_columns 226
No_of_seqs 125 out of 485
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 07:02:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027241.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027241hhsearch_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 8.8E-56 1.9E-60 367.4 16.0 175 30-222 1-176 (176)
2 PRK10016 DNA gyrase inhibitor; 97.4 0.019 4.1E-07 46.2 16.5 152 44-224 2-155 (156)
3 PF06445 GyrI-like: GyrI-like 97.0 0.065 1.4E-06 41.1 14.8 152 44-222 2-155 (155)
4 COG3449 DNA gyrase inhibitor [ 95.5 0.8 1.7E-05 37.5 13.7 148 44-221 2-149 (154)
5 COG3449 DNA gyrase inhibitor [ 93.5 0.35 7.6E-06 39.6 7.1 58 148-209 2-59 (154)
6 PRK10016 DNA gyrase inhibitor; 92.0 1.3 2.7E-05 35.4 8.5 68 148-221 2-71 (156)
7 smart00871 AraC_E_bind Bacteri 90.4 6.3 0.00014 29.9 16.5 156 45-222 2-158 (158)
8 PF06445 GyrI-like: GyrI-like 88.5 1.7 3.7E-05 33.0 6.3 72 148-222 2-74 (155)
9 smart00871 AraC_E_bind Bacteri 77.4 12 0.00025 28.3 6.9 61 148-208 1-61 (158)
10 COG4978 Transcriptional regula 64.7 38 0.00082 27.6 7.3 145 45-222 5-152 (153)
11 PRK15121 right oriC-binding tr 52.8 63 0.0014 28.3 7.3 88 126-223 195-289 (289)
12 COG4978 Transcriptional regula 47.1 1.6E+02 0.0034 24.0 8.6 43 147-190 3-45 (153)
13 COG3708 Uncharacterized protei 38.4 2.2E+02 0.0047 23.2 11.1 70 148-224 85-157 (157)
14 PF10738 Lpp-LpqN: Probable li 33.4 2.1E+02 0.0045 23.8 7.0 60 125-184 29-96 (175)
15 PF05127 Helicase_RecD: Helica 28.0 39 0.00084 28.2 1.8 44 52-100 115-160 (177)
16 PHA00159 endonuclease I 26.9 93 0.002 25.2 3.6 46 179-224 22-69 (148)
17 PF08584 Ribonuc_P_40: Ribonuc 21.8 4E+02 0.0087 23.6 7.2 58 157-220 211-269 (284)
18 PF00735 Septin: Septin; Inte 20.9 1.4E+02 0.0031 26.5 4.1 46 31-86 198-251 (281)
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=8.8e-56 Score=367.42 Aligned_cols=175 Identities=42% Similarity=0.656 Sum_probs=136.6
Q ss_pred CCCCCCeEEEEecCCeEEEEeCCceEEEEEcCCCCccChhhhhHHHHHHHHhhccCCCCCcccCCCCcEEEEEecCCCcc
Q 027241 30 DLETVKFKVLSRRGQYEIREVESYFIAETTMPGRTGFDLNGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEK 109 (226)
Q Consensus 30 ~~E~P~Y~vl~~~~~yEiR~Y~~~~wa~t~v~~~~~~~~~a~~~gF~~L~~YI~G~N~~~~ki~MT~PV~~~~~~~~~~~ 109 (226)
++|||+|+||++.++||||+|++++||||++.+++. ..|...||++|++||+|+|+++++|+||+||++++.+
T Consensus 1 ~~E~P~Y~v~~~~~~~EiR~Y~~~~w~~t~~~~~~~--~~a~~~~f~~L~~Yi~G~N~~~~ki~mT~PV~~~~~~----- 73 (176)
T PF04832_consen 1 DIECPPYEVLKKGDDYEIRRYPPAKWASTTVSGCSF--EEASSSGFRRLFRYIFGKNSAGEKIAMTAPVLTQVIP----- 73 (176)
T ss_dssp --BS-SEEEECCCSSCEEEEE--CEEEEEEEECS-H--HHHHHHHHHHHHHHHCT-CTT------BS-EEEEEEE-----
T ss_pred CCcCCCeEEEEeCCCEEEEEECCceEEEEEecCCCh--hHHHHHHHHHHHHHHhcCCcccceeeccCCEEEEEEc-----
Confidence 579999999999999999999999999999987442 2477899999999999999999999999999999843
Q ss_pred cccccccccccccCCCeEEEEEEeecCCC-CCCCCCCCCCeEEEEeCCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCC
Q 027241 110 MEMTTPVISKKLEDQDKWQMSFVMPSKYG-ANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDR 188 (226)
Q Consensus 110 i~mt~pv~~~~~~~~~~~tmsF~lP~~~~-~~pP~P~d~~V~i~~~p~~~vav~~F~G~~~~~~~~~~~~~L~~~L~~~g 188 (226)
|++. +|++.++|||+||++|| ++||+|+|++|+|+++|++++||++|+|++++.++.+++++|+++|+++|
T Consensus 74 --~~~~------~~~~~~t~~f~lP~~~~~~~~P~P~d~~V~i~~~p~~~~~v~~F~G~~~~~~~~~~~~~L~~~L~~~g 145 (176)
