Query 022505
Match_columns 296
No_of_seqs 133 out of 480
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 04:03:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022505.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022505hhsearch_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 4.1E-53 8.8E-58 370.1 15.8 175 100-292 1-176 (176)
2 PRK10016 DNA gyrase inhibitor; 96.9 0.12 2.5E-06 43.9 16.7 152 114-294 2-155 (156)
3 PF06445 GyrI-like: GyrI-like 96.8 0.072 1.6E-06 42.9 14.2 152 114-292 2-155 (155)
4 COG3449 DNA gyrase inhibitor [ 93.7 2.9 6.2E-05 36.7 13.5 146 114-290 2-148 (154)
5 smart00871 AraC_E_bind Bacteri 92.6 4.4 9.6E-05 32.4 16.1 156 115-292 2-158 (158)
6 COG3449 DNA gyrase inhibitor [ 91.6 0.76 1.7E-05 40.2 7.1 58 218-279 2-59 (154)
7 PRK10016 DNA gyrase inhibitor; 90.9 1.6 3.4E-05 37.0 8.4 68 218-291 2-71 (156)
8 PF06445 GyrI-like: GyrI-like 87.7 1.8 4E-05 34.5 6.2 72 218-292 2-74 (155)
9 smart00871 AraC_E_bind Bacteri 74.3 14 0.00031 29.3 6.9 61 218-278 1-61 (158)
10 COG4978 Transcriptional regula 63.0 33 0.00071 29.9 7.0 145 115-292 5-152 (153)
11 COG3708 Uncharacterized protei 48.9 1.8E+02 0.0039 25.3 10.8 89 195-294 66-157 (157)
12 PRK15121 right oriC-binding tr 45.1 70 0.0015 29.7 6.7 88 196-293 195-289 (289)
13 COG4978 Transcriptional regula 41.1 2.2E+02 0.0048 24.7 8.7 43 217-260 3-45 (153)
14 PF05924 SAMP: SAMP Motif; In 35.4 24 0.00052 20.8 1.2 15 72-86 4-18 (20)
15 PF05127 Helicase_RecD: Helica 24.7 48 0.001 29.5 1.8 45 121-170 114-160 (177)
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=4.1e-53 Score=370.10 Aligned_cols=175 Identities=42% Similarity=0.647 Sum_probs=136.4
Q ss_pred CcCCCCeEEEEecCCeEEEEeCCceEEEEEcCCCCCcCcchhhHHHHHHHHhhccCCCCCcccCCCcceEEEeecCCCcc
Q 022505 100 DLETVKFKVLSRRGQYEIREVESYFIAETMMPGRTGFDFNGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEK 179 (296)
Q Consensus 100 ~~EcP~Y~Vl~~~~~yEiR~Y~~~~wasT~v~g~s~~~~~a~~~gF~~L~~YI~G~N~~~~kI~MTaPV~t~~~~~~g~k 179 (296)
++|||+|+||++.++||||+|++++||+|++.+++. ..|...||++|++||+|+|+++++|+||+||++++.
T Consensus 1 ~~E~P~Y~v~~~~~~~EiR~Y~~~~w~~t~~~~~~~--~~a~~~~f~~L~~Yi~G~N~~~~ki~mT~PV~~~~~------ 72 (176)
T PF04832_consen 1 DIECPPYEVLKKGDDYEIRRYPPAKWASTTVSGCSF--EEASSSGFRRLFRYIFGKNSAGEKIAMTAPVLTQVI------ 72 (176)
T ss_dssp --BS-SEEEECCCSSCEEEEE--CEEEEEEEECS-H--HHHHHHHHHHHHHHHCT-CTT------BS-EEEEEE------
T ss_pred CCcCCCeEEEEeCCCEEEEEECCceEEEEEecCCCh--hHHHHHHHHHHHHHHhcCCcccceeeccCCEEEEEE------
Confidence 579999999999999999999999999999986442 236778999999999999999999999999999873
