Query 030965
Match_columns 168
No_of_seqs 114 out of 472
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 07:13:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030965.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030965hhsearch_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 1.4E-44 3E-49 283.5 12.8 142 7-164 33-176 (176)
2 PRK10016 DNA gyrase inhibitor; 96.8 0.11 2.5E-06 39.2 14.3 130 11-166 24-155 (156)
3 PF06445 GyrI-like: GyrI-like 96.5 0.087 1.9E-06 38.0 11.2 127 13-164 28-155 (155)
4 COG3449 DNA gyrase inhibitor [ 95.0 0.13 2.9E-06 39.8 7.2 57 90-150 2-58 (154)
5 PRK10016 DNA gyrase inhibitor; 94.4 0.38 8.2E-06 36.3 8.5 68 90-163 2-71 (156)
6 COG3449 DNA gyrase inhibitor [ 92.8 3.2 7E-05 32.2 11.1 126 11-163 23-149 (154)
7 PF06445 GyrI-like: GyrI-like 92.3 0.55 1.2E-05 33.7 6.2 72 90-164 2-74 (155)
8 smart00871 AraC_E_bind Bacteri 88.5 7.2 0.00016 27.8 13.6 90 68-164 68-158 (158)
9 smart00871 AraC_E_bind Bacteri 84.3 5.9 0.00013 28.3 6.9 61 90-150 1-61 (158)
10 COG4978 Transcriptional regula 83.1 6.3 0.00014 30.4 6.9 128 7-164 22-152 (153)
11 COG3708 Uncharacterized protei 76.2 33 0.00072 26.4 11.1 71 89-166 84-157 (157)
12 COG4978 Transcriptional regula 71.7 44 0.00095 25.7 8.6 58 89-150 3-60 (153)
13 PRK15121 right oriC-binding tr 70.2 20 0.00044 29.6 6.9 69 92-165 215-289 (289)
14 PHA00159 endonuclease I 28.8 83 0.0018 24.1 3.5 47 120-166 21-69 (148)
15 PF02120 Flg_hook: Flagellar h 27.3 1.4E+02 0.003 19.6 4.2 42 90-131 28-69 (85)
16 PF11964 SpoIIAA-like: SpoIIAA 25.7 98 0.0021 21.1 3.3 31 101-131 2-32 (109)
17 cd00148 PROF Profilin binds ac 24.0 2.9E+02 0.0063 20.1 5.7 41 89-130 86-126 (127)
18 PF07157 DNA_circ_N: DNA circu 23.8 57 0.0012 23.1 1.7 40 91-131 39-78 (93)
19 COG5309 Exo-beta-1,3-glucanase 21.2 1.7E+02 0.0038 25.0 4.4 37 110-152 253-289 (305)
20 PRK09019 translation initiatio 21.2 3.3E+02 0.0072 19.8 5.8 45 87-131 29-76 (108)
21 PF10738 Lpp-LpqN: Probable li 20.3 2.7E+02 0.0059 21.8 5.1 61 66-126 28-96 (175)
22 PF09754 PAC2: PAC2 family; I 20.0 4E+02 0.0087 20.7 6.2 67 90-164 58-124 (219)
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=1.4e-44 Score=283.53 Aligned_cols=142 Identities=45% Similarity=0.732 Sum_probs=109.0
Q ss_pred CCCcch-hhHHHHHHHHhhccCCCCCcccCCCccEEEEeecCCCccccccccceeccccCCCeEEEEEEeecCCC-CCCC
Q 030965 7 GFDFNG-ASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLEDQDKWQMSFVMPSKYG-ANLP 84 (168)
Q Consensus 7 g~~~~~-~~~gF~~L~~YI~G~N~~~~ki~MT~PV~~~~~~~~~~~~~mt~pv~~~~~~~~~~~~msF~lP~~~~-~~~P 84 (168)
++.++. ...||++|++||+|+|+++.+|+||+||++++.+ |++. +|.+.++|||+||++|| ++||
T Consensus 33 ~~~~~~a~~~~f~~L~~Yi~G~N~~~~ki~mT~PV~~~~~~-------~~~~------~~~~~~t~~f~lP~~~~~~~~P 99 (176)
T PF04832_consen 33 GCSFEEASSSGFRRLFRYIFGKNSAGEKIAMTAPVLTQVIP-------MTAE------SCEKEYTMSFFLPSEYQAENPP 99 (176)
T ss_dssp CS-HHHHHHHHHHHHHHHHCT-CTT------BS-EEEEEEE-------TTTT------TCECEEEEEEE--HHHC-TS--
T ss_pred CCChhHHHHHHHHHHHHHHhcCCcccceeeccCCEEEEEEc-------CCCc------ccCCcEEEEEEcCcccccccCC
Confidence 344544 4689999999999999999999999999999843 3321 25789999999999999 8999