T PF04832_consen 74 --MTAE------SCEKEYTMSFFLPSEYQAENPPKPTDPDVFIEEVPERTVYVRRFSGFATDEKIQEEAKKLRAALKKDG 145 (176)
T ss_dssp --TTTT------TCECEEEEEEE--HHHC-TS---BSSTTEEEEEC-SEEEEEEEECS--SHHHHHHHHHHHHHHCCCTT
T ss_pred --CCCc------ccCCcEEEEEEcCcccccccCCCCCCCeEEEEEecCcEEEEEEECCcCCHHHHHHHHHHHHHHHHHcC
Confidence 3331 25779999999999999 89999999999999999999999999999999999999999999999999
Q ss_pred CcceecCCcEEEEEeCCCCCCCCCCeeeEEEEee
Q 027241 189 QFRVKEGASVEVAQYNPPFTLPFTRRNEIALEVE 222 (226)
Q Consensus 189 ~~~~~~~~~~~~A~Yd~P~~~~~~R~NEV~i~v~ 222 (226)
+. +.+.+++|+||+||+++++|||||||+|+
T Consensus 146 ~~---~~~~~~~a~Yd~P~~~~~~R~NEV~i~v~ 176 (176)
T PF04832_consen 146 LK---DKGYYYVAGYDPPFTPPFNRRNEVWIPVK 176 (176)
T ss_dssp HH---CCCEEEEEESSSS-SSSSSSCEEEEEE--
T ss_pred CC---cCCCeEEEEcCCCCCCccCcceEEEEecC
Confidence 63 56789999999998888999999999986
No 2
>PRK10016 DNA gyrase inhibitor; Provisional
Probab=97.44 E-value=0.019 Score=46.16 Aligned_cols=152 Identities=17% Similarity=0.178 Sum_probs=94.9
Q ss_pred CeEEEEeCCceEEEEEcCCCCccChhhhhHHHHHHHHhhccCCCCCcccCCCCcEEEEEecCCCcccccccccccccccC
Q 027241 44 QYEIREVESYFIAETTMPGRTGFDLNGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLED 123 (226)
Q Consensus 44 ~yEiR~Y~~~~wa~t~v~~~~~~~~~a~~~gF~~L~~YI~G~N~~~~ki~MT~PV~~~~~~~~~~~i~mt~pv~~~~~~~ 123 (226)
+++|+..++...+.....|... +...++|.+|+.++..+|-. .+ +.+.... ++ |-......|
T Consensus 2 ~v~i~~~~~~~va~ir~~g~~~---~~~~~~~~~L~~~~~~~~l~-----~~-~~~~i~~-D~--------p~~~~~~~~ 63 (156)
T PRK10016 2 NYEIKQEQKRTIAGFHLVGPWE---QTVKQGFEQLMMWVDSHNIV-----PK-EWVAVYY-DN--------PDEVPAEKL 63 (156)
T ss_pred ceEEEEccCceEEEEEeecCch---hHHHHHHHHHHHHHHHcCCC-----CC-cEEEEEC-CC--------CCCCChHHc
Confidence 4788999999999888776421 23467899999999665532 22 2333222 11 211100111
Q ss_pred CCeEEEEEEeecCCCCCCCCCCCCCeEEEEeCCeEEEEEEeCCcCChHHHHHHHHH-HHHHHhcCCCcceecCCcEEEEE
Q 027241 124 QDKWQMSFVMPSKYGANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELK-LRDALKGDRQFRVKEGASVEVAQ 202 (226)
Q Consensus 124 ~~~~tmsF~lP~~~~~~pP~P~d~~V~i~~~p~~~vav~~F~G~~~~~~~~~~~~~-L~~~L~~~g~~~~~~~~~~~~A~ 202 (226)
.+-++.-+|.... .| +.+..+.+..+|+.++||..+.|. -+.+.+-... +.+||..+|.. . .+++ .+--
T Consensus 64 --R~d~~i~v~~~~~--~~-~~~~~~~~~~ip~g~yAv~~~~G~--~~~l~~~~~~i~~~Wl~~sgy~-~-~~~p-~~E~ 133 (156)
T PRK10016 64 --RCDTVVTVPDDFV--LP-ENSEGVILTEIPGGQYAVAVARVV--DDDFAKPWYQFFNSLLQDSAYQ-M-APKP-CFEV 133 (156)
T ss_pred --eeeEEEEeCCCcc--cC-CCCCCeEEEEECCCcEEEEEEECC--HHHHHHHHHHHHHHhchhcCCc-c-CCCC-CEEE
Confidence 4778889986542 22 233479999999999999999994 4456666656 77999999953 1 2233 3344
Q ss_pred e-CCCCCCCCCCeeeEEEEeecc
Q 027241 203 Y-NPPFTLPFTRRNEIALEVERK 224 (226)
Q Consensus 203 Y-d~P~~~~~~R~NEV~i~v~~~ 224 (226)
| +.|... -.-.=||||+|+.+
T Consensus 134 Y~~~~~~~-~~~~tei~iPI~~~ 155 (156)
T PRK10016 134 YLNDGAED-GYWDIEMYVPVQKK 155 (156)
T ss_pred eCCCCCCC-CcEEEEEEEEeEEC
Confidence 5 345432 22235999999853
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=97.00 E-value=0.065 Score=41.08 Aligned_cols=152 Identities=14% Similarity=0.133 Sum_probs=96.1
Q ss_pred CeEEEEeCCceEEEEEcCCCCccChhh-hhHHHHHHHHhhccCCCCCcccCCCCcEEEEEecCCCccccccccccccccc
Q 027241 44 QYEIREVESYFIAETTMPGRTGFDLNG-ASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLE 122 (226)
Q Consensus 44 ~yEiR~Y~~~~wa~t~v~~~~~~~~~a-~~~gF~~L~~YI~G~N~~~~ki~MT~PV~~~~~~~~~~~i~mt~pv~~~~~~ 122 (226)
+++|+.-++...+.....+... ... ....+.+|..++.-.+-.. ...+.+......... . ..