Q ss_pred cccccccccccccCCCeEEEEEEeecCCC-CCCCCCCCCCeEEEEecCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCC
Q 022505 180 MEMTTPVISKKLEDQDKWQMSFVMPSKYG-ANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDR 258 (296)
Q Consensus 180 i~mT~Pv~~~~~~~~~~~tmsF~LP~~yq-~~pP~P~d~~V~I~~~P~~~vaV~~FsG~~t~~~~~~~~~~L~~~L~~~g 258 (296)
+|++. .|++.++|+|+||.+|| ++||+|+|++|+|+++|+.++||++|+|+++++++.+++++|+++|+++|
T Consensus 73 -~~~~~------~~~~~~t~~f~lP~~~~~~~~P~P~d~~V~i~~~p~~~~~v~~F~G~~~~~~~~~~~~~L~~~L~~~g 145 (176)
T PF04832_consen 73 -PMTAE------SCEKEYTMSFFLPSEYQAENPPKPTDPDVFIEEVPERTVYVRRFSGFATDEKIQEEAKKLRAALKKDG 145 (176)
T ss_dssp -ETTTT------TCECEEEEEEE--HHHC-TS---BSSTTEEEEEC-SEEEEEEEECS--SHHHHHHHHHHHHHHCCCTT
T ss_pred -cCCCc------ccCCcEEEEEEcCcccccccCCCCCCCeEEEEEecCcEEEEEEECCcCCHHHHHHHHHHHHHHHHHcC
Confidence 23331 25789999999999999 89999999999999999999999999999999999999999999999999
Q ss_pred CcceecCCcEEEEEeCCCCCCCCCCceeEEEEee
Q 022505 259 QFRVKEGASVEVAQYNPPFTLPFTRRNEIALEVE 292 (296)
Q Consensus 259 ~~~v~~~~~~~~A~YdpP~tlp~~RrNEVwi~v~ 292 (296)
+. +.+.+++|+||+||+++++|||||||+||
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 67899999999998889999999999986
No 2
>PRK10016 DNA gyrase inhibitor; Provisional
Probab=96.90 E-value=0.12 Score=43.94 Aligned_cols=152 Identities=17% Similarity=0.189 Sum_probs=95.3
Q ss_pred CeEEEEeCCceEEEEEcCCCCCcCcchhhHHHHHHHHhhccCCCCCcccCCCcceEEEeecCCCcccccccccccccccC
Q 022505 114 QYEIREVESYFIAETMMPGRTGFDFNGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLED 193 (296)
Q Consensus 114 ~yEiR~Y~~~~wasT~v~g~s~~~~~a~~~gF~~L~~YI~G~N~~~~kI~MTaPV~t~~~~~~g~ki~mT~Pv~~~~~~~ 193 (296)
+++|+..++...+.....|... +...++|.+|+.++..+|-. .+ +.+..... + |-.+.. .
T Consensus 2 ~v~i~~~~~~~va~ir~~g~~~---~~~~~~~~~L~~~~~~~~l~-----~~-~~~~i~~D-~--------p~~~~~--~ 61 (156)
T PRK10016 2 NYEIKQEQKRTIAGFHLVGPWE---QTVKQGFEQLMMWVDSHNIV-----PK-EWVAVYYD-N--------PDEVPA--E 61 (156)
T ss_pred ceEEEEccCceEEEEEeecCch---hHHHHHHHHHHHHHHHcCCC-----CC-cEEEEECC-C--------CCCCCh--H
Confidence 4789999999999988777421 22467999999999665532 12 33332221 1 211111 1
Q ss_pred CCeEEEEEEeecCCCCCCCCCCCCCeEEEEecCeEEEEEEeCCcCChHHHHHHHHH-HHHHHhcCCCcceecCCcEEEEE
Q 022505 194 QDKWQMSFVMPSKYGANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELK-LRDALKGDRQFRVKEGASVEVAQ 272 (296)
Q Consensus 194 ~~~~tmsF~LP~~yq~~pP~P~d~~V~I~~~P~~~vaV~~FsG~~t~~~~~~~~~~-L~~~L~~~g~~~v~~~~~~~~A~ 272 (296)
+-.+-++.-+|.... .| +.+..+.+..+|+.++||..+.|. -+.+.+.-.. +.+||.++|.. . .++. .+-.