Q ss_pred CCCCCCeEEEeeCCcEEEEEEecCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCCCCCCCeeeEEEEee
Q 030965 85 LPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFTLPFTRRNEIALEVE 164 (168)
Q Consensus 85 ~P~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P~~~~~~R~NEV~i~v~ 164 (168)
+|+|++|+|+++|++++||++|+|+++++++.+++++|+++|+++|+. +.+.+++|+||+||+++++|||||||.|+
T Consensus 100 ~P~d~~V~i~~~p~~~~~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~---~~~~~~~a~Yd~P~~~~~~R~NEV~i~v~ 176 (176)
T PF04832_consen 100 KPTDPDVFIEEVPERTVYVRRFSGFATDEKIQEEAKKLRAALKKDGLK---DKGYYYVAGYDPPFTPPFNRRNEVWIPVK 176 (176)
T ss_dssp -BSSTTEEEEEC-SEEEEEEEECS--SHHHHHHHHHHHHHHCCCTTHH---CCCEEEEEESSSS-SSSSSSCEEEEEE--
T ss_pred CCCCCeEEEEEecCcEEEEEEECCcCCHHHHHHHHHHHHHHHHHcCCC---cCCCeEEEEcCCCCCCccCcceEEEEecC
Confidence 999999999999999999999999999999999999999999999963 67889999999998888999999999986
No 2
>PRK10016 DNA gyrase inhibitor; Provisional
Probab=96.80 E-value=0.11 Score=39.16 Aligned_cols=130 Identities=15% Similarity=0.130 Sum_probs=79.8
Q ss_pred chhhHHHHHHHHhhccCCCCCcccCCCccEEEEeecCCCccccccccceeccccCCCeEEEEEEeecCCCCCCCCCCCCC
Q 030965 11 NGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLEDQDKWQMSFVMPSKYGANLPLPKDPS 90 (168)
Q Consensus 11 ~~~~~gF~~L~~YI~G~N~~~~ki~MT~PV~~~~~~~~~~~~~mt~pv~~~~~~~~~~~~msF~lP~~~~~~~P~P~d~~ 90 (168)
+...++|.+|+.++..+|-. .+ +.+..... + |-.+.+. +-.+-++.-+|.... .| +.+..
T Consensus 24 ~~~~~~~~~L~~~~~~~~l~-----~~-~~~~i~~D-~--------p~~~~~~--~~R~d~~i~v~~~~~--~~-~~~~~ 83 (156)
T PRK10016 24 QTVKQGFEQLMMWVDSHNIV-----PK-EWVAVYYD-N--------PDEVPAE--KLRCDTVVTVPDDFV--LP-ENSEG 83 (156)
T ss_pred hHHHHHHHHHHHHHHHcCCC-----CC-cEEEEECC-C--------CCCCChH--HceeeEEEEeCCCcc--cC-CCCCC
Confidence 44567899999999665532 12 23333221 1 2111110 114788999997643 22 22357
Q ss_pred eEEEeeCCcEEEEEEecCcCChHHHHHHHHH-HHHHHhcCCCcceecCCcEEEEEeC-CCCCCCCCCeeeEEEEeecc
Q 030965 91 VRIKEVPKKVVAVVAFSGFVTDEDVKRRELK-LRDALKGDRQFRVKEGASVEVAQYN-PPFTLPFTRRNEIALEVERK 166 (168)
Q Consensus 91 V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~-L~~~L~~~g~~~~~~~~~~~~A~Yd-~P~~~~~~R~NEV~i~v~~~ 166 (168)
+.+..+|+.++||..+.|. -+.+.+.... +.+||..+|.. . .++ +.+-.|. .|... -.-.=||||+|+.+
T Consensus 84 ~~~~~ip~g~yAv~~~~G~--~~~l~~~~~~i~~~Wl~~sgy~-~-~~~-p~~E~Y~~~~~~~-~~~~tei~iPI~~~ 155 (156)
T PRK10016 84 VILTEIPGGQYAVAVARVV--DDDFAKPWYQFFNSLLQDSAYQ-M-APK-PCFEVYLNDGAED-GYWDIEMYVPVQKK 155 (156)
T ss_pred eEEEEECCCcEEEEEEECC--HHHHHHHHHHHHHHhchhcCCc-c-CCC-CCEEEeCCCCCCC-CcEEEEEEEEeEEC
Confidence 9999999999999999995 4456666666 77999999953 2 223 3444555 34433 23245999999853
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=96.47 E-value=0.087 Score=38.02 Aligned_cols=127 Identities=14% Similarity=0.130 Sum_probs=79.7
Q ss_pred hhHHHHHHHHhhccCCCCCcccCCCccEEEEeecCCCccccccccceeccccCCCeEEEEEEeecCCCCCCCCCCCCCeE
Q 030965 13 ASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLEDQDKWQMSFVMPSKYGANLPLPKDPSVR 92 (168)
Q Consensus 13 ~~~gF~~L~~YI~G~N~~~~ki~MT~PV~~~~~~~~~~~~~mt~pv~~~~~~~~~~~~msF~lP~~~~~~~P~P~d~~V~ 92 (168)
....+.+|..++.-.+... ...+.+......... . .+..-.+.+++.++... +...++.