T Consensus 2 ~~~i~~~p~~~v~~~~~~~~~~--~~~~i~~~~~~l~~~~~~~~~~~----~~~~~~~i~~~~~~~--------~---~~ 64 (155)
T PF06445_consen 2 EVEIVTLPAFRVAGIRRKGPYE--EEDSIPELWQRLMSWLKEIGLST----DPGPIIGIYYDNPNI--------T---DD 64 (155)
T ss_dssp CEEEEEEEEEEEEEEEEEEEHH--HHHHHHHHHHHHHHHHHHHHHCC----SSSSEEEEEEECCTS--------S---TG
T ss_pred CcEEEEECCEEEEEEEEEECCc--hhhhHHHHHHHHHHHHHHhhccc----CCCcceeEEeccccc--------c---CC
Confidence 4788888888888877655211 111 4567888888884332111 455555544332110 0 00
Q ss_pred CCCeEEEEEEeecCCCCCCCCCCCCCeEEEEeCCeEEEEEEeCCcCChHHHHHHHHHHHH-HHhcCCCcceecCCcEEEE
Q 027241 123 DQDKWQMSFVMPSKYGANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRD-ALKGDRQFRVKEGASVEVA 201 (226)
Q Consensus 123 ~~~~~tmsF~lP~~~~~~pP~P~d~~V~i~~~p~~~vav~~F~G~~~~~~~~~~~~~L~~-~L~~~g~~~~~~~~~~~~A 201 (226)
..-.+.+++.++... +....+.+..+|+..+++..|.|-. +.+.+....|.. ||.++|.. ...+..+-.
T Consensus 65 ~~~~~~~~~~~~~~~------~~~~~~~~~~ip~g~ya~~~~~G~~--~~l~~~~~~l~~~~l~~~g~~--~~~~~~~E~ 134 (155)
T PF06445_consen 65 EEFRYDIGVEVDEDV------PNPDGMESRTIPAGKYAVFEHKGPY--DDLQEAYQKLYNEWLPESGYE--RRDGPDFEI 134 (155)
T ss_dssp CEEEEEEEEEECTTC------SGCTTSEEEEEECEEEEEEEEESCG--HGHHHHHHHHHHCHHHHCTCE--EESSEEEEE
T ss_pred cceEEEEEEEEcccc------cCCceEEEEEEcCcEEEEEEEEccH--HHHHHHHHHHHhhhHHHCCCc--cCCCCcEEE
Confidence 122455555555433 4557888999999999999999977 778888899999 99999973 233444444
Q ss_pred EeCCCCCCCCCCeeeEEEEee
Q 027241 202 QYNPPFTLPFTRRNEIALEVE 222 (226)
Q Consensus 202 ~Yd~P~~~~~~R~NEV~i~v~ 222 (226)
..+.|...+-.-.=||||+|+
T Consensus 135 y~~~~~~~~~~~~~ei~iPik 155 (155)
T PF06445_consen 135 YLNDPDTDEEEYVTEIYIPIK 155 (155)
T ss_dssp EESSTTTTSCGEEEEEEEEEE
T ss_pred ECCCCCCCCCceEEEEEEEEC
Confidence 445655333456679999986
No 4
>COG3449 DNA gyrase inhibitor [DNA replication, recombination, and repair]
Probab=95.53 E-value=0.8 Score=37.52 Aligned_cols=148 Identities=17% Similarity=0.170 Sum_probs=93.5
Q ss_pred CeEEEEeCCceEEEEEcCCCCccChhhhhHHHHHHHHhhccCCCCCcccCCCCcEEEEEecCCCcccccccccccccccC
Q 027241 44 QYEIREVESYFIAETTMPGRTGFDLNGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLED 123 (226)
Q Consensus 44 ~yEiR~Y~~~~wa~t~v~~~~~~~~~a~~~gF~~L~~YI~G~N~~~~ki~MT~PV~~~~~~~~~~~i~mt~pv~~~~~~~ 123 (226)
+++|+..++..+|.-...|. ..-..++|.+|+.+-.-++-- +-+ ..+..+..++.+ .|.| .