T Consensus 62 ~~R~d~~i~v~~~~~--~~-~~~~~~~~~~ip~g~yAv~~~~G~--~~~l~~~~~~i~~~Wl~~sgy~-~-~~~p-~~E~ 133 (156)
T PRK10016 62 KLRCDTVVTVPDDFV--LP-ENSEGVILTEIPGGQYAVAVARVV--DDDFAKPWYQFFNSLLQDSAYQ-M-APKP-CFEV 133 (156)
T ss_pred HceeeEEEEeCCCcc--cC-CCCCCeEEEEECCCcEEEEEEECC--HHHHHHHHHHHHHHhchhcCCc-c-CCCC-CEEE
Confidence 113778889987542 22 223479999999999999999995 4457776666 77899999963 2 2232 2333
Q ss_pred e-CCCCCCCCCCceeEEEEeecc
Q 022505 273 Y-NPPFTLPFTRRNEIALEVERK 294 (296)
Q Consensus 273 Y-dpP~tlp~~RrNEVwi~v~~~ 294 (296)
| +.|... -.-.-||||+|+.+
T Consensus 134 Y~~~~~~~-~~~~tei~iPI~~~ 155 (156)
T PRK10016 134 YLNDGAED-GYWDIEMYVPVQKK 155 (156)
T ss_pred eCCCCCCC-CcEEEEEEEEeEEC
Confidence 4 344433 22246999999853
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=96.82 E-value=0.072 Score=42.87 Aligned_cols=152 Identities=14% Similarity=0.136 Sum_probs=95.6
Q ss_pred CeEEEEeCCceEEEEEcCCCCCcCcch-hhHHHHHHHHhhccCCCCCcccCCCcceEEEeecCCCccccccccccccccc
Q 022505 114 QYEIREVESYFIAETMMPGRTGFDFNG-ASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLE 192 (296)
Q Consensus 114 ~yEiR~Y~~~~wasT~v~g~s~~~~~a-~~~gF~~L~~YI~G~N~~~~kI~MTaPV~t~~~~~~g~ki~mT~Pv~~~~~~ 192 (296)
+++|+.-++...+.....+... ..+ ....+.+|..++.-.+... ...+.+.......... + .
T Consensus 2 ~~~i~~~p~~~v~~~~~~~~~~--~~~~i~~~~~~l~~~~~~~~~~~----~~~~~~~i~~~~~~~~-----~------~ 64 (155)
T PF06445_consen 2 EVEIVTLPAFRVAGIRRKGPYE--EEDSIPELWQRLMSWLKEIGLST----DPGPIIGIYYDNPNIT-----D------D 64 (155)
T ss_dssp CEEEEEEEEEEEEEEEEEEEHH--HHHHHHHHHHHHHHHHHHHHHCC----SSSSEEEEEEECCTSS-----T------G
T ss_pred CcEEEEECCEEEEEEEEEECCc--hhhhHHHHHHHHHHHHHHhhccc----CCCcceeEEecccccc-----C------C
Confidence 5788888998888877655211 011 3467888888884322111 4555555443221100 0 0
Q ss_pred CCCeEEEEEEeecCCCCCCCCCCCCCeEEEEecCeEEEEEEeCCcCChHHHHHHHHHHHH-HHhcCCCcceecCCcEEEE
Q 022505 193 DQDKWQMSFVMPSKYGANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRD-ALKGDRQFRVKEGASVEVA 271 (296)
Q Consensus 193 ~~~~~tmsF~LP~~yq~~pP~P~d~~V~I~~~P~~~vaV~~FsG~~t~~~~~~~~~~L~~-~L~~~g~~~v~~~~~~~~A 271 (296)
..-.+.+++.++... +...++....+|+..+++..|.|-. +.+.+....|.. ||.++|+. ...+..+--
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 122445555555433 4457889999999999999999977 778889999999 99999973 233443444
Q ss_pred EeCCCCCCCCCCceeEEEEee
Q 022505 272 QYNPPFTLPFTRRNEIALEVE 292 (296)
Q Consensus 272 ~YdpP~tlp~~RrNEVwi~v~ 292 (296)
.++.|+..+-.-.-||||+|+
T Consensus 135 y~~~~~~~~~~~~~ei~iPik 155 (155)
T PF06445_consen 135 YLNDPDTDEEEYVTEIYIPIK 155 (155)
T ss_dssp EESSTTTTSCGEEEEEEEEEE
T ss_pred ECCCCCCCCCceEEEEEEEEC
Confidence 445555333467779999986
No 4
>COG3449 DNA gyrase inhibitor [DNA replication, recombination, and repair]
Probab=93.69 E-value=2.9 Score=36.68 Aligned_cols=146 Identities=16% Similarity=0.146 Sum_probs=90.8
Q ss_pred CeEEEEeCCceEEEEEcCCCCCcCcchhhHHHHHHHHhhccCCCCCcccCCCcceEEEeecCCCcccccccccccccccC
Q 022505 114 QYEIREVESYFIAETMMPGRTGFDFNGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLED 193 (296)
Q Consensus 114 ~yEiR~Y~~~~wasT~v~g~s~~~~~a~~~gF~~L~~YI~G~N~~~~kI~MTaPV~t~~~~~~g~ki~mT~Pv~~~~~~~ 193 (296)
++||+..++..+|.-.-.|. ..-..++|.+|+.|-.-++--. -+ .....+..++. -.+.. .