T Consensus 28 i~~~~~~l~~~~~~~~~~~----~~~~~~~i~~~~~~~---------~--~~~~~~~~~~~~~~~~~------~~~~~~~ 86 (155)
T PF06445_consen 28 IPELWQRLMSWLKEIGLST----DPGPIIGIYYDNPNI---------T--DDEEFRYDIGVEVDEDV------PNPDGME 86 (155)
T ss_dssp HHHHHHHHHHHHHHHHHCC----SSSSEEEEEEECCTS---------S--TGCEEEEEEEEEECTTC------SGCTTSE
T ss_pred HHHHHHHHHHHHHHhhccc----CCCcceeEEeccccc---------c--CCcceEEEEEEEEcccc------cCCceEE
Confidence 3467888888874322111 455555544322100 0 00123455666665433 4467899
Q ss_pred EEeeCCcEEEEEEecCcCChHHHHHHHHHHHH-HHhcCCCcceecCCcEEEEEeCCCCCCCCCCeeeEEEEee
Q 030965 93 IKEVPKKVVAVVAFSGFVTDEDVKRRELKLRD-ALKGDRQFRVKEGASVEVAQYNPPFTLPFTRRNEIALEVE 164 (168)
Q Consensus 93 i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~-~L~~~g~~~~~~~~~~~~A~Yd~P~~~~~~R~NEV~i~v~ 164 (168)
...+|+.++++..|.|-. +.+.+....|.+ ||.++|+. ...+..+-..++.|....-.-.=||||+|+
T Consensus 87 ~~~ip~g~ya~~~~~G~~--~~l~~~~~~l~~~~l~~~g~~--~~~~~~~E~y~~~~~~~~~~~~~ei~iPik 155 (155)
T PF06445_consen 87 SRTIPAGKYAVFEHKGPY--DDLQEAYQKLYNEWLPESGYE--RRDGPDFEIYLNDPDTDEEEYVTEIYIPIK 155 (155)
T ss_dssp EEEEECEEEEEEEEESCG--HGHHHHHHHHHHCHHHHCTCE--EESSEEEEEEESSTTTTSCGEEEEEEEEEE
T ss_pred EEEEcCcEEEEEEEEccH--HHHHHHHHHHHhhhHHHCCCc--cCCCCcEEEECCCCCCCCCceEEEEEEEEC
Confidence 999999999999999976 777889999999 99999973 233433334444555333466679999985
No 4
>COG3449 DNA gyrase inhibitor [DNA replication, recombination, and repair]
Probab=94.98 E-value=0.13 Score=39.76 Aligned_cols=57 Identities=21% Similarity=0.150 Sum_probs=48.1
Q ss_pred CeEEEeeCCcEEEEEEecCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCC
Q 030965 90 SVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFT 150 (168)
Q Consensus 90 ~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P~~ 150 (168)
+|+|+++|+..||..+-.| ......+-.++|.+|..++|+.. ..+..+...||.|-.
T Consensus 2 dv~I~e~p~~~VA~~rh~G--~~~~~~~~~~~l~~W~~~~~l~p--~~S~~~gI~~ddP~~ 58 (154)
T COG3449 2 DVEIIELPPIPVAYLRHVG--DPATLKQTFEQLIAWRRENGLLP--EQSETLGIYQDDPDT 58 (154)
T ss_pred CceEEecCCceEEEEEeeC--cHHHHHHHHHHHHHHHHHcCCCC--CCceEEEEecCCCCC
Confidence 7999999999999999999 77888999999999999999852 335566677888874
No 5
>PRK10016 DNA gyrase inhibitor; Provisional
Probab=94.43 E-value=0.38 Score=36.30 Aligned_cols=68 Identities=18% Similarity=0.140 Sum_probs=50.8
Q ss_pred CeEEEeeCCcEEEEEEecCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCC--CCCCCCCeeeEEEEe
Q 030965 90 SVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPP--FTLPFTRRNEIALEV 163 (168)
Q Consensus 90 ~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P--~~~~~~R~NEV~i~v 163 (168)
+|.|+++|+..++.++..|...+ .+.+...+|.+++.++|+. .. .++...||.| ... -.-|=.|.|.+
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 58999999999999999997643 4678889999999999974 23 3778889999 544 23244444433
No 6
>COG3449 DNA gyrase inhibitor [DNA replication, recombination, and repair]
Probab=92.81 E-value=3.2 Score=32.17 Aligned_cols=126 Identities=15% Similarity=0.200 Sum_probs=78.6
Q ss_pred chhhHHHHHHHHhhccCCCCCcccCCCccEEEEeecCCCccccccccceeccccCCCeEEEEEEeecCCCCCCCCCCCCC
Q 030965 11 NGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLEDQDKWQMSFVMPSKYGANLPLPKDPS 90 (168)
Q Consensus 11 ~~~~~gF~~L~~YI~G~N~~~~ki~MT~PV~~~~~~~~~~~~~mt~pv~~~~~~~~~~~~msF~lP~~~~~~~P~P~d~~ 90 (168)
.--.++|.+|+.+-.-++-- +-+. ....+..++ |-.+.+ ..=.|-.|..+|... ++++..