T Consensus 2 dv~I~e~p~~~VA~~rh~G~----~~~~~~~~~~l~~W~~~~~l~----p~~-S~~~gI~~ddP~---~Tp~-------e 62 (154)
T COG3449 2 DVEIIELPPIPVAYLRHVGD----PATLKQTFEQLIAWRRENGLL----PEQ-SETLGIYQDDPD---TTPA-------E 62 (154)
T ss_pred CceEEecCCceEEEEEeeCc----HHHHHHHHHHHHHHHHHcCCC----CCC-ceEEEEecCCCC---CCCH-------H
Confidence 68999999999998877662 233568999999999765532 122 233333333311 1111 1
Q ss_pred CCeEEEEEEeecCCCCCCCCCCCCCeEEEEeCCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEe
Q 027241 124 QDKWQMSFVMPSKYGANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQY 203 (226)
Q Consensus 124 ~~~~tmsF~lP~~~~~~pP~P~d~~V~i~~~p~~~vav~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Y 203 (226)
+=.+-.|..+|... .+++..|..-++|+..+||.+|.|.. +.--+.-..-...||.+.|.. ..+.+.+.+|
T Consensus 63 ~~R~D~cv~v~~~~-----~~n~~~v~~~~i~GG~YAV~r~~~~~-d~~~~aw~~if~ewlp~Sg~~---~~d~P~~e~y 133 (154)
T COG3449 63 KCRYDACVVVPEPI-----PENSEGVQLGEIPGGLYAVARFRGTA-DDLAKAWGYIFGEWLPASGYE---PRDRPILERY 133 (154)
T ss_pred HceeeEEEEcCCcc-----CCCCCceeEeeecCCceEEEEEeccH-HHHHHHHHHHHhhhccccCcc---cCCCchHHHH
Confidence 22677888888322 24667899999999999999999954 333344445566778888853 4566778888
Q ss_pred CCCCCCCCCCeeeEEEEe
Q 027241 204 NPPFTLPFTRRNEIALEV 221 (226)
Q Consensus 204 d~P~~~~~~R~NEV~i~v 221 (226)
=+.... .-..|+.+.+
T Consensus 134 ~n~~~~--~~~~e~~vdi 149 (154)
T COG3449 134 LNFPAE--DPEHEIEVDI 149 (154)
T ss_pred hccCCC--CcceeEEEEE
Confidence 444333 3344544443
No 5
>COG3449 DNA gyrase inhibitor [DNA replication, recombination, and repair]
Probab=93.53 E-value=0.35 Score=39.62 Aligned_cols=58 Identities=21% Similarity=0.140 Sum_probs=48.5
Q ss_pred CeEEEEeCCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCCC
Q 027241 148 SVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFTL 209 (226)
Q Consensus 148 ~V~i~~~p~~~vav~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P~~~ 209 (226)
+|.|.+.|+..||..+-.| ....+.+-..+|.+|.+++|+.. ..+..+.-.||.|-..
T Consensus 2 dv~I~e~p~~~VA~~rh~G--~~~~~~~~~~~l~~W~~~~~l~p--~~S~~~gI~~ddP~~T 59 (154)
T COG3449 2 DVEIIELPPIPVAYLRHVG--DPATLKQTFEQLIAWRRENGLLP--EQSETLGIYQDDPDTT 59 (154)
T ss_pred CceEEecCCceEEEEEeeC--cHHHHHHHHHHHHHHHHHcCCCC--CCceEEEEecCCCCCC
Confidence 7999999999999999999 78889999999999999999852 3455666677888643
No 6
>PRK10016 DNA gyrase inhibitor; Provisional
Probab=91.96 E-value=1.3 Score=35.43 Aligned_cols=68 Identities=18% Similarity=0.140 Sum_probs=50.4
Q ss_pred CeEEEEeCCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCC--CCCCCCCeeeEEEEe
Q 027241 148 SVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPP--FTLPFTRRNEIALEV 221 (226)
Q Consensus 148 ~V~i~~~p~~~vav~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P--~~~~~~R~NEV~i~v 221 (226)
+|.|.++|+..++.++..|-..+ .+.+...+|.+++.++|+. .. .++...||.| ... -.-|-.|.|.+
T Consensus 2 ~v~i~~~~~~~va~ir~~g~~~~-~~~~~~~~L~~~~~~~~l~---~~-~~~~i~~D~p~~~~~-~~~R~d~~i~v 71 (156)
T PRK10016 2 NYEIKQEQKRTIAGFHLVGPWEQ-TVKQGFEQLMMWVDSHNIV---PK-EWVAVYYDNPDEVPA-EKLRCDTVVTV 71 (156)
T ss_pred ceEEEEccCceEEEEEeecCchh-HHHHHHHHHHHHHHHcCCC---CC-cEEEEECCCCCCCCh-HHceeeEEEEe
Confidence 58999999999999999996643 4778889999999999974 23 3677888999 443 23244444443
No 7
>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=90.42 E-value=6.3 Score=29.87 Aligned_cols=156 Identities=13% Similarity=0.145 Sum_probs=84.0
Q ss_pred eEEEEeCCceEEEEEcCCCCccChhhhhHHHHHHHHhhccCCCCCcccCCCCcEEEEEecCCCcccccccccccccccCC
Q 027241 45 YEIREVESYFIAETTMPGRTGFDLNGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLEDQ 124 (226)
Q Consensus 45 yEiR~Y~~~~wa~t~v~~~~~~~~~a~~~gF~~L~~YI~G~N~~~~ki~MT~PV~~~~~~~~~~~i~mt~pv~~~~~~~~ 124 (226)
+++..-++...+.....+... + ....+.|.+|+.++...+....... .+++.......... + ...