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----PATLKQTFEQLIAWRRENGLLP----EQ-SETLGIYQDDP--------DTTPA--E 62 (154)
T ss_pred CceEEecCCceEEEEEeeCc----HHHHHHHHHHHHHHHHHcCCCC----CC-ceEEEEecCCC--------CCCCH--H
Confidence 78999999999998887662 1234689999999996655321 12 23333433332 11111 1
Q ss_pred CCeEEEEEEeecCCCCCCCCCCCCCeEEEEecCeEEEEEEeCCcCChHHHHHHH-HHHHHHHhcCCCcceecCCcEEEEE
Q 022505 194 QDKWQMSFVMPSKYGANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRE-LKLRDALKGDRQFRVKEGASVEVAQ 272 (296)
Q Consensus 194 ~~~~tmsF~LP~~yq~~pP~P~d~~V~I~~~P~~~vaV~~FsG~~t~~~~~~~~-~~L~~~L~~~g~~~v~~~~~~~~A~ 272 (296)
+=.|-.+..+|... .+++..|..-+.|+..+||.+|.|.. +++.+-. .-+.+||...|+. ..+.+.+.+
T Consensus 63 ~~R~D~cv~v~~~~-----~~n~~~v~~~~i~GG~YAV~r~~~~~--d~~~~aw~~if~ewlp~Sg~~---~~d~P~~e~ 132 (154)
T COG3449 63 KCRYDACVVVPEPI-----PENSEGVQLGEIPGGLYAVARFRGTA--DDLAKAWGYIFGEWLPASGYE---PRDRPILER 132 (154)
T ss_pred HceeeEEEEcCCcc-----CCCCCceeEeeecCCceEEEEEeccH--HHHHHHHHHHHhhhccccCcc---cCCCchHHH
Confidence 23567778887322 23567899999999999999999954 3344444 4456777777753 455667777
Q ss_pred eCCCCCCCCCCceeEEEE
Q 022505 273 YNPPFTLPFTRRNEIALE 290 (296)
Q Consensus 273 YdpP~tlp~~RrNEVwi~ 290 (296)
|=..... .-..|+.+.
T Consensus 133 y~n~~~~--~~~~e~~vd 148 (154)
T COG3449 133 YLNFPAE--DPEHEIEVD 148 (154)
T ss_pred HhccCCC--CcceeEEEE
Confidence 7333332 234444444
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=92.62 E-value=4.4 Score=32.37 Aligned_cols=156 Identities=12% Similarity=0.113 Sum_probs=84.4
Q ss_pred eEEEEeCCceEEEEEcCCCCCcCcchhhHHHHHHHHhhccCCCCCcccCCCcceEEEeecCCCcccccccccccccccCC
Q 022505 115 YEIREVESYFIAETMMPGRTGFDFNGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLEDQ 194 (296)
Q Consensus 115 yEiR~Y~~~~wasT~v~g~s~~~~~a~~~gF~~L~~YI~G~N~~~~kI~MTaPV~t~~~~~~g~ki~mT~Pv~~~~~~~~ 194 (296)
+++..-++...+.....+... + ....+.|.+|+.++...+....... .+++........ .. ....