T Consensus 23 ~~~~~~~~~l~~W~~~~~l~----p~~S-~~~gI~~dd--------P~~Tp~--e~~R~D~cv~v~~~~-----~~n~~~ 82 (154)
T COG3449 23 ATLKQTFEQLIAWRRENGLL----PEQS-ETLGIYQDD--------PDTTPA--EKCRYDACVVVPEPI-----PENSEG 82 (154)
T ss_pred HHHHHHHHHHHHHHHHcCCC----CCCc-eEEEEecCC--------CCCCCH--HHceeeEEEEcCCcc-----CCCCCc
Confidence 33467899999998655422 1122 223333332 211111 123678888888322 245788
Q ss_pred eEEEeeCCcEEEEEEecCcCChHHHHHH-HHHHHHHHhcCCCcceecCCcEEEEEeCCCCCCCCCCeeeEEEEe
Q 030965 91 VRIKEVPKKVVAVVAFSGFVTDEDVKRR-ELKLRDALKGDRQFRVKEGASVEVAQYNPPFTLPFTRRNEIALEV 163 (168)
Q Consensus 91 V~i~~~p~~~v~v~~F~G~~~~~~~~~~-~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P~~~~~~R~NEV~i~v 163 (168)
|.+-++|+..+||.+|.|. .+++.+- ..-+..||.+.|.. ..+.+.+.+|=+.... .-..|+.+.+
T Consensus 83 v~~~~i~GG~YAV~r~~~~--~d~~~~aw~~if~ewlp~Sg~~---~~d~P~~e~y~n~~~~--~~~~e~~vdi 149 (154)
T COG3449 83 VQLGEIPGGLYAVARFRGT--ADDLAKAWGYIFGEWLPASGYE---PRDRPILERYLNFPAE--DPEHEIEVDI 149 (154)
T ss_pred eeEeeecCCceEEEEEecc--HHHHHHHHHHHHhhhccccCcc---cCCCchHHHHhccCCC--CcceeEEEEE
Confidence 9999999999999999995 3444444 45566777788753 5667888888666665 4445555443
No 7
>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=92.31 E-value=0.55 Score=33.72 Aligned_cols=72 Identities=21% Similarity=0.133 Sum_probs=56.0
Q ss_pred CeEEEeeCCcEEEEEEecCcCChHH-HHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCCCCCCCeeeEEEEee
Q 030965 90 SVRIKEVPKKVVAVVAFSGFVTDED-VKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFTLPFTRRNEIALEVE 164 (168)
Q Consensus 90 ~V~i~~~p~~~v~v~~F~G~~~~~~-~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P~~~~~~R~NEV~i~v~ 164 (168)
+|+|+++|+.+++..+..|...+.. +.+..++|.++|...++. .....++...||.|... ......+++-+.
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 889999999999998753 13456777788888543 366666666544
No 8
>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=88.49 E-value=7.2 Score=27.81 Aligned_cols=90 Identities=13% Similarity=0.187 Sum_probs=57.7
Q ss_pred eEEEEEEeecCCCCCCCCCCCCCeEEEeeCCcEEEEEEecCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCC
Q 030965 68 KWQMSFVMPSKYGANLPLPKDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNP 147 (168)
Q Consensus 68 ~~~msF~lP~~~~~~~P~P~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~ 147 (168)
.+.+++.++.... ....+.+..+|+..+++..|.|- ..+.+.+...+|..++..+|.....+.+..+-..++.
T Consensus 68 ~~~~g~~v~~~~~------~~~~~~~~~~p~~~y~~~~~~g~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~E~y~~~ 140 (158)
T smart00871 68 RYDAGVEVSDEVE------NPEGVETKEIPAGKYAVFTHKGG-SYDEIQETWEAIYGEWLPNSGYELRDAGPDFEIYLND 140 (158)
T ss_pred EEEEEEEeCCCCC------CCCCceEEEECCCcEEEEEEcCC-CHHHHHHHHHHHHHhhcccCCCccCcCCceEEEEeCC
Confidence 4556666664321 13468899999999999999993 4667889999999999988854211123333333444
Q ss_pred CCC-CCCCCeeeEEEEee
Q 030965 148 PFT-LPFTRRNEIALEVE 164 (168)
Q Consensus 148 P~~-~~~~R~NEV~i~v~ 164 (168)
|.. .+-...=||+|+|+
T Consensus 141 ~~~~~~~~~~~ei~ipv~ 158 (158)
T smart00871 141 PADTDPEELVTEIYIPIK 158 (158)
T ss_pred CCCCChhHeEEEEEEEcC
Confidence 432 11234668888874
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=84.32 E-value=5.9 Score=28.25 Aligned_cols=61 Identities=21% Similarity=0.148 Sum_probs=44.8
Q ss_pred CeEEEeeCCcEEEEEEecCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCC
Q 030965 90 SVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFT 150 (168)
Q Consensus 90 ~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P~~ 150 (168)
.+.|..+|+.+++..++.|...+..+.+...+|.+++...+.......+..+...|+.|..