T Consensus 2 ~~i~~~~~~~v~~~~~~~~~~-~-~~i~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~-----~------~~~ 66 (158)
T smart00871 2 VRIVELPAFKVAGLRHRGPYE-E-EKIPELWQRLIAWAKELGLLPIGPS--GPPYGVYYDDPDDT-----P------EGE 66 (158)
T ss_pred CEEEEcCCceEEEEEeecCcc-c-ccHHHHHHHHHHHHHHcCCCCCCCC--ccEEEEECCCCCCC-----C------hhH
Confidence 344455556666555544221 1 1235678888888865543322211 23333221111100 0 011
Q ss_pred CeEEEEEEeecCCCCCCCCCCCCCeEEEEeCCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeC
Q 027241 125 DKWQMSFVMPSKYGANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYN 204 (226)
Q Consensus 125 ~~~tmsF~lP~~~~~~pP~P~d~~V~i~~~p~~~vav~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd 204 (226)
-.+.+++.++.... ....+.+..+|+..+++..|.| ...+.+.+-..+|..++..+|.....+.+..+--.++
T Consensus 67 ~~~~~g~~v~~~~~------~~~~~~~~~~p~~~y~~~~~~g-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~E~y~~ 139 (158)
T smart00871 67 FRYDAGVEVSDEVE------NPEGVETKEIPAGKYAVFTHKG-GSYDEIQETWEAIYGEWLPNSGYELRDAGPDFEIYLN 139 (158)
T ss_pred eEEEEEEEeCCCCC------CCCCceEEEECCCcEEEEEEcC-CCHHHHHHHHHHHHHhhcccCCCccCcCCceEEEEeC
Confidence 24556666664311 2246888999999999999999 3467789999999999988775321112333333345
Q ss_pred CCCC-CCCCCeeeEEEEee
Q 027241 205 PPFT-LPFTRRNEIALEVE 222 (226)
Q Consensus 205 ~P~~-~~~~R~NEV~i~v~ 222 (226)
.|.. .+-...=|++|+|+
T Consensus 140 ~~~~~~~~~~~~ei~ipv~ 158 (158)
T smart00871 140 DPADTDPEELVTEIYIPIK 158 (158)
T ss_pred CCCCCChhHeEEEEEEEcC
Confidence 5532 11234668888874
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=88.55 E-value=1.7 Score=33.03 Aligned_cols=72 Identities=21% Similarity=0.132 Sum_probs=55.4
Q ss_pred CeEEEEeCCeEEEEEEeCCcCChHH-HHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCCCCCCCeeeEEEEee
Q 027241 148 SVRIKEVPKKVVAVVAFSGFVTDED-VKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFTLPFTRRNEIALEVE 222 (226)
Q Consensus 148 ~V~i~~~p~~~vav~~F~G~~~~~~-~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P~~~~~~R~NEV~i~v~ 222 (226)
+|+|.++|+++++..+..|-..+.. +.+...+|.+++...++.. ....++..-||.|... ......+++-+.
T Consensus 2 ~~~i~~~p~~~v~~~~~~~~~~~~~~i~~~~~~l~~~~~~~~~~~--~~~~~~~i~~~~~~~~-~~~~~~~~~~~~ 74 (155)
T PF06445_consen 2 EVEIVTLPAFRVAGIRRKGPYEEEDSIPELWQRLMSWLKEIGLST--DPGPIIGIYYDNPNIT-DDEEFRYDIGVE 74 (155)
T ss_dssp CEEEEEEEEEEEEEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHCC--SSSSEEEEEEECCTSS-TGCEEEEEEEEE
T ss_pred CcEEEEECCEEEEEEEEEECCchhhhHHHHHHHHHHHHHHhhccc--CCCcceeEEecccccc-CCcceEEEEEEE
Confidence 5899999999999999999887777 8999999999999987531 3456777788888543 356666655444
No 9
>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=77.45 E-value=12 Score=28.34 Aligned_cols=61 Identities=21% Similarity=0.148 Sum_probs=44.8
Q ss_pred CeEEEEeCCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCC
Q 027241 148 SVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFT 208 (226)
Q Consensus 148 ~V~i~~~p~~~vav~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P~~ 208 (226)
.+.|..+|+..++..+..|...+..+.+...+|.+++...+.......+..+...|+.|..