T Consensus 2 ~~i~~~~~~~v~~~~~~~~~~-~-~~i~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~---------~~--~~~~ 66 (158)
T smart00871 2 VRIVELPAFKVAGLRHRGPYE-E-EKIPELWQRLIAWAKELGLLPIGPS--GPPYGVYYDDPD---------DT--PEGE 66 (158)
T ss_pred CEEEEcCCceEEEEEeecCcc-c-ccHHHHHHHHHHHHHHcCCCCCCCC--ccEEEEECCCCC---------CC--ChhH
Confidence 344455555565555544221 0 1234678888888865543322211 233332211111 00 0011
Q ss_pred CeEEEEEEeecCCCCCCCCCCCCCeEEEEecCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeC
Q 022505 195 DKWQMSFVMPSKYGANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYN 274 (296)
Q Consensus 195 ~~~tmsF~LP~~yq~~pP~P~d~~V~I~~~P~~~vaV~~FsG~~t~~~~~~~~~~L~~~L~~~g~~~v~~~~~~~~A~Yd 274 (296)
-.+.+++.++... . ....+.+..+|+..+++..|.| ...+.+.+-..+|..++..+|.....+.+..+--.++
T Consensus 67 ~~~~~g~~v~~~~--~----~~~~~~~~~~p~~~y~~~~~~g-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~E~y~~ 139 (158)
T smart00871 67 FRYDAGVEVSDEV--E----NPEGVETKEIPAGKYAVFTHKG-GSYDEIQETWEAIYGEWLPNSGYELRDAGPDFEIYLN 139 (158)
T ss_pred eEEEEEEEeCCCC--C----CCCCceEEEECCCcEEEEEEcC-CCHHHHHHHHHHHHHhhcccCCCccCcCCceEEEEeC
Confidence 2344555555421 1 1246889999999999999999 3467789999999999988875422122333333345
Q ss_pred CCCC-CCCCCceeEEEEee
Q 022505 275 PPFT-LPFTRRNEIALEVE 292 (296)
Q Consensus 275 pP~t-lp~~RrNEVwi~v~ 292 (296)
.|.. .+-...-|++|+|+
T Consensus 140 ~~~~~~~~~~~~ei~ipv~ 158 (158)
T smart00871 140 DPADTDPEELVTEIYIPIK 158 (158)
T ss_pred CCCCCChhHeEEEEEEEcC
Confidence 5532 22245678998874
No 6
>COG3449 DNA gyrase inhibitor [DNA replication, recombination, and repair]
Probab=91.56 E-value=0.76 Score=40.24 Aligned_cols=58 Identities=21% Similarity=0.142 Sum_probs=48.5
Q ss_pred CeEEEEecCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCCC
Q 022505 218 SVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFTL 279 (296)
Q Consensus 218 ~V~I~~~P~~~vaV~~FsG~~t~~~~~~~~~~L~~~L~~~g~~~v~~~~~~~~A~YdpP~tl 279 (296)
+|.|++.|+..||..+-.| ....+.+-.++|.+|.+++|+. ...+....-.||.|-+.
T Consensus 2 dv~I~e~p~~~VA~~rh~G--~~~~~~~~~~~l~~W~~~~~l~--p~~S~~~gI~~ddP~~T 59 (154)
T COG3449 2 DVEIIELPPIPVAYLRHVG--DPATLKQTFEQLIAWRRENGLL--PEQSETLGIYQDDPDTT 59 (154)
T ss_pred CceEEecCCceEEEEEeeC--cHHHHHHHHHHHHHHHHHcCCC--CCCceEEEEecCCCCCC
Confidence 6999999999999999999 7888999999999999999985 23455666677888643
No 7
>PRK10016 DNA gyrase inhibitor; Provisional
Probab=90.91 E-value=1.6 Score=36.96 Aligned_cols=68 Identities=18% Similarity=0.140 Sum_probs=50.7
Q ss_pred CeEEEEecCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCC--CCCCCCCceeEEEEe
Q 022505 218 SVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPP--FTLPFTRRNEIALEV 291 (296)
Q Consensus 218 ~V~I~~~P~~~vaV~~FsG~~t~~~~~~~~~~L~~~L~~~g~~~v~~~~~~~~A~YdpP--~tlp~~RrNEVwi~v 291 (296)
+|.|+++|+..++.++..|...+ .+.+...+|.+++.++|+. .. .+....||.| ... -.-|-+|.|.+
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 23244455444
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=87.68 E-value=1.8 Score=34.52 Aligned_cols=72 Identities=21% Similarity=0.133 Sum_probs=55.5
Q ss_pred CeEEEEecCeEEEEEEeCCcCChHH-HHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCCCCCCCceeEEEEee
Q 022505 218 SVRIKEVPKKVVAVVAFSGFVTDED-VKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFTLPFTRRNEIALEVE 292 (296)
Q Consensus 218 ~V~I~~~P~~~vaV~~FsG~~t~~~-~~~~~~~L~~~L~~~g~~~v~~~~~~~~A~YdpP~tlp~~RrNEVwi~v~ 292 (296)
+|+|+++|+.+++..+..|-..+.. +.+..++|.+++...++. .....++...||.|... ......+++-+.