T Consensus 1 ~~~i~~~~~~~v~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (158)
T smart00871 1 EVRIVELPAFKVAGLRHRGPYEEEKIPELWQRLIAWAKELGLLPIGPSGPPYGVYYDDPDD 61 (158)
T ss_pred CCEEEEcCCceEEEEEeecCcccccHHHHHHHHHHHHHHcCCCCCCCCccEEEEECCCCCC
Confidence 3688999999999999999877556777788899998888753111123566777777764
No 10
>COG4978 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]
Probab=83.14 E-value=6.3 Score=30.36 Aligned_cols=128 Identities=17% Similarity=0.217 Sum_probs=74.4
Q ss_pred CCCcchhhHHHHHHHHhhccCCCCCcccCCCccEEEEeecCCCccccccccceeccccCCCeEEEEEEeecCCCCCCCCC
Q 030965 7 GFDFNGASRSFNVLAEYLFGKNTKRETMEMTTPVITRKTQSDGEKMEMTTPVISKKLEDQDKWQMSFVMPSKYGANLPLP 86 (168)
Q Consensus 7 g~~~~~~~~gF~~L~~YI~G~N~~~~ki~MT~PV~~~~~~~~~~~~~mt~pv~~~~~~~~~~~~msF~lP~~~~~~~P~P 86 (168)
|.+.......+..|..+..-++ +.---|+...+... ++.. .+-..-+++++-...+
T Consensus 22 ~~~~~~~~~~~~el~~~~~~~~-----~~~~~~~~~~~~~~---------~~~~----~~~~~~~s~~i~~~~~------ 77 (153)
T COG4978 22 GIPERLIEQVYSELCNFLKSNG-----IIPIGPYGATIFHE---------PLKE----EDVDIEVSIPISGEVE------ 77 (153)
T ss_pred cCcHHHHHHHHHHHHHHHhhcC-----ccccCCceEEEEee---------eecc----cccccceeEEEEEecC------
Confidence 3445555677888888885433 11112333333211 1100 0112345555443322
Q ss_pred CCCCeEEEeeCCcEEEEEEecCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEe-CCCCCC--CCCCeeeEEEEe
Q 030965 87 KDPSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQY-NPPFTL--PFTRRNEIALEV 163 (168)
Q Consensus 87 ~d~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Y-d~P~~~--~~~R~NEV~i~v 163 (168)
.|.++.+..+|..+++...|.|... .+.+.-++|..+++++|+. + .+. ....| .+|.+. +-.-.=||.+++
T Consensus 78 ~~~~~~~~~~P~g~~a~~~~~G~~~--~~~~~y~rli~~iee~g~~-i--~g~-~~E~y~~d~~~~~~~~e~~tei~i~v 151 (153)
T COG4978 78 GDIDIKIKTLPKGKYACIIHKGSYE--EVEQAYKRLIEYIEENGLE-I--IGP-SREVYLIDPATEVNPEEYLTEIQIPV 151 (153)
T ss_pred CCCcceeEEccCceEEEEEEEcCcc--cHHHHHHHHHHHHHHhCCc-c--cCc-eEEEEecCCccccChhHeEEEEEEEe
Confidence 7899999999999999999999654 4568899999999999973 2 232 33333 344421 124445677666
Q ss_pred e
Q 030965 164 E 164 (168)
Q Consensus 164 ~ 164 (168)
+
T Consensus 152 ~ 152 (153)
T COG4978 152 K 152 (153)
T ss_pred e
Confidence 4
No 11
>COG3708 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=76.24 E-value=33 Score=26.42 Aligned_cols=71 Identities=17% Similarity=0.282 Sum_probs=49.2
Q ss_pred CCeEEEeeCCcEEEEEEecCcCChHHHHHHHHHH-HHHHhcCCCcceecCCcEEEEEeCC--CCCCCCCCeeeEEEEeec
Q 030965 89 PSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKL-RDALKGDRQFRVKEGASVEVAQYNP--PFTLPFTRRNEIALEVER 165 (168)
Q Consensus 89 ~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L-~~~L~~~g~~~~~~~~~~~~A~Yd~--P~~~~~~R~NEV~i~v~~ 165 (168)
......++|+.+++|-...|...+ +.+.-..+ ..||...+... ..+ ..+-.||. |.. -+-.=||||+|+.