T Consensus 1 ~~~i~~~~~~~v~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (158)
T smart00871 1 EVRIVELPAFKVAGLRHRGPYEEEKIPELWQRLIAWAKELGLLPIGPSGPPYGVYYDDPDD 61 (158)
T ss_pred CCEEEEcCCceEEEEEeecCcccccHHHHHHHHHHHHHHcCCCCCCCCccEEEEECCCCCC
Confidence 3678999999999999999887556777888898998887753111123566777777764
No 10
>COG4978 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]
Probab=64.68 E-value=38 Score=27.59 Aligned_cols=145 Identities=17% Similarity=0.226 Sum_probs=83.4
Q ss_pred eEEEEeCCceEEEEEcCCCCccChhhhhHHHHHHHHhhccCCCCCcccCCCCcEEEEEecCCCcccccccccccccccCC
Q 027241 45 YEIREVESYFIAETTMPGRTGFDLNGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLEDQ 124 (226)
Q Consensus 45 yEiR~Y~~~~wa~t~v~~~~~~~~~a~~~gF~~L~~YI~G~N~~~~ki~MT~PV~~~~~~~~~~~i~mt~pv~~~~~~~~ 124 (226)
..+...++.+.+.....+. ........+..|.++.+-++. +.+ .|......-. ++.. .+
T Consensus 5 ~~~~~~~~~~v~~ir~~~~---~~~~~~~~~~el~~~~~~~~~----~~~-~~~~~~~~~~---------~~~~----~~ 63 (153)
T COG4978 5 VVIKKLEEIKVVGIRFTGI---PERLIEQVYSELCNFLKSNGI----IPI-GPYGATIFHE---------PLKE----ED 63 (153)
T ss_pred cEEEeecceeEEEEEEecC---cHHHHHHHHHHHHHHHhhcCc----ccc-CCceEEEEee---------eecc----cc
Confidence 4566677777777766542 223446788899988854431 111 1222222110 1100 01
Q ss_pred CeEEEEEEeecCCCCCCCCCCCCCeEEEEeCCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEe-
Q 027241 125 DKWQMSFVMPSKYGANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQY- 203 (226)
Q Consensus 125 ~~~tmsF~lP~~~~~~pP~P~d~~V~i~~~p~~~vav~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Y- 203 (226)
-..-+++++=... + .|.++.+...|+.+++...|.|... .+.+.-++|..++.++|+. + .+. ...-|
T Consensus 64 ~~~~~s~~i~~~~----~--~~~~~~~~~~P~g~~a~~~~~G~~~--~~~~~y~rli~~iee~g~~-i--~g~-~~E~y~ 131 (153)
T COG4978 64 VDIEVSIPISGEV----E--GDIDIKIKTLPKGKYACIIHKGSYE--EVEQAYKRLIEYIEENGLE-I--IGP-SREVYL 131 (153)
T ss_pred cccceeEEEEEec----C--CCCcceeEEccCceEEEEEEEcCcc--cHHHHHHHHHHHHHHhCCc-c--cCc-eEEEEe
Confidence 0233444443322 2 7889999999999999999999653 4677788999999999963 2 233 34444
Q ss_pred CCCCCC--CCCCeeeEEEEee
Q 027241 204 NPPFTL--PFTRRNEIALEVE 222 (226)
Q Consensus 204 d~P~~~--~~~R~NEV~i~v~ 222 (226)
.+|.+. +-.=.=||.+.++
T Consensus 132 ~d~~~~~~~~e~~tei~i~v~ 152 (153)
T COG4978 132 IDPATEVNPEEYLTEIQIPVK 152 (153)
T ss_pred cCCccccChhHeEEEEEEEee
Confidence 455522 1223346666554
No 11
>PRK15121 right oriC-binding transcriptional activator; Provisional
Probab=52.85 E-value=63 Score=28.34 Aligned_cols=88 Identities=10% Similarity=0.119 Sum_probs=51.2
Q ss_pred eEEEEEEeecCCCCC-CCCCCCCCeEEEEeCCeEEEEEEeCCcCChHHHHHHHHHH-HHHHhcCCCcceecCCcEEEEEe
Q 027241 126 KWQMSFVMPSKYGAN-LPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKL-RDALKGDRQFRVKEGASVEVAQY 203 (226)
Q Consensus 126 ~~tmsF~lP~~~~~~-pP~P~d~~V~i~~~p~~~vav~~F~G~~~~~~~~~~~~~L-~~~L~~~g~~~~~~~~~~~~A~Y 203 (226)
.+..+.-++.....+ +| . .....+|+.++||.+|.|-..+ +.+-...+ .+||-+.|... . +.+-+-.|
T Consensus 195 ~~~y~i~v~~~~~~~~~~--~---~~~~~Ip~G~YAvF~~~G~~~~--l~~~~~~Iy~~WLP~sg~~~--~-~~p~~e~y 264 (289)
T PRK15121 195 EVFYTTALEPDQADGYVQ--T---GHPVMLQGGEYVMFTYEGLGTG--LQEFILTVYGTCMPMLNLTR--R-KGQDIERY 264 (289)
T ss_pred EEEEEEeeccccccccCC--C---CceEeeCCCCEEEEEEeCCHHH--HHHHHHHHHHHHCCCCCccc--c-CCCCEEEE
Confidence 466666655433211 12 1 2567789999999999997633 55555555 67998888631 2 22334445
Q ss_pred C----CCC-CCCCCCeeeEEEEeec
Q 027241 204 N----PPF-TLPFTRRNEIALEVER 223 (226)
Q Consensus 204 d----~P~-~~~~~R~NEV~i~v~~ 223 (226)
. .|. ..+-.-.=||||+|+.