T Consensus 2 ~~~i~~~p~~~v~~~~~~~~~~~~~~i~~~~~~l~~~~~~~~~~--~~~~~~~~i~~~~~~~~-~~~~~~~~~~~~ 74 (155)
T PF06445_consen 2 EVEIVTLPAFRVAGIRRKGPYEEEDSIPELWQRLMSWLKEIGLS--TDPGPIIGIYYDNPNIT-DDEEFRYDIGVE 74 (155)
T ss_dssp CEEEEEEEEEEEEEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHC--CSSSSEEEEEEECCTSS-TGCEEEEEEEEE
T ss_pred CcEEEEECCEEEEEEEEEECCchhhhHHHHHHHHHHHHHHhhcc--cCCCcceeEEecccccc-CCcceEEEEEEE
Confidence 5899999999999999999887777 899999999999998753 14556777788888543 356666655544
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=74.29 E-value=14 Score=29.33 Aligned_cols=61 Identities=21% Similarity=0.148 Sum_probs=45.4
Q ss_pred CeEEEEecCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCC
Q 022505 218 SVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFT 278 (296)
Q Consensus 218 ~V~I~~~P~~~vaV~~FsG~~t~~~~~~~~~~L~~~L~~~g~~~v~~~~~~~~A~YdpP~t 278 (296)
.+.|..+|+..++..++.|...+..+.+...+|.+++...+.......+..+...|+.|..
T Consensus 1 ~~~i~~~~~~~v~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (158)
T smart00871 1 EVRIVELPAFKVAGLRHRGPYEEEKIPELWQRLIAWAKELGLLPIGPSGPPYGVYYDDPDD 61 (158)
T ss_pred CCEEEEcCCceEEEEEeecCcccccHHHHHHHHHHHHHHcCCCCCCCCccEEEEECCCCCC
Confidence 3678999999999999999887556788888899998888753111224567777777764
No 10
>COG4978 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]
Probab=63.00 E-value=33 Score=29.86 Aligned_cols=145 Identities=17% Similarity=0.206 Sum_probs=83.6
Q ss_pred eEEEEeCCceEEEEEcCCCCCcCcchhhHHHHHHHHhhccCCCCCcccCCCcceEEEeecCCCcccccccccccccccCC
Q 022505 115 YEIREVESYFIAETMMPGRTGFDFNGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLEDQ 194 (296)
Q Consensus 115 yEiR~Y~~~~wasT~v~g~s~~~~~a~~~gF~~L~~YI~G~N~~~~kI~MTaPV~t~~~~~~g~ki~mT~Pv~~~~~~~~ 194 (296)
..+..+++...+.....+. ....-.+.+..|.++.+-++. +. -.|........ ++..+ +
T Consensus 5 ~~~~~~~~~~v~~ir~~~~---~~~~~~~~~~el~~~~~~~~~----~~-~~~~~~~~~~~---------~~~~~----~ 63 (153)
T COG4978 5 VVIKKLEEIKVVGIRFTGI---PERLIEQVYSELCNFLKSNGI----IP-IGPYGATIFHE---------PLKEE----D 63 (153)
T ss_pred cEEEeecceeEEEEEEecC---cHHHHHHHHHHHHHHHhhcCc----cc-cCCceEEEEee---------eeccc----c
Confidence 4566777887877766552 222345789999999854331 11 12332222210 11100 0
Q ss_pred CeEEEEEEeecCCCCCCCCCCCCCeEEEEecCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEe-
Q 022505 195 DKWQMSFVMPSKYGANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQY- 273 (296)
Q Consensus 195 ~~~tmsF~LP~~yq~~pP~P~d~~V~I~~~P~~~vaV~~FsG~~t~~~~~~~~~~L~~~L~~~g~~~v~~~~~~~~A~Y- 273 (296)
-..-+++++=...+ .|.++.+...|..+++...|.|... .+.+.-++|..+++++|+. + .+.. ..-|
T Consensus 64 ~~~~~s~~i~~~~~------~~~~~~~~~~P~g~~a~~~~~G~~~--~~~~~y~rli~~iee~g~~-i--~g~~-~E~y~ 131 (153)
T COG4978 64 VDIEVSIPISGEVE------GDIDIKIKTLPKGKYACIIHKGSYE--EVEQAYKRLIEYIEENGLE-I--IGPS-REVYL 131 (153)