T Consensus 84 e~~~~i~iPa~~YavFt~~G~~~~--i~etw~~I~~~~~~~~~~~~--~~~-~~fE~Yd~~~~~~--~~~~veIyIpV~k 156 (157)
T COG3708 84 EGMEVIEIPASTYAVFTHKGPIEE--IQETWQEIWKEWFPSSGYRH--AEG-PEFEVYDERDPDS--GNGKVEIYIPVKK 156 (157)
T ss_pred CCceEEEeccceEEEEEecCCHHH--HHHHHHHHHHhhcccccccc--cCC-CceEEecCCCCCC--CCceEEEEEEEec
Confidence 346678899999999999997766 55554444 45567777532 223 36777875 333 3778999999975
Q ss_pred c
Q 030965 166 K 166 (168)
Q Consensus 166 ~ 166 (168)
+
T Consensus 157 k 157 (157)
T COG3708 157 K 157 (157)
T ss_pred C
Confidence 3
No 12
>COG4978 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]
Probab=71.67 E-value=44 Score=25.70 Aligned_cols=58 Identities=17% Similarity=0.249 Sum_probs=44.8
Q ss_pred CCeEEEeeCCcEEEEEEecCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCC
Q 030965 89 PSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFT 150 (168)
Q Consensus 89 ~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P~~ 150 (168)
-.|.+.++++..++.+++.|. .+..+.+-..+|.+.|...|.. ..+.+.+-.|.-|++
T Consensus 3 ~e~~~~~~~~~~v~~ir~~~~-~~~~~~~~~~el~~~~~~~~~~---~~~~~~~~~~~~~~~ 60 (153)
T COG4978 3 VEVVIKKLEEIKVVGIRFTGI-PERLIEQVYSELCNFLKSNGII---PIGPYGATIFHEPLK 60 (153)
T ss_pred cccEEEeecceeEEEEEEecC-cHHHHHHHHHHHHHHHhhcCcc---ccCCceEEEEeeeec
Confidence 468899999999999999998 8888999999999999999953 223344444444444
No 13
>PRK15121 right oriC-binding transcriptional activator; Provisional
Probab=70.19 E-value=20 Score=29.63 Aligned_cols=69 Identities=13% Similarity=0.180 Sum_probs=44.6
Q ss_pred EEEeeCCcEEEEEEecCcCChHHHHHHHHHH-HHHHhcCCCcceecCCcEEEEEeCC----CC-CCCCCCeeeEEEEeec
Q 030965 92 RIKEVPKKVVAVVAFSGFVTDEDVKRRELKL-RDALKGDRQFRVKEGASVEVAQYNP----PF-TLPFTRRNEIALEVER 165 (168)
Q Consensus 92 ~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L-~~~L~~~g~~~~~~~~~~~~A~Yd~----P~-~~~~~R~NEV~i~v~~ 165 (168)
....+|+.++||.+|.|-..+ +.+-...+ ..||-..|.. ..+.+-+-.|.. |. ..+-.-.=||||+|+.
T Consensus 215 ~~~~Ip~G~YAvF~~~G~~~~--l~~~~~~Iy~~WLP~sg~~---~~~~p~~e~y~~~~~~~~~~~~~~~~~ei~iPi~~ 289 (289)
T PRK15121 215 HPVMLQGGEYVMFTYEGLGTG--LQEFILTVYGTCMPMLNLT---RRKGQDIERYYPAEDAKAGDRPINLRCEYLIPIRR 289 (289)
T ss_pred ceEeeCCCCEEEEEEeCCHHH--HHHHHHHHHHHHCCCCCcc---ccCCCCEEEEecccCccccCCCceEEEEEEEEecC
Confidence 678889999999999997633 55555555 5799898863 223344555532 22 2211233499999863
No 14
>PHA00159 endonuclease I
Probab=28.84 E-value=83 Score=24.15 Aligned_cols=47 Identities=17% Similarity=0.040 Sum_probs=29.8
Q ss_pred HHHHHHHhcCCCcceecCCcEEEE--EeCCCCCCCCCCeeeEEEEeecc
Q 030965 120 LKLRDALKGDRQFRVKEGASVEVA--QYNPPFTLPFTRRNEIALEVERK 166 (168)
Q Consensus 120 ~~L~~~L~~~g~~~~~~~~~~~~A--~Yd~P~~~~~~R~NEV~i~v~~~ 166 (168)
++-.+.|+..|..--++...+.+. .=+..++|.|.+.|.|++++++.
T Consensus 21 ~k~ak~Le~~gv~~~yE~~ki~y~~pA~~~~YTPDF~LpnGiiiEvKG~ 69 (148)
T PHA00159 21 DKVSKQLEKKGVKFDYELWKIPYVIPASDHKYTPDFLLPNGIIIETKGL 69 (148)
T ss_pred HHHHHHHHhcCCCeEeeeeeeeeeccCCCCeeCCceecCCCCEEEeccc
Confidence 345677888885311232223332 23577888888999999998864
No 15
>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=27.27 E-value=1.4e+02 Score=19.61 Aligned_cols=42 Identities=12% Similarity=0.132 Sum_probs=27.7
Q ss_pred CeEEEeeCCcEEEEEEecCcCChHHHHHHHHHHHHHHhcCCC
Q 030965 90 SVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQ 131 (168)
Q Consensus 90 ~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~ 131 (168)
.|+|.-.....-.-+...---+...++++...|++.|.+.|+
T Consensus 28 ~v~l~~~~~~l~v~~~~~~~~~~~~L~~~~~~L~~~L~~~G~ 69 (85)
T PF02120_consen 28 EVKLRLQGGNLSVQFTAENPETKELLRQNLPELKERLQAQGL 69 (85)
T ss_dssp EEEEEEETTEEEEEEE--SSHHHHHHHHTHHHHHHHHHTTT-
T ss_pred EEEEEEeCCEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCC
Confidence 566666666333333333344666799999999999999996
No 16
>PF11964 SpoIIAA-like: SpoIIAA-like; InterPro: IPR021866 This family of proteins is functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 120 to 132 amino acids in length. This protein has a single completely conserved residue A that may be functionally important. ; PDB: 2Q3L_B 2OOK_A 3BL4_A.