T Consensus 265 ~~~~~~~~~~~~~~~~~ei~iPi~~ 289 (289)
T PRK15121 265 YPAEDAKAGDRPINLRCEYLIPIRR 289 (289)
T ss_pred ecccCccccCCCceEEEEEEEEecC
Confidence 2 333 2111223499999863
No 12
>COG4978 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]
Probab=47.10 E-value=1.6e+02 Score=23.99 Aligned_cols=43 Identities=21% Similarity=0.271 Sum_probs=38.6
Q ss_pred CCeEEEEeCCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCc
Q 027241 147 PSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQF 190 (226)
Q Consensus 147 ~~V~i~~~p~~~vav~~F~G~~~~~~~~~~~~~L~~~L~~~g~~ 190 (226)
-.|.+.+++++.|+.+++-|- .+..+.+-..+|.+.|...|..
T Consensus 3 ~e~~~~~~~~~~v~~ir~~~~-~~~~~~~~~~el~~~~~~~~~~ 45 (153)
T COG4978 3 VEVVIKKLEEIKVVGIRFTGI-PERLIEQVYSELCNFLKSNGII 45 (153)
T ss_pred cccEEEeecceeEEEEEEecC-cHHHHHHHHHHHHHHHhhcCcc
Confidence 468899999999999999998 7889999999999999999953
No 13
>COG3708 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.43 E-value=2.2e+02 Score=23.19 Aligned_cols=70 Identities=17% Similarity=0.302 Sum_probs=47.7
Q ss_pred CeEEEEeCCeEEEEEEeCCcCChHHHHHHHHHH-HHHHhcCCCcceecCCcEEEEEeCC--CCCCCCCCeeeEEEEeecc
Q 027241 148 SVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKL-RDALKGDRQFRVKEGASVEVAQYNP--PFTLPFTRRNEIALEVERK 224 (226)
Q Consensus 148 ~V~i~~~p~~~vav~~F~G~~~~~~~~~~~~~L-~~~L~~~g~~~~~~~~~~~~A~Yd~--P~~~~~~R~NEV~i~v~~~ 224 (226)
.....++|+.+++|-...|-..+ +++--..+ ..++...+... ..+. .+=.||. |... +=.=||||+|+.+
T Consensus 85 ~~~~i~iPa~~YavFt~~G~~~~--i~etw~~I~~~~~~~~~~~~--~~~~-~fE~Yd~~~~~~~--~~~veIyIpV~kk 157 (157)
T COG3708 85 GMEVIEIPASTYAVFTHKGPIEE--IQETWQEIWKEWFPSSGYRH--AEGP-EFEVYDERDPDSG--NGKVEIYIPVKKK 157 (157)
T ss_pred CceEEEeccceEEEEEecCCHHH--HHHHHHHHHHhhcccccccc--cCCC-ceEEecCCCCCCC--CceEEEEEEEecC
Confidence 34567899999999999997766 55555554 44567777532 2333 6777865 3443 6778999999753
No 14
>PF10738 Lpp-LpqN: Probable lipoprotein LpqN; InterPro: IPR019674 This protein is conserved in Mycobacteriaceae and is likely to be a lipoprotein [].
Probab=33.35 E-value=2.1e+02 Score=23.81 Aligned_cols=60 Identities=18% Similarity=0.142 Sum_probs=41.7
Q ss_pred CeEEEEEEeecCCCC-CCCCCCCCCeEE-------EEeCCeEEEEEEeCCcCChHHHHHHHHHHHHHH
Q 027241 125 DKWQMSFVMPSKYGA-NLPLPKDPSVRI-------KEVPKKVVAVVAFSGFVTDEDVKRRELKLRDAL 184 (226)
Q Consensus 125 ~~~tmsF~lP~~~~~-~pP~P~d~~V~i-------~~~p~~~vav~~F~G~~~~~~~~~~~~~L~~~L 184 (226)
..-+|++-+|..|+. ..|.|.+.-..| ...|...+.|.+..|-....++.+++..=.+.|
T Consensus 29 ~~p~v~lP~P~GW~~~~~~~~~~a~~vi~~~~~~~~~~Pnavv~V~kL~G~~Dp~e~l~~a~~d~~~l 96 (175)
T PF10738_consen 29 GAPTVSLPTPPGWEPAPDPNPPWAYAVIVDPQADGGFPPNAVVTVSKLTGDFDPAEALEHAPADAQNL 96 (175)
T ss_pred CCCEEeccCCcCcccCCCCCCCceEEEEEeccccCCCCCceEEEEEeccCCCCHHHHHHhchhhHhhC
Confidence 457899999999984 233333333444 335678889999999998888877775555554
No 15
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=28.02 E-value=39 Score=28.21 Aligned_cols=44 Identities=20% Similarity=0.350 Sum_probs=26.0
Q ss_pred CceEEEEEcCCCCccChhhhhHHH-HHHHHhhccCCC-CCcccCCCCcEEE
Q 027241 52 SYFIAETTMPGRTGFDLNGASRSF-NVLAEYLFGKNT-KRETMEMTTPVIT 100 (226)
Q Consensus 52 ~~~wa~t~v~~~~~~~~~a~~~gF-~~L~~YI~G~N~-~~~ki~MT~PV~~ 100 (226)
+....+||+.| ++++..|| -|+..++..... .-..+.|+.|+.-
T Consensus 115 ~~vv~stTi~G-----YEGtGRgF~lkf~~~L~~~~~~~~~~~~L~~PIR~ 160 (177)
T PF05127_consen 115 PRVVFSTTIHG-----YEGTGRGFSLKFLKQLKKHRPRNWRELELSEPIRY 160 (177)
T ss_dssp SEEEEEEEBSS-----TTBB-HHHHHHHHCT----ST-TEEEEE--S-SSS
T ss_pred CEEEEEeeccc-----cccCCceeeeehhhhccccCCCccEEEEcCCCccC
Confidence 44566788876 36778899 889999976654 4578888888864
No 16
>PHA00159 endonuclease I
Probab=26.93 E-value=93 Score=25.22 Aligned_cols=46 Identities=17% Similarity=0.070 Sum_probs=29.7
Q ss_pred HHHHHHhcCCCcceecCCcEEEE--EeCCCCCCCCCCeeeEEEEeecc
Q 027241 179 KLRDALKGDRQFRVKEGASVEVA--QYNPPFTLPFTRRNEIALEVERK 224 (226)
Q Consensus 179 ~L~~~L~~~g~~~~~~~~~~~~A--~Yd~P~~~~~~R~NEV~i~v~~~ 224 (226)
+-.+.|+..|...-++.-.+.+. .=+..++|.|.+.|.|++++++.