T ss_pred cccceeEEEEEecC------CCCcceeEEccCceEEEEEEEcCcc--cHHHHHHHHHHHHHHhCCc-c--cCce-EEEEe
Confidence 02234444332221 6789999999999999999999654 4677888999999999973 2 2322 3333
Q ss_pred CCCCCC--CCCCceeEEEEee
Q 022505 274 NPPFTL--PFTRRNEIALEVE 292 (296)
Q Consensus 274 dpP~tl--p~~RrNEVwi~v~ 292 (296)
.+|.+. +-.=.-||.+.++
T Consensus 132 ~d~~~~~~~~e~~tei~i~v~ 152 (153)
T COG4978 132 IDPATEVNPEEYLTEIQIPVK 152 (153)
T ss_pred cCCccccChhHeEEEEEEEee
Confidence 455421 1234556666654
No 11
>COG3708 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.88 E-value=1.8e+02 Score=25.29 Aligned_cols=89 Identities=16% Similarity=0.241 Sum_probs=55.8
Q ss_pred CeEEEEEEeecCCCCCCCCCCCCCeEEEEecCeEEEEEEeCCcCChHHHHHHHHHHHHH-HhcCCCcceecCCcEEEEEe
Q 022505 195 DKWQMSFVMPSKYGANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDA-LKGDRQFRVKEGASVEVAQY 273 (296)
Q Consensus 195 ~~~tmsF~LP~~yq~~pP~P~d~~V~I~~~P~~~vaV~~FsG~~t~~~~~~~~~~L~~~-L~~~g~~~v~~~~~~~~A~Y 273 (296)
++|+...-+.-....+.|.+ ....++|+.+++|-...|...+ +++--..+... +...+.. ...+. .+=.|
T Consensus 66 g~~~y~i~~ev~~~~~~pe~----~~~i~iPa~~YavFt~~G~~~~--i~etw~~I~~~~~~~~~~~--~~~~~-~fE~Y 136 (157)
T COG3708 66 GEFDYYIGVEVEDFEDLPEG----MEVIEIPASTYAVFTHKGPIEE--IQETWQEIWKEWFPSSGYR--HAEGP-EFEVY 136 (157)
T ss_pred CCEEEEEEEEeeccccCCCC----ceEEEeccceEEEEEecCCHHH--HHHHHHHHHHhhccccccc--ccCCC-ceEEe
Confidence 44544444443222345543 4567899999999999997766 66655555554 6777652 12333 56677
Q ss_pred CC--CCCCCCCCceeEEEEeecc
Q 022505 274 NP--PFTLPFTRRNEIALEVERK 294 (296)
Q Consensus 274 dp--P~tlp~~RrNEVwi~v~~~ 294 (296)
|. |... +=.=||||+|+.+
T Consensus 137 d~~~~~~~--~~~veIyIpV~kk 157 (157)
T COG3708 137 DERDPDSG--NGKVEIYIPVKKK 157 (157)
T ss_pred cCCCCCCC--CceEEEEEEEecC
Confidence 65 3443 6788999999753
No 12
>PRK15121 right oriC-binding transcriptional activator; Provisional
Probab=45.13 E-value=70 Score=29.72 Aligned_cols=88 Identities=10% Similarity=0.137 Sum_probs=51.3
Q ss_pred eEEEEEEeecCCCCC-CCCCCCCCeEEEEecCeEEEEEEeCCcCChHHHHHHHHHH-HHHHhcCCCcceecCCcEEEEEe
Q 022505 196 KWQMSFVMPSKYGAN-LPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKL-RDALKGDRQFRVKEGASVEVAQY 273 (296)
Q Consensus 196 ~~tmsF~LP~~yq~~-pP~P~d~~V~I~~~P~~~vaV~~FsG~~t~~~~~~~~~~L-~~~L~~~g~~~v~~~~~~~~A~Y 273 (296)
.+..+.-++.....+ .| + ....++|+.++||.+|.|-..+ +.+-...+ .+||-+.|.. ..++. -+-.|
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--LQEFILTVYGTCMPMLNLT-RRKGQ--DIERY 264 (289)
T ss_pred EEEEEEeeccccccccCC----C-CceEeeCCCCEEEEEEeCCHHH--HHHHHHHHHHHHCCCCCcc-ccCCC--CEEEE
Confidence 556665555433221 12 1 2567789999999999997633 66666655 5799888863 22222 23344
Q ss_pred C----CCC-CCCCCCceeEEEEeec
Q 022505 274 N----PPF-TLPFTRRNEIALEVER 293 (296)
Q Consensus 274 d----pP~-tlp~~RrNEVwi~v~~ 293 (296)
. .|. ..+-.-.-||||+|+.