Probab=25.72 E-value=98 Score=21.09 Aligned_cols=31 Identities=26% Similarity=0.322 Sum_probs=24.3
Q ss_pred EEEEEecCcCChHHHHHHHHHHHHHHhcCCC
Q 030965 101 VAVVAFSGFVTDEDVKRRELKLRDALKGDRQ 131 (168)
Q Consensus 101 v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~ 131 (168)
+.+..++|..+.+.+++-...+.+.++..|.
T Consensus 2 il~v~~~g~~t~ed~~~~~~~~~~~~~~~~~ 32 (109)
T PF11964_consen 2 ILAVRVSGKLTEEDYKELLPALEELIADHGK 32 (109)
T ss_dssp -EEEEEEEEE-HHHHHHHHHHHHHHHTTSSS
T ss_pred EEEEEEeeeeCHHHHHHHHHHHHHHHhcCCc
Confidence 3467888999999999988888888887774
No 17
>cd00148 PROF Profilin binds actin monomers, membrane polyphosphoinositides such as PI(4,5)P2, and poly-L-proline. Profilin can inhibit actin polymerization into F-actin by binding to monomeric actin (G-actin) and terminal F-actin subunits, but - as a regulator of the cytoskeleton - it may also promote actin polymerization. It plays a role in the assembly of branched actin filament networks, by activating WASP via binding to WASP's proline rich domain. Profilin may link the cytoskeleton with major signalling pathways by interacting with components of the phosphatidylinositol cycle and Ras pathway.
Probab=24.01 E-value=2.9e+02 Score=20.08 Aligned_cols=41 Identities=20% Similarity=0.202 Sum_probs=32.3
Q ss_pred CCeEEEeeCCcEEEEEEecCcCChHHHHHHHHHHHHHHhcCC
Q 030965 89 PSVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDR 130 (168)
Q Consensus 89 ~~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g 130 (168)
..|.+..- ...+.+-.|..-.........+.+|.++|.+.|
T Consensus 86 ~Gi~i~kT-~~~ivi~~y~e~~~~g~~~~~v~~ladYL~~~g 126 (127)
T cd00148 86 GGVVIVKT-KQALVIGMYEEGVQPGQANKVVEKLADYLRSQG 126 (127)
T ss_pred CeEEEEEC-CCEEEEEEcCCCCCHHHHHHHHHHHHHHHHHcC
Confidence 45666665 555555667777888899999999999999987
No 18
>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=23.81 E-value=57 Score=23.08 Aligned_cols=40 Identities=13% Similarity=0.219 Sum_probs=28.6
Q ss_pred eEEEeeCCcEEEEEEecCcCChHHHHHHHHHHHHHHhcCCC
Q 030965 91 VRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQ 131 (168)
Q Consensus 91 V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~ 131 (168)
..++++. .+.-..++.++....++..+..+|.++|++.|-
T Consensus 39 ~~vEDlG-~~~r~~~~~a~~~G~dy~~~~~~L~~al~~~G~ 78 (93)
T PF07157_consen 39 PWVEDLG-RKARRIRVTAFFVGDDYEAQRDALIAALEAPGP 78 (93)
T ss_pred cCeeecC-CCCcEEEEEEEEECCcHHHHHHHHHHHHcCCCC
Confidence 3445544 222335667777788999999999999999884
No 19
>COG5309 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]
Probab=21.25 E-value=1.7e+02 Score=24.99 Aligned_cols=37 Identities=8% Similarity=0.059 Sum_probs=28.5
Q ss_pred CChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCCCC
Q 030965 110 VTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFTLP 152 (168)
Q Consensus 110 ~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P~~~~ 152 (168)
++..+.....+++..+|++-|. +.|.+-.||.+|+.+
T Consensus 253 pS~anq~~~~~~i~~~~~~~G~------d~fvfeAFdd~WK~~ 289 (305)
T COG5309 253 PSVANQKIAVQEILNALRSCGY------DVFVFEAFDDDWKAD 289 (305)
T ss_pred CChhHHHHHHHHHHhhhhccCc------cEEEeeeccccccCc
Confidence 5556667778888888888884 357888999999974
No 20
>PRK09019 translation initiation factor Sui1; Validated
Probab=21.24 E-value=3.3e+02 Score=19.76 Aligned_cols=45 Identities=20% Similarity=0.246 Sum_probs=31.3
Q ss_pred CCCCeEEEeeCCcEE--EEEEecCcC-ChHHHHHHHHHHHHHHhcCCC
Q 030965 87 KDPSVRIKEVPKKVV--AVVAFSGFV-TDEDVKRRELKLRDALKGDRQ 131 (168)
Q Consensus 87 ~d~~V~i~~~p~~~v--~v~~F~G~~-~~~~~~~~~~~L~~~L~~~g~ 131 (168)
.+..|+|+.--..+- .|....|+. .+.++.+-++.|++.|.-.|-
T Consensus 29 ~~~~vri~~~r~gRkGK~VTiI~Gl~~~~~dlk~l~K~lKkk~gcGGt 76 (108)
T PRK09019 29 GDGIVRIQRQTSGRKGKGVCLITGLDLDDAELKKLAAELKKKCGCGGA 76 (108)
T ss_pred cCceEEEEEecCCCCCCeEEEEeCCcCCHHHHHHHHHHHHHHhcCCCe
Confidence 667888884433333 566677775 667788888888888887774
No 21
>PF10738 Lpp-LpqN: Probable lipoprotein LpqN; InterPro: IPR019674 This protein is conserved in Mycobacteriaceae and is likely to be a lipoprotein [].