T Consensus 22 k~ak~Le~~gv~~~yE~~ki~y~~pA~~~~YTPDF~LpnGiiiEvKG~ 69 (148)
T PHA00159 22 KVSKQLEKKGVKFDYELWKIPYVIPASDHKYTPDFLLPNGIIIETKGL 69 (148)
T ss_pred HHHHHHHhcCCCeEeeeeeeeeeccCCCCeeCCceecCCCCEEEeccc
Confidence 45577888885311222223332 23577888899999999999864
No 17
>PF08584 Ribonuc_P_40: Ribonuclease P 40kDa (Rpp40) subunit; InterPro: IPR013893 The tRNA processing enzyme ribonuclease P (RNase P) consists of an RNA molecule and at least eight protein subunits. Subunits hpop1, Rpp21, Rpp29, Rpp30, Rpp38, and Rpp40 (this entry) are involved in extensive, but weak, protein-protein interactions in the holoenzyme complex [].
Probab=21.81 E-value=4e+02 Score=23.57 Aligned_cols=58 Identities=16% Similarity=0.264 Sum_probs=41.1
Q ss_pred eEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEe-CCCCCCCCCCeeeEEEE
Q 027241 157 KVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQY-NPPFTLPFTRRNEIALE 220 (226)
Q Consensus 157 ~~vav~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Y-d~P~~~~~~R~NEV~i~ 220 (226)
..+..++..|+.+...+.+-..+|++.+...+...+. ...+-|+ |+|..+ +.+|=-+.
T Consensus 211 ~~v~~l~w~Gflsp~~I~~Ll~~l~~~~~~~~~~~W~---alsv~GF~dsPVsw---~~~EH~~~ 269 (284)
T PF08584_consen 211 GNVVKLTWKGFLSPSWIRQLLEKLRRYFDSPKSIPWF---ALSVQGFADSPVSW---GSREHGFL 269 (284)
T ss_pred ceEEEEEEEEEeCHHHHHHHHHHHHHHhcCCCCCcEE---EEEEEecCCCcccc---ccceeecc
Confidence 6778889999999999999999999999554422111 2445566 688875 55565443
No 18
>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []. Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.
Probab=20.92 E-value=1.4e+02 Score=26.46 Aligned_cols=46 Identities=17% Similarity=0.257 Sum_probs=27.7
Q ss_pred CCCCCeEEEEecCCeEE--------EEeCCceEEEEEcCCCCccChhhhhHHHHHHHHhhccCC
Q 027241 31 LETVKFKVLSRRGQYEI--------REVESYFIAETTMPGRTGFDLNGASRSFNVLAEYLFGKN 86 (226)
Q Consensus 31 ~E~P~Y~vl~~~~~yEi--------R~Y~~~~wa~t~v~~~~~~~~~a~~~gF~~L~~YI~G~N 86 (226)
.+++||-|+.+...++. |+|+ |=.+.+....- .=|..|-+.+.|.|
T Consensus 198 ~~~~PFavi~s~~~~~~~~g~~~~gR~Yp---WG~vev~n~~h-------sDF~~Lr~~Ll~~~ 251 (281)
T PF00735_consen 198 RSMLPFAVIGSNTEIENSNGKRVRGRKYP---WGTVEVENPEH-------SDFLKLRNLLLGTH 251 (281)
T ss_dssp HHC-SEEE---SSEEEE-SSSEEEEEEET---TEEEETT-TTT-------SSHHHHHHHHHCCC
T ss_pred ccceeeEEEecceeeeccCCcEEeeeecC---Ccccccccccc-------ccHHHHHHHhhccc
Confidence 36899999998877766 8887 44455544221 23778888887766
Done!