T Consensus 265 ~~~~~~~~~~~~~~~~~ei~iPi~~ 289 (289)
T PRK15121 265 YPAEDAKAGDRPINLRCEYLIPIRR 289 (289)
T ss_pred ecccCccccCCCceEEEEEEEEecC
Confidence 2 333 2211234499999874
No 13
>COG4978 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]
Probab=41.11 E-value=2.2e+02 Score=24.72 Aligned_cols=43 Identities=21% Similarity=0.271 Sum_probs=38.4
Q ss_pred CCeEEEEecCeEEEEEEeCCcCChHHHHHHHHHHHHHHhcCCCc
Q 022505 217 PSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQF 260 (296)
Q Consensus 217 ~~V~I~~~P~~~vaV~~FsG~~t~~~~~~~~~~L~~~L~~~g~~ 260 (296)
-.|.+.+++++.|+..++-|- ....+.+-..+|.+.|...|..
T Consensus 3 ~e~~~~~~~~~~v~~ir~~~~-~~~~~~~~~~el~~~~~~~~~~ 45 (153)
T COG4978 3 VEVVIKKLEEIKVVGIRFTGI-PERLIEQVYSELCNFLKSNGII 45 (153)
T ss_pred cccEEEeecceeEEEEEEecC-cHHHHHHHHHHHHHHHhhcCcc
Confidence 467899999999999999998 7888999999999999999953
No 14
>PF05924 SAMP: SAMP Motif; InterPro: IPR009224 This short region is found repeated in the mid region of the adenomatous polyposis proteins (APCs). This motif binds axin [].; GO: 0008013 beta-catenin binding, 0016055 Wnt receptor signaling pathway; PDB: 1EMU_B 2RQU_B.
Probab=35.42 E-value=24 Score=20.75 Aligned_cols=15 Identities=27% Similarity=0.392 Sum_probs=10.3
Q ss_pred HHHHHHhhhhccccc
Q 022505 72 DLATETAKYVFPKRF 86 (296)
Q Consensus 72 ~~~~~~~~~~~~~~~ 86 (296)
|++.+|+..|+|++.
T Consensus 4 eiL~~CI~sAmPk~~ 18 (20)
T PF05924_consen 4 EILQECIGSAMPKRR 18 (20)
T ss_dssp HHHHHHHHCTS----
T ss_pred HHHHHHHHHhccccc
Confidence 789999999999886
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=24.67 E-value=48 Score=29.55 Aligned_cols=45 Identities=18% Similarity=0.328 Sum_probs=26.9
Q ss_pred CCceEEEEEcCCCCCcCcchhhHHH-HHHHHhhccCCC-CCcccCCCcceEE
Q 022505 121 ESYFIAETMMPGRTGFDFNGASRSF-NVLAEYLFGKNT-KRETMEMTTPVIT 170 (296)
Q Consensus 121 ~~~~wasT~v~g~s~~~~~a~~~gF-~~L~~YI~G~N~-~~~kI~MTaPV~t 170 (296)
.+....+||+.| ++++..|| -++..++.-... .-..+.|+.|+.-
T Consensus 114 ~~~vv~stTi~G-----YEGtGRgF~lkf~~~L~~~~~~~~~~~~L~~PIR~ 160 (177)
T PF05127_consen 114 FPRVVFSTTIHG-----YEGTGRGFSLKFLKQLKKHRPRNWRELELSEPIRY 160 (177)
T ss_dssp SSEEEEEEEBSS-----TTBB-HHHHHHHHCT----ST-TEEEEE--S-SSS
T ss_pred CCEEEEEeeccc-----cccCCceeeeehhhhccccCCCccEEEEcCCCccC
Confidence 345567788877 36778999 889999976654 4578888888864
Done!