Probab=20.33 E-value=2.7e+02 Score=21.79 Aligned_cols=61 Identities=18% Similarity=0.139 Sum_probs=40.6
Q ss_pred CCeEEEEEEeecCCCC-CCCCCCCCCeEE-------EeeCCcEEEEEEecCcCChHHHHHHHHHHHHHH
Q 030965 66 QDKWQMSFVMPSKYGA-NLPLPKDPSVRI-------KEVPKKVVAVVAFSGFVTDEDVKRRELKLRDAL 126 (168)
Q Consensus 66 ~~~~~msF~lP~~~~~-~~P~P~d~~V~i-------~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L 126 (168)
...-++++.+|..|+. ..|.|.+.-..| ...|-..+.|.+..|-....++.+++-.=.+.|
T Consensus 28 ~~~p~v~lP~P~GW~~~~~~~~~~a~~vi~~~~~~~~~~Pnavv~V~kL~G~~Dp~e~l~~a~~d~~~l 96 (175)
T PF10738_consen 28 PGAPTVSLPTPPGWEPAPDPNPPWAYAVIVDPQADGGFPPNAVVTVSKLTGDFDPAEALEHAPADAQNL 96 (175)
T ss_pred CCCCEEeccCCcCcccCCCCCCCceEEEEEeccccCCCCCceEEEEEeccCCCCHHHHHHhchhhHhhC
Confidence 3467899999999984 233332333334 235667888999999999888877764444444
No 22
>PF09754 PAC2: PAC2 family; InterPro: IPR019151 This PAC2 (Proteasome assembly chaperone) family of proteins is found in bacteria, archaea and eukaryotes. Proteins in this family are typically between 247 and 307 amino acids in length. These proteins function as a chaperone for the 26S proteasome, which is about 2000 kilodaltons (kDa) in molecular mass and contains one 20S core particle structure and two 19S regulatory caps. The 26S proteasome mediates ubiquitin-dependent proteolysis in eukaryotic cells. A number of studies including very recent ones have revealed that assembly of its 20S catalytic core particle is an ordered process that involves several conserved proteasome assembly chaperones (PACs). Two heterodimeric chaperones, PAC1-PAC2 and PAC3-PAC4, promote the assembly of rings composed of seven alpha subunits [, , , ].; PDB: 3MNF_A 2P90_B 3E35_A 3GAA_D 2WAM_C.
Probab=20.04 E-value=4e+02 Score=20.68 Aligned_cols=67 Identities=9% Similarity=-0.090 Sum_probs=41.3
Q ss_pred CeEEEeeCCcEEEEEEecCcCChHHHHHHHHHHHHHHhcCCCcceecCCcEEEEEeCCCCCCCCCCeeeEEEEee
Q 030965 90 SVRIKEVPKKVVAVVAFSGFVTDEDVKRRELKLRDALKGDRQFRVKEGASVEVAQYNPPFTLPFTRRNEIALEVE 164 (168)
Q Consensus 90 ~V~i~~~p~~~v~v~~F~G~~~~~~~~~~~~~L~~~L~~~g~~~~~~~~~~~~A~Yd~P~~~~~~R~NEV~i~v~ 164 (168)
.++|...+...+++..-.--.....+.+-+++|.+|+++.|.. .-+.+.+++..... .|+ .++....
T Consensus 58 ~~~iy~~~~~~i~vl~~~~p~~~~~~~~f~~~l~~~~~~~g~~-----~vi~l~g~~~~~~~--~~~-~~~~~~~ 124 (219)
T PF09754_consen 58 PLEIYYSEDSKILVLQGRSPIPPGRWYEFAEELLDWIKSFGVK-----EVIVLGGLPAMEPH--ERP-PVYRVAT 124 (219)
T ss_dssp SEEEEEEECTTEEEEEESSE--SCGHHHHHHHHHHHHHHTTEC-----EEEEEEEEEESS-T--TS--EEEEEES
T ss_pred ceEEEEECCCCEEEEEecCCCCchHHHHHHHHHHHHHHHcCCC-----EEEEEeCCcCCCCc--ccc-ceEEEEc
Confidence 3445554444455444444566677889999999999999842 24667888777664 555 6666554
Done!